Query psy9352
Match_columns 146
No_of_seqs 150 out of 1017
Neff 8.3
Searched_HMMs 46136
Date Fri Aug 16 16:57:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9352.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9352hhsearch_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 4.2E-40 9.1E-45 237.2 14.2 132 8-145 1-132 (165)
2 TIGR02765 crypto_DASH cryptoch 100.0 7.3E-36 1.6E-40 243.3 16.9 135 6-146 1-141 (429)
3 TIGR03556 photolyase_8HDF deox 100.0 4.9E-35 1.1E-39 240.9 17.4 134 7-146 2-135 (471)
4 TIGR02766 crypt_chrom_pln cryp 100.0 2.4E-34 5.2E-39 237.1 15.6 131 9-146 1-132 (475)
5 TIGR00591 phr2 photolyase PhrI 100.0 7E-34 1.5E-38 233.2 16.5 134 6-145 23-156 (454)
6 PRK10674 deoxyribodipyrimidine 100.0 2.9E-33 6.3E-38 230.5 16.8 132 7-146 3-139 (472)
7 COG0415 PhrB Deoxyribodipyrimi 100.0 9.9E-32 2.1E-36 218.2 15.9 133 6-145 2-134 (461)
8 KOG0133|consensus 99.9 3.1E-27 6.6E-32 194.0 9.6 134 6-145 5-138 (531)
9 PF04244 DPRP: Deoxyribodipyri 97.8 0.00056 1.2E-08 51.7 10.9 119 9-140 1-127 (224)
10 PRK09982 universal stress prot 96.8 0.067 1.4E-06 37.0 11.9 113 20-136 16-137 (142)
11 PRK10116 universal stress prot 96.4 0.15 3.4E-06 34.7 11.7 117 18-137 14-138 (142)
12 TIGR00289 conserved hypothetic 96.3 0.061 1.3E-06 40.7 9.4 98 21-135 14-116 (222)
13 cd01994 Alpha_ANH_like_IV This 96.0 0.1 2.2E-06 38.5 9.6 97 22-135 14-119 (194)
14 cd00293 USP_Like Usp: Universa 95.9 0.19 4E-06 32.9 9.8 112 21-134 13-128 (130)
15 cd01989 STK_N The N-terminal d 95.9 0.32 7E-06 33.3 11.7 90 19-110 11-112 (146)
16 cd01988 Na_H_Antiporter_C The 95.8 0.31 6.6E-06 32.5 10.7 89 21-111 13-104 (132)
17 TIGR00290 MJ0570_dom MJ0570-re 95.8 0.18 3.8E-06 38.2 10.2 97 21-134 14-115 (223)
18 PRK12652 putative monovalent c 95.8 0.17 3.6E-06 41.0 10.6 113 21-135 19-148 (357)
19 PRK15005 universal stress prot 95.6 0.23 5.1E-06 33.8 9.4 87 22-110 19-116 (144)
20 COG3046 Uncharacterized protei 95.2 0.41 8.9E-06 39.5 10.8 127 7-145 3-133 (505)
21 PRK15456 universal stress prot 94.7 0.43 9.3E-06 32.7 8.6 87 21-110 18-114 (142)
22 COG2102 Predicted ATPases of P 94.5 0.66 1.4E-05 35.1 9.6 99 21-135 14-117 (223)
23 PF01902 ATP_bind_4: ATP-bindi 94.2 0.13 2.9E-06 38.7 5.5 95 22-135 15-116 (218)
24 TIGR03679 arCOG00187 arCOG0018 93.6 1.4 3.1E-05 33.0 10.1 97 22-135 12-117 (218)
25 cd01987 USP_OKCHK USP domain i 93.2 1.6 3.5E-05 28.8 9.0 82 20-110 12-94 (124)
26 PRK10490 sensor protein KdpD; 92.7 1.8 3.9E-05 39.1 11.0 111 19-138 261-374 (895)
27 PF10087 DUF2325: Uncharacteri 92.5 1.2 2.6E-05 28.9 7.3 69 68-140 12-85 (97)
28 PF00582 Usp: Universal stress 92.2 2.2 4.8E-05 27.8 8.9 57 80-136 81-139 (140)
29 COG0560 SerB Phosphoserine pho 91.9 0.92 2E-05 33.9 7.0 66 67-132 81-159 (212)
30 TIGR01490 HAD-SF-IB-hyp1 HAD-s 91.7 1.7 3.7E-05 31.4 8.2 69 64-132 88-170 (202)
31 COG1139 Uncharacterized conser 91.7 0.88 1.9E-05 37.7 7.0 67 67-137 66-134 (459)
32 PRK15118 universal stress glob 91.3 3.3 7.2E-05 28.1 12.0 115 19-137 15-138 (144)
33 COG2217 ZntA Cation transport 90.8 1.2 2.7E-05 39.2 7.6 61 69-134 543-603 (713)
34 PRK11175 universal stress prot 90.0 4.5 9.7E-05 31.2 9.5 114 22-137 174-299 (305)
35 PRK14719 bifunctional RNAse/5- 89.1 1.6 3.4E-05 35.4 6.5 62 73-134 36-99 (360)
36 PRK14010 potassium-transportin 88.5 4.4 9.5E-05 35.7 9.1 60 66-130 444-503 (673)
37 PF13167 GTP-bdg_N: GTP-bindin 88.3 4.3 9.4E-05 26.6 7.0 62 65-133 7-83 (95)
38 PRK01122 potassium-transportin 88.0 4.9 0.00011 35.4 9.2 60 66-130 448-507 (679)
39 TIGR01088 aroQ 3-dehydroquinat 87.5 5.5 0.00012 28.0 7.5 67 75-145 37-106 (141)
40 PF00702 Hydrolase: haloacid d 87.3 2.8 6.1E-05 30.2 6.4 39 66-104 130-168 (215)
41 TIGR01497 kdpB K+-transporting 87.1 6.9 0.00015 34.5 9.5 64 66-134 449-512 (675)
42 cd06294 PBP1_ycjW_transcriptio 85.1 9.8 0.00021 28.2 8.6 72 62-139 17-92 (270)
43 PF13419 HAD_2: Haloacid dehal 85.1 3.4 7.3E-05 28.3 5.7 72 67-139 81-159 (176)
44 PRK11175 universal stress prot 85.0 15 0.00034 28.1 11.3 121 15-138 11-146 (305)
45 cd06279 PBP1_LacI_like_3 Ligan 85.0 12 0.00027 28.2 9.2 72 62-139 17-88 (283)
46 TIGR00338 serB phosphoserine p 84.7 5 0.00011 29.3 6.7 44 65-108 87-130 (219)
47 TIGR00273 iron-sulfur cluster- 83.5 4.6 0.0001 33.6 6.6 69 64-136 49-119 (432)
48 PRK10517 magnesium-transportin 83.2 12 0.00026 34.1 9.5 39 65-103 552-590 (902)
49 PF05368 NmrA: NmrA-like famil 83.2 7.8 0.00017 28.6 7.2 61 72-136 37-100 (233)
50 TIGR01488 HAD-SF-IB Haloacid D 82.8 2.1 4.5E-05 30.1 3.8 43 66-108 76-118 (177)
51 PRK09484 3-deoxy-D-manno-octul 82.7 5.7 0.00012 28.7 6.1 56 66-131 55-110 (183)
52 TIGR01428 HAD_type_II 2-haloal 82.5 5.8 0.00013 28.5 6.2 66 66-132 95-164 (198)
53 PRK15122 magnesium-transportin 82.2 13 0.00027 33.9 9.3 63 66-133 553-640 (903)
54 PF08218 Citrate_ly_lig: Citra 82.1 9.5 0.00021 28.0 6.9 96 40-137 28-144 (182)
55 COG2179 Predicted hydrolase of 81.9 8.7 0.00019 28.0 6.6 54 73-132 56-109 (175)
56 TIGR01491 HAD-SF-IB-PSPlk HAD- 81.8 4 8.7E-05 29.2 5.1 43 66-108 83-125 (201)
57 PF13727 CoA_binding_3: CoA-bi 81.7 4.4 9.5E-05 28.2 5.1 44 91-136 131-174 (175)
58 PRK09590 celB cellobiose phosp 81.4 13 0.00028 24.6 8.4 68 62-137 15-82 (104)
59 TIGR01512 ATPase-IB2_Cd heavy 81.1 9.5 0.00021 32.4 7.8 69 64-137 363-432 (536)
60 PF12710 HAD: haloacid dehalog 81.1 5.4 0.00012 28.2 5.5 41 70-110 96-138 (192)
61 cd06277 PBP1_LacI_like_1 Ligan 80.6 21 0.00045 26.5 9.2 71 62-139 15-89 (268)
62 TIGR01525 ATPase-IB_hvy heavy 80.6 16 0.00035 31.1 9.0 45 64-108 385-430 (556)
63 cd01427 HAD_like Haloacid deha 80.5 8.2 0.00018 25.0 5.9 49 63-111 24-76 (139)
64 TIGR01670 YrbI-phosphatas 3-de 80.4 10 0.00022 26.5 6.7 55 71-131 36-90 (154)
65 TIGR01524 ATPase-IIIB_Mg magne 80.3 19 0.00041 32.6 9.7 38 66-103 518-555 (867)
66 cd06297 PBP1_LacI_like_12 Liga 79.9 23 0.00049 26.5 9.3 71 62-138 12-86 (269)
67 TIGR01647 ATPase-IIIA_H plasma 79.8 16 0.00034 32.6 8.9 39 66-104 445-483 (755)
68 KOG0207|consensus 79.5 10 0.00023 34.4 7.6 54 72-129 732-785 (951)
69 PF06574 FAD_syn: FAD syntheta 79.4 1.9 4.2E-05 30.7 2.6 98 40-139 38-146 (157)
70 cd06287 PBP1_LacI_like_8 Ligan 79.3 13 0.00029 28.0 7.4 73 57-138 15-87 (269)
71 TIGR03674 fen_arch flap struct 79.0 9.2 0.0002 30.7 6.7 40 68-107 132-171 (338)
72 PRK05265 pyridoxine 5'-phospha 78.5 28 0.00061 26.7 8.8 73 65-138 112-192 (239)
73 TIGR01454 AHBA_synth_RP 3-amin 78.0 6.8 0.00015 28.4 5.3 65 66-131 78-146 (205)
74 TIGR02199 rfaE_dom_II rfaE bif 77.9 18 0.00039 25.2 7.2 98 24-138 31-129 (144)
75 TIGR01544 HAD-SF-IE haloacid d 77.7 5.7 0.00012 31.1 5.0 43 66-108 124-170 (277)
76 cd06313 PBP1_ABC_sugar_binding 77.4 28 0.0006 26.1 9.7 73 62-139 12-89 (272)
77 PLN02770 haloacid dehalogenase 77.2 15 0.00032 27.8 7.1 45 67-111 112-160 (248)
78 cd06271 PBP1_AglR_RafR_like Li 76.6 27 0.00059 25.6 8.5 71 62-138 16-90 (268)
79 COG1778 Low specificity phosph 76.3 19 0.00042 26.0 6.9 54 74-133 46-99 (170)
80 cd06305 PBP1_methylthioribose_ 76.1 29 0.00063 25.7 9.0 72 63-139 13-89 (273)
81 PRK10826 2-deoxyglucose-6-phos 76.0 5.1 0.00011 29.5 4.2 64 67-131 96-163 (222)
82 COG2205 KdpD Osmosensitive K+ 75.8 63 0.0014 29.4 13.0 111 20-139 260-375 (890)
83 PRK14988 GMP/IMP nucleotidase; 75.8 11 0.00025 27.9 6.1 48 65-112 95-146 (224)
84 KOG1615|consensus 75.4 4.9 0.00011 30.1 3.8 43 67-109 92-136 (227)
85 cd01540 PBP1_arabinose_binding 75.2 32 0.0007 25.8 9.4 72 62-138 12-87 (289)
86 PRK11133 serB phosphoserine ph 75.0 19 0.00041 28.7 7.4 66 67-132 185-263 (322)
87 cd06295 PBP1_CelR Ligand bindi 74.2 33 0.00072 25.5 9.8 71 62-138 23-95 (275)
88 PRK05395 3-dehydroquinate dehy 74.0 29 0.00062 24.6 9.3 67 75-145 39-108 (146)
89 PF02571 CbiJ: Precorrin-6x re 73.9 28 0.0006 26.7 7.8 57 80-138 43-101 (249)
90 PRK13015 3-dehydroquinate dehy 73.8 29 0.00063 24.6 9.2 68 74-145 38-108 (146)
91 cd05565 PTS_IIB_lactose PTS_II 73.8 23 0.00049 23.3 7.4 67 61-137 13-79 (99)
92 PRK10671 copA copper exporting 73.6 33 0.00071 30.9 9.3 64 70-138 657-720 (834)
93 PRK13223 phosphoglycolate phos 73.5 12 0.00026 28.8 5.9 66 65-131 103-172 (272)
94 cd06273 PBP1_GntR_like_1 This 73.4 34 0.00074 25.2 9.4 70 62-138 12-86 (268)
95 TIGR02137 HSK-PSP phosphoserin 73.2 14 0.00029 27.3 5.8 43 65-108 70-112 (203)
96 COG1362 LAP4 Aspartyl aminopep 72.9 36 0.00077 28.4 8.5 98 40-139 262-379 (437)
97 TIGR01522 ATPase-IIA2_Ca golgi 72.9 37 0.00081 30.8 9.5 38 66-103 531-568 (884)
98 cd04185 GT_2_like_b Subfamily 72.7 31 0.00066 24.4 7.5 41 61-102 9-49 (202)
99 PF01220 DHquinase_II: Dehydro 72.3 31 0.00067 24.3 8.3 75 67-145 26-107 (140)
100 TIGR03351 PhnX-like phosphonat 72.3 18 0.00039 26.3 6.3 67 64-131 88-160 (220)
101 TIGR01545 YfhB_g-proteo haloac 72.1 15 0.00032 27.2 5.8 43 67-109 99-144 (210)
102 PF07476 MAAL_C: Methylasparta 71.9 40 0.00088 25.8 8.0 86 42-135 106-194 (248)
103 TIGR01517 ATPase-IIB_Ca plasma 71.8 40 0.00087 30.9 9.5 38 66-103 582-619 (941)
104 cd01542 PBP1_TreR_like Ligand- 71.3 38 0.00082 24.8 9.4 70 62-138 12-86 (259)
105 cd00466 DHQase_II Dehydroquina 71.2 33 0.00072 24.1 9.1 69 73-145 35-106 (140)
106 COG0656 ARA1 Aldo/keto reducta 70.9 41 0.00089 26.4 8.2 43 93-137 148-190 (280)
107 PLN02954 phosphoserine phospha 70.9 8.5 0.00018 28.2 4.3 45 64-108 85-131 (224)
108 cd06272 PBP1_hexuronate_repres 70.7 40 0.00086 24.8 9.6 72 62-139 12-83 (261)
109 TIGR00067 glut_race glutamate 70.6 40 0.00088 25.7 8.1 62 42-106 26-90 (251)
110 cd00003 PNPsynthase Pyridoxine 70.6 46 0.00099 25.5 8.7 42 65-107 109-150 (234)
111 TIGR02726 phenyl_P_delta pheny 70.6 28 0.00061 25.0 6.8 51 75-131 46-96 (169)
112 PF11987 IF-2: Translation-ini 70.5 16 0.00036 24.3 5.2 65 66-137 27-97 (108)
113 TIGR01489 DKMTPPase-SF 2,3-dik 70.4 27 0.00058 24.4 6.8 42 67-108 76-121 (188)
114 PRK11590 hypothetical protein; 70.2 18 0.00038 26.6 5.9 42 68-109 101-145 (211)
115 PRK13222 phosphoglycolate phos 70.1 23 0.00051 25.7 6.5 37 66-102 96-132 (226)
116 TIGR01449 PGP_bact 2-phosphogl 69.7 16 0.00035 26.3 5.6 44 67-110 89-136 (213)
117 cd01545 PBP1_SalR Ligand-bindi 69.6 42 0.00091 24.7 9.1 73 62-139 12-89 (270)
118 TIGR03333 salvage_mtnX 2-hydro 69.4 12 0.00025 27.6 4.8 45 64-108 71-116 (214)
119 PF13911 AhpC-TSA_2: AhpC/TSA 69.2 17 0.00037 23.9 5.1 41 68-110 2-45 (115)
120 PF07085 DRTGG: DRTGG domain; 69.1 19 0.00041 23.4 5.3 63 69-139 32-94 (105)
121 cd06267 PBP1_LacI_sugar_bindin 69.1 41 0.00089 24.3 9.1 71 62-139 12-87 (264)
122 PF00535 Glycos_transf_2: Glyc 68.9 31 0.00067 22.9 6.7 81 61-145 10-94 (169)
123 TIGR00559 pdxJ pyridoxine 5'-p 68.8 51 0.0011 25.3 8.6 42 65-107 109-150 (237)
124 TIGR01509 HAD-SF-IA-v3 haloaci 68.6 22 0.00049 24.7 6.0 64 66-131 88-155 (183)
125 TIGR01511 ATPase-IB1_Cu copper 68.5 43 0.00093 28.7 8.6 42 65-107 407-448 (562)
126 TIGR00268 conserved hypothetic 68.5 50 0.0011 25.1 9.2 70 68-139 2-74 (252)
127 COG1609 PurR Transcriptional r 67.9 59 0.0013 25.7 9.4 72 62-139 71-146 (333)
128 cd01538 PBP1_ABC_xylose_bindin 67.6 51 0.0011 24.9 9.4 72 62-138 12-88 (288)
129 cd06300 PBP1_ABC_sugar_binding 67.5 48 0.001 24.5 9.2 72 62-138 12-93 (272)
130 TIGR01422 phosphonatase phosph 67.0 18 0.0004 27.1 5.5 65 66-131 102-171 (253)
131 TIGR00853 pts-lac PTS system, 66.9 32 0.00068 22.2 8.3 66 62-137 17-82 (95)
132 TIGR02990 ectoine_eutA ectoine 66.3 24 0.00053 26.9 6.0 48 88-138 106-153 (239)
133 PRK10355 xylF D-xylose transpo 66.3 62 0.0013 25.4 9.4 72 62-138 38-114 (330)
134 TIGR02253 CTE7 HAD superfamily 66.1 21 0.00045 25.9 5.6 64 67-131 98-165 (221)
135 COG1751 Uncharacterized conser 65.9 34 0.00074 24.7 6.2 69 66-135 14-88 (186)
136 cd06309 PBP1_YtfQ_like Peripla 65.8 53 0.0011 24.4 8.4 73 62-139 12-89 (273)
137 PRK13288 pyrophosphatase PpaX; 65.8 18 0.00039 26.3 5.2 38 67-104 86-123 (214)
138 COG1358 RPL8A Ribosomal protei 65.5 36 0.00079 23.1 6.1 43 94-138 36-78 (116)
139 PLN02347 GMP synthetase 65.2 66 0.0014 27.7 8.9 77 62-139 213-293 (536)
140 COG0546 Gph Predicted phosphat 65.1 36 0.00077 25.1 6.7 67 65-132 91-161 (220)
141 cd06296 PBP1_CatR_like Ligand- 65.0 53 0.0012 24.2 9.1 71 62-139 12-87 (270)
142 PLN03243 haloacid dehalogenase 64.6 23 0.00051 27.1 5.7 46 66-111 112-161 (260)
143 cd06320 PBP1_allose_binding Pe 64.5 56 0.0012 24.2 9.8 72 62-138 12-90 (275)
144 PF10111 Glyco_tranf_2_2: Glyc 64.5 50 0.0011 25.3 7.6 75 68-145 23-104 (281)
145 PRK09456 ?-D-glucose-1-phospha 64.4 31 0.00066 24.9 6.1 66 65-131 86-156 (199)
146 COG1412 Uncharacterized protei 64.3 35 0.00075 23.9 6.0 47 86-142 83-129 (136)
147 PF08444 Gly_acyl_tr_C: Aralky 64.0 15 0.00033 23.8 3.8 46 59-104 32-77 (89)
148 TIGR02634 xylF D-xylose ABC tr 63.9 64 0.0014 24.7 10.3 74 61-139 10-88 (302)
149 PF00578 AhpC-TSA: AhpC/TSA fa 63.9 24 0.00051 22.9 5.0 41 63-103 43-83 (124)
150 PF08765 Mor: Mor transcriptio 63.9 35 0.00075 22.5 5.8 66 61-126 4-70 (108)
151 PTZ00222 60S ribosomal protein 63.6 36 0.00078 26.5 6.4 54 81-138 130-183 (263)
152 PF13407 Peripla_BP_4: Peripla 63.3 57 0.0012 23.9 9.2 72 63-139 12-89 (257)
153 cd06322 PBP1_ABC_sugar_binding 63.2 58 0.0013 24.0 9.6 72 62-138 12-88 (267)
154 cd06301 PBP1_rhizopine_binding 63.2 59 0.0013 24.0 9.6 73 62-139 12-90 (272)
155 PRK08238 hypothetical protein; 62.9 50 0.0011 27.9 7.7 46 66-111 75-121 (479)
156 cd01541 PBP1_AraR Ligand-bindi 62.6 61 0.0013 24.0 9.2 75 62-138 12-91 (273)
157 COG4087 Soluble P-type ATPase 62.4 50 0.0011 23.3 6.4 69 64-136 31-99 (152)
158 PF01053 Cys_Met_Meta_PP: Cys/ 62.4 19 0.00041 29.5 5.1 66 68-134 108-175 (386)
159 COG0220 Predicted S-adenosylme 62.2 16 0.00036 27.6 4.4 46 66-111 83-129 (227)
160 TIGR01681 HAD-SF-IIIC HAD-supe 61.8 30 0.00064 23.3 5.3 39 63-101 29-68 (128)
161 cd06312 PBP1_ABC_sugar_binding 61.5 64 0.0014 23.9 9.5 73 62-139 13-91 (271)
162 PF02630 SCO1-SenC: SCO1/SenC; 61.5 57 0.0012 23.3 10.2 65 63-135 70-140 (174)
163 PF04900 Fcf1: Fcf1; InterPro 60.9 36 0.00078 22.0 5.4 46 87-142 51-97 (101)
164 TIGR01662 HAD-SF-IIIA HAD-supe 60.4 39 0.00084 22.5 5.7 41 63-103 25-73 (132)
165 COG1167 ARO8 Transcriptional r 60.4 56 0.0012 27.2 7.6 64 73-136 194-266 (459)
166 TIGR01501 MthylAspMutase methy 60.3 55 0.0012 22.7 8.5 73 71-144 21-96 (134)
167 cd00008 53EXOc 5'-3' exonuclea 60.2 73 0.0016 24.1 8.1 73 40-112 51-135 (240)
168 TIGR02463 MPGP_rel mannosyl-3- 60.2 30 0.00066 25.2 5.5 29 75-103 28-56 (221)
169 PRK10530 pyridoxal phosphate ( 59.8 71 0.0015 23.9 9.4 66 74-139 31-110 (272)
170 cd03017 PRX_BCP Peroxiredoxin 59.6 47 0.001 22.1 6.1 43 65-107 43-85 (140)
171 PF02142 MGS: MGS-like domain 59.6 35 0.00077 21.7 5.1 42 93-134 52-94 (95)
172 PF00532 Peripla_BP_1: Peripla 59.5 78 0.0017 24.2 9.0 72 62-139 14-88 (279)
173 TIGR00365 monothiol glutaredox 59.2 32 0.00069 22.2 4.9 48 91-141 31-78 (97)
174 PRK00865 glutamate racemase; P 59.2 79 0.0017 24.2 8.0 59 41-102 32-92 (261)
175 PRK03669 mannosyl-3-phosphogly 59.1 36 0.00078 25.9 5.9 31 73-103 34-64 (271)
176 PRK08057 cobalt-precorrin-6x r 59.1 59 0.0013 25.0 7.0 55 81-137 43-99 (248)
177 PRK09552 mtnX 2-hydroxy-3-keto 58.9 21 0.00046 26.2 4.5 44 65-108 76-120 (219)
178 cd01537 PBP1_Repressors_Sugar_ 58.8 66 0.0014 23.2 9.2 72 62-139 12-88 (264)
179 TIGR03023 WcaJ_sugtrans Undeca 58.4 37 0.00081 28.0 6.3 46 91-138 181-226 (451)
180 PRK11033 zntA zinc/cadmium/mer 58.3 71 0.0015 28.5 8.2 55 66-125 571-625 (741)
181 TIGR02252 DREG-2 REG-2-like, H 57.9 43 0.00094 23.9 5.9 65 65-131 107-175 (203)
182 PRK13602 putative ribosomal pr 57.9 45 0.00097 21.0 5.8 39 97-138 23-61 (82)
183 TIGR00884 guaA_Cterm GMP synth 57.7 94 0.002 24.6 9.2 74 63-139 2-80 (311)
184 TIGR01261 hisB_Nterm histidino 57.6 36 0.00078 24.1 5.3 41 63-103 29-84 (161)
185 KOG1014|consensus 57.4 59 0.0013 26.0 6.8 64 69-133 63-129 (312)
186 PRK10124 putative UDP-glucose 57.2 41 0.00089 28.1 6.3 48 91-140 193-240 (463)
187 PLN02781 Probable caffeoyl-CoA 57.2 67 0.0015 24.1 7.0 63 68-131 106-173 (234)
188 cd06310 PBP1_ABC_sugar_binding 56.8 77 0.0017 23.4 9.8 72 62-138 12-90 (273)
189 cd03018 PRX_AhpE_like Peroxire 56.7 53 0.0012 22.1 6.0 45 64-108 47-91 (149)
190 TIGR01664 DNA-3'-Pase DNA 3'-p 56.6 27 0.00059 24.8 4.6 47 57-103 36-94 (166)
191 TIGR01668 YqeG_hyp_ppase HAD s 56.6 62 0.0013 22.9 6.4 40 65-104 45-85 (170)
192 TIGR03025 EPS_sugtrans exopoly 56.6 40 0.00086 27.8 6.1 46 91-138 178-223 (445)
193 TIGR01370 cysRS possible cyste 56.6 65 0.0014 25.7 7.0 75 63-137 188-271 (315)
194 cd06278 PBP1_LacI_like_2 Ligan 56.3 77 0.0017 23.1 9.4 70 63-139 13-86 (266)
195 cd06324 PBP1_ABC_sugar_binding 56.2 89 0.0019 23.9 9.4 72 62-139 13-91 (305)
196 PRK06683 hypothetical protein; 56.2 49 0.0011 20.8 5.8 38 98-138 24-61 (82)
197 cd06323 PBP1_ribose_binding Pe 56.1 78 0.0017 23.1 9.3 72 62-138 12-88 (268)
198 COG2873 MET17 O-acetylhomoseri 56.0 42 0.0009 27.8 5.9 66 69-135 116-182 (426)
199 cd05855 Ig_TrkB_d5 Fifth domai 55.9 5.5 0.00012 24.9 0.7 20 3-22 9-28 (79)
200 PLN02940 riboflavin kinase 55.8 41 0.0009 27.3 6.0 65 66-131 96-165 (382)
201 TIGR01548 HAD-SF-IA-hyp1 haloa 55.5 74 0.0016 22.7 7.7 62 69-132 112-177 (197)
202 PRK08384 thiamine biosynthesis 55.2 1.2E+02 0.0025 25.0 9.3 53 60-112 20-82 (381)
203 PLN02575 haloacid dehalogenase 55.1 44 0.00096 27.4 6.0 46 66-111 219-268 (381)
204 cd01018 ZntC Metal binding pro 54.5 88 0.0019 23.9 7.4 41 68-108 206-247 (266)
205 COG0589 UspA Universal stress 54.5 60 0.0013 21.4 10.4 100 37-137 34-151 (154)
206 TIGR00099 Cof-subfamily Cof su 54.5 89 0.0019 23.3 9.6 70 73-142 26-108 (256)
207 PRK15126 thiamin pyrimidine py 54.0 94 0.002 23.5 9.5 69 74-142 30-111 (272)
208 PRK13225 phosphoglycolate phos 53.9 48 0.0011 25.6 5.9 38 66-103 145-182 (273)
209 cd01539 PBP1_GGBP Periplasmic 53.9 98 0.0021 23.6 9.4 73 62-139 12-91 (303)
210 PRK08335 translation initiatio 53.8 75 0.0016 24.9 6.9 68 71-140 152-221 (275)
211 cd06299 PBP1_LacI_like_13 Liga 53.7 86 0.0019 23.0 9.4 71 63-139 13-87 (265)
212 TIGR00250 RNAse_H_YqgF RNAse H 53.4 71 0.0015 21.9 7.7 47 68-114 37-96 (130)
213 cd00128 XPG Xeroderma pigmento 53.1 32 0.00069 27.1 4.8 42 66-107 128-169 (316)
214 PRK13478 phosphonoacetaldehyde 53.0 52 0.0011 24.9 5.9 65 66-131 104-173 (267)
215 TIGR03190 benz_CoA_bzdN benzoy 53.0 41 0.00089 27.3 5.6 50 90-140 302-353 (377)
216 cd01536 PBP1_ABC_sugar_binding 53.0 86 0.0019 22.7 9.1 72 62-138 12-88 (267)
217 cd06321 PBP1_ABC_sugar_binding 52.9 91 0.002 23.0 9.1 72 62-138 12-90 (271)
218 cd06306 PBP1_TorT-like TorT-li 52.7 94 0.002 23.1 9.5 71 62-138 12-89 (268)
219 COG2185 Sbm Methylmalonyl-CoA 52.4 81 0.0018 22.3 7.6 68 59-135 27-96 (143)
220 COG0796 MurI Glutamate racemas 52.4 1.1E+02 0.0024 23.9 8.4 63 42-107 33-97 (269)
221 PF13277 YmdB: YmdB-like prote 51.8 14 0.00031 28.5 2.6 43 61-107 12-62 (253)
222 PRK13600 putative ribosomal pr 51.5 61 0.0013 20.6 5.8 35 100-137 28-62 (84)
223 PF01297 TroA: Periplasmic sol 51.2 34 0.00073 25.8 4.6 45 66-110 186-231 (256)
224 TIGR02009 PGMB-YQAB-SF beta-ph 50.9 48 0.001 23.2 5.1 62 67-131 92-157 (185)
225 cd06319 PBP1_ABC_sugar_binding 50.9 98 0.0021 22.8 9.4 72 62-138 12-88 (277)
226 TIGR03369 cellulose_bcsE cellu 50.9 1.3E+02 0.0028 24.2 8.0 72 18-107 96-171 (322)
227 TIGR02026 BchE magnesium-proto 50.6 45 0.00097 28.1 5.6 96 36-136 201-303 (497)
228 PRK11058 GTPase HflX; Provisio 50.2 1.4E+02 0.003 24.8 8.3 49 66-114 25-87 (426)
229 COG2131 ComEB Deoxycytidylate 50.2 95 0.0021 22.4 7.3 51 85-137 102-152 (164)
230 PF12683 DUF3798: Protein of u 50.0 59 0.0013 25.5 5.7 45 92-136 121-169 (275)
231 TIGR03191 benz_CoA_bzdO benzoy 50.0 47 0.001 27.6 5.5 51 89-140 349-401 (430)
232 PRK01158 phosphoglycolate phos 49.9 69 0.0015 23.3 6.0 31 73-103 30-60 (230)
233 COG0561 Cof Predicted hydrolas 49.9 48 0.001 24.9 5.3 40 64-103 21-60 (264)
234 PRK15408 autoinducer 2-binding 49.9 1.3E+02 0.0028 23.8 9.5 73 62-139 36-114 (336)
235 cd06316 PBP1_ABC_sugar_binding 49.9 1.1E+02 0.0024 23.0 9.3 72 63-139 13-90 (294)
236 PF05822 UMPH-1: Pyrimidine 5' 49.8 20 0.00044 27.6 3.1 39 64-102 91-129 (246)
237 TIGR00083 ribF riboflavin kina 49.6 1E+02 0.0022 24.2 7.1 72 65-137 53-136 (288)
238 smart00475 53EXOc 5'-3' exonuc 49.6 70 0.0015 24.7 6.1 48 64-111 82-133 (259)
239 TIGR03156 GTP_HflX GTP-binding 49.4 81 0.0018 25.4 6.7 48 66-114 17-79 (351)
240 cd06302 PBP1_LsrB_Quorum_Sensi 49.3 1.2E+02 0.0025 23.1 9.9 73 62-138 12-89 (298)
241 PRK10513 sugar phosphate phosp 49.2 1.1E+02 0.0024 22.9 9.7 69 74-142 31-116 (270)
242 cd06318 PBP1_ABC_sugar_binding 49.0 1.1E+02 0.0023 22.7 9.0 72 62-138 12-88 (282)
243 COG2014 Uncharacterized conser 48.9 51 0.0011 25.1 5.0 36 79-114 189-224 (250)
244 cd02970 PRX_like2 Peroxiredoxi 48.9 63 0.0014 21.5 5.3 42 65-106 43-84 (149)
245 TIGR00282 metallophosphoestera 48.8 25 0.00054 27.4 3.5 44 61-108 15-66 (266)
246 cd06285 PBP1_LacI_like_7 Ligan 48.8 1.1E+02 0.0023 22.6 9.8 71 62-138 12-86 (265)
247 PHA02530 pseT polynucleotide k 48.8 37 0.00079 26.1 4.5 41 64-104 188-228 (300)
248 PRK10703 DNA-binding transcrip 48.5 1.2E+02 0.0027 23.3 8.8 70 62-138 72-147 (341)
249 PF06050 HGD-D: 2-hydroxygluta 48.4 44 0.00095 26.2 5.0 70 67-139 254-326 (349)
250 PRK09701 D-allose transporter 48.3 1.2E+02 0.0027 23.2 9.6 73 62-139 37-116 (311)
251 COG0532 InfB Translation initi 48.3 1.1E+02 0.0024 26.2 7.4 64 66-136 317-386 (509)
252 cd06284 PBP1_LacI_like_6 Ligan 48.1 1.1E+02 0.0023 22.4 8.9 70 62-138 12-85 (267)
253 cd01018 ZntC Metal binding pro 48.1 1.2E+02 0.0026 23.1 9.0 45 92-137 179-224 (266)
254 PF02844 GARS_N: Phosphoribosy 48.1 63 0.0014 21.3 4.9 39 90-133 51-89 (100)
255 PRK10653 D-ribose transporter 48.1 1.2E+02 0.0026 22.9 9.8 72 62-138 39-115 (295)
256 PRK10976 putative hydrolase; P 47.9 61 0.0013 24.3 5.6 30 74-103 30-59 (266)
257 TIGR01487 SPP-like sucrose-pho 47.8 55 0.0012 23.8 5.2 32 72-103 27-58 (215)
258 TIGR02263 benz_CoA_red_C benzo 47.7 48 0.001 27.0 5.2 48 89-137 309-358 (380)
259 PRK12702 mannosyl-3-phosphogly 47.7 1.4E+02 0.0031 23.7 8.6 35 69-103 24-58 (302)
260 PRK08535 translation initiatio 47.6 1.1E+02 0.0023 24.3 7.0 70 66-138 159-230 (310)
261 COG1213 Predicted sugar nucleo 47.4 22 0.00049 27.2 3.0 78 62-145 32-112 (239)
262 TIGR01485 SPP_plant-cyano sucr 47.4 45 0.00098 25.0 4.7 38 64-101 22-59 (249)
263 cd05564 PTS_IIB_chitobiose_lic 47.4 74 0.0016 20.4 8.0 63 68-137 16-78 (96)
264 TIGR01518 g3p_cytidyltrns glyc 47.3 29 0.00062 23.3 3.3 75 24-112 18-93 (125)
265 cd02072 Glm_B12_BD B12 binding 47.3 92 0.002 21.4 7.2 59 72-131 20-79 (128)
266 TIGR01486 HAD-SF-IIB-MPGP mann 47.3 58 0.0012 24.5 5.3 30 73-102 26-55 (256)
267 PRK10824 glutaredoxin-4; Provi 47.2 60 0.0013 21.9 4.8 46 91-139 34-79 (115)
268 PRK01372 ddl D-alanine--D-alan 47.2 80 0.0017 24.3 6.2 42 65-108 22-63 (304)
269 cd06314 PBP1_tmGBP Periplasmic 47.0 1.2E+02 0.0025 22.5 9.2 71 62-138 11-87 (271)
270 TIGR00715 precor6x_red precorr 46.8 1.3E+02 0.0029 23.1 9.5 45 91-137 55-99 (256)
271 PRK00074 guaA GMP synthase; Re 46.8 1.5E+02 0.0033 25.2 8.2 75 62-138 200-278 (511)
272 cd00532 MGS-like MGS-like doma 46.7 76 0.0016 20.8 5.3 42 93-135 59-104 (112)
273 cd06270 PBP1_GalS_like Ligand 46.7 1.2E+02 0.0025 22.4 9.3 70 62-138 12-86 (268)
274 TIGR00623 sula cell division i 46.7 24 0.00053 25.6 3.0 36 6-49 112-147 (168)
275 COG2241 CobL Precorrin-6B meth 46.6 59 0.0013 24.4 5.1 83 40-131 71-165 (210)
276 cd01424 MGS_CPS_II Methylglyox 46.6 79 0.0017 20.5 6.3 43 92-135 58-100 (110)
277 KOG0133|consensus 46.5 27 0.00059 30.0 3.6 94 8-109 169-269 (531)
278 cd06291 PBP1_Qymf_like Ligand 46.5 1.1E+02 0.0025 22.3 8.5 68 63-139 13-84 (265)
279 PRK02090 phosphoadenosine phos 46.4 1.3E+02 0.0027 22.7 7.7 69 67-137 28-100 (241)
280 PRK13226 phosphoglycolate phos 46.3 46 0.001 24.6 4.6 37 67-103 99-135 (229)
281 cd01017 AdcA Metal binding pro 45.9 80 0.0017 24.3 6.0 42 67-108 208-250 (282)
282 PLN02476 O-methyltransferase 45.6 1.3E+02 0.0028 23.6 7.1 62 69-131 157-223 (278)
283 PF08282 Hydrolase_3: haloacid 45.5 1.1E+02 0.0024 21.9 9.5 76 66-142 19-107 (254)
284 PRK05772 translation initiatio 45.4 84 0.0018 25.7 6.2 64 72-137 220-287 (363)
285 TIGR02461 osmo_MPG_phos mannos 45.4 69 0.0015 23.8 5.4 29 74-102 26-54 (225)
286 PRK09449 dUMP phosphatase; Pro 45.3 1.2E+02 0.0025 22.0 7.2 63 67-131 99-165 (224)
287 PRK00109 Holliday junction res 45.3 1E+02 0.0022 21.3 7.9 47 68-114 43-102 (138)
288 PRK10586 putative oxidoreducta 45.2 1.4E+02 0.0029 24.2 7.4 46 67-112 21-72 (362)
289 PRK10595 SOS cell division inh 44.8 29 0.00063 25.1 3.1 36 6-49 108-143 (164)
290 PRK14987 gluconate operon tran 44.7 1.4E+02 0.0031 22.9 9.5 69 62-137 76-149 (331)
291 PRK05627 bifunctional riboflav 44.6 1.2E+02 0.0026 24.0 6.8 73 64-137 68-152 (305)
292 PTZ00372 endonuclease 4-like p 44.5 1.9E+02 0.004 24.2 9.8 92 23-127 146-257 (413)
293 TIGR01494 ATPase_P-type ATPase 44.4 1.4E+02 0.0031 25.0 7.6 61 67-135 351-411 (499)
294 TIGR01684 viral_ppase viral ph 44.4 1E+02 0.0023 24.5 6.4 46 66-111 149-198 (301)
295 cd01017 AdcA Metal binding pro 44.4 1.4E+02 0.0031 22.9 8.5 15 92-106 180-194 (282)
296 TIGR00060 L18_bact ribosomal p 44.2 65 0.0014 21.8 4.6 41 92-133 74-114 (114)
297 PLN02589 caffeoyl-CoA O-methyl 43.9 1.4E+02 0.003 22.9 6.9 59 72-131 121-185 (247)
298 cd08185 Fe-ADH1 Iron-containin 43.7 1.7E+02 0.0037 23.6 8.8 68 66-134 12-87 (380)
299 PF00289 CPSase_L_chain: Carba 43.7 95 0.0021 20.6 5.9 19 73-91 19-37 (110)
300 COG1692 Calcineurin-like phosp 43.5 31 0.00066 26.8 3.2 44 62-108 16-66 (266)
301 TIGR01686 FkbH FkbH-like domai 43.4 1.6E+02 0.0035 23.1 8.6 62 64-131 32-101 (320)
302 PRK13601 putative L7Ae-like ri 43.4 84 0.0018 19.8 5.7 38 97-137 20-57 (82)
303 PF13344 Hydrolase_6: Haloacid 43.2 90 0.0019 20.1 6.1 36 68-103 19-57 (101)
304 cd06298 PBP1_CcpA_like Ligand- 43.1 1.3E+02 0.0028 22.0 9.6 70 62-138 12-86 (268)
305 cd06292 PBP1_LacI_like_10 Liga 43.0 1.3E+02 0.0029 22.1 9.0 76 62-139 12-92 (273)
306 COG2262 HflX GTPases [General 42.9 1.2E+02 0.0027 25.2 6.7 64 64-134 18-96 (411)
307 TIGR01482 SPP-subfamily Sucros 42.8 82 0.0018 22.8 5.5 30 73-102 25-54 (225)
308 TIGR02247 HAD-1A3-hyp Epoxide 42.7 82 0.0018 22.6 5.4 25 65-89 96-120 (211)
309 TIGR01990 bPGM beta-phosphoglu 42.7 1.1E+02 0.0025 21.2 6.3 63 66-131 90-156 (185)
310 PRK10343 RNA-binding protein Y 42.7 96 0.0021 20.3 6.3 68 72-142 8-83 (97)
311 COG3053 CitC Citrate lyase syn 42.7 1.8E+02 0.0039 23.4 8.3 105 23-136 164-294 (352)
312 TIGR02254 YjjG/YfnB HAD superf 42.6 98 0.0021 22.2 5.8 45 66-111 100-148 (224)
313 PRK09860 putative alcohol dehy 42.5 1.8E+02 0.004 23.5 8.7 69 66-135 17-93 (383)
314 TIGR01549 HAD-SF-IA-v1 haloaci 42.1 1.1E+02 0.0023 20.7 7.4 64 66-131 67-133 (154)
315 PF02879 PGM_PMM_II: Phosphogl 42.0 91 0.002 19.9 5.0 41 73-113 15-57 (104)
316 PRK06371 translation initiatio 41.9 1.1E+02 0.0023 24.7 6.2 68 66-138 183-257 (329)
317 COG0742 N6-adenine-specific me 41.9 1.1E+02 0.0025 22.5 5.9 48 66-113 77-126 (187)
318 cd01019 ZnuA Zinc binding prot 41.9 1.6E+02 0.0035 22.7 8.8 73 63-138 158-236 (286)
319 PF14258 DUF4350: Domain of un 41.8 74 0.0016 18.8 5.8 55 67-127 6-61 (70)
320 PTZ00106 60S ribosomal protein 41.7 1E+02 0.0023 20.4 5.9 36 98-136 38-73 (108)
321 TIGR01481 ccpA catabolite cont 41.7 1.6E+02 0.0034 22.5 9.9 70 62-138 72-146 (329)
322 PRK02261 methylaspartate mutas 41.7 1.2E+02 0.0025 21.0 7.7 59 70-129 22-81 (137)
323 PRK00192 mannosyl-3-phosphogly 41.6 91 0.002 23.7 5.7 34 70-103 28-61 (273)
324 KOG4498|consensus 41.5 57 0.0012 24.2 4.2 54 61-114 66-120 (197)
325 KOG2014|consensus 41.4 63 0.0014 25.9 4.7 76 56-142 82-157 (331)
326 cd01575 PBP1_GntR Ligand-bindi 41.3 1.4E+02 0.003 21.8 9.4 70 62-138 12-86 (268)
327 PF03740 PdxJ: Pyridoxal phosp 41.2 1.6E+02 0.0036 22.6 10.0 71 66-139 111-194 (239)
328 cd03028 GRX_PICOT_like Glutare 41.1 57 0.0012 20.5 3.8 48 91-141 27-74 (90)
329 PRK15045 cellulose biosynthesi 41.1 2.2E+02 0.0047 24.5 8.1 72 18-107 244-319 (519)
330 cd01391 Periplasmic_Binding_Pr 40.9 1.3E+02 0.0028 21.3 8.7 70 63-138 14-90 (269)
331 TIGR03707 PPK2_P_aer polyphosp 40.9 1.6E+02 0.0035 22.4 7.1 60 60-119 10-76 (230)
332 PRK04175 rpl7ae 50S ribosomal 40.8 1.1E+02 0.0025 20.7 6.0 37 98-136 43-79 (122)
333 cd06311 PBP1_ABC_sugar_binding 40.8 1.5E+02 0.0032 21.9 9.1 73 62-138 12-93 (274)
334 PRK14976 5'-3' exonuclease; Pr 40.6 98 0.0021 24.2 5.7 49 63-111 87-139 (281)
335 COG0626 MetC Cystathionine bet 40.5 1E+02 0.0022 25.5 6.0 69 71-142 119-189 (396)
336 PRK11579 putative oxidoreducta 40.3 1.7E+02 0.0036 23.2 7.2 66 69-135 54-120 (346)
337 PF03652 UPF0081: Uncharacteri 40.3 1.2E+02 0.0026 20.8 6.5 51 88-138 38-95 (135)
338 PRK11009 aphA acid phosphatase 40.3 1.6E+02 0.0036 22.3 8.0 36 67-102 118-157 (237)
339 PRK06372 translation initiatio 40.3 1.5E+02 0.0033 22.9 6.6 68 66-139 122-194 (253)
340 cd06281 PBP1_LacI_like_5 Ligan 39.9 1.5E+02 0.0033 21.8 9.2 70 63-138 13-87 (269)
341 CHL00139 rpl18 ribosomal prote 39.9 79 0.0017 21.1 4.4 42 91-133 68-109 (109)
342 TIGR01116 ATPase-IIA1_Ca sarco 39.8 2.4E+02 0.0051 26.0 8.7 39 65-103 539-577 (917)
343 PRK05835 fructose-bisphosphate 39.7 1.9E+02 0.0042 23.0 8.6 72 63-135 60-133 (307)
344 PRK05593 rplR 50S ribosomal pr 39.7 78 0.0017 21.4 4.4 42 91-133 76-117 (117)
345 cd01574 PBP1_LacI Ligand-bindi 39.6 1.5E+02 0.0032 21.6 9.2 71 62-139 12-88 (264)
346 TIGR00511 ribulose_e2b2 ribose 39.3 1.5E+02 0.0032 23.4 6.6 67 66-138 154-225 (301)
347 PRK10206 putative oxidoreducta 39.3 1.6E+02 0.0034 23.4 6.9 65 69-135 54-120 (344)
348 cd01544 PBP1_GalR Ligand-bindi 39.3 1.6E+02 0.0034 21.8 8.3 67 62-139 17-83 (270)
349 PF13778 DUF4174: Domain of un 39.3 1.2E+02 0.0025 20.3 5.6 34 57-90 21-54 (118)
350 TIGR01459 HAD-SF-IIA-hyp4 HAD- 39.2 1.6E+02 0.0035 21.9 6.9 39 65-103 26-66 (242)
351 cd02971 PRX_family Peroxiredox 39.1 1.1E+02 0.0024 20.1 6.0 43 65-107 42-85 (140)
352 cd06423 CESA_like CESA_like is 39.1 1.1E+02 0.0024 20.0 6.7 37 62-99 10-46 (180)
353 cd03013 PRX5_like Peroxiredoxi 39.1 1.1E+02 0.0023 21.3 5.3 38 65-102 50-88 (155)
354 PRK05720 mtnA methylthioribose 39.0 1.3E+02 0.0028 24.4 6.3 69 66-139 193-268 (344)
355 TIGR01523 ATPase-IID_K-Na pota 38.9 2.9E+02 0.0063 25.9 9.2 37 66-102 649-685 (1053)
356 TIGR01656 Histidinol-ppas hist 38.7 1E+02 0.0022 21.0 5.1 68 64-132 28-117 (147)
357 TIGR01685 MDP-1 magnesium-depe 38.7 1.5E+02 0.0032 21.4 7.1 40 64-103 46-86 (174)
358 PF04392 ABC_sub_bind: ABC tra 38.6 1.2E+02 0.0025 23.4 5.9 69 67-137 148-218 (294)
359 COG0673 MviM Predicted dehydro 38.5 1.2E+02 0.0026 23.5 6.0 68 67-135 55-123 (342)
360 COG5310 Homospermidine synthas 38.5 70 0.0015 26.2 4.6 84 14-109 130-214 (481)
361 PTZ00217 flap endonuclease-1; 38.5 62 0.0013 26.6 4.5 40 66-105 138-177 (393)
362 PF00867 XPG_I: XPG I-region; 38.4 44 0.00096 21.3 3.0 32 77-108 2-33 (94)
363 COG1149 MinD superfamily P-loo 38.2 2E+02 0.0043 22.7 7.0 81 54-138 142-222 (284)
364 PRK13703 conjugal pilus assemb 38.2 1.1E+02 0.0024 23.6 5.6 21 90-110 162-182 (248)
365 PRK09437 bcp thioredoxin-depen 38.1 1.3E+02 0.0028 20.5 6.0 45 64-108 49-93 (154)
366 cd06274 PBP1_FruR Ligand bindi 38.1 1.6E+02 0.0035 21.5 9.2 70 63-139 13-87 (264)
367 cd06317 PBP1_ABC_sugar_binding 38.0 1.6E+02 0.0035 21.6 8.9 72 62-138 13-89 (275)
368 PRK04004 translation initiatio 37.9 2.1E+02 0.0046 24.8 7.8 65 66-137 364-435 (586)
369 PRK05234 mgsA methylglyoxal sy 37.8 1.4E+02 0.003 20.8 6.4 64 72-135 42-111 (142)
370 cd01422 MGS Methylglyoxal synt 37.8 1.2E+02 0.0026 20.1 6.3 44 92-135 61-106 (115)
371 PF05872 DUF853: Bacterial pro 37.8 53 0.0011 27.9 4.0 58 37-99 253-314 (502)
372 TIGR02260 benz_CoA_red_B benzo 37.8 98 0.0021 25.6 5.6 50 90-140 339-391 (413)
373 PRK06769 hypothetical protein; 37.8 98 0.0021 21.9 5.0 45 64-108 29-81 (173)
374 cd06442 DPM1_like DPM1_like re 37.7 1.5E+02 0.0032 21.1 8.5 47 62-108 10-60 (224)
375 PF01596 Methyltransf_3: O-met 37.7 1.2E+02 0.0026 22.5 5.6 50 80-130 97-149 (205)
376 COG2099 CobK Precorrin-6x redu 37.7 1.6E+02 0.0034 23.0 6.2 45 91-137 56-100 (257)
377 PRK00919 GMP synthase subunit 37.6 2.1E+02 0.0045 22.7 9.1 73 62-138 6-82 (307)
378 COG4130 Predicted sugar epimer 37.6 64 0.0014 24.7 4.0 31 86-116 47-77 (272)
379 PRK03980 flap endonuclease-1; 37.5 67 0.0015 25.3 4.4 39 67-105 84-122 (292)
380 cd03012 TlpA_like_DipZ_like Tl 37.3 80 0.0017 20.8 4.3 43 65-107 42-90 (126)
381 cd06315 PBP1_ABC_sugar_binding 37.3 1.8E+02 0.0038 21.8 9.4 73 62-138 13-89 (280)
382 PRK14571 D-alanyl-alanine synt 37.3 1.5E+02 0.0032 22.9 6.3 65 66-134 19-83 (299)
383 PRK04017 hypothetical protein; 37.3 1.4E+02 0.0031 20.7 6.7 11 121-131 84-94 (132)
384 cd05883 Ig2_Necl-2 Second immu 37.2 40 0.00087 21.3 2.6 21 1-21 9-29 (82)
385 PHA03398 viral phosphatase sup 37.2 2.1E+02 0.0047 22.8 7.3 67 41-111 130-200 (303)
386 cd01020 TroA_b Metal binding p 37.1 1.8E+02 0.004 22.1 6.7 42 67-108 194-239 (264)
387 smart00500 SFM Splicing Factor 37.1 77 0.0017 17.6 3.6 30 69-98 4-33 (44)
388 PRK10187 trehalose-6-phosphate 37.0 1.2E+02 0.0026 23.2 5.7 37 66-102 39-76 (266)
389 KOG3167|consensus 37.0 63 0.0014 22.8 3.7 45 63-107 59-108 (153)
390 cd08181 PPD-like 1,3-propanedi 36.9 2.2E+02 0.0047 22.8 8.9 67 66-133 12-86 (357)
391 PRK09545 znuA high-affinity zi 36.7 1.2E+02 0.0025 24.0 5.7 40 68-107 241-281 (311)
392 PF01206 TusA: Sulfurtransfera 36.6 91 0.002 18.3 5.7 43 68-110 14-60 (70)
393 smart00513 SAP Putative DNA-bi 36.6 58 0.0013 16.7 2.8 27 68-97 6-32 (35)
394 PTZ00365 60S ribosomal protein 36.5 1.3E+02 0.0028 23.5 5.6 42 94-137 141-182 (266)
395 cd00221 Vsr Very Short Patch R 36.3 1E+02 0.0023 20.7 4.6 26 114-139 88-113 (115)
396 PRK09196 fructose-1,6-bisphosp 36.2 2.4E+02 0.0051 23.0 8.9 73 62-135 60-141 (347)
397 PRK00724 formate dehydrogenase 36.1 1.1E+02 0.0023 23.7 5.2 48 82-136 202-249 (263)
398 cd01543 PBP1_XylR Ligand-bindi 35.9 1.8E+02 0.0038 21.4 7.0 68 62-138 11-79 (265)
399 PRK08247 cystathionine gamma-s 35.9 2.3E+02 0.0049 22.7 7.4 63 72-135 108-171 (366)
400 PRK13384 delta-aminolevulinic 35.8 1.5E+02 0.0032 23.9 6.0 74 13-89 8-84 (322)
401 cd06293 PBP1_LacI_like_11 Liga 35.7 1.8E+02 0.0038 21.4 8.4 71 62-138 12-86 (269)
402 PRK07283 hypothetical protein; 35.7 1.2E+02 0.0027 19.5 6.0 37 98-137 31-67 (98)
403 PRK11587 putative phosphatase; 35.6 67 0.0015 23.4 4.0 37 66-102 86-122 (218)
404 COG1225 Bcp Peroxiredoxin [Pos 35.6 1.7E+02 0.0036 21.0 7.7 62 40-108 32-93 (157)
405 cd02064 FAD_synthetase_N FAD s 35.5 1.7E+02 0.0036 21.0 6.9 70 67-137 57-137 (180)
406 COG4750 LicC CTP:phosphocholin 35.5 83 0.0018 23.7 4.3 38 73-111 39-77 (231)
407 cd01019 ZnuA Zinc binding prot 35.5 1.3E+02 0.0028 23.3 5.7 40 68-107 217-257 (286)
408 PF01985 CRS1_YhbY: CRS1 / Yhb 35.5 1.1E+02 0.0024 19.1 4.5 53 87-142 26-81 (84)
409 cd01453 vWA_transcription_fact 35.4 1.5E+02 0.0032 21.3 5.7 29 73-101 130-159 (183)
410 COG0648 Nfo Endonuclease IV [D 35.4 2.2E+02 0.0048 22.4 7.0 81 10-99 40-126 (280)
411 PRK09860 putative alcohol dehy 35.4 1.7E+02 0.0037 23.8 6.6 56 82-138 10-67 (383)
412 cd06283 PBP1_RegR_EndR_KdgR_li 35.3 1.7E+02 0.0038 21.2 9.1 70 63-139 13-87 (267)
413 TIGR00253 RNA_bind_YhbY putati 35.2 1.3E+02 0.0028 19.6 6.1 68 72-142 6-81 (95)
414 cd06308 PBP1_sensor_kinase_lik 35.2 1.8E+02 0.0039 21.4 9.1 72 62-138 12-89 (270)
415 TIGR00512 salvage_mtnA S-methy 35.1 1.4E+02 0.0031 24.0 5.9 81 40-138 180-267 (331)
416 PRK01018 50S ribosomal protein 35.1 1.3E+02 0.0028 19.5 6.0 36 98-136 29-64 (99)
417 TIGR01858 tag_bisphos_ald clas 35.0 2.2E+02 0.0048 22.3 8.9 72 62-135 58-131 (282)
418 PRK07084 fructose-bisphosphate 34.9 2.4E+02 0.0052 22.7 10.2 73 62-135 69-144 (321)
419 TIGR03590 PseG pseudaminic aci 34.9 2.1E+02 0.0045 22.0 8.5 60 73-138 47-111 (279)
420 cd06304 PBP1_BmpA_like Peripla 34.6 1.9E+02 0.0041 21.3 9.6 70 62-138 14-88 (260)
421 PF02037 SAP: SAP domain; Int 34.5 44 0.00095 17.3 2.1 28 67-97 5-32 (35)
422 TIGR03590 PseG pseudaminic aci 34.3 2.1E+02 0.0046 21.9 8.1 17 70-86 71-87 (279)
423 KOG3128|consensus 34.2 1.2E+02 0.0025 23.9 5.1 37 64-100 139-175 (298)
424 PF08423 Rad51: Rad51; InterP 34.2 1.4E+02 0.0031 22.7 5.7 50 63-112 117-189 (256)
425 cd05885 Ig2_Necl-4 Second immu 34.1 31 0.00067 21.6 1.7 21 2-22 10-30 (80)
426 TIGR01502 B_methylAsp_ase meth 34.0 2.7E+02 0.0059 23.1 8.1 72 64-136 280-354 (408)
427 PF11360 DUF3110: Protein of u 34.0 40 0.00088 21.6 2.2 31 115-146 54-86 (86)
428 cd08189 Fe-ADH5 Iron-containin 33.9 2.5E+02 0.0054 22.6 8.8 42 66-107 12-60 (374)
429 cd01025 TOPRIM_recR TOPRIM_rec 33.8 1.5E+02 0.0032 19.9 5.7 43 93-135 48-90 (112)
430 PLN02887 hydrolase family prot 33.7 3.2E+02 0.007 23.8 9.3 30 73-102 335-364 (580)
431 TIGR00632 vsr DNA mismatch end 33.6 1.5E+02 0.0034 20.1 5.3 24 116-139 93-116 (117)
432 COG2242 CobL Precorrin-6B meth 33.6 1.2E+02 0.0026 22.4 4.9 41 67-110 70-111 (187)
433 cd07388 MPP_Tt1561 Thermus the 33.4 1.6E+02 0.0036 22.1 5.8 22 68-89 20-41 (224)
434 PRK10660 tilS tRNA(Ile)-lysidi 33.3 2.8E+02 0.0062 23.0 7.9 15 121-135 66-80 (436)
435 TIGR01521 FruBisAldo_II_B fruc 33.2 2.7E+02 0.0058 22.7 9.1 73 62-135 58-139 (347)
436 PF01408 GFO_IDH_MocA: Oxidore 33.2 1.3E+02 0.0029 19.2 7.3 63 69-134 52-117 (120)
437 TIGR00491 aIF-2 translation in 33.2 2.6E+02 0.0057 24.4 7.6 64 66-136 362-432 (590)
438 cd05859 Ig4_PDGFR-alpha Fourth 33.0 23 0.0005 22.9 1.0 20 3-22 29-48 (101)
439 PF12048 DUF3530: Protein of u 33.0 2.5E+02 0.0053 22.2 8.9 130 7-138 88-254 (310)
440 PRK13398 3-deoxy-7-phosphohept 33.0 2.3E+02 0.005 21.9 8.6 49 37-90 54-102 (266)
441 PRK12737 gatY tagatose-bisphos 32.9 2.4E+02 0.0053 22.1 9.1 69 63-135 61-133 (284)
442 TIGR00129 fdhD_narQ formate de 32.9 1.2E+02 0.0027 23.0 5.1 48 82-136 173-220 (237)
443 TIGR01484 HAD-SF-IIB HAD-super 32.8 1.6E+02 0.0034 21.0 5.5 29 73-101 27-55 (204)
444 PF15608 PELOTA_1: PELOTA RNA 32.7 1.5E+02 0.0032 19.6 5.5 69 66-139 20-89 (100)
445 PRK08248 O-acetylhomoserine am 32.7 1.5E+02 0.0034 24.4 6.0 63 72-135 121-184 (431)
446 TIGR01106 ATPase-IIC_X-K sodiu 32.6 4E+02 0.0087 24.8 9.1 38 65-102 570-607 (997)
447 PHA03050 glutaredoxin; Provisi 32.6 1.4E+02 0.003 19.7 4.7 50 91-141 27-80 (108)
448 PRK07810 O-succinylhomoserine 32.5 1.8E+02 0.0038 23.8 6.3 63 72-135 127-190 (403)
449 PF00834 Ribul_P_3_epim: Ribul 32.5 66 0.0014 23.8 3.5 81 40-133 28-108 (201)
450 cd06280 PBP1_LacI_like_4 Ligan 32.4 2E+02 0.0044 21.0 9.3 70 62-138 12-85 (263)
451 PF01248 Ribosomal_L7Ae: Ribos 32.4 1.3E+02 0.0028 18.8 4.8 34 101-136 31-64 (95)
452 PRK09856 fructoselysine 3-epim 32.3 2.2E+02 0.0047 21.4 10.1 54 58-111 121-182 (275)
453 cd06811 PLPDE_III_yhfX_like Ty 32.1 2.8E+02 0.006 22.5 8.0 73 19-107 8-83 (382)
454 smart00775 LNS2 LNS2 domain. T 32.1 1.8E+02 0.0039 20.4 8.0 37 63-99 27-66 (157)
455 PRK05967 cystathionine beta-ly 32.1 2E+02 0.0043 23.6 6.5 62 73-135 122-184 (395)
456 PRK10936 TMAO reductase system 32.0 2.5E+02 0.0054 22.0 9.5 71 62-138 59-136 (343)
457 PF03447 NAD_binding_3: Homose 32.0 1.2E+02 0.0026 19.8 4.4 55 78-134 58-115 (117)
458 PF02579 Nitro_FeMo-Co: Dinitr 32.0 60 0.0013 20.1 2.8 34 73-107 47-80 (94)
459 smart00484 XPGI Xeroderma pigm 31.9 64 0.0014 19.9 2.8 32 77-108 2-33 (73)
460 cd00614 CGS_like CGS_like: Cys 31.8 1.9E+02 0.0041 23.1 6.3 60 75-135 100-160 (369)
461 COG0529 CysC Adenylylsulfate k 31.7 2.2E+02 0.0047 21.2 7.6 56 69-127 41-118 (197)
462 PRK05939 hypothetical protein; 31.7 2.3E+02 0.0051 23.1 6.9 60 75-135 106-166 (397)
463 PF12813 XPG_I_2: XPG domain c 31.6 1E+02 0.0022 23.6 4.5 33 71-103 9-44 (246)
464 PF02310 B12-binding: B12 bind 31.6 1.5E+02 0.0032 19.2 10.5 71 67-138 16-89 (121)
465 COG2403 Predicted GTPase [Gene 31.6 1.2E+02 0.0025 25.3 4.9 61 71-136 54-115 (449)
466 KOG0053|consensus 31.5 1.7E+02 0.0037 24.4 5.9 63 71-134 133-196 (409)
467 cd03030 GRX_SH3BGR Glutaredoxi 31.5 1.4E+02 0.0031 19.1 4.8 11 93-103 22-32 (92)
468 cd03334 Fab1_TCP TCP-1 like do 31.3 1.3E+02 0.0029 23.0 5.1 40 67-106 118-157 (261)
469 TIGR03677 rpl7ae 50S ribosomal 31.2 1.7E+02 0.0036 19.7 6.0 36 69-104 32-72 (117)
470 COG1358 RPL8A Ribosomal protei 31.2 1.7E+02 0.0037 19.8 5.6 44 64-107 28-76 (116)
471 PRK15454 ethanol dehydrogenase 31.1 2.1E+02 0.0046 23.3 6.5 55 84-138 30-85 (395)
472 COG1737 RpiR Transcriptional r 31.1 2.5E+02 0.0054 21.7 8.2 69 68-139 145-213 (281)
473 PF08032 SpoU_sub_bind: RNA 2' 31.0 1E+02 0.0022 18.3 3.7 53 23-98 7-59 (76)
474 smart00851 MGS MGS-like domain 31.0 55 0.0012 20.5 2.5 42 93-134 47-89 (90)
475 PRK08745 ribulose-phosphate 3- 30.9 1.3E+02 0.0028 22.7 4.9 81 40-132 32-112 (223)
476 cd03420 SirA_RHOD_Pry_redox Si 30.9 1.2E+02 0.0026 18.0 5.9 43 68-110 13-59 (69)
477 PF02120 Flg_hook: Flagellar h 30.9 75 0.0016 19.4 3.1 26 58-83 47-72 (85)
478 PRK08005 epimerase; Validated 30.8 1.3E+02 0.0029 22.4 4.9 80 40-132 29-108 (210)
479 PRK09482 flap endonuclease-lik 30.8 1.9E+02 0.0041 22.4 5.8 47 64-110 82-132 (256)
480 PRK09193 indolepyruvate ferred 30.8 2.9E+02 0.0062 26.4 7.8 82 62-143 510-621 (1165)
481 cd01016 TroA Metal binding pro 30.7 2.5E+02 0.0054 21.6 7.7 20 93-112 202-221 (276)
482 cd04196 GT_2_like_d Subfamily 30.7 1.9E+02 0.0041 20.2 6.6 40 61-101 10-53 (214)
483 PF00465 Fe-ADH: Iron-containi 30.6 2.6E+02 0.0056 22.3 6.9 18 68-86 11-28 (366)
484 COG0036 Rpe Pentose-5-phosphat 30.5 1.5E+02 0.0031 22.6 5.0 66 40-114 32-97 (220)
485 PTZ00032 60S ribosomal protein 30.4 1.3E+02 0.0027 22.7 4.5 41 92-133 171-211 (211)
486 PF01171 ATP_bind_3: PP-loop f 30.4 1.5E+02 0.0032 21.1 4.9 70 63-135 14-101 (182)
487 TIGR02739 TraF type-F conjugat 30.3 1.7E+02 0.0036 22.7 5.4 22 90-111 169-190 (256)
488 PF02589 DUF162: Uncharacteris 30.3 92 0.002 22.2 3.9 35 68-102 1-37 (189)
489 cd06288 PBP1_sucrose_transcrip 30.3 2.2E+02 0.0047 20.8 8.9 69 63-139 14-87 (269)
490 COG2984 ABC-type uncharacteriz 30.1 2.8E+02 0.0062 22.3 6.8 70 67-138 176-247 (322)
491 cd01137 PsaA Metal binding pro 30.1 1.4E+02 0.003 23.2 5.1 40 66-105 213-253 (287)
492 cd01821 Rhamnogalacturan_acety 30.0 2E+02 0.0044 20.3 5.7 25 63-87 91-115 (198)
493 PLN02919 haloacid dehalogenase 30.0 2.4E+02 0.0051 26.5 7.2 66 65-131 163-233 (1057)
494 PRK12738 kbaY tagatose-bisphos 29.9 2.8E+02 0.006 21.9 9.6 72 62-135 60-133 (286)
495 cd06276 PBP1_FucR_like Ligand- 29.8 2.3E+02 0.005 20.9 8.6 71 62-138 11-84 (247)
496 cd08567 GDPD_SpGDE_like Glycer 29.7 1.5E+02 0.0033 22.2 5.2 12 96-107 226-237 (263)
497 PF13728 TraF: F plasmid trans 29.7 1.5E+02 0.0032 22.1 5.0 84 57-145 97-193 (215)
498 COG1775 HgdB Benzoyl-CoA reduc 29.6 1E+02 0.0022 25.3 4.3 69 71-140 288-359 (379)
499 PRK14569 D-alanyl-alanine synt 29.5 2.7E+02 0.0058 21.5 6.8 65 66-134 22-86 (296)
500 PF04414 tRNA_deacylase: D-ami 29.5 1.5E+02 0.0034 22.2 5.0 38 37-78 89-127 (213)
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=4.2e-40 Score=237.22 Aligned_cols=132 Identities=37% Similarity=0.681 Sum_probs=113.2
Q ss_pred EEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEEC
Q psy9352 8 AVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQG 87 (146)
Q Consensus 8 ~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g 87 (146)
+|||||+|||++||+||++|++.+.+ |+||||+||........|++|.+|+++||.+|+++|+++|++|+++.|
T Consensus 1 ~l~Wfr~DLRl~DN~aL~~A~~~~~~------v~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g 74 (165)
T PF00875_consen 1 VLVWFRRDLRLHDNPALHAAAQNGDP------VLPVFVFDPEEFHPYRIGPRRRRFLLESLADLQESLRKLGIPLLVLRG 74 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHHTTSE------EEEEEEE-HHGGTTCSSCHHHHHHHHHHHHHHHHHHHHTTS-EEEEES
T ss_pred CEEEEcCCCchhhhHHHHHHHHcCCC------eEEEEEecccccccccCcchHHHHHHHHHHHHHHHHHhcCcceEEEec
Confidence 69999999999999999999988776 999999999833222459999999999999999999999999999999
Q ss_pred ChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCC
Q psy9352 88 KPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTN 145 (146)
Q Consensus 88 ~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~ 145 (146)
++.++|++|+++++|++||+|++|++++++||+.+++.|++.||.++.+++++|++|+
T Consensus 75 ~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~L~~~~ 132 (165)
T PF00875_consen 75 DPEEVLPELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGIKVHTFDDHTLVPPD 132 (165)
T ss_dssp SHHHHHHHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSEEEEE--SSSS-HH
T ss_pred chHHHHHHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceEEEEECCcEEEecc
Confidence 9999999999999999999999999999999999999999999999999999999985
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=7.3e-36 Score=243.29 Aligned_cols=135 Identities=36% Similarity=0.625 Sum_probs=126.6
Q ss_pred ceEEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCC------CCCChhhHHHHHHHHHHHHHHHHhcC
Q psy9352 6 ECAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKF------MRVGPNRWRFLQQSLADLDQKFRALG 79 (146)
Q Consensus 6 ~~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~------~~~~~~r~~Fl~~sL~~L~~~L~~~g 79 (146)
+++|||||+|||++||+||.+|++.+++ |+||||+||.++.. ...|++|.+|+++||.+|+++|+++|
T Consensus 1 ~~~l~WfRrDLRl~DN~aL~~A~~~~~~------vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g 74 (429)
T TIGR02765 1 KVVLYWFRNDLRVHDNPALYKASSSSDT------LIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLG 74 (429)
T ss_pred CeEEEEeCCCCccccHHHHHHHHhcCCe------EEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcC
Confidence 3689999999999999999999987766 99999999988763 34799999999999999999999999
Q ss_pred CeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCCC
Q psy9352 80 SRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTNL 146 (146)
Q Consensus 80 ~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~~ 146 (146)
++|+++.|++.++|++|+++++|++||+|.+|++++++||+.|++.|++.||.++.+++++|++|++
T Consensus 75 ~~L~v~~G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~ 141 (429)
T TIGR02765 75 SDLLVRSGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDD 141 (429)
T ss_pred CCeEEEeCCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCceEEEecCCEeECHHh
Confidence 9999999999999999999999999999999999999999999999999999999999999998763
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=4.9e-35 Score=240.94 Aligned_cols=134 Identities=29% Similarity=0.527 Sum_probs=127.5
Q ss_pred eEEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE
Q psy9352 7 CAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ 86 (146)
Q Consensus 7 ~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~ 86 (146)
.+|||||+|||++||+||.+|++.+.+ |+||||+||.++.....|++|.+|+++||.+|+++|+++|++|+++.
