Query 047379
Match_columns 154
No_of_seqs 133 out of 941
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 10:33:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047379.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047379hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK09190 hypothetical protein; 100.0 4.9E-36 1.1E-40 245.8 12.3 129 20-150 50-197 (220)
2 PTZ00106 60S ribosomal protein 100.0 1.9E-31 4.2E-36 197.5 12.1 101 50-150 7-107 (108)
3 PRK07283 hypothetical protein; 100.0 3.4E-30 7.4E-35 187.2 11.5 96 53-151 3-98 (98)
4 PRK05583 ribosomal protein L7A 100.0 3.8E-30 8.2E-35 189.3 10.2 99 52-152 1-99 (104)
5 PRK07714 hypothetical protein; 100.0 6.5E-30 1.4E-34 186.0 11.4 98 53-152 3-100 (100)
6 PRK01018 50S ribosomal protein 100.0 5.9E-29 1.3E-33 181.2 11.2 95 54-148 2-96 (99)
7 TIGR03677 rpl7ae 50S ribosomal 100.0 5.4E-28 1.2E-32 180.9 12.1 98 51-149 9-107 (117)
8 PRK04175 rpl7ae 50S ribosomal 100.0 1.1E-27 2.3E-32 180.6 12.0 99 50-149 12-111 (122)
9 PF01248 Ribosomal_L7Ae: Ribos 99.9 4.9E-24 1.1E-28 151.8 9.6 93 54-147 1-94 (95)
10 COG1358 RPL8A Ribosomal protei 99.9 5.2E-24 1.1E-28 159.8 9.9 101 49-151 8-109 (116)
11 PRK06683 hypothetical protein; 99.9 1.3E-23 2.8E-28 148.8 10.2 79 60-139 3-81 (82)
12 PRK13602 putative ribosomal pr 99.9 2.3E-23 4.9E-28 147.3 9.9 78 61-139 4-81 (82)
13 COG1911 RPL30 Ribosomal protei 99.9 5.7E-23 1.2E-27 149.4 9.8 97 52-148 3-99 (100)
14 PRK13601 putative L7Ae-like ri 99.9 5E-22 1.1E-26 140.9 9.0 73 66-139 6-78 (82)
15 PRK13600 putative ribosomal pr 99.8 1.5E-18 3.3E-23 123.7 9.9 71 68-139 13-83 (84)
16 KOG2988 60S ribosomal protein 99.7 2E-16 4.3E-21 117.3 8.5 107 47-153 5-111 (112)
17 PTZ00222 60S ribosomal protein 99.7 7.8E-16 1.7E-20 128.7 12.4 73 69-143 133-206 (263)
18 PTZ00365 60S ribosomal protein 99.6 1.6E-14 3.5E-19 121.2 10.6 72 69-142 133-205 (266)
19 KOG3167 Box H/ACA snoRNP compo 99.5 8.5E-14 1.8E-18 107.4 6.9 102 47-149 38-141 (153)
20 KOG3387 60S ribosomal protein 99.2 3.2E-11 6.9E-16 91.8 7.3 91 51-142 17-111 (131)
21 KOG3406 40S ribosomal protein 99.1 2.7E-10 5.8E-15 86.8 7.2 92 52-144 18-121 (134)
22 cd00279 YlxR Ylxr homologs; gr 98.6 2.4E-08 5.2E-13 70.4 1.5 40 20-60 36-75 (79)
23 PF04296 DUF448: Protein of un 98.5 4.4E-08 9.5E-13 68.5 2.0 42 19-61 34-75 (78)
24 COG2740 Predicted nucleic-acid 98.2 8.2E-07 1.8E-11 64.7 1.6 43 16-59 38-80 (95)
25 PF08032 SpoU_sub_bind: RNA 2' 97.3 0.0008 1.7E-08 45.2 6.2 70 69-140 1-71 (76)
26 PF08228 RNase_P_pop3: RNase P 96.3 0.04 8.6E-07 43.6 9.0 99 52-151 34-144 (158)