T Consensus 2 ~vl~WfRrDLRl~DN~AL~~A~~~~~~------vl~vfi~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~ 75 (471)
T TIGR03556 2 LILFWHRRDLRLSDNIGLAAARQQSAK------VVGLFCLDPNILQADDMAPARVAYLIGCLQELQQRYQQAGSQLLILQ 75 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHhcCCC------EEEEEEEchhhhccccCCHHHHHHHHHHHHHHHHHHHHCCCCeEEEE
Confidence 589999999999999999999976655 99999999998876668999999999999999999999999999999
Q ss_pred CChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCCC
Q psy9352 87 GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTNL 146 (146)
Q Consensus 87 g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~~ 146 (146)
|+|.++|++|+++++|++||+|.+|++++++||+.|++.|++.||.++.+.|++|++|++
T Consensus 76 G~p~~vl~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~ 135 (471)
T TIGR03556 76 GDPVQLIPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGIAVVTLWDQLLHSPDE 135 (471)
T ss_pred CCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHCCCEEEEeCCcEEECccc
Confidence 999999999999999999999999999999999999999999999999999999999874
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=2.4e-34 Score=237.07 Aligned_cols=131 Identities=24% Similarity=0.384 Sum_probs=122.2
Q ss_pred EEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE-C
Q psy9352 9 VHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ-G 87 (146)
Q Consensus 9 l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~-g 87 (146)
|+|||+|||++||+||.+|++.+ + |+||||+||.+++....+.++.+|+++||.+|+++|+++|++|+|+. |
T Consensus 1 l~WFRrDLRl~DN~aL~~A~~~~-~------vlpvyi~dp~~~~~~~~~~~~~~fl~~sL~~L~~~L~~~G~~L~v~~~g 73 (475)
T TIGR02766 1 IVWFRRDLRVEDNPALAAAARAG-P------VIPVFVWAPEEEGQYYPGRVSRWWLKQSLAHLDQSLRSLGTCLVTIRST 73 (475)
T ss_pred CEecCCCCCcchHHHHHHHHhCC-C------EEEEEEechHHhccccccHHHHHHHHHHHHHHHHHHHHcCCceEEEeCC
Confidence 69999999999999999998654 5 99999999988765556788888999999999999999999999985 8
Q ss_pred ChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCCC
Q psy9352 88 KPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTNL 146 (146)
Q Consensus 88 ~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~~ 146 (146)
++.++|++|+++++|++||+|+++++++++||+.|++.|++.||.++.+++++|++|++
T Consensus 74 ~~~~~l~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~~~gi~~~~~~~~~l~~p~~ 132 (475)
T TIGR02766 74 DTVAALLDCVRSTGATRLFFNHLYDPVSLVRDHRAKEVLTAQGISVQSFNADLLYEPWE 132 (475)
T ss_pred CHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHcCCEEEEecCCEEEChhh
Confidence 99999999999999999999999999999999999999999999999999999999863
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=7e-34 Score=233.19 Aligned_cols=134 Identities=17% Similarity=0.269 Sum_probs=122.2
Q ss_pred ceEEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEE
Q psy9352 6 ECAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVV 85 (146)
Q Consensus 6 ~~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~ 85 (146)
.++|||||+|||++|||||.+|++.+.. .+.||+||||+||.++. .|++|.+|+++||.+|+++|+++|++|+|+
T Consensus 23 ~~vL~WFRrDLRl~DN~aL~~A~~~a~~--~~~~vl~vyi~dp~~~~---~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~ 97 (454)
T TIGR00591 23 GVVVYWMSRDQRVQDNWALIAAQTLALK--KKLPLHVCFCLVDFFLA---ATRRHYFFMLGGLDEVANECERLIIPFHLL 97 (454)
T ss_pred CeEEEEecCchhccCCHHHHHHHHHHHH--cCCCEEEEEEeCCCccc---ccHHHHHHHHHHHHHHHHHHHHcCCceEEe
Confidence 3699999999999999999999864321 12359999999998775 388999999999999999999999999999
Q ss_pred ECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCC
Q psy9352 86 QGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTN 145 (146)
Q Consensus 86 ~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~ 145 (146)
.|+|.++|++|+++++|++||+|.++++++++||+.|++.|++ +|.++++++++|+||+
T Consensus 98 ~g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~-~i~~~~~~~~~l~p~~ 156 (454)
T TIGR00591 98 DGPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPK-DVPFQQVDAHNVVPCW 156 (454)
T ss_pred ecChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcC-CCcEEEECCceEeeCc
Confidence 9999999999999999999999999999999999999999965 8999999999999985
No 6
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=2.9e-33 Score=230.48 Aligned_cols=132 Identities=22% Similarity=0.326 Sum_probs=122.6
Q ss_pred eEEEEecCCCCCcCcHHHHHHHhcCC-CCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEE
Q psy9352 7 CAVHWIRKGMRLHDNPALLSAINYKN-EKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVV 85 (146)
Q Consensus 7 ~~l~Wfr~DLRl~DN~aL~~A~~~~~-~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~ 85 (146)
++|||||+|||++||+||.+|++.+. + |+||||+||..+.....|.+|.+|+++||.+|+++|+++|++|+|+
T Consensus 3 ~~l~WfRrDLRl~DN~aL~~A~~~~~~~------vlpvyv~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~ 76 (472)
T PRK10674 3 THLVWFRNDLRLHDNLALAAACRDPSAR------VLALFIATPAQWAAHDMAPRQAAFINAQLNALQIALAEKGIPLLFH 76 (472)
T ss_pred ceEEEECCCCCcchHHHHHHHHhCCCCC------EEEEEEECchhhccCCCCHHHHHHHHHHHHHHHHHHHHcCCceEEE
Confidence 45999999999999999999998763 4 9999999998776666799999999999999999999999999999
Q ss_pred EC----ChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCCC
Q psy9352 86 QG----KPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTNL 146 (146)
Q Consensus 86 ~g----~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~~ 146 (146)
.| +|.++|++|+++++|++||+++++++++++||+.|++.|. ||.++.+++++|++|++
T Consensus 77 ~g~~~g~~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~--~i~~~~~~~~~l~~~~~ 139 (472)
T PRK10674 77 EVDDFAASVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALR--NVVCQGFDDSVLLPPGS 139 (472)
T ss_pred ecCCcCCHHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcC--CCEEEEecCceEeCccc
Confidence 75 7999999999999999999999999999999999999986 89999999999999873
No 7
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=99.98 E-value=9.9e-32 Score=218.17 Aligned_cols=133 Identities=29% Similarity=0.491 Sum_probs=126.4
Q ss_pred ceEEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEE
Q psy9352 6 ECAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVV 85 (146)
Q Consensus 6 ~~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~ 85 (146)
+++|||||||||++||+||.+|++.+.+- +++|||++|.+++ ..|+++.+|+.+||++|+++|+++||+|+|.
T Consensus 2 ~~~l~WfrrDLR~~DN~aL~~A~~~~~~~-----~~~vfi~~~~~~~--~~~~~~~~Fl~~sL~~L~~~L~~~gi~L~v~ 74 (461)
T COG0415 2 STVLVWFRRDLRLTDNAALAAACQSGQPV-----IIAVFILDPEQLG--HASPRHAAFLLQSLQALQQSLAELGIPLLVR 74 (461)
T ss_pred CeEEEEeccccccCChHHHHHHHhcCCCc-----eEEEEEechhhcc--ccCHHHHHHHHHHHHHHHHHHHHcCCceEEE
Confidence 47899999999999999999999987662 5799999999887 5799999999999999999999999999999
Q ss_pred ECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCC
Q psy9352 86 QGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTN 145 (146)
Q Consensus 86 ~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~ 145 (146)
+|+|.+++++++++.+++.||+|.+|++++..||.+++..|.+.||.++.|++++|++|+
T Consensus 75 ~~~~~~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l~~~gi~~~~~~d~~l~~p~ 134 (461)
T COG0415 75 EGDPEQVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPLTEVGIAVHSFWDALLHEPG 134 (461)
T ss_pred eCCHHHHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHHHhcCceEEEeccccccCHh
Confidence 999999999999999999999999999999999999999999999999999999999985
No 8
>KOG0133|consensus
Probab=99.94 E-value=3.1e-27 Score=193.98 Aligned_cols=134 Identities=48% Similarity=0.812 Sum_probs=127.1
Q ss_pred ceEEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEE
Q psy9352 6 ECAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVV 85 (146)
Q Consensus 6 ~~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~ 85 (146)
..+++|||+|||+||||||.+|+..+++ +.||||+||...+....|..|++|+.|+|.+|+++|+++|++|.++
T Consensus 5 ~~~v~wfr~~lR~~dnpal~~a~~~~~~------~~~v~i~d~~~~~~~~~g~~~~~~l~qsL~~ld~sl~~l~~~L~v~ 78 (531)
T KOG0133|consen 5 SKSVHWFRKGLRLHDNPALLAAAAGKEP------VRPVFILDPEEAGSSNVGRNRWRFLLQSLEDLDQSLRELNSRLFVF 78 (531)
T ss_pred cceEEecccCcccccChhhHHHhccCCC------ceeEEEeCHhHhhccccchhHHHHHHHHHHHHHHHHHHhCCceEEE
Confidence 4789999999999999999888777666 9999999999998888999999999999999999999999999999
Q ss_pred ECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCC
Q psy9352 86 QGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTN 145 (146)
Q Consensus 86 ~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~ 145 (146)
+|.|..+|+.+.++.+++.|.++-++.|+.+.||..++..+.+.|+.+.+..+++++.|+
T Consensus 79 ~~~p~~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~ 138 (531)
T KOG0133|consen 79 RGHPIAVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELGLSVVSPVSHTLYLPD 138 (531)
T ss_pred eCCchHHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhhhhhcccCchhhhcHH
Confidence 999999999999999999999999999999999999999999999999999999998774
No 9
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=97.76 E-value=0.00056 Score=51.73 Aligned_cols=119 Identities=15% Similarity=0.214 Sum_probs=64.7
Q ss_pred EEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEEC-CCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEEC
Q psy9352 9 VHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILD-PHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQG 87 (146)
Q Consensus 9 l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d-~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g 87 (146)
|.|.=.|-=.+++++|.. .... . .|+... +..+..-+.-..|..++..+++.+.+.|++.|..+..+.-
T Consensus 1 L~lIlgdQL~~~~~~l~~--~~~~-------~-~v~mvE~~~~~~~~~~HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~ 70 (224)
T PF04244_consen 1 LRLILGDQLFEDHPALRD--DPAD-------D-RVLMVEVPEEFTYVPHHKQKLVLFFSAMRHFADELRAKGFRVHYIEL 70 (224)
T ss_dssp EEE--TT---TT-HHHHT---TTT---------EEEEE--HHHHHSS---HHHHHHHHHHHHHHHHHHHHTT--EEEE-T
T ss_pred CeEeccCCCCCccccccc--CCCC-------C-EEEEEEchHHhCcCcccHHHHHHHHHHHHHHHHHHHhCCCEEEEEeC
Confidence 344455555677777755 2211 2 333333 2223322334678889999999999999999999988763
Q ss_pred C-------hhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCe
Q psy9352 88 K-------PEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHT 140 (146)
Q Consensus 88 ~-------~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~ 140 (146)
+ -.+.|.+++++.+++.|.+.+ |.+..-++.+.+++++.||++..+++..
T Consensus 71 ~~~~~~~s~~~~L~~~~~~~~~~~~~~~~---P~d~~l~~~l~~~~~~~~i~~~~~~~~~ 127 (224)
T PF04244_consen 71 DDPENTQSFEDALARALKQHGIDRLHVME---PGDYRLEQRLESLAQQLGIPLEVLEDPH 127 (224)
T ss_dssp T-TT--SSHHHHHHHHHHHH----EEEE-----S-HHHHHHHHH----SSS-EEEE--TT
T ss_pred CCccccccHHHHHHHHHHHcCCCEEEEEC---CCCHHHHHHHHhhhcccCCceEEeCCCC
Confidence 3 357888899999999999864 4455666689999999999999988763
No 10
>PRK09982 universal stress protein UspD; Provisional
Probab=96.80 E-value=0.067 Score=37.02 Aligned_cols=113 Identities=13% Similarity=0.071 Sum_probs=65.9
Q ss_pred CcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCC--CCh--hh----HHHHHHHHHHHHHHHHhcCCeEEEEECChhh
Q psy9352 20 DNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMR--VGP--NR----WRFLQQSLADLDQKFRALGSRLYVVQGKPEE 91 (146)
Q Consensus 20 DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~--~~~--~r----~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~ 91 (146)
-..||.+|++.+.. .+..+..+++.++....... ... .. .....+.|.++.+.+...++...+..|+|.+
T Consensus 16 s~~al~~A~~lA~~--~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~p~~ 93 (142)
T PRK09982 16 DALLVNKALELARH--NDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNIQWPKTKLRIERGEMPE 93 (142)
T ss_pred hHHHHHHHHHHHHH--hCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEecCHHH
Confidence 35778888765432 23448889998763211000 000 11 1122233445555444445777888999999
Q ss_pred HHHHHHHHcCccEEEEeeecChhHHHHH-HHHHHHHHhCCCeEEEe
Q psy9352 92 VFPDIFKTWNIKLLTWEYDIEPYAKKRD-GLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 92 ~l~~l~~~~~~~~v~~~~~~~~~~~~rd-~~v~~~~~~~~i~~~~~ 136 (146)
.|.+.+++.+++-|++...-+ ...+- ..-.+.++...|+|-.+
T Consensus 94 ~I~~~A~~~~aDLIVmG~~~~--~~~~~~~va~~V~~~s~~pVLvv 137 (142)
T PRK09982 94 TLLEIMQKEQCDLLVCGHHHS--FINRLMPAYRGMINKMSADLLIV 137 (142)
T ss_pred HHHHHHHHcCCCEEEEeCChh--HHHHHHHHHHHHHhcCCCCEEEe
Confidence 999999999999999975422 22221 12334456667777655
No 11
>PRK10116 universal stress protein UspC; Provisional
Probab=96.43 E-value=0.15 Score=34.73 Aligned_cols=117 Identities=10% Similarity=0.037 Sum_probs=66.2
Q ss_pred CcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccC-CC---CCChhhHHHHHHHHHHHHHHHHhcCCe---EEEEECChh
Q psy9352 18 LHDNPALLSAINYKNEKGQNILLKPLYILDPHFRK-FM---RVGPNRWRFLQQSLADLDQKFRALGSR---LYVVQGKPE 90 (146)
Q Consensus 18 l~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~-~~---~~~~~r~~Fl~~sL~~L~~~L~~~g~~---L~v~~g~~~ 90 (146)
-...++|..|+..+.. .+.++..++++++.... .. .....+....-+....|++...+.|++ .++..|++.
T Consensus 14 ~~s~~al~~A~~lA~~--~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~G~~~ 91 (142)
T PRK10116 14 PESQQLLAKAVSIARP--VNGKISLITLASDPEMYNQFAAPMLEDLRSVMQEETQSFLDKLIQDADYPIEKTFIAYGELS 91 (142)
T ss_pred cchHHHHHHHHHHHHH--hCCEEEEEEEccCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEecCCHH
Confidence 3557899888765432 23458888887653211 00 000111112222223343333455653 466679999
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHH-HHHHHHHhCCCeEEEec
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDG-LVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~-~v~~~~~~~~i~~~~~~ 137 (146)
+.+.+.+++.+++-|+....-. ....+-- .-.+.++..++++-.+.
T Consensus 92 ~~I~~~a~~~~~DLiV~g~~~~-~~~~~~~s~a~~v~~~~~~pVLvv~ 138 (142)
T PRK10116 92 EHILEVCRKHHFDLVICGNHNH-SFFSRASCSAKRVIASSEVDVLLVP 138 (142)
T ss_pred HHHHHHHHHhCCCEEEEcCCcc-hHHHHHHHHHHHHHhcCCCCEEEEe
Confidence 9999999999999999955432 2222221 22455667788887664
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=96.26 E-value=0.061 Score=40.69 Aligned_cols=98 Identities=18% Similarity=0.185 Sum_probs=65.0
Q ss_pred cHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE--CChh---hHHHH
Q psy9352 21 NPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ--GKPE---EVFPD 95 (146)
Q Consensus 21 N~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--g~~~---~~l~~ 95 (146)
.-|++.|.+. .. +.+++..-+... .+..|-...+..++.+-+.+|+||+... |... +.+.+
T Consensus 14 ~lAl~~~~~~-~~------V~~L~~~~~~~~-------~s~~~h~~~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~ 79 (222)
T TIGR00289 14 ILALYKALEE-HE------VISLVGVFSENE-------ESYMFHSPNLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAG 79 (222)
T ss_pred HHHHHHHHHc-Ce------eEEEEEEcCCCC-------CccccccCCHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHH
Confidence 3577778776 45 888888766432 1223333366677778889999998776 3223 33444
Q ss_pred HHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 96 IFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 96 l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
..++.+++.|++-.-...+ +|. ++.+.|++.|++...
T Consensus 80 ~l~~~gv~~vv~GdI~s~~--qr~-~~e~vc~~~gl~~~~ 116 (222)
T TIGR00289 80 QLGELDVEALCIGAIESNY--QKS-RIDKVCRELGLKSIA 116 (222)
T ss_pred HHHHcCCCEEEECccccHH--HHH-HHHHHHHHcCCEEec
Confidence 4566799999997666543 555 788889988986553
No 13
>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=96.05 E-value=0.1 Score=38.53 Aligned_cols=97 Identities=18% Similarity=0.223 Sum_probs=59.8
Q ss_pred HHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE--CChh---h----H
Q psy9352 22 PALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ--GKPE---E----V 92 (146)
Q Consensus 22 ~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--g~~~---~----~ 92 (146)
-+++.|.+.+.. ++++++..+.... +..|-...+..+++..+.+|++++++. ++.. + .
T Consensus 14 ~al~~a~~~G~~------v~~l~~~~~~~~~-------~~~~h~~~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~ 80 (194)
T cd01994 14 YALYRALEEGHE------VVALLNLTPEEGS-------SMMYHTVNHELLELQAEAMGIPLIRIEISGEEEDEVEDLKEL 80 (194)
T ss_pred HHHHHHHHcCCE------EEEEEEEecCCCC-------cccccccCHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHH
Confidence 356666665555 8888887664321 111222356677777788999998886 2211 2 2
Q ss_pred HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 93 FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 93 l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
+.++.++ +++.|++-.-..- .+|. ++.+.|.+.|++...
T Consensus 81 l~~~~~~-g~~~vv~G~i~sd--~~~~-~~e~~~~~~gl~~~~ 119 (194)
T cd01994 81 LRKLKEE-GVDAVVFGAILSE--YQRT-RVERVCERLGLEPLA 119 (194)
T ss_pred HHHHHHc-CCCEEEECccccH--HHHH-HHHHHHHHcCCEEEe
Confidence 3333344 6888888665553 3554 788889888886553
No 14
>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=95.94 E-value=0.19 Score=32.86 Aligned_cols=112 Identities=15% Similarity=0.100 Sum_probs=64.6
Q ss_pred cHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeE--EEEECChhhHHHHHHH
Q psy9352 21 NPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRL--YVVQGKPEEVFPDIFK 98 (146)
Q Consensus 21 N~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L--~v~~g~~~~~l~~l~~ 98 (146)
..++..|...+.. .+.++.++|+.++..............-..+.|..+...+...|+++ .+..|++.+.+.+.++
T Consensus 13 ~~~l~~a~~~a~~--~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 90 (130)
T cd00293 13 ERALRWAARLARR--LGAELVLLHVVDPPPSSAAELAELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAE 90 (130)
T ss_pred HHHHHHHHHHHHh--cCCEEEEEEEecCCCCcchhHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHH
Confidence 3455666554433 34569999998764321100011122334466667766666677776 5556888899999999
Q ss_pred HcCccEEEEeeecChh--HHHHHHHHHHHHHhCCCeEE
Q psy9352 99 TWNIKLLTWEYDIEPY--AKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 99 ~~~~~~v~~~~~~~~~--~~~rd~~v~~~~~~~~i~~~ 134 (146)
+.+++.|+....-... .........+++++.++++.
T Consensus 91 ~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~~~pvl 128 (130)
T cd00293 91 ELGADLIVMGSRGRSGLRRLLLGSVAERVLRHAPCPVL 128 (130)
T ss_pred HcCCCEEEEcCCCCCccceeeeccHHHHHHhCCCCCEE
Confidence 9999999985432111 11122234445555556554
No 15
>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=95.90 E-value=0.32 Score=33.27 Aligned_cols=90 Identities=11% Similarity=-0.002 Sum_probs=54.9
Q ss_pred cCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCCh--hh-------HHHHHHHHHHHHHHHHhcCCe--EEEEEC
Q psy9352 19 HDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGP--NR-------WRFLQQSLADLDQKFRALGSR--LYVVQG 87 (146)
Q Consensus 19 ~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~--~r-------~~Fl~~sL~~L~~~L~~~g~~--L~v~~g 87 (146)
.-..||..|++.+.. .+.++..+++.++........+. .. ..-..+-|....+.+++.|.+ ..+..|
T Consensus 11 ~s~~al~~a~~~a~~--~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~g 88 (146)
T cd01989 11 KSKNALKWALDNLAT--KGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLED 88 (146)
T ss_pred ccHHHHHHHHHhccC--CCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCeEEEEEEeC
Confidence 345788888876543 35569999998874332111110 00 011223344444455555654 455565
Q ss_pred -ChhhHHHHHHHHcCccEEEEeee
Q psy9352 88 -KPEEVFPDIFKTWNIKLLTWEYD 110 (146)
Q Consensus 88 -~~~~~l~~l~~~~~~~~v~~~~~ 110 (146)
+|.+.|.+.+++.+++.|++-..
T Consensus 89 ~~~~~~I~~~a~~~~~dlIV~Gs~ 112 (146)
T cd01989 89 DDVAKAIVEYVADHGITKLVMGAS 112 (146)
T ss_pred CcHHHHHHHHHHHcCCCEEEEecc
Confidence 89999999999999999998654
No 16
>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=95.83 E-value=0.31 Score=32.45 Aligned_cols=89 Identities=12% Similarity=0.020 Sum_probs=57.6
Q ss_pred cHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEE---ECChhhHHHHHH
Q psy9352 21 NPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVV---QGKPEEVFPDIF 97 (146)
Q Consensus 21 N~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~---~g~~~~~l~~l~ 97 (146)
..+|..|...+.. .+.++..++++++..............-..+.+..+.+.+++.|++.... .|++.+.+.+++
T Consensus 13 ~~~l~~a~~la~~--~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a 90 (132)
T cd01988 13 RDLLELAAALARA--QNGEIIPLNVIEVPNHSSPSQLEVNVQRARKLLRQAERIAASLGVPVHTIIRIDHDIASGILRTA 90 (132)
T ss_pred HHHHHHHHHHhhc--CCCeEEEEEEEecCCCCCcchhHHHHHHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHH
Confidence 3567777654432 24569999999864321100011122345567777777777888876433 478989999999
Q ss_pred HHcCccEEEEeeec
Q psy9352 98 KTWNIKLLTWEYDI 111 (146)
Q Consensus 98 ~~~~~~~v~~~~~~ 111 (146)
++.+++.|++-..-
T Consensus 91 ~~~~~dlIV~G~~~ 104 (132)
T cd01988 91 KERQADLIIMGWHG 104 (132)
T ss_pred HhcCCCEEEEecCC
Confidence 99999999986553
No 17
>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=95.83 E-value=0.18 Score=38.23 Aligned_cols=97 Identities=19% Similarity=0.240 Sum_probs=62.4
Q ss_pred cHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE--CC---hhhHHHH
Q psy9352 21 NPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ--GK---PEEVFPD 95 (146)
Q Consensus 21 N~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--g~---~~~~l~~ 95 (146)
+-||+.|.+. .. ++++...-|... .+..|-.-.+.-++.+-+.+|+||+.+. +. -.+.+.+
T Consensus 14 ~~al~~a~~~-~~------v~~L~t~~~~~~-------~s~~~H~~~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~ 79 (223)
T TIGR00290 14 CLALYHALKE-HE------VISLVNIMPENE-------ESYMFHGVNAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKG 79 (223)
T ss_pred HHHHHHHHHh-Ce------eEEEEEEecCCC-------CcccccccCHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHH
Confidence 4578888877 65 777776655421 1222211144555566678999997754 22 3445666
Q ss_pred HHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 96 IFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 96 l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
+.++.+++.|++-.-...+ +|. ++.+.|++.|++..
T Consensus 80 ~l~~~gv~~vv~GdI~s~~--qr~-~~e~v~~~lgl~~~ 115 (223)
T TIGR00290 80 ILHTLDVEAVVFGAIYSEY--QKT-RIERVCRELGLKSF 115 (223)
T ss_pred HHHHcCCCEEEECCcccHH--HHH-HHHHHHHhcCCEEe
Confidence 6677799999997666533 444 77888888888654
No 18
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=95.82 E-value=0.17 Score=41.01 Aligned_cols=113 Identities=10% Similarity=0.045 Sum_probs=68.3
Q ss_pred cHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHh------cCCeEE--EEE------
Q psy9352 21 NPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRA------LGSRLY--VVQ------ 86 (146)
Q Consensus 21 N~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~------~g~~L~--v~~------ 86 (146)
..|+.+|++.+...+.+..+..+++.++...... ...-..--.+-++..++.+++ .|++.. +..
T Consensus 19 ~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~~--~~~~~~~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~ 96 (357)
T PRK12652 19 RQTVAYAVESAEEAAETPTVHLVAAASGRAVDPE--GQDELAAAEELLERVEVWATEDLGDDASSVTIETALLGTDEYLF 96 (357)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEEEEecCcccccc--hhHHHHHHHHHHHHHHHHHHHhhhcccCCCceEEEEEecccccc
Confidence 4678888776532111345999999986432111 110001112334555555444 477653 333
Q ss_pred --CChhhHHHHHHHHcCccEEEEeeecChhHHH-HHHHHHHHHHhCCCeEEE
Q psy9352 87 --GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKK-RDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 87 --g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~-rd~~v~~~~~~~~i~~~~ 135 (146)
|+|.+.|.+.+++++++.|+...+|.|..-. .=+-+...+.+.|+.++.
T Consensus 97 ~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 97 GPGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPLERELARAGITYEE 148 (357)
T ss_pred CCCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchHHHHHHhcCCceec
Confidence 8999999999999999999999999765421 112355556677887664
No 19
>PRK15005 universal stress protein F; Provisional
Probab=95.57 E-value=0.23 Score=33.85 Aligned_cols=87 Identities=10% Similarity=0.105 Sum_probs=52.0
Q ss_pred HHHHHHHhcCCCCCCCceEEEEEEECCCcc-CCCCC-----ChhhHHH---HHHHHHHHHHHHHhcC--CeEEEEECChh
Q psy9352 22 PALLSAINYKNEKGQNILLKPLYILDPHFR-KFMRV-----GPNRWRF---LQQSLADLDQKFRALG--SRLYVVQGKPE 90 (146)
Q Consensus 22 ~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~-~~~~~-----~~~r~~F---l~~sL~~L~~~L~~~g--~~L~v~~g~~~ 90 (146)
.|+..|++.+.. .+.++..++++++... ..... .+..... ..+.|.++.+.+...| +..++..|+|.
T Consensus 19 ~a~~~a~~la~~--~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~G~p~ 96 (144)
T PRK15005 19 RVISHVEAEAKI--DDAEVHFLTVIPSLPYYASLGLAYSAELPAMDDLKAEAKSQLEEIIKKFKLPTDRVHVHVEEGSPK 96 (144)
T ss_pred HHHHHHHHHHhc--cCCeEEEEEEEccCcccccccccccccchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCCCHH
Confidence 577777655432 3456888999876321 10000 0111111 2234444444444334 35688889999
Q ss_pred hHHHHHHHHcCccEEEEeee
Q psy9352 91 EVFPDIFKTWNIKLLTWEYD 110 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~ 110 (146)
+.|.+.+++.+++-|++...
T Consensus 97 ~~I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 97 DRILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHHHcCCCEEEEeCC
Confidence 99999999999999999654
No 20
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=95.23 E-value=0.41 Score=39.46 Aligned_cols=127 Identities=8% Similarity=0.079 Sum_probs=86.0
Q ss_pred eEEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE
Q psy9352 7 CAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ 86 (146)
Q Consensus 7 ~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~ 86 (146)
.+++|.=.|-=.++++||.. ..+ . .-.+-|=+.......+.-..+.-++..+++.+...|+..|.......
T Consensus 3 ~~~~lvLgdQL~~~~~al~~--d~~-~------~~vllvE~~~~a~~~r~HkqKl~lv~aAMR~Fad~LraeG~~V~Y~~ 73 (505)
T COG3046 3 SSVVLVLGDQLSEDHSALGD--DRS-Q------DGVLLVESAAEARYRRHHKQKLVLVFAAMRHFADELRAEGLKVRYER 73 (505)
T ss_pred ceEEEEeccccccccchhcc--Ccc-c------CcEEEehhHhHhhhhhcchhhhHHHHHHHHHHHHHHhhCCceeEEEE
Confidence 46888889998999888865 111 1 11222222211121222346777899999999999999999886555
Q ss_pred CC---hhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC-eeeeCC
Q psy9352 87 GK---PEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH-TLYNTN 145 (146)
Q Consensus 87 g~---~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~-~L~~p~ 145 (146)
-+ -...|...++.++.++|++.+.- +..-+..++++.-..||++..+++. .|+++.
T Consensus 74 ~~~~~~~~~l~~~l~~~~~d~~~~~~p~---~~~l~~~m~~L~~~~g~~i~~~~~~~Fl~s~a 133 (505)
T COG3046 74 ADDNSFGGELRRALEAYPGDRVQVQEPG---DHRLEARMKSLSMALGIEITEVENPHFLCSRA 133 (505)
T ss_pred cCCcccchHHHHHHHhcCCCeEEEecCc---chhHHHHHHhhhhhcCceeEEecCcceecCHH
Confidence 33 35678888999999999997533 3344446777666789999999876 666543
No 21
>PRK15456 universal stress protein UspG; Provisional
Probab=94.66 E-value=0.43 Score=32.67 Aligned_cols=87 Identities=11% Similarity=0.061 Sum_probs=51.9
Q ss_pred cHHHHHHHhcCCCCCCCceEEEEEEECCCccCCC-C--CC--hhh---HHHHHHHHHHHHHHHHhcCC--eEEEEECChh
Q psy9352 21 NPALLSAINYKNEKGQNILLKPLYILDPHFRKFM-R--VG--PNR---WRFLQQSLADLDQKFRALGS--RLYVVQGKPE 90 (146)
Q Consensus 21 N~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~-~--~~--~~r---~~Fl~~sL~~L~~~L~~~g~--~L~v~~g~~~ 90 (146)
..|+.+|++.+.. ...+..++++++...... . .. ... ..-..+.|.++.+.+...|. ..++..|+|.
T Consensus 18 ~~al~~A~~la~~---~~~l~llhv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~~~v~~G~~~ 94 (142)
T PRK15456 18 DKAVRHAEFLAQD---DGVIHLLHVLPGSASLSLHRFAADVRRFEEHLQHEAEERLQTMVSHFTIDPSRIKQHVRFGSVR 94 (142)
T ss_pred HHHHHHHHHHHhc---CCeEEEEEEecCcccccccccccchhhHHHHHHHHHHHHHHHHHHHhCCCCcceEEEEcCCChH
Confidence 4667777765432 124888899876422100 0 00 011 11222334455544433333 5677789999
Q ss_pred hHHHHHHHHcCccEEEEeee
Q psy9352 91 EVFPDIFKTWNIKLLTWEYD 110 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~ 110 (146)
+.|.+++++.+++-|++-..
T Consensus 95 ~~I~~~a~~~~~DLIVmG~~ 114 (142)
T PRK15456 95 DEVNELAEELGADVVVIGSR 114 (142)
T ss_pred HHHHHHHhhcCCCEEEEcCC
Confidence 99999999999999998554
No 22
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=94.51 E-value=0.66 Score=35.09 Aligned_cols=99 Identities=19% Similarity=0.242 Sum_probs=65.7
Q ss_pred cHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE--C---ChhhHHHH
Q psy9352 21 NPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ--G---KPEEVFPD 95 (146)
Q Consensus 21 N~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--g---~~~~~l~~ 95 (146)
+-|++.|.+.+.. |.++.++-|.... ++.|-.-.+.-....-+..|++++... | .-.+.+.+
T Consensus 14 ~~Al~~a~~~G~e------V~~Ll~~~p~~~d-------S~m~H~~n~~~~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~ 80 (223)
T COG2102 14 FYALYLALEEGHE------VVYLLTVKPENGD-------SYMFHTPNLELAELQAEAMGIPLVTFDTSGEEEREVEELKE 80 (223)
T ss_pred HHHHHHHHHcCCe------eEEEEEEecCCCC-------eeeeeccchHHHHHHHHhcCCceEEEecCccchhhHHHHHH
Confidence 6789999988776 8888888775331 111211233333334456799987765 3 23456677
Q ss_pred HHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 96 IFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 96 l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
+.+..+++.|+.-.-+.-+ ++. ++.++|++.|+.+..
T Consensus 81 ~l~~l~~d~iv~GaI~s~y--qk~-rve~lc~~lGl~~~~ 117 (223)
T COG2102 81 ALRRLKVDGIVAGAIASEY--QKE-RVERLCEELGLKVYA 117 (223)
T ss_pred HHHhCcccEEEEchhhhHH--HHH-HHHHHHHHhCCEEee
Confidence 7788899999997766643 444 788889999987654
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=94.22 E-value=0.13 Score=38.71 Aligned_cols=95 Identities=17% Similarity=0.239 Sum_probs=52.0
Q ss_pred HHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHH--HHHHHHHHHhcCCeEEEEE--CCh---hhHHH
Q psy9352 22 PALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQS--LADLDQKFRALGSRLYVVQ--GKP---EEVFP 94 (146)
Q Consensus 22 ~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~s--L~~L~~~L~~~g~~L~v~~--g~~---~~~l~ 94 (146)
-||+.|.+. .+ +.++..+-|.... .++.++ +.-++.+-+.+|+||+... |+. .+.+.
T Consensus 15 lAl~~a~~~-~~------v~~L~t~~~~~~~---------s~~~H~~~~~~~~~qA~algipl~~~~~~g~~~~~~~~l~ 78 (218)
T PF01902_consen 15 LALYRALRQ-HE------VVCLLTMVPEEED---------SYMFHGVNIELIEAQAEALGIPLIEIPTSGDEEDYVEDLK 78 (218)
T ss_dssp HHHHHHHHT--E------EEEEEEEEESTTT----------SSS-STTGTCHHHHHHHHT--EEEEEE---CCCHHHHHH
T ss_pred HHHHHHHHh-CC------ccEEEEeccCCCC---------cccccccCHHHHHHHHHHCCCCEEEEEccCccchhhHHHH
Confidence 578888877 55 7777766553221 111222 3334455567899998765 223 34566
Q ss_pred HHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 95 DIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 95 ~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
+..++.++++|++-.-.. +..|. ++.+.|.+.|++...
T Consensus 79 ~~l~~~~v~~vv~GdI~~--~~~r~-~~e~vc~~lGl~~~~ 116 (218)
T PF01902_consen 79 EALKELKVEAVVFGDIDS--EYQRN-WVERVCERLGLEAVF 116 (218)
T ss_dssp HHHCTC--SEEE--TTS---HHHHH-HHHHHHHHCT-EEE-
T ss_pred HHHHHcCCCEEEECcCCc--HHHHH-HHHHHHHHcCCEEEe
Confidence 667788999999975544 33555 788889999987653
No 24
>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=93.60 E-value=1.4 Score=33.02 Aligned_cols=97 Identities=16% Similarity=0.178 Sum_probs=55.4
Q ss_pred HHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECC-----hh----hH
Q psy9352 22 PALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGK-----PE----EV 92 (146)
Q Consensus 22 ~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~-----~~----~~ 92 (146)
-+++.|.+.+.. +++++.+.+.... ... |-...+..+++..+.+|++++++.-+ .. ..
T Consensus 12 ~al~~a~~~G~~------v~~l~~~~~~~~~--~~~-----~~~~~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~ 78 (218)
T TIGR03679 12 YALYKALEEGHE------VRCLITVVPENEE--SYM-----FHTPNIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGA 78 (218)
T ss_pred HHHHHHHHcCCE------EEEEEEeccCCCC--ccc-----cCCCCHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHH
Confidence 355666665544 7767666553210 101 11124556677778899999888743 11 23
Q ss_pred HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 93 FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 93 l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
+.++.++ +++.|++-.-...+ . +..+.+.|.+.|+++..
T Consensus 79 l~~~~~~-g~~~vv~G~i~sd~--~-~~~~e~v~~~~gl~~~~ 117 (218)
T TIGR03679 79 LKELKRE-GVEGIVTGAIASRY--Q-KSRIERICEELGLKVFA 117 (218)
T ss_pred HHHHHHc-CCCEEEECCcccHh--H-HHHHHHHHHhCCCeEEe
Confidence 3344343 89999986555432 2 33666777778876653
No 25
>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=93.21 E-value=1.6 Score=28.83 Aligned_cols=82 Identities=11% Similarity=0.189 Sum_probs=53.3
Q ss_pred CcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE-CChhhHHHHHHH
Q psy9352 20 DNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ-GKPEEVFPDIFK 98 (146)
Q Consensus 20 DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~ 98 (146)
...++..|+..+.. .+.++..+++.++.... ..... .+.|..+.+..++.+++..+.. |++.+.|.+.++
T Consensus 12 s~~al~~a~~la~~--~~~~l~ll~v~~~~~~~---~~~~~----~~~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~ 82 (124)
T cd01987 12 AERLIRRAARLADR--LKAPWYVVYVETPRLNR---LSEAE----RRRLAEALRLAEELGAEVVTLPGDDVAEAIVEFAR 82 (124)
T ss_pred hHHHHHHHHHHHHH--hCCCEEEEEEecCcccc---CCHHH----HHHHHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHH
Confidence 34566666654432 24459999998875321 11111 1335555566667788765554 678899999999
Q ss_pred HcCccEEEEeee
Q psy9352 99 TWNIKLLTWEYD 110 (146)
Q Consensus 99 ~~~~~~v~~~~~ 110 (146)
+.+++.|++-..
T Consensus 83 ~~~~dllviG~~ 94 (124)
T cd01987 83 EHNVTQIVVGKS 94 (124)
T ss_pred HcCCCEEEeCCC
Confidence 999999998654
No 26
>PRK10490 sensor protein KdpD; Provisional
Probab=92.74 E-value=1.8 Score=39.11 Aligned_cols=111 Identities=12% Similarity=0.182 Sum_probs=67.2
Q ss_pred cCcHHHHHH-HhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEEC-ChhhHHHHH
Q psy9352 19 HDNPALLSA-INYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQG-KPEEVFPDI 96 (146)
Q Consensus 19 ~DN~aL~~A-~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l 96 (146)
..+..|.+. +..+.. .+.++.++||-++..- ..+.....-+.+.+. |. +++|.....+.| ++.+.|.++
T Consensus 261 ~~~~~lIr~~~rlA~~--~~a~~~~l~V~~~~~~---~~~~~~~~~l~~~~~-lA---~~lGa~~~~~~~~dva~~i~~~ 331 (895)
T PRK10490 261 TGSEKLVRTAARLAAR--LGSVWHAVYVETPRLH---RLPEKKRRAILSALR-LA---QELGAETATLSDPAEEKAVLRY 331 (895)
T ss_pred cchHHHHHHHHHHHHh--cCCCEEEEEEecCCcC---cCCHHHHHHHHHHHH-HH---HHcCCEEEEEeCCCHHHHHHHH
Confidence 344455443 334433 4567999999877421 122223333444442 33 457999888876 688999999
Q ss_pred HHHcCccEEEEeeecChhHHHHHHHHHHHHHh-CCCeEEEecC
Q psy9352 97 FKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKE-YKVKVEQHVS 138 (146)
Q Consensus 97 ~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~-~~i~~~~~~~ 138 (146)
+++.+++.|++-+.-......+...+.++++. .+|.++.+.+
T Consensus 332 A~~~~vt~IViG~s~~~~~~~~~s~~~~l~r~~~~idi~iv~~ 374 (895)
T PRK10490 332 AREHNLGKIIIGRRASRRWWRRESFADRLARLGPDLDLVIVAL 374 (895)
T ss_pred HHHhCCCEEEECCCCCCCCccCCCHHHHHHHhCCCCCEEEEeC
Confidence 99999999999876543221121234444443 5688888753
No 27
>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=92.54 E-value=1.2 Score=28.91 Aligned_cols=69 Identities=17% Similarity=0.170 Sum_probs=49.3
Q ss_pred HHHHHHHHHhcCCeEEEE---ECChhhH--HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCe
Q psy9352 68 LADLDQKFRALGSRLYVV---QGKPEEV--FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHT 140 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~---~g~~~~~--l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~ 140 (146)
...+++.+++.|..+... .|..... |++.+.+ ++.|++-.++-....- ..+++.+++.|+++....+..
T Consensus 12 ~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~--aD~VIv~t~~vsH~~~--~~vk~~akk~~ip~~~~~~~~ 85 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKK--ADLVIVFTDYVSHNAM--WKVKKAAKKYGIPIIYSRSRG 85 (97)
T ss_pred HHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCC--CCEEEEEeCCcChHHH--HHHHHHHHHcCCcEEEECCCC
Confidence 567788889999999988 3333333 6666654 7778876677554333 368899999999999887543
No 28
>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=92.18 E-value=2.2 Score=27.83 Aligned_cols=57 Identities=9% Similarity=0.070 Sum_probs=39.6
Q ss_pred CeEEEEECChhhHHHHHHHHcCccEEEEeeec-ChhHH-HHHHHHHHHHHhCCCeEEEe
Q psy9352 80 SRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDI-EPYAK-KRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 80 ~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~-~~~~~-~rd~~v~~~~~~~~i~~~~~ 136 (146)
....+..|++.+.+.+++++.+++.|++...- ++... -.-....+.++...+++..+
T Consensus 81 ~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~~~pVlvv 139 (140)
T PF00582_consen 81 IEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHAPCPVLVV 139 (140)
T ss_dssp EEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHTSSEEEEE
T ss_pred eEEEEEeeccchhhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcCCCCEEEe
Confidence 34566679999999999999999999997765 22211 12234556666777877654
No 29
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=91.92 E-value=0.92 Score=33.91 Aligned_cols=66 Identities=12% Similarity=0.164 Sum_probs=52.3
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecCh-----------h--HHHHHHHHHHHHHhCCCe
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEP-----------Y--AKKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~-----------~--~~~rd~~v~~~~~~~~i~ 132 (146)
...+|-+.+++.|....|+.|.+......+++..|++.++.|.-... . .......+.+++++.|+.
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 37788999999999999999999999999999999987776643211 1 124555788888888886
No 30
>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=91.75 E-value=1.7 Score=31.40 Aligned_cols=69 Identities=12% Similarity=0.051 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeee-c-----------Ch--hHHHHHHHHHHHHHhC
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYD-I-----------EP--YAKKRDGLVEDMAKEY 129 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~-~-----------~~--~~~~rd~~v~~~~~~~ 129 (146)
+.....++-+.+++.|.++.|..+.+...+..+++..+++.++.++- + ++ .....-..+.+++++.
T Consensus 88 ~~~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~~l~~~~~g~~~g~~~~~~~~g~~K~~~l~~~~~~~ 167 (202)
T TIGR01490 88 LYPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGTRLEESEDGIYTGNIDGNNCKGEGKVHALAELLAEE 167 (202)
T ss_pred ccHHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEecceEEcCCCEEeCCccCCCCCChHHHHHHHHHHHHc
Confidence 34466666677888999999999999999999999999988876521 1 01 1122333577777777
Q ss_pred CCe
Q psy9352 130 KVK 132 (146)
Q Consensus 130 ~i~ 132 (146)
++.
T Consensus 168 ~~~ 170 (202)
T TIGR01490 168 QID 170 (202)
T ss_pred CCC
Confidence 773
No 31
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=91.68 E-value=0.88 Score=37.68 Aligned_cols=67 Identities=15% Similarity=0.153 Sum_probs=54.1
Q ss_pred HHHHHHHHHHhcCCeEEEEE--CChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 67 SLADLDQKFRALGSRLYVVQ--GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~--g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
=|..+.+++.++|...|+-. .++.+++.+++.+.+++.|+-++....+|. .+.+.|++.|+.+...|
T Consensus 66 ~l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEI----gln~~Le~~G~ev~ETD 134 (459)
T COG1139 66 YLEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEI----GLNHYLEEKGIEVWETD 134 (459)
T ss_pred HHHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHh----hhHHHHHHcCCeEEEcc
Confidence 35666777889999999887 456688999999999999999999987755 47777888899887654
No 32
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=91.30 E-value=3.3 Score=28.14 Aligned_cols=115 Identities=10% Similarity=0.058 Sum_probs=60.8
Q ss_pred cCcHHHHHHHhcCCCCCCCceEEEEEEECCC-cc-CC---CCCChhhHHHHHHHHHHHHHHHHhcCCeE---EEEECChh
Q psy9352 19 HDNPALLSAINYKNEKGQNILLKPLYILDPH-FR-KF---MRVGPNRWRFLQQSLADLDQKFRALGSRL---YVVQGKPE 90 (146)
Q Consensus 19 ~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~-~~-~~---~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L---~v~~g~~~ 90 (146)
....||..|.+.+.. .+..+..+++..+. .. .. ......+.....+....|++-++..|++. ++..|+|.
T Consensus 15 ~s~~al~~a~~la~~--~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~G~p~ 92 (144)
T PRK15118 15 ESKVLVEKAVSMARP--YNAKVSLIHVDVNYSDLYTGLIDVNLGDMQKRISEETHHALTELSTNAGYPITETLSGSGDLG 92 (144)
T ss_pred hHHHHHHHHHHHHHh--hCCEEEEEEEccChhhhhhhhhhcchHHHHHHHHHHHHHHHHHHHHhCCCCceEEEEEecCHH
Confidence 446788887765432 23347777773221 11 00 00001111112222233444345556653 44579999
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHH-HHHHHHHHHhCCCeEEEec
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKR-DGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~r-d~~v~~~~~~~~i~~~~~~ 137 (146)
+.|.+.+++.+++-|+....-. ...+ =....+.++...|++-.+.
T Consensus 93 ~~I~~~a~~~~~DLIV~Gs~~~--~~~~lgSva~~v~~~a~~pVLvv~ 138 (144)
T PRK15118 93 QVLVDAIKKYDMDLVVCGHHQD--FWSKLMSSARQLINTVHVDMLIVP 138 (144)
T ss_pred HHHHHHHHHhCCCEEEEeCccc--HHHHHHHHHHHHHhhCCCCEEEec
Confidence 9999999999999999966532 1111 1122334555677776654
No 33
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=90.84 E-value=1.2 Score=39.22 Aligned_cols=61 Identities=20% Similarity=0.288 Sum_probs=45.7
Q ss_pred HHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.+.-++|+++|+..+++.||....-..++++.|+++++. +..|.++.. .|+++ ++.|=.+-
T Consensus 543 ~~aI~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~A--ellPedK~~--~V~~l-~~~g~~Va 603 (713)
T COG2217 543 KEAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRA--ELLPEDKAE--IVREL-QAEGRKVA 603 (713)
T ss_pred HHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhhec--cCCcHHHHH--HHHHH-HhcCCEEE
Confidence 344456778999999999999999999999999999999 556765543 45554 45553333
No 34
>PRK11175 universal stress protein UspE; Provisional
Probab=89.97 E-value=4.5 Score=31.16 Aligned_cols=114 Identities=14% Similarity=0.077 Sum_probs=61.0
Q ss_pred HHHHHHHhcCCCCCC-CceEEEEEEECCCccCC------CCCChhhHHHHHHHHHHHHHHHHhcCCe---EEEEECChhh
Q psy9352 22 PALLSAINYKNEKGQ-NILLKPLYILDPHFRKF------MRVGPNRWRFLQQSLADLDQKFRALGSR---LYVVQGKPEE 91 (146)
Q Consensus 22 ~aL~~A~~~~~~~~~-~~~l~~vfv~d~~~~~~------~~~~~~r~~Fl~~sL~~L~~~L~~~g~~---L~v~~g~~~~ 91 (146)
.+|..|...+.. . +..+..++++++..... ..........-.+....+++-+++.|++ .++..|++.+
T Consensus 174 ~al~~a~~la~~--~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~~~~ 251 (305)
T PRK11175 174 KLVEEAIDLAEQ--LNHAEVHLVNAYPVTPINIAIELPEFDPSVYNDAIRGQHLLAMKALRQKFGIDEEQTHVEEGLPEE 251 (305)
T ss_pred HHHHHHHHHHhh--CcCCceEEEEEecCcchhccccccccchhhHHHHHHHHHHHHHHHHHHHhCCChhheeeccCCHHH
Confidence 466667653322 1 33478888876432110 0001111111122333444444555654 5677899999
Q ss_pred HHHHHHHHcCccEEEEeeec-Chh-HHHHHHHHHHHHHhCCCeEEEec
Q psy9352 92 VFPDIFKTWNIKLLTWEYDI-EPY-AKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 92 ~l~~l~~~~~~~~v~~~~~~-~~~-~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|.+.+++.+++-|++...- +.. ..-.-....+.++...+++-.+.
T Consensus 252 ~I~~~a~~~~~DLIVmG~~~~~~~~~~llGS~a~~v~~~~~~pVLvv~ 299 (305)
T PRK11175 252 VIPDLAEHLDAELVILGTVGRTGLSAAFLGNTAEHVIDHLNCDLLAIK 299 (305)
T ss_pred HHHHHHHHhCCCEEEECCCccCCCcceeecchHHHHHhcCCCCEEEEc
Confidence 99999999999999985431 110 00011123444556678777664
No 35
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=89.14 E-value=1.6 Score=35.44 Aligned_cols=62 Identities=15% Similarity=0.103 Sum_probs=43.2
Q ss_pred HHHHhcCC--eEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 73 QKFRALGS--RLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 73 ~~L~~~g~--~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.+|+++|+ ..+.+.+.|.....+.+-+.++.+|+.-.|+.|.+..--+.+.+.++..||+|.
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 35788888 466677777665566666678888887667766544323356778889999884
No 36
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=88.47 E-value=4.4 Score=35.65 Aligned_cols=60 Identities=18% Similarity=0.173 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYK 130 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~ 130 (146)
....+.-++|++.|+...++.||....-..++++.|++.++.+ ..|..+.+ +.+.+++.|
T Consensus 444 ~~a~e~I~~Lr~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~--~~PedK~~---iV~~lQ~~G 503 (673)
T PRK14010 444 DGLVERFRELREMGIETVMCTGDNELTAATIAKEAGVDRFVAE--CKPEDKIN---VIREEQAKG 503 (673)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCceEEcC--CCHHHHHH---HHHHHHhCC
Confidence 4455556677889999999999999999999999999998884 56654443 444455666
No 37
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=88.30 E-value=4.3 Score=26.58 Aligned_cols=62 Identities=24% Similarity=0.435 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHhcCCeEEE--E-------------ECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhC
Q psy9352 65 QQSLADLDQKFRALGSRLYV--V-------------QGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEY 129 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v--~-------------~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~ 129 (146)
-++|.+|..-.+..|+...- . .|. .+.+.++++..+++.|+++.+.+|. +.| .+.+.+
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-VEEIKELIEELDADLVVFDNELSPS-QQR--NLEKAL--- 79 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhH-HHHHHHHHhhcCCCEEEECCCCCHH-HHH--HHHHHH---
Confidence 47888888888888876531 1 133 3567889999999999999988873 332 455554
Q ss_pred CCeE
Q psy9352 130 KVKV 133 (146)
Q Consensus 130 ~i~~ 133 (146)
|++|
T Consensus 80 ~~~V 83 (95)
T PF13167_consen 80 GVKV 83 (95)
T ss_pred CCee
Confidence 5654
No 38
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=88.03 E-value=4.9 Score=35.40 Aligned_cols=60 Identities=13% Similarity=0.142 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYK 130 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~ 130 (146)
....+.=++|++.|+...++.||....-..++++.|++.++.+ ..|..+.+ .| +.+++.|
T Consensus 448 ~~~~eai~~Lr~~GI~vvMiTGDn~~TA~aIA~elGId~v~A~--~~PedK~~--iV-~~lQ~~G 507 (679)
T PRK01122 448 PGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFLAE--ATPEDKLA--LI-RQEQAEG 507 (679)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCcEEEcc--CCHHHHHH--HH-HHHHHcC
Confidence 4455556678889999999999999999999999999999884 46654432 34 4455555
No 39
>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=87.53 E-value=5.5 Score=28.04 Aligned_cols=67 Identities=10% Similarity=0.013 Sum_probs=46.4
Q ss_pred HHhcCCeEEEEECChhhHHHHHHHHc--CccEEEEeee-cChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCC
Q psy9352 75 FRALGSRLYVVQGKPEEVFPDIFKTW--NIKLLTWEYD-IEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTN 145 (146)
Q Consensus 75 L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~v~~~~~-~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~ 145 (146)
-+++|..+.+++.+.+..+-..+.+. +++.|+.|-- |+.... +++.+++..++++..++-+.++..+
T Consensus 37 a~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~vEVHiSNi~aRE 106 (141)
T TIGR01088 37 AAQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTSV----ALRDALAAVSLPVVEVHLSNVHARE 106 (141)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhHH----HHHHHHHcCCCCEEEEEcCCccccc
Confidence 34568999999988776666666553 4678998754 232222 6777777888999999877766543
No 40
>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=87.32 E-value=2.8 Score=30.15 Aligned_cols=39 Identities=18% Similarity=0.212 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKL 104 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 104 (146)
....++=++|++.|+++.++.|+.......++++.|+..
T Consensus 130 ~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~ 168 (215)
T PF00702_consen 130 PGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFD 168 (215)
T ss_dssp TTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCS
T ss_pred hhhhhhhhhhhccCcceeeeecccccccccccccccccc
Confidence 446666677888899999999999999999999999954
No 41
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=87.12 E-value=6.9 Score=34.47 Aligned_cols=64 Identities=14% Similarity=0.133 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
....+.=++|++.|+...++.|+.......++++.|++.++++ ..|..+.+ .++++. +.|-.+-
T Consensus 449 p~a~eaI~~l~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a~--~~PedK~~--~v~~lq-~~g~~Va 512 (675)
T TIGR01497 449 GGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVDDFIAE--ATPEDKIA--LIRQEQ-AEGKLVA 512 (675)
T ss_pred hHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEcC--CCHHHHHH--HHHHHH-HcCCeEE
Confidence 4556666777889999999999999999999999999999884 56654432 465554 4443333
No 42
>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=85.14 E-value=9.8 Score=28.16 Aligned_cols=72 Identities=18% Similarity=0.155 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC-h---hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK-P---EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~-~---~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|..+-+..+++.+++.|..+.+..++ + .+.+.+++.+.+++.|+....... + ...+.+.+.||++..++
T Consensus 17 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~-~~~~~~~~~~ipvV~~~ 90 (270)
T cd06294 17 PFFIEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED-----D-PIIDYLKEEKFPFVVIG 90 (270)
T ss_pred CCHHHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC-----c-HHHHHHHhcCCCEEEEC
Confidence 466677788888888999998876543 2 234455566667898887532211 1 23344567899999887
Q ss_pred CC
Q psy9352 138 SH 139 (146)
Q Consensus 138 ~~ 139 (146)
..
T Consensus 91 ~~ 92 (270)
T cd06294 91 KP 92 (270)
T ss_pred CC
Confidence 53
No 43
>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=85.05 E-value=3.4 Score=28.34 Aligned_cols=72 Identities=11% Similarity=0.163 Sum_probs=47.3
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeecChhHHHHHHHHHHHHHhCCC---eEEEecCC
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV---KVEQHVSH 139 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i---~~~~~~~~ 139 (146)
++.++=+.|++.|+++.++.+.+.+.+....+..++ +.|++..+.+..--..+ .+..++++.|+ .+..++|+
T Consensus 81 ~~~~~L~~l~~~~~~~~i~Sn~~~~~~~~~l~~~~~~~~f~~i~~~~~~~~~Kp~~~-~~~~~~~~~~~~p~~~~~vgD~ 159 (176)
T PF13419_consen 81 GVRELLERLKAKGIPLVIVSNGSRERIERVLERLGLDDYFDEIISSDDVGSRKPDPD-AYRRALEKLGIPPEEILFVGDS 159 (176)
T ss_dssp THHHHHHHHHHTTSEEEEEESSEHHHHHHHHHHTTHGGGCSEEEEGGGSSSSTTSHH-HHHHHHHHHTSSGGGEEEEESS
T ss_pred hhhhhhhhcccccceeEEeecCCcccccccccccccccccccccccchhhhhhhHHH-HHHHHHHHcCCCcceEEEEeCC
Confidence 455566677778999999998888888888888774 58888776653222222 55555655554 24444443
No 44
>PRK11175 universal stress protein UspE; Provisional
Probab=84.99 E-value=15 Score=28.14 Aligned_cols=121 Identities=11% Similarity=0.040 Sum_probs=67.5
Q ss_pred CCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCC-CCCC-hh----hHHHH---HHHHHHHHHHHHhcCCeEE--
Q psy9352 15 GMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKF-MRVG-PN----RWRFL---QQSLADLDQKFRALGSRLY-- 83 (146)
Q Consensus 15 DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~-~~~~-~~----r~~Fl---~~sL~~L~~~L~~~g~~L~-- 83 (146)
|+=-....||..|...+.. .+..+..+++.++..... .... .. +.... .+.|.+..+.++..|++..
T Consensus 11 D~s~~~~~al~~a~~lA~~--~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 88 (305)
T PRK11175 11 DPNQDDQPALRRAVYLAQR--NGGKITAFLPIYDFSYEMTTLLSPDEREAMRQGVISQRTAWIREQAKPYLDAGIPIEIK 88 (305)
T ss_pred CCCccccHHHHHHHHHHHh--cCCCEEEEEeccCchhhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEEE
Confidence 4444567888888765433 233477777764321110 0001 11 11112 2234444445555676653
Q ss_pred EE-ECChhhHHHHHHHHcCccEEEEeeecChhHHHHH---HHHHHHHHhCCCeEEEecC
Q psy9352 84 VV-QGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRD---GLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 84 v~-~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd---~~v~~~~~~~~i~~~~~~~ 138 (146)
+. .|++.+.|.+.+++.+++-|++...-.. ...+- ....++++...+++..+..
T Consensus 89 v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~-~~~~~~~gs~~~~l~~~~~~pvlvv~~ 146 (305)
T PRK11175 89 VVWHNRPFEAIIQEVIAGGHDLVVKMTHQHD-KLESVIFTPTDWHLLRKCPCPVLMVKD 146 (305)
T ss_pred EecCCCcHHHHHHHHHhcCCCEEEEeCCCCc-HHHhhccChhHHHHHhcCCCCEEEecc
Confidence 34 5899999999999999999999754321 11111 1124566677788887765
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=84.95 E-value=12 Score=28.17 Aligned_cols=72 Identities=15% Similarity=0.025 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
.|+.+-+..+++.+++.|..+.+...+......+.....+++.+++...... +..+ +.+++.|+++..++..
T Consensus 17 ~~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~-----~~~~-~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 17 PVASQFLAGVAEVLDAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPRD-----DPLV-AALLRRGLPVVVVDQP 88 (283)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCCC-----hHHH-HHHHHcCCCEEEEecC
Confidence 4667778888999999999998887654323334455678998888543211 1123 3346789999888653
No 46
>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=84.71 E-value=5 Score=29.31 Aligned_cols=44 Identities=9% Similarity=0.138 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
..+..++=+.|++.|.++.|+.+.....+..+.+..++..++.+
T Consensus 87 ~~g~~~~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~~~ 130 (219)
T TIGR00338 87 TEGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFAN 130 (219)
T ss_pred CCCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEee
Confidence 34667777888889999999999988888889999999887754
No 47
>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=83.53 E-value=4.6 Score=33.58 Aligned_cols=69 Identities=12% Similarity=0.153 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEC--ChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQG--KPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g--~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
+-+=|..+.+++++.|...+.... +..+.+.+++++.+++.|+..++....|. .+.+.+++.|+++...
T Consensus 49 ld~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eei----gl~~~L~~~g~~~~et 119 (432)
T TIGR00273 49 LDFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEI----GLNEVLEKIGIEVWET 119 (432)
T ss_pred HHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHh----CCHHHHHhCCCeeeeC
Confidence 445566777888889999888763 45578889999999999999887765433 4667777788876543
No 48
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=83.18 E-value=12 Score=34.09 Aligned_cols=39 Identities=15% Similarity=0.259 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
.....+.-++|++.|+...++.||....-..++++.|+.
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 356667777888899999999999999999999999997
No 49
>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=83.17 E-value=7.8 Score=28.59 Aligned_cols=61 Identities=20% Similarity=0.152 Sum_probs=36.0
Q ss_pred HHHHHhcCCeEEEEECCh--hhHHHHHHHHcCccEEEEeeecC-hhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 72 DQKFRALGSRLYVVQGKP--EEVFPDIFKTWNIKLLTWEYDIE-PYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 72 ~~~L~~~g~~L~v~~g~~--~~~l~~l~~~~~~~~v~~~~~~~-~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
-++|++.|..+. .++. .+.|.+.++ |++.|++.-... +.+.+....+.+++++.||+...+
T Consensus 37 ~~~l~~~g~~vv--~~d~~~~~~l~~al~--g~d~v~~~~~~~~~~~~~~~~~li~Aa~~agVk~~v~ 100 (233)
T PF05368_consen 37 AQQLQALGAEVV--EADYDDPESLVAALK--GVDAVFSVTPPSHPSELEQQKNLIDAAKAAGVKHFVP 100 (233)
T ss_dssp HHHHHHTTTEEE--ES-TT-HHHHHHHHT--TCSEEEEESSCSCCCHHHHHHHHHHHHHHHT-SEEEE
T ss_pred hhhhhcccceEe--ecccCCHHHHHHHHc--CCceEEeecCcchhhhhhhhhhHHHhhhccccceEEE
Confidence 345566777644 4443 344444444 788888766543 445566667777777888876654
No 50
>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=82.76 E-value=2.1 Score=30.09 Aligned_cols=43 Identities=12% Similarity=0.064 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
.+..++-+.+++.|.++.|+.+.+...+..+++.+++..++.|
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~ 118 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFAN 118 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheee
Confidence 4677777888899999999999999889999999998877754
No 51
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=82.71 E-value=5.7 Score=28.69 Aligned_cols=56 Identities=16% Similarity=0.162 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.++..|+ +.|+++.|..|.+...+..++++.++..++...+. . -..+.+++++.|+
T Consensus 55 ~~i~~L~----~~Gi~v~I~T~~~~~~v~~~l~~lgl~~~f~g~~~-----k-~~~l~~~~~~~gl 110 (183)
T PRK09484 55 YGIRCLL----TSGIEVAIITGRKSKLVEDRMTTLGITHLYQGQSN-----K-LIAFSDLLEKLAI 110 (183)
T ss_pred HHHHHHH----HCCCEEEEEeCCCcHHHHHHHHHcCCceeecCCCc-----H-HHHHHHHHHHhCC
Confidence 3555554 58999999999999999999999999877753211 1 2367777887776
No 52
>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=82.49 E-value=5.8 Score=28.52 Aligned_cols=66 Identities=9% Similarity=0.127 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeecChhHHHHHHHHHHHHHhCCCe
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDIEPYAKKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~ 132 (146)
.++.++=+.|++.|+++.++.+.+.+.+....+..|+ +.|++..+++..--..+ .+..++++.|+.
T Consensus 95 ~~~~~~L~~L~~~g~~~~i~Sn~~~~~~~~~l~~~gl~~~fd~i~~s~~~~~~KP~~~-~~~~~~~~~~~~ 164 (198)
T TIGR01428 95 PDVPAGLRALKERGYRLAILSNGSPAMLKSLVKHAGLDDPFDAVLSADAVRAYKPAPQ-VYQLALEALGVP 164 (198)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHCCChhhhheeEehhhcCCCCCCHH-HHHHHHHHhCCC
Confidence 4556666778888999999998888888888888775 66777666542211222 556666666653
No 53
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=82.24 E-value=13 Score=33.94 Aligned_cols=63 Identities=19% Similarity=0.167 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc-------------------------EEEEeeecChhHHHHHH
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK-------------------------LLTWEYDIEPYAKKRDG 120 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~-------------------------~v~~~~~~~~~~~~rd~ 120 (146)
....+.-++|++.|+...++.||....-..++++.|+. .||+ ...|..+.
T Consensus 553 ~~a~~aI~~l~~aGI~v~miTGD~~~tA~aIA~~lGI~~~~vi~G~el~~~~~~el~~~v~~~~VfA--r~sPe~K~--- 627 (903)
T PRK15122 553 ESAAPAIAALRENGVAVKVLTGDNPIVTAKICREVGLEPGEPLLGTEIEAMDDAALAREVEERTVFA--KLTPLQKS--- 627 (903)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCCCCCccchHhhhhCCHHHHHHHhhhCCEEE--EeCHHHHH---
Confidence 56667777888899999999999999999999999997 6776 34665443
Q ss_pred HHHHHHHhCCCeE
Q psy9352 121 LVEDMAKEYKVKV 133 (146)
Q Consensus 121 ~v~~~~~~~~i~~ 133 (146)
.+.+.+++.|-.|
T Consensus 628 ~iV~~Lq~~G~vV 640 (903)
T PRK15122 628 RVLKALQANGHTV 640 (903)
T ss_pred HHHHHHHhCCCEE
Confidence 4666677776333
No 54
>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=82.06 E-value=9.5 Score=27.98 Aligned_cols=96 Identities=13% Similarity=0.197 Sum_probs=60.7
Q ss_pred EEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE---------CCh----------hhHHHH-HHHH
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ---------GKP----------EEVFPD-IFKT 99 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~---------g~~----------~~~l~~-l~~~ 99 (146)
.+-||+..++....+ -.-|...+.++.++|..=----|++..|-. .+. ..+|.+ ++..
T Consensus 28 ~l~vFVV~eD~S~Fp--f~~R~~LVk~G~~~L~NV~V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~~lD~~iF~~~IAp~ 105 (182)
T PF08218_consen 28 WLHVFVVSEDRSLFP--FADRYELVKEGTADLPNVTVHPGGDYIISSATFPSYFLKDEDDVIKAQAELDATIFKKYIAPA 105 (182)
T ss_pred EEEEEEEccccCcCC--HHHHHHHHHHHhCcCCCEEEEcCCCeeeecccChhhhccchhHHHHHHHHHHHHHHHHHhhHh
Confidence 777888877543322 345888999999888654333355554432 111 113444 5667
Q ss_pred cCccEEEEeeec-ChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 100 WNIKLLTWEYDI-EPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 100 ~~~~~v~~~~~~-~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.||++-|.-.++ ++-...=.+.+.+.+...||++...+
T Consensus 106 L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei~ 144 (182)
T PF08218_consen 106 LGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEIP 144 (182)
T ss_pred cCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEEe
Confidence 899999997665 34333334578888888999988764
No 55
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=81.90 E-value=8.7 Score=27.97 Aligned_cols=54 Identities=11% Similarity=0.142 Sum_probs=41.2
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCe
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~ 132 (146)
.++++.|+.++|...+...-+...++..++.-|+...-+.+ + .+++++++.+++
T Consensus 56 ~e~k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~A~KP~~--~----~fr~Al~~m~l~ 109 (175)
T COG2179 56 AELKEAGIKVVVVSNNKESRVARAAEKLGVPFIYRAKKPFG--R----AFRRALKEMNLP 109 (175)
T ss_pred HHHHhcCCEEEEEeCCCHHHHHhhhhhcCCceeecccCccH--H----HHHHHHHHcCCC
Confidence 46788899999999999999999999999999998654433 2 455555555553
No 56
>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=81.84 E-value=4 Score=29.19 Aligned_cols=43 Identities=12% Similarity=0.084 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
.+..++=+.|++.|+++.|+.+.+...+..+++..|+..++.+
T Consensus 83 ~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~~ 125 (201)
T TIGR01491 83 DYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYSN 125 (201)
T ss_pred ccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEEE
Confidence 4667777888889999999999998889999999998877654
No 57
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=81.66 E-value=4.4 Score=28.17 Aligned_cols=44 Identities=9% Similarity=0.151 Sum_probs=29.1
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
+.+.+++++.+++.|+..-+.. +.++-+.+.+.|++.||+++..
T Consensus 131 ~~l~~~~~~~~id~v~ial~~~--~~~~i~~ii~~~~~~~v~v~~v 174 (175)
T PF13727_consen 131 DDLPELVREHDIDEVIIALPWS--EEEQIKRIIEELENHGVRVRVV 174 (175)
T ss_dssp GGHHHHHHHHT--EEEE--TTS---HHHHHHHHHHHHTTT-EEEE-
T ss_pred HHHHHHHHhCCCCEEEEEcCcc--CHHHHHHHHHHHHhCCCEEEEe
Confidence 5578999999999999976554 3344557888889999998865
No 58
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=81.39 E-value=13 Score=24.63 Aligned_cols=68 Identities=13% Similarity=0.041 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.++.+.+ ++.++++|++..+......+ +.......+++.|.. +|.-+-+.+.+++.+.+.|+++...+
T Consensus 15 Slla~k~---k~~~~e~gi~~~i~a~~~~e-~~~~~~~~~~DvIll----~PQi~~~~~~i~~~~~~~~ipv~~I~ 82 (104)
T PRK09590 15 SMMAKKT---TEYLKEQGKDIEVDAITATE-GEKAIAAAEYDLYLV----SPQTKMYFKQFEEAGAKVGKPVVQIP 82 (104)
T ss_pred HHHHHHH---HHHHHHCCCceEEEEecHHH-HHHhhccCCCCEEEE----ChHHHHHHHHHHHHhhhcCCCEEEeC
Confidence 4665554 77778899998887776654 445444445777777 55555556689988888899887654
No 59
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=81.14 E-value=9.5 Score=32.42 Aligned_cols=69 Identities=19% Similarity=0.213 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHHhcCC-eEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 64 LQQSLADLDQKFRALGS-RLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~-~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
+..+..++=+.|++.|+ ++.+..|++......++++.|++.++.+. .|..+ .+.++++ +..+-.+..+.
T Consensus 363 l~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~~--~p~~K--~~~i~~l-~~~~~~v~~vG 432 (536)
T TIGR01512 363 PRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAEL--LPEDK--LEIVKEL-REKYGPVAMVG 432 (536)
T ss_pred chHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhcc--CcHHH--HHHHHHH-HhcCCEEEEEe
Confidence 45677777888888999 99999999999999999999999887643 34322 2244444 44443444443
No 60
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=81.12 E-value=5.4 Score=28.21 Aligned_cols=41 Identities=20% Similarity=0.324 Sum_probs=35.9
Q ss_pred HHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccE--EEEeee
Q psy9352 70 DLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKL--LTWEYD 110 (146)
Q Consensus 70 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--v~~~~~ 110 (146)
++-+.+++.|.+++|+.|.+...+..+++..++.. |++++.
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 55666788899999999999999999999999987 888776
No 61
>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=80.61 E-value=21 Score=26.48 Aligned_cols=71 Identities=11% Similarity=0.133 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhh----HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEE----VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~----~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|+.+-+..+++.+++.|..+.+...+..+ .+.+...+.+++.|++..... +..+. .+.+.|+++..++
T Consensus 15 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~------~~~~~-~l~~~~ipvV~~~ 87 (268)
T cd06277 15 AFYSEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGIS------TEYIK-EIKELGIPFVLVD 87 (268)
T ss_pred CcHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCCC------hHHHH-HHhhcCCCEEEEc
Confidence 466777888899999999999887643221 222334457899999854221 11233 3556789998886
Q ss_pred CC
Q psy9352 138 SH 139 (146)
Q Consensus 138 ~~ 139 (146)
..
T Consensus 88 ~~ 89 (268)
T cd06277 88 HY 89 (268)
T ss_pred cC
Confidence 53
No 62
>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=80.56 E-value=16 Score=31.15 Aligned_cols=45 Identities=13% Similarity=0.185 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHHHhcC-CeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 64 LQQSLADLDQKFRALG-SRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g-~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
+..+..++=+.|++.| +++.+..|++......++++.|++.++..
T Consensus 385 ~~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~ 430 (556)
T TIGR01525 385 LRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAE 430 (556)
T ss_pred chHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeecc
Confidence 5567777778888899 99999999999999999999999998874
No 63
>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=80.45 E-value=8.2 Score=24.96 Aligned_cols=49 Identities=8% Similarity=0.137 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeec
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDI 111 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~ 111 (146)
-+.+++.++-+.|++.|..+.++.+.+...+...++..++ +.++.....