27 PF03465 eRF1_3: eRF1 domain 3 96.0 0.013 2.9E-07 43.3 4.8 75 50-127 5-98 (113)
28 TIGR00111 pelota probable tran 95.8 0.058 1.3E-06 47.1 8.6 104 31-139 236-347 (351)
29 TIGR03676 aRF1/eRF1 peptide ch 95.7 0.09 2E-06 46.9 9.5 87 49-139 271-399 (403)
30 TIGR00108 eRF peptide chain re 94.7 0.28 6E-06 43.9 9.5 86 50-139 276-403 (409)
31 PRK04011 peptide chain release 94.6 0.29 6.2E-06 43.8 9.4 85 51-139 281-407 (411)
32 PRK11181 23S rRNA (guanosine-2 94.1 0.33 7.1E-06 40.2 8.1 72 68-141 3-76 (244)
33 TIGR00186 rRNA_methyl_3 rRNA m 91.9 0.98 2.1E-05 37.1 7.8 70 68-141 2-71 (237)
34 cd01422 MGS Methylglyoxal synt 91.8 0.46 1E-05 35.1 5.2 45 71-115 57-106 (115)
35 PRK10864 putative methyltransf 91.4 1.1 2.4E-05 39.4 8.1 78 60-140 101-180 (346)
36 PRK05234 mgsA methylglyoxal sy 89.3 0.81 1.8E-05 35.2 4.8 57 72-128 63-124 (142)
37 PRK12566 glycine dehydrogenase 88.2 4.6 0.0001 40.1 10.2 138 3-147 62-223 (954)
38 PF02142 MGS: MGS-like domain 88.2 0.82 1.8E-05 32.2 3.9 40 75-114 51-94 (95)
39 PF10087 DUF2325: Uncharacteri 86.4 2 4.4E-05 30.3 5.1 35 83-118 47-82 (97)
40 COG0566 SpoU rRNA methylases [ 86.1 4.8 0.0001 33.8 8.0 73 68-143 22-95 (260)
41 cd00532 MGS-like MGS-like doma 85.6 1.9 4E-05 31.3 4.7 44 72-115 55-104 (112)
42 smart00851 MGS MGS-like domain 85.4 1.9 4.1E-05 29.8 4.5 48 67-114 38-89 (90)
43 cd01424 MGS_CPS_II Methylglyox 82.3 4.7 0.0001 28.8 5.6 45 71-115 54-100 (110)
44 COG1503 eRF1 Peptide chain rel 79.7 10 0.00022 34.5 7.8 115 22-140 249-406 (411)
45 PF07997 DUF1694: Protein of u 79.1 10 0.00023 28.4 6.7 48 74-122 52-99 (120)
46 KOG4201 Anthranilate synthase 78.5 5 0.00011 34.1 5.2 72 69-143 145-217 (289)
47 PF02347 GDC-P: Glycine cleava 77.6 7.7 0.00017 35.2 6.5 128 17-149 66-214 (429)
48 PF15608 PELOTA_1: PELOTA RNA 72.9 10 0.00022 28.0 5.0 51 67-119 38-88 (100)
49 COG1648 CysG Siroheme synthase 72.1 5.4 0.00012 32.6 3.8 59 85-148 73-136 (210)
50 TIGR00461 gcvP glycine dehydro 71.7 35 0.00075 34.1 9.8 139 3-147 47-209 (939)
51 cd03017 PRX_BCP Peroxiredoxin 70.4 34 0.00073 24.4 7.4 45 83-131 56-100 (140)
52 PF13344 Hydrolase_6: Haloacid 70.3 9.4 0.0002 27.2 4.3 82 66-148 12-96 (101)
53 COG1168 MalY Bifunctional PLP- 66.7 11 0.00024 34.0 4.8 52 64-115 138-196 (388)
54 PRK13957 indole-3-glycerol-pho 66.6 38 0.00082 28.6 7.8 74 68-143 109-182 (247)
55 cd02969 PRX_like1 Peroxiredoxi 66.1 40 0.00086 25.4 7.3 60 81-141 55-118 (171)
56 cd01483 E1_enzyme_family Super 65.4 11 0.00024 27.8 4.0 34 84-119 89-122 (143)
57 PF00218 IGPS: Indole-3-glycer 62.6 37 0.0008 28.6 7.0 75 67-143 115-189 (254)
58 COG0352 ThiE Thiamine monophos 62.6 28 0.00062 28.5 6.2 66 73-142 24-93 (211)
59 PF02603 Hpr_kinase_N: HPr Ser 62.4 20 0.00044 26.6 5.0 44 75-120 72-115 (127)
60 cd01423 MGS_CPS_I_III Methylgl 60.9 12 0.00025 27.0 3.3 42 74-115 61-106 (116)
61 KOG3166 60S ribosomal protein 60.3 4.2 9.1E-05 33.7 1.0 41 69-109 110-151 (209)
62 PF03618 Kinase-PPPase: Kinase 59.7 25 0.00053 29.9 5.5 45 88-133 55-101 (255)
63 PF08534 Redoxin: Redoxin; In 59.3 51 0.0011 23.8 6.6 46 81-130 59-104 (146)
64 COG1436 NtpG Archaeal/vacuolar 58.8 28 0.00061 25.6 5.1 46 74-119 36-81 (104)
65 TIGR00679 hpr-ser Hpr(Ser) kin 58.2 36 0.00078 29.6 6.4 54 74-129 72-125 (304)
66 PF10686 DUF2493: Protein of u 57.8 35 0.00075 23.2 5.1 46 74-119 21-66 (71)
67 PRK05367 glycine dehydrogenase 56.8 71 0.0015 31.9 8.8 117 3-120 59-199 (954)
68 COG0403 GcvP Glycine cleavage 56.0 71 0.0015 29.4 8.0 140 3-144 58-222 (450)
69 cd02966 TlpA_like_family TlpA- 55.4 56 0.0012 21.4 6.9 56 83-142 51-107 (116)
70 TIGR01470 cysG_Nterm siroheme 55.1 10 0.00022 30.5 2.4 64 84-151 69-140 (205)
71 cd01020 TroA_b Metal binding p 54.3 28 0.00061 28.7 5.0 17 98-114 194-210 (264)
72 PF13727 CoA_binding_3: CoA-bi 54.0 18 0.0004 26.5 3.5 44 72-115 129-173 (175)
73 PRK15116 sulfur acceptor prote 53.8 40 0.00087 28.6 5.9 53 78-139 115-167 (268)
74 PF00578 AhpC-TSA: AhpC/TSA fa 52.8 58 0.0013 22.5 5.8 49 76-130 51-101 (124)
75 cd01485 E1-1_like Ubiquitin ac 52.8 19 0.0004 28.7 3.5 34 84-119 113-146 (198)
76 cd00757 ThiF_MoeB_HesA_family 51.7 20 0.00044 28.9 3.6 33 85-119 112-144 (228)
77 cd02970 PRX_like2 Peroxiredoxi 51.7 86 0.0019 22.3 6.7 44 82-129 55-98 (149)
78 PRK00278 trpC indole-3-glycero 51.4 1.1E+02 0.0024 25.5 8.1 70 69-140 119-188 (260)
79 PF11823 DUF3343: Protein of u 50.8 9.6 0.00021 25.6 1.4 32 98-130 13-44 (73)
80 PLN02591 tryptophan synthase 49.7 1.4E+02 0.003 25.0 8.4 90 40-130 50-154 (250)
81 PRK03147 thiol-disulfide oxido 48.6 1.1E+02 0.0024 22.6 7.2 50 78-130 88-137 (173)
82 cd04795 SIS SIS domain. SIS (S 48.1 58 0.0013 21.1 4.9 62 88-149 2-65 (87)
83 cd01492 Aos1_SUMO Ubiquitin ac 48.0 24 0.00053 28.0 3.5 34 84-119 110-143 (197)
84 PRK05690 molybdopterin biosynt 47.9 22 0.00047 29.3 3.3 31 84-115 122-152 (245)
85 PF00899 ThiF: ThiF family; I 47.9 28 0.0006 25.5 3.6 31 84-115 92-122 (135)
86 PF07085 DRTGG: DRTGG domain; 47.2 74 0.0016 22.3 5.6 48 76-125 53-100 (105)
87 cd03361 TOPRIM_TopoIA_RevGyr T 47.0 66 0.0014 25.2 5.8 57 71-127 103-167 (170)
88 cd03012 TlpA_like_DipZ_like Tl 47.0 96 0.0021 22.0 6.3 46 84-129 56-103 (126)