T Consensus 24 ~~~~~~~~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 76 (139)
T cd01427 24 ELYPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSNGA 76 (139)
T ss_pred CcCcCHHHHHHHHHHCCCeEEEEeCchHHHHHHHHHHcCCchhhhheeccchh
Confidence 3445666666777788999999999998888888888776 566655444
No 64
>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=80.44 E-value=10 Score=26.50 Aligned_cols=55 Identities=16% Similarity=0.091 Sum_probs=39.5
Q ss_pred HHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 71 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.=+.|++.|+.+.|..+.+......+.+..+++..+... .+ . -..+.+++++.|+
T Consensus 36 ~i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~~~--~~---k-~~~~~~~~~~~~~ 90 (154)
T TIGR01670 36 GIRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQGQ--SN---K-LIAFSDILEKLAL 90 (154)
T ss_pred HHHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEecc--cc---h-HHHHHHHHHHcCC
Confidence 345566789999999999988888999999999877643 11 1 2256666666554
No 65
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=80.30 E-value=19 Score=32.64 Aligned_cols=38 Identities=21% Similarity=0.177 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
+...+.-++|++.|+...++.||....-..++++.|+.
T Consensus 518 ~~~~~aI~~l~~aGI~vvmiTGD~~~tA~aIA~~lGI~ 555 (867)
T TIGR01524 518 ESTKEAIAALFKNGINVKVLTGDNEIVTARICQEVGID 555 (867)
T ss_pred hhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 45666677788899999999999999999999999997
No 66
>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=79.92 E-value=23 Score=26.48 Aligned_cols=71 Identities=7% Similarity=-0.082 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChh----hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPE----EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~----~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|..+-+..+.+.++++|..+.+...+.. +.+.+.....+++.|.+.... +. + ...+.+++.|+++..++
T Consensus 12 ~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~~-~~----~-~~~~~l~~~~iPvv~~~ 85 (269)
T cd06297 12 EFYRRLLEGIEGALLEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLASYD-LT----E-RLAERRLPTERPVVLVD 85 (269)
T ss_pred hhHHHHHHHHHHHHHHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecCc-cC----h-HHHHHHhhcCCCEEEEc
Confidence 46777888999999999999998864322 334444556789989886421 11 1 23344567899999887
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
.
T Consensus 86 ~ 86 (269)
T cd06297 86 A 86 (269)
T ss_pred c
Confidence 4
No 67
>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=79.77 E-value=16 Score=32.60 Aligned_cols=39 Identities=13% Similarity=0.208 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKL 104 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 104 (146)
....+.-++|++.|+...++.||....-..++++.|+..
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 445566667888999999999999999999999999864
No 68
>KOG0207|consensus
Probab=79.51 E-value=10 Score=34.38 Aligned_cols=54 Identities=13% Similarity=0.251 Sum_probs=41.7
Q ss_pred HHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhC
Q psy9352 72 DQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEY 129 (146)
Q Consensus 72 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~ 129 (146)
-+.|++.|++.+++.||-.......+++.|++.||++ ..|..+. +.|+++.++.
T Consensus 732 v~~Lk~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~ae--v~P~~K~--~~Ik~lq~~~ 785 (951)
T KOG0207|consen 732 VAELKSMGIKVVMLTGDNDAAARSVAQQVGIDNVYAE--VLPEQKA--EKIKEIQKNG 785 (951)
T ss_pred HHHHHhcCceEEEEcCCCHHHHHHHHHhhCcceEEec--cCchhhH--HHHHHHHhcC
Confidence 3456678999999999999999999999999999994 5665443 2566665443
No 69
>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=79.36 E-value=1.9 Score=30.67 Aligned_cols=98 Identities=23% Similarity=0.328 Sum_probs=56.4
Q ss_pred EEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE--------CChhhHHHHHHH-HcCccEEEEeee
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ--------GKPEEVFPDIFK-TWNIKLLTWEYD 110 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--------g~~~~~l~~l~~-~~~~~~v~~~~~ 110 (146)
..+|+.|+|.-.... .+....+.+-++.+=.+.|+++|++.++.. -+|.+-+..+.. +.++..|++-.+
T Consensus 38 ~~~v~tF~~~P~~~~--~~~~~~~~l~s~~ek~~~l~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~~~l~~~~ivvG~D 115 (157)
T PF06574_consen 38 KSVVLTFDPHPKEVL--NPDKPPKLLTSLEEKLELLESLGVDYVIVIPFTEEFANLSPEDFIEKILKEKLNVKHIVVGED 115 (157)
T ss_dssp EEEEEEESS-CHHHH--SCTCCGGBSS-HHHHHHHHHHTTESEEEEE-CCCHHCCS-HHHHHHHHCCCHCTEEEEEEETT
T ss_pred ceEEEEcccCHHHHh--cCCCcccCCCCHHHHHHHHHHcCCCEEEEecchHHHHcCCHHHHHHHHHHhcCCccEEEEccC
Confidence 456778877422110 111112335677777888899999876553 245556666555 899999999888
Q ss_pred cC--hhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 111 IE--PYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 111 ~~--~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
+. ....---+.+++.+++.|+.++.++.-
T Consensus 116 frFG~~~~G~~~~L~~~~~~~g~~v~~v~~~ 146 (157)
T PF06574_consen 116 FRFGKNRSGDVELLKELGKEYGFEVEVVPPV 146 (157)
T ss_dssp -EESGGGEEEHHHHHHCTTTT-SEEEEE---
T ss_pred ccCCCCCCCCHHHHHHhcccCceEEEEECCE
Confidence 63 221111236777777888998877643
No 70
>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=79.30 E-value=13 Score=28.03 Aligned_cols=73 Identities=16% Similarity=0.157 Sum_probs=51.1
Q ss_pred ChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 57 GPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 57 ~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
|+.|.-|+.+-+..+.+.+++.|..+.+...+..+ ......+++.|++.... .. +..+.. +.+.++++..+
T Consensus 15 ~~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~---~~l~~~~vdgiIi~~~~-~~----~~~~~~-l~~~~iPvV~i 85 (269)
T cd06287 15 GPSRLGFMMEVAAAAAESALERGLALCLVPPHEAD---SPLDALDIDGAILVEPM-AD----DPQVAR-LRQRGIPVVSI 85 (269)
T ss_pred CcccCccHHHHHHHHHHHHHHCCCEEEEEeCCCch---hhhhccCcCeEEEecCC-CC----CHHHHH-HHHcCCCEEEe
Confidence 67788899999999999999999999987654221 23456789988874321 11 113333 45678998888
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 86 ~~ 87 (269)
T cd06287 86 GR 87 (269)
T ss_pred CC
Confidence 64
No 71
>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=78.97 E-value=9.2 Score=30.68 Aligned_cols=40 Identities=8% Similarity=0.041 Sum_probs=29.9
Q ss_pred HHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEE
Q psy9352 68 LADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~ 107 (146)
+..+++-|+..|++.+...|++......|++.-.++.|+.
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 6678888889999999999988777777776543445543
No 72
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=78.48 E-value=28 Score=26.72 Aligned_cols=73 Identities=11% Similarity=0.044 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEee-ec-----C--hhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEY-DI-----E--PYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~-~~-----~--~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.+.|...-+.|++.||+..++-....+. -+.+++.|++.|=..- .| . ..+.++-..-.+.+.+.|+.|..-
T Consensus 112 ~~~l~~~i~~L~~~gIrVSLFidP~~~q-i~~A~~~GAd~VELhTG~yA~a~~~~~~~el~~~~~aa~~a~~lGL~VnAG 190 (239)
T PRK05265 112 FDKLKPAIARLKDAGIRVSLFIDPDPEQ-IEAAAEVGADRIELHTGPYADAKTEAEAAELERIAKAAKLAASLGLGVNAG 190 (239)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCHHH-HHHHHHhCcCEEEEechhhhcCCCcchHHHHHHHHHHHHHHHHcCCEEecC
Confidence 4667788888889999987777544444 4788899998774321 11 1 112222222333345678888765
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+|
T Consensus 191 Hg 192 (239)
T PRK05265 191 HG 192 (239)
T ss_pred CC
Confidence 55
No 73
>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=78.05 E-value=6.8 Score=28.38 Aligned_cols=65 Identities=14% Similarity=0.186 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.+..++=+.|++.|+++.|..+.....+....+..++ +.++...+.... +-....+..++++.|+
T Consensus 78 ~g~~~~L~~L~~~g~~~~i~Sn~~~~~~~~~l~~~~l~~~f~~i~~~~~~~~~-KP~~~~~~~~~~~~~~ 146 (205)
T TIGR01454 78 PGVPELLAELRADGVGTAIATGKSGPRARSLLEALGLLPLFDHVIGSDEVPRP-KPAPDIVREALRLLDV 146 (205)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCchHHHHHHHHHcCChhheeeEEecCcCCCC-CCChHHHHHHHHHcCC
Confidence 3566677778889999999999888877888888777 445544333211 1111245555655554
No 74
>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=77.95 E-value=18 Score=25.18 Aligned_cols=98 Identities=13% Similarity=0.051 Sum_probs=58.5
Q ss_pred HHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcC-CeEEEEECChhhHHHHHHHHcCc
Q psy9352 24 LLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALG-SRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 24 L~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g-~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
|..|.+.++. +++++.+||...... +.. ..+-++.+=.+.|+++| ++.++. ..... -.++++..++
T Consensus 31 l~~a~~~~~~------~~v~v~~d~~~~~~k--~~~---~~l~~~eeR~~~l~~~~~VD~vi~-f~~~~-~~~fi~~l~~ 97 (144)
T TIGR02199 31 LQQARALGDR------LVVGVNSDASVKRLK--GET---RPINPEEDRAEVLAALSSVDYVVI-FDEDT-PEELIGELKP 97 (144)
T ss_pred HHHHHHhCCc------cEEEEECCcCHHHhC--CCC---CCcCCHHHHHHHHHhcCCCCEEEE-CCCCC-HHHHHHHhCC
Confidence 3444455555 778888888643211 111 11345566666777885 876655 22222 2566778999
Q ss_pred cEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 103 KLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 103 ~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
+.|++..++..... ++ .+.+++.|..+..++.
T Consensus 98 ~~vv~G~d~~~~~~-~~---~~~~~~~g~~v~~~~~ 129 (144)
T TIGR02199 98 DILVKGGDYKVETL-VG---AELVESYGGQVVLLPF 129 (144)
T ss_pred CEEEECCCCCCCcc-hh---HHHHHHcCCEEEEEeC
Confidence 99999988875332 11 2456677888877654
No 75
>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=77.67 E-value=5.7 Score=31.12 Aligned_cols=43 Identities=5% Similarity=0.172 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc----EEEEe
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK----LLTWE 108 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~----~v~~~ 108 (146)
.+..+|=+.|+++|+++.|+.|.....+..+.++.++. .|+.|
T Consensus 124 pG~~efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~lgl~~~~~~IvSN 170 (277)
T TIGR01544 124 DGYENFFDKLQQHSIPVFIFSAGIGNVLEEVLRQAGVYHPNVKVVSN 170 (277)
T ss_pred cCHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHHcCCCCcCceEEee
Confidence 36778888999999999999999999999998887763 66444
No 76
>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=77.43 E-value=28 Score=26.13 Aligned_cols=73 Identities=11% Similarity=0.029 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
-|+.+-+..+++.+++.|..+.+... ++. +.+..+. ..+++.|++... .+ . .....+. .+.+.||++..+
T Consensus 12 ~f~~~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~-~~-~-~~~~~i~-~~~~~~iPvV~~ 86 (272)
T cd06313 12 TWCAQGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMA-SQGWDFIAVDPL-GI-G-TLTEAVQ-KAIARGIPVIDM 86 (272)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Ch-H-HhHHHHH-HHHHCCCcEEEe
Confidence 48888888999999999999998864 333 2344434 468898888421 11 1 1122343 345679999998
Q ss_pred cCC
Q psy9352 137 VSH 139 (146)
Q Consensus 137 ~~~ 139 (146)
+..
T Consensus 87 ~~~ 89 (272)
T cd06313 87 GTL 89 (272)
T ss_pred CCC
Confidence 753
No 77
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=77.20 E-value=15 Score=27.77 Aligned_cols=45 Identities=13% Similarity=0.124 Sum_probs=36.1
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeec
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDI 111 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~ 111 (146)
++.++=+.|++.|+++.|..+.+...+....+..++ +.|++..+.
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 567777888899999999999888888888888775 567666654
No 78
>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=76.65 E-value=27 Score=25.63 Aligned_cols=71 Identities=17% Similarity=0.177 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECCh----hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKP----EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~----~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|..+-+..+.+.+++.|..+.+...+. .+.+.++..+.+++.++....... +..+ +.+.+.++++..++
T Consensus 16 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~-----~~~~-~~~~~~~ipvV~~~ 89 (268)
T cd06271 16 PFFAEFLSGLSEALAEHGYDLVLLPVDPDEDPLEVYRRLVESGLVDGVIISRTRPD-----DPRV-ALLLERGFPFVTHG 89 (268)
T ss_pred ccHHHHHHHHHHHHHHCCceEEEecCCCcHHHHHHHHHHHHcCCCCEEEEecCCCC-----ChHH-HHHHhcCCCEEEEC
Confidence 4556667778888889999988876432 245566666667888887543221 1123 33456789988875
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
.
T Consensus 90 ~ 90 (268)
T cd06271 90 R 90 (268)
T ss_pred C
Confidence 4
No 79
>COG1778 Low specificity phosphatase (HAD superfamily) [General function prediction only]
Probab=76.26 E-value=19 Score=26.00 Aligned_cols=54 Identities=17% Similarity=0.184 Sum_probs=41.5
Q ss_pred HHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeE
Q psy9352 74 KFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133 (146)
Q Consensus 74 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~ 133 (146)
.|.+.|+..-|+.|....++..=+++.|++++|.- ...+ .....+++++.++..
T Consensus 46 ~l~~~Gi~vAIITGr~s~ive~Ra~~LGI~~~~qG----~~dK--~~a~~~L~~~~~l~~ 99 (170)
T COG1778 46 LLLKSGIKVAIITGRDSPIVEKRAKDLGIKHLYQG----ISDK--LAAFEELLKKLNLDP 99 (170)
T ss_pred HHHHcCCeEEEEeCCCCHHHHHHHHHcCCceeeec----hHhH--HHHHHHHHHHhCCCH
Confidence 34567999999999999999999999999999983 2222 226777777777644
No 80
>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=76.09 E-value=29 Score=25.67 Aligned_cols=72 Identities=17% Similarity=0.138 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEC--Chhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQG--KPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
|+.+-+..+++.+++.|..+.+... ++.. .+..+.. .+++.|++... .+ ....+ .+. .+++.||++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~~-~~vdgii~~~~-~~-~~~~~-~i~-~~~~~~ipvV~~~ 87 (273)
T cd06305 13 FDQAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAIA-QKVDAIIIQHG-RA-EVLKP-WVK-RALDAGIPVVAFD 87 (273)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHH-cCCCEEEEecC-Ch-hhhHH-HHH-HHHHcCCCEEEec
Confidence 6677788889999999999988753 3432 3334444 48999988532 11 11112 333 3567899999887
Q ss_pred CC
Q psy9352 138 SH 139 (146)
Q Consensus 138 ~~ 139 (146)
..
T Consensus 88 ~~ 89 (273)
T cd06305 88 VD 89 (273)
T ss_pred CC
Confidence 53
No 81
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=76.04 E-value=5.1 Score=29.49 Aligned_cols=64 Identities=11% Similarity=0.178 Sum_probs=41.3
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccE----EEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKL----LTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~----v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
++.++=+.|++.|+++.+..+.+...+..+.+..++.. ++...+... .+.....+..++++.|+
T Consensus 96 g~~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~~f~~~~~~~~~~~-~Kp~~~~~~~~~~~~~~ 163 (222)
T PRK10826 96 GVREALALCKAQGLKIGLASASPLHMLEAVLTMFDLRDYFDALASAEKLPY-SKPHPEVYLNCAAKLGV 163 (222)
T ss_pred CHHHHHHHHHHCCCeEEEEeCCcHHHHHHHHHhCcchhcccEEEEcccCCC-CCCCHHHHHHHHHHcCC
Confidence 46677778889999999999988888888888877644 444332211 11111255666666665
No 82
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=75.83 E-value=63 Score=29.41 Aligned_cols=111 Identities=12% Similarity=0.192 Sum_probs=68.1
Q ss_pred CcHHHHHHHh-cCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE-CChhhHHHHHH
Q psy9352 20 DNPALLSAIN-YKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ-GKPEEVFPDIF 97 (146)
Q Consensus 20 DN~aL~~A~~-~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~ 97 (146)
.|..|.+.+. .+.+ ...+..+||+-.|+.... +.....-+.+ ...|.+ ++|..+..+. ++..+.+.+++
T Consensus 260 ~~e~liR~a~RlA~~--~~a~~~av~v~~~~~~~~---~~~~~~~l~~-~~~Lae---~lGae~~~l~~~dv~~~i~~ya 330 (890)
T COG2205 260 GSEKLIRRAARLASR--LHAKWTAVYVETPELHRL---SEKEARRLHE-NLRLAE---ELGAEIVTLYGGDVAKAIARYA 330 (890)
T ss_pred chHHHHHHHHHHHHH--hCCCeEEEEEeccccccc---cHHHHHHHHH-HHHHHH---HhCCeEEEEeCCcHHHHHHHHH
Confidence 3666655442 2322 345699999999876532 2223223332 333444 5799999888 56778999999
Q ss_pred HHcCccEEEEeeecChhHHHH--HHHHHHHHH-hCCCeEEEecCC
Q psy9352 98 KTWNIKLLTWEYDIEPYAKKR--DGLVEDMAK-EYKVKVEQHVSH 139 (146)
Q Consensus 98 ~~~~~~~v~~~~~~~~~~~~r--d~~v~~~~~-~~~i~~~~~~~~ 139 (146)
+..+++.|+.-+.-....+.. ...+.++.+ ..+|.++.+...
T Consensus 331 ~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~ 375 (890)
T COG2205 331 REHNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALD 375 (890)
T ss_pred HHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCC
Confidence 999999999977665443322 212223333 267888877653
No 83
>PRK14988 GMP/IMP nucleotidase; Provisional
Probab=75.79 E-value=11 Score=27.94 Aligned_cols=48 Identities=10% Similarity=0.117 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeecC
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDIE 112 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~~ 112 (146)
+.++.++=+.|++.|+++.|....+.+.+....+..++ +.|++..+.+
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 45778888889999999999998777776766666654 6787776654
No 84
>KOG1615|consensus
Probab=75.38 E-value=4.9 Score=30.11 Aligned_cols=43 Identities=14% Similarity=0.314 Sum_probs=36.5
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccE--EEEee
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKL--LTWEY 109 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--v~~~~ 109 (146)
++++|-..|+++|..++++.|-....+.-.+.+.|+.. +|+|.
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 67888889999999999999998888877888888876 77764
No 85
>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=75.21 E-value=32 Score=25.76 Aligned_cols=72 Identities=14% Similarity=0.035 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC-ChhhH---HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG-KPEEV---FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~---l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|+.+-+..+++.+++.|..+.+... ++.+. +..+. ..+++.|++..... ... + .+.+.+.+.||++..++
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~--~~~-~-~~~~~~~~~~iPvV~~~ 86 (289)
T cd01540 12 PWFQTEWKFAKKAAKEKGFTVVKIDVPDGEKVLSAIDNLG-AQGAKGFVICVPDV--KLG-P-AIVAKAKAYNMKVVAVD 86 (289)
T ss_pred cHHHHHHHHHHHHHHHcCCEEEEccCCCHHHHHHHHHHHH-HcCCCEEEEccCch--hhh-H-HHHHHHHhCCCeEEEec
Confidence 36667788889999999999888754 33322 23332 46788888753211 111 2 34444667899999886
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
+
T Consensus 87 ~ 87 (289)
T cd01540 87 D 87 (289)
T ss_pred C
Confidence 4
No 86
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=75.02 E-value=19 Score=28.69 Aligned_cols=66 Identities=17% Similarity=0.163 Sum_probs=46.0
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeec-----------C--hhHHHHHHHHHHHHHhCCCe
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDI-----------E--PYAKKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~-----------~--~~~~~rd~~v~~~~~~~~i~ 132 (146)
+..++=+.|++.|.++.|..|........+.++.+++.++.|.-. + ......-..+.+++++.|++
T Consensus 185 Ga~elL~~Lk~~G~~~aIvSgg~~~~~~~l~~~Lgld~~~an~lei~dg~ltg~v~g~iv~~k~K~~~L~~la~~lgi~ 263 (322)
T PRK11133 185 GLTELVLKLQALGWKVAIASGGFTYFADYLRDKLRLDAAVANELEIMDGKLTGNVLGDIVDAQYKADTLTRLAQEYEIP 263 (322)
T ss_pred hHHHHHHHHHHcCCEEEEEECCcchhHHHHHHHcCCCeEEEeEEEEECCEEEeEecCccCCcccHHHHHHHHHHHcCCC
Confidence 455666788899999999999887777778888999888764310 1 01122334677778777763
No 87
>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=74.25 E-value=33 Score=25.47 Aligned_cols=71 Identities=10% Similarity=0.029 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECCh--hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKP--EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~--~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
.|+.+-+..+++.+++.|..+.+...+. .+.+.+...+.+++.|++...... +..+ +.+.+.||++..++.
T Consensus 23 ~~~~~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~-----~~~~-~~~~~~~ipvV~~~~ 95 (275)
T cd06295 23 PFFLSLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ-----DPLP-ERLAETGLPFVVWGR 95 (275)
T ss_pred chHHHHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC-----hHHH-HHHHhCCCCEEEECC
Confidence 3666667777888999999988875432 334455555678998887432221 1123 345678999998864
No 88
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=73.97 E-value=29 Score=24.61 Aligned_cols=67 Identities=12% Similarity=0.022 Sum_probs=47.3
Q ss_pred HHhcCCeEEEEECChhhHHHHHHHHc--CccEEEEeee-cChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCC
Q psy9352 75 FRALGSRLYVVQGKPEEVFPDIFKTW--NIKLLTWEYD-IEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTN 145 (146)
Q Consensus 75 L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~v~~~~~-~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~ 145 (146)
-+++|..+.+++.+.+..+-..+.+. +++.|+.|-- |+.+.. +++.+++..++++..++-+.++..+
T Consensus 39 a~~~g~~v~~~QSN~EGelId~I~~a~~~~dgiiINpga~THtSi----Al~DAl~~~~~P~VEVHiSNi~aRE 108 (146)
T PRK05395 39 AAELGVELEFFQSNHEGELIDRIHEARDGADGIIINPGAYTHTSV----ALRDALAAVSIPVIEVHLSNIHARE 108 (146)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHhcccCCcEEEECchHHHHHHH----HHHHHHHcCCCCEEEEecCCccccc
Confidence 34569999999988776666665553 5788999753 222222 6777777889999999877776554
No 89
>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=73.91 E-value=28 Score=26.73 Aligned_cols=57 Identities=16% Similarity=0.191 Sum_probs=44.2
Q ss_pred CeEEEEECC--hhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 80 SRLYVVQGK--PEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 80 ~~L~v~~g~--~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
..+.++.|. ..+.+.+++++.+++.|+= -.-|+..+-.+.+.++|++.||++..|.=
T Consensus 43 ~~~~v~~G~lg~~~~l~~~l~~~~i~~vID--ATHPfA~~is~na~~a~~~~~ipylR~eR 101 (249)
T PF02571_consen 43 PGLEVRVGRLGDEEGLAEFLRENGIDAVID--ATHPFAAEISQNAIEACRELGIPYLRFER 101 (249)
T ss_pred CCceEEECCCCCHHHHHHHHHhCCCcEEEE--CCCchHHHHHHHHHHHHhhcCcceEEEEc
Confidence 345677776 4678899999999998883 12467777778899999999999988753
No 90
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=73.82 E-value=29 Score=24.59 Aligned_cols=68 Identities=12% Similarity=0.047 Sum_probs=46.4
Q ss_pred HHHhcCCeEEEEECChhhHHHHHHHHc--CccEEEEeee-cChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCC
Q psy9352 74 KFRALGSRLYVVQGKPEEVFPDIFKTW--NIKLLTWEYD-IEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTN 145 (146)
Q Consensus 74 ~L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~v~~~~~-~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~ 145 (146)
..+++|..+.+++.+.+..+-..+.+. +++.|+.|-- |+.+.. .++.+++..++++..++-+.++..+
T Consensus 38 ~a~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~VEVHiSNi~aRE 108 (146)
T PRK13015 38 AAEALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTSV----AIRDALAALELPVIEVHISNVHARE 108 (146)
T ss_pred HHHHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhHH----HHHHHHHcCCCCEEEEEcCCccccc
Confidence 334568999999987776655555542 4688999754 232322 6777777788999999877766543
No 91
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=73.76 E-value=23 Score=23.30 Aligned_cols=67 Identities=13% Similarity=0.154 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 61 WRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 61 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
-.++.+ .+++.++++|++..+......+ ++.... +++.|.. +|.-+-+-+.+++.+...||++...+
T Consensus 13 Ss~la~---km~~~a~~~gi~~~i~a~~~~e-~~~~~~--~~Dvill----~PQv~~~~~~i~~~~~~~~ipv~~I~ 79 (99)
T cd05565 13 SGLLAN---ALNKGAKERGVPLEAAAGAYGS-HYDMIP--DYDLVIL----APQMASYYDELKKDTDRLGIKLVTTT 79 (99)
T ss_pred HHHHHH---HHHHHHHHCCCcEEEEEeeHHH-HHHhcc--CCCEEEE----cChHHHHHHHHHHHhhhcCCCEEEeC
Confidence 356654 4555667799999887665544 455444 4566666 45445555589998988999987765
No 92
>PRK10671 copA copper exporting ATPase; Provisional
Probab=73.59 E-value=33 Score=30.90 Aligned_cols=64 Identities=17% Similarity=0.148 Sum_probs=44.6
Q ss_pred HHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 70 DLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 70 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
+.-+.|++.|+.+.++.|+.......++++.|++.++.. ..|..+ -+.++++ +..+-.+..+.|
T Consensus 657 ~~i~~L~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~--~~p~~K--~~~i~~l-~~~~~~v~~vGD 720 (834)
T PRK10671 657 AALQRLHKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAG--VLPDGK--AEAIKRL-QSQGRQVAMVGD 720 (834)
T ss_pred HHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeC--CCHHHH--HHHHHHH-hhcCCEEEEEeC
Confidence 344667888999999999999999999999999998874 345433 2245544 344444444443
No 93
>PRK13223 phosphoglycolate phosphatase; Provisional
Probab=73.52 E-value=12 Score=28.75 Aligned_cols=66 Identities=14% Similarity=0.141 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc----EEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK----LLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~----~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
..++.++-+.|++.|+++.|..+.+...+..+.+..++. .+++..+... .+-.-..+..++++.|+
T Consensus 103 ~~g~~e~L~~Lk~~g~~l~ivTn~~~~~~~~~l~~~~i~~~f~~i~~~d~~~~-~Kp~p~~~~~~~~~~g~ 172 (272)
T PRK13223 103 YPGVRDTLKWLKKQGVEMALITNKPERFVAPLLDQMKIGRYFRWIIGGDTLPQ-KKPDPAALLFVMKMAGV 172 (272)
T ss_pred CCCHHHHHHHHHHCCCeEEEEECCcHHHHHHHHHHcCcHhhCeEEEecCCCCC-CCCCcHHHHHHHHHhCC
Confidence 355667777888889999999998888777777776653 3444433221 11112245555555554
No 94
>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=73.43 E-value=34 Score=25.21 Aligned_cols=70 Identities=10% Similarity=0.065 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+-+..+.+.+++.|..+.+... ++. +.+..+.+ .+++.|++...... + ...+.+++.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~-----~-~~~~~l~~~~iPvv~~ 84 (268)
T cd06273 12 AIFARVIQAFQETLAAHGYTLLVASSGYDLDREYAQARKLLE-RGVDGLALIGLDHS-----P-ALLDLLARRGVPYVAT 84 (268)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCCC-----H-HHHHHHHhCCCCEEEE
Confidence 35667778889999999999988753 233 23444444 47888887432211 1 2233456789999887
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 85 ~~ 86 (268)
T cd06273 85 WN 86 (268)
T ss_pred cC
Confidence 64
No 95
>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=73.16 E-value=14 Score=27.33 Aligned_cols=43 Identities=7% Similarity=0.056 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
..+..++-+.|++.| ++.|+.|.....+..++++.|++.+++|
T Consensus 70 ~pga~ell~~lk~~~-~~~IVS~~~~~~~~~il~~lgi~~~~an 112 (203)
T TIGR02137 70 LEGAVEFVDWLRERF-QVVILSDTFYEFSQPLMRQLGFPTLLCH 112 (203)
T ss_pred CccHHHHHHHHHhCC-eEEEEeCChHHHHHHHHHHcCCchhhce
Confidence 345566777777764 9999999999999999999999988875
No 96
>COG1362 LAP4 Aspartyl aminopeptidase [Amino acid transport and metabolism]
Probab=72.94 E-value=36 Score=28.42 Aligned_cols=98 Identities=12% Similarity=0.107 Sum_probs=55.8
Q ss_pred EEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHH--------hcCCeEEEEECChh-hHHHHHHHHc----------
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFR--------ALGSRLYVVQGKPE-EVFPDIFKTW---------- 100 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~--------~~g~~L~v~~g~~~-~~l~~l~~~~---------- 100 (146)
...+.+||.+..+......+.-.||..-|+.....+. .+--.+ ++..+.. .+=|.+.+.+
T Consensus 262 ~~v~~~fD~EEIGS~s~~GAds~fL~~vLeri~~a~~~~~~~~~~~l~nS~-~iSaD~ahaihPny~~~hd~~n~p~ln~ 340 (437)
T COG1362 262 TCVLALFDHEEIGSLSAQGADSPFLENVLERIILALGGSRDDHLRALANSF-LISADVAHAIHPNYPEKHDPNNAPKLNK 340 (437)
T ss_pred ceEEEEechhhcccccccCcCchhHHHHHHHHHHHccCChHHHHHHHhhce-eeehhhHhhcCCCCccccCcccCCccCC
Confidence 7778888988776543334455798888887544332 111111 1222211 1111111111
Q ss_pred -CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 101 -NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 101 -~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
.+-.++.|..|..+..--- .++++|++.||+++.|.-.
T Consensus 341 G~vik~~an~ry~td~~~~a-~~~~l~~~~~Vp~Q~f~~~ 379 (437)
T COG1362 341 GPVIKVNANQRYATDSEGIA-LLRKLAQKAGVPWQVFVLR 379 (437)
T ss_pred CceEEecCCCCcccCchHHH-HHHHHHHHcCCceEEEEec
Confidence 1346778888866554443 7899999999999988543
No 97
>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=72.85 E-value=37 Score=30.81 Aligned_cols=38 Identities=13% Similarity=0.249 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
+...+.-++|++.|+.+.++.|+..+.-..++++.|+.
T Consensus 531 ~~~~~~i~~l~~~Gi~v~miTGD~~~tA~~ia~~~Gi~ 568 (884)
T TIGR01522 531 PGVKEAVTTLITGGVRIIMITGDSQETAVSIARRLGMP 568 (884)
T ss_pred hHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCC
Confidence 56666777778899999999999999999999999986
No 98
>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=72.66 E-value=31 Score=24.41 Aligned_cols=41 Identities=12% Similarity=0.189 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 61 WRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 61 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
..++.++|..+.++-.. ..+++|..+.+.+...+++++...
T Consensus 9 ~~~l~~~l~sl~~q~~~-~~eiiivD~~s~d~t~~~~~~~~~ 49 (202)
T cd04185 9 LDLLKECLDALLAQTRP-PDHIIVIDNASTDGTAEWLTSLGD 49 (202)
T ss_pred HHHHHHHHHHHHhccCC-CceEEEEECCCCcchHHHHHHhcC
Confidence 35778888888765322 457777776555545566665544
No 99
>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=72.28 E-value=31 Score=24.26 Aligned_cols=75 Identities=16% Similarity=0.167 Sum_probs=48.1
Q ss_pred HHHHHHHHH----HhcCCeEEEEECChhhHHHHHHHHc--CccEEEEeee-cChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 67 SLADLDQKF----RALGSRLYVVQGKPEEVFPDIFKTW--NIKLLTWEYD-IEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 67 sL~~L~~~L----~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~v~~~~~-~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
+|.++.+.+ +++|+.+.+++.+.+..|-+.+.+. .++.++.|-- |+.... +++.+++..++++..++-+
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 455555544 4668999999988886666666553 4789999864 233322 6777788889999999877
Q ss_pred eeeeCC
Q psy9352 140 TLYNTN 145 (146)
Q Consensus 140 ~L~~p~ 145 (146)
.++..+
T Consensus 102 Ni~~RE 107 (140)
T PF01220_consen 102 NIHARE 107 (140)
T ss_dssp -GGGS-
T ss_pred Cccccc
Confidence 766543
No 100
>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=72.26 E-value=18 Score=26.35 Aligned_cols=67 Identities=9% Similarity=0.149 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcC------ccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWN------IKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~------~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
+..++.++-+.|++.|+++.|..+.+.+.+....+..+ .+.+++..+... .+--...+..++++.|+
T Consensus 88 l~~G~~~~L~~L~~~g~~~~ivT~~~~~~~~~~l~~~~l~~~~~f~~i~~~~~~~~-~KP~p~~~~~a~~~~~~ 160 (220)
T TIGR03351 88 ALPGAEEAFRSLRSSGIKVALTTGFDRDTAERLLEKLGWTVGDDVDAVVCPSDVAA-GRPAPDLILRAMELTGV 160 (220)
T ss_pred cCCCHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHHhhhhhhccCCEEEcCCcCCC-CCCCHHHHHHHHHHcCC
Confidence 33456677788988999999999888777777766655 456666655321 11111245555555555
No 101
>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=72.08 E-value=15 Score=27.25 Aligned_cols=43 Identities=12% Similarity=0.204 Sum_probs=32.7
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc---CccEEEEee
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW---NIKLLTWEY 109 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~---~~~~v~~~~ 109 (146)
.++-|++.+++.|.++.|..+.+...+..+++.. ++.+|++++
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 3444445777789999999999999999999774 446777665
No 102
>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=71.92 E-value=40 Score=25.79 Aligned_cols=86 Identities=15% Similarity=0.016 Sum_probs=47.3
Q ss_pred EEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE---CChhhHHHHHHHHcCccEEEEeeecChhHHHH
Q psy9352 42 PLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ---GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKR 118 (146)
Q Consensus 42 ~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~---g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~r 118 (146)
.+++=.|-..+ .| .=-.+.|.+|++.|+++|++.-++- -+..+-+..|+.. ++.+++-=+.+.--+...
T Consensus 106 ~L~iEgP~d~g------~r-~~QI~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da-~A~dmVQIKtPDLGgi~n 177 (248)
T PF07476_consen 106 KLRIEGPMDAG------SR-EAQIEALAELREELDRRGINVEIVADEWCNTLEDIREFADA-KAADMVQIKTPDLGGINN 177 (248)
T ss_dssp -EEEE-SB--S------SH-HHHHHHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHT-T-SSEEEE-GGGGSSTHH
T ss_pred eeeeeCCcCCC------Ch-HHHHHHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhc-CCcCEEEecCCCccchhh
Confidence 57777775432 12 2345899999999999999998886 3455667777765 555565544332223333
Q ss_pred HHHHHHHHHhCCCeEEE
Q psy9352 119 DGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 119 d~~v~~~~~~~~i~~~~ 135 (146)
--.-.--|++.|+..+.
T Consensus 178 tieAvlyCk~~gvgaY~ 194 (248)
T PF07476_consen 178 TIEAVLYCKEHGVGAYL 194 (248)
T ss_dssp HHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHHHhcCCceee
Confidence 22223347888887665
No 103
>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=71.79 E-value=40 Score=30.85 Aligned_cols=38 Identities=16% Similarity=0.191 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
+...+.-+.|++.|+...++.||....-..++++.|+.
T Consensus 582 ~~~~~aI~~l~~aGI~v~miTGD~~~tA~~iA~~~GI~ 619 (941)
T TIGR01517 582 PGVREAVQECQRAGITVRMVTGDNIDTAKAIARNCGIL 619 (941)
T ss_pred hhHHHHHHHHHHCCCEEEEECCCChHHHHHHHHHcCCC
Confidence 45566667778889999999999999999999999985
No 104
>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=71.30 E-value=38 Score=24.82 Aligned_cols=70 Identities=10% Similarity=0.017 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+-+..+++.++++|..+.+...+ +. +.+.++. ..+++.|++.....+ + .+.+.+++.|+++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~-~~~~dgii~~~~~~~-----~-~~~~~~~~~~ipvv~~ 84 (259)
T cd01542 12 FSTSRTVKGILAALYENGYQMLLMNTNFSIEKEIEALELLA-RQKVDGIILLATTIT-----D-EHREAIKKLNVPVVVV 84 (259)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHH-hcCCCEEEEeCCCCC-----H-HHHHHHhcCCCCEEEE
Confidence 366788888899999999999887643 33 2344443 368999988533211 1 2334455678888877
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 85 ~~ 86 (259)
T cd01542 85 GQ 86 (259)
T ss_pred ec
Confidence 64
No 105
>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=71.21 E-value=33 Score=24.13 Aligned_cols=69 Identities=10% Similarity=0.000 Sum_probs=47.1
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHc--CccEEEEeee-cChhHHHHHHHHHHHHHhCCCeEEEecCCeeeeCC
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTW--NIKLLTWEYD-IEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLYNTN 145 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~v~~~~~-~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~~p~ 145 (146)
+..+++|+.+.+++.+.+..+-+.+.+. +++.|+.|-- |+.+. -+++.+++..++++..++-+.++..+
T Consensus 35 ~~a~~~g~~v~~~QSN~Egelid~I~~a~~~~dgiIINpga~THtS----vAi~DAl~~~~~P~VEVHiSNi~aRE 106 (140)
T cd00466 35 ELAAELGVEVEFFQSNHEGELIDWIHEARDGADGIIINPGAYTHTS----IALRDALAAVSIPVIEVHISNIHARE 106 (140)
T ss_pred HHHHHcCCEEEEEeeCcHHHHHHHHHHhhccCcEEEEcchHHHHHH----HHHHHHHHcCCCCEEEEecCCccccc
Confidence 3334579999999987776665555543 4788999753 22222 26777777788999999877766543
No 106
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=70.92 E-value=41 Score=26.43 Aligned_cols=43 Identities=12% Similarity=0.258 Sum_probs=27.6
Q ss_pred HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 93 FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 93 l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
+.++.+..++.-++-.-+|.|+.++.+ +...|+++||.+..+.
T Consensus 148 L~~l~~~~~~~p~~NQIe~hp~~~q~e--l~~~~~~~gI~v~Ays 190 (280)
T COG0656 148 LEELLSLAKVKPAVNQIEYHPYLRQPE--LLPFCQRHGIAVEAYS 190 (280)
T ss_pred HHHHHHhcCCCCceEEEEeccCCCcHH--HHHHHHHcCCEEEEEC
Confidence 444444444444555556777655554 8889999999888764
No 107
>PLN02954 phosphoserine phosphatase
Probab=70.90 E-value=8.5 Score=28.18 Aligned_cols=45 Identities=22% Similarity=0.368 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc--EEEEe
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK--LLTWE 108 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~--~v~~~ 108 (146)
+..++.++-+.|++.|+++.|..+.+...+..+++..++. .++.+
T Consensus 85 l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~~l~~~gi~~~~~~~~ 131 (224)
T PLN02954 85 LSPGIPELVKKLRARGTDVYLVSGGFRQMIAPVAAILGIPPENIFAN 131 (224)
T ss_pred CCccHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHhCCChhhEEEe
Confidence 3457777888888999999999999999899999998886 46543
No 108
>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=70.68 E-value=40 Score=24.82 Aligned_cols=72 Identities=13% Similarity=-0.004 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
.|..+-+..+++.+++.|..+.+......+...+.....+++.|++...... +..+ +.+.+.|+++..++..
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~l~~~~vdgii~~~~~~~-----~~~~-~~~~~~~ipvV~~~~~ 83 (261)
T cd06272 12 VALTELVTGINQAISKNGYNMNVSITPSLAEAEDLFKENRFDGVIIFGESAS-----DVEY-LYKIKLAIPVVSYGVD 83 (261)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEecccHHHHHHHHHHcCcCEEEEeCCCCC-----hHHH-HHHHHcCCCEEEEccc
Confidence 4777888889999999999988876432233334455568998886432111 1123 3345688998888653
No 109
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=70.65 E-value=40 Score=25.74 Aligned_cols=62 Identities=15% Similarity=0.243 Sum_probs=48.2
Q ss_pred EEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHH-hcCCeEEEEECChhh--HHHHHHHHcCccEEE
Q psy9352 42 PLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFR-ALGSRLYVVQGKPEE--VFPDIFKTWNIKLLT 106 (146)
Q Consensus 42 ~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~-~~g~~L~v~~g~~~~--~l~~l~~~~~~~~v~ 106 (146)
.+|+-|.... ++|.+-...+.+-+.+.-+.|. +.|..++++.-+... .+.++-++.++..|-
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 6899988654 6788888899999999999998 999999999887665 366666665554443
No 110
>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=70.62 E-value=46 Score=25.50 Aligned_cols=42 Identities=12% Similarity=0.168 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEE
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~ 107 (146)
.+.|...-+.|++.||...++-....+.+ +.+++.|++.|=.
T Consensus 109 ~~~l~~~i~~l~~~gI~VSLFiDPd~~qi-~~A~~~GAd~VEL 150 (234)
T cd00003 109 AEKLKPIIERLKDAGIRVSLFIDPDPEQI-EAAKEVGADRVEL 150 (234)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCHHHH-HHHHHhCcCEEEE
Confidence 46678888888999999988776555554 6788899987744
No 111
>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=70.56 E-value=28 Score=24.97 Aligned_cols=51 Identities=12% Similarity=0.124 Sum_probs=37.8
Q ss_pred HHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 75 FRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 75 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
|++.|+++.|..+.+...+..+++.+++..++......| ..+..++++.|+
T Consensus 46 L~~~Gi~laIiT~k~~~~~~~~l~~lgi~~~f~~~kpkp------~~~~~~~~~l~~ 96 (169)
T TIGR02726 46 LQLCGIDVAIITSKKSGAVRHRAEELKIKRFHEGIKKKT------EPYAQMLEEMNI 96 (169)
T ss_pred HHHCCCEEEEEECCCcHHHHHHHHHCCCcEEEecCCCCH------HHHHHHHHHcCc
Confidence 445799999999999999999999999997775331111 256666666665
No 112
>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=70.49 E-value=16 Score=24.28 Aligned_cols=65 Identities=20% Similarity=0.350 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHhc---CCeEEEEE---CChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 66 QSLADLDQKFRAL---GSRLYVVQ---GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 66 ~sL~~L~~~L~~~---g~~L~v~~---g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.||+.+...|.++ ...+-++. |++.+.=-.++...++.-+.||-...+ .+.+.+++.||++..++
T Consensus 27 GslEAi~~~l~~~~~~~v~i~Ii~~~VG~it~sDI~~A~~~~a~Ii~FNv~~~~-------~~~~~a~~~~V~I~~~~ 97 (108)
T PF11987_consen 27 GSLEAIKNSLEKLSNDEVKIKIIHAGVGPITESDIELASASNAIIIAFNVKVSP-------DAKDLAKKSGVKIRSHN 97 (108)
T ss_dssp HHHHHHHHHHCCTT-SSSCEEESEEEESSBHHHHHHHHHHHC-EEEESSS-B-H-------HHHHCHHSSTSEEEEST
T ss_pred hhHHHHHHHHHhcccccccccEEEeeCCCCCHHHHHHHHhhCCEEEEeeCCCCH-------HHHHHHHHcCCEEEEeC
Confidence 5788888888877 34555543 887766557788778777777766554 35566778899888764
No 113
>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=70.43 E-value=27 Score=24.44 Aligned_cols=42 Identities=7% Similarity=0.084 Sum_probs=32.6
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc----EEEEe
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK----LLTWE 108 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~----~v~~~ 108 (146)
++.++-+.|++.|+++.|..+.....+..+.+..++. .|+.+
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 4556667888899999999998888888888887764 46654
No 114
>PRK11590 hypothetical protein; Provisional
Probab=70.19 E-value=18 Score=26.58 Aligned_cols=42 Identities=10% Similarity=0.161 Sum_probs=33.4
Q ss_pred HHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcC---ccEEEEee
Q psy9352 68 LADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWN---IKLLTWEY 109 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~---~~~v~~~~ 109 (146)
.+-|++.|++.|..+.|..+.+...+..+++..+ +++|++++
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 4444466778899999999999988888988877 47777765
No 115
>PRK13222 phosphoglycolate phosphatase; Provisional
Probab=70.11 E-value=23 Score=25.68 Aligned_cols=37 Identities=22% Similarity=0.338 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
.++.++-+.|++.|+.+.++.+.....+..+++..+.
T Consensus 96 ~g~~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l 132 (226)
T PRK13222 96 PGVKETLAALKAAGYPLAVVTNKPTPFVAPLLEALGI 132 (226)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCC
Confidence 4566777788888999999999888877788887765
No 116
>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=69.75 E-value=16 Score=26.32 Aligned_cols=44 Identities=20% Similarity=0.233 Sum_probs=32.6
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeee
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYD 110 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~ 110 (146)
++.++=+.|++.|+++.|..+.+...+..+.+..++ +.++...+
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 445566778888999999998888888888888775 45555444
No 117
>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=69.58 E-value=42 Score=24.68 Aligned_cols=73 Identities=10% Similarity=0.063 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--h---hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--P---EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~---~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+++.+++.|..+.+...+ . ...+.+.+...+++.|+....... . . ...+.+.+.|+++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~---~-~-~~~~~~~~~~ipvv~i 86 (270)
T cd01545 12 GYVSEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLSD---N-P-ELLDLLDEAGVPYVRI 86 (270)
T ss_pred ccHHHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCC---c-c-HHHHHHHhcCCCEEEE
Confidence 467777788888888999999887643 2 223444455678999988532211 1 1 2333456688999888
Q ss_pred cCC
Q psy9352 137 VSH 139 (146)
Q Consensus 137 ~~~ 139 (146)
+..
T Consensus 87 ~~~ 89 (270)
T cd01545 87 APG 89 (270)
T ss_pred ecC
Confidence 643
No 118
>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=69.40 E-value=12 Score=27.56 Aligned_cols=45 Identities=9% Similarity=0.188 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc-CccEEEEe
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW-NIKLLTWE 108 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-~~~~v~~~ 108 (146)
+..++.++-+.|++.|+++.|..+.....+..+.+.. ....|++|
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 4457778888889999999999999888888877775 34566554
No 119
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=69.25 E-value=17 Score=23.85 Aligned_cols=41 Identities=22% Similarity=0.387 Sum_probs=30.2
Q ss_pred HHHHHHHHHhcCCeEEEEE-CChhhHHHHHHHH--cCccEEEEeee
Q psy9352 68 LADLDQKFRALGSRLYVVQ-GKPEEVFPDIFKT--WNIKLLTWEYD 110 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~--~~~~~v~~~~~ 110 (146)
|.....+|++.|+.|+++- |++.. +.++++. ++.. ||+..+
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~-ly~D~~ 45 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFP-LYVDPE 45 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCc-EEEeCc
Confidence 5677888999999998875 66645 7888865 4556 777554
No 120
>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=69.12 E-value=19 Score=23.37 Aligned_cols=63 Identities=19% Similarity=0.246 Sum_probs=37.6
Q ss_pred HHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
.++...+++ ..|+|..|+-.+++.... ..++..|+......| +..+.+.+++.||++...+.+
T Consensus 32 ~~~~~~~~~--~~lvIt~gdR~di~~~a~-~~~i~~iIltg~~~~-----~~~v~~la~~~~i~vi~t~~d 94 (105)
T PF07085_consen 32 SDFLEYLKP--GDLVITPGDREDIQLAAI-EAGIACIILTGGLEP-----SEEVLELAKELGIPVISTPYD 94 (105)
T ss_dssp HHHHHCHHT--TEEEEEETT-HHHHHHHC-CTTECEEEEETT---------HHHHHHHHHHT-EEEE-SS-
T ss_pred HHHHhhcCC--CeEEEEeCCcHHHHHHHH-HhCCCEEEEeCCCCC-----CHHHHHHHHHCCCEEEEECCC
Confidence 333344443 678888899888765444 456888888754443 346778888889988877654
No 121
>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=69.08 E-value=41 Score=24.34 Aligned_cols=71 Identities=10% Similarity=0.100 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECCh-----hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKP-----EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~-----~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+-...+++.++++|..+.+...+. .+.+.++.. .+++.|+........ . . .+.+.+.||++..+
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~iii~~~~~~~----~-~-~~~~~~~~ipvv~~ 84 (264)
T cd06267 12 PFFAELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLS-RRVDGIILAPSRLDD----E-L-LEELAALGIPVVLV 84 (264)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHH-cCcCEEEEecCCcch----H-H-HHHHHHcCCCEEEe
Confidence 3556666777788888999998887542 234555544 488888875443321 1 1 33356789999888
Q ss_pred cCC
Q psy9352 137 VSH 139 (146)
Q Consensus 137 ~~~ 139 (146)
+..
T Consensus 85 ~~~ 87 (264)
T cd06267 85 DRP 87 (264)
T ss_pred ccc
Confidence 654
No 122
>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=68.89 E-value=31 Score=22.86 Aligned_cols=81 Identities=9% Similarity=0.113 Sum_probs=41.7
Q ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc---CccEEEEeee-cChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 61 WRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW---NIKLLTWEYD-IEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 61 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~---~~~~v~~~~~-~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
..++.++|..|.++ ......++|....+.+...++++++ +....+...+ -......+...+..+. +=-+...
T Consensus 10 ~~~l~~~l~sl~~q-~~~~~eiivvdd~s~d~~~~~~~~~~~~~~~i~~i~~~~n~g~~~~~n~~~~~a~---~~~i~~l 85 (169)
T PF00535_consen 10 AEYLERTLESLLKQ-TDPDFEIIVVDDGSTDETEEILEEYAESDPNIRYIRNPENLGFSAARNRGIKHAK---GEYILFL 85 (169)
T ss_dssp TTTHHHHHHHHHHH-SGCEEEEEEEECS-SSSHHHHHHHHHCCSTTEEEEEHCCCSHHHHHHHHHHHH-----SSEEEEE
T ss_pred HHHHHHHHHHHhhc-cCCCEEEEEeccccccccccccccccccccccccccccccccccccccccccccc---eeEEEEe
Confidence 35788889988888 5556677777754433334444443 3333333333 2233344443443332 2244555
Q ss_pred cCCeeeeCC
Q psy9352 137 VSHTLYNTN 145 (146)
Q Consensus 137 ~~~~L~~p~ 145 (146)
+++..++|+
T Consensus 86 d~D~~~~~~ 94 (169)
T PF00535_consen 86 DDDDIISPD 94 (169)
T ss_dssp ETTEEE-TT
T ss_pred CCCceEcHH
Confidence 777777764
No 123
>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=68.78 E-value=51 Score=25.30 Aligned_cols=42 Identities=12% Similarity=0.196 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEE
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~ 107 (146)
.+.|.+.-+.|++.||...++-....+.+ +.+++.|++.|=.
T Consensus 109 ~~~l~~~i~~l~~~gI~VSLFiDP~~~qi-~~A~~~GAd~VEL 150 (237)
T TIGR00559 109 KDKLCELVKRFHAAGIEVSLFIDADKDQI-SAAAEVGADRIEI 150 (237)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCHHHH-HHHHHhCcCEEEE
Confidence 35677778888889999988765555554 6888899987754
No 124
>TIGR01509 HAD-SF-IA-v3 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED. HAD subfamilies caused by an overly broad single model.
Probab=68.62 E-value=22 Score=24.68 Aligned_cols=64 Identities=14% Similarity=0.234 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.++.++=+.|++.|+++.++.+.+... ..+..+.+. +.|++..+.+..--..+ .+..++++.|+
T Consensus 88 ~g~~~~l~~l~~~g~~~~i~Tn~~~~~-~~~~~~~~l~~~f~~i~~~~~~~~~KP~~~-~~~~~~~~~~~ 155 (183)
T TIGR01509 88 PGVEPLLEALRARGKKLALLTNSPRDH-AVLVQELGLRDLFDVVIFSGDVGRGKPDPD-IYLLALKKLGL 155 (183)
T ss_pred cCHHHHHHHHHHCCCeEEEEeCCchHH-HHHHHhcCCHHHCCEEEEcCCCCCCCCCHH-HHHHHHHHcCC
Confidence 445666677888999999999877766 555554654 66676554432111112 45555555554
No 125
>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=68.48 E-value=43 Score=28.72 Aligned_cols=42 Identities=12% Similarity=0.169 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEE
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~ 107 (146)
.....++=+.|++.|+++.+..|++......++++.|++ ++.
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 345556666677889999999999999999999999997 444
No 126
>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=68.45 E-value=50 Score=25.10 Aligned_cols=70 Identities=14% Similarity=0.061 Sum_probs=43.2
Q ss_pred HHHHHHHHHhcCCeEEEEECChh-hHHHHHHHHcC--ccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 68 LADLDQKFRALGSRLYVVQGKPE-EVFPDIFKTWN--IKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~~-~~l~~l~~~~~--~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
+..|++-|++.+.-++.+.|-.. .++..++.+.+ +..|+++....+. .+. +.+++.++..||+.+.++.+
T Consensus 2 ~~~l~~~l~~~~~vlVa~SGGvDSs~ll~la~~~g~~v~av~~~~~~~~~-~e~-~~a~~~a~~lgi~~~ii~~~ 74 (252)
T TIGR00268 2 LENLRNFLKEFKKVLIAYSGGVDSSLLAAVCSDAGTEVLAITVVSPSISP-REL-EDAIIIAKEIGVNHEFVKID 74 (252)
T ss_pred hHHHHHHHHhcCCEEEEecCcHHHHHHHHHHHHhCCCEEEEEecCCCCCH-HHH-HHHHHHHHHcCCCEEEEEcH
Confidence 35677778887777777887655 34555565554 4455554322222 222 36677888899988877644
No 127
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=67.90 E-value=59 Score=25.73 Aligned_cols=72 Identities=13% Similarity=0.128 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECCh-h---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKP-E---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~-~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
-|+.+-+..+.+.+++.|..+.+...+. . ....+...+.+++.|++.. .... + ...+.+.+.++++..++
T Consensus 71 ~~~~~i~~gi~~~~~~~gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~~~~----~-~~~~~l~~~~~P~V~i~ 144 (333)
T COG1609 71 PFFAEILKGIEEAAREAGYSLLLANTDDDPEKEREYLETLLQKRVDGLILLG-ERPN----D-SLLELLAAAGIPVVVID 144 (333)
T ss_pred chHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEec-CCCC----H-HHHHHHHhcCCCEEEEe
Confidence 5888999999999999999999987543 2 2344556667899999865 2211 1 34455666789998887
Q ss_pred CC
Q psy9352 138 SH 139 (146)
Q Consensus 138 ~~ 139 (146)
..
T Consensus 145 ~~ 146 (333)
T COG1609 145 RS 146 (333)
T ss_pred CC
Confidence 53
No 128
>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=67.59 E-value=51 Score=24.89 Aligned_cols=72 Identities=10% Similarity=0.106 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+++.++++|..+.+... ++. +.+..+. ..+++.|++.... + ..- . .+.+.+++.|+++..+
T Consensus 12 ~~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~-~-~~~-~-~~l~~l~~~~ipvV~~ 86 (288)
T cd01538 12 ERWIRDRPNFEAALKELGAEVIVQNANGDPAKQISQIENMI-AKGVDVLVIAPVD-G-EAL-A-SAVEKAADAGIPVIAY 86 (288)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEecCC-h-hhH-H-HHHHHHHHCCCCEEEE
Confidence 47778888888999999999998864 333 2344443 4588888874311 1 111 1 2333355689999988
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 87 ~~ 88 (288)
T cd01538 87 DR 88 (288)
T ss_pred CC
Confidence 64
No 129
>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=67.52 E-value=48 Score=24.55 Aligned_cols=72 Identities=14% Similarity=0.190 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHhc---CC--eEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 62 RFLQQSLADLDQKFRAL---GS--RLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~---g~--~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.|+.+-+..+++.++++ |. .+.+... ++. +.+.++.. .+++.|+.... .+... +..+ ..+++.||
T Consensus 12 ~~~~~~~~~i~~~~~~~~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~-~~vdgiIi~~~-~~~~~--~~~l-~~~~~~~i 86 (272)
T cd06300 12 TWRAQMLDEFKAQAKELKKAGLISEFIVTSADGDVAQQIADIRNLIA-QGVDAIIINPA-SPTAL--NPVI-EEACEAGI 86 (272)
T ss_pred hHHHHHHHHHHHHHHhhhccCCeeEEEEecCCCCHHHHHHHHHHHHH-cCCCEEEEeCC-Chhhh--HHHH-HHHHHCCC
Confidence 57778888888888888 97 5666643 333 33444444 48999998532 11111 2133 34567899
Q ss_pred eEEEecC
Q psy9352 132 KVEQHVS 138 (146)
Q Consensus 132 ~~~~~~~ 138 (146)
++..++.
T Consensus 87 Pvv~~~~ 93 (272)
T cd06300 87 PVVSFDG 93 (272)
T ss_pred eEEEEec
Confidence 9998874
No 130
>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=66.98 E-value=18 Score=27.07 Aligned_cols=65 Identities=14% Similarity=0.103 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc-----cEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI-----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~-----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.++.++=+.|++.|+++.|..+.+.+.+..+.+..+. +.|+...+... .+---..+..++++.|+
T Consensus 102 pg~~e~L~~L~~~g~~l~IvT~~~~~~~~~~l~~~gl~~~f~d~ii~~~~~~~-~KP~p~~~~~a~~~l~~ 171 (253)
T TIGR01422 102 PGVIEVIAYLRARGIKIGSTTGYTREMMDVVAPEAALQGYRPDYNVTTDDVPA-GRPAPWMALKNAIELGV 171 (253)
T ss_pred CCHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHHHHhcCCCCceEEccccCCC-CCCCHHHHHHHHHHcCC
Confidence 3566777888889999999999988877777765443 44555444321 11111245556666665
No 131
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=66.93 E-value=32 Score=22.24 Aligned_cols=66 Identities=9% Similarity=0.105 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.++. ..+++.+++.|+++.+......+. .+... +++.|+. +|.-....+.+++.+++.|+++...+
T Consensus 17 S~l~---~k~~~~~~~~gi~~~v~a~~~~~~-~~~~~--~~Dvill----~pqi~~~~~~i~~~~~~~~ipv~~I~ 82 (95)
T TIGR00853 17 SLLV---NKMNKAAEEYGVPVKIAAGSYGAA-GEKLD--DADVVLL----APQVAYMLPDLKKETDKKGIPVEVIN 82 (95)
T ss_pred HHHH---HHHHHHHHHCCCcEEEEEecHHHH-HhhcC--CCCEEEE----CchHHHHHHHHHHHhhhcCCCEEEeC
Confidence 4554 566777888999998888776553 44443 4566777 44444445578888888888887654
No 132
>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=66.32 E-value=24 Score=26.88 Aligned_cols=48 Identities=8% Similarity=0.155 Sum_probs=38.3
Q ss_pred ChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 88 KPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 88 ~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
.+...+.+.++..|++.|..= +||....++.+++.+++.|+++..+.+
T Consensus 106 t~~~A~~~AL~alg~~RIalv---TPY~~~v~~~~~~~l~~~G~eV~~~~~ 153 (239)
T TIGR02990 106 TPSSAAVDGLAALGVRRISLL---TPYTPETSRPMAQYFAVRGFEIVNFTC 153 (239)
T ss_pred CHHHHHHHHHHHcCCCEEEEE---CCCcHHHHHHHHHHHHhCCcEEeeeec
Confidence 466777788888899999984 566667777899999999999887754
No 133
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=66.26 E-value=62 Score=25.38 Aligned_cols=72 Identities=15% Similarity=0.132 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+.+..+++.+++.|..+.+..++ +. +.+..+. ..+++.|++.... .. .-+..+ +.+.+.|+++..+
T Consensus 38 ~f~~~~~~gi~~~a~~~g~~l~i~~~~~~~~~~~~~i~~l~-~~~vDGiIi~~~~-~~--~~~~~l-~~~~~~~iPvV~i 112 (330)
T PRK10355 38 ERWQKDRDIFVKKAESLGAKVFVQSANGNEETQMSQIENMI-NRGVDVLVIIPYN-GQ--VLSNVI-KEAKQEGIKVLAY 112 (330)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEeCCC-hh--hHHHHH-HHHHHCCCeEEEE
Confidence 488889999999999999999988653 32 3344443 3589999885321 11 112233 3446788999988
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 113 d~ 114 (330)
T PRK10355 113 DR 114 (330)
T ss_pred CC
Confidence 64
No 134
>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=66.08 E-value=21 Score=25.93 Aligned_cols=64 Identities=11% Similarity=0.021 Sum_probs=40.4
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
++.++=+.|++.|+++.|+.+.+...+...++..++ +.|++..+.+..--.. ..+..++++.|+
T Consensus 98 g~~~~L~~L~~~g~~~~i~Tn~~~~~~~~~l~~~~l~~~f~~i~~~~~~~~~KP~~-~~~~~~~~~~~~ 165 (221)
T TIGR02253 98 GVRDTLMELRESGYRLGIITDGLPVKQWEKLERLGVRDFFDAVITSEEEGVEKPHP-KIFYAALKRLGV 165 (221)
T ss_pred CHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHhCChHHhccEEEEeccCCCCCCCH-HHHHHHHHHcCC
Confidence 566677788888999999998876666667777665 4566655543211111 245555555555
No 135
>COG1751 Uncharacterized conserved protein [Function unknown]
Probab=65.93 E-value=34 Score=24.66 Aligned_cols=69 Identities=19% Similarity=0.162 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEE---CChhhHHHHHHHHcCccEEEEeeecC---hhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQ---GKPEEVFPDIFKTWNIKLLTWEYDIE---PYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~---g~~~~~l~~l~~~~~~~~v~~~~~~~---~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
+.|+---+.-+++||.-+++- |...--+.++++. +...|+.+.+++ +.+.+.|..+++.+++.|..+..
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 456666677788999877764 5554444455544 255677777764 44567888999999999976654
No 136
>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=65.82 E-value=53 Score=24.39 Aligned_cols=73 Identities=11% Similarity=0.066 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+.+.++++|..+.+... +.. +.+..+.. .+++.|++.... +. .-+..+ +.+.+.||++..+
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 58888999999999999999998753 332 23445444 578888874211 11 112233 3355688999888
Q ss_pred cCC
Q psy9352 137 VSH 139 (146)
Q Consensus 137 ~~~ 139 (146)
+..
T Consensus 87 ~~~ 89 (273)
T cd06309 87 DRG 89 (273)
T ss_pred ecC
Confidence 753
No 137
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=65.75 E-value=18 Score=26.29 Aligned_cols=38 Identities=13% Similarity=0.115 Sum_probs=31.0
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccE
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKL 104 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 104 (146)
++.++=+.|++.|+++.|..+.+...+....+..++..
T Consensus 86 g~~~~l~~L~~~g~~~~i~S~~~~~~~~~~l~~~gl~~ 123 (214)
T PRK13288 86 TVYETLKTLKKQGYKLGIVTTKMRDTVEMGLKLTGLDE 123 (214)
T ss_pred CHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCChh
Confidence 45667777888899999999998888888888887754
No 138
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=65.53 E-value=36 Score=23.06 Aligned_cols=43 Identities=16% Similarity=0.118 Sum_probs=28.1
Q ss_pred HHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 94 PDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 94 ~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
.+.+++-.+.-|+..+|.+|.+... .+..+|++.+|++..+.+
T Consensus 36 ~Kai~~g~a~LVviA~Dv~P~~~~~--~l~~lc~~~~vpyv~V~s 78 (116)
T COG1358 36 TKAIERGKAKLVVIAEDVSPEELVK--HLPALCEEKNVPYVYVGS 78 (116)
T ss_pred HHHHHcCCCcEEEEecCCCHHHHHH--HHHHHHHhcCCCEEEeCC
Confidence 3445555677777777777665544 467777777777776654
No 139
>PLN02347 GMP synthetase
Probab=65.20 E-value=66 Score=27.66 Aligned_cols=77 Identities=8% Similarity=0.173 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChh-hHHHHHHHH-c--CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPE-EVFPDIFKT-W--NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~-~~l~~l~~~-~--~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|+.+.++++++.+.+.+.-++-+.|-.. .++..++.+ . ++.+|+++....+.. +.++..+..+++.||+++.++
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 46777888888887766656666776554 455566666 3 467777764443332 344344667778999988876
Q ss_pred CC
Q psy9352 138 SH 139 (146)
Q Consensus 138 ~~ 139 (146)
-.
T Consensus 292 ~~ 293 (536)
T PLN02347 292 AS 293 (536)
T ss_pred Cc
Confidence 44
No 140
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=65.06 E-value=36 Score=25.12 Aligned_cols=67 Identities=16% Similarity=0.169 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEE----EeeecChhHHHHHHHHHHHHHhCCCe
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLT----WEYDIEPYAKKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~----~~~~~~~~~~~rd~~v~~~~~~~~i~ 132 (146)
+.++.++=..|++.|++|-|..+.+...+..+++.+++...+ ...+ .+..+---..+..++++.|+.
T Consensus 91 ~~gv~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~gl~~~F~~i~g~~~-~~~~KP~P~~l~~~~~~~~~~ 161 (220)
T COG0546 91 FPGVKELLAALKSAGYKLGIVTNKPERELDILLKALGLADYFDVIVGGDD-VPPPKPDPEPLLLLLEKLGLD 161 (220)
T ss_pred CCCHHHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHhCCccccceEEcCCC-CCCCCcCHHHHHHHHHHhCCC
Confidence 445666777888999999999999999999999988775433 3111 111111112566666666665
No 141
>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=64.98 E-value=53 Score=24.16 Aligned_cols=71 Identities=4% Similarity=-0.039 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+++.+++.|..+.+...+ +. +.+..+ .+.+++.|++..... . +..+ +.+.+.++++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l-~~~~~dgiii~~~~~-~----~~~~-~~~~~~~ipvV~i 84 (270)
T cd06296 12 PWASEVLRGVEEAAAAAGYDVVLSESGRRTSPERQWVERL-SARRTDGVILVTPEL-T----SAQR-AALRRTGIPFVVV 84 (270)
T ss_pred ccHHHHHHHHHHHHHHcCCeEEEecCCCchHHHHHHHHHH-HHcCCCEEEEecCCC-C----hHHH-HHHhcCCCCEEEE
Confidence 366666777788888899999887643 22 223333 345889887743221 1 1123 3445688999988
Q ss_pred cCC
Q psy9352 137 VSH 139 (146)
Q Consensus 137 ~~~ 139 (146)
+..
T Consensus 85 ~~~ 87 (270)
T cd06296 85 DPA 87 (270)
T ss_pred ecc
Confidence 653
No 142
>PLN03243 haloacid dehalogenase-like hydrolase; Provisional
Probab=64.56 E-value=23 Score=27.11 Aligned_cols=46 Identities=9% Similarity=0.155 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeec
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDI 111 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~ 111 (146)
.++.++=+.|++.|+++.|..+.+...+..+.+..++ +.|+...+.
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 4566677788889999999999888888888887775 556665554
No 143
>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=64.51 E-value=56 Score=24.23 Aligned_cols=72 Identities=14% Similarity=0.139 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC----Chhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG----KPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g----~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|+.+-+..+++.+++.|..+.+... ++.. .+..+. ..+++.|++.. .... .-+..+ +.+++.||++.
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiIi~~-~~~~--~~~~~~-~~~~~~~iPvV 86 (275)
T cd06320 12 EFWRSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMI-NKGYKGLLFSP-ISDV--NLVPAV-ERAKKKGIPVV 86 (275)
T ss_pred HHHHHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHH-HhCCCEEEECC-CChH--HhHHHH-HHHHHCCCeEE
Confidence 46667777888889999999988742 3332 233333 35899887742 1111 112233 34567899999
Q ss_pred EecC
Q psy9352 135 QHVS 138 (146)
Q Consensus 135 ~~~~ 138 (146)
.++.
T Consensus 87 ~~~~ 90 (275)
T cd06320 87 NVND 90 (275)
T ss_pred EECC
Confidence 8865
No 144
>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=64.49 E-value=50 Score=25.33 Aligned_cols=75 Identities=13% Similarity=-0.022 Sum_probs=39.9
Q ss_pred HHHHHHHHHhcCCeEEEEECChh----hHHHHHHHHcCccEEEEeeecC---hhHHHHHHHHHHHHHhCCCeEEEecCCe
Q psy9352 68 LADLDQKFRALGSRLYVVQGKPE----EVFPDIFKTWNIKLLTWEYDIE---PYAKKRDGLVEDMAKEYKVKVEQHVSHT 140 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~~----~~l~~l~~~~~~~~v~~~~~~~---~~~~~rd~~v~~~~~~~~i~~~~~~~~~ 140 (146)
|..+++....-++.++|..+... +.+.+++++.+...++.....+ .....|...+..+ .+=-+...|..+
T Consensus 23 l~~l~~~~~~~~~eiIvvd~~s~~~~~~~l~~~~~~~~~~~~i~~~~~~~~f~~a~arN~g~~~A---~~d~l~flD~D~ 99 (281)
T PF10111_consen 23 LESLSQFQSDPDFEIIVVDDGSSDEFDEELKKLCEKNGFIRYIRHEDNGEPFSRAKARNIGAKYA---RGDYLIFLDADC 99 (281)
T ss_pred HHHHHhcCCCCCEEEEEEECCCchhHHHHHHHHHhccCceEEEEcCCCCCCcCHHHHHHHHHHHc---CCCEEEEEcCCe
Confidence 33344433345778888875544 4577888887776444444333 3344444333322 222334456677
Q ss_pred eeeCC
Q psy9352 141 LYNTN 145 (146)
Q Consensus 141 L~~p~ 145 (146)
+++|+
T Consensus 100 i~~~~ 104 (281)
T PF10111_consen 100 IPSPD 104 (281)
T ss_pred eeCHH
Confidence 77663
No 145
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=64.45 E-value=31 Score=24.87 Aligned_cols=66 Identities=9% Similarity=0.084 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc-----CccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW-----NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-----~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
..++.++=+.|++.|+++.|....+...+..+.... -++.|+...+.+..--.. .....++++.|+
T Consensus 86 ~~g~~e~L~~l~~~g~~~~i~Sn~~~~~~~~~~~~~~~l~~~fd~v~~s~~~~~~KP~p-~~~~~~~~~~~~ 156 (199)
T PRK09456 86 RPEVIAIMHKLREQGHRVVVLSNTNRLHTTFWPEEYPEVRAAADHIYLSQDLGMRKPEA-RIYQHVLQAEGF 156 (199)
T ss_pred CHHHHHHHHHHHhCCCcEEEEcCCchhhHHHHHhhchhHHHhcCEEEEecccCCCCCCH-HHHHHHHHHcCC
Confidence 457777888899999999999877665443332221 256788776654221111 244455555554
No 146
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=64.34 E-value=35 Score=23.87 Aligned_cols=47 Identities=11% Similarity=0.062 Sum_probs=34.1
Q ss_pred ECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeee
Q psy9352 86 QGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLY 142 (146)
Q Consensus 86 ~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~ 142 (146)
.+++.+.|.+.+.+++ ..++++. |+.+++.+++.||++..+.+.+++
T Consensus 83 ~~~aDe~i~~~a~~~~-~~iVaTn---------D~eLk~rlr~~GIPvi~lr~r~~~ 129 (136)
T COG1412 83 GRYADECLLEAALKHG-RYIVATN---------DKELKRRLRENGIPVITLRQRKLL 129 (136)
T ss_pred CCChHHHHHHHHHHcC-CEEEEeC---------CHHHHHHHHHcCCCEEEEeCCeEE
Confidence 4677899999999988 3455543 334666677789999999866554
No 147
>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=63.99 E-value=15 Score=23.76 Aligned_cols=46 Identities=17% Similarity=0.197 Sum_probs=37.9
Q ss_pred hhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccE
Q psy9352 59 NRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKL 104 (146)
Q Consensus 59 ~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 104 (146)
++..++..-...+.+.|.++|++++....+.-+...++.+..+...