89 COG1537 PelA Predicted RNA-bin 46.8 1.1E+02 0.0023 27.4 7.6 100 23-128 232-338 (352)
90 PRK05562 precorrin-2 dehydroge 46.7 24 0.00052 29.2 3.3 63 85-151 86-156 (223)
91 PF04609 MCR_C: Methyl-coenzym 46.2 7.8 0.00017 33.2 0.4 63 57-120 103-165 (268)
92 TIGR00789 flhB_rel flhB C-term 46.1 36 0.00079 23.9 3.8 28 97-128 27-54 (82)
93 PRK06552 keto-hydroxyglutarate 45.8 55 0.0012 26.7 5.3 63 68-138 67-135 (213)
94 cd03011 TlpA_like_ScsD_MtbDsbE 45.7 89 0.0019 21.7 5.9 55 85-142 49-103 (123)
95 cd01491 Ube1_repeat1 Ubiquitin 45.6 26 0.00057 30.0 3.5 41 85-127 106-146 (286)
96 PRK05339 PEP synthetase regula 43.8 62 0.0013 27.7 5.5 46 87-132 60-106 (269)
97 KOG4175 Tryptophan synthase al 43.5 77 0.0017 26.8 5.8 66 47-114 73-152 (268)
98 cd01493 APPBP1_RUB Ubiquitin a 43.0 30 0.00065 31.3 3.6 38 88-126 115-152 (425)
99 cd00755 YgdL_like Family of ac 42.9 53 0.0011 27.1 4.8 38 77-115 95-132 (231)
100 PRK09437 bcp thioredoxin-depen 42.8 77 0.0017 23.3 5.4 43 83-129 63-105 (154)
101 COG1493 HprK Serine kinase of 42.6 90 0.002 27.4 6.3 52 74-127 71-122 (308)
102 PLN02414 glycine dehydrogenase 42.1 1.1E+02 0.0023 30.9 7.5 116 3-119 86-225 (993)
103 TIGR03025 EPS_sugtrans exopoly 42.0 70 0.0015 28.2 5.8 51 73-124 177-228 (445)
104 PF08862 DUF1829: Domain of un 41.8 44 0.00094 23.6 3.7 38 78-115 47-84 (88)
105 cd02968 SCO SCO (an acronym fo 41.7 1E+02 0.0022 21.9 5.7 47 83-129 58-107 (142)
106 PF02630 SCO1-SenC: SCO1/SenC; 41.7 63 0.0014 25.0 4.9 45 83-127 87-131 (174)
107 PRK06512 thiamine-phosphate py 40.9 99 0.0021 25.2 6.1 59 75-137 31-94 (221)
108 PF02037 SAP: SAP domain; Int 40.5 28 0.00061 20.3 2.1 24 98-124 5-28 (35)
109 PLN02821 1-hydroxy-2-methyl-2- 40.3 96 0.0021 28.7 6.4 48 77-125 355-402 (460)
110 COG4052 Uncharacterized protei 39.9 15 0.00032 31.5 1.2 67 57-124 105-171 (310)
111 cd01857 HSR1_MMR1 HSR1/MMR1. 39.0 72 0.0016 23.3 4.6 49 74-123 3-54 (141)
112 TIGR03264 met_CoM_red_C methyl 38.8 19 0.00042 29.4 1.6 70 57-126 65-147 (194)
113 PF02571 CbiJ: Precorrin-6x re 38.6 77 0.0017 26.5 5.2 45 72-116 54-99 (249)
114 PRK08328 hypothetical protein; 38.3 41 0.0009 27.4 3.5 31 84-115 118-148 (231)
115 COG0134 TrpC Indole-3-glycerol 38.2 47 0.001 28.3 3.9 75 67-143 113-187 (254)
116 PF01297 TroA: Periplasmic sol 38.2 55 0.0012 26.5 4.2 22 94-115 183-204 (256)
117 TIGR03023 WcaJ_sugtrans Undeca 38.2 85 0.0018 27.7 5.7 51 73-124 180-231 (451)
118 PF13407 Peripla_BP_4: Peripla 38.1 1E+02 0.0022 24.0 5.6 44 75-120 46-89 (257)
119 COG2099 CobK Precorrin-6x redu 37.8 69 0.0015 27.4 4.8 60 71-130 53-127 (257)