T Consensus 32 R~~G~~~~v~~~~~~~L~~~g~P~Y~hv~~~N~~~~r~~~~lg~~~ 77 (89)
T PF08444_consen 32 RGQGLMSQVMYHLAQYLHKLGFPFYGHVDEDNEASQRLSKSLGFIF 77 (89)
T ss_pred hcCCHHHHHHHHHHHHHHHCCCCeEeehHhccHHHHHHHHHCCCee
Confidence 4556888889999999999999999888777778888888877643
No 148
>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=63.94 E-value=64 Score=24.73 Aligned_cols=74 Identities=14% Similarity=0.098 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEECC--hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 61 WRFLQQSLADLDQKFRALGSRLYVVQGK--PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 61 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
..|+.+....+++.+++.|..+.+...+ +. +.+..+ ...+++.|+...... ..-+..+ +.+++.||++..
T Consensus 10 ~~~~~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~l-~~~~vDgIIi~~~~~---~~~~~~l-~~~~~~~iPvV~ 84 (302)
T TIGR02634 10 LERWQKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIENL-IARGVDVLVIIPQNG---QVLSNAV-QEAKDEGIKVVA 84 (302)
T ss_pred hhhHHHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHHH-HHcCCCEEEEeCCCh---hHHHHHH-HHHHHCCCeEEE
Confidence 4688899999999999999999887543 33 233333 335889888853221 1112234 345678999998
Q ss_pred ecCC
Q psy9352 136 HVSH 139 (146)
Q Consensus 136 ~~~~ 139 (146)
++..
T Consensus 85 ~d~~ 88 (302)
T TIGR02634 85 YDRL 88 (302)
T ss_pred ecCc
Confidence 8653
No 149
>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=63.88 E-value=24 Score=22.93 Aligned_cols=41 Identities=12% Similarity=0.255 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
-.+..|.++..++++.|..++.+..++.+.+.++.++.+..
T Consensus 43 ~~l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~~ 83 (124)
T PF00578_consen 43 AELPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGLP 83 (124)
T ss_dssp HHHHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTCS
T ss_pred cchhHHHHHhhhhccceEEeeecccccccchhhhhhhhccc
Confidence 34466899999999999999999988888899999988765
No 150
>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=63.87 E-value=35 Score=22.52 Aligned_cols=66 Identities=11% Similarity=-0.011 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHHhcC-CeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHH
Q psy9352 61 WRFLQQSLADLDQKFRALG-SRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMA 126 (146)
Q Consensus 61 ~~Fl~~sL~~L~~~L~~~g-~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~ 126 (146)
...|.+-.......|++.| +.=-+..--..++...|++.+|-..||+-.........|+..|.+..
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 3456666666778888888 66445555567888999999999999997766555566776666544
No 151
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=63.55 E-value=36 Score=26.46 Aligned_cols=54 Identities=11% Similarity=0.156 Sum_probs=40.3
Q ss_pred eEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 81 RLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 81 ~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
++.+..|.- .+..++++-.+.-|+...|.+|.+.. ..+..+|++.+|++..+.+
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 466777754 34577777888889998888876543 3588889999999887765
No 152
>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=63.25 E-value=57 Score=23.93 Aligned_cols=72 Identities=21% Similarity=0.207 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEE-E--CChhhH---HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVV-Q--GKPEEV---FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~-~--g~~~~~---l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
|+.+....+++.++++|..+.+. . +++... +.+++. .+++.|++.-.. +.... ..+.+ +++.||++..+
T Consensus 12 ~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~-~~~d~Iiv~~~~-~~~~~--~~l~~-~~~~gIpvv~~ 86 (257)
T PF13407_consen 12 FWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAIS-QGVDGIIVSPVD-PDSLA--PFLEK-AKAAGIPVVTV 86 (257)
T ss_dssp HHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHH-TTESEEEEESSS-TTTTH--HHHHH-HHHTTSEEEEE
T ss_pred HHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHH-hcCCEEEecCCC-HHHHH--HHHHH-HhhcCceEEEE
Confidence 88888999999999999999885 4 344333 333332 479999875322 22222 13444 56789999998
Q ss_pred cCC
Q psy9352 137 VSH 139 (146)
Q Consensus 137 ~~~ 139 (146)
+..
T Consensus 87 d~~ 89 (257)
T PF13407_consen 87 DSD 89 (257)
T ss_dssp SST
T ss_pred ecc
Confidence 876
No 153
>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=63.22 E-value=58 Score=23.97 Aligned_cols=72 Identities=11% Similarity=0.051 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+++.+++.|..+.+... ++. +.+..+. ..+++.|++... .+. .-+..+.. +++.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~-~~~--~~~~~~~~-~~~~~ipvV~~ 86 (267)
T cd06322 12 PFYIELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVEDFI-TKKVDAIVLSPV-DSK--GIRAAIAK-AKKAGIPVITV 86 (267)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Chh--hhHHHHHH-HHHCCCCEEEE
Confidence 58888899999999999999988764 333 2333333 458999988422 111 11223444 55689999988
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 87 ~~ 88 (267)
T cd06322 87 DI 88 (267)
T ss_pred cc
Confidence 64
No 154
>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=63.21 E-value=59 Score=24.02 Aligned_cols=73 Identities=7% Similarity=-0.003 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHh-cCCeEEEEEC--Chhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 62 RFLQQSLADLDQKFRA-LGSRLYVVQG--KPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~-~g~~L~v~~g--~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
.|+.+-+..+.+.+++ .|..+.+..+ ++.. .+..+. +.+++.+++..... .....+.+.+.+.||++..
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~----~~~~~~~~~l~~~~iPvv~ 86 (272)
T cd06301 12 NFLTLLRNAMKEHAKVLGGVELQFEDAKNDVATQLSQVENFI-AQGVDAIIVVPVDT----AATAPIVKAANAAGIPLVY 86 (272)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEecCch----hhhHHHHHHHHHCCCeEEE
Confidence 4666777778888888 8999988754 3433 333433 45899888743211 1111344446778999998
Q ss_pred ecCC
Q psy9352 136 HVSH 139 (146)
Q Consensus 136 ~~~~ 139 (146)
++.+
T Consensus 87 ~~~~ 90 (272)
T cd06301 87 VNRR 90 (272)
T ss_pred ecCC
Confidence 8653
No 155
>PRK08238 hypothetical protein; Validated
Probab=62.90 E-value=50 Score=27.93 Aligned_cols=46 Identities=13% Similarity=0.109 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc-cEEEEeeec
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI-KLLTWEYDI 111 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~-~~v~~~~~~ 111 (146)
++..++=+++++.|.++.+..+.+......+++..++ +.|+.+++.
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 4566666777889999999999999999999999996 888887654
No 156
>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=62.62 E-value=61 Score=24.00 Aligned_cols=75 Identities=11% Similarity=0.108 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+.+.++++|..+.+... ++. +.+..+.. .+++.+++...........+..+. .+++.||++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgii~~~~~~~~~~~~~~~~~-~~~~~~ipvV~~ 89 (273)
T cd01541 12 YIFPSIIRGIESVLSEKGYSLLLASTNNDPERERKCLENMLS-QGIDGLIIEPTKSALPNPNIDLYL-KLEKLGIPYVFI 89 (273)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHH-cCCCEEEEeccccccccccHHHHH-HHHHCCCCEEEE
Confidence 46777788889999999999988753 332 34445444 689998874321100001112333 346678999888
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 90 ~~ 91 (273)
T cd01541 90 NA 91 (273)
T ss_pred ec
Confidence 64
No 157
>COG4087 Soluble P-type ATPase [General function prediction only]
Probab=62.42 E-value=50 Score=23.28 Aligned_cols=69 Identities=12% Similarity=0.092 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
++..+.+--++|... +..+|-.|+....+.++++-.|+..=..-.... .++...+...+++.+-.+..+
T Consensus 31 lf~ev~e~iqeL~d~-V~i~IASgDr~gsl~~lae~~gi~~~rv~a~a~---~e~K~~ii~eLkk~~~k~vmV 99 (152)
T COG4087 31 LFSEVSETIQELHDM-VDIYIASGDRKGSLVQLAEFVGIPVERVFAGAD---PEMKAKIIRELKKRYEKVVMV 99 (152)
T ss_pred EcHhhHHHHHHHHHh-heEEEecCCcchHHHHHHHHcCCceeeeecccC---HHHHHHHHHHhcCCCcEEEEe
Confidence 445666667777777 999999999999999999988764333221222 233334555556554444433
No 158
>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=62.42 E-value=19 Score=29.48 Aligned_cols=66 Identities=21% Similarity=0.246 Sum_probs=42.8
Q ss_pred HHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHH-HHHHHHHHhCC-CeEE
Q psy9352 68 LADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRD-GLVEDMAKEYK-VKVE 134 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd-~~v~~~~~~~~-i~~~ 134 (146)
..-++..+...|+...+......+.|.+.++. +...||++..-.|...-.| ..+.+++++.| +.+.
T Consensus 108 ~~~~~~~l~~~gv~v~~~d~~d~~~l~~~l~~-~t~~v~~EspsNP~l~v~Dl~~i~~~a~~~g~~~~v 175 (386)
T PF01053_consen 108 YRLLEELLPRFGVEVTFVDPTDLEALEAALRP-NTKLVFLESPSNPTLEVPDLEAIAKLAKEHGDILVV 175 (386)
T ss_dssp HHHHHHCHHHTTSEEEEESTTSHHHHHHHHCT-TEEEEEEESSBTTTTB---HHHHHHHHHHTTT-EEE
T ss_pred hhhhhhhhcccCcEEEEeCchhHHHHHhhccc-cceEEEEEcCCCcccccccHHHHHHHHHHhCCceEE
Confidence 33455567788999988877666777777776 6777777665545432222 47788888888 6544
No 159
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=62.20 E-value=16 Score=27.63 Aligned_cols=46 Identities=17% Similarity=0.242 Sum_probs=39.8
Q ss_pred HHHHHHHHHHHhcCC-eEEEEECChhhHHHHHHHHcCccEEEEeeec
Q psy9352 66 QSLADLDQKFRALGS-RLYVVQGKPEEVFPDIFKTWNIKLLTWEYDI 111 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~-~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~ 111 (146)
.++..+-+...+.|+ .+.++.++..+++..+...-.++.|+.+-.-
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 467777888888999 9999999999999999987789999997654
No 160
>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=61.78 E-value=30 Score=23.34 Aligned_cols=39 Identities=15% Similarity=0.152 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECC-hhhHHHHHHHHcC
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGK-PEEVFPDIFKTWN 101 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~-~~~~l~~l~~~~~ 101 (146)
-++.++.++=+.|++.|+++.+..+. +.+....+.+..+
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 36688888888999999999999988 7766666666555
No 161
>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=61.53 E-value=64 Score=23.92 Aligned_cols=73 Identities=10% Similarity=0.028 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC---Chhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG---KPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g---~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
.|+.+.+..+++.+++.|..+.+... ++.. .+..+.. .+++.++.... .+. .-...+. .+++.||++..
T Consensus 13 ~~~~~~~~g~~~~~~~~g~~v~~~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~-~~~--~~~~~l~-~~~~~~ipvV~ 87 (271)
T cd06312 13 PFWTVVKNGAEDAAKDLGVDVEYRGPETFDVADMARLIEAAIA-AKPDGIVVTIP-DPD--ALDPAIK-RAVAAGIPVIS 87 (271)
T ss_pred cHHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHH-hCCCEEEEeCC-ChH--HhHHHHH-HHHHCCCeEEE
Confidence 58888899999999999999988764 3332 2333333 48998887532 111 1122343 34668999998
Q ss_pred ecCC
Q psy9352 136 HVSH 139 (146)
Q Consensus 136 ~~~~ 139 (146)
++..
T Consensus 88 ~~~~ 91 (271)
T cd06312 88 FNAG 91 (271)
T ss_pred eCCC
Confidence 8753
No 162
>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=61.49 E-value=57 Score=23.30 Aligned_cols=65 Identities=18% Similarity=0.285 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHhcCCe--EEEEE----CChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 63 FLQQSLADLDQKFRALGSR--LYVVQ----GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~--L~v~~----g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
-....|..+.++|.+.|.. ++.+. -+.++++.++++.++.+-..+.-..+ .+.++.+..++.+..
T Consensus 70 ~~l~~l~~~~~~l~~~~~~v~~v~ISvDP~~DTp~~L~~Y~~~~~~~~~~ltg~~~--------~i~~l~~~~~v~~~~ 140 (174)
T PF02630_consen 70 TTLANLSQLQKQLGEEGKDVQFVFISVDPERDTPEVLKKYAKKFGPDFIGLTGSRE--------EIEELAKQFGVYYEK 140 (174)
T ss_dssp HHHHHHHHHHHHHHHTTTTEEEEEEESSTTTC-HHHHHHHHHCHTTTCEEEEEEHH--------HHHHHHHHCTHCEEE
T ss_pred HHHHHHHHHHHHhhhccCceEEEEEEeCCCCCCHHHHHHHHHhcCCCcceeEeCHH--------HHHHHHHHHHhhhcc
Confidence 3445667777777765544 44444 45568999999999888777743221 344445555655443
No 163
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=60.86 E-value=36 Score=21.99 Aligned_cols=46 Identities=15% Similarity=0.065 Sum_probs=33.0
Q ss_pred CChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHH-hCCCeEEEecCCeee
Q psy9352 87 GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAK-EYKVKVEQHVSHTLY 142 (146)
Q Consensus 87 g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~-~~~i~~~~~~~~~L~ 142 (146)
+.+.+.|.+++.+.+. .++++.| +.+++.++ ..||++..+..+.++
T Consensus 51 ~~addci~~~~~~~~~-~~VaT~D---------~~Lr~~lr~~~GvPvi~l~~~~~~ 97 (101)
T PF04900_consen 51 GSADDCILDLAGKNNK-YIVATQD---------KELRRRLRKIPGVPVIYLRRNVLI 97 (101)
T ss_pred cCHHHHHHHHhccCCe-EEEEecC---------HHHHHHHhcCCCCCEEEEECCEEE
Confidence 5788999999987776 5666543 34555555 789999998877654
No 164
>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=60.41 E-value=39 Score=22.45 Aligned_cols=41 Identities=10% Similarity=0.219 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECCh--------hhHHHHHHHHcCcc
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGKP--------EEVFPDIFKTWNIK 103 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~~--------~~~l~~l~~~~~~~ 103 (146)
-++..+.++=+.|++.|+++.+..+.+ .+.+..+++..+..
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 445666777778888999999999887 67788888887775
No 165
>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=60.38 E-value=56 Score=27.24 Aligned_cols=64 Identities=22% Similarity=0.352 Sum_probs=45.9
Q ss_pred HHHHhcCCeEEEE----ECChhhHHHHHHHHcCccEEEEeeec-----ChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 73 QKFRALGSRLYVV----QGKPEEVFPDIFKTWNIKLLTWEYDI-----EPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 73 ~~L~~~g~~L~v~----~g~~~~~l~~l~~~~~~~~v~~~~~~-----~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
+.++..|.++.-+ .|-..+.|.+.++++++..+|++-.. .....+|.+++.+++++.++.+..-
T Consensus 194 ~~~~~~g~~~~~vp~d~~G~~~e~le~~~~~~~~k~~y~~P~~qNPtG~tms~~rR~~Ll~lA~~~~~~IIED 266 (459)
T COG1167 194 QALEALGARVIPVPVDEDGIDPEALEEALAQWKPKAVYVTPTFQNPTGVTMSLERRKALLALAEKYDVLIIED 266 (459)
T ss_pred HHHHHcCCcEEecCCCCCCCCHHHHHHHHhhcCCcEEEECCCCCCCCCCccCHHHHHHHHHHHHHcCCeEEee
Confidence 3455566666554 36677899999999999999996554 1234556668999999999876653
No 166
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=60.30 E-value=55 Score=22.73 Aligned_cols=73 Identities=11% Similarity=-0.018 Sum_probs=46.0
Q ss_pred HHHHHHhcCCeEEEEE-CChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCC--eEEEecCCeeeeC
Q psy9352 71 LDQKFRALGSRLYVVQ-GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV--KVEQHVSHTLYNT 144 (146)
Q Consensus 71 L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i--~~~~~~~~~L~~p 144 (146)
+..-|+..|...+-+- ..|.+.|-+-+.+.+++.|..+.-.+....... .+.+.+++.|+ ....+.|...+++
T Consensus 21 v~~~l~~~GfeVi~LG~~v~~e~~v~aa~~~~adiVglS~l~~~~~~~~~-~~~~~l~~~gl~~~~vivGG~~vi~~ 96 (134)
T TIGR01501 21 LDHAFTNAGFNVVNLGVLSPQEEFIKAAIETKADAILVSSLYGHGEIDCK-GLRQKCDEAGLEGILLYVGGNLVVGK 96 (134)
T ss_pred HHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEecccccCHHHHH-HHHHHHHHCCCCCCEEEecCCcCcCh
Confidence 4455677777765543 456677778888889999998876654433333 56667777664 2334555544444
No 167
>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=60.25 E-value=73 Score=24.14 Aligned_cols=73 Identities=15% Similarity=0.166 Sum_probs=47.1
Q ss_pred EEEEEEECCC--ccCCC---CCChh---hHHHHHHHHHHHHHHHHhcCCeEEEEEC-ChhhHHHHHHHH---cCccEEEE
Q psy9352 40 LKPLYILDPH--FRKFM---RVGPN---RWRFLQQSLADLDQKFRALGSRLYVVQG-KPEEVFPDIFKT---WNIKLLTW 107 (146)
Q Consensus 40 l~~vfv~d~~--~~~~~---~~~~~---r~~Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~---~~~~~v~~ 107 (146)
-.++++||.. .|... .+-.. .-.-+.+.+..+++-|+..|++.+...| ++.+++..|+.. .|...+++
T Consensus 51 ~~~~~~fD~~~~~~R~~l~p~YK~~R~~~p~~l~~q~~~~~~~l~~~gi~~i~~~~~EADD~ia~la~~~~~~g~~~~I~ 130 (240)
T cd00008 51 TYVAVVFDAGGKTFRHELYPEYKANRKKMPEELREQIPLIKELLEALGIPVLEIEGYEADDVIGTLAKKAEAEGYKVVIV 130 (240)
T ss_pred CeEEEEEeCCCCcccccccHHHHcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHcCCeEEEE
Confidence 5678888864 33210 00011 1234567889999999999999988877 777788888764 34455666
Q ss_pred eeecC
Q psy9352 108 EYDIE 112 (146)
Q Consensus 108 ~~~~~ 112 (146)
+.|..
T Consensus 131 S~DkD 135 (240)
T cd00008 131 SGDKD 135 (240)
T ss_pred eCCCC
Confidence 65553
No 168
>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=60.19 E-value=30 Score=25.23 Aligned_cols=29 Identities=10% Similarity=0.166 Sum_probs=25.2
Q ss_pred HHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 75 FRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 75 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
|++.|+++.+..|.+...+..++++.+..
T Consensus 28 l~~~gi~~~i~TgR~~~~~~~~~~~l~~~ 56 (221)
T TIGR02463 28 LQEAGIPVILCTSKTAAEVEYLQKALGLT 56 (221)
T ss_pred HHHCCCeEEEEcCCCHHHHHHHHHHcCCC
Confidence 46689999999999999999999888754
No 169
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=59.82 E-value=71 Score=23.90 Aligned_cols=66 Identities=14% Similarity=0.252 Sum_probs=40.5
Q ss_pred HHHhcCCeEEEEECChhhHHHHHHHHcCcc--------EEEEe---ee--c-ChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 74 KFRALGSRLYVVQGKPEEVFPDIFKTWNIK--------LLTWE---YD--I-EPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 74 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~--------~v~~~---~~--~-~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
+|++.|+.+.+..|.+...+..++++.+.+ +++++ .. + .+...+.-..+.+.+++.++.+..+.+.
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 366689999999999998888888887654 12221 11 1 1112233335666677777766655443
No 170
>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=59.63 E-value=47 Score=22.06 Aligned_cols=43 Identities=19% Similarity=0.284 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEE
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~ 107 (146)
+..|..+.+++++.|+.++.+.-++.+.+.+++++.+++--+.
T Consensus 43 ~~~l~~~~~~~~~~~~~vv~is~d~~~~~~~~~~~~~~~~~~l 85 (140)
T cd03017 43 ACDFRDLYEEFKALGAVVIGVSPDSVESHAKFAEKYGLPFPLL 85 (140)
T ss_pred HHHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCCceEE
Confidence 4678888888988899998888777788899999988765444
No 171
>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=59.57 E-value=35 Score=21.70 Aligned_cols=42 Identities=17% Similarity=0.081 Sum_probs=27.0
Q ss_pred HHHHHHHcCccEEEEeeecChhHHH-HHHHHHHHHHhCCCeEE
Q psy9352 93 FPDIFKTWNIKLLTWEYDIEPYAKK-RDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 93 l~~l~~~~~~~~v~~~~~~~~~~~~-rd~~v~~~~~~~~i~~~ 134 (146)
+.+++++.+++-|+.+-........ ....+++.+.+.+|++.
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 6778888889877776544332222 35677888888888764
No 172
>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=59.54 E-value=78 Score=24.24 Aligned_cols=72 Identities=15% Similarity=0.224 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEE-C-Chhh-HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQ-G-KPEE-VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~-g-~~~~-~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
.|+.+-+..+.+.+++.|..+.+.. + ++.. ..-+.+.+.+++.|++.. .... ...+....+. ++++..++.
T Consensus 14 pff~~ii~gIe~~a~~~Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s-~~~~----~~~l~~~~~~-~iPvV~~~~ 87 (279)
T PF00532_consen 14 PFFAEIIRGIEQEAREHGYQLLLCNTGDDEEKEEYIELLLQRRVDGIILAS-SEND----DEELRRLIKS-GIPVVLIDR 87 (279)
T ss_dssp HHHHHHHHHHHHHHHHTTCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEES-SSCT----CHHHHHHHHT-TSEEEEESS
T ss_pred cHHHHHHHHHHHHHHHcCCEEEEecCCCchHHHHHHHHHHhcCCCEEEEec-ccCC----hHHHHHHHHc-CCCEEEEEe
Confidence 5888999999999999999998876 2 2221 222345667999998863 2221 2256666655 899998876
Q ss_pred C
Q psy9352 139 H 139 (146)
Q Consensus 139 ~ 139 (146)
.
T Consensus 88 ~ 88 (279)
T PF00532_consen 88 Y 88 (279)
T ss_dssp -
T ss_pred c
Confidence 4
No 173
>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=59.23 E-value=32 Score=22.15 Aligned_cols=48 Identities=6% Similarity=-0.040 Sum_probs=28.0
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCee
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTL 141 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L 141 (146)
....++.++.++.-...+-.-. ...++ .+.+.-....++...+++..+
T Consensus 31 ~~ak~lL~~~~i~~~~~di~~~--~~~~~-~l~~~tg~~tvP~vfi~g~~i 78 (97)
T TIGR00365 31 ARAVQILKACGVPFAYVNVLED--PEIRQ-GIKEYSNWPTIPQLYVKGEFV 78 (97)
T ss_pred HHHHHHHHHcCCCEEEEECCCC--HHHHH-HHHHHhCCCCCCEEEECCEEE
Confidence 4567888888887555543222 22233 444444445688887777654
No 174
>PRK00865 glutamate racemase; Provisional
Probab=59.17 E-value=79 Score=24.20 Aligned_cols=59 Identities=14% Similarity=0.271 Sum_probs=44.4
Q ss_pred EEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhh--HHHHHHHHcCc
Q psy9352 41 KPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEE--VFPDIFKTWNI 102 (146)
Q Consensus 41 ~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~--~l~~l~~~~~~ 102 (146)
-.+|+.|.... ++|.+-..++.+-+.+.-+.|.+.|..++|+.-+... .+.++-+..++
T Consensus 32 ~~iY~~D~~~~---PYG~ks~~~i~~~~~~~~~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~i 92 (261)
T PRK00865 32 HIIYVGDTARF---PYGEKSEEEIRERTLEIVEFLLEYGVKMLVIACNTASAVALPDLRERYDI 92 (261)
T ss_pred CEEEEecCCCC---CCCCCCHHHHHHHHHHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHhCCC
Confidence 37899887544 6788888888888888888899999999999877653 45555555443
No 175
>PRK03669 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=59.12 E-value=36 Score=25.91 Aligned_cols=31 Identities=10% Similarity=0.185 Sum_probs=26.5
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
++|++.|+.+.+..|.+...+..++++++++
T Consensus 34 ~~l~~~Gi~~viaTGR~~~~i~~~~~~l~~~ 64 (271)
T PRK03669 34 TRLREAQVPVILCSSKTAAEMLPLQQTLGLQ 64 (271)
T ss_pred HHHHHcCCeEEEEcCCCHHHHHHHHHHhCCC
Confidence 3466789999999999999999999998774
No 176
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=59.10 E-value=59 Score=24.95 Aligned_cols=55 Identities=15% Similarity=0.074 Sum_probs=40.2
Q ss_pred eEEEEECCh--hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 81 RLYVVQGKP--EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 81 ~L~v~~g~~--~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
+..++.|.. .+.+.+++++.+++.|+=- .-|+..+--+.+.++|++.||++..|.
T Consensus 43 ~~~v~~G~l~~~~~l~~~l~~~~i~~VIDA--THPfA~~is~~a~~ac~~~~ipyiR~e 99 (248)
T PRK08057 43 PGPVRVGGFGGAEGLAAYLREEGIDLVIDA--THPYAAQISANAAAACRALGIPYLRLE 99 (248)
T ss_pred CceEEECCCCCHHHHHHHHHHCCCCEEEEC--CCccHHHHHHHHHHHHHHhCCcEEEEe
Confidence 345555654 3678899999999888731 236666777788888999999888876
No 177
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=58.92 E-value=21 Score=26.22 Aligned_cols=44 Identities=11% Similarity=0.157 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc-CccEEEEe
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW-NIKLLTWE 108 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-~~~~v~~~ 108 (146)
..+..++=+.|++.|+++.|..+.....+..+.+.. ....+++|
T Consensus 76 ~pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~~~~~~i~~n 120 (219)
T PRK09552 76 REGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGLIPKEQIYCN 120 (219)
T ss_pred CcCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHhCCcCcEEEe
Confidence 457777888889999999999998888888888776 22346655
No 178
>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=58.77 E-value=66 Score=23.17 Aligned_cols=72 Identities=11% Similarity=0.166 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--h---hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--P---EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~---~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+-...+++.+++.|+.+.+.... + .+.+.++++. +++.|++...... .. .....+.+.++++..+
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~~-~~----~~~~~l~~~~ip~v~~ 85 (264)
T cd01537 12 PFFAQVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIAR-GVDGIIIAPSDLT-AP----TIVKLARKAGIPVVLV 85 (264)
T ss_pred hHHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCCc-ch----hHHHHhhhcCCCEEEe
Confidence 366677778888888899999888643 2 2445555544 8888887532221 11 1234456788999887
Q ss_pred cCC
Q psy9352 137 VSH 139 (146)
Q Consensus 137 ~~~ 139 (146)
+..
T Consensus 86 ~~~ 88 (264)
T cd01537 86 DRD 88 (264)
T ss_pred ccC
Confidence 654
No 179
>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=58.38 E-value=37 Score=27.98 Aligned_cols=46 Identities=9% Similarity=0.065 Sum_probs=33.5
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
+.+.+++++.+++.|+..-..... ++-..+.+.|++.|++++...+
T Consensus 181 ~dl~~~i~~~~vd~ViIA~p~~~~--~~~~~ll~~~~~~gv~V~vvP~ 226 (451)
T TIGR03023 181 DDLEELIREGEVDEVYIALPLAAE--DRILELLDALEDLTVDVRLVPD 226 (451)
T ss_pred HHHHHHHHhcCCCEEEEeeCcccH--HHHHHHHHHHHhcCCEEEEeCc
Confidence 457889999999999997654432 3333577778888998887765
No 180
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=58.31 E-value=71 Score=28.50 Aligned_cols=55 Identities=16% Similarity=0.195 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHH
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDM 125 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~ 125 (146)
....+.-++|++.|++..++.|+.......++++.|++ .++ ...|..+. +.++++
T Consensus 571 ~~a~~~i~~L~~~gi~~~llTGd~~~~a~~ia~~lgi~-~~~--~~~p~~K~--~~v~~l 625 (741)
T PRK11033 571 ADARQAISELKALGIKGVMLTGDNPRAAAAIAGELGID-FRA--GLLPEDKV--KAVTEL 625 (741)
T ss_pred hhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC-eec--CCCHHHHH--HHHHHH
Confidence 45556666778899999999999999999999999997 333 23454332 245554
No 181
>TIGR02252 DREG-2 REG-2-like, HAD superfamily (subfamily IA) hydrolase. Most likely, these sequences, like the vast majority of HAD sequences, represent phosphatase enzymes.
Probab=57.92 E-value=43 Score=23.95 Aligned_cols=65 Identities=9% Similarity=0.191 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
+.++.++=+.|++.|.++.|..+.+... ....+..++ +.|+...+.+..--..+ .+..++++.|+
T Consensus 107 ~~g~~~~l~~L~~~g~~~~i~Sn~~~~~-~~~l~~~~l~~~fd~i~~s~~~~~~KP~~~-~~~~~~~~~~~ 175 (203)
T TIGR02252 107 YPDAIKLLKDLRERGLILGVISNFDSRL-RGLLEALGLLEYFDFVVTSYEVGAEKPDPK-IFQEALERAGI 175 (203)
T ss_pred CcCHHHHHHHHHHCCCEEEEEeCCchhH-HHHHHHCCcHHhcceEEeecccCCCCCCHH-HHHHHHHHcCC
Confidence 4556667777888899999998665443 556666654 67777666542111222 56666666665
No 182
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=57.87 E-value=45 Score=20.95 Aligned_cols=39 Identities=28% Similarity=0.266 Sum_probs=26.5
Q ss_pred HHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 97 FKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 97 ~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
+++-.+..|+...+.++. -+. .+...|+..+|++..+.+
T Consensus 23 i~~gkaklViiA~D~~~~--~~~-~i~~~c~~~~Vp~~~~~s 61 (82)
T PRK13602 23 LKRGSVKEVVVAEDADPR--LTE-KVEALANEKGVPVSKVDS 61 (82)
T ss_pred HHcCCeeEEEEECCCCHH--HHH-HHHHHHHHcCCCEEEECC
Confidence 344577778887777763 222 577778888888877764
No 183
>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=57.74 E-value=94 Score=24.65 Aligned_cols=74 Identities=5% Similarity=0.109 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECChh-hHHHHHHHH-c--CccEEEEeeecChhHHHHHHHHHHHH-HhCCCeEEEec
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGKPE-EVFPDIFKT-W--NIKLLTWEYDIEPYAKKRDGLVEDMA-KEYKVKVEQHV 137 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~-~~l~~l~~~-~--~~~~v~~~~~~~~~~~~rd~~v~~~~-~~~~i~~~~~~ 137 (146)
|+.+.+..+++.+.+ +.-++-+.|-.. .++..++.+ . ++.+|+++....+. .+.+ .+.+.+ ++.||+++.++
T Consensus 2 ~~~~~~~~l~~~v~~-~kVvValSGGVDSsvla~ll~~~~G~~v~av~vd~G~~~~-~E~e-~~~~~~~~~lgi~~~vvd 78 (311)
T TIGR00884 2 FIEEAVEEIREQVGD-AKVIIALSGGVDSSVAAVLAHRAIGDRLTCVFVDHGLLRK-GEAE-QVVKTFGDRLGLNLVYVD 78 (311)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEecCChHHHHHHHHHHHHhCCCEEEEEEeCCCCCh-HHHH-HHHHHHHHHcCCcEEEEe
Confidence 778889999998875 444555666544 344455544 2 46677776544332 2333 455554 47999988876
Q ss_pred CC
Q psy9352 138 SH 139 (146)
Q Consensus 138 ~~ 139 (146)
-.
T Consensus 79 ~~ 80 (311)
T TIGR00884 79 AK 80 (311)
T ss_pred Cc
Confidence 54
No 184
>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=57.58 E-value=36 Score=24.10 Aligned_cols=41 Identities=17% Similarity=0.352 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECC---------------hhhHHHHHHHHcCcc
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGK---------------PEEVFPDIFKTWNIK 103 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~---------------~~~~l~~l~~~~~~~ 103 (146)
.++.++.++=+.|++.|..+.|+... +...+.+++++.|+.
T Consensus 29 ~~~pgv~e~L~~L~~~g~~l~IvSN~~g~~~~~~~~~~~~~~~~~~~~~l~~~gl~ 84 (161)
T TIGR01261 29 RFEKGVIPALLKLKKAGYKFVMVTNQDGLGTPSFPQADFDGPHNLMLQIFRSQGII 84 (161)
T ss_pred eECCCHHHHHHHHHHCCCeEEEEeCCccccCCcCCHHHHHHHHHHHHHHHHHCCCc
Confidence 34566777777788889999998864 345677788887776
No 185
>KOG1014|consensus
Probab=57.43 E-value=59 Score=26.01 Aligned_cols=64 Identities=9% Similarity=0.137 Sum_probs=37.5
Q ss_pred HHHHHHHHhcCCeEEEEECChh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeE
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~ 133 (146)
++...+|+++|..++++..+.. .+=.++.+++++..=+...|++......+ .+.+.+....|.+
T Consensus 63 KayA~eLAkrG~nvvLIsRt~~KL~~v~kEI~~~~~vev~~i~~Dft~~~~~ye-~i~~~l~~~~VgI 129 (312)
T KOG1014|consen 63 KAYARELAKRGFNVVLISRTQEKLEAVAKEIEEKYKVEVRIIAIDFTKGDEVYE-KLLEKLAGLDVGI 129 (312)
T ss_pred HHHHHHHHHcCCEEEEEeCCHHHHHHHHHHHHHHhCcEEEEEEEecCCCchhHH-HHHHHhcCCceEE
Confidence 3567889999999766654332 23345556677655555557754322334 5666665544443
No 186
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=57.19 E-value=41 Score=28.12 Aligned_cols=48 Identities=8% Similarity=-0.137 Sum_probs=35.0
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCe
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHT 140 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~ 140 (146)
+.+.+++++++++.|+..-+.... ++-+.+.+.|++.+++++...+-.
T Consensus 193 ~dL~~~v~~~~IdeViIAip~~~~--~~l~ell~~~~~~~v~V~ivP~l~ 240 (463)
T PRK10124 193 QQLVEDAKAGKIHNVYIAMSMCDG--ARVKKLVRQLADTTCSVLLIPDVF 240 (463)
T ss_pred HHHHHHHHhCCCCEEEEeCCCcch--HHHHHHHHHHHHcCCeEEEecchh
Confidence 457889999999999997654432 333367777888899988877643
No 187
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=57.16 E-value=67 Score=24.15 Aligned_cols=63 Identities=8% Similarity=0.084 Sum_probs=40.0
Q ss_pred HHHHHHHHHhcCC--eEEEEECChhhHHHHHHHH---cCccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 68 LADLDQKFRALGS--RLYVVQGKPEEVFPDIFKT---WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 68 L~~L~~~L~~~g~--~L~v~~g~~~~~l~~l~~~---~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
+...++.+++.|. .+.++.|+..+.++++..+ ...+-|+++.+...+..--+ .+.+.++..|+
T Consensus 106 ~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~k~~y~~~~~-~~~~ll~~GG~ 173 (234)
T PLN02781 106 YEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFDFAFVDADKPNYVHFHE-QLLKLVKVGGI 173 (234)
T ss_pred HHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCCHHHHHHHHH-HHHHhcCCCeE
Confidence 4445555666665 4788899999999998764 46888999765444432222 44455554443
No 188
>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=56.82 E-value=77 Score=23.37 Aligned_cols=72 Identities=15% Similarity=0.075 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEE----CChhhH---HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQ----GKPEEV---FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~----g~~~~~---l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|+.+-+..+++.+++.|..+.+.. +++... +..+. ..+++.|++... . ...-+..+ +.+...|+++.
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgvii~~~-~--~~~~~~~l-~~~~~~~ipvV 86 (273)
T cd06310 12 DFWQAVKAGAEAAAKELGVKVTFQGPASETDVAGQVNLLENAI-ARGPDAILLAPT-D--AKALVPPL-KEAKDAGIPVV 86 (273)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEecCccCCCHHHHHHHHHHHH-HhCCCEEEEcCC-C--hhhhHHHH-HHHHHCCCCEE
Confidence 5777888888888999999998875 344433 33333 358898887421 1 11112234 33456889998
Q ss_pred EecC
Q psy9352 135 QHVS 138 (146)
Q Consensus 135 ~~~~ 138 (146)
.++.
T Consensus 87 ~~~~ 90 (273)
T cd06310 87 LIDS 90 (273)
T ss_pred EecC
Confidence 8754
No 189
>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=56.65 E-value=53 Score=22.11 Aligned_cols=45 Identities=11% Similarity=0.017 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
-+..|.++.+++.+.|+.++.+..++.+.+.+++++.+..-.+.+
T Consensus 47 ~~~~l~~~~~~~~~~~v~vi~vs~d~~~~~~~~~~~~~~~~~~~~ 91 (149)
T cd03018 47 ELCALRDSLELFEAAGAEVLGISVDSPFSLRAWAEENGLTFPLLS 91 (149)
T ss_pred HHHHHHHHHHHHHhCCCEEEEecCCCHHHHHHHHHhcCCCceEec
Confidence 456778888888888999988888888888999998887655543
No 190
>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=56.63 E-value=27 Score=24.82 Aligned_cols=47 Identities=13% Similarity=0.322 Sum_probs=34.7
Q ss_pred ChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhh------------HHHHHHHHcCcc
Q psy9352 57 GPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEE------------VFPDIFKTWNIK 103 (146)
Q Consensus 57 ~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~------------~l~~l~~~~~~~ 103 (146)
++.+++.++.++.++=+.|++.|+.+.|....+.. .+..+++..++.
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 45565557788888888888999999999865542 356777887765
No 191
>TIGR01668 YqeG_hyp_ppase HAD superfamily (subfamily IIIA) phosphatase, TIGR01668. This family consists of sequences from fungi, plants, cyanobacteria, gram-positive bacteria and Deinococcus. There is presently no characterization of any sequence in this family.
Probab=56.62 E-value=62 Score=22.90 Aligned_cols=40 Identities=23% Similarity=0.342 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECCh-hhHHHHHHHHcCccE
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKP-EEVFPDIFKTWNIKL 104 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~-~~~l~~l~~~~~~~~ 104 (146)
..++.++=+.|++.|+.+.++.+.+ ......+.+..++..
T Consensus 45 ~pgv~e~L~~Lk~~g~~l~I~Sn~~~~~~~~~~~~~~gl~~ 85 (170)
T TIGR01668 45 YPALRDWIEELKAAGRKLLIVSNNAGEQRAKAVEKALGIPV 85 (170)
T ss_pred ChhHHHHHHHHHHcCCEEEEEeCCchHHHHHHHHHHcCCEE
Confidence 4566677778888899999999877 566666777777654
No 192
>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=56.60 E-value=40 Score=27.77 Aligned_cols=46 Identities=7% Similarity=0.037 Sum_probs=32.4
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
+.+.+++++.+++.|+....... .++-..+.+.|++.|+++....+
T Consensus 178 ~~l~~~i~~~~id~ViIa~p~~~--~~~~~~ll~~~~~~gv~V~~vP~ 223 (445)
T TIGR03025 178 DDLVELVRAHRVDEVIIALPLSE--EARILELLLQLRDLGVDVRLVPD 223 (445)
T ss_pred HHHHHHHHhCCCCEEEEecCccc--HHHHHHHHHHHHhcCCEEEEeCc
Confidence 45788999999999998754332 23233566778888988887654
No 193
>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=56.58 E-value=65 Score=25.74 Aligned_cols=75 Identities=13% Similarity=0.145 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECChhhHHHH-------HHHHcCccEEEEeeecChhHHHHHHHHHHH--HHhCCCeE
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGKPEEVFPD-------IFKTWNIKLLTWEYDIEPYAKKRDGLVEDM--AKEYKVKV 133 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~-------l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~--~~~~~i~~ 133 (146)
=+.+.+..|.+.+++++-++.|+..+-.+.++. ++.-..+..||++..-.+.+.+|+..+..+ +++.|++|
T Consensus 188 ~m~~~i~~Ia~~ar~~~P~~~II~NnG~eil~~~~g~~~~~idgV~~Eslf~~~~~~~~e~dr~~~l~~L~~~~~~G~~V 267 (315)
T TIGR01370 188 EMIAFVCEIAAYARAQNPQFVIIPQNGEELLRDDHGGLAATVSGWAVEELFYYAANRPTEAERQRRLLALYRLWQQGKFV 267 (315)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEecCchhhhhccccchhhhceEEEecceEEcCCCCCCHHHHHHHHHHHHHHHHCCCcE
Confidence 355666666666688888888875444455543 333334566776532233344444333222 34458777
Q ss_pred EEec
Q psy9352 134 EQHV 137 (146)
Q Consensus 134 ~~~~ 137 (146)
...+
T Consensus 268 l~ID 271 (315)
T TIGR01370 268 LTVD 271 (315)
T ss_pred EEEE
Confidence 6653
No 194
>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=56.26 E-value=77 Score=23.14 Aligned_cols=70 Identities=9% Similarity=0.145 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECChh----hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGKPE----EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~----~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
|+.+-+..+.+.+++.|..+.+...+.. +.+..+. ..+++.|++.... +. . ...+.+.+.||++..++.
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~-~~----~-~~~~~~~~~~ipvV~~~~ 85 (266)
T cd06278 13 FYSELLEALSRALQARGYQPLLINTDDDEDLDAALRQLL-QYRVDGVIVTSGT-LS----S-ELAEECRRNGIPVVLINR 85 (266)
T ss_pred hHHHHHHHHHHHHHHCCCeEEEEcCCCCHHHHHHHHHHH-HcCCCEEEEecCC-CC----H-HHHHHHhhcCCCEEEECC
Confidence 4555566678888999999888765422 2333433 4688888875321 11 1 223445567999998865
Q ss_pred C
Q psy9352 139 H 139 (146)
Q Consensus 139 ~ 139 (146)
.
T Consensus 86 ~ 86 (266)
T cd06278 86 Y 86 (266)
T ss_pred c
Confidence 3
No 195
>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=56.20 E-value=89 Score=23.87 Aligned_cols=72 Identities=15% Similarity=0.062 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHc--CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTW--NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~--~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|+.+.+..+++.++++|..+.+... ++. +.+..+. .. +++.|++... .. .-+ ...+.+.+.||++.
T Consensus 13 ~~~~~~~~gi~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~~-~~~~~vdgiIi~~~-~~---~~~-~~~~~~~~~giPvV 86 (305)
T cd06324 13 PFWNSVARFMQAAADDLGIELEVLYAERDRFLMLQQARTIL-QRPDKPDALIFTNE-KS---VAP-ELLRLAEGAGVKLF 86 (305)
T ss_pred cHHHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHHH-HhccCCCEEEEcCC-cc---chH-HHHHHHHhCCCeEE
Confidence 57778888899999999999888753 232 2233333 34 8999888432 11 112 23344567899999
Q ss_pred EecCC
Q psy9352 135 QHVSH 139 (146)
Q Consensus 135 ~~~~~ 139 (146)
.++..
T Consensus 87 ~~~~~ 91 (305)
T cd06324 87 LVNSG 91 (305)
T ss_pred EEecC
Confidence 88753
No 196
>PRK06683 hypothetical protein; Provisional
Probab=56.18 E-value=49 Score=20.85 Aligned_cols=38 Identities=13% Similarity=0.050 Sum_probs=25.8
Q ss_pred HHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 98 KTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 98 ~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
++-.+..|+...+.++. -++ .+...|+..+|+++.+++
T Consensus 24 k~gkaklViiA~Da~~~--~~~-~i~~~~~~~~Vpv~~~~t 61 (82)
T PRK06683 24 KNGIVKEVVIAEDADMR--LTH-VIIRTALQHNIPITKVES 61 (82)
T ss_pred HcCCeeEEEEECCCCHH--HHH-HHHHHHHhcCCCEEEECC
Confidence 44577778887777754 222 577777778888877663
No 197
>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=56.07 E-value=78 Score=23.15 Aligned_cols=72 Identities=15% Similarity=0.113 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+.+..+++.+++.|..+.+... ++.. .+.++ ...+++.|++..... ....+ .+. .+++.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~-~~~~~dgii~~~~~~--~~~~~-~l~-~l~~~~ipvv~~ 86 (268)
T cd06323 12 PFFVTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIEDL-ITRGVDAIIINPTDS--DAVVP-AVK-AANEAGIPVFTI 86 (268)
T ss_pred HHHHHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHHH-HHcCCCEEEEcCCCh--HHHHH-HHH-HHHHCCCcEEEE
Confidence 47778888899999999999987753 3432 33333 335788877742111 11112 333 345678999888
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 87 ~~ 88 (268)
T cd06323 87 DR 88 (268)
T ss_pred cc
Confidence 65
No 198
>COG2873 MET17 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]
Probab=56.04 E-value=42 Score=27.76 Aligned_cols=66 Identities=17% Similarity=0.116 Sum_probs=45.4
Q ss_pred HHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHH-HHHHHHHHHHhCCCeEEE
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKK-RDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~-rd~~v~~~~~~~~i~~~~ 135 (146)
.-+...|+++||...+..++..+.+.+.+++ +-..||++.---|-..- --..|.+.+.++||++..
T Consensus 116 ~lf~~tl~~~Gi~v~fvd~~d~~~~~~aI~~-nTkavf~EtigNP~~~v~Die~ia~iAh~~gvpliV 182 (426)
T COG2873 116 NLFSHTLKRLGIEVRFVDPDDPENFEAAIDE-NTKAVFAETIGNPGLDVLDIEAIAEIAHRHGVPLIV 182 (426)
T ss_pred HHHHHHHHhcCcEEEEeCCCCHHHHHHHhCc-ccceEEEEeccCCCccccCHHHHHHHHHHcCCcEEE
Confidence 3455667899999999988888888777765 55667775443332211 113788889999998874
No 199
>cd05855 Ig_TrkB_d5 Fifth domain (immunoglobulin-like) of Trk receptor TrkB. TrkB_d5: the fifth domain of Trk receptor TrkB, this is an immunoglobulin (Ig)-like domain which binds to neurotrophin. The Trk family of receptors are tyrosine kinase receptors, which mediate the trophic effects of the neurotrophin Nerve growth factor (NGF) family. The Trks are activated by dimerization, leading to autophosphorylation of intracellular tyrosine residues, and triggering the signal transduction pathway. TrkB shares significant sequence homology and domain organization with TrkA, and TrkC. The first three domains are leucine-rich domains. The fourth and fifth domains are Ig-like domains playing a part in ligand binding. TrKB is recognized by brain-derived neurotrophic factor (BDNF) and neurotrophin (NT)-4. In some cell systems NT-3 can activate TrkA and TrkB receptors. TrKB transcripts are found throughout multiple structures of the central and peripheral nervous systems.
Probab=55.89 E-value=5.5 Score=24.91 Aligned_cols=20 Identities=25% Similarity=0.753 Sum_probs=16.9
Q ss_pred CCCceEEEEecCCCCCcCcH
Q psy9352 3 GTPECAVHWIRKGMRLHDNP 22 (146)
Q Consensus 3 ~~~~~~l~Wfr~DLRl~DN~ 22 (146)
|.++..|.|||++-.|.+.+
T Consensus 9 G~P~Pti~W~kng~~l~~~~ 28 (79)
T cd05855 9 GNPKPTLQWFHEGAILNESE 28 (79)
T ss_pred EeCCCceEEEECCEECCCCc
Confidence 56778999999999998764
No 200
>PLN02940 riboflavin kinase
Probab=55.79 E-value=41 Score=27.32 Aligned_cols=65 Identities=12% Similarity=0.171 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHH-HcC----ccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFK-TWN----IKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~-~~~----~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.++.++=+.|++.|+++.|..+.+...+....+ ..+ .+.|++..+....--..+ .+..++++.|+
T Consensus 96 pGv~elL~~Lk~~g~~l~IvTn~~~~~~~~~l~~~~gl~~~Fd~ii~~d~v~~~KP~p~-~~~~a~~~lgv 165 (382)
T PLN02940 96 PGANRLIKHLKSHGVPMALASNSPRANIEAKISCHQGWKESFSVIVGGDEVEKGKPSPD-IFLEAAKRLNV 165 (382)
T ss_pred cCHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHhccChHhhCCEEEehhhcCCCCCCHH-HHHHHHHHcCC
Confidence 456677788889999999999988777666655 344 467777665432111111 44455555454
No 201
>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=55.51 E-value=74 Score=22.74 Aligned_cols=62 Identities=21% Similarity=0.291 Sum_probs=39.2
Q ss_pred HHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc----EEEEeeecChhHHHHHHHHHHHHHhCCCe
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK----LLTWEYDIEPYAKKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~----~v~~~~~~~~~~~~rd~~v~~~~~~~~i~ 132 (146)
.++=+.|++.|+++.|..+.+...+..+.+..++. .++...+... +-.-..+..++++.|+.
T Consensus 112 ~~~L~~l~~~g~~~~i~T~~~~~~~~~~l~~~gl~~~f~~~~~~~~~~~--KP~p~~~~~~~~~~~~~ 177 (197)
T TIGR01548 112 KGLLRELHRAPKGMAVVTGRPRKDAAKFLTTHGLEILFPVQIWMEDCPP--KPNPEPLILAAKALGVE 177 (197)
T ss_pred HHHHHHHHHcCCcEEEECCCCHHHHHHHHHHcCchhhCCEEEeecCCCC--CcCHHHHHHHHHHhCcC
Confidence 34445577789999999999988888888888764 3444433221 11112455556666653
No 202
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=55.24 E-value=1.2e+02 Score=24.95 Aligned_cols=53 Identities=17% Similarity=0.275 Sum_probs=37.2
Q ss_pred hHHHHHHHHHHHHHHHHhcCCe----------EEEEECChhhHHHHHHHHcCccEEEEeeecC
Q psy9352 60 RWRFLQQSLADLDQKFRALGSR----------LYVVQGKPEEVFPDIFKTWNIKLLTWEYDIE 112 (146)
Q Consensus 60 r~~Fl~~sL~~L~~~L~~~g~~----------L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~ 112 (146)
|.+|...-..++++.|+..|+. ++|...++.+++..|.+-.|+..+..-....
T Consensus 20 R~~fe~~L~~Ni~~~l~~~~~~~~~v~~~~~ri~v~~~~~~~~~~~l~~vfGI~~~s~~~~~~ 82 (381)
T PRK08384 20 RRWFENILMNNIREALVSEGIEFKKVEAKHGRILVKTNRAEEAVEVLTRVFGIVSLSPAMEID 82 (381)
T ss_pred HHHHHHHHHHHHHHHHHhcCCccceEEEECCEEEEEcCCHHHHHHHHhhCCCceeEEEEEEeC
Confidence 8789999999999999988733 4554344445677777778887665433333
No 203
>PLN02575 haloacid dehalogenase-like hydrolase
Probab=55.08 E-value=44 Score=27.41 Aligned_cols=46 Identities=9% Similarity=0.183 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeec
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDI 111 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~ 111 (146)
.++.++=+.|++.|+++.|..+.+.+.+..+.+..++ +.|+...+.
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 4677788889999999999999998888888888775 556666554
No 204
>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=54.53 E-value=88 Score=23.88 Aligned_cols=41 Identities=22% Similarity=0.191 Sum_probs=26.8
Q ss_pred HHHHHHHHHhcCCeEEEEE-CChhhHHHHHHHHcCccEEEEe
Q psy9352 68 LADLDQKFRALGSRLYVVQ-GKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
|.++.+.+++.|++.++.+ +.+...+..++++.|+..+..+
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 5666666777777777665 3344556677777777666653
No 205
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=54.47 E-value=60 Score=21.40 Aligned_cols=100 Identities=17% Similarity=0.108 Sum_probs=59.3
Q ss_pred CceEEEEEEECCCccCCCCC----Ch-------hhHHHHHHHHHHHHHHHHhcCCe---EEEEECCh-hhHHHHHHHHcC
Q psy9352 37 NILLKPLYILDPHFRKFMRV----GP-------NRWRFLQQSLADLDQKFRALGSR---LYVVQGKP-EEVFPDIFKTWN 101 (146)
Q Consensus 37 ~~~l~~vfv~d~~~~~~~~~----~~-------~r~~Fl~~sL~~L~~~L~~~g~~---L~v~~g~~-~~~l~~l~~~~~ 101 (146)
+.++..+++.++........ .. .-..-..+.+..+++.+.+.|+. ..+..|+| .+.+...+.+.+
T Consensus 34 ~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~ 113 (154)
T COG0589 34 GAPLILLVVIDPLEPTALVSVALADAPIPLSEEELEEEAEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEED 113 (154)
T ss_pred CCeEEEEEEecccccccccccccccchhhhhHHHHHHHHHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhC
Confidence 34477788887754321110 00 00123356777888888888865 57778999 689999999999
Q ss_pred ccEEEEeeecChhHHHH---HHHHHHHHHhCCCeEEEec
Q psy9352 102 IKLLTWEYDIEPYAKKR---DGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 102 ~~~v~~~~~~~~~~~~r---d~~v~~~~~~~~i~~~~~~ 137 (146)
++.|++-..-. ....+ =..-.+.++...+++..+.
T Consensus 114 adliV~G~~g~-~~l~~~llGsvs~~v~~~~~~pVlvv~ 151 (154)
T COG0589 114 ADLIVVGSRGR-SGLSRLLLGSVAEKVLRHAPCPVLVVR 151 (154)
T ss_pred CCEEEECCCCC-ccccceeeehhHHHHHhcCCCCEEEEc
Confidence 99999865311 11111 1122334455667766554
No 206
>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=54.46 E-value=89 Score=23.33 Aligned_cols=70 Identities=17% Similarity=0.266 Sum_probs=43.1
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcCcc--EEEEeeec-----------ChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWNIK--LLTWEYDI-----------EPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~--~v~~~~~~-----------~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
+.|++.|+.+.+..|.+...+..++++.+.+ .|..|-.+ .+...+.-+.+.+.+++.++.+..+.+.
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 3456679999999999998888888887665 22222111 1111233335666677778777665554
Q ss_pred eee
Q psy9352 140 TLY 142 (146)
Q Consensus 140 ~L~ 142 (146)
..+
T Consensus 106 ~~~ 108 (256)
T TIGR00099 106 SIY 108 (256)
T ss_pred eEE
Confidence 433
No 207
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=54.01 E-value=94 Score=23.47 Aligned_cols=69 Identities=10% Similarity=0.096 Sum_probs=41.3
Q ss_pred HHHhcCCeEEEEECChhhHHHHHHHHcCccE--EEEeeec-----------ChhHHHHHHHHHHHHHhCCCeEEEecCCe
Q psy9352 74 KFRALGSRLYVVQGKPEEVFPDIFKTWNIKL--LTWEYDI-----------EPYAKKRDGLVEDMAKEYKVKVEQHVSHT 140 (146)
Q Consensus 74 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--v~~~~~~-----------~~~~~~rd~~v~~~~~~~~i~~~~~~~~~ 140 (146)
+|++.|+.+.+..|.+...+..++++.+.+. |.+|-.. .+...+.-..+.+.+++.++.+..+.+..
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 3566899999999999988888988877641 2121110 11111222244445556677777665554
Q ss_pred ee
Q psy9352 141 LY 142 (146)
Q Consensus 141 L~ 142 (146)
.+
T Consensus 110 ~~ 111 (272)
T PRK15126 110 WF 111 (272)
T ss_pred EE
Confidence 44
No 208
>PRK13225 phosphoglycolate phosphatase; Provisional
Probab=53.94 E-value=48 Score=25.58 Aligned_cols=38 Identities=13% Similarity=0.233 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
.++.++=+.|++.|+++-|..+.....+..+.+..++.
T Consensus 145 pg~~e~L~~L~~~gi~laIvSn~~~~~~~~~L~~~gl~ 182 (273)
T PRK13225 145 PGVADLLAQLRSRSLCLGILSSNSRQNIEAFLQRQGLR 182 (273)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCCh
Confidence 35566667888899999999998888888888888764
No 209
>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=53.88 E-value=98 Score=23.65 Aligned_cols=73 Identities=14% Similarity=0.189 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHh--cCCeEEEEECC--hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 62 RFLQQSLADLDQKFRA--LGSRLYVVQGK--PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~--~g~~L~v~~g~--~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|+.+-+..+++.+++ .|..+.+..++ +. +.+..+. ..+++.++..- ..+. .. ...+. .+++.||++.
T Consensus 12 ~~~~~~~~gi~~~a~~~~~g~~~~~~~~~~~~~~q~~~i~~l~-~~~vdgiii~~-~~~~-~~-~~~~~-~~~~~giPvV 86 (303)
T cd01539 12 TFISLVRKNLEDIQKENGGKVEFTFYDAKNNQSTQNEQIDTAL-AKGVDLLAVNL-VDPT-AA-QTVIN-KAKQKNIPVI 86 (303)
T ss_pred hHHHHHHHHHHHHHHhhCCCeeEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEec-Cchh-hH-HHHHH-HHHHCCCCEE
Confidence 4666777788888888 77777766543 33 2344443 45888877632 1121 11 22344 4567899999
Q ss_pred EecCC
Q psy9352 135 QHVSH 139 (146)
Q Consensus 135 ~~~~~ 139 (146)
.++..
T Consensus 87 ~~~~~ 91 (303)
T cd01539 87 FFNRE 91 (303)
T ss_pred EeCCC
Confidence 88653
No 210
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=53.81 E-value=75 Score=24.87 Aligned_cols=68 Identities=13% Similarity=0.051 Sum_probs=40.6
Q ss_pred HHHHHHhcCCeEEEEECChhhHHHHHHHH--cCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCe
Q psy9352 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKT--WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHT 140 (146)
Q Consensus 71 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~--~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~ 140 (146)
|..+|.+.|++..++.......+..-+.. .|++.|..|-+.- -+-=--.+.-+++.+||+|+..-..+
T Consensus 152 la~eL~~~GI~vtlI~Dsa~~~~m~~vd~VivGAD~I~~nG~v~--NKiGT~~lA~~Ak~~~vPfyV~a~~~ 221 (275)
T PRK08335 152 LANELEFLGIEFEVITDAQLGLFAKEATLALVGADNVTRDGYVV--NKAGTYLLALACHDNGVPFYVAAETF 221 (275)
T ss_pred HHHHHHHCCCCEEEEeccHHHHHHHhCCEEEECccEEecCCCEe--ehhhHHHHHHHHHHcCCCEEEECccc
Confidence 47788889999998887765443222222 2556666555431 01111145566778999999775443
No 211
>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=53.75 E-value=86 Score=22.96 Aligned_cols=71 Identities=8% Similarity=0.030 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEC--ChhhH--HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQG--KPEEV--FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~~--l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
|+.+-+..+++.+++.|..+.+... ++... +.+.....+++.|++..... . +..+ +.+++.|+++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~~-~----~~~~-~~l~~~~ipvV~~~~ 86 (265)
T cd06299 13 YFASLATAIQDAASAAGYSTIIGNSDENPETENRYLDNLLSQRVDGIIVVPHEQ-S----AEQL-EDLLKRGIPVVFVDR 86 (265)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEcCCCC-C----hHHH-HHHHhCCCCEEEEec
Confidence 5556667777788889999888753 23221 22224456899888853211 1 1123 344568899988865
Q ss_pred C
Q psy9352 139 H 139 (146)
Q Consensus 139 ~ 139 (146)
.
T Consensus 87 ~ 87 (265)
T cd06299 87 E 87 (265)
T ss_pred c
Confidence 3
No 212
>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=53.41 E-value=71 Score=21.87 Aligned_cols=47 Identities=9% Similarity=0.250 Sum_probs=25.8
Q ss_pred HHHHHHHHHhcCCeEEEEE------CChhh-------HHHHHHHHcCccEEEEeeecChh
Q psy9352 68 LADLDQKFRALGSRLYVVQ------GKPEE-------VFPDIFKTWNIKLLTWEYDIEPY 114 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~------g~~~~-------~l~~l~~~~~~~~v~~~~~~~~~ 114 (146)
+..|.+-+++.++..+|+= |...+ ...+|.+.+++...++++.++..
T Consensus 37 ~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~~~~~~v~~~DEr~TT~ 96 (130)
T TIGR00250 37 WSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEGRFGVPVVLWDERLSTV 96 (130)
T ss_pred HHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCcCHH
Confidence 4555555556666665552 33222 22333344577778888777744
No 213
>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=53.10 E-value=32 Score=27.09 Aligned_cols=42 Identities=14% Similarity=0.119 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~ 107 (146)
+.+..+++-|+..|++.++..++....+..|+++..++.|+.
T Consensus 128 ~~~~~~~~lL~~~gi~~i~ap~EAdaq~a~l~~~g~v~~i~S 169 (316)
T cd00128 128 QMIEEAKELLRLMGIPYIVAPYEAEAQCAYLAKKGLVDAIIT 169 (316)
T ss_pred HHHHHHHHHHHHcCCCEEECCcCHHHHHHHHHhCCCeeEEEe
Confidence 345667777888888888877877777777777655555555
No 214
>PRK13478 phosphonoacetaldehyde hydrolase; Provisional
Probab=53.03 E-value=52 Score=24.92 Aligned_cols=65 Identities=14% Similarity=0.074 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcC-----ccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWN-----IKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~-----~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.++.++=+.|++.|+++.|..+.+...+..+.+..+ .+.|++..+.... +---..+..++++.|+
T Consensus 104 pg~~elL~~L~~~g~~l~I~T~~~~~~~~~~l~~~~l~~~~~d~i~~~~~~~~~-KP~p~~~~~a~~~l~~ 173 (267)
T PRK13478 104 PGVLEVIAALRARGIKIGSTTGYTREMMDVVVPLAAAQGYRPDHVVTTDDVPAG-RPYPWMALKNAIELGV 173 (267)
T ss_pred CCHHHHHHHHHHCCCEEEEEcCCcHHHHHHHHHHHhhcCCCceEEEcCCcCCCC-CCChHHHHHHHHHcCC
Confidence 355667788889999999999988877666665432 2456555443211 1111256666666665
No 215
>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=52.99 E-value=41 Score=27.29 Aligned_cols=50 Identities=6% Similarity=-0.031 Sum_probs=36.3
Q ss_pred hhHHHHHHHHcCccEEEEeee--cChhHHHHHHHHHHHHHhCCCeEEEecCCe
Q psy9352 90 EEVFPDIFKTWNIKLLTWEYD--IEPYAKKRDGLVEDMAKEYKVKVEQHVSHT 140 (146)
Q Consensus 90 ~~~l~~l~~~~~~~~v~~~~~--~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~ 140 (146)
.+.+.+++++++++.|+.... ..++..+.- .+++.+++.||++-.+++..
T Consensus 302 ~~~i~~lv~~~~~DGVI~~~~kfC~~~~~e~~-~lk~~l~e~GIP~L~iE~D~ 353 (377)
T TIGR03190 302 YDHVLGLAKEYNVQGAIFLQQKFCDPHEGDYP-DLKRHLEANGIPTLFLEFDI 353 (377)
T ss_pred HHHHHHHHHHhCCCEEEEecccCCCcchhhhH-HHHHHHHHCCCCEEEEecCC
Confidence 466888889999998886433 245555443 67777888999999887764
No 216
>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=52.96 E-value=86 Score=22.74 Aligned_cols=72 Identities=14% Similarity=0.075 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+-+..+++.+++.|..+.+... ++. +.+.++... +++.|+....... .. + ...+.+++.++++..+
T Consensus 12 ~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~~~~--~~-~-~~~~~l~~~~ip~V~~ 86 (267)
T cd01536 12 PFWQAMNKGAEAAAKELGVELIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPVDSA--AL-T-PALKKANAAGIPVVTV 86 (267)
T ss_pred HHHHHHHHHHHHHHHhcCceEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCch--hH-H-HHHHHHHHCCCcEEEe
Confidence 46667777888888889999988764 333 345555554 8898887422111 11 1 2334455678888887
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 87 ~~ 88 (267)
T cd01536 87 DS 88 (267)
T ss_pred cC
Confidence 64
No 217
>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=52.93 E-value=91 Score=23.00 Aligned_cols=72 Identities=11% Similarity=0.088 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHh--cCCeEEEEE--CChhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 62 RFLQQSLADLDQKFRA--LGSRLYVVQ--GKPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~--~g~~L~v~~--g~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|+.+-+..+++.+++ .|..+++.. +++.. .+..+ ...+++.|++.. ..+ . .-+..++. +.+.|+++.
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~-~~~~~dgiIi~~-~~~-~-~~~~~i~~-~~~~~ipvv 86 (271)
T cd06321 12 PFFVALAKGAEAAAKKLNPGVKVTVVSADYDLNKQVSQIDNF-IAAKVDLILLNA-VDS-K-GIAPAVKR-AQAAGIVVV 86 (271)
T ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEccCCCCHHHHHHHHHHH-HHhCCCEEEEeC-CCh-h-HhHHHHHH-HHHCCCeEE
Confidence 4667778888888888 555665553 33332 23333 346788888742 111 1 11224444 456789999
Q ss_pred EecC
Q psy9352 135 QHVS 138 (146)
Q Consensus 135 ~~~~ 138 (146)
.++.
T Consensus 87 ~~~~ 90 (271)
T cd06321 87 AVDV 90 (271)
T ss_pred EecC
Confidence 8865
No 218
>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=52.72 E-value=94 Score=23.10 Aligned_cols=71 Identities=11% Similarity=0.153 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC----hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK----PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~----~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|+.+-+..+++.+++.|..+.+...+ .. +.+..+. ..+++.|+... .... ..+ .+.. +.+.||++.
T Consensus 12 ~f~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiI~~~-~~~~--~~~-~~~~-~~~~giPvV 85 (268)
T cd06306 12 AYWLSVNYGMVEEAKRLGVSLKLLEAGGYPNLAKQIAQLEDCA-AWGADAILLGA-VSPD--GLN-EILQ-QVAASIPVI 85 (268)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEcC-CChh--hHH-HHHH-HHHCCCCEE
Confidence 477788889999999999999888532 22 2333333 46899888753 1111 112 2333 456899998
Q ss_pred EecC
Q psy9352 135 QHVS 138 (146)
Q Consensus 135 ~~~~ 138 (146)
.++.
T Consensus 86 ~~~~ 89 (268)
T cd06306 86 ALVN 89 (268)
T ss_pred Eecc
Confidence 8754
No 219
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=52.43 E-value=81 Score=22.27 Aligned_cols=68 Identities=9% Similarity=-0.024 Sum_probs=42.7
Q ss_pred hhHHHHHHHHHHHHHHHHhcCCeEEEEE--CChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 59 NRWRFLQQSLADLDQKFRALGSRLYVVQ--GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 59 ~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
++..|+... |+..|...+..- ..|.+++ +.+-+.+++.|..+.-++.+...- ..+.+.|++.|+.-..
T Consensus 27 ~gakvia~~-------l~d~GfeVi~~g~~~tp~e~v-~aA~~~dv~vIgvSsl~g~h~~l~-~~lve~lre~G~~~i~ 96 (143)
T COG2185 27 RGAKVIARA-------LADAGFEVINLGLFQTPEEAV-RAAVEEDVDVIGVSSLDGGHLTLV-PGLVEALREAGVEDIL 96 (143)
T ss_pred cchHHHHHH-------HHhCCceEEecCCcCCHHHHH-HHHHhcCCCEEEEEeccchHHHHH-HHHHHHHHHhCCcceE
Confidence 455666544 455666655432 3455554 555567899999887776554443 3788888888876555
No 220
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=52.35 E-value=1.1e+02 Score=23.90 Aligned_cols=63 Identities=11% Similarity=0.151 Sum_probs=49.1
Q ss_pred EEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChh--hHHHHHHHHcCccEEEE
Q psy9352 42 PLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPE--EVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 42 ~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~--~~l~~l~~~~~~~~v~~ 107 (146)
-+|+.|...+ ++|++--.++.+-..++-..|.++|+.+.|+--+.. -++..|-+++++-.|..
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 6899997654 688888889999999999999999999999876654 45677777776644433
No 221
>PF13277 YmdB: YmdB-like protein; PDB: 2CV9_B 2Z06_C.
Probab=51.76 E-value=14 Score=28.53 Aligned_cols=43 Identities=16% Similarity=0.481 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEECChh--------hHHHHHHHHcCccEEEE
Q psy9352 61 WRFLQQSLADLDQKFRALGSRLYVVQGKPE--------EVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 61 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~--------~~l~~l~~~~~~~~v~~ 107 (146)
.+.+.+.|..|++++ +++|+|..|+-. ....+|. +.|++.+..
T Consensus 12 r~~v~~~Lp~L~~~~---~~DfVIaNgENaa~G~Git~~~~~~L~-~~GvDviT~ 62 (253)
T PF13277_consen 12 RRAVKEHLPELKEEY---GIDFVIANGENAAGGFGITPKIAEELF-KAGVDVITM 62 (253)
T ss_dssp HHHHHHHHHHHGG-----G-SEEEEE-TTTTTTSS--HHHHHHHH-HHT-SEEE-
T ss_pred HHHHHHHHHHHHhhc---CCCEEEECCcccCCCCCCCHHHHHHHH-hcCCCEEec
Confidence 345666666666643 467777664422 2333333 356666665
No 222
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=51.54 E-value=61 Score=20.64 Aligned_cols=35 Identities=17% Similarity=0.100 Sum_probs=17.3
Q ss_pred cCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 100 WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 100 ~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
-.+..||...|.+|... . .+..+|++.||++..++
T Consensus 28 g~~~~v~iA~Da~~~vv--~-~l~~lceek~Ip~v~V~ 62 (84)
T PRK13600 28 DQVTSLIIAEDVEVYLM--T-RVLSQINQKNIPVSFFK 62 (84)
T ss_pred CCceEEEEeCCCCHHHH--H-HHHHHHHHcCCCEEEEC
Confidence 34555555555554321 1 45555555555555544
No 223
>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=51.22 E-value=34 Score=25.82 Aligned_cols=45 Identities=11% Similarity=0.085 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHhcCCeEEEEE-CChhhHHHHHHHHcCccEEEEeee
Q psy9352 66 QSLADLDQKFRALGSRLYVVQ-GKPEEVFPDIFKTWNIKLLTWEYD 110 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~v~~~~~ 110 (146)
+.|.++.+.+++.|++.++.. +.+...+..|+++.|+..|+.+.-
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 447888888888899888876 445566778888888888776543
No 224
>TIGR02009 PGMB-YQAB-SF beta-phosphoglucomutase family hydrolase. All of these are members of the larger Haloacid dehalogenase (HAD) subfamily IA and include the "variant 3" glu-asp version of the third conserved HAD domain (TIGR01509).