120 TIGR03729 acc_ester putative p 37.3 96 0.0021 24.8 5.5 48 74-121 22-72 (239)
121 cd03769 SR_IS607_transposase_l 37.2 82 0.0018 23.4 4.7 46 70-115 48-95 (134)
122 PRK01395 V-type ATP synthase s 37.0 43 0.00093 24.4 3.1 41 80-121 41-81 (104)
123 PRK13802 bifunctional indole-3 37.0 2.6E+02 0.0056 27.1 9.0 75 67-143 117-191 (695)
124 PRK08057 cobalt-precorrin-6x r 36.8 89 0.0019 26.1 5.3 46 72-117 53-99 (248)
125 PF15632 ATPgrasp_Ter: ATP-gra 36.6 98 0.0021 27.1 5.7 52 70-123 8-78 (329)
126 PRK02627 acetylornithine amino 35.9 58 0.0013 27.6 4.2 49 75-125 174-230 (396)
127 COG0550 TopA Topoisomerase IA 35.8 38 0.00083 31.8 3.3 77 73-150 63-148 (570)
128 PRK14722 flhF flagellar biosyn 35.6 81 0.0018 28.1 5.1 61 83-144 166-227 (374)
129 TIGR00715 precor6x_red precorr 35.3 74 0.0016 26.7 4.6 45 72-116 53-98 (256)
130 COG0796 MurI Glutamate racemas 35.3 1.3E+02 0.0029 25.8 6.2 58 77-138 60-118 (269)
131 TIGR01182 eda Entner-Doudoroff 35.3 85 0.0018 25.6 4.8 58 67-130 58-121 (204)
132 TIGR02342 chap_CCT_delta T-com 35.0 1.1E+02 0.0023 28.0 5.9 56 74-130 263-322 (517)
133 TIGR00160 MGSA methylglyoxal s 34.9 79 0.0017 24.7 4.4 80 49-129 36-123 (143)
134 PF01990 ATP-synt_F: ATP synth 34.9 50 0.0011 23.1 3.1 40 81-120 39-78 (95)
135 COG1880 CdhB CO dehydrogenase/ 34.6 87 0.0019 25.2 4.6 54 76-132 28-82 (170)
136 cd01821 Rhamnogalacturan_acety 34.4 94 0.002 23.6 4.8 18 98-115 134-151 (198)
137 TIGR02355 moeB molybdopterin s 34.1 53 0.0011 27.0 3.5 31 84-115 114-144 (240)
138 COG0420 SbcD DNA repair exonuc 34.0 1E+02 0.0022 26.6 5.5 51 74-124 30-89 (390)
139 smart00513 SAP Putative DNA-bi 33.8 45 0.00097 19.2 2.3 24 98-124 5-28 (35)
140 cd01147 HemV-2 Metal binding p 33.6 1.4E+02 0.003 23.6 5.8 57 74-132 64-129 (262)
141 TIGR00315 cdhB CO dehydrogenas 33.6 91 0.002 24.6 4.6 43 73-115 17-60 (162)
142 PF07905 PucR: Purine cataboli 33.3 1.3E+02 0.0028 21.9 5.2 38 81-119 70-107 (123)
143 PF13241 NAD_binding_7: Putati 32.9 54 0.0012 23.1 3.0 30 85-115 61-90 (103)
144 PLN02460 indole-3-glycerol-pho 32.9 99 0.0022 27.4 5.2 74 68-143 188-262 (338)
145 PRK06153 hypothetical protein; 32.6 93 0.002 28.1 5.0 67 76-148 260-326 (393)
146 cd01143 YvrC Periplasmic bindi 32.2 76 0.0016 23.8 3.9 55 74-132 50-113 (195)
147 PF00009 GTP_EFTU: Elongation 31.8 60 0.0013 24.8 3.3 46 74-120 85-131 (188)
148 TIGR01460 HAD-SF-IIA Haloacid 31.8 65 0.0014 26.0 3.7 49 64-112 10-58 (236)
149 PF13905 Thioredoxin_8: Thiore 31.7 1.6E+02 0.0034 19.5 6.8 56 82-141 33-91 (95)