Probab=50.92 E-value=48 Score=23.16 Aligned_cols=62 Identities=8% Similarity=0.043 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
++.++=+.|++.|+.+.+..+. ..+..+.+..++ +.++...+.... +-....+..++++.|+
T Consensus 92 g~~~~l~~l~~~g~~i~i~S~~--~~~~~~l~~~~l~~~f~~v~~~~~~~~~-kp~~~~~~~~~~~~~~ 157 (185)
T TIGR02009 92 GIENFLKRLKKKGIAVGLGSSS--KNADRILAKLGLTDYFDAIVDADEVKEG-KPHPETFLLAAELLGV 157 (185)
T ss_pred CHHHHHHHHHHcCCeEEEEeCc--hhHHHHHHHcChHHHCCEeeehhhCCCC-CCChHHHHHHHHHcCC
Confidence 4566667888889999888876 345556666664 455554333211 1111244555555554
No 225
>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=50.89 E-value=98 Score=22.81 Aligned_cols=72 Identities=13% Similarity=0.024 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--ChhhH---HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPEEV---FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~~---l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+.+.+++.|..+.+..+ ++.+. +..+. ..+++.|++.... +. ..+ ...+.+++.|+++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~-~~--~~~-~~l~~~~~~~ipvV~~ 86 (277)
T cd06319 12 PFWQIMGRGVKSKAKALGYDAVELSAENSAKKELENLRTAI-DKGVSGIIISPTN-SS--AAV-TLLKLAAQAKIPVVIA 86 (277)
T ss_pred hHHHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHHH-hcCCCEEEEcCCc-hh--hhH-HHHHHHHHCCCCEEEE
Confidence 47778888888889999999988753 34333 44443 3578888764221 11 112 2334456788998887
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 87 ~~ 88 (277)
T cd06319 87 DI 88 (277)
T ss_pred ec
Confidence 64
No 226
>TIGR03369 cellulose_bcsE cellulose biosynthesis protein BcsE. This protein, called BcsE (bacterial cellulose synthase E) or YhjS, is required for cellulose biosynthesis in Salmonella enteritidis. Its role is this process across multiple bacterial species is implied by the partial phylogenetic profiling algorithm. Members are found in the vicinity of other cellulose biosynthesis genes. The model does not include a much less well-conserved N-terminal region about 150 amino acids in length for most members. Solano, et al. suggest this protein acts as a protease.
Probab=50.88 E-value=1.3e+02 Score=24.20 Aligned_cols=72 Identities=18% Similarity=0.136 Sum_probs=42.8
Q ss_pred CcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEE--EEECChh--hHH
Q psy9352 18 LHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLY--VVQGKPE--EVF 93 (146)
Q Consensus 18 l~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~--v~~g~~~--~~l 93 (146)
.+||.+|..++..+.. --.||-+.. .....=|...+..|+++ .|..|- |++-.+. -.-
T Consensus 96 ~~~N~~L~~~~~~a~A------ATvvfs~~~---------~~qle~La~qih~LRr~---~G~aLKIvVRE~~~~LR~~d 157 (322)
T TIGR03369 96 VDDNDALVAAASGAHA------ATVVLSCTG---------TTQLEQLAAQVHALRRQ---CGSALKIVVREMKECLRQQD 157 (322)
T ss_pred eCCHHHHHHhhcccce------eEEEEEcCC---------chHHHHHHHHHHHHHHh---cCccceEEEEechhHHHHHH
Confidence 4799999999987655 445555543 23444555566666654 566553 3332222 123
Q ss_pred HHHHHHcCccEEEE
Q psy9352 94 PDIFKTWNIKLLTW 107 (146)
Q Consensus 94 ~~l~~~~~~~~v~~ 107 (146)
..|.-..||+-|+-
T Consensus 158 E~LLL~~GaNlIvp 171 (322)
T TIGR03369 158 ERLLLQLGANLVVP 171 (322)
T ss_pred HHHHHhcCCcEEec
Confidence 45666678887775
No 227
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=50.55 E-value=45 Score=28.13 Aligned_cols=96 Identities=11% Similarity=0.154 Sum_probs=44.6
Q ss_pred CCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECC----hhhHHHHHHHHc---CccEEEEe
Q psy9352 36 QNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGK----PEEVFPDIFKTW---NIKLLTWE 108 (146)
Q Consensus 36 ~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~----~~~~l~~l~~~~---~~~~v~~~ 108 (146)
+++|--|-||..+..+. ..|.+=.-+-+++++.-.++.|+..+.+.++ ..+.+.+|+++. +--.+.+.
T Consensus 201 RGCp~~C~FC~~~~~~~-----~~R~rs~e~Vv~Ei~~l~~~~gv~~~~~~Dd~f~~~~~~~~~l~~~l~~~~~l~i~w~ 275 (497)
T TIGR02026 201 RGCPFTCNFCSQWKFWR-----RYRHRDPKKFVDEIEWLVRTHGVGFFILADEEPTINRKKFQEFCEEIIARNPISVTWG 275 (497)
T ss_pred CCCCCCCCCCCCCCCCc-----eeecCCHHHHHHHHHHHHHHcCCCEEEEEecccccCHHHHHHHHHHHHhcCCCCeEEE
Confidence 56677777776554331 1122222223444444444567776665532 123344555432 20123333
Q ss_pred eecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 109 YDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 109 ~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
-........++..+.+.+++.|+....+
T Consensus 276 ~~~r~~~i~~d~ell~~l~~aG~~~v~i 303 (497)
T TIGR02026 276 INTRVTDIVRDADILHLYRRAGLVHISL 303 (497)
T ss_pred EecccccccCCHHHHHHHHHhCCcEEEE
Confidence 3333333333445666677777654443
No 228
>PRK11058 GTPase HflX; Provisional
Probab=50.20 E-value=1.4e+02 Score=24.80 Aligned_cols=49 Identities=12% Similarity=0.279 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhcCCeEEEE----E---------CC-hhhHHHHHHHHcCccEEEEeeecChh
Q psy9352 66 QSLADLDQKFRALGSRLYVV----Q---------GK-PEEVFPDIFKTWNIKLLTWEYDIEPY 114 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~----~---------g~-~~~~l~~l~~~~~~~~v~~~~~~~~~ 114 (146)
++|.+|..-.+..|+...=. . |. -.+.|.+++++.+++.|+++.+-+|.
T Consensus 25 ~~~~El~~L~~~~g~~v~~~~~q~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~~lsp~ 87 (426)
T PRK11058 25 EDLQEFESLVSSAGVEALQVITGSRKAPHPKYFVGEGKAVEIAEAVKATGASVVLFDHALSPA 87 (426)
T ss_pred hhHHHHHHHHHHCCCEEEEEEEEecCCCCCCeeecccHHHHHHHHHHhcCCCEEEECCCCCHH
Confidence 78999999999999875321 1 11 23567899999999999999988874
No 229
>COG2131 ComEB Deoxycytidylate deaminase [Nucleotide transport and metabolism]
Probab=50.20 E-value=95 Score=22.44 Aligned_cols=51 Identities=18% Similarity=0.115 Sum_probs=36.9
Q ss_pred EECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 85 VQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 85 ~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
..--|-..-..++-+.||..|++.++|..+. -......++++.||.+..|.
T Consensus 102 vt~~PC~~Cak~Ii~aGIk~Vvy~~~Y~~~~--~~~~s~~l~~~agv~~~~~~ 152 (164)
T COG2131 102 VTHFPCSNCAKLIIQAGIKEVVYAEPYPTET--VAPYSQELLEEAGVKVRQFP 152 (164)
T ss_pred EEecccHHHHHHHHHhCceEEEeecCCCcch--hhHHHHHHHHhCCceEEecc
Confidence 3345555666777777999999999886543 23346667788999999876
No 230
>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=50.04 E-value=59 Score=25.50 Aligned_cols=45 Identities=13% Similarity=0.149 Sum_probs=28.3
Q ss_pred HHHHHHHHcCccE---EEEeeecChhH-HHHHHHHHHHHHhCCCeEEEe
Q psy9352 92 VFPDIFKTWNIKL---LTWEYDIEPYA-KKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 92 ~l~~l~~~~~~~~---v~~~~~~~~~~-~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.+...+++.|++. +.+.++..... .+|.+..++.|++.|++|+..
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 5778888888864 44566655332 233447888999999999876
No 231
>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=49.95 E-value=47 Score=27.61 Aligned_cols=51 Identities=10% Similarity=0.075 Sum_probs=36.7
Q ss_pred hhhHHHHHHHHcCccEEEEeee--cChhHHHHHHHHHHHHHhCCCeEEEecCCe
Q psy9352 89 PEEVFPDIFKTWNIKLLTWEYD--IEPYAKKRDGLVEDMAKEYKVKVEQHVSHT 140 (146)
Q Consensus 89 ~~~~l~~l~~~~~~~~v~~~~~--~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~ 140 (146)
-.+.+.+++++++++.|+.... ..++..+.- .+++.+++.||++-.++++.
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 4577889999999999886433 234444444 46777778899999988763
No 232
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=49.93 E-value=69 Score=23.32 Aligned_cols=31 Identities=16% Similarity=0.073 Sum_probs=25.4
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
+.|++.|+.+.+..|.+...+..+.+..+..
T Consensus 30 ~~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 60 (230)
T PRK01158 30 RKAEKLGIPVILATGNVLCFARAAAKLIGTS 60 (230)
T ss_pred HHHHHCCCEEEEEcCCchHHHHHHHHHhCCC
Confidence 3356789999999999998888888887764
No 233
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=49.92 E-value=48 Score=24.92 Aligned_cols=40 Identities=13% Similarity=0.301 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
+.+...+.-+++++.|+.+.+..|.+...+..+.++.+.+
T Consensus 21 i~~~~~~al~~~~~~g~~v~iaTGR~~~~~~~~~~~l~~~ 60 (264)
T COG0561 21 ISPETKEALARLREKGVKVVLATGRPLPDVLSILEELGLD 60 (264)
T ss_pred cCHHHHHHHHHHHHCCCEEEEECCCChHHHHHHHHHcCCC
Confidence 3344444444888899999999999999999999998887
No 234
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=49.92 E-value=1.3e+02 Score=23.85 Aligned_cols=73 Identities=12% Similarity=0.055 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEE---CChhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQ---GKPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~---g~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
-|+.+-...+++..+++|..+.+.. +++.. .+..+++ .+++.|...- ..+.. -+..+.+ +.+.||++..
T Consensus 36 pf~~~~~~Gi~~aa~~~G~~v~~~~~~~~d~~~q~~~i~~li~-~~vdgIiv~~-~d~~a--l~~~l~~-a~~~gIpVV~ 110 (336)
T PRK15408 36 GFFTSGGNGAKEAGKELGVDVTYDGPTEPSVSGQVQLINNFVN-QGYNAIIVSA-VSPDG--LCPALKR-AMQRGVKVLT 110 (336)
T ss_pred HHHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHH-cCCCEEEEec-CCHHH--HHHHHHH-HHHCCCeEEE
Confidence 4777778888888999999998632 22332 3444443 5899998852 22222 2224444 5578999999
Q ss_pred ecCC
Q psy9352 136 HVSH 139 (146)
Q Consensus 136 ~~~~ 139 (146)
+++.
T Consensus 111 ~d~~ 114 (336)
T PRK15408 111 WDSD 114 (336)
T ss_pred eCCC
Confidence 8764
No 235
>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=49.88 E-value=1.1e+02 Score=23.05 Aligned_cols=72 Identities=10% Similarity=0.149 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEE-EC--Chhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVV-QG--KPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~-~g--~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
|+.+-+..+++.+++.|..+.+. .+ ++.. .+..+. ..+++.|+... ... . .-+..+ +.+.+.||++..+
T Consensus 13 ~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~l~~~~-~~~~dgiii~~-~~~-~-~~~~~i-~~~~~~~iPvV~~ 87 (294)
T cd06316 13 WSNAQVRGAKDEFAKLGIEVVATTDAQFDPAKQVADIETTI-SQKPDIIISIP-VDP-V-STAAAY-KKVAEAGIKLVFM 87 (294)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCCCCCHHHHHHHHHHHH-HhCCCEEEEcC-CCc-h-hhhHHH-HHHHHcCCcEEEe
Confidence 55666777788899999998754 32 3432 233333 35788887732 111 1 112234 4456789999888
Q ss_pred cCC
Q psy9352 137 VSH 139 (146)
Q Consensus 137 ~~~ 139 (146)
+..
T Consensus 88 ~~~ 90 (294)
T cd06316 88 DNV 90 (294)
T ss_pred cCC
Confidence 653
No 236
>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=49.84 E-value=20 Score=27.61 Aligned_cols=39 Identities=10% Similarity=0.273 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
|.++..+|=+.|.+.++|++|+.+--.++|.+..++.+.
T Consensus 91 LRdg~~~~f~~L~~~~IP~lIFSAGlgdvI~~vL~q~~~ 129 (246)
T PF05822_consen 91 LRDGVEEFFDKLEEHNIPLLIFSAGLGDVIEEVLRQAGV 129 (246)
T ss_dssp B-BTHHHHHHHHHCTT--EEEEEEEEHHHHHHHHHHTT-
T ss_pred hhcCHHHHHHHHHhcCCCEEEEeCCcHHHHHHHHHHcCC
Confidence 345667777888999999999998888888888887653
No 237
>TIGR00083 ribF riboflavin kinase/FMN adenylyltransferase. multifunctional enzyme: riboflavin kinase (EC 2.7.1.26) (flavokinase) / FMN adenylyltransferase (EC 2.7.7.2) (FAD pyrophosphorylase) (FAD synthetase).
Probab=49.56 E-value=1e+02 Score=24.24 Aligned_cols=72 Identities=14% Similarity=0.090 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHhcCCeEEEEE--------CChhhHHHHHHH-HcCccEEEEeeecChhHHHH---HHHHHHHHHhCCCe
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQ--------GKPEEVFPDIFK-TWNIKLLTWEYDIEPYAKKR---DGLVEDMAKEYKVK 132 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~--------g~~~~~l~~l~~-~~~~~~v~~~~~~~~~~~~r---d~~v~~~~~~~~i~ 132 (146)
+-++++=.+.|+++|++.++.. -+|.+-+.++.. ..++.+|++-.++.. ++.| -..+++.+++.|+.
T Consensus 53 l~~~~~k~~~l~~~Gvd~~~~~~F~~~~a~ls~e~Fi~~~l~~~l~~~~ivvG~Df~F-G~~~~G~~~~L~~~~~~~g~~ 131 (288)
T TIGR00083 53 LTPLEDKARQLQIKGVEQLLVVVFDEEFANLSALQFIDQLIVKHLHVKFLVVGDDFRF-GHDRQGDFLLLQLFGNTTIFC 131 (288)
T ss_pred CCCHHHHHHHHHHcCCCEEEEeCCCHHHHcCCHHHHHHHHHHhccCCcEEEECCCccC-CCCCCCCHHHHHHhccccCcE
Confidence 4566777777889999876653 334455566664 589999999888743 1111 13677777777876
Q ss_pred EEEec
Q psy9352 133 VEQHV 137 (146)
Q Consensus 133 ~~~~~ 137 (146)
+...+
T Consensus 132 v~~~~ 136 (288)
T TIGR00083 132 VIVKQ 136 (288)
T ss_pred EEEec
Confidence 65543
No 238
>smart00475 53EXOc 5'-3' exonuclease.
Probab=49.55 E-value=70 Score=24.67 Aligned_cols=48 Identities=19% Similarity=0.264 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEC-ChhhHHHHHHHHc---CccEEEEeeec
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQG-KPEEVFPDIFKTW---NIKLLTWEYDI 111 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~---~~~~v~~~~~~ 111 (146)
+.+.+..+++-|+..|++.+...| +..+++..|+... |...++++.|.
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 455678889999999999988888 7888888888753 44555666554
No 239
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=49.42 E-value=81 Score=25.39 Aligned_cols=48 Identities=19% Similarity=0.372 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHhcCCeEEE---------------EECChhhHHHHHHHHcCccEEEEeeecChh
Q psy9352 66 QSLADLDQKFRALGSRLYV---------------VQGKPEEVFPDIFKTWNIKLLTWEYDIEPY 114 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v---------------~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~ 114 (146)
++|.+|..-.+..|+...= =.|.. +.+.+++++.+++.|+++.+-+|.
T Consensus 17 ~~~~E~~~L~~~~~~~v~~~~~~~~~~~~~~~~~g~gk~-~e~~~~~~~~~~~~vi~~~~l~p~ 79 (351)
T TIGR03156 17 ESLEELAELAETAGAEVVGTVTQKRSRPDPATYIGKGKV-EEIAELVEELEADLVIFDHELSPS 79 (351)
T ss_pred hhHHHHHHHHHHCCCEEEEEEEEecCCCCCCeEecccHH-HHHHHHHHhcCCCEEEECCCCCHH
Confidence 6788998888888876422 11333 567889999999999999988874
No 240
>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=49.34 E-value=1.2e+02 Score=23.14 Aligned_cols=73 Identities=15% Similarity=0.172 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEE-E--CChhhHHHHH--HHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVV-Q--GKPEEVFPDI--FKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~-~--g~~~~~l~~l--~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+++.+++.|..+.+. . .++......+ +...+++.|++.. ..+. .-+..+++ +++.||++..+
T Consensus 12 ~f~~~i~~gi~~~a~~~g~~v~~~~~~~~d~~~~~~~i~~~~~~~~DgiIi~~-~~~~--~~~~~~~~-~~~~~iPvV~v 87 (298)
T cd06302 12 PYFNRMEEGAKEAAKELGVDAIYVGPTTADAAGQVQIIEDLIAQGVDAIAVVP-NDPD--ALEPVLKK-AREAGIKVVTH 87 (298)
T ss_pred hHHHHHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHHhcCCCEEEEec-CCHH--HHHHHHHH-HHHCCCeEEEE
Confidence 477788889999999999999875 3 3443332222 2235789998852 2221 11223433 46789999988
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 88 ~~ 89 (298)
T cd06302 88 DS 89 (298)
T ss_pred cC
Confidence 74
No 241
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=49.24 E-value=1.1e+02 Score=22.93 Aligned_cols=69 Identities=19% Similarity=0.240 Sum_probs=42.3
Q ss_pred HHHhcCCeEEEEECChhhHHHHHHHHcCcc-----EEEEeeec------------ChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 74 KFRALGSRLYVVQGKPEEVFPDIFKTWNIK-----LLTWEYDI------------EPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 74 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~-----~v~~~~~~------------~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
+|++.|+.+.+..|.+...+..++++.+.+ .|..|-.+ .+...+.-..+.+.+++.++.+..+
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 356789999999999998888888887753 22222111 0011122234556666778877766
Q ss_pred cCCeee
Q psy9352 137 VSHTLY 142 (146)
Q Consensus 137 ~~~~L~ 142 (146)
..+.++
T Consensus 111 ~~~~~~ 116 (270)
T PRK10513 111 DRNTLY 116 (270)
T ss_pred ECCEEE
Confidence 655443
No 242
>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=49.04 E-value=1.1e+02 Score=22.71 Aligned_cols=72 Identities=21% Similarity=0.103 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+.+.+++.|..+.+... ++. +.+..+ ...+++.|++.... +.. -...+. .+++.||++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~-~~~~~Dgiii~~~~-~~~--~~~~i~-~~~~~~iPvV~~ 86 (282)
T cd06318 12 PFFAALTEAAKAHAKALGYELISTDAQGDLTKQIADVEDL-LTRGVNVLIINPVD-PEG--LVPAVA-AAKAAGVPVVVV 86 (282)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHH-HHcCCCEEEEecCC-ccc--hHHHHH-HHHHCCCCEEEe
Confidence 57788888999999999999988753 333 234443 34688888875321 111 111343 345689999888
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 87 ~~ 88 (282)
T cd06318 87 DS 88 (282)
T ss_pred cC
Confidence 64
No 243
>COG2014 Uncharacterized conserved protein [Function unknown]
Probab=48.95 E-value=51 Score=25.09 Aligned_cols=36 Identities=22% Similarity=0.426 Sum_probs=32.3
Q ss_pred CCeEEEEECChhhHHHHHHHHcCccEEEEeeecChh
Q psy9352 79 GSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPY 114 (146)
Q Consensus 79 g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~ 114 (146)
.-.+.++.|.....+|++..+.|+++|--.+-..|.
T Consensus 189 ~ak~vvl~GPTa~l~pe~f~~~gvt~iag~kIiDp~ 224 (250)
T COG2014 189 KAKLVVLTGPTAQLLPEFFKGTGVTHIAGTKIIDPD 224 (250)
T ss_pred cCcEEEEeCCCcccchhHHhccCcceEEeeeecCHH
Confidence 357999999999999999999999999998888764
No 244
>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=48.90 E-value=63 Score=21.54 Aligned_cols=42 Identities=21% Similarity=0.189 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEE
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLT 106 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~ 106 (146)
+..|.++.+++++.|+.++.+.-+..+....++++.+.+--+
T Consensus 43 ~~~l~~~~~~~~~~~v~vv~V~~~~~~~~~~~~~~~~~~~p~ 84 (149)
T cd02970 43 LRALSKLLPELDALGVELVAVGPESPEKLEAFDKGKFLPFPV 84 (149)
T ss_pred HHHHHHHHHHHHhcCeEEEEEeCCCHHHHHHHHHhcCCCCeE
Confidence 477889999999999999888866666666788877765333
No 245
>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=48.83 E-value=25 Score=27.36 Aligned_cols=44 Identities=16% Similarity=0.391 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEECC--------hhhHHHHHHHHcCccEEEEe
Q psy9352 61 WRFLQQSLADLDQKFRALGSRLYVVQGK--------PEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 61 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~--------~~~~l~~l~~~~~~~~v~~~ 108 (146)
.+.+.+.|.+|+++. ...+.|..|+ +.+. .+...+.|++.+...
T Consensus 15 r~~l~~~L~~lk~~~---~~D~vIaNgEn~~gG~Gi~~~~-~~~L~~~GvDviT~G 66 (266)
T TIGR00282 15 RKIVKNNLPQLKSKY---QADLVIANGENTTHGKGLTLKI-YEFLKQSGVNYITMG 66 (266)
T ss_pred HHHHHHHHHHHHHhC---CCCEEEEcCcccCCCCCCCHHH-HHHHHhcCCCEEEcc
Confidence 356667777777753 4667776432 3333 344445677777763
No 246
>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=48.78 E-value=1.1e+02 Score=22.55 Aligned_cols=71 Identities=8% Similarity=0.112 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--hhh--HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--PEE--VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~--~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|+.+-+..+.+.++++|..+.+..++ +.. ...+.+...+++.|.+...... +..+.+ +.+.+|++..++
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~-----~~~~~~-~~~~~iPvv~~~ 85 (265)
T cd06285 12 TVMATMYEGIEEAAAERGYSTFVANTGDNPDAQRRAIEMLLDRRVDGLILGDARSD-----DHFLDE-LTRRGVPFVLVL 85 (265)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCC-----hHHHHH-HHHcCCCEEEEc
Confidence 366677788888889999998776543 222 1222344568998887532211 112333 456789998877
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
.
T Consensus 86 ~ 86 (265)
T cd06285 86 R 86 (265)
T ss_pred c
Confidence 5
No 247
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=48.76 E-value=37 Score=26.13 Aligned_cols=41 Identities=17% Similarity=0.189 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccE
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKL 104 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 104 (146)
+..+..++-+.|++.|+.+.+..+.+......+++..+...
T Consensus 188 ~~~~~~~~l~~l~~~g~~i~i~T~r~~~~~~~~l~~l~~~~ 228 (300)
T PHA02530 188 PNPMVVELVKMYKAAGYEIIVVSGRDGVCEEDTVEWLRQTD 228 (300)
T ss_pred CChhHHHHHHHHHhCCCEEEEEeCCChhhHHHHHHHHHHcC
Confidence 35677777788888999999999998877777777665554
No 248
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=48.52 E-value=1.2e+02 Score=23.31 Aligned_cols=70 Identities=11% Similarity=0.125 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHh-CCCeEEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKE-YKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~-~~i~~~~ 135 (146)
.|+.+-+..+++.+++.|..+.+... ++. +.+.. +...+++.|++.-.... +..+ +.+++ .||++..
T Consensus 72 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~-l~~~~vdgiii~~~~~~-----~~~~-~~l~~~~~iPvV~ 144 (341)
T PRK10703 72 PYFAEIIEAVEKNCYQKGYTLILCNAWNNLEKQRAYLSM-LAQKRVDGLLVMCSEYP-----EPLL-AMLEEYRHIPMVV 144 (341)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEecCCCC-----HHHH-HHHHhcCCCCEEE
Confidence 35666777788889999999888763 233 23333 34467888876432111 1123 33445 6899988
Q ss_pred ecC
Q psy9352 136 HVS 138 (146)
Q Consensus 136 ~~~ 138 (146)
++.
T Consensus 145 ~d~ 147 (341)
T PRK10703 145 MDW 147 (341)
T ss_pred Eec
Confidence 864
No 249
>PF06050 HGD-D: 2-hydroxyglutaryl-CoA dehydratase, D-component ; InterPro: IPR010327 Degradation of glutamate via the hydroxyglutarate pathway involves the syn-elimination of water from 2-hydroxyglutaryl-CoA. This anaerobic process is catalysed by 2-hydroxyglutaryl-CoA dehydratase, an enzyme with two components (A and D) that reversibly associate during reaction cycles. This component contains one non-reducible [4Fe-4S]2+ cluster and a reduced riboflavin 5'-monophosphate [].; PDB: 3O3O_B 3O3N_D 3O3M_D.
Probab=48.36 E-value=44 Score=26.19 Aligned_cols=70 Identities=13% Similarity=0.211 Sum_probs=43.5
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecC--hhHHHHHHHHHHHHHhC-CCeEEEecCC
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIE--PYAKKRDGLVEDMAKEY-KVKVEQHVSH 139 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~--~~~~~rd~~v~~~~~~~-~i~~~~~~~~ 139 (146)
-|.+|.+.+-....+--. ..-.+.+.+++++++++.|++....+ +...... .+++.+++. ||++...++.
T Consensus 254 pl~~la~~~~~~~~~~~~--~~r~~~~~~~~~~~~~dgvi~~~~~~C~~~~~~~~-~l~~~~~~~~gIP~l~le~d 326 (349)
T PF06050_consen 254 PLEALAERYLNRPRPCPR--ERRIEYIDDLIEKYGADGVIFHGHKGCDPYSYDQP-LLKEALREFLGIPVLFLEGD 326 (349)
T ss_dssp HHHHHHHHHHCSGGCBTC--HCHHHHHHHHHHHTT-SEEEEEEETT-HHHHCCHH-HHHHHHHCCHT--EEEEEE-
T ss_pred HHHHHHHHHHHhcCCCCh--HhHHHHHHHHHHHhCCCEEEEhHhcCCCcHHHHHH-HHHHHHHHhcCCCeEeeccc
Confidence 356666665433222111 45567788999999999999877664 3333333 788888888 9999777754
No 250
>PRK09701 D-allose transporter subunit; Provisional
Probab=48.28 E-value=1.2e+02 Score=23.23 Aligned_cols=73 Identities=11% Similarity=0.072 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC----Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG----KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g----~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|+.+-+..+++.+++.|..+.+..+ ++. +.+..+. ..+++.|+..... +. ..+..+.++ .+.||++.
T Consensus 37 ~f~~~~~~gi~~~a~~~g~~v~~~~~~~~~~~~~~~~~i~~l~-~~~vDgiIi~~~~-~~--~~~~~l~~~-~~~giPvV 111 (311)
T PRK09701 37 PFWVDMKKGIEDEAKTLGVSVDIFASPSEGDFQSQLQLFEDLS-NKNYKGIAFAPLS-SV--NLVMPVARA-WKKGIYLV 111 (311)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEeCCC-hH--HHHHHHHHH-HHCCCcEE
Confidence 47788888889999999999987632 222 2344443 3478888875321 21 112234443 46899999
Q ss_pred EecCC
Q psy9352 135 QHVSH 139 (146)
Q Consensus 135 ~~~~~ 139 (146)
.++..
T Consensus 112 ~~~~~ 116 (311)
T PRK09701 112 NLDEK 116 (311)
T ss_pred EeCCC
Confidence 98753
No 251
>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=48.28 E-value=1.1e+02 Score=26.24 Aligned_cols=64 Identities=17% Similarity=0.249 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhcCCe---EEEE---ECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 66 QSLADLDQKFRALGSR---LYVV---QGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~---L~v~---~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.||++|..+|++++++ +.++ .|...+.=-.++...++--|-||-...+ ..++.++..||++..+
T Consensus 317 GSlEAL~~~L~~~~~~~v~~~i~~~~VG~ite~DV~lA~as~avIigFnV~~~~-------~a~~~ae~~~V~I~~~ 386 (509)
T COG0532 317 GSLEALKGSLKKLGVDEVKVRIIHAGVGGITESDVMLAAASDAVIIGFNVRVDP-------EARRLAESEGVKIRYY 386 (509)
T ss_pred chHHHHHHHHHhcCCCceEEEEEEeecCCCChhhHHHHHhcCCEEEEEecCCCH-------HHHHHHHhcCCcEEEc
Confidence 3567777777777666 2222 2544433234455445545555544433 3444455667776654
No 252
>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=48.14 E-value=1.1e+02 Score=22.39 Aligned_cols=70 Identities=13% Similarity=0.164 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--hh--hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--PE--EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~--~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|+.+-...+++.+++.|..+.+...+ +. ..+.+.+...+++.++......+.. +.+.+ ..||++..++
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~------~~~~~-~~~ipvv~~~ 84 (267)
T cd06284 12 PFFSEILKGIEDEAREAGYGVLLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT------ALTAL-AKLPPIVQAC 84 (267)
T ss_pred ccHHHHHHHHHHHHHHcCCeEEEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH------HHHHH-hcCCCEEEEe
Confidence 466677788888889999999877632 22 1223345556899888854322211 22223 3588888775
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
+
T Consensus 85 ~ 85 (267)
T cd06284 85 E 85 (267)
T ss_pred c
Confidence 4
No 253
>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=48.11 E-value=1.2e+02 Score=23.08 Aligned_cols=45 Identities=20% Similarity=0.160 Sum_probs=23.3
Q ss_pred HHHHHHHHcCccEEEEe-eecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 92 VFPDIFKTWNIKLLTWE-YDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 92 ~l~~l~~~~~~~~v~~~-~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.+..|++.+|.+.+... .+.+|- -.+-..+.+.+++.+|++..++
T Consensus 179 af~Y~~~~ygl~~~~~~~~~~eps-~~~l~~l~~~ik~~~v~~if~e 224 (266)
T cd01018 179 AWGYFARDYGLTQIPIEEEGKEPS-PADLKRLIDLAKEKGVRVVFVQ 224 (266)
T ss_pred hhHHHHHHcCCEEEecCCCCCCCC-HHHHHHHHHHHHHcCCCEEEEc
Confidence 45667777777655442 111221 2222355556666676666554
No 254
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=48.11 E-value=63 Score=21.31 Aligned_cols=39 Identities=23% Similarity=0.189 Sum_probs=24.9
Q ss_pred hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeE
Q psy9352 90 EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133 (146)
Q Consensus 90 ~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~ 133 (146)
.+.+.+++++.+++-|+. +|..---+ -+...+++.||++
T Consensus 51 ~~~l~~~a~~~~idlvvv----GPE~pL~~-Gl~D~l~~~gi~v 89 (100)
T PF02844_consen 51 PEELADFAKENKIDLVVV----GPEAPLVA-GLADALRAAGIPV 89 (100)
T ss_dssp HHHHHHHHHHTTESEEEE----SSHHHHHT-THHHHHHHTT-CE
T ss_pred HHHHHHHHHHcCCCEEEE----CChHHHHH-HHHHHHHHCCCcE
Confidence 355677888888888877 44433333 6677777777765
No 255
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=48.07 E-value=1.2e+02 Score=22.94 Aligned_cols=72 Identities=17% Similarity=0.178 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEE--CChhhH---HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQ--GKPEEV---FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~--g~~~~~---l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+++.+++.|..+.+.. +++... +..+ ...+++.++.... ... ... ...+.+++.|+++..+
T Consensus 39 ~f~~~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l-~~~~~dgiii~~~-~~~--~~~-~~l~~~~~~~ipvV~~ 113 (295)
T PRK10653 39 PFFVSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDL-TVRGTKILLINPT-DSD--AVG-NAVKMANQANIPVITL 113 (295)
T ss_pred hHHHHHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHH-HHcCCCEEEEcCC-ChH--HHH-HHHHHHHHCCCCEEEE
Confidence 4777888899999999999998864 234322 3333 3357887776421 111 111 2234455688999888
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 114 ~~ 115 (295)
T PRK10653 114 DR 115 (295)
T ss_pred cc
Confidence 64
No 256
>PRK10976 putative hydrolase; Provisional
Probab=47.95 E-value=61 Score=24.33 Aligned_cols=30 Identities=20% Similarity=0.211 Sum_probs=25.2
Q ss_pred HHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 74 KFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 74 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
+|++.|+.+.+..|.+...+..++++.+.+
T Consensus 30 ~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 59 (266)
T PRK10976 30 LLTARGIHFVFATGRHHVDVGQIRDNLEIK 59 (266)
T ss_pred HHHHCCCEEEEEcCCChHHHHHHHHhcCCC
Confidence 366789999999999998888888887764
No 257
>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=47.79 E-value=55 Score=23.78 Aligned_cols=32 Identities=13% Similarity=0.032 Sum_probs=26.2
Q ss_pred HHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 72 DQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 72 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
-+.|++.|+.+.+..|.+...+..+.+.++.+
T Consensus 27 i~~l~~~g~~~~~~TGR~~~~~~~~~~~l~~~ 58 (215)
T TIGR01487 27 IRKAEKKGIPVSLVTGNTVPFARALAVLIGTS 58 (215)
T ss_pred HHHHHHCCCEEEEEcCCcchhHHHHHHHhCCC
Confidence 34456689999999999998888888888775
No 258
>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=47.71 E-value=48 Score=26.97 Aligned_cols=48 Identities=10% Similarity=0.045 Sum_probs=36.0
Q ss_pred hhhHHHHHHHHcCccEEEEee--ecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 89 PEEVFPDIFKTWNIKLLTWEY--DIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 89 ~~~~l~~l~~~~~~~~v~~~~--~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
-.+.|.+++++++|+.|+... -..++..+.- .+++.+++.||++..++
T Consensus 309 R~~~i~~lvke~~aDGVI~~~~~~C~~~~~e~~-~lk~~l~e~GIP~L~id 358 (380)
T TIGR02263 309 KGKYLLDQVRKNAAEGVIFAAPSFCDPALLERP-MLAARCKEHGIPQIAFK 358 (380)
T ss_pred HHHHHHHHHHHhCCCEEEEhHhhcCChhhhhHH-HHHHHHHHCCCCEEEEE
Confidence 446788999999999888633 3356666655 67888888999988774
No 259
>PRK12702 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=47.70 E-value=1.4e+02 Score=23.75 Aligned_cols=35 Identities=3% Similarity=0.032 Sum_probs=28.2
Q ss_pred HHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
.+.-+.|++.|+++++..|.+...+..+.++.+.+
T Consensus 24 ~~aL~~Lk~~GI~vVlaTGRt~~ev~~l~~~Lgl~ 58 (302)
T PRK12702 24 RQALAALERRSIPLVLYSLRTRAQLEHLCRQLRLE 58 (302)
T ss_pred HHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCC
Confidence 33345566789999999999998888999988764
No 260
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=47.55 E-value=1.1e+02 Score=24.26 Aligned_cols=70 Identities=11% Similarity=0.032 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHH--cCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKT--WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~--~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
|+ ..+.++|.+.|++..++.......+..-+.. .|++.|+.|-..- .+-=--.+.-+++..+++|+.+-.
T Consensus 159 ~G-~~~a~~L~~~GI~vtlI~Dsav~~~m~~vd~VivGAd~v~~nG~v~--nkiGT~~~A~~Ak~~~vPv~V~a~ 230 (310)
T PRK08535 159 QG-HITAKELAEYGIPVTLIVDSAVRYFMKDVDKVVVGADAITANGAVI--NKIGTSQIALAAHEARVPFMVAAE 230 (310)
T ss_pred hH-HHHHHHHHHCCCCEEEEehhHHHHHHHhCCEEEECccEEecCCCEE--eHHhHHHHHHHHHHhCCCEEEecc
Confidence 45 5577788999999998877665443222222 2556665554321 111112566667788999987643
No 261
>COG1213 Predicted sugar nucleotidyltransferases [Cell envelope biogenesis, outer membrane]
Probab=47.44 E-value=22 Score=27.22 Aligned_cols=78 Identities=13% Similarity=0.179 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHHhcCC-eEEEEE-CChhhHHHHHHHHcC-ccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 62 RFLQQSLADLDQKFRALGS-RLYVVQ-GKPEEVFPDIFKTWN-IKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~-~L~v~~-g~~~~~l~~l~~~~~-~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
.-+.++++.|.+ .|+ .++++. |--.+.+.++..+++ ...+++|..|+.--. -..+--+....+-.|....+
T Consensus 32 ~ii~~~i~~L~~----~gi~e~vvV~~g~~~~lve~~l~~~~~~~~iv~N~~y~ktN~--~~Sl~~akd~~~~~fii~~s 105 (239)
T COG1213 32 EIIYRTIENLAK----AGITEFVVVTNGYRADLVEEFLKKYPFNAKIVINSDYEKTNT--GYSLLLAKDYMDGRFILVMS 105 (239)
T ss_pred EeHHHHHHHHHH----cCCceEEEEeccchHHHHHHHHhcCCcceEEEeCCCcccCCc--eeEEeeehhhhcCcEEEEeC
Confidence 356777766554 577 455555 889999999999999 677888887752110 00011111112234788888
Q ss_pred CeeeeCC
Q psy9352 139 HTLYNTN 145 (146)
Q Consensus 139 ~~L~~p~ 145 (146)
.++|+|.
T Consensus 106 D~vye~~ 112 (239)
T COG1213 106 DHVYEPS 112 (239)
T ss_pred CEeecHH
Confidence 8888873
No 262
>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=47.40 E-value=45 Score=24.99 Aligned_cols=38 Identities=18% Similarity=0.169 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcC
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWN 101 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~ 101 (146)
+.+.+.++-+++.+.|+.+.+..|.+...+.++.++++
T Consensus 22 ~~~~~~~~i~~~~~~gi~fv~aTGR~~~~~~~~~~~~~ 59 (249)
T TIGR01485 22 ALLRLNALLEDHRGEDSLLVYSTGRSPHSYKELQKQKP 59 (249)
T ss_pred HHHHHHHHHHHhhccCceEEEEcCCCHHHHHHHHhcCC
Confidence 45677777778899999999999999998888877654
No 263
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=47.38 E-value=74 Score=20.40 Aligned_cols=63 Identities=13% Similarity=0.128 Sum_probs=42.7
Q ss_pred HHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 68 LADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
+..+++.+++.|+++.+......+. ..... +++.|+. +|.-....+.+++.+...++++..-+
T Consensus 16 ~~ki~~~~~~~~~~~~v~~~~~~~~-~~~~~--~~Diil~----~Pqv~~~~~~i~~~~~~~~~pv~~I~ 78 (96)
T cd05564 16 VKKMKKAAEKRGIDAEIEAVPESEL-EEYID--DADVVLL----GPQVRYMLDEVKKKAAEYGIPVAVID 78 (96)
T ss_pred HHHHHHHHHHCCCceEEEEecHHHH-HHhcC--CCCEEEE----ChhHHHHHHHHHHHhccCCCcEEEcC
Confidence 4578888899999998888777654 33333 4666777 34444445577777777788887654
No 264
>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=47.32 E-value=29 Score=23.31 Aligned_cols=75 Identities=16% Similarity=0.052 Sum_probs=42.4
Q ss_pred HHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcC-CeEEEEECChhhHHHHHHHHcCc
Q psy9352 24 LLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALG-SRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 24 L~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g-~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
|..|.+.++. +++.+.+|+.... ..+ ..+-++.+=.+.|+++| ++.. +...+.+.+.+.++++++
T Consensus 18 l~~a~~~~~~------~iv~v~~d~~~~~-----~~~--~~i~~~eeR~~~l~~~~~Vd~v-i~~~~~~~f~~~l~~~~~ 83 (125)
T TIGR01518 18 LERAKQLGDY------LIVALSTDEFNLQ-----KQK--KAYHSYEHRKLILETIRYVDLV-IPEKSWEQKKQDIIDFNI 83 (125)
T ss_pred HHHHHHcCCE------EEEEEechHHHhh-----cCC--CCCCCHHHHHHHHHcCCCccEE-ecCCCccchHHHHHHcCC
Confidence 4455555544 6667777762211 001 12224444455566775 7665 344554544455578999
Q ss_pred cEEEEeeecC
Q psy9352 103 KLLTWEYDIE 112 (146)
Q Consensus 103 ~~v~~~~~~~ 112 (146)
+.|++..++.
T Consensus 84 ~~vv~G~D~~ 93 (125)
T TIGR01518 84 DVFVMGDDWE 93 (125)
T ss_pred CEEEECCCcc
Confidence 9999988883
No 265
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=47.26 E-value=92 Score=21.44 Aligned_cols=59 Identities=14% Similarity=0.046 Sum_probs=38.9
Q ss_pred HHHHHhcCCeEEEEE-CChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 72 DQKFRALGSRLYVVQ-GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 72 ~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
..-|+..|...+-+- ..|.+.|-+-+.+.+++.|..+.-.+....... .+.+.+++.|+
T Consensus 20 ~~~L~~~GfeVidLG~~v~~e~~v~aa~~~~adiVglS~L~t~~~~~~~-~~~~~l~~~gl 79 (128)
T cd02072 20 DHAFTEAGFNVVNLGVLSPQEEFIDAAIETDADAILVSSLYGHGEIDCK-GLREKCDEAGL 79 (128)
T ss_pred HHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEeccccCCHHHHH-HHHHHHHHCCC
Confidence 345666676654442 456677788888889999998876654433333 56667777765
No 266
>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=47.25 E-value=58 Score=24.47 Aligned_cols=30 Identities=13% Similarity=0.212 Sum_probs=25.5
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
+.|++.|+++.+..|.+...+..+.++.++
T Consensus 26 ~~l~~~g~~~~~~TgR~~~~~~~~~~~~~~ 55 (256)
T TIGR01486 26 ERLQELGIPVIPCTSKTAAEVEYLRKELGL 55 (256)
T ss_pred HHHHHCCCeEEEEcCCCHHHHHHHHHHcCC
Confidence 346667999999999999988999988875
No 267
>PRK10824 glutaredoxin-4; Provisional
Probab=47.22 E-value=60 Score=21.90 Aligned_cols=46 Identities=7% Similarity=-0.117 Sum_probs=22.3
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
....++.++.++..-+.+-.-.+ ..|+ .+.+.-....|+=..++|.
T Consensus 34 ~~ak~lL~~~~i~~~~idi~~d~--~~~~-~l~~~sg~~TVPQIFI~G~ 79 (115)
T PRK10824 34 AQAVQALSACGERFAYVDILQNP--DIRA-ELPKYANWPTFPQLWVDGE 79 (115)
T ss_pred HHHHHHHHHcCCCceEEEecCCH--HHHH-HHHHHhCCCCCCeEEECCE
Confidence 44566777777665555443332 1222 3444433344555555544
No 268
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=47.15 E-value=80 Score=24.26 Aligned_cols=42 Identities=12% Similarity=0.048 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
+++-..+.+.|+++|+...++..+.. . .+.++..+++.|+..
T Consensus 22 ~~s~~~i~~al~~~g~~v~~i~~~~~-~-~~~~~~~~~D~v~~~ 63 (304)
T PRK01372 22 LNSGAAVLAALREAGYDAHPIDPGED-I-AAQLKELGFDRVFNA 63 (304)
T ss_pred HHhHHHHHHHHHHCCCEEEEEecCcc-h-HHHhccCCCCEEEEe
Confidence 45668888999999999888865432 2 234445567777653
No 269
>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=46.95 E-value=1.2e+02 Score=22.50 Aligned_cols=71 Identities=13% Similarity=0.083 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEE-C--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQ-G--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~-g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
-|+.+-+..+.+.+++.|..+.+.. . ++. +.+.. +...+++.|++... .+. .-+..+.++ .+ ++++..
T Consensus 11 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~i~~-l~~~~vDgiIi~~~-~~~--~~~~~l~~~-~~-~ipvV~ 84 (271)
T cd06314 11 PFWKIAEAGVKAAGKELGVDVEFVVPQQGTVNAQLRMLED-LIAEGVDGIAISPI-DPK--AVIPALNKA-AA-GIKLIT 84 (271)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEeCCCCCCHHHHHHHHHH-HHhcCCCEEEEecC-Chh--HhHHHHHHH-hc-CCCEEE
Confidence 4778888999999999999998874 2 332 22333 34468998888531 111 112244444 45 899988
Q ss_pred ecC
Q psy9352 136 HVS 138 (146)
Q Consensus 136 ~~~ 138 (146)
++.
T Consensus 85 ~~~ 87 (271)
T cd06314 85 TDS 87 (271)
T ss_pred ecC
Confidence 864
No 270
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=46.81 E-value=1.3e+02 Score=23.11 Aligned_cols=45 Identities=16% Similarity=0.235 Sum_probs=35.8
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
+.+.+++++.+++.|+- ...|+..+-.+.+.++|++.||++..|.
T Consensus 55 ~~l~~~l~~~~i~~VID--AtHPfA~~is~~a~~a~~~~~ipylR~e 99 (256)
T TIGR00715 55 QELREFLKRHSIDILVD--ATHPFAAQITTNATAVCKELGIPYVRFE 99 (256)
T ss_pred HHHHHHHHhcCCCEEEE--cCCHHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 44778889889988775 3357777777789999999999999884
No 271
>PRK00074 guaA GMP synthase; Reviewed
Probab=46.76 E-value=1.5e+02 Score=25.22 Aligned_cols=75 Identities=5% Similarity=0.185 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChh-hHHHHHHHHc---CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPE-EVFPDIFKTW---NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~-~~l~~l~~~~---~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|+.+.++.+++.+++ +.-++-+.|-.. .++..++.+. ++.+|+++....+ ..+.++..+.++++.||+++.++
T Consensus 200 ~~~~~~~~~l~~~v~~-~~vlva~SGGvDS~vll~ll~~~lg~~v~av~vd~g~~~-~~e~~~~~~~~a~~lgi~~~vvd 277 (511)
T PRK00074 200 NFIEEAIEEIREQVGD-KKVILGLSGGVDSSVAAVLLHKAIGDQLTCVFVDHGLLR-KNEAEQVMEMFREHFGLNLIHVD 277 (511)
T ss_pred HHHHHHHHHHHHhcCC-CcEEEEeCCCccHHHHHHHHHHHhCCceEEEEEeCCCCC-HHHHHHHHHHHHHHcCCcEEEEc
Confidence 3666677777777765 333444555443 3444455443 5667777654432 23444344446688999988776
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
-
T Consensus 278 ~ 278 (511)
T PRK00074 278 A 278 (511)
T ss_pred c
Confidence 4
No 272
>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=46.73 E-value=76 Score=20.83 Aligned_cols=42 Identities=12% Similarity=0.112 Sum_probs=25.4
Q ss_pred HHHHHHH-cCccEEEEeeecChh---HHHHHHHHHHHHHhCCCeEEE
Q psy9352 93 FPDIFKT-WNIKLLTWEYDIEPY---AKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 93 l~~l~~~-~~~~~v~~~~~~~~~---~~~rd~~v~~~~~~~~i~~~~ 135 (146)
+.+++++ -+++-|+...+ +.. ...-...+++.+-+.+|++.+
T Consensus 59 i~~~i~~~g~idlVIn~~~-~~~~~~~~~dg~~iRR~A~~~~Ip~~T 104 (112)
T cd00532 59 VDAAIAEKGKFDVVINLRD-PRRDRCTDEDGTALLRLARLYKIPVTT 104 (112)
T ss_pred HHHHHhCCCCEEEEEEcCC-CCcccccCCChHHHHHHHHHcCCCEEE
Confidence 4567777 77877776443 111 122244677777778888765
No 273
>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=46.73 E-value=1.2e+02 Score=22.39 Aligned_cols=70 Identities=14% Similarity=0.123 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+++.++++|..+.+..++ +. +.+..+. ..+++.|++.....+. . .+.. +.+.|+++..+
T Consensus 12 ~~~~~~~~g~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgii~~~~~~~~----~-~~~~-~~~~~ipvV~~ 84 (268)
T cd06270 12 PFFGPLLSGVESVARKAGKHLIITAGHHSAEKEREAIEFLL-ERRCDALILHSKALSD----D-ELIE-LAAQVPPLVLI 84 (268)
T ss_pred cchHHHHHHHHHHHHHCCCEEEEEeCCCchHHHHHHHHHHH-HcCCCEEEEecCCCCH----H-HHHH-HhhCCCCEEEE
Confidence 466777888899999999999887543 22 2344444 4588888874321111 1 1333 45678998888
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 85 ~~ 86 (268)
T cd06270 85 NR 86 (268)
T ss_pred ec
Confidence 65
No 274
>TIGR00623 sula cell division inhibitor SulA. All proteins in this family for which the functions are known are cell division inhibitors. In E. coli, SulA is one of the SOS regulated genes.
Probab=46.66 E-value=24 Score=25.56 Aligned_cols=36 Identities=17% Similarity=0.381 Sum_probs=30.7
Q ss_pred ceEEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCC
Q psy9352 6 ECAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPH 49 (146)
Q Consensus 6 ~~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~ 49 (146)
..+|.|.-..++.++-.-|..|++.++. ..|+|.|.
T Consensus 112 ~aVL~WLp~~l~~~~lRRLqlAA~~G~a--------l~fl~Rp~ 147 (168)
T TIGR00623 112 SVVIGWLTDELTEEEHAKLVRAAEEGNA--------MGFIMRPV 147 (168)
T ss_pred cEEEecCCccCCHHHHHHHHHHHHhCCC--------eEEEEeeh
Confidence 4789999999999999999999998876 56777774
No 275
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=46.59 E-value=59 Score=24.45 Aligned_cols=83 Identities=20% Similarity=0.299 Sum_probs=51.8
Q ss_pred EEEEEEECCCccCCCCCChhhHHH------HHHHHHHHHHHHHhcCCeE-----EEEECChhhHHHHHHHHcCccEEEE-
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRF------LQQSLADLDQKFRALGSRL-----YVVQGKPEEVFPDIFKTWNIKLLTW- 107 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~F------l~~sL~~L~~~L~~~g~~L-----~v~~g~~~~~l~~l~~~~~~~~v~~- 107 (146)
+..+.--||-+++... ..+..| +.=++.+++-.++.+|.++ +-++|.+.+.+..+. ..+...|..
T Consensus 71 v~VLasGDP~f~G~g~--~l~~~~~~~~v~iIPgiSS~q~a~ARlg~~~~~~~~islHgr~~~~l~~~~-~~~~~~vil~ 147 (210)
T COG2241 71 VVVLASGDPLFSGVGR--LLRRKFSCEEVEIIPGISSVQLAAARLGWPLQDTEVISLHGRPVELLRPLL-ENGRRLVILT 147 (210)
T ss_pred eEEEecCCcchhhhHH--HHHHhcCccceEEecChhHHHHHHHHhCCChHHeEEEEecCCCHHHHHHHH-hCCceEEEeC
Confidence 8899999998775311 111122 2236778888888888764 445688888877777 444444444
Q ss_pred eeecChhHHHHHHHHHHHHHhCCC
Q psy9352 108 EYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 108 ~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
..+.+|. .+.+.|.+.|+
T Consensus 148 ~~~~~P~------~IA~~L~~~G~ 165 (210)
T COG2241 148 PDDFGPA------EIAKLLTENGI 165 (210)
T ss_pred CCCCCHH------HHHHHHHhCCC
Confidence 3334554 56777777775
No 276
>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=46.57 E-value=79 Score=20.49 Aligned_cols=43 Identities=23% Similarity=0.142 Sum_probs=24.5
Q ss_pred HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 92 VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 92 ~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
.+.+++++..++-|+.... ..........+++.+-+.||++.+
T Consensus 58 ~i~~~i~~~~id~vIn~~~-~~~~~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 58 NIVDLIKNGEIQLVINTPS-GKRAIRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred hHHHHHHcCCeEEEEECCC-CCccCccHHHHHHHHHHhCCCEEe
Confidence 3556666667777766322 111112234677777778888764
No 277
>KOG0133|consensus
Probab=46.53 E-value=27 Score=29.95 Aligned_cols=94 Identities=11% Similarity=-0.135 Sum_probs=63.2
Q ss_pred EEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCC-------CCChhhHHHHHHHHHHHHHHHHhcCC
Q psy9352 8 AVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFM-------RVGPNRWRFLQQSLADLDQKFRALGS 80 (146)
Q Consensus 8 ~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~-------~~~~~r~~Fl~~sL~~L~~~L~~~g~ 80 (146)
.++|+..+++.++|-....++....+ ++..+.+++...+.. ......-+|+... .+..+++..+.
T Consensus 169 ~~v~~~~~~~~~~~~~~~~~~~~~v~------~~e~l~~~~~~~~~~~~~~g~s~al~~l~~~l~~~--~~~an~~~~~~ 240 (531)
T KOG0133|consen 169 ALVLSGLAVEKHPNFLANSKASAVVP------TLELLRFIPSNYGEVVWRGGESEALKRLDAHLKVP--LWVANLELRYS 240 (531)
T ss_pred ccccccccCCCChhhhhhcccccccC------CchhhccCcccccccccCCcccchhHHHHHHhhHH--HHHhhhhcccc
Confidence 57899999999998876666544333 777777777654321 1122334455444 55777888888
Q ss_pred eEEEEECChhhHHHHHHHHcCccEEEEee
Q psy9352 81 RLYVVQGKPEEVFPDIFKTWNIKLLTWEY 109 (146)
Q Consensus 81 ~L~v~~g~~~~~l~~l~~~~~~~~v~~~~ 109 (146)
...++.+.++..+........++..++..
T Consensus 241 ~~~~~~~~s~~~Ls~yL~fg~~svr~~~~ 269 (531)
T KOG0133|consen 241 NANSRVKISTTVLSPYLKFGCLSVRYFYR 269 (531)
T ss_pred ccchhcCCCccccccceeeccceeEeehh
Confidence 88888777777788888776667666654
No 278
>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=46.51 E-value=1.1e+02 Score=22.31 Aligned_cols=68 Identities=9% Similarity=0.178 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEC--ChhhH--HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQG--KPEEV--FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~~--l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
|+.+-+..+++.+++.|..+.+... ++.+. +.+.+...+++.|++...... .. .+.+.|+++..++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~--------~~-~~~~~gipvv~~~~ 83 (265)
T cd06291 13 FFSELARAVEKELYKKGYKLILCNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLG--------IE-EYENIDLPIVSFDR 83 (265)
T ss_pred hHHHHHHHHHHHHHHCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEEecCCcC--------HH-HHhcCCCCEEEEeC
Confidence 5666677778889999999888754 33322 222344568888887532111 11 33467899998876
Q ss_pred C
Q psy9352 139 H 139 (146)
Q Consensus 139 ~ 139 (146)
.
T Consensus 84 ~ 84 (265)
T cd06291 84 Y 84 (265)
T ss_pred C
Confidence 4
No 279
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=46.40 E-value=1.3e+02 Score=22.74 Aligned_cols=69 Identities=12% Similarity=0.228 Sum_probs=43.0
Q ss_pred HHHHHHHHHHhcCCeEEEE-E-CChhhHHHHHHHHc--CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 67 SLADLDQKFRALGSRLYVV-Q-GKPEEVFPDIFKTW--NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~-~-g~~~~~l~~l~~~~--~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
+++-++..+++.|.++.|- . |....++..|+.+. .+..|+++..+. ..+-.+.+.+..++.|+.++.+.
T Consensus 28 ~~e~i~~a~~~~~~~i~vs~SGGKDS~vlL~L~~~~~~~i~vvfiDTG~~--~pet~e~~~~~~~~~gl~l~v~~ 100 (241)
T PRK02090 28 AQERLAWALENFGGRLALVSSFGAEDAVLLHLVAQVDPDIPVIFLDTGYL--FPETYRFIDELTERLLLNLKVYR 100 (241)
T ss_pred HHHHHHHHHHHcCCCEEEEecCCHHHHHHHHHHHhcCCCCcEEEecCCCC--CHHHHHHHHHHHHHhCCCEEEEC
Confidence 4555566666666665554 3 55556777788775 467777755553 33334466666777788887664
No 280
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=46.29 E-value=46 Score=24.60 Aligned_cols=37 Identities=19% Similarity=0.235 Sum_probs=27.9
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
++.++=+.|++.|+.+.|..+.+......+.+..++.
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 4556667888889999999888777767777776654
No 281
>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=45.87 E-value=80 Score=24.30 Aligned_cols=42 Identities=17% Similarity=0.193 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhcCCeEEEEEC-ChhhHHHHHHHHcCccEEEEe
Q psy9352 67 SLADLDQKFRALGSRLYVVQG-KPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~~~~~v~~~ 108 (146)
.|.++.+.+++.|++.++.+- .+...+..++++.|+..+..+
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 366777777778888777763 344566677777777766654
No 282
>PLN02476 O-methyltransferase
Probab=45.63 E-value=1.3e+02 Score=23.56 Aligned_cols=62 Identities=13% Similarity=0.170 Sum_probs=38.0
Q ss_pred HHHHHHHHhcCC--eEEEEECChhhHHHHHHHH---cCccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 69 ADLDQKFRALGS--RLYVVQGKPEEVFPDIFKT---WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 69 ~~L~~~L~~~g~--~L~v~~g~~~~~l~~l~~~---~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
..-++.+++.|. ...++.|++.+.|+++.++ -..+-||...+-..|..--+ .+.+.++..|+
T Consensus 157 ~~Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K~~Y~~y~e-~~l~lL~~GGv 223 (278)
T PLN02476 157 EVAKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADKRMYQDYFE-LLLQLVRVGGV 223 (278)
T ss_pred HHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCHHHHHHHHH-HHHHhcCCCcE
Confidence 344455556666 4888899999999998643 35788998665433322222 33444554554
No 283
>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=45.52 E-value=1.1e+02 Score=21.94 Aligned_cols=76 Identities=13% Similarity=0.254 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc-EEEE-eeec-----------ChhHHHHHHHHHHHHHhCCCe
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK-LLTW-EYDI-----------EPYAKKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~-~v~~-~~~~-----------~~~~~~rd~~v~~~~~~~~i~ 132 (146)
+.+..|+ +|.+.|+.+.+..|.+...+..+..++++. -+++ |-.+ .+...+.-..+.+.+.+.++.
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 3344444 366689999999999999999999988764 2111 1000 111223334666777778888
Q ss_pred EEEecCCeee
Q psy9352 133 VEQHVSHTLY 142 (146)
Q Consensus 133 ~~~~~~~~L~ 142 (146)
+..+.+...+
T Consensus 98 ~~~~~~~~~~ 107 (254)
T PF08282_consen 98 FFFYTDDDIY 107 (254)
T ss_dssp EEEEESSEEE
T ss_pred cccccceeee
Confidence 8887766544
No 284
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=45.39 E-value=84 Score=25.66 Aligned_cols=64 Identities=6% Similarity=-0.063 Sum_probs=37.6
Q ss_pred HHHHHhcCCeEEEEECChhhHHHHH--HHH--cCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 72 DQKFRALGSRLYVVQGKPEEVFPDI--FKT--WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 72 ~~~L~~~g~~L~v~~g~~~~~l~~l--~~~--~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
..+|.+.||+..++.......+..- +.. .|++.|..|-+.- -+-=--.+.-+++.+||+|+..-
T Consensus 220 a~eL~~~GIpvtlI~Dsa~~~~m~~~~Vd~VivGAD~I~~NG~v~--NKiGTy~lA~~Ak~~~vPfyV~a 287 (363)
T PRK05772 220 VYELMEEGIKVTLITDTAVGLVMYKDMVNNVMVGADRILRDGHVF--NKIGTFKEAVIAHELGIPFYALA 287 (363)
T ss_pred HHHHHHCCCCEEEEehhHHHHHHhhcCCCEEEECccEEecCCCEe--ehhhhHHHHHHHHHhCCCEEEEc
Confidence 4568888999999877665443321 111 2556665555431 01111145666788999998764
No 285
>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=45.35 E-value=69 Score=23.84 Aligned_cols=29 Identities=14% Similarity=0.165 Sum_probs=24.8
Q ss_pred HHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 74 KFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 74 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
+|++.|+++.+..|.+...+..+.++.++
T Consensus 26 ~l~~~G~~~vi~TgR~~~~~~~~~~~lg~ 54 (225)
T TIGR02461 26 ELKDLGFPIVFVSSKTRAEQEYYREELGV 54 (225)
T ss_pred HHHHCCCEEEEEeCCCHHHHHHHHHHcCC
Confidence 56678999999999998888888888775
No 286
>PRK09449 dUMP phosphatase; Provisional
Probab=45.27 E-value=1.2e+02 Score=22.03 Aligned_cols=63 Identities=8% Similarity=0.041 Sum_probs=39.7
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
++.++=+.|+ .|+++.|....+.+......+..++ +.|++..+.+..--.. ..+..++++.|+
T Consensus 99 g~~~~L~~L~-~~~~~~i~Tn~~~~~~~~~l~~~~l~~~fd~v~~~~~~~~~KP~p-~~~~~~~~~~~~ 165 (224)
T PRK09449 99 GAVELLNALR-GKVKMGIITNGFTELQQVRLERTGLRDYFDLLVISEQVGVAKPDV-AIFDYALEQMGN 165 (224)
T ss_pred cHHHHHHHHH-hCCeEEEEeCCcHHHHHHHHHhCChHHHcCEEEEECccCCCCCCH-HHHHHHHHHcCC
Confidence 4555666777 4789999888777776776776664 6777776653221122 255666666664
No 287
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=45.25 E-value=1e+02 Score=21.32 Aligned_cols=47 Identities=11% Similarity=0.143 Sum_probs=27.7
Q ss_pred HHHHHHHHHhcCCeEEEEE------CCh---hh----HHHHHHHHcCccEEEEeeecChh
Q psy9352 68 LADLDQKFRALGSRLYVVQ------GKP---EE----VFPDIFKTWNIKLLTWEYDIEPY 114 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~------g~~---~~----~l~~l~~~~~~~~v~~~~~~~~~ 114 (146)
+..|.+-+++.++..+|+= |.. .. ...+|.+.+++...++++.++..
T Consensus 43 ~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DEr~TT~ 102 (138)
T PRK00109 43 WDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDERLSTV 102 (138)
T ss_pred HHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCcCHH
Confidence 4555666666777776653 332 12 23333344578888888888753
No 288
>PRK10586 putative oxidoreductase; Provisional
Probab=45.17 E-value=1.4e+02 Score=24.21 Aligned_cols=46 Identities=20% Similarity=0.206 Sum_probs=25.9
Q ss_pred HHHHHHHHHHhcC-CeEEEEECCh-hh----HHHHHHHHcCccEEEEeeecC
Q psy9352 67 SLADLDQKFRALG-SRLYVVQGKP-EE----VFPDIFKTWNIKLLTWEYDIE 112 (146)
Q Consensus 67 sL~~L~~~L~~~g-~~L~v~~g~~-~~----~l~~l~~~~~~~~v~~~~~~~ 112 (146)
++.++-+-++++| .+.+++.|.. .+ .+.+..++.++..+.+..+.+
T Consensus 21 a~~~l~~~~~~~g~~~~lvv~g~~~~~~~~~~~~~~l~~~~~~~~~~~g~~~ 72 (362)
T PRK10586 21 SIDHLHDFFTDEQLSRAVWIYGERAIAAAQPYLPPAFELPGAKHILFRGHCS 72 (362)
T ss_pred HHHHHHHHHHhcCCCeEEEEEChHHHHHHHHHHHHHHHHcCCeEEEeCCCCC
Confidence 4666777777777 5666777632 22 233334555666655554444
No 289
>PRK10595 SOS cell division inhibitor; Provisional
Probab=44.83 E-value=29 Score=25.07 Aligned_cols=36 Identities=17% Similarity=0.365 Sum_probs=30.2
Q ss_pred ceEEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCC
Q psy9352 6 ECAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPH 49 (146)
Q Consensus 6 ~~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~ 49 (146)
..+|.|+...++.++-.-|..|++.++. ..|++.|.
T Consensus 108 ~aVL~Wlp~~l~~~~~RRLQlAAe~g~~--------l~fl~Rp~ 143 (164)
T PRK10595 108 SVVLGWLPDELTEEEHARLVDAAQEGNA--------MGFIMRPV 143 (164)
T ss_pred cEEEECCcccCCHHHHHHHHHHHHhCCC--------EEEEEeeh
Confidence 4789999889999999999999998876 56777764
No 290
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=44.66 E-value=1.4e+02 Score=22.89 Aligned_cols=69 Identities=17% Similarity=0.237 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+.+.+++.|..+.+... ++.. .+.. +...+++.|++...... +..+ +.+.+.||++..+
T Consensus 76 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~-~~~~~vdgiI~~~~~~~-----~~~~-~~l~~~~iPvV~~ 148 (331)
T PRK14987 76 QVFAEVLRGIESVTDAHGYQTMLAHYGYKPEMEQERLES-MLSWNIDGLILTERTHT-----PRTL-KMIEVAGIPVVEL 148 (331)
T ss_pred hhHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHH-HHhcCCCEEEEcCCCCC-----HHHH-HHHHhCCCCEEEE
Confidence 47778888899999999999887653 3322 2333 34578999888531111 2123 3345678998876
Q ss_pred c
Q psy9352 137 V 137 (146)
Q Consensus 137 ~ 137 (146)
+
T Consensus 149 ~ 149 (331)
T PRK14987 149 M 149 (331)
T ss_pred e
Confidence 4
No 291
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=44.63 E-value=1.2e+02 Score=24.03 Aligned_cols=73 Identities=26% Similarity=0.304 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEC--------ChhhHHHH-HHHHcCccEEEEeeecChhHHHH---HHHHHHHHHhCCC
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQG--------KPEEVFPD-IFKTWNIKLLTWEYDIEPYAKKR---DGLVEDMAKEYKV 131 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g--------~~~~~l~~-l~~~~~~~~v~~~~~~~~~~~~r---d~~v~~~~~~~~i 131 (146)
.+-++++=.+.|+++|++..+.-. ++.+-+.. |.++.+++.|++-.++.. +..+ -+.+++.+++.|+
T Consensus 68 ~l~t~eeR~~~l~~~gVD~~~~~~F~~~~~~ls~e~Fi~~~l~~~l~~~~iVvG~Df~F-G~~~~G~~~~L~~~~~~~g~ 146 (305)
T PRK05627 68 RLTPLRDKAELLAELGVDYVLVLPFDEEFAKLSAEEFIEDLLVKGLNAKHVVVGFDFRF-GKKRAGDFELLKEAGKEFGF 146 (305)
T ss_pred CCCCHHHHHHHHHHcCCCEEEEecCCHHHhcCCHHHHHHHHHHhccCCCEEEECCCCCC-CCCCCCCHHHHHHHHHHcCc
Confidence 344566667778889998766532 45555655 455689999999888853 1111 1357777778888
Q ss_pred eEEEec
Q psy9352 132 KVEQHV 137 (146)
Q Consensus 132 ~~~~~~ 137 (146)
.+..++
T Consensus 147 ~v~~v~ 152 (305)
T PRK05627 147 EVTIVP 152 (305)
T ss_pred EEEEec
Confidence 877654
No 292
>PTZ00372 endonuclease 4-like protein; Provisional
Probab=44.48 E-value=1.9e+02 Score=24.15 Aligned_cols=92 Identities=9% Similarity=0.139 Sum_probs=0.0
Q ss_pred HHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeE--EEEE-------CChhhHH
Q psy9352 23 ALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRL--YVVQ-------GKPEEVF 93 (146)
Q Consensus 23 aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L--~v~~-------g~~~~~l 93 (146)
|+..|.+.+.. .+-+|.=+|+.|....+++.. +..+++.+++.|+.+ ++.+ +.+.+.+
T Consensus 146 a~~~a~~~g~~------afqiF~~npr~w~~~~~~~~~-------~~~f~~~~~~~gi~~~~i~~HapYlINLASpd~e~ 212 (413)
T PTZ00372 146 SPINAYNIAGQ------AFALFLKNQRTWNSPPLSDET-------IDKFKENCKKYNYDPKFILPHGSYLINLANPDKEK 212 (413)
T ss_pred HHHHHHHcCCC------EEEEEcCCCccCCCCCCCHHH-------HHHHHHHHHHcCCCcceEEeecCceecCCCCCHHH
Q ss_pred HHH-----------HHHcCccEEEEeeecChhHHHHHHHHHHHHH
Q psy9352 94 PDI-----------FKTWNIKLLTWEYDIEPYAKKRDGLVEDMAK 127 (146)
Q Consensus 94 ~~l-----------~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~ 127 (146)
.+. |++.|+..|+++-.+......++..+....+
T Consensus 213 rekSv~~~~~eL~rA~~LGa~~VV~HPGs~~~~~~~ee~i~~i~e 257 (413)
T PTZ00372 213 REKSYDAFLDDLQRCEQLGIKLYNFHPGSTVGQCSKEEGIKNIAD 257 (413)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEECCCcCCCCCCHHHHHHHHHH
No 293
>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=44.44 E-value=1.4e+02 Score=24.97 Aligned_cols=61 Identities=21% Similarity=0.198 Sum_probs=40.5
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
...+.-+.|++.|+...++.|+.......++++.|+ +. ...|..+.+ .+++ +++.|-.+-.
T Consensus 351 ~~~~~i~~l~~~gi~~~~ltGD~~~~a~~ia~~lgi---~~--~~~p~~K~~--~v~~-l~~~g~~v~~ 411 (499)
T TIGR01494 351 DAKETISELREAGIRVIMLTGDNVLTAKAIAKELGI---FA--RVTPEEKAA--LVEA-LQKKGRVVAM 411 (499)
T ss_pred hHHHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCc---ee--ccCHHHHHH--HHHH-HHHCCCEEEE
Confidence 344555666778999999999999999999999986 33 345554432 3444 4556644433
No 294
>TIGR01684 viral_ppase viral phosphatase. These proteins also include an N-terminal domain (ca. 125 aas) that is unique to this clade.
Probab=44.42 E-value=1e+02 Score=24.50 Aligned_cols=46 Identities=7% Similarity=0.034 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc----EEEEeeec
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK----LLTWEYDI 111 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~----~v~~~~~~ 111 (146)
.++.++=++|++.|+.+.+..+...+......++.|+. .|+++.+.
T Consensus 149 PgV~EaL~~LkekGikLaIaTS~~Re~v~~~L~~lGLd~YFdvIIs~Gdv 198 (301)
T TIGR01684 149 PRIYDSLTELKKRGCILVLWSYGDRDHVVESMRKVKLDRYFDIIISGGHK 198 (301)
T ss_pred HHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHcCCCcccCEEEECCcc
Confidence 44455555666789999999977777777888888887 45555554
No 295
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=44.36 E-value=1.4e+02 Score=22.86 Aligned_cols=15 Identities=13% Similarity=0.401 Sum_probs=7.7
Q ss_pred HHHHHHHHcCccEEE
Q psy9352 92 VFPDIFKTWNIKLLT 106 (146)
Q Consensus 92 ~l~~l~~~~~~~~v~ 106 (146)
.+..|++.+|.+.+.
T Consensus 180 af~Y~~~~~gl~~~~ 194 (282)
T cd01017 180 AFGYLARRYGLKQIA 194 (282)
T ss_pred cHHHHHHHCCCeEEe
Confidence 344555555555443
No 296
>TIGR00060 L18_bact ribosomal protein L18, bacterial type. The archaeal and eukaryotic type rpL18 is not detectable under this model.
Probab=44.24 E-value=65 Score=21.78 Aligned_cols=41 Identities=15% Similarity=0.152 Sum_probs=29.0
Q ss_pred HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeE
Q psy9352 92 VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133 (146)
Q Consensus 92 ~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~ 133 (146)
.|.+-+.+.|++.|++++. ++-.--|-+.+.+.+++.|+.|
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 4555566789999999874 3333456668888888888864
No 297
>PLN02589 caffeoyl-CoA O-methyltransferase
Probab=43.94 E-value=1.4e+02 Score=22.89 Aligned_cols=59 Identities=14% Similarity=0.177 Sum_probs=37.2
Q ss_pred HHHHHhcC--CeEEEEECChhhHHHHHHHH----cCccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 72 DQKFRALG--SRLYVVQGKPEEVFPDIFKT----WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 72 ~~~L~~~g--~~L~v~~g~~~~~l~~l~~~----~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
++.+++.| -.+.++.|++.+.|++|..+ ...+-||...+-..|..--+ .+.+.++..|+
T Consensus 121 r~~~~~ag~~~~I~~~~G~a~e~L~~l~~~~~~~~~fD~iFiDadK~~Y~~y~~-~~l~ll~~GGv 185 (247)
T PLN02589 121 LPVIQKAGVAHKIDFREGPALPVLDQMIEDGKYHGTFDFIFVDADKDNYINYHK-RLIDLVKVGGV 185 (247)
T ss_pred HHHHHHCCCCCceEEEeccHHHHHHHHHhccccCCcccEEEecCCHHHhHHHHH-HHHHhcCCCeE
Confidence 33444555 45788899999999999864 36889999776544322222 33444544444
No 298
>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=43.73 E-value=1.7e+02 Score=23.56 Aligned_cols=68 Identities=13% Similarity=0.229 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChh-------hHHHHHHHHcCccEEEEee-ecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPE-------EVFPDIFKTWNIKLLTWEY-DIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~-------~~l~~l~~~~~~~~v~~~~-~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.++.+|.+.+++.|.+.+|+.|... +.+.+..++.+++..+++. ...|....-+ ...+.+++.++.+.
T Consensus 12 g~l~~l~~~~~~~g~r~livt~~~~~~~~g~~~~v~~~L~~~~~~~~~~~~v~~~p~~~~v~-~~~~~~~~~~~D~I 87 (380)
T cd08185 12 GKLNELGEEALKPGKKALIVTGNGSSKKTGYLDRVIELLKQAGVEVVVFDKVEPNPTTTTVM-EGAALAREEGCDFV 87 (380)
T ss_pred CHHHHHHHHHHhcCCeEEEEeCCCchhhccHHHHHHHHHHHcCCeEEEeCCccCCCCHHHHH-HHHHHHHHcCCCEE
Confidence 4566666677777777777765432 2334444555666554432 2223222222 34445555555444
No 299
>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=43.73 E-value=95 Score=20.57 Aligned_cols=19 Identities=26% Similarity=0.531 Sum_probs=12.8
Q ss_pred HHHHhcCCeEEEEECChhh
Q psy9352 73 QKFRALGSRLYVVQGKPEE 91 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~ 91 (146)
+.++++|+..+++..++..
T Consensus 19 ra~r~~Gi~tv~v~s~~d~ 37 (110)
T PF00289_consen 19 RALRELGIETVAVNSNPDT 37 (110)
T ss_dssp HHHHHTTSEEEEEEEGGGT
T ss_pred HHHHHhCCcceeccCchhc
Confidence 4566779988777655543
No 300
>COG1692 Calcineurin-like phosphoesterase [General function prediction only]
Probab=43.51 E-value=31 Score=26.79 Aligned_cols=44 Identities=16% Similarity=0.265 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChh-------hHHHHHHHHcCccEEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPE-------EVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~-------~~l~~l~~~~~~~~v~~~ 108 (146)
.-+.+-|..|++++ .+.+.|..|+-. +-+-+...++||+.|..-
T Consensus 16 ~~v~~~Lp~lk~ky---k~dfvI~N~ENaa~G~Git~k~y~~l~~~G~dviT~G 66 (266)
T COG1692 16 KAVKEHLPQLKSKY---KIDFVIVNGENAAGGFGITEKIYKELLEAGADVITLG 66 (266)
T ss_pred HHHHHHhHHHHHhh---cCcEEEEcCccccCCcCCCHHHHHHHHHhCCCEEecc
Confidence 45556666666654 367777654321 223334445677766653
No 301
>TIGR01686 FkbH FkbH-like domain. The C-terminal portion of this domain is unique to this family (by BLAST).
Probab=43.42 E-value=1.6e+02 Score=23.11 Aligned_cols=62 Identities=15% Similarity=0.252 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHH----cCc----cEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKT----WNI----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~----~~~----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.+.++.++=+.|++.|+.+-|...++.+...++.+. .+. +.+..+. .| .-..+.+++++.|+
T Consensus 32 ~~~~~~e~L~~L~~~Gi~lai~S~n~~~~a~~~l~~~~~~~~~~~~f~~~~~~~--~p----k~~~i~~~~~~l~i 101 (320)
T TIGR01686 32 LHKTLQEKIKTLKKQGFLLALASKNDEDDAKKVFERRKDFILQAEDFDARSINW--GP----KSESLRKIAKKLNL 101 (320)
T ss_pred cHHHHHHHHHHHHhCCCEEEEEcCCCHHHHHHHHHhCccccCcHHHeeEEEEec--Cc----hHHHHHHHHHHhCC
Confidence 467788888888889999999998887777777776 444 3333432 22 12257777777665
No 302
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=43.37 E-value=84 Score=19.84 Aligned_cols=38 Identities=13% Similarity=0.133 Sum_probs=24.6
Q ss_pred HHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 97 FKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 97 ~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
+++-.+..|+...+.++. .++ .+...|+..+|++..+.
T Consensus 20 Ik~gkakLViiA~Da~~~--~~k-~i~~~c~~~~Vpv~~~~ 57 (82)
T PRK13601 20 ITNCNVLQVYIAKDAEEH--VTK-KIKELCEEKSIKIVYID 57 (82)
T ss_pred HHcCCeeEEEEeCCCCHH--HHH-HHHHHHHhCCCCEEEeC
Confidence 344577778887777643 222 67777777888875443
No 303
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=43.19 E-value=90 Score=20.13 Aligned_cols=36 Identities=14% Similarity=0.240 Sum_probs=21.8
Q ss_pred HHHHHHHHHhcCCeEEEEECCh---hhHHHHHHHHcCcc
Q psy9352 68 LADLDQKFRALGSRLYVVQGKP---EEVFPDIFKTWNIK 103 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~---~~~l~~l~~~~~~~ 103 (146)
-.++=+.|++.|.++.++..++ .+.+.+-.+..|+.
T Consensus 19 a~e~l~~L~~~g~~~~~lTNns~~s~~~~~~~L~~~Gi~ 57 (101)
T PF13344_consen 19 AVEALDALRERGKPVVFLTNNSSRSREEYAKKLKKLGIP 57 (101)
T ss_dssp HHHHHHHHHHTTSEEEEEES-SSS-HHHHHHHHHHTTTT
T ss_pred HHHHHHHHHHcCCCEEEEeCCCCCCHHHHHHHHHhcCcC
Confidence 3444556777899999998443 23333334667765
No 304
>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=43.12 E-value=1.3e+02 Score=21.97 Aligned_cols=70 Identities=9% Similarity=0.064 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+-+..+++.+++.|..+.+... ++. +.+..+. +.+++.|++...... + .+.+.+++.|+++..+
T Consensus 12 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~~~-----~-~~~~~l~~~~ipvV~~ 84 (268)
T cd06298 12 SYFAELARGIDDIATMYKYNIILSNSDNDKEKELKVLNNLL-AKQVDGIIFMGGKIS-----E-EHREEFKRSPTPVVLA 84 (268)
T ss_pred hHHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHH-HhcCCEEEEeCCCCc-----H-HHHHHHhcCCCCEEEE
Confidence 35555566677778888999887754 333 2344433 578999987432111 1 2333455678999887
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 85 ~~ 86 (268)
T cd06298 85 GS 86 (268)
T ss_pred cc
Confidence 64
No 305
>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=42.97 E-value=1.3e+02 Score=22.06 Aligned_cols=76 Identities=7% Similarity=0.080 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+-+..+.+.+++.|..+.+... ++. +.+..+.. .+++.|++..............+.. +.+.|+++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~~~~~~~~~~~i~~-~~~~~ipvV~i 89 (273)
T cd06292 12 PIFPAFAEAIEAALAQYGYTVLLCNTYRGGVSEADYVEDLLA-RGVRGVVFISSLHADTHADHSHYER-LAERGLPVVLV 89 (273)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEEeCCCChHHHHHHHHHHHH-cCCCEEEEeCCCCCcccchhHHHHH-HHhCCCCEEEE
Confidence 36667778888888899999877653 222 33444444 5888888742111111111112333 45689999888
Q ss_pred cCC
Q psy9352 137 VSH 139 (146)
Q Consensus 137 ~~~ 139 (146)
+..
T Consensus 90 ~~~ 92 (273)
T cd06292 90 NGR 92 (273)
T ss_pred cCC
Confidence 653
No 306
>COG2262 HflX GTPases [General function prediction only]
Probab=42.93 E-value=1.2e+02 Score=25.21 Aligned_cols=64 Identities=22% Similarity=0.323 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHhcCCeEE---------------EEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHh
Q psy9352 64 LQQSLADLDQKFRALGSRLY---------------VVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKE 128 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~---------------v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~ 128 (146)
.-++|.+|..-.+..|.... |=.|.. +.|..+++..+|+.|+++.+-+|. +.| .+.+.+
T Consensus 18 ~~~~leEl~~La~tag~~v~~~~~q~r~~pdp~~~iG~GK~-eEi~~~v~~~~ad~VIf~~~LsP~-Q~~--NLe~~l-- 91 (411)
T COG2262 18 FEESLEELAELAETAGYEVVEVVTQKRERPDPKTYIGSGKL-EEIAEAVEETGADLVIFDHELSPS-QLR--NLEKEL-- 91 (411)
T ss_pred chhhHHHHHHHHHHcCCeEeeeEEEeccCCCcceecCcchH-HHHHHHHHhcCCCEEEECCcCCHH-HHH--HHHHHH--
Confidence 34677777777777776542 112333 567899999999999999999884 332 355544
Q ss_pred CCCeEE
Q psy9352 129 YKVKVE 134 (146)
Q Consensus 129 ~~i~~~ 134 (146)
|++|.
T Consensus 92 -~~kVI 96 (411)
T COG2262 92 -GVKVI 96 (411)
T ss_pred -CCEEE
Confidence 56553
No 307
>TIGR01482 SPP-subfamily Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP.
Probab=42.81 E-value=82 Score=22.79 Aligned_cols=30 Identities=17% Similarity=0.225 Sum_probs=25.0
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
+.|++.|+.+.+..|.+...+..+.++++.
T Consensus 25 ~~l~~~Gi~~~~aTGR~~~~~~~~~~~l~~ 54 (225)
T TIGR01482 25 RKAESVGIPVVLVTGNSVQFARALAKLIGT 54 (225)
T ss_pred HHHHHCCCEEEEEcCCchHHHHHHHHHhCC
Confidence 445678999999999999888888888774
No 308
>TIGR02247 HAD-1A3-hyp Epoxide hydrolase N-terminal domain-like phosphatase. These appear to be members of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases by general homology and the conservation of all of the recognized catalytic motifs (although the first motif is unusual in the replacement of the more common aspartate with glycine...). The variable domain is found in between motifs 1 and 2, indicating membership in subfamily I and phylogeny and prediction of the alpha helical nature of the variable domain (by PSI-PRED) indicate membership in subfamily IA.
Probab=42.74 E-value=82 Score=22.65 Aligned_cols=25 Identities=16% Similarity=0.167 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECCh
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKP 89 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~ 89 (146)
..++.++=+.|++.|+++.|+...+
T Consensus 96 ~~~~~~~L~~L~~~g~~l~i~Sn~~ 120 (211)
T TIGR02247 96 RPSMMAAIKTLRAKGFKTACITNNF 120 (211)
T ss_pred ChhHHHHHHHHHHCCCeEEEEeCCC
Confidence 4556677778888999999998654
No 309
>TIGR01990 bPGM beta-phosphoglucomutase. The enzyme from L. lactis has been extensively characterized including a remarkable crystal structure which traps the pentacoordinate transition state.
Probab=42.72 E-value=1.1e+02 Score=21.17 Aligned_cols=63 Identities=8% Similarity=0.161 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcC----ccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWN----IKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~----~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.++.++=+.|++.|+.+.|..+.... ..+.+..+ ++.++...+.+..--..+ .+..++++.++
T Consensus 90 pg~~~~L~~L~~~g~~~~i~s~~~~~--~~~l~~~~l~~~f~~~~~~~~~~~~kp~p~-~~~~~~~~~~~ 156 (185)
T TIGR01990 90 PGIKNLLDDLKKNNIKIALASASKNA--PTVLEKLGLIDYFDAIVDPAEIKKGKPDPE-IFLAAAEGLGV 156 (185)
T ss_pred ccHHHHHHHHHHCCCeEEEEeCCccH--HHHHHhcCcHhhCcEEEehhhcCCCCCChH-HHHHHHHHcCC
Confidence 34555566788889999988754321 34455555 455555444322111222 55666666665
No 310
>PRK10343 RNA-binding protein YhbY; Provisional
Probab=42.71 E-value=96 Score=20.33 Aligned_cols=68 Identities=21% Similarity=0.269 Sum_probs=38.9
Q ss_pred HHHHHhcCCeE--EEEE---CChhhHHHHHHHHcCcc---EEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeee
Q psy9352 72 DQKFRALGSRL--YVVQ---GKPEEVFPDIFKTWNIK---LLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLY 142 (146)
Q Consensus 72 ~~~L~~~g~~L--~v~~---g~~~~~l~~l~~~~~~~---~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~ 142 (146)
++.|+.++..| .|.- |=...++.++-+..... .|=+... ++ ..+...+.++++..|..+.+.=|++++
T Consensus 8 r~~LR~~ah~l~Pvv~IGk~Glt~~vi~ei~~aL~~hELIKvkv~~~-~~--~~~~e~~~~i~~~~~ae~Vq~IG~~~v 83 (97)
T PRK10343 8 KQHLKGLAHPLKPVVLLGSNGLTEGVLAEIEQALEHHELIKVKIATE-DR--ETKTLIVEAIVRETGACNVQVIGKTLV 83 (97)
T ss_pred HHHHHHhcCCCCCeEEECCCCCCHHHHHHHHHHHHHCCcEEEEecCC-Ch--hHHHHHHHHHHHHHCCEEEeeeCcEEE
Confidence 34556665555 3333 44556666665554333 3333221 22 234547777888889999999888653
No 311
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=42.69 E-value=1.8e+02 Score=23.42 Aligned_cols=105 Identities=12% Similarity=0.083 Sum_probs=65.8
Q ss_pred HHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECCh-------------
Q psy9352 23 ALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKP------------- 89 (146)
Q Consensus 23 aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~------------- 89 (146)
....|+++++ .+-+|+..+..... ++ .-|..-+.+++.+|..----.|++.+|-+..-
T Consensus 164 LVEqAaaqcD-------wlHLFvV~eD~S~f-~y-~~R~~Lv~~G~~~l~Nvt~HsgsdYiISrATFP~YFiKeq~vv~~ 234 (352)
T COG3053 164 LVEQAAAQCD-------WLHLFVVKEDSSLF-PY-EDRLDLVKKGTADLPNVTVHSGSDYIISRATFPAYFIKEQSVVND 234 (352)
T ss_pred HHHHHHhhCC-------EEEEEEEecccccC-CH-HHHHHHHHHhhccCCceEEecCCCeEEEecccchhhhhhHHHHHH
Confidence 3456666654 66777776543222 22 35778999999998876555688877754221
Q ss_pred ------hhHHHH-HHHHcCccEEEEeeec-ChhHHHHHHHHHHHHHhCC-----CeEEEe
Q psy9352 90 ------EEVFPD-IFKTWNIKLLTWEYDI-EPYAKKRDGLVEDMAKEYK-----VKVEQH 136 (146)
Q Consensus 90 ------~~~l~~-l~~~~~~~~v~~~~~~-~~~~~~rd~~v~~~~~~~~-----i~~~~~ 136 (146)
..+|.+ ++...||++-|...++ ++-...=.+..+.++.+++ |.+...
T Consensus 235 s~t~iDl~iFr~~iA~aLgIThRfVG~EP~c~vT~~YNq~M~~~L~~~~~~~p~I~vvei 294 (352)
T COG3053 235 SQTEIDLKIFRKYIAPALGITHRFVGTEPFCRVTAIYNQQMRYWLEDPTISAPPIEVVEI 294 (352)
T ss_pred HHHHHHHHHHHHHHHHHhCcceeeecCCCCcHHHHHHHHHHHHHHhccCCCCCceEEEEe
Confidence 124555 6777899999997665 2322233345777777765 666544
No 312
>TIGR02254 YjjG/YfnB HAD superfamily (subfamily IA) hydrolase, TIGR02254. 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). Most likely, these enzymes are phosphatases.
Probab=42.63 E-value=98 Score=22.23 Aligned_cols=45 Identities=16% Similarity=0.141 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc----cEEEEeeec
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI----KLLTWEYDI 111 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~v~~~~~~ 111 (146)
.+..++=+.|++. ..+.++.+.+.+.+....++.++ +.|+...+.
T Consensus 100 ~g~~~~L~~l~~~-~~~~i~Sn~~~~~~~~~l~~~~l~~~fd~i~~~~~~ 148 (224)
T TIGR02254 100 PGAFELMENLQQK-FRLYIVTNGVRETQYKRLRKSGLFPFFDDIFVSEDA 148 (224)
T ss_pred ccHHHHHHHHHhc-CcEEEEeCCchHHHHHHHHHCCcHhhcCEEEEcCcc
Confidence 4556666777777 89999998887777777777765 677766553
No 313
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=42.46 E-value=1.8e+02 Score=23.54 Aligned_cols=69 Identities=16% Similarity=0.145 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHhcC-CeEEEEECCh------hhHHHHHHHHcCccEEEEeee-cChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 66 QSLADLDQKFRALG-SRLYVVQGKP------EEVFPDIFKTWNIKLLTWEYD-IEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 66 ~sL~~L~~~L~~~g-~~L~v~~g~~------~~~l~~l~~~~~~~~v~~~~~-~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
.++.+|.+.++++| ....|+.|.. .+.+.+..++.+++..+++.. ..|..-.-+ ...+.+++.++.+..
T Consensus 17 g~~~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~v~~np~~~~v~-~~~~~~~~~~~D~Ii 93 (383)
T PRK09860 17 DSLTDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDGTQPNPTTENVA-AGLKLLKENNCDSVI 93 (383)
T ss_pred CHHHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHH-HHHHHHHHcCCCEEE
Confidence 46677777777777 3555555431 123444445567766555532 223222333 344555556655443
No 314
>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=42.10 E-value=1.1e+02 Score=20.69 Aligned_cols=64 Identities=13% Similarity=0.170 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc---CccEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW---NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~---~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
.++.++=+.|++.|+++.+..+.+.+....+.+.. -.+.|++..+.. .+-.-..+..++++.|+
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 45777777888889999999877666555555442 235566655443 11112366677777666
No 315
>PF02879 PGM_PMM_II: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II; InterPro: IPR005845 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain II found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 2F7L_A 3PDK_B 1KFQ_B 1KFI_A 1C47_A 1VKL_B 1LXT_A 1JDY_B 3PMG_A 1C4G_B ....
Probab=41.97 E-value=91 Score=19.88 Aligned_cols=41 Identities=15% Similarity=0.415 Sum_probs=30.5
Q ss_pred HHHHhcCCeEEEEE--CChhhHHHHHHHHcCccEEEEeeecCh
Q psy9352 73 QKFRALGSRLYVVQ--GKPEEVFPDIFKTWNIKLLTWEYDIEP 113 (146)
Q Consensus 73 ~~L~~~g~~L~v~~--g~~~~~l~~l~~~~~~~~v~~~~~~~~ 113 (146)
..+++.+.++.|-. |.....++.+++..+++.+..|....+
T Consensus 15 ~~~~~~~~kivvD~~~G~~~~~~~~ll~~lg~~~~~~n~~~d~ 57 (104)
T PF02879_consen 15 EAIKKSGLKIVVDCMNGAGSDILPRLLERLGCDVIELNCDPDP 57 (104)
T ss_dssp HHHHHTTCEEEEE-TTSTTHHHHHHHHHHTTCEEEEESSS-ST
T ss_pred hhcccCCCEEEEECCCCHHHHHHHHHHHHcCCcEEEEeccccc
Confidence 44566777777654 788899999999999988887776543
No 316
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=41.93 E-value=1.1e+02 Score=24.69 Aligned_cols=68 Identities=9% Similarity=-0.048 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc-------CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW-------NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-------~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
|+.+-+..+|.+.|++..++...... .++.+. |++.|..|-+.- .+-=--.+.-+++.+||+|+..-.
T Consensus 183 qG~rlta~eL~~~GI~vtlI~Dsa~~---~~M~~~~Vd~VivGAd~I~aNG~v~--NKiGT~~lAl~Ak~~~VPfyV~a~ 257 (329)
T PRK06371 183 QGARLTAWELAQEGIDHAIIADNAAG---YFMRKKEIDLVIVGADRIASNGDFA--NKIGTYEKAVLAKVNGIPFYVAAP 257 (329)
T ss_pred hHHHHHHHHHHHCCCCEEEEcccHHH---HHhhhcCCCEEEECccEEecCCCEe--ehhhHHHHHHHHHHcCCCEEEecc
Confidence 44444578888899999988766554 344433 445555544331 111111466667889999998654
No 317
>COG0742 N6-adenine-specific methylase [DNA replication, recombination, and repair]
Probab=41.92 E-value=1.1e+02 Score=22.49 Aligned_cols=48 Identities=13% Similarity=0.175 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHhcC--CeEEEEECChhhHHHHHHHHcCccEEEEeeecCh
Q psy9352 66 QSLADLDQKFRALG--SRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEP 113 (146)
Q Consensus 66 ~sL~~L~~~L~~~g--~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~ 113 (146)
++..-++++++.+| ....++.++....++++......+-||..-.|..
T Consensus 77 ~a~~~l~~N~~~l~~~~~~~~~~~da~~~L~~~~~~~~FDlVflDPPy~~ 126 (187)
T COG0742 77 KAVKILKENLKALGLEGEARVLRNDALRALKQLGTREPFDLVFLDPPYAK 126 (187)
T ss_pred HHHHHHHHHHHHhCCccceEEEeecHHHHHHhcCCCCcccEEEeCCCCcc
Confidence 34556666677777 6778888998888888877766888999766653
No 318
>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=41.88 E-value=1.6e+02 Score=22.74 Aligned_cols=73 Identities=15% Similarity=0.074 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHhcCCeE---EEEECChhhHHHHHHHHcCccEEEEe---eecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 63 FLQQSLADLDQKFRALGSRL---YVVQGKPEEVFPDIFKTWNIKLLTWE---YDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L---~v~~g~~~~~l~~l~~~~~~~~v~~~---~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
=+.+.|.+|.+.+++.-.++ .++...+ .+..|++.+|.+.+... .+-+|-..+ -..+.+.+++.+|++..+
T Consensus 158 ~~~~~L~~l~~~~~~~~~~~~~~~~v~~H~--af~Yl~~~~gl~~~~~~~~~~~~eps~~~-l~~l~~~ik~~~v~~If~ 234 (286)
T cd01019 158 AFNARLAELDATIKERLAPVKTKPFFVFHD--AYGYFEKRYGLTQAGVFTIDPEIDPGAKR-LAKIRKEIKEKGATCVFA 234 (286)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCeEEEecc--cHHHHHHHcCCceeeeecCCCCCCCCHHH-HHHHHHHHHHcCCcEEEe
Confidence 34455666666555431111 1222222 46677777777655432 122222222 225666666677777655
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 235 e~ 236 (286)
T cd01019 235 EP 236 (286)
T ss_pred cC
Confidence 43
No 319
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=41.79 E-value=74 Score=18.78 Aligned_cols=55 Identities=13% Similarity=0.056 Sum_probs=34.7
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhH-HHHHHHHHHHHH
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYA-KKRDGLVEDMAK 127 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~-~~rd~~v~~~~~ 127 (146)
+...|.+-|++.|+++...... .+.+. ..+.+-|+.+......+ .+.+ .+.++.+
T Consensus 6 G~~a~~~~L~~~g~~v~~~~~~-~~~l~----~~~~tll~i~~~~~~~~~~~~~-~l~~~v~ 61 (70)
T PF14258_consen 6 GTYALYQLLEEQGVKVERWRKP-YEALE----ADDGTLLVIGPDLRLSEPEEAE-ALLEWVE 61 (70)
T ss_pred HHHHHHHHHHHCCCeeEEeccc-HHHhC----CCCCEEEEEeCCCCCCchHHHH-HHHHHHH
Confidence 4667888899999999776663 34333 35667777776644332 3333 6666665
No 320
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=41.71 E-value=1e+02 Score=20.44 Aligned_cols=36 Identities=22% Similarity=0.206 Sum_probs=23.5
Q ss_pred HHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 98 KTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 98 ~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
++-.+..|+...+.++. .+. .+...|+..+|+++.|
T Consensus 38 k~gkaklViiA~D~~~~--~kk-ki~~~~~~~~Vpv~~~ 73 (108)
T PTZ00106 38 RNGKAKLVIISNNCPPI--RRS-EIEYYAMLSKTGVHHY 73 (108)
T ss_pred HcCCeeEEEEeCCCCHH--HHH-HHHHHHhhcCCCEEEe
Confidence 33567777777777643 222 5777777778887765
No 321
>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=41.67 E-value=1.6e+02 Score=22.54 Aligned_cols=70 Identities=7% Similarity=0.069 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--hhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--PEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|+.+-+..+++.+++.|..+.+...+ +.. .+.. ....+++.|++...... + .+.+.+.+.|+++..+
T Consensus 72 ~f~~~l~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~-l~~~~vdGiIi~~~~~~-----~-~~~~~l~~~~iPvV~~ 144 (329)
T TIGR01481 72 IYYAELARGIEDIATMYKYNIILSNSDEDPEKEVQVLNT-LLSKQVDGIIFMGGTIT-----E-KLREEFSRSPVPVVLA 144 (329)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHH-HHhCCCCEEEEeCCCCC-----h-HHHHHHHhcCCCEEEE
Confidence 366667777888899999999887543 222 2223 34468898887432111 1 2334455678988877
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 145 ~~ 146 (329)
T TIGR01481 145 GT 146 (329)
T ss_pred ec
Confidence 64
No 322
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=41.67 E-value=1.2e+02 Score=20.97 Aligned_cols=59 Identities=12% Similarity=-0.035 Sum_probs=40.8
Q ss_pred HHHHHHHhcCCeEEEEE-CChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhC
Q psy9352 70 DLDQKFRALGSRLYVVQ-GKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEY 129 (146)
Q Consensus 70 ~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~ 129 (146)
-+..-|+..|...+.+- ..|.+.|.+.+.+.+++.|..+.-.+.....-. .+.+.+++.
T Consensus 22 iv~~~lr~~G~eVi~LG~~vp~e~i~~~a~~~~~d~V~lS~~~~~~~~~~~-~~~~~L~~~ 81 (137)
T PRK02261 22 ILDRALTEAGFEVINLGVMTSQEEFIDAAIETDADAILVSSLYGHGEIDCR-GLREKCIEA 81 (137)
T ss_pred HHHHHHHHCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcCccccCHHHHH-HHHHHHHhc
Confidence 34456777888876654 567788899999999999999876655444333 444555555
No 323
>PRK00192 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=41.60 E-value=91 Score=23.71 Aligned_cols=34 Identities=9% Similarity=0.060 Sum_probs=27.2
Q ss_pred HHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 70 DLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 70 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
+.-+.|++.|+.+.+..|.+...+..++++.+.+
T Consensus 28 ~ai~~l~~~Gi~~~iaTgR~~~~~~~~~~~l~l~ 61 (273)
T PRK00192 28 PALKALKEKGIPVIPCTSKTAAEVEVLRKELGLE 61 (273)
T ss_pred HHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 3344566789999999999988888899888754
No 324
>KOG4498|consensus
Probab=41.53 E-value=57 Score=24.22 Aligned_cols=54 Identities=20% Similarity=0.179 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHH-cCccEEEEeeecChh
Q psy9352 61 WRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKT-WNIKLLTWEYDIEPY 114 (146)
Q Consensus 61 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~-~~~~~v~~~~~~~~~ 114 (146)
.++..+.|.+++.=|+++|+.|+.+--.....+..+..+ +....||...+-+.|
T Consensus 66 CR~~aadLa~l~~~ld~~Gv~Li~vg~g~~~~~~~f~~q~~f~gevylD~~~~~Y 120 (197)
T KOG4498|consen 66 CREEAADLASLKDLLDELGVVLIAVGPGSHVQFEDFWDQTYFSGEVYLDPHRGFY 120 (197)
T ss_pred eHHHHHHHHHHHHHHHHhCCEEEEEeccceeecchhhcccCcceeEEEcCcccee
Confidence 457789999998889999999987753223344555554 567799998775443
No 325
>KOG2014|consensus
Probab=41.42 E-value=63 Score=25.87 Aligned_cols=76 Identities=16% Similarity=0.192 Sum_probs=48.0
Q ss_pred CChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 56 VGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 56 ~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
.|..|+..-++.+.+|+.. +.+.+..++..+.=.++..+ .+.|+++. . .+++-..+...|++.+|+|+.
T Consensus 82 vg~~raeas~erl~~LNPm-----V~v~~d~edl~ek~eeff~q--FdlVV~~~--~--s~e~~~kvn~icrk~~i~F~a 150 (331)
T KOG2014|consen 82 VGQTRAEASLERLQDLNPM-----VDVSVDKEDLSEKDEEFFTQ--FDLVVATD--Q--SREEKCKVNEICRKLNIAFYA 150 (331)
T ss_pred hchHHHHHHHHHHHhcCCc-----eEEEechhhhhhcchhhhhc--eeEEEEec--c--chhhhhhHHHHHHhcCceEEe
Confidence 4556666666666666543 55666655554443455554 67787753 2 223344788889999999998
Q ss_pred ecCCeee
Q psy9352 136 HVSHTLY 142 (146)
Q Consensus 136 ~~~~~L~ 142 (146)
.+-..++
T Consensus 151 ~d~~g~~ 157 (331)
T KOG2014|consen 151 GDCFGLC 157 (331)
T ss_pred cccccee
Confidence 8766554
No 326
>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=41.30 E-value=1.4e+02 Score=21.77 Aligned_cols=70 Identities=13% Similarity=0.168 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--h---hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--P---EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~---~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+-+..+.+.+++.|..+.+...+ + .+.+..+. ..+++.|++...... + ...+.+.+.|+++..+
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 355666778889999999998887542 2 23344443 467898887542221 1 2333455678988877
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 85 ~~ 86 (268)
T cd01575 85 MD 86 (268)
T ss_pred ec
Confidence 54
No 327
>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=41.25 E-value=1.6e+02 Score=22.59 Aligned_cols=71 Identities=15% Similarity=0.197 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHH------H----HHHH---HHHHhCCCe
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKR------D----GLVE---DMAKEYKVK 132 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~r------d----~~v~---~~~~~~~i~ 132 (146)
+.|.+.-+.|++.||...++-....+.+ +.+++.|++.|=. +.++|.... + +.+. +.+.+.|+.
T Consensus 111 ~~l~~~i~~L~~~gIrvSLFiDP~~~qi-~~A~~~Gad~VEL--hTG~yA~a~~~~~~~~~ell~~l~~aa~~a~~lGL~ 187 (239)
T PF03740_consen 111 DRLKPVIKRLKDAGIRVSLFIDPDPEQI-EAAKELGADRVEL--HTGPYANAFDDAEEAEEELLERLRDAARYAHELGLG 187 (239)
T ss_dssp HHHHHHHHHHHHTT-EEEEEE-S-HHHH-HHHHHTT-SEEEE--ETHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHTT-E
T ss_pred HHHHHHHHHHHhCCCEEEEEeCCCHHHH-HHHHHcCCCEEEE--ehhHhhhhcCCHHHHHHHHHHHHHHHHHHHHHcCCE
Confidence 6677777888889999988876555554 7888899998765 233332111 1 1122 223458888
Q ss_pred EEEecCC
Q psy9352 133 VEQHVSH 139 (146)
Q Consensus 133 ~~~~~~~ 139 (146)
|..-+|=
T Consensus 188 VnAGHgL 194 (239)
T PF03740_consen 188 VNAGHGL 194 (239)
T ss_dssp EEEETT-
T ss_pred EecCCCC
Confidence 8876653
No 328
>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=41.14 E-value=57 Score=20.48 Aligned_cols=48 Identities=6% Similarity=-0.004 Sum_probs=26.6
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCee
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTL 141 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L 141 (146)
....++.++.++.--..+- ......++ .+.+.-....++...+++..+
T Consensus 27 ~~ak~~L~~~~i~y~~idv--~~~~~~~~-~l~~~~g~~tvP~vfi~g~~i 74 (90)
T cd03028 27 RKVVQILNQLGVDFGTFDI--LEDEEVRQ-GLKEYSNWPTFPQLYVNGELV 74 (90)
T ss_pred HHHHHHHHHcCCCeEEEEc--CCCHHHHH-HHHHHhCCCCCCEEEECCEEE
Confidence 4567788888886555443 22222222 444443345678877776654
No 329
>PRK15045 cellulose biosynthesis protein BcsE; Provisional
Probab=41.14 E-value=2.2e+02 Score=24.51 Aligned_cols=72 Identities=13% Similarity=0.184 Sum_probs=42.2
Q ss_pred CcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeE--EEEECChh--hHH
Q psy9352 18 LHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRL--YVVQGKPE--EVF 93 (146)
Q Consensus 18 l~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L--~v~~g~~~--~~l 93 (146)
++||.+|..++..+.. .-.||-+.. .....=|...+..|+++ +|..| +|++-.+. -.-
T Consensus 244 ~~dN~~L~~~a~~a~A------ATvVfs~~~---------~~qle~LA~qih~LRRq---~G~aLKIvVRE~~~~LR~~D 305 (519)
T PRK15045 244 FNNNEVLFNEARTAQA------ATVVFSLQQ---------NAQIEPLARSIHTLRRQ---RGSAMKILVRENTASLRATD 305 (519)
T ss_pred eCCHHHHHHhhcccce------eEEEEEcCC---------chHHHHHHHHHHHHHHh---cCccceEEEEechhHHHHHH
Confidence 4799999999987655 455665543 23444555556666654 56555 33333222 123
Q ss_pred HHHHHHcCccEEEE
Q psy9352 94 PDIFKTWNIKLLTW 107 (146)
Q Consensus 94 ~~l~~~~~~~~v~~ 107 (146)
..|.-..||+-|+-
T Consensus 306 E~LLL~~GaNlIvp 319 (519)
T PRK15045 306 ERLLLGCGANMVIP 319 (519)
T ss_pred HHHHHhcCCcEEec
Confidence 45666678877775
No 330
>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=40.89 E-value=1.3e+02 Score=21.29 Aligned_cols=70 Identities=14% Similarity=0.129 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHh--cCCeEEEEECC-----hhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 63 FLQQSLADLDQKFRA--LGSRLYVVQGK-----PEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~--~g~~L~v~~g~-----~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
|..+.+..++..+++ .|+.+.+.... ..+.+.+++.+ +++.|+..-... . . . .+.+.+++.++++..
T Consensus 14 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~--~-~-~-~~~~~~~~~~ip~v~ 87 (269)
T cd01391 14 FGAQLLAGIELAAEEIGRGLEVILADSQSDPERALEALRDLIQQ-GVDGIIGPPSSS--S-A-L-AVVELAAAAGIPVVS 87 (269)
T ss_pred HHHHHHHHHHHHHHHhCCceEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEecCCCH--H-H-H-HHHHHHHHcCCcEEE
Confidence 555556666666777 78888777542 22345555544 788888743221 1 1 1 255566778999888
Q ss_pred ecC
Q psy9352 136 HVS 138 (146)
Q Consensus 136 ~~~ 138 (146)
+..
T Consensus 88 ~~~ 90 (269)
T cd01391 88 LDA 90 (269)
T ss_pred ecC
Confidence 754
No 331
>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=40.86 E-value=1.6e+02 Score=22.37 Aligned_cols=60 Identities=17% Similarity=0.141 Sum_probs=39.5
Q ss_pred hHHHHHHHHHHHHHHHHhcCCeEEEE-ECC----hhhHHHHHHHHcCccEEEEe--eecChhHHHHH
Q psy9352 60 RWRFLQQSLADLDQKFRALGSRLYVV-QGK----PEEVFPDIFKTWNIKLLTWE--YDIEPYAKKRD 119 (146)
Q Consensus 60 r~~Fl~~sL~~L~~~L~~~g~~L~v~-~g~----~~~~l~~l~~~~~~~~v~~~--~~~~~~~~~rd 119 (146)
+..=+...|.+|+..|.+.|++++|+ +|- -..++..|+...+...+-+. ..++..|..++
T Consensus 10 ~l~~L~~~L~~lQ~~l~~~~~~vlIv~eG~DaAGKg~~I~~l~~~lDPRg~~v~~~~~pt~eE~~~p 76 (230)
T TIGR03707 10 ELERLQIELVKLQAWVKETGARVVIVFEGRDAAGKGGTIKRITEHLNPRGARVVALPKPSDRERTQW 76 (230)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCCchHHHHHHHHhcCCCeeEEEeCCCCCHHHHcCh
Confidence 44556778999999999999998665 432 22577888887765444433 33444555555
No 332
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=40.81 E-value=1.1e+02 Score=20.66 Aligned_cols=37 Identities=16% Similarity=0.086 Sum_probs=18.6
Q ss_pred HHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 98 KTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 98 ~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
++-.+.-|+...+.+|.+... .+..+|+..+|++..+
T Consensus 43 kkgkakLVilA~D~s~~~i~~--~~~~lc~~~~Vp~~~~ 79 (122)
T PRK04175 43 ERGIAKLVVIAEDVDPEEIVA--HLPLLCEEKKIPYVYV 79 (122)
T ss_pred HcCCccEEEEeCCCChHHHHH--HHHHHHHHcCCCEEEE
Confidence 334455566655555432211 3555555666665444
No 333
>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=40.81 E-value=1.5e+02 Score=21.93 Aligned_cols=73 Identities=15% Similarity=0.051 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHhc-----CCeEEEEEC--Chhh--HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCe
Q psy9352 62 RFLQQSLADLDQKFRAL-----GSRLYVVQG--KPEE--VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~-----g~~L~v~~g--~~~~--~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~ 132 (146)
.|+.+-+..+++.++++ |..+.+..+ ++.. .+.+.+...+++.|++... .+.. -+..+.+ +.+.||+
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 36666666777777775 677777654 2321 2223233457888887532 2211 1223444 4568999
Q ss_pred EEEecC
Q psy9352 133 VEQHVS 138 (146)
Q Consensus 133 ~~~~~~ 138 (146)
+..++.
T Consensus 88 vV~~d~ 93 (274)
T cd06311 88 VVVVDR 93 (274)
T ss_pred EEEEcC
Confidence 998864
No 334
>PRK14976 5'-3' exonuclease; Provisional
Probab=40.56 E-value=98 Score=24.16 Aligned_cols=49 Identities=18% Similarity=0.287 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEC-ChhhHHHHHHHHc---CccEEEEeeec
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQG-KPEEVFPDIFKTW---NIKLLTWEYDI 111 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~---~~~~v~~~~~~ 111 (146)
-+.+.+..+++-|+..|++.+...| ++.+++..++.+. +...++++.|.
T Consensus 87 ~l~~q~~~i~~~l~~~gi~~~~~~g~EADDviatla~~~~~~g~~v~IvS~Dk 139 (281)
T PRK14976 87 SLISQIPLLKKILKLAGIKWEEQPGYEADDLIGSLAKKLSKQNITVLIYSSDK 139 (281)
T ss_pred HHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHCCCeEEEEeCCC
Confidence 4556788888889999999999987 7888888887763 44555665554
No 335
>COG0626 MetC Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=40.49 E-value=1e+02 Score=25.51 Aligned_cols=69 Identities=22% Similarity=0.250 Sum_probs=37.4
Q ss_pred HHHHHHhcCCeEEEEEC-ChhhHHHHHHHHcCccEEEEeeecChhHHHHH-HHHHHHHHhCCCeEEEecCCeee
Q psy9352 71 LDQKFRALGSRLYVVQG-KPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRD-GLVEDMAKEYKVKVEQHVSHTLY 142 (146)
Q Consensus 71 L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd-~~v~~~~~~~~i~~~~~~~~~L~ 142 (146)
+..-|++.|+....... +..+.+..+.. -+.+.||++....|.-.-.| ..+.+++++.| +..+-|||..
T Consensus 119 ~~~~l~~~gi~~~~~d~~~~~~~~~~~~~-~~tk~v~lEtPsNP~l~v~DI~~i~~~A~~~g--~~vvVDNTfa 189 (396)
T COG0626 119 FEKILQKFGVEVTFVDPGDDEALEAAIKE-PNTKLVFLETPSNPLLEVPDIPAIARLAKAYG--ALVVVDNTFA 189 (396)
T ss_pred HHHHHHhcCeEEEEECCCChHHHHHHhcc-cCceEEEEeCCCCcccccccHHHHHHHHHhcC--CEEEEECCcc
Confidence 44455667888876654 34344444433 35666777655444433222 46677777777 3344445443
No 336
>PRK11579 putative oxidoreductase; Provisional
Probab=40.34 E-value=1.7e+02 Score=23.17 Aligned_cols=66 Identities=12% Similarity=0.097 Sum_probs=36.8
Q ss_pred HHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc-cEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI-KLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~-~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
.++++-|+.-+++.+++...+..-.+-..+...+ .+|++++.......+-+ .+.+++++.|+.+..
T Consensus 54 ~~~~ell~~~~vD~V~I~tp~~~H~~~~~~al~aGkhVl~EKPla~t~~ea~-~l~~~a~~~g~~l~v 120 (346)
T PRK11579 54 SEPQHLFNDPNIDLIVIPTPNDTHFPLAKAALEAGKHVVVDKPFTVTLSQAR-ELDALAKSAGRVLSV 120 (346)
T ss_pred CCHHHHhcCCCCCEEEEcCCcHHHHHHHHHHHHCCCeEEEeCCCCCCHHHHH-HHHHHHHHhCCEEEE
Confidence 3455555556777777765444332222222222 67888887765444433 566677777776543
No 337
>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=40.34 E-value=1.2e+02 Score=20.83 Aligned_cols=51 Identities=14% Similarity=0.218 Sum_probs=27.9
Q ss_pred ChhhHHHHHHHHcCccEEEEeeecC------hhHHHHHHHHHHHHHhC-CCeEEEecC
Q psy9352 88 KPEEVFPDIFKTWNIKLLTWEYDIE------PYAKKRDGLVEDMAKEY-KVKVEQHVS 138 (146)
Q Consensus 88 ~~~~~l~~l~~~~~~~~v~~~~~~~------~~~~~rd~~v~~~~~~~-~i~~~~~~~ 138 (146)
...+.|.+++++++++.+++--... +-...-.+...++.+.. +++++.++-
T Consensus 38 ~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~ipV~~~DE 95 (135)
T PF03652_consen 38 KDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPGIPVILVDE 95 (135)
T ss_dssp CCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-TSEEEEEEC
T ss_pred hHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCCCcEEEECC
Confidence 4556777888888888887755432 11222222222222332 778777664
No 338
>PRK11009 aphA acid phosphatase/phosphotransferase; Provisional
Probab=40.34 E-value=1.6e+02 Score=22.34 Aligned_cols=36 Identities=19% Similarity=0.339 Sum_probs=28.8
Q ss_pred HHHHHHHHHHhcCCeEEEEECC----hhhHHHHHHHHcCc
Q psy9352 67 SLADLDQKFRALGSRLYVVQGK----PEEVFPDIFKTWNI 102 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~----~~~~l~~l~~~~~~ 102 (146)
+..++=+.|+++|+.+.++.+. .......|.+.+++
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 4788888899999999999984 34566777777888
No 339
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=40.31 E-value=1.5e+02 Score=22.87 Aligned_cols=68 Identities=7% Similarity=-0.016 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHH-----cCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKT-----WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~-----~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
|+ ..+.++|.+.|++..++...... .++.+ .|++.|..|-..- .+-=-..+.-+++..+|+|..+-..
T Consensus 122 eG-~~~a~~L~~~GI~vtli~Dsa~~---~~m~~vd~VlvGAd~V~~nG~v~--nkvGT~~~Al~A~~~~vPv~V~~~s 194 (253)
T PRK06372 122 EG-IDMAKLLVKSGIDVVLLTDASMC---EAVLNVDAVIVGSDSVLYDGGLI--HKNGTFPLALCARYLKKPFYSLTIS 194 (253)
T ss_pred HH-HHHHHHHHHCCCCEEEEehhHHH---HHHHhCCEEEECccEEecCCCEe--ehhhHHHHHHHHHHcCCCEEEEeec
Confidence 56 57888999999999888665543 33443 2445555443221 1111224566677889999875443
No 340
>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=39.89 E-value=1.5e+02 Score=21.80 Aligned_cols=70 Identities=17% Similarity=0.254 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEC--Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQG--KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
|+.+-+..+.+.+++.|..+.+... ++. +.+.. +.+.+++.|++...... . + .+.+.+++.+|++..++
T Consensus 13 ~~~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~i~~-l~~~~vdgii~~~~~~~---~-~-~~~~~~~~~~ipvV~i~ 86 (269)
T cd06281 13 LLAQLFSGAEDRLRAAGYSLLIANSLNDPERELEILRS-FEQRRMDGIIIAPGDER---D-P-ELVDALASLDLPIVLLD 86 (269)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHH-HHHcCCCEEEEecCCCC---c-H-HHHHHHHhCCCCEEEEe
Confidence 5666677778888899999887753 232 33333 44468888887432211 1 1 23444566789988886
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
.
T Consensus 87 ~ 87 (269)
T cd06281 87 R 87 (269)
T ss_pred c
Confidence 4
No 341
>CHL00139 rpl18 ribosomal protein L18; Validated
Probab=39.86 E-value=79 Score=21.14 Aligned_cols=42 Identities=10% Similarity=0.035 Sum_probs=28.8
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeE
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~ 133 (146)
..|.+-+.+.|++.|++++.--. .--|-+.+.+.+++.|+.|
T Consensus 68 ~lla~ra~~~gi~~vvfDrgg~~-yhGrV~a~a~~are~GL~f 109 (109)
T CHL00139 68 QKLAKKSLKKGITKVVFDRGGKL-YHGRIKALAEAAREAGLQF 109 (109)
T ss_pred HHHHHHHHHCCCCEEEEcCCCCc-cchHHHHHHHHHHHhCCCC
Confidence 34556667789999999874322 2345557888888888764
No 342
>TIGR01116 ATPase-IIA1_Ca sarco/endoplasmic reticulum 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 latter of which is modelled by TIGR01522.
Probab=39.84 E-value=2.4e+02 Score=25.95 Aligned_cols=39 Identities=26% Similarity=0.359 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
.+...+.-+.|++.|+...++.|+..+....++++.|+.
T Consensus 539 r~~v~e~I~~l~~aGI~v~miTGD~~~tA~~ia~~~gi~ 577 (917)
T TIGR01116 539 RPEVADAIEKCRTAGIRVIMITGDNKETAEAICRRIGIF 577 (917)
T ss_pred chhHHHHHHHHHHCCCEEEEecCCCHHHHHHHHHHcCCC
Confidence 456677777788899999999999988888999998874
No 343
>PRK05835 fructose-bisphosphate aldolase; Provisional
Probab=39.70 E-value=1.9e+02 Score=23.01 Aligned_cols=72 Identities=13% Similarity=0.107 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHH--HHHHHHHHHHHhCCCeEEE
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAK--KRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~--~rd~~v~~~~~~~~i~~~~ 135 (146)
.+...+..+.++.....+-|++=+|...+.+.+-+ +.|.+.|-+.-+..|++. ++-+.+.+.+...||.|+.
T Consensus 60 ~~~~~~~~~a~~~~~VPValHLDHg~~~e~i~~ai-~~GftSVM~DgS~l~~eeNi~~T~~vve~Ah~~gv~VEa 133 (307)
T PRK05835 60 MAVGMVKIMCERYPHIPVALHLDHGTTFESCEKAV-KAGFTSVMIDASHHAFEENLELTSKVVKMAHNAGVSVEA 133 (307)
T ss_pred HHHHHHHHHHHhcCCCeEEEECCCCCCHHHHHHHH-HcCCCEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCEEEE
Confidence 34444444444322233445666787777766544 459999999887766654 3446677778888987764
No 344
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=39.67 E-value=78 Score=21.44 Aligned_cols=42 Identities=21% Similarity=0.242 Sum_probs=29.1
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeE
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~ 133 (146)
..|.+-+.+.|++.|++++.--.| --|-.++.+.+.+.|+.|
T Consensus 76 ~~la~ra~~~gi~~vvfDrg~~~y-hGrV~a~a~~are~Gl~f 117 (117)
T PRK05593 76 KLIAERAKAKGIKQVVFDRGGYKY-HGRVKALADAAREAGLKF 117 (117)
T ss_pred HHHHHHHHHCCCCEEEEcCCCCcc-cHHHHHHHHHHHHhCCCC
Confidence 345566677899999998753232 345567888888888864
No 345
>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=39.63 E-value=1.5e+02 Score=21.63 Aligned_cols=71 Identities=10% Similarity=-0.024 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC---hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK---PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~---~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
.|+.+-+..+++.++++|..+.+...+ +. +.+.. +.+.+++.|++.....+.. .+.+. .+.||++..
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-l~~~~vdgiii~~~~~~~~-----~~~~~-~~~~ipvv~ 84 (264)
T cd01574 12 HGPSSTLAAIESAAREAGYAVTLSMLAEADEEALRAAVRR-LLAQRVDGVIVNAPLDDAD-----AALAA-APADVPVVF 84 (264)
T ss_pred ccHHHHHHHHHHHHHHCCCeEEEEeCCCCchHHHHHHHHH-HHhcCCCEEEEeCCCCChH-----HHHHH-HhcCCCEEE
Confidence 366777888888899999999887642 22 23333 3345789888754322221 12332 357899998
Q ss_pred ecCC
Q psy9352 136 HVSH 139 (146)
Q Consensus 136 ~~~~ 139 (146)
++..
T Consensus 85 ~~~~ 88 (264)
T cd01574 85 VDGS 88 (264)
T ss_pred Eecc
Confidence 8754
No 346
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=39.30 E-value=1.5e+02 Score=23.42 Aligned_cols=67 Identities=13% Similarity=0.078 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHH-----cCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKT-----WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~-----~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
|+ ..+.++|.+.|++..++....... ++.+ .|++.|+.|-..- .+-=--.+.-+++..+|+|+.+-.
T Consensus 154 ~G-~~~a~~L~~~gI~vtlI~Dsa~~~---~m~~vd~VivGad~v~~nG~v~--nkiGT~~lA~~Ak~~~vPv~V~a~ 225 (301)
T TIGR00511 154 QG-HITAKELRDYGIPVTLIVDSAVRY---FMKEVDHVVVGADAITANGALI--NKIGTSQLALAAREARVPFMVAAE 225 (301)
T ss_pred hH-HHHHHHHHHCCCCEEEEehhHHHH---HHHhCCEEEECccEEecCCCEE--EHHhHHHHHHHHHHhCCCEEEEcc
Confidence 44 557788999999999887655443 3444 2455555554321 111112566667788999987643
No 347
>PRK10206 putative oxidoreductase; Provisional
Probab=39.29 E-value=1.6e+02 Score=23.43 Aligned_cols=65 Identities=20% Similarity=0.172 Sum_probs=40.2
Q ss_pred HHHHHHHHhcCCeEEEEECChhhHHHHHHH--HcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFK--TWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~--~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
.++++-|+.-+++++++...+..-..-..+ +.| .+|++++.......+-+ .+.+++++.|+.+..
T Consensus 54 ~~~~ell~~~~iD~V~I~tp~~~H~~~~~~al~aG-khVl~EKPla~~~~ea~-~l~~~a~~~~~~l~v 120 (344)
T PRK10206 54 SDLDEVLNDPDVKLVVVCTHADSHFEYAKRALEAG-KNVLVEKPFTPTLAEAK-ELFALAKSKGLTVTP 120 (344)
T ss_pred CCHHHHhcCCCCCEEEEeCCchHHHHHHHHHHHcC-CcEEEecCCcCCHHHHH-HHHHHHHHhCCEEEE
Confidence 456666766778888887555433222222 223 68999888776544444 677777778876654
No 348
>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=39.29 E-value=1.6e+02 Score=21.81 Aligned_cols=67 Identities=6% Similarity=0.005 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
.|+.+-+..+++.+++.|..+.+...+.... . ...+++.|++.....+ + .+ +.+++.++++..++..
T Consensus 17 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~--~--~~~~vdgii~~~~~~~-----~-~~-~~~~~~~~pvV~~~~~ 83 (270)
T cd01544 17 PYYLSIRLGIEKRAQELGIELTKFFRDDDLL--E--ILEDVDGIIAIGKFSQ-----E-QL-AKLAKLNPNLVFVDSN 83 (270)
T ss_pred ccHHHHHHHHHHHHHHcCCEEEEEeccchhH--H--hccCcCEEEEecCCCH-----H-HH-HHHHhhCCCEEEECCC
Confidence 4666777888888888999998887643221 1 3467888876432221 1 23 3345568888887653
No 349
>PF13778 DUF4174: Domain of unknown function (DUF4174)
Probab=39.26 E-value=1.2e+02 Score=20.34 Aligned_cols=34 Identities=12% Similarity=0.130 Sum_probs=28.2
Q ss_pred ChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChh
Q psy9352 57 GPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPE 90 (146)
Q Consensus 57 ~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~ 90 (146)
+..++....+.|.+-...|.++.+-++++.|+..
T Consensus 21 ~d~~~~~q~~~L~~~~~~l~eRdi~v~~i~~~~~ 54 (118)
T PF13778_consen 21 DDPRYQQQLEELQNNRCGLDERDIVVIVITGDGA 54 (118)
T ss_pred CCHHHHHHHHHHHhhhhccccCceEEEEEeCCcc
Confidence 4567788899999988999999999988876544
No 350
>TIGR01459 HAD-SF-IIA-hyp4 HAD-superfamily class IIA hydrolase, TIGR01459. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram negative and primarily alpha proteobacteria. Only one sequence hase been annotated as other than "hypothetical." That one, from Brucella, is annotated as related to NagD, but only by sequence similarity and should be treated with some skepticism. (See comments for Class IIA subfamily)
Probab=39.24 E-value=1.6e+02 Score=21.91 Aligned_cols=39 Identities=21% Similarity=0.328 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhH--HHHHHHHcCcc
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEV--FPDIFKTWNIK 103 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~--l~~l~~~~~~~ 103 (146)
+.+..++=+.|++.|+++.++...+... +.+..++.++.
T Consensus 26 ~pga~e~L~~L~~~G~~~~ivTN~~~~~~~~~~~L~~~gl~ 66 (242)
T TIGR01459 26 YPGAVQNLNKIIAQGKPVYFVSNSPRNIFSLHKTLKSLGIN 66 (242)
T ss_pred CccHHHHHHHHHHCCCEEEEEeCCCCChHHHHHHHHHCCCC
Confidence 5667777777888999999987655443 23566777765
No 351
>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=39.11 E-value=1.1e+02 Score=20.10 Aligned_cols=43 Identities=12% Similarity=0.060 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc-CccEEEE
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW-NIKLLTW 107 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-~~~~v~~ 107 (146)
...|..+.+++++.|..++.+..+..+.+.+++++. +..--+.
T Consensus 42 ~~~l~~~~~~~~~~~~~~i~is~d~~~~~~~~~~~~~~~~~~~l 85 (140)
T cd02971 42 LCAFRDLAEEFAKGGAEVLGVSVDSPFSHKAWAEKEGGLNFPLL 85 (140)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHhcccCCCceEE
Confidence 577788888888889999999888878888888877 5543333
No 352
>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=39.11 E-value=1.1e+02 Score=20.01 Aligned_cols=37 Identities=11% Similarity=0.091 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHH
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKT 99 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~ 99 (146)
..+.++|..+.++.. ....++|+...+.+.-.+++.+
T Consensus 10 ~~l~~~l~sl~~q~~-~~~~iivvdd~s~d~t~~~~~~ 46 (180)
T cd06423 10 AVIERTIESLLALDY-PKLEVIVVDDGSTDDTLEILEE 46 (180)
T ss_pred HHHHHHHHHHHhCCC-CceEEEEEeCCCccchHHHHHH
Confidence 577777777776532 3566777664444333334444
No 353
>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=39.08 E-value=1.1e+02 Score=21.35 Aligned_cols=38 Identities=13% Similarity=0.073 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHhcCC-eEEEEECChhhHHHHHHHHcCc
Q psy9352 65 QQSLADLDQKFRALGS-RLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~-~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
...+.+...+++++|. .++.+..++.....+++++.++
T Consensus 50 ~~~~~~~~~~f~~~g~~~V~~iS~D~~~~~~~~~~~~~~ 88 (155)
T cd03013 50 LPGYVENADELKAKGVDEVICVSVNDPFVMKAWGKALGA 88 (155)
T ss_pred HHHHHHhHHHHHHCCCCEEEEEECCCHHHHHHHHHhhCC
Confidence 4567788888999999 5999999999899999999887
No 354
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Probab=39.04 E-value=1.3e+02 Score=24.36 Aligned_cols=69 Identities=13% Similarity=-0.003 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc-------CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW-------NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-------~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
|+.+-...+|.+.|++..++...... .++.+- |++.|..|-+.- -+-=--.+.-+++..+|+|+..-.
T Consensus 193 qG~~lta~eL~~~GI~vtlI~Dsa~~---~~M~~~~vd~VivGAd~I~~nG~v~--NkiGT~~lAl~Ak~~~vPfyV~a~ 267 (344)
T PRK05720 193 QGARLTAWELYQAGIDVTVITDNMAA---HLMQTGKIDAVIVGADRIAANGDVA--NKIGTYQLAIAAKYHGVPFYVAAP 267 (344)
T ss_pred hhHHHHHHHHHHCCCCEEEEcccHHH---HHhcccCCCEEEEcccEEecCCCEe--ehhhHHHHHHHHHHhCCCEEEecc
Confidence 44444577888999999988766544 344432 455555544331 011111455667789999987654
Q ss_pred C
Q psy9352 139 H 139 (146)
Q Consensus 139 ~ 139 (146)
.
T Consensus 268 ~ 268 (344)
T PRK05720 268 S 268 (344)
T ss_pred c
Confidence 4
No 355
>TIGR01523 ATPase-IID_K-Na potassium and/or sodium efflux P-type ATPase, fungal-type. The Leishmania sequence (GP|3192903), which falls between trusted and noise in this model, may very well turn out to be an active potassium pump.
Probab=38.86 E-value=2.9e+02 Score=25.93 Aligned_cols=37 Identities=19% Similarity=0.152 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
+...+.-+.|++.|+...++.||....-..++++.|+
T Consensus 649 ~~v~~aI~~l~~aGIkv~MiTGD~~~tA~~iA~~~Gi 685 (1053)
T TIGR01523 649 NESAGAVEKCHQAGINVHMLTGDFPETAKAIAQEVGI 685 (1053)
T ss_pred hhHHHHHHHHHHCCCEEEEECCCCHHHHHHHHHHcCC
Confidence 4566677778889999999999999999999999998
No 356
>TIGR01656 Histidinol-ppas histidinol-phosphate phosphatase family domain. This domain is a member of the haloacid-dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. This superfamily is distinguished by the presence of three motifs: an N-terminal motif containing the nucleophilic aspartate, a central motif containing an conserved serine or threonine, and a C-terminal motif containing a conserved lysine (or arginine) and conserved aspartates. More specifically, the domian modelled here is a member of subfamily III of the HAD-superfamily by virtue of lacking a "capping" domain in either of the two common positions, between motifs 1 and 2, or between motifs 2 and 3.
Probab=38.69 E-value=1e+02 Score=21.02 Aligned_cols=68 Identities=16% Similarity=0.200 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChh---------------hHHHHHHHHcCcc--EEEEe-----eecChhHHHHHHH
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPE---------------EVFPDIFKTWNIK--LLTWE-----YDIEPYAKKRDGL 121 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~---------------~~l~~l~~~~~~~--~v~~~-----~~~~~~~~~rd~~ 121 (146)
++.++.++=+.|++.|+.+.|....+. ..+..+++..++. ..|.. ..... .+-.-+.
T Consensus 28 ~~~g~~~~l~~Lk~~g~~~~I~Sn~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~~~~~~~~~-~KP~~~~ 106 (147)
T TIGR01656 28 LRPGAVPALLTLRAAGYTVVVVTNQSGIGRGYFSAEAFRAPNGRVLELLRQLGVAVDGVLFCPHHPADNCSC-RKPKPGL 106 (147)
T ss_pred EcCChHHHHHHHHHCCCEEEEEeCCCcccCCcCCHHHHHHHHHHHHHHHHhCCCceeEEEECCCCCCCCCCC-CCCCHHH
Confidence 356777888889999999999986552 3456667777775 23332 11111 1122235
Q ss_pred HHHHHHhCCCe
Q psy9352 122 VEDMAKEYKVK 132 (146)
Q Consensus 122 v~~~~~~~~i~ 132 (146)
+..++++.|+.
T Consensus 107 ~~~~~~~~~~~ 117 (147)
T TIGR01656 107 ILEALKRLGVD 117 (147)
T ss_pred HHHHHHHcCCC
Confidence 66666666653
No 357
>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=38.67 E-value=1.5e+02 Score=21.38 Aligned_cols=40 Identities=23% Similarity=0.257 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECC-hhhHHHHHHHHcCcc
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGK-PEEVFPDIFKTWNIK 103 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~-~~~~l~~l~~~~~~~ 103 (146)
++.++.++=+.|++.|+.+.|..+. +...+..+....+++
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 4578888888899999999999976 777767777766654
No 358
>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=38.65 E-value=1.2e+02 Score=23.40 Aligned_cols=69 Identities=16% Similarity=0.111 Sum_probs=31.9
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc--CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW--NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.++.+++..++.|+.+....-...+.+.+..+.. +.+.+|.-.+.... .....+...+.+.+|++..++
T Consensus 148 ~~~~~~~~a~~~g~~l~~~~v~~~~~~~~~~~~l~~~~da~~~~~~~~~~--~~~~~i~~~~~~~~iPv~~~~ 218 (294)
T PF04392_consen 148 QIEQLRKAAKKLGIELVEIPVPSSEDLEQALEALAEKVDALYLLPDNLVD--SNFEAILQLANEAKIPVFGSS 218 (294)
T ss_dssp HHHHHHHHHHHTT-EEEEEEESSGGGHHHHHHHHCTT-SEEEE-S-HHHH--HTHHHHHHHCCCTT--EEESS
T ss_pred HHHHHHHHHHHcCCEEEEEecCcHhHHHHHHHHhhccCCEEEEECCcchH--hHHHHHHHHHHhcCCCEEECC
Confidence 4556666666778877655422233334444432 45667764433221 111235555556777776654
No 359
>COG0673 MviM Predicted dehydrogenases and related proteins [General function prediction only]
Probab=38.54 E-value=1.2e+02 Score=23.51 Aligned_cols=68 Identities=10% Similarity=0.025 Sum_probs=41.7
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc-CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW-NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
+-.++++-|+.-.++++++...+..-..-..+.. .=.+|+|++..+....+-+ .+.+++++.|+.+..
T Consensus 55 ~~~~~~~ll~~~~iD~V~Iatp~~~H~e~~~~AL~aGkhVl~EKPla~t~~ea~-~l~~~a~~~~~~l~v 123 (342)
T COG0673 55 AYTDLEELLADPDIDAVYIATPNALHAELALAALEAGKHVLCEKPLALTLEEAE-ELVELARKAGVKLMV 123 (342)
T ss_pred ccCCHHHHhcCCCCCEEEEcCCChhhHHHHHHHHhcCCEEEEcCCCCCCHHHHH-HHHHHHHHcCCceee
Confidence 4445666677667888888755443222222221 1359999998876555544 677777777766554
No 360
>COG5310 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=38.50 E-value=70 Score=26.19 Aligned_cols=84 Identities=17% Similarity=0.133 Sum_probs=47.8
Q ss_pred CCCCCcCcHHHHHHHhcCCCCCCCceEEEEEE-ECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhH
Q psy9352 14 KGMRLHDNPALLSAINYKNEKGQNILLKPLYI-LDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEV 92 (146)
Q Consensus 14 ~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv-~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~ 92 (146)
.|=+..-|-+|-+........+.+.|..+.-| -+| |-- -+|+.|+|.+|...+ |..+..-..+.-+-
T Consensus 130 adn~artnyaLRet~lrEk~r~pgg~TaVs~cGANP--------Gmv-swFVKqaLvdlAad~---~ld~~ep~~ddr~g 197 (481)
T COG5310 130 ADNAARTNYALRETVLREKRRNPGGPTAVSTCGANP--------GMV-SWFVKQALVDLAADL---GLDFEEPAQDDREG 197 (481)
T ss_pred hhhhhhhhHHHHHHHHHHhccCCCCCeeeeecCCCc--------hHH-HHHHHHHHHHHHHHh---CcCccCCcchhhHH
Confidence 44555667777666532211122334333322 122 222 368888888888764 44444444444466
Q ss_pred HHHHHHHcCccEEEEee
Q psy9352 93 FPDIFKTWNIKLLTWEY 109 (146)
Q Consensus 93 l~~l~~~~~~~~v~~~~ 109 (146)
+.+|+++.|+.-|.+.+
T Consensus 198 wAkLmkK~GVkgiHiae 214 (481)
T COG5310 198 WAKLMKKAGVKGIHIAE 214 (481)
T ss_pred HHHHHHHcCCceEEEEe
Confidence 78888888888888754
No 361
>PTZ00217 flap endonuclease-1; Provisional
Probab=38.48 E-value=62 Score=26.63 Aligned_cols=40 Identities=13% Similarity=0.185 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLL 105 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v 105 (146)
+-+.++++-|+..|++.++..++....+..|++.--++.|
T Consensus 138 ~~~~~~~~lL~~~Gip~i~AP~EAdaq~A~L~~~g~v~~V 177 (393)
T PTZ00217 138 EQNEDAKKLLRLMGIPVIEAPCEAEAQCAELVKKGKVYAV 177 (393)
T ss_pred HHHHHHHHHHHHcCCceEECCcCHHHHHHHHHHCCCeEEE
Confidence 4457788888999999999989888888888765334433
No 362
>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=38.43 E-value=44 Score=21.30 Aligned_cols=32 Identities=13% Similarity=0.044 Sum_probs=21.6
Q ss_pred hcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 77 ALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 77 ~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
..|++.++-.++....+..|.+.--++.|+.+
T Consensus 2 ~~gv~~i~AP~EAeAq~A~L~~~g~vd~V~t~ 33 (94)
T PF00867_consen 2 LMGVPYIVAPYEAEAQCAYLERNGLVDAVITE 33 (94)
T ss_dssp HHT-EEEE-SS-HHHHHHHHHHTTSSSEEE-S
T ss_pred CCCCeEEEcCchHHHHHHHHHHhcceeEEEec
Confidence 46888888888888888888876666777765
No 363
>COG1149 MinD superfamily P-loop ATPase containing an inserted ferredoxin domain [Energy production and conversion]
Probab=38.24 E-value=2e+02 Score=22.72 Aligned_cols=81 Identities=11% Similarity=0.157 Sum_probs=52.6
Q ss_pred CCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeE
Q psy9352 54 MRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133 (146)
Q Consensus 54 ~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~ 133 (146)
-..|.++-..+..+++....++ .++.|+.+.|..-=+-+..--+++.++.=.+++|.+..--+.+.++++..||++
T Consensus 142 l~vGe~~s~~lV~~~kk~a~E~----~~~~IIDsaaG~gCpVi~sl~~aD~ai~VTEPTp~glhD~kr~~el~~~f~ip~ 217 (284)
T COG1149 142 LNVGEEESGKLVTALKKHAKEL----ADLLIIDSAAGTGCPVIASLKGADLAILVTEPTPFGLHDLKRALELVEHFGIPT 217 (284)
T ss_pred ccCCccccchHHHHHHHhhhhh----cceeEEecCCCCCChHHHhhccCCEEEEEecCCccchhHHHHHHHHHHHhCCce
Confidence 3567777778887777666665 667777654443222222333567666666777877777777777778788877
Q ss_pred EEecC
Q psy9352 134 EQHVS 138 (146)
Q Consensus 134 ~~~~~ 138 (146)
..+-.
T Consensus 218 ~iViN 222 (284)
T COG1149 218 GIVIN 222 (284)
T ss_pred EEEEe
Confidence 66543
No 364
>PRK13703 conjugal pilus assembly protein TraF; Provisional
Probab=38.21 E-value=1.1e+02 Score=23.58 Aligned_cols=21 Identities=19% Similarity=0.382 Sum_probs=14.1
Q ss_pred hhHHHHHHHHcCccEEEEeee
Q psy9352 90 EEVFPDIFKTWNIKLLTWEYD 110 (146)
Q Consensus 90 ~~~l~~l~~~~~~~~v~~~~~ 110 (146)
..+|..|++++|++.+-++-|
T Consensus 162 aPil~~fa~~yg~~v~~VS~D 182 (248)
T PRK13703 162 AQVINDFRDTYGLSVIPVSVD 182 (248)
T ss_pred HHHHHHHHHHhCCeEEEEecC
Confidence 346777777777777666654
No 365
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=38.12 E-value=1.3e+02 Score=20.48 Aligned_cols=45 Identities=9% Similarity=0.050 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
....|..+.+++++.|..++-+.-+..+.+.+++++.+.+-.+..
T Consensus 49 ~~~~l~~~~~~~~~~~v~vi~Is~d~~~~~~~~~~~~~~~~~~l~ 93 (154)
T PRK09437 49 QACGLRDNMDELKKAGVVVLGISTDKPEKLSRFAEKELLNFTLLS 93 (154)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCCCeEEE
Confidence 345688888889889998888877777888999999887655553
No 366
>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=38.07 E-value=1.6e+02 Score=21.55 Aligned_cols=70 Identities=14% Similarity=0.136 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEC--Chhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQG--KPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
|..+-+..+++.+++.|..+.+... ++.. .+.. +...+++.|+........ + .+. .+.+.|+++..++
T Consensus 13 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~-l~~~~vdgiii~~~~~~~----~-~~~-~~~~~~ipvV~~~ 85 (264)
T cd06274 13 SFARIAKRLEALARERGYQLLIACSDDDPETERETVET-LIARQVDALIVAGSLPPD----D-PYY-LCQKAGLPVVALD 85 (264)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEcCCCCch----H-HHH-HHHhcCCCEEEec
Confidence 5555666777888889999888754 3432 2333 345689988875332111 1 233 3456889998886
Q ss_pred CC
Q psy9352 138 SH 139 (146)
Q Consensus 138 ~~ 139 (146)
..