150 PRK06091 membrane protein FdrA 31.4 1E+02 0.0022 29.2 5.2 41 74-115 132-172 (555)
151 TIGR00035 asp_race aspartate r 31.4 1.1E+02 0.0025 24.5 5.0 38 75-115 66-103 (229)
152 cd03420 SirA_RHOD_Pry_redox Si 31.4 1.1E+02 0.0025 20.0 4.2 37 76-115 19-55 (69)
153 cd03338 TCP1_delta TCP-1 (CTT 31.2 1.4E+02 0.0031 27.0 6.1 54 76-130 264-321 (515)
154 smart00187 INB Integrin beta s 31.2 1.4E+02 0.0029 27.4 5.8 89 54-147 188-328 (423)
155 cd01822 Lysophospholipase_L1_l 30.6 1.4E+02 0.003 21.8 5.1 44 72-115 89-140 (177)
156 cd05013 SIS_RpiR RpiR-like pro 30.3 1.9E+02 0.0041 20.0 7.3 74 74-149 4-78 (139)
157 PF00205 TPP_enzyme_M: Thiamin 30.2 36 0.00078 24.8 1.8 43 74-116 2-45 (137)
158 PLN00144 acetylornithine trans 30.0 79 0.0017 27.4 4.1 50 74-124 157-214 (382)
159 PRK05428 HPr kinase/phosphoryl 29.9 1.6E+02 0.0035 25.6 5.9 43 74-118 72-114 (308)
160 cd01487 E1_ThiF_like E1_ThiF_l 29.7 73 0.0016 24.7 3.5 31 84-115 88-119 (174)
161 TIGR01663 PNK-3'Pase polynucle 29.6 1.3E+02 0.0027 28.1 5.5 43 74-117 411-453 (526)
162 TIGR01456 CECR5 HAD-superfamil 29.6 55 0.0012 27.8 3.0 50 64-113 12-65 (321)
163 PRK07688 thiamine/molybdopteri 29.4 69 0.0015 27.8 3.6 34 84-119 116-149 (339)
164 PRK09331 Sep-tRNA:Cys-tRNA syn 29.3 1.1E+02 0.0023 26.4 4.8 43 73-115 141-193 (387)
165 cd00615 Orn_deC_like Ornithine 29.0 1.2E+02 0.0026 25.0 4.9 45 73-118 142-190 (294)
166 PRK00865 glutamate racemase; P 29.0 2.5E+02 0.0055 23.1 6.8 37 76-115 59-96 (261)
167 COG1707 ACT domain-containing 28.8 1.6E+02 0.0036 24.1 5.4 70 70-147 123-197 (218)
168 PRK05294 carB carbamoyl phosph 28.7 81 0.0017 31.6 4.4 56 72-127 992-1049(1066)
169 PRK12475 thiamine/molybdopteri 28.7 73 0.0016 27.7 3.6 33 84-118 116-148 (338)
170 TIGR03499 FlhF flagellar biosy 28.6 1.9E+02 0.0042 24.1 6.1 46 83-129 223-269 (282)
171 cd01028 TOPRIM_TopoIA TOPRIM_T 28.6 1.7E+02 0.0038 21.7 5.3 44 84-127 90-139 (142)
172 PF01081 Aldolase: KDPG and KH 28.6 1.2E+02 0.0027 24.5 4.7 68 57-130 47-121 (196)
173 PRK06298 type III secretion sy 28.3 76 0.0017 28.1 3.7 26 98-127 291-316 (356)
174 PF01751 Toprim: Toprim domain 28.2 78 0.0017 22.0 3.1 28 83-110 58-88 (100)
175 cd01016 TroA Metal binding pro 27.8 1E+02 0.0022 25.6 4.3 22 94-115 194-215 (276)
176 cd02971 PRX_family Peroxiredox 27.8 2.2E+02 0.0048 20.0 7.3 44 82-131 54-100 (140)
177 TIGR03659 IsdE heme ABC transp 27.7 1.5E+02 0.0033 24.2 5.3 55 74-132 81-143 (289)
178 cd01018 ZntC Metal binding pro 27.6 1.1E+02 0.0024 25.1 4.4 47 68-115 172-222 (266)
179 PRK02228 V-type ATP synthase s 27.4 1.8E+02 0.004 20.7 5.0 39 81-119 41-79 (100)