T Consensus 86 ~~ 87 (264)
T cd06274 86 RP 87 (264)
T ss_pred Cc
Confidence 54
No 367
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic 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=37.99 E-value=1.6e+02 Score=21.56 Aligned_cols=72 Identities=10% Similarity=-0.022 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--ChhhH---HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPEEV---FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~~---l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.|..+-+..++..+++.|..+.+... ++... +..+. ..+++.|+...... . .....+ +.+.+.||++..+
T Consensus 13 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~--~-~~~~~l-~~~~~~~iPvV~~ 87 (275)
T cd06317 13 SYQTTYNKAFQAAAEEDGVEVIVLDANGDVARQAAQVEDLI-AQKVDGIILWPTDG--Q-AYIPGL-RKAKQAGIPVVIT 87 (275)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEEcCCcCHHHHHHHHHHHH-HcCCCEEEEecCCc--c-ccHHHH-HHHHHCCCcEEEe
Confidence 47777788888888889999988764 33322 33333 45889887743221 1 112133 3356789999887
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 88 ~~ 89 (275)
T cd06317 88 NS 89 (275)
T ss_pred CC
Confidence 64
No 368
>PRK04004 translation initiation factor IF-2; Validated
Probab=37.89 E-value=2.1e+02 Score=24.84 Aligned_cols=65 Identities=20% Similarity=0.101 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHhcCCeEEEE-ECChhhHHHHHHHHc------CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 66 QSLADLDQKFRALGSRLYVV-QGKPEEVFPDIFKTW------NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~-~g~~~~~l~~l~~~~------~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.||+++...|++.++++.-. .|...+.=-.++... ++.-+.||-...+ .+++.+++.||++..++
T Consensus 364 Gs~EAi~~~l~~~~i~i~~~~vG~it~~Dv~lA~~~~~~~~~~a~Il~FnV~~~~-------~a~~~A~~~~V~I~~~~ 435 (586)
T PRK04004 364 GSLEALVNELREEGIPIRKADVGDISKRDVIEASTVAEKDPLYGVILAFNVKVLP-------DAEEEAEKSDVKIFTGD 435 (586)
T ss_pred cHHHHHHHHHHhCCCCEEEeccCCCCHHHHHHHHhhhccCCCceEEEEecCCCCH-------HHHHHHHHcCCeEEEeC
Confidence 35666677777666554322 255443222333333 4555555544432 35555666777776543
No 369
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=37.84 E-value=1.4e+02 Score=20.80 Aligned_cols=64 Identities=11% Similarity=0.165 Sum_probs=38.0
Q ss_pred HHHHHhc-CCeEEEEECC---hhhHHHHHHHHcCccEEEEeee-cChhHHHHH-HHHHHHHHhCCCeEEE
Q psy9352 72 DQKFRAL-GSRLYVVQGK---PEEVFPDIFKTWNIKLLTWEYD-IEPYAKKRD-GLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 72 ~~~L~~~-g~~L~v~~g~---~~~~l~~l~~~~~~~~v~~~~~-~~~~~~~rd-~~v~~~~~~~~i~~~~ 135 (146)
.+-|++. |++...+... -...+.+++++-.++.|+...+ .++...++| ..+++.|-..+|++.+
T Consensus 42 a~~L~~~~Gi~v~~vi~~~~gg~~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T 111 (142)
T PRK05234 42 GGLIQEATGLDVTRLLSGPLGGDQQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVAT 111 (142)
T ss_pred HHHHHhccCCeeEEEEcCCCCCchhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEc
Confidence 4445566 7765433311 1133567777778888887653 243332333 3788888889998764
No 370
>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=37.84 E-value=1.2e+02 Score=20.12 Aligned_cols=44 Identities=7% Similarity=0.076 Sum_probs=30.0
Q ss_pred HHHHHHHHcCccEEEEeeec-ChhH-HHHHHHHHHHHHhCCCeEEE
Q psy9352 92 VFPDIFKTWNIKLLTWEYDI-EPYA-KKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 92 ~l~~l~~~~~~~~v~~~~~~-~~~~-~~rd~~v~~~~~~~~i~~~~ 135 (146)
.+.+++.+-.++.|+...+. +... ..-...+++.+-+.+|++.+
T Consensus 61 ~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~T 106 (115)
T cd01422 61 QIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLAT 106 (115)
T ss_pred HHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEE
Confidence 35677777788888877654 4333 23345788888889998765
No 371
>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=37.83 E-value=53 Score=27.92 Aligned_cols=58 Identities=16% Similarity=0.269 Sum_probs=37.2
Q ss_pred CceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChh----hHHHHHHHH
Q psy9352 37 NILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPE----EVFPDIFKT 99 (146)
Q Consensus 37 ~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~----~~l~~l~~~ 99 (146)
..|-+ ||+||+...-+...+ .-+++.++..-+-.++.|+.++++..+|. +++.+|-..
T Consensus 253 dkPkl-VfFfDEAHLLF~da~----kall~~ieqvvrLIRSKGVGv~fvTQ~P~DiP~~VL~QLGnr 314 (502)
T PF05872_consen 253 DKPKL-VFFFDEAHLLFNDAP----KALLDKIEQVVRLIRSKGVGVYFVTQNPTDIPDDVLGQLGNR 314 (502)
T ss_pred CCceE-EEEEechhhhhcCCC----HHHHHHHHHHHHHhhccCceEEEEeCCCCCCCHHHHHhhhhH
Confidence 34555 455666544333222 23557788888888999999999986655 456665544
No 372
>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=37.83 E-value=98 Score=25.60 Aligned_cols=50 Identities=4% Similarity=-0.029 Sum_probs=34.3
Q ss_pred hhHHHHHHHHcCccEEEEeee--cChhHHHHHHHHHHHHH-hCCCeEEEecCCe
Q psy9352 90 EEVFPDIFKTWNIKLLTWEYD--IEPYAKKRDGLVEDMAK-EYKVKVEQHVSHT 140 (146)
Q Consensus 90 ~~~l~~l~~~~~~~~v~~~~~--~~~~~~~rd~~v~~~~~-~~~i~~~~~~~~~ 140 (146)
.+.+.+++++++++.|+.... ..++..+.- .+++.+. +.||++-.+++..
T Consensus 339 ~~~l~~l~ke~~aDGVI~~~~~~C~~~~~e~~-~~~~~l~e~~GIP~L~iE~D~ 391 (413)
T TIGR02260 339 VDLLEKYINEYEADGLLINSIKSCNSFSAGQL-LMMREIEKRTGKPAAFIETDL 391 (413)
T ss_pred HHHHHHHHHHhCCCEEEEeccCCCCcchhhhH-HHHHHHHHHcCCCEEEEEcCC
Confidence 567899999999998886433 345544333 4555554 4899998887663
No 373
>PRK06769 hypothetical protein; Validated
Probab=37.81 E-value=98 Score=21.91 Aligned_cols=45 Identities=16% Similarity=0.121 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhh--------HHHHHHHHcCccEEEEe
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEE--------VFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~--------~l~~l~~~~~~~~v~~~ 108 (146)
++.++.++=+.|++.|+++.|..+.+.. .+....+..++..++..
T Consensus 29 ~~pgv~e~L~~Lk~~G~~l~I~Tn~~~~~~~~~~~~~~~~~l~~~g~~~~~~~ 81 (173)
T PRK06769 29 LFPFTKASLQKLKANHIKIFSFTNQPGIADGIATIADFVQELKGFGFDDIYLC 81 (173)
T ss_pred ECCCHHHHHHHHHHCCCEEEEEECCchhcCCcCCHHHHHHHHHhCCcCEEEEC
Confidence 4567777777888889999998876531 13333556677776653
No 374
>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=37.74 E-value=1.5e+02 Score=21.05 Aligned_cols=47 Identities=15% Similarity=0.272 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECCh----hhHHHHHHHHcCccEEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKP----EEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~----~~~l~~l~~~~~~~~v~~~ 108 (146)
..+.++|+.+.++......+++|+.... .+.+.++.++.+...++.+
T Consensus 10 ~~l~~~l~sl~~q~~~~~~eiiiVDd~S~d~t~~~~~~~~~~~~~i~~~~~ 60 (224)
T cd06442 10 ENIPELIERLDAALKGIDYEIIVVDDNSPDGTAEIVRELAKEYPRVRLIVR 60 (224)
T ss_pred hhHHHHHHHHHHhhcCCCeEEEEEeCCCCCChHHHHHHHHHhCCceEEEec
Confidence 4577777777776543456777765322 2344445444443344443
No 375
>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=37.69 E-value=1.2e+02 Score=22.46 Aligned_cols=50 Identities=16% Similarity=0.253 Sum_probs=32.6
Q ss_pred CeEEEEECChhhHHHHHHHHc---CccEEEEeeecChhHHHHHHHHHHHHHhCC
Q psy9352 80 SRLYVVQGKPEEVFPDIFKTW---NIKLLTWEYDIEPYAKKRDGLVEDMAKEYK 130 (146)
Q Consensus 80 ~~L~v~~g~~~~~l~~l~~~~---~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~ 130 (146)
..+.++.|++.+.+++|..+. ..+-||...+-.-|..--+ .+.+.++..|
T Consensus 97 ~~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K~~y~~y~~-~~~~ll~~gg 149 (205)
T PF01596_consen 97 DRIEVIEGDALEVLPELANDGEEGQFDFVFIDADKRNYLEYFE-KALPLLRPGG 149 (205)
T ss_dssp GGEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTGGGHHHHHH-HHHHHEEEEE
T ss_pred CcEEEEEeccHhhHHHHHhccCCCceeEEEEcccccchhhHHH-HHhhhccCCe
Confidence 468889999999999999865 4889999766544332223 3334444344
No 376
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=37.67 E-value=1.6e+02 Score=22.98 Aligned_cols=45 Identities=22% Similarity=0.197 Sum_probs=28.0
Q ss_pred hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 91 EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 91 ~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
+.+.++.++.+++.|+=. .-||.-+-.+...++|++.||++..|.
T Consensus 56 e~l~~~l~e~~i~llIDA--THPyAa~iS~Na~~aake~gipy~r~e 100 (257)
T COG2099 56 EGLAAFLREEGIDLLIDA--THPYAARISQNAARAAKETGIPYLRLE 100 (257)
T ss_pred HHHHHHHHHcCCCEEEEC--CChHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 456777777777766631 235555555566667777777776664
No 377
>PRK00919 GMP synthase subunit B; Validated
Probab=37.62 E-value=2.1e+02 Score=22.75 Aligned_cols=73 Identities=5% Similarity=0.215 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChh-hHHHHHHHH-cC--ccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPE-EVFPDIFKT-WN--IKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~-~~l~~l~~~-~~--~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|+-+.+..+++.+.. +.-+..+.|-.. .++..++.+ .| +.+|+++...-+ ..+.+ .+++.+++. +++..++
T Consensus 6 ~~~~~~~~~l~~~~~~-~kVlVa~SGGVDSsvla~la~~~lG~~v~aV~vD~G~~~-~~E~e-~a~~~~~~~-i~~~vvd 81 (307)
T PRK00919 6 KFIEEAIEEIREEIGD-GKAIIALSGGVDSSVAAVLAHRAIGDRLTPVFVDTGLMR-KGETE-RIKETFSDM-LNLRIVD 81 (307)
T ss_pred HHHHHHHHHHHHHhCC-CCEEEEecCCHHHHHHHHHHHHHhCCeEEEEEEECCCCC-HHHHH-HHHHHHhcc-CCcEEEE
Confidence 5899999999999976 555666777655 344455544 34 566666544332 22333 666666665 6666554
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
-
T Consensus 82 ~ 82 (307)
T PRK00919 82 A 82 (307)
T ss_pred C
Confidence 3
No 378
>COG4130 Predicted sugar epimerase [Carbohydrate transport and metabolism]
Probab=37.58 E-value=64 Score=24.73 Aligned_cols=31 Identities=6% Similarity=0.036 Sum_probs=25.6
Q ss_pred ECChhhHHHHHHHHcCccEEEEeeecChhHH
Q psy9352 86 QGKPEEVFPDIFKTWNIKLLTWEYDIEPYAK 116 (146)
Q Consensus 86 ~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~ 116 (146)
.|.|...+..++++.|++.|..|.-|.+++.
T Consensus 47 dg~p~a~vka~Aek~Gl~IvSINAlypFn~w 77 (272)
T COG4130 47 DGTPAAEVKALAEKAGLTIVSINALYPFNEW 77 (272)
T ss_pred CCCCHHHHHHHHHHcCcEEEEeecccccccc
Confidence 4777888999999999999999988865543
No 379
>PRK03980 flap endonuclease-1; Provisional
Probab=37.51 E-value=67 Score=25.27 Aligned_cols=39 Identities=10% Similarity=0.022 Sum_probs=29.0
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEE
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLL 105 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v 105 (146)
-+.++++-|+..|++.++..|..+..+..|++.--++.|
T Consensus 84 ~~~~~k~lL~~~GIp~i~AP~EAEAq~A~L~~~g~vd~V 122 (292)
T PRK03980 84 IVEDSKKLLDLMGIPYVQAPSEGEAQAAYMAKKGDAWAV 122 (292)
T ss_pred HHHHHHHHHHHCCCCEEecCchHHHHHHHHHHCCCeEEE
Confidence 466777888899999999999877777777765334444
No 380
>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=37.35 E-value=80 Score=20.78 Aligned_cols=43 Identities=19% Similarity=0.186 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHhcCCeEEEEEC------ChhhHHHHHHHHcCccEEEE
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQG------KPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g------~~~~~l~~l~~~~~~~~v~~ 107 (146)
+..|.++.+++++.|+.++.+.. +..+.+.+++++.+++.-+.
T Consensus 42 ~p~l~~l~~~~~~~~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~~p~~ 90 (126)
T cd03012 42 LPYLTDLEQKYKDDGLVVIGVHSPEFAFERDLANVKSAVLRYGITYPVA 90 (126)
T ss_pred HHHHHHHHHHcCcCCeEEEEeccCccccccCHHHHHHHHHHcCCCCCEE
Confidence 57789999999888888776643 34567788899888764333
No 381
>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=37.35 E-value=1.8e+02 Score=21.80 Aligned_cols=73 Identities=10% Similarity=0.028 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--hhh--HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--PEE--VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~--~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
-|+.+-+..+.+.+++.|..+.+..++ +.. .+.+.+...+++.|+... ..+. ..+..+.. +++.+|++..++
T Consensus 13 ~~~~~~~~gi~~~a~~~gy~~~~~~~~~~~~~~~~~i~~l~~~~vdgiil~~-~~~~--~~~~~~~~-~~~~~iPvV~~d 88 (280)
T cd06315 13 GGILGVGEGVREAAKAIGWNLRILDGRGSEAGQAAALNQAIALKPDGIVLGG-VDAA--ELQAELEL-AQKAGIPVVGWH 88 (280)
T ss_pred cHHHHHHHHHHHHHHHcCcEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEcC-CCHH--HHHHHHHH-HHHCCCCEEEec
Confidence 477788899999999999998887543 322 222334457899888853 1111 11223433 456789998886
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
.
T Consensus 89 ~ 89 (280)
T cd06315 89 A 89 (280)
T ss_pred C
Confidence 4
No 382
>PRK14571 D-alanyl-alanine synthetase A; Provisional
Probab=37.34 E-value=1.5e+02 Score=22.87 Aligned_cols=65 Identities=9% Similarity=0.186 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|-..+.+.|++.|....++..+. +.+..+.+..+.+ ++++.-.+.+. ++..+..+++..|+++.
T Consensus 19 ~s~~~i~~al~~~g~~~~~i~~~~-~~~~~~~~~~~~D-~v~~~~~g~~g--e~~~~~~~le~~gip~~ 83 (299)
T PRK14571 19 RSGERVKKALEKLGYEVTVFDVDE-DFLKKVDQLKSFD-VVFNVLHGTFG--EDGTLQAILDFLGIRYT 83 (299)
T ss_pred HHHHHHHHHHHHcCCeEEEEccCc-hHHHHhhhccCCC-EEEEeCCCCCC--CccHHHHHHHHcCCCcc
Confidence 677888888888999887775432 2333333323445 44554444332 23457777777787754
No 383
>PRK04017 hypothetical protein; Provisional
Probab=37.29 E-value=1.4e+02 Score=20.72 Aligned_cols=11 Identities=9% Similarity=0.356 Sum_probs=4.7
Q ss_pred HHHHHHHhCCC
Q psy9352 121 LVEDMAKEYKV 131 (146)
Q Consensus 121 ~v~~~~~~~~i 131 (146)
.+.+.++..|+
T Consensus 84 ~l~~~l~~~G~ 94 (132)
T PRK04017 84 KLSEYLQGYGI 94 (132)
T ss_pred HHHHHHHhCCC
Confidence 34444444443
No 384
>cd05883 Ig2_Necl-2 Second immunoglobulin (Ig)-like domain of nectin-like molecule 2 (also known as cell adhesion molecule 1 (CADM1)). Ig2_Necl-2: second immunoglobulin (Ig)-like domain of nectin-like molecule 2 (also known as cell adhesion molecule 1 (CADM1)). Nectin-like molecules (Necls) have similar domain structures to those of nectins. At least five nectin-like molecules have been identified (Necl-1 - Necl-5). These have an extracellular region containing three Ig-like domains, one transmembrane region, and one cytoplasmic region. Necl-2 has Ca(2+)-independent homophilic and heterophilic cell-cell adhesion activity. Necl-1 is expressed in a wide variety of tissues, and is a putative tumour suppressor gene, which is downregulated in aggressive neuroblastoma. Ig domains are likely to participate in ligand binding and recognition.
Probab=37.20 E-value=40 Score=21.26 Aligned_cols=21 Identities=19% Similarity=0.612 Sum_probs=17.6
Q ss_pred CCCCCceEEEEecCCCCCcCc
Q psy9352 1 MGGTPECAVHWIRKGMRLHDN 21 (146)
Q Consensus 1 ~~~~~~~~l~Wfr~DLRl~DN 21 (146)
+||.|...|-||+++-.+.++
T Consensus 9 ~gSkP~A~I~W~k~~~~l~~~ 29 (82)
T cd05883 9 MASKPAATIRWFKGNKELTGK 29 (82)
T ss_pred cCCCCCCEEEEEECCEECcCc
Confidence 366777899999999998876
No 385
>PHA03398 viral phosphatase superfamily protein; Provisional
Probab=37.18 E-value=2.1e+02 Score=22.78 Aligned_cols=67 Identities=15% Similarity=0.068 Sum_probs=39.0
Q ss_pred EEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc----EEEEeeec
Q psy9352 41 KPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK----LLTWEYDI 111 (146)
Q Consensus 41 ~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~----~v~~~~~~ 111 (146)
+.+|=+|............|--.+.++|.. |++.|+.+-|..+.+.+....+.+..++. .|+++.+.
T Consensus 130 ~i~~D~D~TL~~~~~~v~irdp~V~EtL~e----LkekGikLaIvTNg~Re~v~~~Le~lgL~~yFDvII~~g~i 200 (303)
T PHA03398 130 VIVFDLDSTLITDEEPVRIRDPFVYDSLDE----LKERGCVLVLWSYGNREHVVHSLKETKLEGYFDIIICGGRK 200 (303)
T ss_pred EEEEecCCCccCCCCccccCChhHHHHHHH----HHHCCCEEEEEcCCChHHHHHHHHHcCCCccccEEEECCCc
Confidence 445555555444322111232345555554 45589999999866666667888888776 45555443
No 386
>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=37.13 E-value=1.8e+02 Score=22.10 Aligned_cols=42 Identities=7% Similarity=0.122 Sum_probs=26.2
Q ss_pred HHHHHHHHHHhcCCeEEEEECCh----hhHHHHHHHHcCccEEEEe
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKP----EEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~----~~~l~~l~~~~~~~~v~~~ 108 (146)
.|.+|.+.+++.+++.++.+-.. .+.|.+++++.++..+...
T Consensus 194 ~l~~l~~~ik~~~v~~if~e~~~~~k~~~~l~~la~~~~~~v~~l~ 239 (264)
T cd01020 194 DIAAFQNAIKNRQIDALIVNPQQASSATTNITGLAKRSGVPVVEVT 239 (264)
T ss_pred HHHHHHHHHHhCCCCEEEeCCCCCcHHHHHHHHHHHHcCCCEEeec
Confidence 36777777777777777665322 2334456677777766653
No 387
>smart00500 SFM Splicing Factor Motif, present in Prp18 and Pr04.
Probab=37.07 E-value=77 Score=17.63 Aligned_cols=30 Identities=13% Similarity=0.269 Sum_probs=21.1
Q ss_pred HHHHHHHHhcCCeEEEEECChhhHHHHHHH
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEEVFPDIFK 98 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~ 98 (146)
.+....|+++|-|..++-.+..+....|.+
T Consensus 4 ~eV~~~LR~lgePi~lFGE~~~~Rr~RL~~ 33 (44)
T smart00500 4 SEVIRRLRELGEPITLFGEDDQERRQRLRQ 33 (44)
T ss_pred HHHHHHHHHcCCCeeecCCChHHHHHHHHH
Confidence 456778888888888776666666555543
No 388
>PRK10187 trehalose-6-phosphate phosphatase; Provisional
Probab=37.05 E-value=1.2e+02 Score=23.24 Aligned_cols=37 Identities=11% Similarity=0.150 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHh-cCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 66 QSLADLDQKFRA-LGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 66 ~sL~~L~~~L~~-~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
+.+.+.=+.|.+ .|+.+.|..|.+...+.+++...++
T Consensus 39 ~~~~~~L~~L~~~~g~~v~i~SGR~~~~~~~~~~~~~~ 76 (266)
T PRK10187 39 DNILQGLQLLATANDGALALISGRSMVELDALAKPYRF 76 (266)
T ss_pred HHHHHHHHHHHhCCCCcEEEEeCCCHHHHHHhcCcccc
Confidence 333333344544 6999999999999999888876553
No 389
>KOG3167|consensus
Probab=37.04 E-value=63 Score=22.76 Aligned_cols=45 Identities=18% Similarity=0.359 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECC--hhhH---HHHHHHHcCccEEEE
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGK--PEEV---FPDIFKTWNIKLLTW 107 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~~---l~~l~~~~~~~~v~~ 107 (146)
-|.+++.+.++.+++=--.|.|+.|+ |.++ ||.||++.++--||.
T Consensus 59 ~lrrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~ 108 (153)
T KOG3167|consen 59 GLRRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYT 108 (153)
T ss_pred hHHHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCcccc
Confidence 48899999999999777789999887 4454 577888776644443
No 390
>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=36.91 E-value=2.2e+02 Score=22.79 Aligned_cols=67 Identities=16% Similarity=0.311 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChh-------hHHHHHHHHcCccEEEEee-ecChhHHHHHHHHHHHHHhCCCeE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPE-------EVFPDIFKTWNIKLLTWEY-DIEPYAKKRDGLVEDMAKEYKVKV 133 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~-------~~l~~l~~~~~~~~v~~~~-~~~~~~~~rd~~v~~~~~~~~i~~ 133 (146)
.++.++.+.++++|.+.+|+.|... +.+.+..++.+++..++.. +..|....-+ ...+.+++.++.+
T Consensus 12 g~l~~l~~~~~~~g~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~-~~~~~~~~~~~D~ 86 (357)
T cd08181 12 NCVEKHGEELAALGKRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETIM-EAVEIAKKFNADF 86 (357)
T ss_pred CHHHHHHHHHHHcCCEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHHH-HHHHHHHhcCCCE
Confidence 3566666667777777777765432 3344445555666555532 2233322223 4444555555543
No 391
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=36.66 E-value=1.2e+02 Score=23.98 Aligned_cols=40 Identities=10% Similarity=0.101 Sum_probs=28.5
Q ss_pred HHHHHHHHHhcCCeEEEEEC-ChhhHHHHHHHHcCccEEEE
Q psy9352 68 LADLDQKFRALGSRLYVVQG-KPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~~~~~v~~ 107 (146)
|.++.+.+++.|++.++.+- .+......++++.|+..++.
T Consensus 241 l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v~~l 281 (311)
T PRK09545 241 LHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRMGTL 281 (311)
T ss_pred HHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeEEEe
Confidence 66777777788888877763 34566677778888776665
No 392
>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=36.63 E-value=91 Score=18.34 Aligned_cols=43 Identities=21% Similarity=0.309 Sum_probs=30.5
Q ss_pred HHHHHHHHHhc--CCeEEEEECChh--hHHHHHHHHcCccEEEEeee
Q psy9352 68 LADLDQKFRAL--GSRLYVVQGKPE--EVFPDIFKTWNIKLLTWEYD 110 (146)
Q Consensus 68 L~~L~~~L~~~--g~~L~v~~g~~~--~~l~~l~~~~~~~~v~~~~~ 110 (146)
|-.+++.|+++ |..|.|+..++. +-++.++++.|.+.+-.+++
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 45566777764 778888876655 56899999999876666553
No 393
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=36.57 E-value=58 Score=16.70 Aligned_cols=27 Identities=15% Similarity=0.423 Sum_probs=18.9
Q ss_pred HHHHHHHHHhcCCeEEEEECChhhHHHHHH
Q psy9352 68 LADLDQKFRALGSRLYVVQGKPEEVFPDIF 97 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~ 97 (146)
..+|++.|+++|.+ ..|.-.+.+.++.
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 67888899988887 3566655555544
No 394
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=36.48 E-value=1.3e+02 Score=23.51 Aligned_cols=42 Identities=14% Similarity=0.179 Sum_probs=22.7
Q ss_pred HHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 94 PDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 94 ~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
..++++-.+.-|++..|.+|.+.. ..+-.+|+..+|++..+.
T Consensus 141 tklIekkKAkLVIIA~DVsP~t~k--k~LP~LC~k~~VPY~iv~ 182 (266)
T PTZ00365 141 TDLVEYKKAKLVVIAHDVDPIELV--CFLPALCRKKEVPYCIIK 182 (266)
T ss_pred HHHHHhCCccEEEEeCCCCHHHHH--HHHHHHHhccCCCEEEEC
Confidence 445555556666666666654332 123455666666665544
No 395
>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=36.29 E-value=1e+02 Score=20.66 Aligned_cols=26 Identities=15% Similarity=0.047 Sum_probs=21.7
Q ss_pred hHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 114 YAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 114 ~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
...+||....+.|+..|-.|..++++
T Consensus 88 ~~~~rD~~r~~~L~~~GW~ViRvw~~ 113 (115)
T cd00221 88 RNVERDRRVQAALERLGWRVLRVWEC 113 (115)
T ss_pred HHHHHHHHHHHHHHHCcCEEEEEeCC
Confidence 45688888888999999999988765
No 396
>PRK09196 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=36.18 E-value=2.4e+02 Score=22.97 Aligned_cols=73 Identities=14% Similarity=0.182 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecC-------hhH--HHHHHHHHHHHHhCCCe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIE-------PYA--KKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~-------~~~--~~rd~~v~~~~~~~~i~ 132 (146)
.++...+..+.++.....+-|++=+|...+.+.+-+ +.|.+.|-+..+.. |++ .+.-+.+.+.+...||.
T Consensus 60 ~~~~~~~~~~a~~~~~VPValHLDHg~~~e~i~~ai-~~GftSVMiDgS~l~~~~~~~p~eENI~~Tkevve~Ah~~Gv~ 138 (347)
T PRK09196 60 PFLRHLILAAVEEYPHIPVVMHQDHGNSPATCQRAI-QLGFTSVMMDGSLKADGKTPASYEYNVDVTRKVVEMAHACGVS 138 (347)
T ss_pred HHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHH-HcCCCEEEecCCCCcccCCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 455555555544332234556666787777665544 46999999987755 554 34446777778888987
Q ss_pred EEE
Q psy9352 133 VEQ 135 (146)
Q Consensus 133 ~~~ 135 (146)
|+.
T Consensus 139 VEa 141 (347)
T PRK09196 139 VEG 141 (347)
T ss_pred EEE
Confidence 764
No 397
>PRK00724 formate dehydrogenase accessory protein; Reviewed
Probab=36.15 E-value=1.1e+02 Score=23.72 Aligned_cols=48 Identities=15% Similarity=0.135 Sum_probs=27.9
Q ss_pred EEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 82 LYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 82 L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
+.+..|.....+-.=+...|+..|.....++. .-.+++++.||.+.-|
T Consensus 202 ~l~~SGR~s~emv~Ka~~aGipvivS~saPT~-------lAVelA~~~giTLiGf 249 (263)
T PRK00724 202 ALLVSGRASSEMVQKAAMAGIPILVAVSAPTS-------LAVELAEELGLTLVGF 249 (263)
T ss_pred EEEEeCCchHHHHHHHHHcCCcEEEEcccchH-------HHHHHHHHhCCEEEEE
Confidence 56667766544444445567777777554442 2233455677777655
No 398
>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=35.90 E-value=1.8e+02 Score=21.41 Aligned_cols=68 Identities=10% Similarity=0.081 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHHh-cCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 62 RFLQQSLADLDQKFRA-LGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~-~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
-|..+-+..+.+.+++ .|..+.+..++..+.+..| ...+++.+++.. .. + .+...+++.++++..++.
T Consensus 11 ~~~~~~~~gi~~~~~~~~g~~~~~~~~~~~~~~~~l-~~~~vdGiI~~~-~~------~-~~~~~l~~~~~PvV~~~~ 79 (265)
T cd01543 11 SYGRGVLRGIARYAREHGPWSIYLEPRGLQEPLRWL-KDWQGDGIIARI-DD------P-EMAEALQKLGIPVVDVSG 79 (265)
T ss_pred hhhHHHHHHHHHHHHhcCCeEEEEecccchhhhhhc-cccccceEEEEC-CC------H-HHHHHHhhCCCCEEEEeC
Confidence 3667777888888888 6788877665544444443 456888888742 11 1 122334567889888864
No 399
>PRK08247 cystathionine gamma-synthase; Reviewed
Probab=35.89 E-value=2.3e+02 Score=22.65 Aligned_cols=63 Identities=13% Similarity=0.177 Sum_probs=35.5
Q ss_pred HHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhH-HHHHHHHHHHHHhCCCeEEE
Q psy9352 72 DQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYA-KKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 72 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~-~~rd~~v~~~~~~~~i~~~~ 135 (146)
+..++..|+.+........+.+.+.+.+ +.+.|+++...-|.. ...-+.+.+++++.|+.+..
T Consensus 108 ~~~~~~~G~~v~~vd~~d~~~l~~~i~~-~tklv~le~P~NP~~~~~dl~~I~~la~~~g~~lIv 171 (366)
T PRK08247 108 EEHWKKWNVRFVYVNTASLKAIEQAITP-NTKAIFIETPTNPLMQETDIAAIAKIAKKHGLLLIV 171 (366)
T ss_pred HHHhhccCceEEEECCCCHHHHHHhccc-CceEEEEECCCCCCCcHHHHHHHHHHHHHcCCEEEE
Confidence 3444567777766654434555555543 556777654443321 22233778888888876553
No 400
>PRK13384 delta-aminolevulinic acid dehydratase; Provisional
Probab=35.82 E-value=1.5e+02 Score=23.87 Aligned_cols=74 Identities=23% Similarity=0.274 Sum_probs=49.3
Q ss_pred cCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCC---CCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECCh
Q psy9352 13 RKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKF---MRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKP 89 (146)
Q Consensus 13 r~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~---~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~ 89 (146)
+|=-|+.-|+++-....+..- ....-+.|+||.+...... .-.|-.| |=.+.|.+.-+++.++|++=+++.|-|
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 RRLRRLRRSEAMRDLVRETEV-SLSDLIYPIFIEEHITDAVPISTLPGISR--LPESALADEIERLYALGIRYVMPFGIS 84 (322)
T ss_pred cCCCcCCCCHHHHHHHhcCCC-CHHHceeeEEEecCCCCceecCCCCCcce--ECHHHHHHHHHHHHHcCCCEEEEeCCC
Confidence 577888999999777654321 1123388999997643221 1123334 445778888888899999988887764
No 401
>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=35.74 E-value=1.8e+02 Score=21.38 Aligned_cols=71 Identities=14% Similarity=0.193 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC--Chhh--HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG--KPEE--VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~--~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|..+-+..+.+.+++.|..+.+... ++.. .+.+.+.+.+++.|+....... +..+.++. +.++++..++
T Consensus 12 ~~~~~~~~gi~~~~~~~gy~v~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~-----~~~~~~~~-~~~~pvV~i~ 85 (269)
T cd06293 12 PFFAELADAVEEEADARGLSLVLCATRNRPERELTYLRWLDTNHVDGLIFVTNRPD-----DGALAKLI-NSYGNIVLVD 85 (269)
T ss_pred CcHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCC-----HHHHHHHH-hcCCCEEEEC
Confidence 36667788888899999999988763 3322 2334455678999998532211 11233333 3578888886
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
.
T Consensus 86 ~ 86 (269)
T cd06293 86 E 86 (269)
T ss_pred C
Confidence 4
No 402
>PRK07283 hypothetical protein; Provisional
Probab=35.69 E-value=1.2e+02 Score=19.54 Aligned_cols=37 Identities=27% Similarity=0.310 Sum_probs=20.1
Q ss_pred HHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 98 KTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 98 ~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
++-.+..|+...|.+++..+ .+.+.|+..+|++..+.
T Consensus 31 k~gk~~lVi~A~Das~~~~k---k~~~~~~~~~Vp~~~~~ 67 (98)
T PRK07283 31 QSGQAKLVFLANDAGPNLTK---KVTDKSNYYQVEVSTVF 67 (98)
T ss_pred HcCCccEEEEeCCCCHHHHH---HHHHHHHHcCCCEEEeC
Confidence 33456666666666644222 45555555666665543
No 403
>PRK11587 putative phosphatase; Provisional
Probab=35.63 E-value=67 Score=23.41 Aligned_cols=37 Identities=16% Similarity=0.110 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
.++.++=+.|++.|+++.|..+.+........+..+.
T Consensus 86 pg~~e~L~~L~~~g~~~~ivTn~~~~~~~~~l~~~~l 122 (218)
T PRK11587 86 PGAIALLNHLNKLGIPWAIVTSGSVPVASARHKAAGL 122 (218)
T ss_pred cCHHHHHHHHHHcCCcEEEEcCCCchHHHHHHHhcCC
Confidence 4556677788888999999887665544444444443
No 404
>COG1225 Bcp Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=35.56 E-value=1.7e+02 Score=20.99 Aligned_cols=62 Identities=15% Similarity=0.191 Sum_probs=44.7
Q ss_pred EEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
-+++|.+...... |- .=-....+++-.+++++|...+=+..++.+...+++++++.+--..+
T Consensus 32 ~VVLyFYPk~~Tp----gC---T~Ea~~Frd~~~ef~~~~a~V~GIS~Ds~~~~~~F~~k~~L~f~LLS 93 (157)
T COG1225 32 PVVLYFYPKDFTP----GC---TTEACDFRDLLEEFEKLGAVVLGISPDSPKSHKKFAEKHGLTFPLLS 93 (157)
T ss_pred cEEEEECCCCCCC----cc---hHHHHHHHHHHHHHHhCCCEEEEEeCCCHHHHHHHHHHhCCCceeeE
Confidence 5667777654432 11 11234567788888889999999999999999999999998844443
No 405
>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=35.50 E-value=1.7e+02 Score=20.96 Aligned_cols=70 Identities=23% Similarity=0.300 Sum_probs=43.5
Q ss_pred HHHHHHHHHHhcCCeEEEEE-C-------ChhhHHHHHHHHcCccEEEEeeecChhHHHH---HHHHHHHHHhCCCeEEE
Q psy9352 67 SLADLDQKFRALGSRLYVVQ-G-------KPEEVFPDIFKTWNIKLLTWEYDIEPYAKKR---DGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~-g-------~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~r---d~~v~~~~~~~~i~~~~ 135 (146)
+..+=.+-|+++|++..+.. - ++.+-+..+..+.+++.|++-.++..- ..+ -..+++.+++.|+.+..
T Consensus 57 ~~e~R~~~l~~l~vd~v~~~~f~~~~~~~s~~~Fi~~il~~~~~~~ivvG~Df~FG-~~~~g~~~~L~~~~~~~g~~v~~ 135 (180)
T cd02064 57 TLEEKLELLESLGVDYLLVLPFDKEFASLSAEEFVEDLLVKLNAKHVVVGFDFRFG-KGRSGDAELLKELGKKYGFEVTV 135 (180)
T ss_pred CHHHHHHHHHHcCCCEEEEeCCCHHHHcCCHHHHHHHHHhhcCCeEEEEccCCCCC-CCCCCCHHHHHHhhhhcCcEEEE
Confidence 34444455677888765543 1 355555566655689999998888531 111 12466777888888876
Q ss_pred ec
Q psy9352 136 HV 137 (146)
Q Consensus 136 ~~ 137 (146)
.+
T Consensus 136 v~ 137 (180)
T cd02064 136 VP 137 (180)
T ss_pred eC
Confidence 65
No 406
>COG4750 LicC CTP:phosphocholine cytidylyltransferase involved in choline phosphorylation for cell surface LPS epitopes [Cell envelope biogenesis, outer membrane]
Probab=35.50 E-value=83 Score=23.70 Aligned_cols=38 Identities=18% Similarity=0.347 Sum_probs=29.1
Q ss_pred HHHHhcCCe-EEEEECChhhHHHHHHHHcCccEEEEeeec
Q psy9352 73 QKFRALGSR-LYVVQGKPEEVFPDIFKTWNIKLLTWEYDI 111 (146)
Q Consensus 73 ~~L~~~g~~-L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~ 111 (146)
+.|++.||. +.|+.|-..+.|.-|..+++++-|| |..|
T Consensus 39 ~~L~e~gI~dI~IVvGYlkE~FeYLkdKy~vtLvy-N~kY 77 (231)
T COG4750 39 EQLREAGIDDITIVVGYLKEQFEYLKDKYDVTLVY-NPKY 77 (231)
T ss_pred HHHHHCCCceEEEEeeehHHHHHHHHHhcCeEEEe-CchH
Confidence 345567885 6778899999999999999887665 4444
No 407
>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=35.50 E-value=1.3e+02 Score=23.31 Aligned_cols=40 Identities=10% Similarity=0.102 Sum_probs=26.8
Q ss_pred HHHHHHHHHhcCCeEEEEEC-ChhhHHHHHHHHcCccEEEE
Q psy9352 68 LADLDQKFRALGSRLYVVQG-KPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~~~~~v~~ 107 (146)
|..+.+.+++.|++.++.+. .+......|+++.|+..+..
T Consensus 217 l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~~~g~~v~~l 257 (286)
T cd01019 217 LAKIRKEIKEKGATCVFAEPQFHPKIAETLAEGTGAKVGEL 257 (286)
T ss_pred HHHHHHHHHHcCCcEEEecCCCChHHHHHHHHhcCceEEEe
Confidence 55666667777888777753 34466677777777766554
No 408
>PF01985 CRS1_YhbY: CRS1 / YhbY (CRM) domain; InterPro: IPR001890 The CRM domain is an ~100-amino acid RNA-binding domain. The name chloroplast RNA splicing and ribosome maturation (CRM) has been suggested to reflect the functions established for the four characterised members of the family: Zea mays (Maize) CRS1 (Q9FYT6 from SWISSPROT), CAF1 (Q84N49 from SWISSPROT) and CAF2 (Q84N48 from SWISSPROT) proteins and the Escherichia coli protein YhbY (P0AGK4 from SWISSPROT). The CRM domain is found in eubacteria, archaea, and plants. The CRM domain is represented as a stand-alone protein in archaea and bacteria, and in single- and multi-domain proteins in plants. It has been suggested that prokaryotic CRM proteins existed as ribosome-associated proteins prior to the divergence of archaea and bacteria, and that they were co-opted in the plant lineage as RNA binding modules by incorporation into diverse protein contexts. Plant CRM domains are predicted to reside not only in the chloroplast, but also in the mitochondrion and the nucleo/cytoplasmic compartment. The diversity of the CRM domain family in plants suggests a diverse set of RNA targets [, ]. The CRM domain is a compact alpha/beta domain consisting of a four-stranded beta sheet and three alpha helices with an alpha-beta-alpha-beta-alpha-beta-beta topology. The beta sheet face is basic, consistent with a role in RNA binding. Proximal to the basic beta sheet face is another moiety that could contribute to nucleic acid recognition. Connecting strand beta1 and helix alpha2 is a loop with a six amino acid motif, GxxG flanked by large aliphatic residues, within which one 'x' is typically a basic residue []. Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly. GFP fused to a single-domain CRM protein from maize localises to the nucleolus, suggesting that an analogous activity may have been retained in plants []. A CRM domain containing protein in plant chloroplasts has been shown to function in group I and II intron splicing []. In vitro experiments with an isolated maize CRM domain have shown it to have RNA binding activity. These and other results suggest that the CRM domain evolved in the context of ribosome function prior to the divergence of Archaea and Bacteria, that this function has been maintained in extant prokaryotes, and that the domain was recruited to serve as an RNA binding module during the evolution of plant genomes []. YhbY has a fold similar to that of the C-terminal domain of translation initiation factor 3 (IF3C), which binds to 16S rRNA in the 30S ribosome [].; GO: 0003723 RNA binding; PDB: 1RQ8_A 1JO0_B 1LN4_A.
Probab=35.46 E-value=1.1e+02 Score=19.11 Aligned_cols=53 Identities=17% Similarity=0.214 Sum_probs=31.6
Q ss_pred CChhhHHHHHHHH---cCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeee
Q psy9352 87 GKPEEVFPDIFKT---WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLY 142 (146)
Q Consensus 87 g~~~~~l~~l~~~---~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~ 142 (146)
|=...++.++-.. ...-.|-+... . ...+++....+....|..+...-|++++
T Consensus 26 Glt~~vi~~i~~~l~~~eLvKVk~~~~-~--~~~~~~~~~~l~~~t~~~~V~~iG~~~v 81 (84)
T PF01985_consen 26 GLTDGVIEEIDDALEKHELVKVKVLGN-C--REDRKEIAEQLAEKTGAEVVQVIGRTIV 81 (84)
T ss_dssp SS-HHHHHHHHHHHHHHSEEEEEETT-----HHHHHHHHHHHHHHHTEEEEEEETTEEE
T ss_pred CCCHHHHHHHHHHHHhCCeeEEEEccC-C--HHHHHHHHHHHHHHhCCEEEEEECCEEE
Confidence 3344555555444 45556666552 2 2345546666777788999999888764
No 409
>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=35.38 E-value=1.5e+02 Score=21.29 Aligned_cols=29 Identities=21% Similarity=0.276 Sum_probs=11.3
Q ss_pred HHHHhcCCeEEEEE-CChhhHHHHHHHHcC
Q psy9352 73 QKFRALGSRLYVVQ-GKPEEVFPDIFKTWN 101 (146)
Q Consensus 73 ~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~ 101 (146)
+.+++.|+.++++- |...+.|.++++..|
T Consensus 130 ~~l~~~~I~v~~IgiG~~~~~L~~ia~~tg 159 (183)
T cd01453 130 DKLKKENIRVSVIGLSAEMHICKEICKATN 159 (183)
T ss_pred HHHHHcCcEEEEEEechHHHHHHHHHHHhC
Confidence 33334444443332 333334444444433
No 410
>COG0648 Nfo Endonuclease IV [DNA replication, recombination, and repair]
Probab=35.37 E-value=2.2e+02 Score=22.40 Aligned_cols=81 Identities=19% Similarity=0.218 Sum_probs=41.3
Q ss_pred EEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEE---
Q psy9352 10 HWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQ--- 86 (146)
Q Consensus 10 ~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--- 86 (146)
.|.+.+++=.+=..+..|++. ...+.+..|-+.......+..+..=.+.|.+=-+.++.+|+.+++++
T Consensus 40 ~~~~~~~~~~~~~~~~~~~~~---------~~~i~vHApYlINl~s~~~e~~ekS~~~l~~e~~r~~~lG~~~lv~HpG~ 110 (280)
T COG0648 40 VWISPPLAEDAIELFKAALKD---------DVQLSVHAPYLINLASPEKEKVEKSIERLIDEIDRCEQLGAKLLVFHPGS 110 (280)
T ss_pred cccCCCchHHHHHHHHHhhcc---------CceEEeecceeecCCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEECCcc
Confidence 688888886655556666652 22344444433322111111122222333333344567899998886
Q ss_pred --CC-hhhHHHHHHHH
Q psy9352 87 --GK-PEEVFPDIFKT 99 (146)
Q Consensus 87 --g~-~~~~l~~l~~~ 99 (146)
+. ..+.+.++++.
T Consensus 111 ~~~~~~e~~l~~i~~~ 126 (280)
T COG0648 111 YLGQGKEEGLNRIAEA 126 (280)
T ss_pred ccCCCHHHHHHHHHHH
Confidence 22 44556555544
No 411
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=35.35 E-value=1.7e+02 Score=23.77 Aligned_cols=56 Identities=9% Similarity=-0.120 Sum_probs=35.8
Q ss_pred EEEEEC-ChhhHHHHHHHHcCccEEEEeeecChhHH-HHHHHHHHHHHhCCCeEEEecC
Q psy9352 82 LYVVQG-KPEEVFPDIFKTWNIKLLTWEYDIEPYAK-KRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 82 L~v~~g-~~~~~l~~l~~~~~~~~v~~~~~~~~~~~-~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
-.|+.| +..+.+.+.+++++.+.+..-.+...... ..+ .+.+.+++.||.+..|++
T Consensus 10 ~~i~~G~g~~~~l~~~~~~~g~~~~livt~~~~~~~g~~~-~v~~~L~~~~i~~~~f~~ 67 (383)
T PRK09860 10 SVNVIGADSLTDAMNMMADYGFTRTLIVTDNMLTKLGMAG-DVQKALEERNIFSVIYDG 67 (383)
T ss_pred CeEEECcCHHHHHHHHHHhcCCCEEEEEcCcchhhCccHH-HHHHHHHHcCCeEEEeCC
Confidence 345555 45577888888888776665333221111 123 688888889999888876
No 412
>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=35.30 E-value=1.7e+02 Score=21.19 Aligned_cols=70 Identities=16% Similarity=0.176 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECC--hhhH---HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGK--PEEV---FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~~---l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
|+.+-+..+++.+++.|..+.+...+ +... +..+. ..+++.|+...... . +..+. .+++.|+++..++
T Consensus 13 ~~~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l~-~~~~dgiii~~~~~-~----~~~l~-~~~~~~ipvV~~~ 85 (267)
T cd06283 13 FSSLVLKGIEDVCRAHGYQVLVCNSDNDPEKEKEYLESLL-AYQVDGLIVNPTGN-N----KELYQ-RLAKNGKPVVLVD 85 (267)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHH-HcCcCEEEEeCCCC-C----hHHHH-HHhcCCCCEEEEc
Confidence 55666778888888999998776543 3322 33333 35788888743221 1 11233 3456789999887
Q ss_pred CC
Q psy9352 138 SH 139 (146)
Q Consensus 138 ~~ 139 (146)
..
T Consensus 86 ~~ 87 (267)
T cd06283 86 RK 87 (267)
T ss_pred CC
Confidence 54
No 413
>TIGR00253 RNA_bind_YhbY putative RNA-binding protein, YhbY family. A combination of crystal structure, molecular modeling, and bioinformatic data together suggest that members of this family, including YhbY of E. coli, are RNA binding proteins.
Probab=35.20 E-value=1.3e+02 Score=19.61 Aligned_cols=68 Identities=18% Similarity=0.201 Sum_probs=38.2
Q ss_pred HHHHHhcCCeE--EEEE---CChhhHHHHHHHHcC---ccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCCeee
Q psy9352 72 DQKFRALGSRL--YVVQ---GKPEEVFPDIFKTWN---IKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHTLY 142 (146)
Q Consensus 72 ~~~L~~~g~~L--~v~~---g~~~~~l~~l~~~~~---~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~L~ 142 (146)
++.|++.+..| .|.- |=...++.++-+.+. .-.|-+.... + ..+.....+++.+.|..+.+.-|++++
T Consensus 6 r~~Lr~~ah~l~p~v~IGK~Glt~~vi~ei~~aL~~hELIKVkvl~~~-~--~~~~e~a~~i~~~~~a~~Vq~iG~~~v 81 (95)
T TIGR00253 6 KRHLRGKAHHLKPVVLVGKNGLTEGVIKEIEQALEHRELIKVKVATED-R--EDKTLIAEALVKETGACNVQVIGKTIV 81 (95)
T ss_pred HHHHHHHhCCCCCeEEECCCCCCHHHHHHHHHHHHhCCcEEEEecCCC-h--hHHHHHHHHHHHHHCCEEEEEEccEEE
Confidence 34455555544 3333 434556666655443 3333343222 2 234447777788889999999888653
No 414
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=35.20 E-value=1.8e+02 Score=21.36 Aligned_cols=72 Identities=10% Similarity=0.078 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHhc-CCeEEEEE--CChhhH---HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 62 RFLQQSLADLDQKFRAL-GSRLYVVQ--GKPEEV---FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~-g~~L~v~~--g~~~~~---l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
.|..+-+..+.+.+++. |..+.+.. +++... +..+. ..+++.|++.... +.. -+..+.. +.+.||++..
T Consensus 12 ~~~~~~~~~i~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~-~~~--~~~~~~~-~~~~~ipvV~ 86 (270)
T cd06308 12 PWRAAMNDEIQREASNYPDVELIIADAADDNSKQVADIENFI-RQGVDLLIISPNE-AAP--LTPVVEE-AYRAGIPVIL 86 (270)
T ss_pred HHHHHHHHHHHHHHHhcCCcEEEEEcCCCCHHHHHHHHHHHH-HhCCCEEEEecCc-hhh--chHHHHH-HHHCCCCEEE
Confidence 46677788888888886 88888764 344333 33332 3578888874311 111 1223333 4568999998
Q ss_pred ecC
Q psy9352 136 HVS 138 (146)
Q Consensus 136 ~~~ 138 (146)
++.
T Consensus 87 ~~~ 89 (270)
T cd06308 87 LDR 89 (270)
T ss_pred eCC
Confidence 874
No 415
>TIGR00512 salvage_mtnA S-methyl-5-thioribose-1-phosphate isomerase. The delineation of this family was based in part on a discussion and neighbor-joining phylogenetic study, by Kyrpides and Woese, of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. This clade is now recognized to include the methionine salvage pathway enzyme MtnA.
Probab=35.13 E-value=1.4e+02 Score=24.03 Aligned_cols=81 Identities=12% Similarity=-0.012 Sum_probs=46.5
Q ss_pred EEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc-------CccEEEEeeecC
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW-------NIKLLTWEYDIE 112 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-------~~~~v~~~~~~~ 112 (146)
...||+.+.+- ..|+.+-...+|.+.|++..++....... ++++. |++.|..|-+.-
T Consensus 180 ~~~V~v~EsrP-------------~~qG~rlta~~L~~~GI~vtlI~Dsav~~---~m~~~~vd~VivGAd~v~~nG~v~ 243 (331)
T TIGR00512 180 LEHVYADETRP-------------RLQGARLTAWELVQEGIPATLITDSMAAH---LMKHGEVDAVIVGADRIAANGDTA 243 (331)
T ss_pred ceEEEECCCCc-------------hhhHHHHHHHHHHHCCCCEEEEcccHHHH---HhcccCCCEEEEcccEEecCCCEe
Confidence 56778875431 12444445577889999999887766543 44433 444444443321
Q ss_pred hhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 113 PYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 113 ~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
.+-=--.+.-+++..||+|+..-.
T Consensus 244 --nkiGT~~lA~~Ak~~~vPfyV~a~ 267 (331)
T TIGR00512 244 --NKIGTYQLAVLAKHHGVPFYVAAP 267 (331)
T ss_pred --ehhhHHHHHHHHHHhCCCEEEecc
Confidence 011111455667788999987643
No 416
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=35.12 E-value=1.3e+02 Score=19.54 Aligned_cols=36 Identities=19% Similarity=0.012 Sum_probs=23.1
Q ss_pred HHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 98 KTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 98 ~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
++-.+..|+...+.++. .+ +.+...|+..+|++..+
T Consensus 29 ~~gkaklViiA~D~~~~--~~-~~i~~~c~~~~Ip~~~~ 64 (99)
T PRK01018 29 KLGKAKLVIVASNCPKD--IK-EDIEYYAKLSGIPVYEY 64 (99)
T ss_pred HcCCceEEEEeCCCCHH--HH-HHHHHHHHHcCCCEEEE
Confidence 44567777777776432 22 36777777778887665
No 417
>TIGR01858 tag_bisphos_ald class II aldolase, tagatose bisphosphate family. This model describes tagatose-1,6-bisphosphate aldolases, and perhaps other closely related class II aldolases. This tetrameric, Zn2+-dependent enzyme is related to the class II fructose bisphosphate aldolase; fructose 1,6-bisphosphate and tagatose 1,6 bisphosphate differ only in chirality at C4.
Probab=34.97 E-value=2.2e+02 Score=22.31 Aligned_cols=72 Identities=11% Similarity=0.099 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHH--HHHHHHHHHHHhCCCeEEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAK--KRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~--~rd~~v~~~~~~~~i~~~~ 135 (146)
..+...+..+.++. +-.+-|++=+|...+.+.+-++ .|.+.|-+..+..|++. +.-+.+.+.+...||.|+.
T Consensus 58 ~~~~~~~~~~a~~~-~VPValHLDHg~~~e~i~~ai~-~GFtSVM~DgS~lp~eeNi~~T~~vv~~Ah~~gv~VEa 131 (282)
T TIGR01858 58 EYIVALCSAASTTY-NMPLALHLDHHESLDDIRQKVH-AGVRSAMIDGSHFPFAQNVKLVKEVVDFCHRQDCSVEA 131 (282)
T ss_pred HHHHHHHHHHHHHC-CCCEEEECCCCCCHHHHHHHHH-cCCCEEeecCCCCCHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 34555555554433 2234455557877676655444 59999999888777764 3445677778888987764
No 418
>PRK07084 fructose-bisphosphate aldolase; Provisional
Probab=34.90 E-value=2.4e+02 Score=22.67 Aligned_cols=73 Identities=18% Similarity=0.262 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHH-hcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHH--HHHHHHHHHHHhCCCeEEE
Q psy9352 62 RFLQQSLADLDQKFR-ALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAK--KRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~-~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~--~rd~~v~~~~~~~~i~~~~ 135 (146)
..+...+..+.++.. +..+-|++=+|...+.+.+-++ .|.+.|-+..+..|++. +.-+.+.+.+...||.|+.
T Consensus 69 ~~~~~~~~~~a~~a~~~VPV~lHLDHg~~~e~i~~ai~-~GftSVMiD~S~lp~eeNI~~T~evv~~Ah~~GvsVEa 144 (321)
T PRK07084 69 RYMAQGAVEYAKELGCPIPIVLHLDHGDSFELCKDCID-SGFSSVMIDGSHLPYEENVALTKKVVEYAHQFDVTVEG 144 (321)
T ss_pred HHHHHHHHHHHHHcCCCCcEEEECCCCCCHHHHHHHHH-cCCCEEEeeCCCCCHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 344444554444332 2334466667877666554444 59999999888777654 3445677788888987764
No 419
>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=34.89 E-value=2.1e+02 Score=21.96 Aligned_cols=60 Identities=13% Similarity=0.107 Sum_probs=29.7
Q ss_pred HHHHhcCCeEEEEECCh-----hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 73 QKFRALGSRLYVVQGKP-----EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~-----~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
+.+++.|.+++.+.++. .+.+.+++++.+.+.|+++. |...+ ...+.++..+..+..++|
T Consensus 47 ~~i~~~g~~v~~~~~~~~~~~d~~~~~~~l~~~~~d~vV~D~-y~~~~-----~~~~~~k~~~~~l~~iDD 111 (279)
T TIGR03590 47 DLLLSAGFPVYELPDESSRYDDALELINLLEEEKFDILIVDH-YGLDA-----DWEKLIKEFGRKILVIDD 111 (279)
T ss_pred HHHHHcCCeEEEecCCCchhhhHHHHHHHHHhcCCCEEEEcC-CCCCH-----HHHHHHHHhCCeEEEEec
Confidence 34455566655554321 22355566666666666653 33221 122334445666666665
No 420
>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=34.56 E-value=1.9e+02 Score=21.35 Aligned_cols=70 Identities=21% Similarity=0.166 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC-hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHh-CCCeEEEe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK-PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKE-YKVKVEQH 136 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~-~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~-~~i~~~~~ 136 (146)
-|+.+-+..+++.+++.|..+.+.... +. +.+.. +...+++.|++.. .. ..+ .+.+.+++ .++++..+
T Consensus 14 ~f~~~l~~gi~~~~~~~gy~~~~~~~~~~~~~~~~~~~-l~~~~vdgiii~~-~~----~~~-~~~~~~~~~~~ipvv~~ 86 (260)
T cd06304 14 SFNQSAYEGLEKAEKELGVEVKYVESVEDADYEPNLRQ-LAAQGYDLIFGVG-FG----FMD-AVEKVAKEYPDVKFAII 86 (260)
T ss_pred hHHHHHHHHHHHHHHhcCceEEEEecCCHHHHHHHHHH-HHHcCCCEEEECC-cc----hhH-HHHHHHHHCCCCEEEEe
Confidence 577788888999999999998887643 22 22222 3346788887742 11 112 34444444 37888877
Q ss_pred cC
Q psy9352 137 VS 138 (146)
Q Consensus 137 ~~ 138 (146)
+.
T Consensus 87 ~~ 88 (260)
T cd06304 87 DG 88 (260)
T ss_pred cC
Confidence 64
No 421
>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=34.49 E-value=44 Score=17.33 Aligned_cols=28 Identities=21% Similarity=0.427 Sum_probs=18.2
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHH
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIF 97 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~ 97 (146)
++.+|++.|+++|.+- .|.-.+.+.++.
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 355555555443
No 422
>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=34.33 E-value=2.1e+02 Score=21.90 Aligned_cols=17 Identities=12% Similarity=0.141 Sum_probs=7.5
Q ss_pred HHHHHHHhcCCeEEEEE
Q psy9352 70 DLDQKFRALGSRLYVVQ 86 (146)
Q Consensus 70 ~L~~~L~~~g~~L~v~~ 86 (146)
++.+.|++.+..++|..
T Consensus 71 ~~~~~l~~~~~d~vV~D 87 (279)
T TIGR03590 71 ELINLLEEEKFDILIVD 87 (279)
T ss_pred HHHHHHHhcCCCEEEEc
Confidence 34444444444444443
No 423
>KOG3128|consensus
Probab=34.23 E-value=1.2e+02 Score=23.89 Aligned_cols=37 Identities=8% Similarity=0.201 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHc
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTW 100 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~ 100 (146)
+.++-.++-..|.+++||+.++...-.+++.++..+-
T Consensus 139 lReg~~~ff~~L~~~~IP~~iFSAGigdiiEev~~q~ 175 (298)
T KOG3128|consen 139 LREGYEEFFEALQAHEIPLLIFSAGIGDIIEEVTRQK 175 (298)
T ss_pred HHHHHHHHHHHHHhCCCceEEEecchHHHHHHHHHHH
Confidence 4456777778899999999999976667777777664
No 424
>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51. It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....
Probab=34.16 E-value=1.4e+02 Score=22.72 Aligned_cols=50 Identities=18% Similarity=0.262 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEE-----------C--Chhh----------HHHHHHHHcCccEEEEeeecC
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQ-----------G--KPEE----------VFPDIFKTWNIKLLTWEYDIE 112 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~-----------g--~~~~----------~l~~l~~~~~~~~v~~~~~~~ 112 (146)
-+.+.|..+...+.+-++.|+|+. | +..+ .|..++.++++..|++|.-.+
T Consensus 117 ~l~~~L~~l~~~l~~~~ikLIVIDSIaalfr~e~~~~~~~~~R~~~L~~~~~~L~~lA~~~~iaVvvTNqv~~ 189 (256)
T PF08423_consen 117 ELLELLEQLPKLLSESKIKLIVIDSIAALFRSEFSGRGDLAERQRMLARLARILKRLARKYNIAVVVTNQVTT 189 (256)
T ss_dssp HHHHHHHHHHHHHHHSCEEEEEEETSSHHHHHHSGSTTTHHHHHHHHHHHHHHHHHHHHHTT-EEEEEEEECS
T ss_pred HHHHHHHHHHhhccccceEEEEecchHHHHHHHHccchhhHHHHHHHHHHHHHHHHHHHhCCceEEeeceeee
Confidence 355667777777777788888874 1 2111 366667777777777777664
No 425
>cd05885 Ig2_Necl-4 Second immunoglobulin (Ig)-like domain of nectin-like molecule-4 (Necl-4, also known as cell adhesion molecule 4 (CADM4)). Ig2_Necl-4: second immunoglobulin (Ig)-like domain of nectin-like molecule-4 (Necl-4, also known as cell adhesion molecule 4 (CADM4)). Nectin-like molecules have similar domain structures to those of nectins. At least five nectin-like molecules have been identified (Necl-1-Necl-5). These have an extracellular region containing three Ig-like domains, one transmembrane region, and one cytoplasmic region. Ig domains are likely to participate in ligand binding and recognition. Necl-4 is expressed on Schwann cells, and plays a key part in initiating peripheral nervous system (PNS) myelination. In injured peripheral nerve cells, the mRNA signal for both Necl-4 and Necl-5 was observed to be elevated. Necl-4 participates in cell-cell adhesion and is proposed to play a role in tumor suppression.
Probab=34.05 E-value=31 Score=21.64 Aligned_cols=21 Identities=19% Similarity=0.433 Sum_probs=17.2
Q ss_pred CCCCceEEEEecCCCCCcCcH
Q psy9352 2 GGTPECAVHWIRKGMRLHDNP 22 (146)
Q Consensus 2 ~~~~~~~l~Wfr~DLRl~DN~ 22 (146)
+|.+...|-|||++-.|...+
T Consensus 10 ~skP~a~i~W~k~~~~l~~~~ 30 (80)
T cd05885 10 RSKPAATLRWYRDRKELKGVI 30 (80)
T ss_pred CccCCCeEEEEECCEECCCCc
Confidence 567778999999999997653
No 426
>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=34.04 E-value=2.7e+02 Score=23.06 Aligned_cols=72 Identities=10% Similarity=-0.073 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECCh---hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKP---EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~---~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
-++++..|++.+++.|+..-|.-++. .+.+.++++.-.++.|-. +-.-.-....-..+...++..||.+...
T Consensus 280 ~~e~la~Lr~~~~~~~~~vPI~aDEs~~t~~d~~~~i~~~a~d~v~i-K~~k~GGIt~a~kia~lA~~~Gi~~~~g 354 (408)
T TIGR01502 280 QIEAMADLRAELDGRGVDAEIVADEWCNTVEDVKFFTDAKAGHMVQI-KTPDVGGVNNIARAIMYCKANGMGAYVG 354 (408)
T ss_pred hHHHHHHHHHHhhcCCCCceEEecCCCCCHHHHHHHHHhCCCCEEEe-CccccCCHHHHHHHHHHHHHcCCEEEEe
Confidence 35788889999888888877776654 345566666534443333 2221223445557888899999988763
No 427
>PF11360 DUF3110: Protein of unknown function (DUF3110); InterPro: IPR021503 This family of proteins has no known function.
Probab=34.01 E-value=40 Score=21.55 Aligned_cols=31 Identities=10% Similarity=0.064 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHhCCCeEEEecCC-e-eeeCCC
Q psy9352 115 AKKRDGLVEDMAKEYKVKVEQHVSH-T-LYNTNL 146 (146)
Q Consensus 115 ~~~rd~~v~~~~~~~~i~~~~~~~~-~-L~~p~~ 146 (146)
+..++ .+...|++.|-.+..+... . ++||++
T Consensus 54 ~id~~-~i~~fC~~~gy~~~iv~~g~~l~~PP~~ 86 (86)
T PF11360_consen 54 EIDPE-EIEEFCRSAGYEYEIVPPGRDLLIPPEK 86 (86)
T ss_pred EECHH-HHHHHHHHCCceEEEECCCCCeeCCCCC
Confidence 34444 7888898888888888755 4 577753
No 428
>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=33.94 E-value=2.5e+02 Score=22.59 Aligned_cols=42 Identities=21% Similarity=0.320 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhcC-CeEEEEECChh------hHHHHHHHHcCccEEEE
Q psy9352 66 QSLADLDQKFRALG-SRLYVVQGKPE------EVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 66 ~sL~~L~~~L~~~g-~~L~v~~g~~~------~~l~~l~~~~~~~~v~~ 107 (146)
.++.+|.+.++++| .+..|+.|... +.+.+..++.++...++
T Consensus 12 g~l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~ 60 (374)
T cd08189 12 GSLAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVY 60 (374)
T ss_pred CHHHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEe
Confidence 45666777777766 35555544311 22333344445554444
No 429
>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=33.81 E-value=1.5e+02 Score=19.94 Aligned_cols=43 Identities=12% Similarity=0.137 Sum_probs=25.3
Q ss_pred HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEE
Q psy9352 93 FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 93 l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~ 135 (146)
|.+.+++.+++.|+..-+++..+...-..+.+.++..++++..
T Consensus 48 L~~ri~~~~i~EVIlA~~pt~EGe~Ta~yi~~~l~~~~~kvsR 90 (112)
T cd01025 48 LLERIAKGQVKEVILATNPTVEGEATALYIAKLLKDFGVKVTR 90 (112)
T ss_pred HHHHHhcCCCcEEEEecCCCchHHHHHHHHHHHHhHcCCCeEE
Confidence 3444444566777766666655555555666666665655544
No 430
>PLN02887 hydrolase family protein
Probab=33.67 E-value=3.2e+02 Score=23.79 Aligned_cols=30 Identities=20% Similarity=0.364 Sum_probs=24.2
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
++|++.|+.+.+..|.+...+..++++.+.
T Consensus 335 ~kl~ekGi~~vIATGR~~~~i~~~l~~L~l 364 (580)
T PLN02887 335 KEALSRGVKVVIATGKARPAVIDILKMVDL 364 (580)
T ss_pred HHHHHCCCeEEEEcCCCHHHHHHHHHHhCc
Confidence 345668999999999999888888887653
No 431
>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=33.59 E-value=1.5e+02 Score=20.07 Aligned_cols=24 Identities=21% Similarity=0.115 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 116 KKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 116 ~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
.+||....+.|++.|..|..|+.+
T Consensus 93 ~~rD~~~~~~L~~~Gw~Vlr~We~ 116 (117)
T TIGR00632 93 VERDRRVNSRLQELGWRVLRVWEC 116 (117)
T ss_pred HHHHHHHHHHHHHCcCEEEEEeCC
Confidence 588989999999999999988764
No 432
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=33.55 E-value=1.2e+02 Score=22.43 Aligned_cols=41 Identities=22% Similarity=0.311 Sum_probs=28.0
Q ss_pred HHHHHHHHHHhcCCe-EEEEECChhhHHHHHHHHcCccEEEEeee
Q psy9352 67 SLADLDQKFRALGSR-LYVVQGKPEEVFPDIFKTWNIKLLTWEYD 110 (146)
Q Consensus 67 sL~~L~~~L~~~g~~-L~v~~g~~~~~l~~l~~~~~~~~v~~~~~ 110 (146)
.+.-.++++++.|.+ +.+++|+.++.|+.+. ..+++|..-.
T Consensus 70 a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~---~~daiFIGGg 111 (187)
T COG2242 70 ALELIERNAARFGVDNLEVVEGDAPEALPDLP---SPDAIFIGGG 111 (187)
T ss_pred HHHHHHHHHHHhCCCcEEEEeccchHhhcCCC---CCCEEEECCC
Confidence 456667777777754 8888999888877543 3566666544
No 433
>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=33.38 E-value=1.6e+02 Score=22.11 Aligned_cols=22 Identities=23% Similarity=0.182 Sum_probs=15.1
Q ss_pred HHHHHHHHHhcCCeEEEEECCh
Q psy9352 68 LADLDQKFRALGSRLYVVQGKP 89 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~ 89 (146)
++.+-+.+++.+.+++|..||.
T Consensus 20 le~l~~~~~~~~~D~vv~~GDl 41 (224)
T cd07388 20 LEKLVGLAPETGADAIVLIGNL 41 (224)
T ss_pred HHHHHHHHhhcCCCEEEECCCC
Confidence 4444445556789999998775
No 434
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=33.29 E-value=2.8e+02 Score=23.02 Aligned_cols=15 Identities=13% Similarity=0.328 Sum_probs=7.2
Q ss_pred HHHHHHHhCCCeEEE
Q psy9352 121 LVEDMAKEYKVKVEQ 135 (146)
Q Consensus 121 ~v~~~~~~~~i~~~~ 135 (146)
.+++.|++.||+++.
T Consensus 66 ~~~~~~~~l~i~~~~ 80 (436)
T PRK10660 66 HCEQVCQQWQVPLVV 80 (436)
T ss_pred HHHHHHHHcCCcEEE
Confidence 444445555554443
No 435
>TIGR01521 FruBisAldo_II_B fructose-bisphosphate aldolase, class II, Calvin cycle subtype. Members of this family are class II examples of the enzyme fructose-bisphosphate aldolase, an enzyme both of glycolysis and (in the opposite direction) of the Calvin cycle of CO2 fixation. A deep split separates the tightly conserved yeast/E. coli/Mycobacterium subtype (all species lacking the Calvin cycle) represented by model TIGR01520 from a broader group of aldolases that includes both tagatose- and fructose-bisphosphate aldolases. This model represents a distinct, elongated, very well conserved subtype within the latter group. Most species with this aldolase subtype have the Calvin cycle.
Probab=33.25 E-value=2.7e+02 Score=22.69 Aligned_cols=73 Identities=11% Similarity=0.145 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecC-------hhH--HHHHHHHHHHHHhCCCe
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIE-------PYA--KKRDGLVEDMAKEYKVK 132 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~-------~~~--~~rd~~v~~~~~~~~i~ 132 (146)
.++..-+..+.++.....+-|++=+|...+.+.+-++ .|.+.|-+..+.. |++ .+.-+.+.+.+...||.
T Consensus 58 ~~~~~~~~~~ae~~~~VPValHLDHg~~~e~i~~Ai~-~GFtSVMiDgS~l~~~~~~~p~eENI~~Tkevve~Ah~~Gvs 136 (347)
T TIGR01521 58 PFLRHLILAAIEEYPHIPVVMHQDHGNSPATCQRAIQ-LGFTSVMMDGSLREDAKTPADYDYNVRVTAEVVAFAHAVGAS 136 (347)
T ss_pred HHHHHHHHHHHHhCCCCcEEEECCCCCCHHHHHHHHH-cCCCEEeecCcCCcccCCCCCHHHHHHHHHHHHHHHHHcCCe
Confidence 4555566666554433445567777877776655444 5999999977753 443 34456788888888887
Q ss_pred EEE
Q psy9352 133 VEQ 135 (146)
Q Consensus 133 ~~~ 135 (146)
|+.
T Consensus 137 VEa 139 (347)
T TIGR01521 137 VEG 139 (347)
T ss_pred EEE
Confidence 764
No 436
>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot. GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....
Probab=33.24 E-value=1.3e+02 Score=19.23 Aligned_cols=63 Identities=16% Similarity=0.145 Sum_probs=39.8
Q ss_pred HHHHHHHHhcCCeEEEEECChhh---HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEE---VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~---~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.++++-|+.-++++.++...+.. .+.+++ +.|. +|++++.......+-+ .+.+.+++.|+.+.
T Consensus 52 ~~~~~ll~~~~~D~V~I~tp~~~h~~~~~~~l-~~g~-~v~~EKP~~~~~~~~~-~l~~~a~~~~~~~~ 117 (120)
T PF01408_consen 52 TDLEELLADEDVDAVIIATPPSSHAEIAKKAL-EAGK-HVLVEKPLALTLEEAE-ELVEAAKEKGVKVM 117 (120)
T ss_dssp SSHHHHHHHTTESEEEEESSGGGHHHHHHHHH-HTTS-EEEEESSSSSSHHHHH-HHHHHHHHHTSCEE
T ss_pred hHHHHHHHhhcCCEEEEecCCcchHHHHHHHH-HcCC-EEEEEcCCcCCHHHHH-HHHHHHHHhCCEEE
Confidence 33555555567888888766553 333333 3455 9999998865444433 67777888887654
No 437
>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2. This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.
Probab=33.22 E-value=2.6e+02 Score=24.39 Aligned_cols=64 Identities=17% Similarity=0.172 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHhcCCeEEEE-ECChhhHHHHHHHHcC------ccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 66 QSLADLDQKFRALGSRLYVV-QGKPEEVFPDIFKTWN------IKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~-~g~~~~~l~~l~~~~~------~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.||++|...|++.++++.-. .|...+.=-.++...+ +.-+.||-...+ .+++.+++.||++..+
T Consensus 362 Gs~EAl~~~l~~~~i~i~~~~vG~it~~Dv~~A~~~~~~~~~~a~Il~Fnv~~~~-------~a~~~A~~~~v~i~~~ 432 (590)
T TIGR00491 362 GSLEALVNELRDMGVPIKKADIGDVSKRDVVEAGIAKQEDRVYGAIIAFNVKVLP-------GAEQELKKYDIKLFSD 432 (590)
T ss_pred chHHHHHHHHHhCCCcEEEecCCCCcHhHHHHHhhcccCCCCceEEEEecCCCCH-------HHHHHHHHcCCEEEEe
Confidence 47888888888887664332 2655532223333322 444455544433 3555566778877654
No 438
>cd05859 Ig4_PDGFR-alpha Fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. IG4_PDGFR-alpha: The fourth immunoglobulin (Ig)-like domain of platelet-derived growth factor receptor (PDGFR) alpha. PDGF is a potent mitogen for connective tissue cells. PDGF-stimulated processes are mediated by three different PDGFs (PDGF-A,-B, and C). PDGFR alpha binds to all three PDGFs, whereas the PDGFR beta (not included in this group) binds only to PDGF-B. PDGF alpha is organized as an extracellular component having five Ig-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. In mice, PDGFR alpha and PDGFR beta are essential for normal development.
Probab=32.98 E-value=23 Score=22.91 Aligned_cols=20 Identities=20% Similarity=0.514 Sum_probs=16.0
Q ss_pred CCCceEEEEecCCCCCcCcH
Q psy9352 3 GTPECAVHWIRKGMRLHDNP 22 (146)
Q Consensus 3 ~~~~~~l~Wfr~DLRl~DN~ 22 (146)
|++...+.||+.+-.|.++.