180 cd01484 E1-2_like Ubiquitin ac 27.3 90 0.002 25.8 3.8 34 84-119 91-124 (234)
181 PRK12721 secretion system appa 27.2 82 0.0018 27.8 3.7 26 98-127 290-315 (349)
182 PRK00011 glyA serine hydroxyme 27.1 1.3E+02 0.0028 25.8 4.9 43 73-115 154-198 (416)
183 cd03018 PRX_AhpE_like Peroxire 27.1 2.4E+02 0.0052 20.2 7.0 44 83-130 61-106 (149)
184 cd01489 Uba2_SUMO Ubiquitin ac 27.0 88 0.0019 27.1 3.8 35 84-120 90-124 (312)
185 PRK12815 carB carbamoyl phosph 27.0 95 0.0021 31.2 4.5 57 71-127 991-1049(1068)
186 PRK13109 flhB flagellar biosyn 27.0 82 0.0018 27.9 3.7 27 97-127 298-324 (358)
187 TIGR03531 selenium_SpcS O-phos 27.0 1.4E+02 0.003 27.1 5.3 47 69-115 187-240 (444)
188 cd01537 PBP1_Repressors_Sugar_ 26.9 1.5E+02 0.0034 22.3 4.9 40 74-115 45-84 (264)
189 PRK13111 trpA tryptophan synth 26.9 3.8E+02 0.0082 22.4 7.5 88 44-132 64-167 (258)
190 cd00378 SHMT Serine-glycine hy 26.9 1.4E+02 0.003 25.4 5.0 46 73-119 150-197 (402)
191 PF07498 Rho_N: Rho terminatio 26.6 30 0.00065 21.2 0.6 29 98-127 6-34 (43)
192 PRK08574 cystathionine gamma-s 26.6 1.3E+02 0.0029 26.2 4.9 46 73-119 126-175 (385)
193 cd03339 TCP1_epsilon TCP-1 (CT 26.6 1.9E+02 0.0042 26.3 6.2 48 76-128 279-329 (526)
194 PLN02721 threonine aldolase 26.5 1.5E+02 0.0033 24.3 5.1 42 74-115 121-176 (353)
195 cd07402 MPP_GpdQ Enterobacter 26.4 1.8E+02 0.0038 22.7 5.2 56 74-129 28-92 (240)
196 PF01041 DegT_DnrJ_EryC1: DegT 26.4 1E+02 0.0022 26.3 4.1 43 73-115 103-145 (363)
197 PRK02936 argD acetylornithine 26.4 99 0.0022 26.1 4.0 44 74-119 158-209 (377)
198 KOG2016 NEDD8-activating compl 26.1 56 0.0012 30.4 2.5 99 20-119 48-152 (523)
199 TIGR01019 sucCoAalpha succinyl 26.1 1.7E+02 0.0037 25.0 5.4 38 77-114 81-118 (286)
200 COG1377 FlhB Flagellar biosynt 26.0 82 0.0018 28.2 3.5 27 98-128 297-323 (363)
201 TIGR00216 ispH_lytB (E)-4-hydr 25.9 1.5E+02 0.0032 25.4 5.0 53 84-139 208-260 (280)
202 TIGR03022 WbaP_sugtrans Undeca 25.9 1.4E+02 0.0029 26.5 4.9 54 70-124 174-229 (456)
203 PRK05724 acetyl-CoA carboxylas 25.9 77 0.0017 27.8 3.3 32 85-116 108-157 (319)
204 TIGR02634 xylF D-xylose ABC tr 25.8 1.8E+02 0.004 23.7 5.4 40 75-115 45-84 (302)
205 PRK06015 keto-hydroxyglutarate 25.5 1.9E+02 0.0041 23.5 5.3 60 65-130 52-117 (201)
206 COG0800 Eda 2-keto-3-deoxy-6-p 25.4 1.5E+02 0.0033 24.6 4.7 49 73-127 75-123 (211)
207 PF13545 HTH_Crp_2: Crp-like h 25.4 77 0.0017 20.4 2.6 35 99-133 4-44 (76)
208 PF02268 TFIIA_gamma_N: Transc 25.3 29 0.00064 22.4 0.4 18 5-22 16-33 (49)
209 cd06267 PBP1_LacI_sugar_bindin 25.3 1.9E+02 0.004 21.9 5.1 38 75-115 46-83 (264)