T Consensus 29 g~P~P~v~W~kdg~~l~~~~ 48 (101)
T cd05859 29 AYPPPQIRWLKDNRTLIENL 48 (101)
T ss_pred EeCCCceEEEECCEECcCCc
Confidence 45667899999998887764
No 439
>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=32.95 E-value=2.5e+02 Score=22.18 Aligned_cols=130 Identities=12% Similarity=0.026 Sum_probs=81.4
Q ss_pred eEEEEecCCCCCcCcHHHHHHHhcCCCCCCCceEEEEEEECCCcc-------------C----C-CC-------------
Q psy9352 7 CAVHWIRKGMRLHDNPALLSAINYKNEKGQNILLKPLYILDPHFR-------------K----F-MR------------- 55 (146)
Q Consensus 7 ~~l~Wfr~DLRl~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~-------------~----~-~~------------- 55 (146)
-+++.+-.+=.-.|+|.+..-....-+ ..|=..+.+-.-++..- . . ..
T Consensus 88 G~vIilp~~g~~~d~p~~i~~LR~~L~-~~GW~Tlsit~P~~~~~~~p~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~ 166 (310)
T PF12048_consen 88 GAVIILPDWGEHPDWPGLIAPLRRELP-DHGWATLSITLPDPAPPASPNRATEAEEVPSAGDQQLSQPSDEPSPASAQEA 166 (310)
T ss_pred eEEEEecCCCCCCCcHhHHHHHHHHhh-hcCceEEEecCCCcccccCCccCCCCCCCCCCCCCCcCCCCCCCccccccHh
Confidence 356666777788899888777654211 01222444444441100 0 0 00
Q ss_pred -CChhhHHHHHHHHHHHHHHHHhcCCe--EEEEECChhhHHHHHHHHcC---ccEEEEeeecChhHHHHHHHHHHHHHhC
Q psy9352 56 -VGPNRWRFLQQSLADLDQKFRALGSR--LYVVQGKPEEVFPDIFKTWN---IKLLTWEYDIEPYAKKRDGLVEDMAKEY 129 (146)
Q Consensus 56 -~~~~r~~Fl~~sL~~L~~~L~~~g~~--L~v~~g~~~~~l~~l~~~~~---~~~v~~~~~~~~~~~~rd~~v~~~~~~~ 129 (146)
.-.....++...|..+..-+++.|.. ++|-+|.....+.++..+.+ ++.+++=..+.|.... .+.+.+.+.+.
T Consensus 167 ~~~~~~~~~~~ari~Aa~~~~~~~~~~~ivlIg~G~gA~~~~~~la~~~~~~~daLV~I~a~~p~~~~-n~~l~~~la~l 245 (310)
T PF12048_consen 167 EAREAYEERLFARIEAAIAFAQQQGGKNIVLIGHGTGAGWAARYLAEKPPPMPDALVLINAYWPQPDR-NPALAEQLAQL 245 (310)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeChhHHHHHHHHhcCCCcccCeEEEEeCCCCcchh-hhhHHHHhhcc
Confidence 01134568999999999999999887 55567999888888888765 4577766566655433 34677777777
Q ss_pred CCeEEEecC
Q psy9352 130 KVKVEQHVS 138 (146)
Q Consensus 130 ~i~~~~~~~ 138 (146)
++++--+.+
T Consensus 246 ~iPvLDi~~ 254 (310)
T PF12048_consen 246 KIPVLDIYS 254 (310)
T ss_pred CCCEEEEec
Confidence 777665443
No 440
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=32.95 E-value=2.3e+02 Score=21.92 Aligned_cols=49 Identities=6% Similarity=-0.073 Sum_probs=34.6
Q ss_pred CceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChh
Q psy9352 37 NILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPE 90 (146)
Q Consensus 37 ~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~ 90 (146)
+.+++-.|.++|+..-.. . ..+..+++..|++-+++.|+++..-.-++.
T Consensus 54 g~~~~r~~~~kpRTs~~s----~-~G~g~~gl~~l~~~~~~~Gl~~~te~~d~~ 102 (266)
T PRK13398 54 GVHMLRGGAFKPRTSPYS----F-QGLGEEGLKILKEVGDKYNLPVVTEVMDTR 102 (266)
T ss_pred CCCEEEEeeecCCCCCCc----c-CCcHHHHHHHHHHHHHHcCCCEEEeeCChh
Confidence 445999999998754111 1 124588899999999999999876554443
No 441
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=32.92 E-value=2.4e+02 Score=22.12 Aligned_cols=69 Identities=10% Similarity=0.077 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHhcCCe--EEEEECChhhHHHHHHHHcCccEEEEeeecChhHH--HHHHHHHHHHHhCCCeEEE
Q psy9352 63 FLQQSLADLDQKFRALGSR--LYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAK--KRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~--L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~--~rd~~v~~~~~~~~i~~~~ 135 (146)
++...+..+.++ .++| |++=+|...+.+.+-++ .|.+.|-+..+..|++. +.-+.+.+.+...||.|+.
T Consensus 61 ~~~~~~~~~a~~---~~VPValHLDH~~~~e~i~~ai~-~GftSVMiDgS~lp~eeNi~~T~~vv~~Ah~~gvsVEa 133 (284)
T PRK12737 61 YIVAIAEVAARK---YNIPLALHLDHHEDLDDIKKKVR-AGIRSVMIDGSHLSFEENIAIVKEVVEFCHRYDASVEA 133 (284)
T ss_pred HHHHHHHHHHHH---CCCCEEEECCCCCCHHHHHHHHH-cCCCeEEecCCCCCHHHHHHHHHHHHHHHHHcCCEEEE
Confidence 444445555443 3455 45556776666554444 59999999887777664 3445677778888987764
No 442
>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=32.85 E-value=1.2e+02 Score=22.97 Aligned_cols=48 Identities=8% Similarity=0.117 Sum_probs=23.3
Q ss_pred EEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 82 LYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 82 L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
+.+..|.....+..=+...|+..|..-..++. .-.+++++.||.+.-|
T Consensus 173 ~l~~SGRis~emv~Ka~~aGIpvlvS~sapT~-------lavelA~~~giTLigf 220 (237)
T TIGR00129 173 FILYSGRISSEMVQKAARCGVPIIASKSAPTD-------LAIEVAEESNITLIGF 220 (237)
T ss_pred EEEEeCCCcHHHHHHHHHcCCCEEEEcccchH-------HHHHHHHHhCCEEEEE
Confidence 45555655544333444456666665443331 2223344566665554
No 443
>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=32.80 E-value=1.6e+02 Score=21.02 Aligned_cols=29 Identities=17% Similarity=0.445 Sum_probs=23.5
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcC
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWN 101 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~ 101 (146)
++|.+.|+.+.+..|.+...+.++++..+
T Consensus 27 ~~l~~~g~~~~i~TGR~~~~~~~~~~~~~ 55 (204)
T TIGR01484 27 ERLREAGVKVVLVTGRSLAEIKELLKQLP 55 (204)
T ss_pred HHHHHCCCEEEEECCCCHHHHHHHHHhCC
Confidence 34566789999999999999898888644
No 444
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=32.75 E-value=1.5e+02 Score=19.62 Aligned_cols=69 Identities=14% Similarity=0.045 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHhcCCe-EEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 66 QSLADLDQKFRALGSR-LYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~-L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
+|...++.-.++.||. ...+.-...|.=.-|.+... .+|.......|+ -+-+..++++.||+++.+.+-
T Consensus 20 ~g~~~v~~i~~~~gI~diN~IKPGIgEaTRvLLRRvP-~~vLVr~~~~pd----~~Hl~~LA~ekgVpVe~~~d~ 89 (100)
T PF15608_consen 20 QGWAEVERIAERYGISDINLIKPGIGEATRVLLRRVP-WKVLVRDPDDPD----LAHLLLLAEEKGVPVEVYPDL 89 (100)
T ss_pred HHHHHHHHHHHHhCCCCcccccCChhHHHHHHHhcCC-CEEEECCCCCcc----HHHHHHHHHHcCCcEEEeCCC
Confidence 4455555555556654 33332112222233445444 455555445554 226888889999999988764
No 445
>PRK08248 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=32.65 E-value=1.5e+02 Score=24.44 Aligned_cols=63 Identities=19% Similarity=0.119 Sum_probs=36.4
Q ss_pred HHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHH-HHHHHHHHHHhCCCeEEE
Q psy9352 72 DQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKK-RDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 72 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~-rd~~v~~~~~~~~i~~~~ 135 (146)
...++..|+.+..+.....+.+.+.++. +...|+++....|.... .-+.+.+++++.|+.+..
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 3445667888777765544556665543 56677775332222211 123678888888876653
No 446
>TIGR01106 ATPase-IIC_X-K sodium or proton efflux -- potassium uptake antiporter, P-type ATPase, alpha subunit. Sequences from Blastocladiella emersonii (GP|6636502, GP|6636502 and PIR|T43025), C. elegans (GP|2315419, GP|6671808 and PIR|T31763) and Drosophila melanogaster (GP|7291424) score below trusted cutoff, apparently due to long branch length (excessive divergence from the last common ancestor) as evidenced by a phylogenetic tree. Experimental evidence is needed to determine whether these sequences represent ATPases with conserved function. Aside from fragments, other sequences between trusted and noise appear to be bacterial ATPases of unclear lineage, but most likely calcium pumps.
Probab=32.61 E-value=4e+02 Score=24.77 Aligned_cols=38 Identities=24% Similarity=0.264 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI 102 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 102 (146)
.+...+.-++|++.|+.+.+..|+.......++++.|+
T Consensus 570 r~~v~~aI~~l~~~Gi~v~~~TGd~~~ta~~ia~~~gi 607 (997)
T TIGR01106 570 RAAVPDAVGKCRSAGIKVIMVTGDHPITAKAIAKGVGI 607 (997)
T ss_pred hHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCC
Confidence 46777777888889999999999999888999988876
No 447
>PHA03050 glutaredoxin; Provisional
Probab=32.58 E-value=1.4e+02 Score=19.68 Aligned_cols=50 Identities=16% Similarity=0.117 Sum_probs=26.1
Q ss_pred hHHHHHHHHcCcc---EEEEeeecC-hhHHHHHHHHHHHHHhCCCeEEEecCCee
Q psy9352 91 EVFPDIFKTWNIK---LLTWEYDIE-PYAKKRDGLVEDMAKEYKVKVEQHVSHTL 141 (146)
Q Consensus 91 ~~l~~l~~~~~~~---~v~~~~~~~-~~~~~rd~~v~~~~~~~~i~~~~~~~~~L 141 (146)
....++.++.++. --+.+-+-. .....++ .+.+.-....|+...+++..+
T Consensus 27 ~~ak~~L~~~~i~~~~~~~i~i~~~~~~~~~~~-~l~~~tG~~tVP~IfI~g~~i 80 (108)
T PHA03050 27 RNALDILNKFSFKRGAYEIVDIKEFKPENELRD-YFEQITGGRTVPRIFFGKTSI 80 (108)
T ss_pred HHHHHHHHHcCCCcCCcEEEECCCCCCCHHHHH-HHHHHcCCCCcCEEEECCEEE
Confidence 4567777777773 223332221 1112233 455544445788887777654
No 448
>PRK07810 O-succinylhomoserine sulfhydrylase; Provisional
Probab=32.50 E-value=1.8e+02 Score=23.78 Aligned_cols=63 Identities=14% Similarity=0.174 Sum_probs=37.4
Q ss_pred HHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHH-HHHHHHHHHhCCCeEEE
Q psy9352 72 DQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKR-DGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 72 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~r-d~~v~~~~~~~~i~~~~ 135 (146)
...++..|+.+.++.....+.+.+.+++ +...|+++....|...-- -+.+.+++++.|+.+..
T Consensus 127 ~~~~~~~G~~v~~vd~~d~~~l~~ai~~-~tklV~~esp~Nptg~v~dl~~I~~la~~~g~~viv 190 (403)
T PRK07810 127 NEILPRWGVETVFVDGEDLSQWEEALSV-PTQAVFFETPSNPMQSLVDIAAVSELAHAAGAKVVL 190 (403)
T ss_pred HHHHHHcCcEEEEECCCCHHHHHHhcCc-CceEEEEECCCCCCCeecCHHHHHHHHHHcCCEEEE
Confidence 4445567888887766554556665543 456677654443333211 23678888888876653
No 449
>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=32.49 E-value=66 Score=23.82 Aligned_cols=81 Identities=17% Similarity=0.238 Sum_probs=47.9
Q ss_pred EEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHH
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRD 119 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd 119 (146)
.+-+=+.|-.+.....+|+ +-++++++. -+.-...|+...+|...++++++ .|++.|.++-+......
T Consensus 28 ~lHiDiMDg~fvpn~~~g~-------~~i~~i~~~-~~~~~DvHLMv~~P~~~i~~~~~-~g~~~i~~H~E~~~~~~--- 95 (201)
T PF00834_consen 28 WLHIDIMDGHFVPNLTFGP-------DIIKAIRKI-TDLPLDVHLMVENPERYIEEFAE-AGADYITFHAEATEDPK--- 95 (201)
T ss_dssp EEEEEEEBSSSSSSB-B-H-------HHHHHHHTT-SSSEEEEEEESSSGGGHHHHHHH-HT-SEEEEEGGGTTTHH---
T ss_pred EEEEeecccccCCcccCCH-------HHHHHHhhc-CCCcEEEEeeeccHHHHHHHHHh-cCCCEEEEcccchhCHH---
Confidence 6667777755443222333 345555544 33456678888999998887665 58999999777554322
Q ss_pred HHHHHHHHhCCCeE
Q psy9352 120 GLVEDMAKEYKVKV 133 (146)
Q Consensus 120 ~~v~~~~~~~~i~~ 133 (146)
.+.+..++.|+++
T Consensus 96 -~~i~~ik~~g~k~ 108 (201)
T PF00834_consen 96 -ETIKYIKEAGIKA 108 (201)
T ss_dssp -HHHHHHHHTTSEE
T ss_pred -HHHHHHHHhCCCE
Confidence 2344455667654
No 450
>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=32.43 E-value=2e+02 Score=21.03 Aligned_cols=70 Identities=10% Similarity=0.118 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECC--hhhH--HHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGK--PEEV--FPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~~--l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
.|+.+-+..+++.+++.|..+.+...+ +... +.+.+...+++.|++........ . .. +.+.|+++..++
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~--~----~~-~~~~~iPvV~~~ 84 (263)
T cd06280 12 PFFTAVSRAVEDAAYRAGLRVILCNTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR--R----LA-ELRLSFPVVLID 84 (263)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch--H----HH-HHhcCCCEEEEC
Confidence 355666777888899999999887643 3322 22344566889888854322211 1 11 245689998886
Q ss_pred C
Q psy9352 138 S 138 (146)
Q Consensus 138 ~ 138 (146)
.
T Consensus 85 ~ 85 (263)
T cd06280 85 R 85 (263)
T ss_pred C
Confidence 4
No 451
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=32.40 E-value=1.3e+02 Score=18.84 Aligned_cols=34 Identities=18% Similarity=0.191 Sum_probs=15.4
Q ss_pred CccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 101 NIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 101 ~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
.+.-|+...+..+..... .+...|++.+|++..+
T Consensus 31 ~~~lvilA~d~~~~~~~~--~l~~~c~~~~Ip~~~~ 64 (95)
T PF01248_consen 31 KAKLVILAEDCSPDSIKK--HLPALCEEKNIPYVFV 64 (95)
T ss_dssp CESEEEEETTSSSGHHHH--HHHHHHHHTTEEEEEE
T ss_pred CCcEEEEcCCCChhhhcc--cchhheeccceeEEEE
Confidence 445555555544432221 3444444555555443
No 452
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=32.31 E-value=2.2e+02 Score=21.40 Aligned_cols=54 Identities=17% Similarity=0.089 Sum_probs=38.2
Q ss_pred hhhHHHHHHHHHHHHHHHHhcCCeEEEEECC--------hhhHHHHHHHHcCccEEEEeeec
Q psy9352 58 PNRWRFLQQSLADLDQKFRALGSRLYVVQGK--------PEEVFPDIFKTWNIKLLTWEYDI 111 (146)
Q Consensus 58 ~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~--------~~~~l~~l~~~~~~~~v~~~~~~ 111 (146)
...++++.++|+.|..-.++.|+.|.+-.-. ..+.+.++++..+-..|...-+.
T Consensus 121 ~~~~~~~~~~l~~l~~~a~~~gv~l~iE~~~~~~~~~~~t~~~~~~l~~~~~~~~v~~~~D~ 182 (275)
T PRK09856 121 NVIWGRLAENLSELCEYAENIGMDLILEPLTPYESNVVCNANDVLHALALVPSPRLFSMVDI 182 (275)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEEEEecCCCCcccccCCHHHHHHHHHHcCCCcceeEEee
Confidence 4456789999999999999999999876521 24556788887654444443344
No 453
>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=32.14 E-value=2.8e+02 Score=22.54 Aligned_cols=73 Identities=16% Similarity=0.172 Sum_probs=40.1
Q ss_pred cCcHHHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEE-ECC--hhhHHHH
Q psy9352 19 HDNPALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVV-QGK--PEEVFPD 95 (146)
Q Consensus 19 ~DN~aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~-~g~--~~~~l~~ 95 (146)
.-||+|..|+-.-.+. +.=.-..|++|.. -+.+.++.+++.+.+.|+.+... ..+ ..+ +.+
T Consensus 8 ~~n~~~~~~a~~~~~~--g~~~~~~yvIDl~-------------~I~~N~~~l~~~~~~~~~~l~~vvKAna~~~~-ia~ 71 (382)
T cd06811 8 KRNPALIEAALTLHQS--GAIPPDTYVIDLD-------------QIEENARLLAETAEKYGIELYFMTKQFGRNPF-LAR 71 (382)
T ss_pred hhCHHHHHHHHHHHHc--CCCCCCEEEecHH-------------HHHHHHHHHHHHHhhCCCEEEEEEccCCCCHH-HHH
Confidence 4599999887431110 1012356777753 34456777777776667776543 333 233 344
Q ss_pred HHHHcCccEEEE
Q psy9352 96 IFKTWNIKLLTW 107 (146)
Q Consensus 96 l~~~~~~~~v~~ 107 (146)
+..+.|++.+.+
T Consensus 72 ~l~~~G~~g~~v 83 (382)
T cd06811 72 ALLEAGIPGAVA 83 (382)
T ss_pred HHHHcCCCeEeE
Confidence 555566654443
No 454
>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=32.11 E-value=1.8e+02 Score=20.37 Aligned_cols=37 Identities=11% Similarity=0.240 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECChhhHHH---HHHHH
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGKPEEVFP---DIFKT 99 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~---~l~~~ 99 (146)
|+..+..++-+++++.|..+.+..|.|....+ .+..+
T Consensus 27 ~~~~~~~~a~~~l~~~G~~ivy~TGRp~~~~~~t~~~l~~ 66 (157)
T smart00775 27 WTHPGVAKLYRDIQNNGYKILYLTARPIGQADRTRSYLSQ 66 (157)
T ss_pred cCCHHHHHHHHHHHHcCCeEEEEcCCcHHHHHHHHHHHHH
Confidence 66788888888999999999999999877654 45544
No 455
>PRK05967 cystathionine beta-lyase; Provisional
Probab=32.07 E-value=2e+02 Score=23.63 Aligned_cols=62 Identities=11% Similarity=0.052 Sum_probs=37.6
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHH-HHHHHHHHHHHhCCCeEEE
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAK-KRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~-~rd~~v~~~~~~~~i~~~~ 135 (146)
.-++..|+.+.++..+..+.+.+.++. +...|+++....|... .--+.|.+++++.|+.+..
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 445677898877754444556666653 4566777654433322 2224777788888875553
No 456
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=32.03 E-value=2.5e+02 Score=21.98 Aligned_cols=71 Identities=11% Similarity=0.173 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEC----Chh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQG----KPE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g----~~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|+.+.+..+++.+++.|..+.+... +.. +.+..+. ..+++.|++.. ..+... ...+ .+++.||++.
T Consensus 59 ~f~~~~~~gi~~aa~~~G~~l~i~~~~~~~~~~~q~~~i~~l~-~~~vdgIIl~~-~~~~~~--~~~l--~~~~~giPvV 132 (343)
T PRK10936 59 SYWLSVNYGMVEEAKRLGVDLKVLEAGGYYNLAKQQQQLEQCV-AWGADAILLGA-VTPDGL--NPDL--ELQAANIPVI 132 (343)
T ss_pred hHHHHHHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHH-HhCCCEEEEeC-CChHHh--HHHH--HHHHCCCCEE
Confidence 37778888899999999999988854 222 2334433 35789888743 222211 1134 3457899999
Q ss_pred EecC
Q psy9352 135 QHVS 138 (146)
Q Consensus 135 ~~~~ 138 (146)
.+++
T Consensus 133 ~~~~ 136 (343)
T PRK10936 133 ALVN 136 (343)
T ss_pred EecC
Confidence 7743
No 457
>PF03447 NAD_binding_3: Homoserine dehydrogenase, NAD binding domain; InterPro: IPR005106 Bacteria, plants and fungi metabolise aspartic acid to produce four amino acids - lysine, threonine, methionine and isoleucine - in a series of reactions known as the aspartate pathway. Additionally, several important metabolic intermediates are produced by these reactions, such as diaminopimelic acid, an essential component of bacterial cell wall biosynthesis, and dipicolinic acid, which is involved in sporulation in Gram-positive bacteria. Members of the animal kingdom do not posses this pathway and must therefore acquire these essential amino acids through their diet. Research into improving the metabolic flux through this pathway has the potential to increase the yield of the essential amino acids in important crops, thus improving their nutritional value. Additionally, since the enzymes are not present in animals, inhibitors of them are promising targets for the development of novel antibiotics and herbicides. For more information see []. Homoserine dehydrogenase (1.1.1.3 from EC) catalyses the third step in the aspartate pathway; theNAD(P)-dependent reduction of aspartate beta-semialdehyde into homoserine [, ]. Homoserine is an intermediate in the biosynthesis of threonine, isoleucine, and methionine. The enzyme can be found in a monofunctional form, in some bacteria and yeast, or a bifunctional form consisting of an N-terminal aspartokinase domain and a C-terminal homoserine dehydrogenase domain, as found in bacteria such as Escherichia coli and in plants. Structural analysis of the yeast monofunctional enzyme (P31116 from SWISSPROT) indicates that the enzyme is a dimer composed of three distinct regions; an N-terminal nucleotide-binding domain, a short central dimerisation region, and a C-terminal catalytic domain []. The N-terminal domain forms a modified Rossman fold, while the catalytic domain forms a novel alpha-beta mixed sheet. This entry represents the NAD(P)-binding domain of aspartate and homoserine dehydrogenase. Asparate dehydrogenase (1.4.1.21 from EC) is strictly specific for L-aspartate as substrate and catalyses the first step in NAD biosynthesis from aspartate. The enzyme has a higher affinity for NAD+ than NADP+ []. Note that the C terminus of the protein contributes a helix to this domain that is not covered by this model.; GO: 0016491 oxidoreductase activity, 0050661 NADP binding, 0055114 oxidation-reduction process; PDB: 3ING_A 3MTJ_A 3DO5_A 3JSA_A 3C8M_A 1J5P_A 1H2H_A 2EJW_E 1TVE_A 1EBU_D ....
Probab=32.01 E-value=1.2e+02 Score=19.75 Aligned_cols=55 Identities=9% Similarity=0.064 Sum_probs=33.0
Q ss_pred cCCeEEEEECChhhHHHHHHHH---cCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 78 LGSRLYVVQGKPEEVFPDIFKT---WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 78 ~g~~L~v~~g~~~~~l~~l~~~---~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.+++++|-.+.+ +.+.+++.+ .|+..|..|+..-.+....+ .+.+++++.|+.+.
T Consensus 58 ~~~dvvVE~t~~-~~~~~~~~~~L~~G~~VVt~nk~ala~~~~~~-~L~~~A~~~g~~~~ 115 (117)
T PF03447_consen 58 PDIDVVVECTSS-EAVAEYYEKALERGKHVVTANKGALADEALYE-ELREAARKNGVRIY 115 (117)
T ss_dssp TT-SEEEE-SSC-HHHHHHHHHHHHTTCEEEES-HHHHHSHHHHH-HHHHHHHHHT-EEE
T ss_pred cCCCEEEECCCc-hHHHHHHHHHHHCCCeEEEECHHHhhhHHHHH-HHHHHHHHcCCEEE
Confidence 367888877544 444555443 58888999886543213333 78888888888765
No 458
>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=31.99 E-value=60 Score=20.06 Aligned_cols=34 Identities=18% Similarity=0.114 Sum_probs=19.3
Q ss_pred HHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEE
Q psy9352 73 QKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 73 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~ 107 (146)
+-|.+.|...+|..+--.. .....++.|++.+..
T Consensus 47 ~~l~~~~v~~li~~~iG~~-~~~~L~~~gI~v~~~ 80 (94)
T PF02579_consen 47 KFLAEEGVDVLICGGIGEG-AFRALKEAGIKVYQG 80 (94)
T ss_dssp HHHHHTTESEEEESCSCHH-HHHHHHHTTSEEEES
T ss_pred HHHHHcCCCEEEEeCCCHH-HHHHHHHCCCEEEEc
Confidence 3444567777766543333 345555567776665
No 459
>smart00484 XPGI Xeroderma pigmentosum G I-region. domain in nucleases
Probab=31.94 E-value=64 Score=19.85 Aligned_cols=32 Identities=16% Similarity=0.078 Sum_probs=23.4
Q ss_pred hcCCeEEEEECChhhHHHHHHHHcCccEEEEe
Q psy9352 77 ALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWE 108 (146)
Q Consensus 77 ~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~ 108 (146)
.+|++.++-.++.+..+..|.++--++.|+.+
T Consensus 2 ~~gi~~i~AP~eAeAq~A~L~~~g~vdav~s~ 33 (73)
T smart00484 2 LMGIPYIVAPYEAEAQCAYLAKSGLVDAIITE 33 (73)
T ss_pred cCCCeEEEcCCcHHHHHHHHHhCCCeeEEEcC
Confidence 36888888888888888888776555555554
No 460
>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=31.78 E-value=1.9e+02 Score=23.09 Aligned_cols=60 Identities=20% Similarity=0.194 Sum_probs=34.8
Q ss_pred HHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHH-HHHHHHHHHHHhCCCeEEE
Q psy9352 75 FRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAK-KRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 75 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~-~rd~~v~~~~~~~~i~~~~ 135 (146)
++..|+.+.....+..+.+.+.+++ +...|+++....|... .--+.+.+++++.|+.+..
T Consensus 100 ~~~~g~~~~~v~~~d~~~l~~~i~~-~~~~v~~e~~~np~g~~~dl~~i~~la~~~g~~liv 160 (369)
T cd00614 100 LPKLGIEVTFVDPDDPEALEAAIKP-ETKLVYVESPTNPTLKVVDIEAIAELAHEHGALLVV 160 (369)
T ss_pred HhhcCeEEEEeCCCCHHHHHHhcCC-CCeEEEEECCCCCCCeecCHHHHHHHHHHcCCEEEE
Confidence 4456888777766545555555543 4556666443322211 1123678888888887664
No 461
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=31.74 E-value=2.2e+02 Score=21.21 Aligned_cols=56 Identities=18% Similarity=0.373 Sum_probs=36.0
Q ss_pred HHHHHHHHhcCCeEEEEECChhh----------------------HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHH
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPEE----------------------VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMA 126 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~~----------------------~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~ 126 (146)
..|.+.|.+.|...+++.|+..- .+.+|....|. |+...-.+|+...|+ .+++.+
T Consensus 41 ~ale~~L~~~G~~~y~LDGDnvR~gL~~dLgFs~edR~eniRRvaevAkll~daG~--iviva~ISP~r~~R~-~aR~~~ 117 (197)
T COG0529 41 NALEEKLFAKGYHVYLLDGDNVRHGLNRDLGFSREDRIENIRRVAEVAKLLADAGL--IVIVAFISPYREDRQ-MARELL 117 (197)
T ss_pred HHHHHHHHHcCCeEEEecChhHhhcccCCCCCChHHHHHHHHHHHHHHHHHHHCCe--EEEEEeeCccHHHHH-HHHHHh
Confidence 45778899999999999876432 23344444444 444445677777776 666665
Q ss_pred H
Q psy9352 127 K 127 (146)
Q Consensus 127 ~ 127 (146)
.
T Consensus 118 ~ 118 (197)
T COG0529 118 G 118 (197)
T ss_pred C
Confidence 4
No 462
>PRK05939 hypothetical protein; Provisional
Probab=31.73 E-value=2.3e+02 Score=23.05 Aligned_cols=60 Identities=15% Similarity=0.199 Sum_probs=36.9
Q ss_pred HHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHH-HHHHHHHHhCCCeEEE
Q psy9352 75 FRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRD-GLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 75 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd-~~v~~~~~~~~i~~~~ 135 (146)
++..|+.+.+..-...+.+.+.+.. +...|+++....|.....| +.+.+++++.|+.+..
T Consensus 106 l~~~G~~v~~v~~~d~e~l~~~l~~-~tklV~vesp~NptG~v~dl~~I~~la~~~gi~liv 166 (397)
T PRK05939 106 LRGLGVEVTMVDATDVQNVAAAIRP-NTRMVFVETIANPGTQVADLAGIGALCRERGLLYVV 166 (397)
T ss_pred HHhcCCEEEEECCCCHHHHHHhCCC-CCeEEEEECCCCCCCCHHhHHHHHHHHHHcCCEEEE
Confidence 5567888877765444556665543 4556777544334332222 4788888889986654
No 463
>PF12813 XPG_I_2: XPG domain containing
Probab=31.64 E-value=1e+02 Score=23.57 Aligned_cols=33 Identities=12% Similarity=0.330 Sum_probs=24.5
Q ss_pred HHHHHHhc---CCeEEEEECChhhHHHHHHHHcCcc
Q psy9352 71 LDQKFRAL---GSRLYVVQGKPEEVFPDIFKTWNIK 103 (146)
Q Consensus 71 L~~~L~~~---g~~L~v~~g~~~~~l~~l~~~~~~~ 103 (146)
+.+.|+++ |+..++..|++...+..+++++|..
T Consensus 9 ~~e~L~~~~~~~~~~~~~~~EAD~~~A~~A~~~~~~ 44 (246)
T PF12813_consen 9 FIEALRESWRYGVPVVQCPGEADRECAALARKWGCP 44 (246)
T ss_pred HHHHHHHHhhcCCcEEEcCccchHHHHHHHHHcCCe
Confidence 34455555 8888888888888888888887763
No 464
>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=31.63 E-value=1.5e+02 Score=19.16 Aligned_cols=71 Identities=11% Similarity=0.138 Sum_probs=48.4
Q ss_pred HHHHHHHHHHhcCCeEEEEECCh-hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhC--CCeEEEecC
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKP-EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEY--KVKVEQHVS 138 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~-~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~--~i~~~~~~~ 138 (146)
++.-+...|++.|.+..++..+. .+.+.+.+.+.+.+.|.++-.+++.... ...+.+..++. ++.+..-..
T Consensus 16 Gl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~~~~~-~~~l~~~~k~~~p~~~iv~GG~ 89 (121)
T PF02310_consen 16 GLLYLAAYLRKAGHEVDILDANVPPEELVEALRAERPDVVGISVSMTPNLPE-AKRLARAIKERNPNIPIVVGGP 89 (121)
T ss_dssp HHHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHHTTCSEEEEEESSSTHHHH-HHHHHHHHHTTCTTSEEEEEES
T ss_pred HHHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhcCCCcEEEEEccCcCcHHH-HHHHHHHHHhcCCCCEEEEECC
Confidence 46677888888999998886553 4677778888899999998756654333 33555555553 566654433
No 465
>COG2403 Predicted GTPase [General function prediction only]
Probab=31.59 E-value=1.2e+02 Score=25.30 Aligned_cols=61 Identities=8% Similarity=0.055 Sum_probs=40.3
Q ss_pred HHHHHHhcCCeEEEEECChhhHHHHHHHHcCcc-EEEEeeecChhHHHHHHHHHHHHHhCCCeEEEe
Q psy9352 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIK-LLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQH 136 (146)
Q Consensus 71 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~-~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~ 136 (146)
|...+...|++++.-.. -+.|.+++++++++ .|+.-.+.++..+- .+.+..-..|..+..+
T Consensus 54 leg~~~p~Gvpi~~~k~--~~~lek~ire~~VD~~VlaySDvs~e~v~---~IaS~vLs~GA~f~~~ 115 (449)
T COG2403 54 LEGVLYPLGVPILPEKD--YDDLEKIIREKDVDIVVLAYSDVSYEHVF---RIASRVLSAGADFKEL 115 (449)
T ss_pred cccccccCCcccccccc--HHHHHHHHHHcCCCeEEEEcccCCHHHHH---HHHHHHHhCCceeEEe
Confidence 55566778888774333 67889999999999 55555555544222 4555555678877744
No 466
>KOG0053|consensus
Probab=31.52 E-value=1.7e+02 Score=24.38 Aligned_cols=63 Identities=21% Similarity=0.174 Sum_probs=41.6
Q ss_pred HHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHH-HHHHHHHHhCCCeEE
Q psy9352 71 LDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRD-GLVEDMAKEYKVKVE 134 (146)
Q Consensus 71 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd-~~v~~~~~~~~i~~~ 134 (146)
+++-+.+.|+.-..+..+-.+-+...+++ +++.||++...-|.-+--| ..+++++++.|+.+.
T Consensus 133 l~~~~~~~gie~~~vd~~~~~~~~~~i~~-~t~~V~~ESPsNPll~v~DI~~l~~la~~~g~~vv 196 (409)
T KOG0053|consen 133 LRKFLPKFGGEGDFVDVDDLKKILKAIKE-NTKAVFLESPSNPLLKVPDIEKLARLAHKYGFLVV 196 (409)
T ss_pred HHHHHHHhCceeeeechhhHHHHHHhhcc-CceEEEEECCCCCccccccHHHHHHHHhhCCCEEE
Confidence 44445567777777776666666777766 7888888776655544333 356777777887554
No 467
>cd03030 GRX_SH3BGR Glutaredoxin (GRX) family, SH3BGR (SH3 domain binding glutamic acid-rich protein) subfamily; a recently-identified subfamily composed of SH3BGR and similar proteins possessing significant sequence similarity to GRX, but without a redox active CXXC motif. The SH3BGR gene was cloned in an effort to identify genes mapping to chromosome 21, which could be involved in the pathogenesis of congenital heart disease affecting Down syndrome newborns. Several human SH3BGR-like (SH3BGRL) genes have been identified since, mapping to different locations in the chromosome. Of these, SH3BGRL3 was identified as a tumor necrosis factor (TNF) alpha inhibitory protein and was also named TIP-B1. Upregulation of expression of SH3BGRL3 is associated with differentiation. It has been suggested that it functions as a regulator of differentiation-related signal transduction pathways.
Probab=31.47 E-value=1.4e+02 Score=19.06 Aligned_cols=11 Identities=9% Similarity=0.160 Sum_probs=4.9
Q ss_pred HHHHHHHcCcc
Q psy9352 93 FPDIFKTWNIK 103 (146)
Q Consensus 93 l~~l~~~~~~~ 103 (146)
+..|.+..+|.
T Consensus 22 v~~lL~~k~I~ 32 (92)
T cd03030 22 VLGFLEAKKIE 32 (92)
T ss_pred HHHHHHHCCCc
Confidence 33444444443
No 468
>cd03334 Fab1_TCP TCP-1 like domain of the eukaryotic phosphatidylinositol 3-phosphate (PtdIns3P) 5-kinase Fab1. Fab1p is important for vacuole size regulation, presumably by modulating PtdIns(3,5)P2 effector activity. In the human homolog p235/PIKfyve deletion of this domain leads to loss of catalytic activity. However no exact function this domain has been defined. In general, chaperonins are involved in productive folding of proteins.
Probab=31.30 E-value=1.3e+02 Score=23.02 Aligned_cols=40 Identities=20% Similarity=0.264 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEE
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLT 106 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~ 106 (146)
-+.+.-+.+.+.|..+++..+...+....++.+.|+..|-
T Consensus 118 ~l~~~v~kI~~~g~nvIl~~k~I~~~a~~~l~k~gI~~v~ 157 (261)
T cd03334 118 YLKNLVSRIVALRPDVILVEKSVSRIAQDLLLEAGITLVL 157 (261)
T ss_pred HHHHHHHHHHhcCCCEEEECCccCHHHHHHHHHCCCEEEE
Confidence 3455556667789999999999888888999998886553
No 469
>TIGR03677 rpl7ae 50S ribosomal protein L7Ae. Multifunctional RNA-binding protein that recognizes the K-turn motif in ribosomal RNA, box H/ACA, box C/D and box C'/D' sRNAs. Interacts with protein L15e.
Probab=31.17 E-value=1.7e+02 Score=19.66 Aligned_cols=36 Identities=14% Similarity=0.201 Sum_probs=15.7
Q ss_pred HHHHHHHHhcCCeEEEEECChh-----hHHHHHHHHcCccE
Q psy9352 69 ADLDQKFRALGSRLYVVQGKPE-----EVFPDIFKTWNIKL 104 (146)
Q Consensus 69 ~~L~~~L~~~g~~L~v~~g~~~-----~~l~~l~~~~~~~~ 104 (146)
.+..+.+++--..|+|+.+|.. .-++.+|++.++..
T Consensus 32 ~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~ 72 (117)
T TIGR03677 32 NEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPY 72 (117)
T ss_pred HHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCE
Confidence 3334444443445555544331 22444455555553
No 470
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=31.15 E-value=1.7e+02 Score=19.79 Aligned_cols=44 Identities=11% Similarity=0.225 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEECChh-----hHHHHHHHHcCccEEEE
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQGKPE-----EVFPDIFKTWNIKLLTW 107 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g~~~-----~~l~~l~~~~~~~~v~~ 107 (146)
+..++.+..+.+++.-..|+++..|.. ..++.+|++.++--+++
T Consensus 28 i~~G~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V 76 (116)
T COG1358 28 LKKGTNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYV 76 (116)
T ss_pred chhhHHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEe
Confidence 556777788888877778888876644 45888999999988887
No 471
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=31.11 E-value=2.1e+02 Score=23.34 Aligned_cols=55 Identities=9% Similarity=-0.122 Sum_probs=0.0
Q ss_pred EEEC-ChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 84 VVQG-KPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 84 v~~g-~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
|+.| ...+.+.+.++++|.+++.+--+-.....-.-+.+.+.+++.||.+..|++
T Consensus 30 i~fG~g~~~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~ 85 (395)
T PRK15454 30 TLCGPGAVSSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPC 85 (395)
T ss_pred EEECcCHHHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECC
No 472
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=31.10 E-value=2.5e+02 Score=21.67 Aligned_cols=69 Identities=14% Similarity=0.131 Sum_probs=46.5
Q ss_pred HHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecCC
Q psy9352 68 LADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSH 139 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~ 139 (146)
-.++...|...|.+.....+..... ..+...+-+.|++--.+.++..+-- ...+.+++.|+++...-++
T Consensus 145 A~~~~~~l~~ig~~~~~~~d~~~~~--~~~~~~~~~Dv~i~iS~sG~t~e~i-~~a~~ak~~ga~vIaiT~~ 213 (281)
T COG1737 145 ASDLAYKLMRIGLNVVALSDTHGQL--MQLALLTPGDVVIAISFSGYTREIV-EAAELAKERGAKVIAITDS 213 (281)
T ss_pred HHHHHHHHHHcCCceeEecchHHHH--HHHHhCCCCCEEEEEeCCCCcHHHH-HHHHHHHHCCCcEEEEcCC
Confidence 4567788888898888877766544 2444455566666667777666655 5556667888888776543
No 473
>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=31.03 E-value=1e+02 Score=18.26 Aligned_cols=53 Identities=17% Similarity=0.328 Sum_probs=30.6
Q ss_pred HHHHHHhcCCCCCCCceEEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHH
Q psy9352 23 ALLSAINYKNEKGQNILLKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFK 98 (146)
Q Consensus 23 aL~~A~~~~~~~~~~~~l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~ 98 (146)
+..+|.+.... +..+|+-+. .. ..+ +.++.+.+++.|++++.... +.+.+++.
T Consensus 7 ~V~eaL~~~~~------i~~l~~~~~--~~-----~~~-------~~~i~~~~~~~~i~v~~v~~---~~l~~ls~ 59 (76)
T PF08032_consen 7 AVEEALKSGPR------IKKLFVTEE--KA-----DKR-------IKEILKLAKKKGIPVYEVSK---KVLDKLSD 59 (76)
T ss_dssp HHHHHHHCTGG------EEEEEEETT----------CC-------THHHHHHHHHCT-EEEEE-H---HHHHHCTT
T ss_pred HHHHHHcCCCC------ccEEEEEcC--cc-----chh-------HHHHHHHHHHcCCeEEEeCH---HHHHHHcC
Confidence 45566665433 778888765 11 112 45666777778999988844 44555554
No 474
>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=30.95 E-value=55 Score=20.47 Aligned_cols=42 Identities=12% Similarity=0.086 Sum_probs=22.8
Q ss_pred HHHHHHHcCccEEEEeeec-ChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 93 FPDIFKTWNIKLLTWEYDI-EPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 93 l~~l~~~~~~~~v~~~~~~-~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
+.+++++-+++-|+.+... +.....-...+++.+.+.+|++.
T Consensus 47 i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 47 ILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIPGA 89 (90)
T ss_pred HHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCCee
Confidence 4556666677777665432 22122223466666767777653
No 475
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=30.95 E-value=1.3e+02 Score=22.66 Aligned_cols=81 Identities=10% Similarity=0.150 Sum_probs=45.8
Q ss_pred EEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHH
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRD 119 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd 119 (146)
.+-+=+.|-.+--.-.+|+ +.++++++..-+.-...|+...+|...++.+++ .|++.|.++-+.+.+- .
T Consensus 32 ~lHiDimDG~FVPN~tfg~-------~~i~~lr~~~~~~~~dvHLMv~~P~~~i~~~~~-~gad~I~~H~Ea~~~~-~-- 100 (223)
T PRK08745 32 WVHFDVMDNHYVPNLTIGP-------MVCQALRKHGITAPIDVHLMVEPVDRIVPDFAD-AGATTISFHPEASRHV-H-- 100 (223)
T ss_pred EEEEecccCccCCCcccCH-------HHHHHHHhhCCCCCEEEEeccCCHHHHHHHHHH-hCCCEEEEcccCcccH-H--
Confidence 5555555544332223344 334555543123345667788899998888777 5999999977754331 1
Q ss_pred HHHHHHHHhCCCe
Q psy9352 120 GLVEDMAKEYKVK 132 (146)
Q Consensus 120 ~~v~~~~~~~~i~ 132 (146)
.+.+..++.|++
T Consensus 101 -~~l~~Ir~~g~k 112 (223)
T PRK08745 101 -RTIQLIKSHGCQ 112 (223)
T ss_pred -HHHHHHHHCCCc
Confidence 233444555653
No 476
>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=30.88 E-value=1.2e+02 Score=18.02 Aligned_cols=43 Identities=21% Similarity=0.276 Sum_probs=30.2
Q ss_pred HHHHHHHHHhc--CCeEEEEECChh--hHHHHHHHHcCccEEEEeee
Q psy9352 68 LADLDQKFRAL--GSRLYVVQGKPE--EVFPDIFKTWNIKLLTWEYD 110 (146)
Q Consensus 68 L~~L~~~L~~~--g~~L~v~~g~~~--~~l~~l~~~~~~~~v~~~~~ 110 (146)
+-.+++.|++. |..|.|+..++. +-++.++++.|-+-+..+.+
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 34567777765 566888776544 66899999988887766553
No 477
>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=30.87 E-value=75 Score=19.41 Aligned_cols=26 Identities=27% Similarity=0.541 Sum_probs=21.5
Q ss_pred hhhHHHHHHHHHHHHHHHHhcCCeEE
Q psy9352 58 PNRWRFLQQSLADLDQKFRALGSRLY 83 (146)
Q Consensus 58 ~~r~~Fl~~sL~~L~~~L~~~g~~L~ 83 (146)
+.-...|.+.+.+|++.|++.|+.+.
T Consensus 47 ~~~~~~L~~~~~~L~~~L~~~G~~~~ 72 (85)
T PF02120_consen 47 PETKELLRQNLPELKERLQAQGLEVV 72 (85)
T ss_dssp SHHHHHHHHTHHHHHHHHHTTT-EEE
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCeE
Confidence 34567999999999999999999875
No 478
>PRK08005 epimerase; Validated
Probab=30.85 E-value=1.3e+02 Score=22.42 Aligned_cols=80 Identities=11% Similarity=0.066 Sum_probs=46.4
Q ss_pred EEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHH
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRD 119 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd 119 (146)
.+-+=+.|-.+--.-.+|+ +-++++++. -......|+...+|...++.+++ .|++.|.++-+.+++-.
T Consensus 29 ~lHiDvMDG~FVPN~tfG~-------~~i~~l~~~-t~~~~DvHLMv~~P~~~i~~~~~-~gad~It~H~Ea~~~~~--- 96 (210)
T PRK08005 29 SLHLDIEDTSFINNITFGM-------KTIQAVAQQ-TRHPLSFHLMVSSPQRWLPWLAA-IRPGWIFIHAESVQNPS--- 96 (210)
T ss_pred EEEEeccCCCcCCccccCH-------HHHHHHHhc-CCCCeEEEeccCCHHHHHHHHHH-hCCCEEEEcccCccCHH---
Confidence 5555555544332222343 334444443 23456778888999998888776 59999999877553321
Q ss_pred HHHHHHHHhCCCe
Q psy9352 120 GLVEDMAKEYKVK 132 (146)
Q Consensus 120 ~~v~~~~~~~~i~ 132 (146)
.+.+.+++.|++
T Consensus 97 -~~l~~Ik~~G~k 108 (210)
T PRK08005 97 -EILADIRAIGAK 108 (210)
T ss_pred -HHHHHHHHcCCc
Confidence 233444555654
No 479
>PRK09482 flap endonuclease-like protein; Provisional
Probab=30.83 E-value=1.9e+02 Score=22.39 Aligned_cols=47 Identities=19% Similarity=0.296 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHhcCCeEEEEEC-ChhhHHHHHHHH---cCccEEEEeee
Q psy9352 64 LQQSLADLDQKFRALGSRLYVVQG-KPEEVFPDIFKT---WNIKLLTWEYD 110 (146)
Q Consensus 64 l~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~---~~~~~v~~~~~ 110 (146)
+...+..+++-|...|++.+...| ++.+++..++.+ .+...++++.|
T Consensus 82 l~~Q~~~i~~~l~~~gi~~~~~~g~EADDvIatla~~~~~~~~~v~I~S~D 132 (256)
T PRK09482 82 LQQGLPAIRAAFEELGIDSWHADGNEADDLIATLAVKVAQAGHQATIVSTD 132 (256)
T ss_pred HHHHHHHHHHHHHhCCCCEeccCCcCHHHHHHHHHHHHHHCCCeEEEEECC
Confidence 455678888999999999988888 777888888765 34455555543
No 480
>PRK09193 indolepyruvate ferredoxin oxidoreductase; Validated
Probab=30.78 E-value=2.9e+02 Score=26.41 Aligned_cols=82 Identities=9% Similarity=-0.032 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHhc-CCeEEEEE--------CC------hhhHHHHHHHHcCccEEEEe-eec-ChhHH--------
Q psy9352 62 RFLQQSLADLDQKFRAL-GSRLYVVQ--------GK------PEEVFPDIFKTWNIKLLTWE-YDI-EPYAK-------- 116 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~-g~~L~v~~--------g~------~~~~l~~l~~~~~~~~v~~~-~~~-~~~~~-------- 116 (146)
.|++.++..|.+..... ++.+.|+. |+ +...|.++++..|++.|..- .+. ...+.
T Consensus 510 TffHSG~~al~~AV~~~~nit~~IL~N~~vAMTGgQ~~~g~~~~~~i~~~~~a~GV~~v~vv~ddp~~~~~~~~~~~~v~ 589 (1165)
T PRK09193 510 TYFHSGLLAIRAAVAAGVNITYKILYNDAVAMTGGQPVDGGLSVPQITRQLAAEGVKRIVVVTDEPEKYDGVARLAPGVT 589 (1165)
T ss_pred cchhcCHHHHHHHHhcCCCeEEEEEeCCcccccCCCCCCCCcchhhHHHHHHhCCCCEEEEeCCChhhhhhccccCcCcc
Confidence 58999999999987643 66677765 22 23456788888999988764 222 21111
Q ss_pred ----HHHHHHHHHH-HhCCCeEEEecCCeeee
Q psy9352 117 ----KRDGLVEDMA-KEYKVKVEQHVSHTLYN 143 (146)
Q Consensus 117 ----~rd~~v~~~~-~~~~i~~~~~~~~~L~~ 143 (146)
..-+.+++.+ +..|+.+..++..|...
T Consensus 590 ~~~R~~l~~vq~~lr~~~GvsViI~~q~Ca~e 621 (1165)
T PRK09193 590 VHHRDELDAVQRELREIPGVTVLIYDQTCAAE 621 (1165)
T ss_pred cccHHHHHHHHHHHhcCCCcEEEEEcCcCcch
Confidence 1124677777 56899999999887653
No 481
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=30.73 E-value=2.5e+02 Score=21.57 Aligned_cols=20 Identities=20% Similarity=0.273 Sum_probs=10.2
Q ss_pred HHHHHHHcCccEEEEeeecC
Q psy9352 93 FPDIFKTWNIKLLTWEYDIE 112 (146)
Q Consensus 93 l~~l~~~~~~~~v~~~~~~~ 112 (146)
+.+++++.++..|+++..+.
T Consensus 202 l~~~ik~~~v~~if~e~~~~ 221 (276)
T cd01016 202 LVDLIVERKIKAIFVESSVN 221 (276)
T ss_pred HHHHHHHcCCCEEEEeCCCC
Confidence 33444555666666654443
No 482
>cd04196 GT_2_like_d 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=30.73 E-value=1.9e+02 Score=20.17 Aligned_cols=40 Identities=10% Similarity=0.170 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEECC----hhhHHHHHHHHcC
Q psy9352 61 WRFLQQSLADLDQKFRALGSRLYVVQGK----PEEVFPDIFKTWN 101 (146)
Q Consensus 61 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~----~~~~l~~l~~~~~ 101 (146)
..+|.++|..+.++-.. ..+++|.... ..+++.++..+++
T Consensus 10 ~~~l~~~l~sl~~q~~~-~~eiiVvddgS~d~t~~~~~~~~~~~~ 53 (214)
T cd04196 10 EKYLREQLDSILAQTYK-NDELIISDDGSTDGTVEIIKEYIDKDP 53 (214)
T ss_pred HHHHHHHHHHHHhCcCC-CeEEEEEeCCCCCCcHHHHHHHHhcCC
Confidence 36788888888776432 5667776532 3345555555543
No 483
>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=30.64 E-value=2.6e+02 Score=22.30 Aligned_cols=18 Identities=39% Similarity=0.772 Sum_probs=9.2
Q ss_pred HHHHHHHHHhcCCeEEEEE
Q psy9352 68 LADLDQKFRALGSRLYVVQ 86 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~ 86 (146)
+.+|.+.+++.| +..|+.
T Consensus 11 l~~l~~~l~~~g-r~lvVt 28 (366)
T PF00465_consen 11 LEELGEELKRLG-RVLVVT 28 (366)
T ss_dssp GGGHHHHHHCTT-EEEEEE
T ss_pred HHHHHHHHHhcC-CEEEEE
Confidence 445555555555 444444
No 484
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=30.47 E-value=1.5e+02 Score=22.58 Aligned_cols=66 Identities=17% Similarity=0.316 Sum_probs=41.8
Q ss_pred EEEEEEECCCccCCCCCChhhHHHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChh
Q psy9352 40 LKPLYILDPHFRKFMRVGPNRWRFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPY 114 (146)
Q Consensus 40 l~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~ 114 (146)
.+-+=+.|-.+--.-.+|+ .-++.+++ ..+.-...|+...+|...++++++. |++-|.++-+.++.
T Consensus 32 ~iH~DVMDghFVPNiTfGp-------~~v~~l~~-~t~~p~DvHLMV~~p~~~i~~fa~a-gad~It~H~E~~~~ 97 (220)
T COG0036 32 LIHIDVMDGHFVPNITFGP-------PVVKALRK-ITDLPLDVHLMVENPDRYIEAFAKA-GADIITFHAEATEH 97 (220)
T ss_pred EEEEeccCCCcCCCcccCH-------HHHHHHhh-cCCCceEEEEecCCHHHHHHHHHHh-CCCEEEEEeccCcC
Confidence 6666666654433223344 23333433 2334567788889999999888875 79999998775543
No 485
>PTZ00032 60S ribosomal protein L18; Provisional
Probab=30.39 E-value=1.3e+02 Score=22.69 Aligned_cols=41 Identities=5% Similarity=-0.026 Sum_probs=28.5
Q ss_pred HHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeE
Q psy9352 92 VFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKV 133 (146)
Q Consensus 92 ~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~ 133 (146)
.|.+-+.+-||+.|++++.--. .--|-+++++.+++.|+.|
T Consensus 171 ~IAerAl~kGI~kVvFDRgGy~-YHGRVkALAdaARe~GLkF 211 (211)
T PTZ00032 171 LIGRKALSKGISKVRFDRAHYK-YAGKVEALAEGARAVGLQF 211 (211)
T ss_pred HHHHHHHHCCCCEEEEeCCCCe-ehhHHHHHHHHHHHcCCCC
Confidence 4555566679999999864222 2345668999999888754
No 486
>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=30.38 E-value=1.5e+02 Score=21.11 Aligned_cols=70 Identities=21% Similarity=0.198 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEE------CC---hhhHHHHHHHHcCccEEEEeeec------ChhHH---HHHHHHHH
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQ------GK---PEEVFPDIFKTWNIKLLTWEYDI------EPYAK---KRDGLVED 124 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~------g~---~~~~l~~l~~~~~~~~v~~~~~~------~~~~~---~rd~~v~~ 124 (146)
.|+..|.+++. ..|..+.++. .+ ..+.+.++++++++...+...+. ...+. .|-+.+.+
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 44444544444 3456776654 22 23578899999999888876663 22222 23346667
Q ss_pred HHHhCCCeEEE
Q psy9352 125 MAKEYKVKVEQ 135 (146)
Q Consensus 125 ~~~~~~i~~~~ 135 (146)
.+.+.|+....
T Consensus 91 ~a~~~g~~~i~ 101 (182)
T PF01171_consen 91 IAKEEGCNKIA 101 (182)
T ss_dssp HHHTTT-CEEE
T ss_pred hhhccccccee
Confidence 77788887664
No 487
>TIGR02739 TraF type-F conjugative transfer system pilin assembly protein TraF. This protein is part of a large group of proteins involved in conjugative transfer of plasmid DNA, specifically the F-type system. This protein has been predicted to contain a thioredoxin fold and has been shown to be localized to the periplasm. Unlike the related protein TrbB (TIGR02738), TraF does not contain a conserved pair of cysteines and has been shown not to function as a thiol disulfide isomerase by complementation of an Ecoli DsbA defect. The protein is believed to be involved in pilin assembly. Even more closely related than TrbB is a clade of genes (TIGR02740) which do contain the CXXC motif, but it is unclear whether these genes are involved in type-F conjugation systems per se.
Probab=30.33 E-value=1.7e+02 Score=22.70 Aligned_cols=22 Identities=18% Similarity=0.244 Sum_probs=15.5
Q ss_pred hhHHHHHHHHcCccEEEEeeec
Q psy9352 90 EEVFPDIFKTWNIKLLTWEYDI 111 (146)
Q Consensus 90 ~~~l~~l~~~~~~~~v~~~~~~ 111 (146)
..+|..|++++|++.+.++-|-
T Consensus 169 apil~~fa~~ygi~v~~VS~DG 190 (256)
T TIGR02739 169 APVIQAFAKEYGISVIPISVDG 190 (256)
T ss_pred HHHHHHHHHHhCCeEEEEecCC
Confidence 3467777778888777776663
No 488
>PF02589 DUF162: Uncharacterised ACR, YkgG family COG1556; InterPro: IPR003741 This entry represents a domain found in lactate utilization proteins B (LutB) and C (LutC), as well as several uncharacterised proteins. Lactate utilization proteins B and C are involved in L-lactate degradation and allows cells to grow with lactate as the sole carbon source. LutB probably has a role as an electron transporter during oxidation of L-lactate.; PDB: 2G40_A.
Probab=30.33 E-value=92 Score=22.24 Aligned_cols=35 Identities=14% Similarity=0.235 Sum_probs=24.6
Q ss_pred HHHHHHHHHhcCCeEEEEEC--ChhhHHHHHHHHcCc
Q psy9352 68 LADLDQKFRALGSRLYVVQG--KPEEVFPDIFKTWNI 102 (146)
Q Consensus 68 L~~L~~~L~~~g~~L~v~~g--~~~~~l~~l~~~~~~ 102 (146)
|+.+.++|++.|..++.... +..+.+.+++++.++
T Consensus 1 ie~f~~~l~~~g~~v~~~~~~~ea~~~i~~~i~~~~~ 37 (189)
T PF02589_consen 1 IEKFIKNLEANGGEVHRAKTKEEAAEAIAEIIKEKGA 37 (189)
T ss_dssp --HHHHHHHHTT-EEEEE-T-TTHHHHHHHHHTT---
T ss_pred CHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhcc
Confidence 46788999999999998875 677889999988765
No 489
>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=30.28 E-value=2.2e+02 Score=20.75 Aligned_cols=69 Identities=14% Similarity=0.047 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEECC--hh---hHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEec
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQGK--PE---EVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHV 137 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~ 137 (146)
|+.+-+..+++.+++.|..+.+...+ +. +.+.. ....+++.|++....... +.......++++..++
T Consensus 14 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~-l~~~~~dgiii~~~~~~~-------~~~~~~~~~ipvv~~~ 85 (269)
T cd06288 14 FAVEIILGAQDAAREHGYLLLVVNTGGDDELEAEAVEA-LLDHRVDGIIYATMYHRE-------VTLPPELLSVPTVLLN 85 (269)
T ss_pred cHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEecCCCCh-------hHHHHHhcCCCEEEEe
Confidence 56666777788888899998887643 22 22333 344688888885432211 1112234678888776
Q ss_pred CC
Q psy9352 138 SH 139 (146)
Q Consensus 138 ~~ 139 (146)
..
T Consensus 86 ~~ 87 (269)
T cd06288 86 CY 87 (269)
T ss_pred cc
Confidence 43
No 490
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=30.15 E-value=2.8e+02 Score=22.31 Aligned_cols=70 Identities=10% Similarity=0.059 Sum_probs=45.7
Q ss_pred HHHHHHHHHHhcCCeEEEEECChhhHHHHHHHH--cCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 67 SLADLDQKFRALGSRLYVVQGKPEEVFPDIFKT--WNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 67 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~--~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
-+++|++.+++.|+.++-..-.....++.-.+. -+++.+|.-.+..... --..+.....+.+|++..-++
T Consensus 176 l~eelk~~A~~~Gl~vve~~v~~~ndi~~a~~~l~g~~d~i~~p~dn~i~s--~~~~l~~~a~~~kiPli~sd~ 247 (322)
T COG2984 176 LVEELKKEARKAGLEVVEAAVTSVNDIPRAVQALLGKVDVIYIPTDNLIVS--AIESLLQVANKAKIPLIASDT 247 (322)
T ss_pred HHHHHHHHHHHCCCEEEEEecCcccccHHHHHHhcCCCcEEEEecchHHHH--HHHHHHHHHHHhCCCeecCCH
Confidence 378889999999999987764333333333332 3688999987776432 222555556678898876554
No 491
>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=30.14 E-value=1.4e+02 Score=23.20 Aligned_cols=40 Identities=13% Similarity=0.115 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHhcCCeEEEEE-CChhhHHHHHHHHcCccEE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQ-GKPEEVFPDIFKTWNIKLL 105 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~v 105 (146)
+.|.++.+.+++.|++.++.+ +.+...+..++++.|+..+
T Consensus 213 ~~l~~l~~~ik~~~v~~if~e~~~~~~~~~~ia~~~gv~v~ 253 (287)
T cd01137 213 KQVATLIEQVKKEKVPAVFVESTVNDRLMKQVAKETGAKIG 253 (287)
T ss_pred HHHHHHHHHHHHhCCCEEEEeCCCChHHHHHHHHHhCCccc
No 492
>cd01821 Rhamnogalacturan_acetylesterase_like Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are highly branched regions in pectic polysaccharides, consisting of repeating -(1,2)-L-Rha-(1,4)-D-GalUA disaccharide units, with many rhamnose residues substituted by neutral oligosaccharides such as arabinans, galactans and arabinogalactans. Extracellular enzymes participating in the degradation of plant cell wall polymers, such as Rhamnogalacturonan acetylesterase, would typically be found in saprophytic and plant pathogenic fungi and bacteria.
Probab=30.01 E-value=2e+02 Score=20.31 Aligned_cols=25 Identities=20% Similarity=0.138 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEEEC
Q psy9352 63 FLQQSLADLDQKFRALGSRLYVVQG 87 (146)
Q Consensus 63 Fl~~sL~~L~~~L~~~g~~L~v~~g 87 (146)
=+.+.+..+-+.+++.|..++++..
T Consensus 91 ~~~~nl~~ii~~~~~~~~~~il~tp 115 (198)
T cd01821 91 TYKEYLRRYIAEARAKGATPILVTP 115 (198)
T ss_pred HHHHHHHHHHHHHHHCCCeEEEECC
Confidence 3578889999999999998877643
No 493
>PLN02919 haloacid dehalogenase-like hydrolase family protein
Probab=29.97 E-value=2.4e+02 Score=26.49 Aligned_cols=66 Identities=12% Similarity=0.048 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCc-----cEEEEeeecChhHHHHHHHHHHHHHhCCC
Q psy9352 65 QQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNI-----KLLTWEYDIEPYAKKRDGLVEDMAKEYKV 131 (146)
Q Consensus 65 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~-----~~v~~~~~~~~~~~~rd~~v~~~~~~~~i 131 (146)
+.++.++=+.|++.|+++.|..+...+.+....+..++ +.++...+....--..+ .+..++++.|+
T Consensus 163 ~pG~~elL~~Lk~~G~~l~IvSn~~~~~~~~~L~~~gl~~~~Fd~iv~~~~~~~~KP~Pe-~~~~a~~~lgv 233 (1057)
T PLN02919 163 FPGALELITQCKNKGLKVAVASSADRIKVDANLAAAGLPLSMFDAIVSADAFENLKPAPD-IFLAAAKILGV 233 (1057)
T ss_pred CccHHHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHcCCChhHCCEEEECcccccCCCCHH-HHHHHHHHcCc
Confidence 34666777899999999999998877776666666654 55665544431101112 44445555554
No 494
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=29.94 E-value=2.8e+02 Score=21.86 Aligned_cols=72 Identities=11% Similarity=0.054 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHH--HHHHHHHHHHHhCCCeEEE
Q psy9352 62 RFLQQSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAK--KRDGLVEDMAKEYKVKVEQ 135 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~--~rd~~v~~~~~~~~i~~~~ 135 (146)
.++...+..+.++. +..+-|++=+|...+.+.+-+ +.|.+.|-+..+..|++. +.-+.+.+.+...||.|+.
T Consensus 60 ~~~~~~~~~~a~~~-~VPValHLDHg~~~e~i~~ai-~~GFtSVM~DgS~lp~eeNi~~T~evv~~Ah~~gv~VEa 133 (286)
T PRK12738 60 EEIYALCSAYSTTY-NMPLALHLDHHESLDDIRRKV-HAGVRSAMIDGSHFPFAENVKLVKSVVDFCHSQDCSVEA 133 (286)
T ss_pred HHHHHHHHHHHHHC-CCCEEEECCCCCCHHHHHHHH-HcCCCeEeecCCCCCHHHHHHHHHHHHHHHHHcCCeEEE
Confidence 44555555555543 234445666787777776644 569999999888777764 4446777788888987764
No 495
>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=29.77 E-value=2.3e+02 Score=20.87 Aligned_cols=71 Identities=8% Similarity=-0.159 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhcC-CeEEEEECCh--hhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEEEecC
Q psy9352 62 RFLQQSLADLDQKFRALG-SRLYVVQGKP--EEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVEQHVS 138 (146)
Q Consensus 62 ~Fl~~sL~~L~~~L~~~g-~~L~v~~g~~--~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~ 138 (146)
-|..+-+..+++.+++.| ..+++..... .+.+.+.. ..+++.|++..... . +......+++.++++..++.
T Consensus 11 ~~~~~~~~~i~~~l~~~g~~~l~~~~~~~~~~~~~~~~~-~~~vdGvIi~~~~~-~----~~~~~~~~~~~~~PvV~i~~ 84 (247)
T cd06276 11 SFKEIIYNSFVNTLGKNAQVDLYFHHYNEDLFKNIISNT-KGKYSGYVVMPHFK-N----EIQYFLLKKIPKEKLLILDH 84 (247)
T ss_pred hHHHHHHHHHHHHHHhcCcEEEEEEcCchHHHHHHHHHH-hcCCCEEEEecCCC-C----cHHHHHHhccCCCCEEEEcC
Confidence 477788899999999999 8877765432 22333332 57898888742211 1 11233444556788888764
No 496
>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=29.69 E-value=1.5e+02 Score=22.16 Aligned_cols=12 Identities=17% Similarity=0.551 Sum_probs=5.0
Q ss_pred HHHHcCccEEEE
Q psy9352 96 IFKTWNIKLLTW 107 (146)
Q Consensus 96 l~~~~~~~~v~~ 107 (146)
.+++.|....+|
T Consensus 226 ~~~~~G~~v~vw 237 (263)
T cd08567 226 EAHALGLKVVPW 237 (263)
T ss_pred HHHHCCCEEEEe
Confidence 334444443333
No 497
>PF13728 TraF: F plasmid transfer operon protein
Probab=29.66 E-value=1.5e+02 Score=22.12 Aligned_cols=84 Identities=17% Similarity=0.216 Sum_probs=45.6
Q ss_pred ChhhHHHHHHHHHHHHHHHHhc--CCeEEEEE-CC------hhhHHHHHHHHcCccEEEEeeecChh----HHHHHHHHH
Q psy9352 57 GPNRWRFLQQSLADLDQKFRAL--GSRLYVVQ-GK------PEEVFPDIFKTWNIKLLTWEYDIEPY----AKKRDGLVE 123 (146)
Q Consensus 57 ~~~r~~Fl~~sL~~L~~~L~~~--g~~L~v~~-g~------~~~~l~~l~~~~~~~~v~~~~~~~~~----~~~rd~~v~ 123 (146)
+..+..+..+.-.+-++.|+++ +..|+++. |+ ...++..|++++|++.+.++-|-.+. ....+..+.
T Consensus 97 ~~a~~~~~~~~~~~~~~~l~~la~~~gL~~F~~~~C~~C~~~~pil~~~~~~yg~~v~~vs~DG~~~~~fp~~~~~~g~~ 176 (215)
T PF13728_consen 97 NFARQAYLRQREQKRDKALKQLAQKYGLFFFYRSDCPYCQQQAPILQQFADKYGFSVIPVSLDGRPIPSFPNPRPDPGQA 176 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCeEEEEEEcCCCchhHHHHHHHHHHHHHhCCEEEEEecCCCCCcCCCCCCCCHHHH
Confidence 3445555555444444444443 34455543 22 34578899999999999998763211 111132333
Q ss_pred HHHHhCCCeEEEecCCeeeeCC
Q psy9352 124 DMAKEYKVKVEQHVSHTLYNTN 145 (146)
Q Consensus 124 ~~~~~~~i~~~~~~~~~L~~p~ 145 (146)
++.|| ..+..-.|+.|.
T Consensus 177 ---~~l~v--~~~Pal~Lv~~~ 193 (215)
T PF13728_consen 177 ---KRLGV--KVTPALFLVNPN 193 (215)
T ss_pred ---HHcCC--CcCCEEEEEECC
Confidence 23455 355666666653
No 498
>COG1775 HgdB Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]
Probab=29.62 E-value=1e+02 Score=25.29 Aligned_cols=69 Identities=13% Similarity=0.139 Sum_probs=45.3
Q ss_pred HHHHHHhcCCeEEEEECC-hhhHHHHHHHHcCccEEEE--eeecChhHHHHHHHHHHHHHhCCCeEEEecCCe
Q psy9352 71 LDQKFRALGSRLYVVQGK-PEEVFPDIFKTWNIKLLTW--EYDIEPYAKKRDGLVEDMAKEYKVKVEQHVSHT 140 (146)
Q Consensus 71 L~~~L~~~g~~L~v~~g~-~~~~l~~l~~~~~~~~v~~--~~~~~~~~~~rd~~v~~~~~~~~i~~~~~~~~~ 140 (146)
+..+.-+..-.++-..-+ -.+.+.+++++++++-|+. ++...|++.++- .+.+.+++.+|++...++..
T Consensus 288 lAd~Y~~~~~~~~~pn~e~r~k~i~~mvkE~~vDGvv~~~l~fC~p~~~e~~-~lk~~~kE~~iPvi~~e~D~ 359 (379)
T COG1775 288 LADQYFKIPCACYSPNDEFRVKYISRMVKEYNVDGVVLYTLRFCKPYSVEYP-ELKRRLKEEGIPVIAIEGDY 359 (379)
T ss_pred HHHHHhccccccCCccHHHHHHHHHHHHHHcCCCeEeehhhhccCccccccH-HHHHHHHhcCCcEEEecccc
Confidence 556655544332222222 4577899999999987664 444456666655 77778888889999887654
No 499
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=29.53 E-value=2.7e+02 Score=21.54 Aligned_cols=65 Identities=11% Similarity=0.066 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHhcCCeEEEEECChhhHHHHHHHHcCccEEEEeeecChhHHHHHHHHHHHHHhCCCeEE
Q psy9352 66 QSLADLDQKFRALGSRLYVVQGKPEEVFPDIFKTWNIKLLTWEYDIEPYAKKRDGLVEDMAKEYKVKVE 134 (146)
Q Consensus 66 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~v~~~~~~~~~~~~rd~~v~~~~~~~~i~~~ 134 (146)
.|-....+.|++.|...+++..+..+.+..+.+ .+++.|+-.- .+.+. .+..+...++..||++.
T Consensus 22 ~s~~~v~~aL~~~g~~~~~~~~~~~~~~~~l~~-~~~d~vf~~l-hG~~g--e~~~i~~~le~~gip~~ 86 (296)
T PRK14569 22 KSGKAVLDSLISQGYDAVGVDASGKELVAKLLE-LKPDKCFVAL-HGEDG--ENGRVSALLEMLEIKHT 86 (296)
T ss_pred HHHHHHHHHHHHcCCEEEEEcCCchhHHHHhhc-cCCCEEEEeC-CCCCC--CChHHHHHHHHcCCCee
Confidence 445555566666677765554333333333332 2445443322 22221 12345556666666543
No 500
>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=29.46 E-value=1.5e+02 Score=22.24 Aligned_cols=38 Identities=5% Similarity=-0.047 Sum_probs=18.9
Q ss_pred CceEEEEEEECC-CccCCCCCChhhHHHHHHHHHHHHHHHHhc
Q psy9352 37 NILLKPLYILDP-HFRKFMRVGPNRWRFLQQSLADLDQKFRAL 78 (146)
Q Consensus 37 ~~~l~~vfv~d~-~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~ 78 (146)
+.|.+-+-|-.. .+|. .+.-.+-+.+++.++-..-...
T Consensus 89 ~~Ps~FvEIGSte~eW~----d~~a~~~vA~avl~~~~~~~~~ 127 (213)
T PF04414_consen 89 SVPSVFVEIGSTEEEWN----DPDAAEAVARAVLEVLESDEKA 127 (213)
T ss_dssp -SBEEEEEEEESHHHHT-----HHHHHHHHHHHHHHHHHTTCS
T ss_pred CCCcEEEEeCCCHHHhC----ChHHHHHHHHHHHHHhcccccc
Confidence 344555544432 3332 3334456777777776665543
Done!