210 PF15379 DUF4606: Domain of un 25.3 93 0.002 23.2 3.1 38 30-67 34-86 (104)
211 PLN02607 1-aminocyclopropane-1 25.3 1.5E+02 0.0033 26.4 5.1 33 83-115 199-238 (447)
212 PRK12723 flagellar biosynthesi 25.2 2.8E+02 0.0061 24.7 6.8 72 71-143 185-265 (388)
213 TIGR01404 FlhB_rel_III type II 25.2 94 0.002 27.3 3.7 26 98-127 289-314 (342)
214 cd06282 PBP1_GntR_like_2 Ligan 25.2 1.8E+02 0.0038 22.4 5.0 39 75-115 46-84 (266)
215 cd07396 MPP_Nbla03831 Homo sap 25.2 1.8E+02 0.0039 23.7 5.3 48 74-121 30-84 (267)
216 PF07796 DUF1638: Protein of u 25.2 3.1E+02 0.0068 20.9 6.6 50 78-127 112-163 (166)
217 PRK07561 DNA topoisomerase I s 25.1 60 0.0013 31.8 2.7 77 72-149 72-156 (859)
218 PRK13371 4-hydroxy-3-methylbut 25.0 2.6E+02 0.0057 25.3 6.5 48 77-125 281-328 (387)
219 TIGR02356 adenyl_thiF thiazole 25.0 1E+02 0.0022 24.5 3.6 33 84-118 111-143 (202)
220 PF00462 Glutaredoxin: Glutare 25.0 1.7E+02 0.0038 17.9 4.4 41 75-115 14-54 (60)
221 PRK05703 flhF flagellar biosyn 24.9 2.3E+02 0.005 25.4 6.2 61 82-143 249-310 (424)
222 COG0159 TrpA Tryptophan syntha 24.8 3.4E+02 0.0075 23.2 6.9 100 40-140 65-184 (265)
223 cd03027 GRX_DEP Glutaredoxin ( 24.8 1.8E+02 0.0039 18.6 4.3 10 106-115 21-30 (73)
224 TIGR00513 accA acetyl-CoA carb 24.6 84 0.0018 27.5 3.3 32 85-116 108-157 (316)
225 COG1167 ARO8 Transcriptional r 24.6 1.7E+02 0.0038 26.2 5.4 58 58-115 191-265 (459)
226 PRK06939 2-amino-3-ketobutyrat 24.5 1.7E+02 0.0037 24.5 5.1 42 74-115 159-209 (397)
227 PLN02645 phosphoglycolate phos 24.3 1.3E+02 0.0028 25.3 4.3 51 61-112 37-87 (311)
228 TIGR01452 PGP_euk phosphoglyco 24.2 1.3E+02 0.0029 24.7 4.3 35 66-100 16-50 (279)
229 PRK07220 DNA topoisomerase I; 24.2 77 0.0017 30.6 3.2 78 71-149 82-169 (740)
230 PRK13238 tnaA tryptophanase/L- 24.1 1.6E+02 0.0036 26.4 5.2 44 74-118 164-218 (460)
231 cd06312 PBP1_ABC_sugar_binding 24.1 2.2E+02 0.0047 22.3 5.4 39 76-115 49-87 (271)
232 TIGR01369 CPSaseII_lrg carbamo 24.1 1E+02 0.0022 30.9 4.1 44 72-115 992-1038(1050)
233 COG4639 Predicted kinase [Gene 24.0 2.2E+02 0.0048 22.9 5.3 51 74-125 60-112 (168)
234 KOG1470 Phosphatidylinositol t 24.0 2.1E+02 0.0046 25.2 5.7 65 15-86 34-101 (324)
235 PRK09427 bifunctional indole-3 24.0 2E+02 0.0042 26.4 5.6 75 67-143 116-190 (454)
236 PF09778 Guanylate_cyc_2: Guan 24.0 1.8E+02 0.0038 24.2 4.9 44 99-144 92-135 (212)
237 PRK01045 ispH 4-hydroxy-3-meth 24.0 1.7E+02 0.0037 25.3 5.0 58 77-139 204-262 (298)
238 KOG2014 SMT3/SUMO-activating c 23.9 76 0.0017 28.1 2.9 28 88-115 123-150 (331)
239 PLN02242 methionine gamma-lyas 23.8 1.6E+02 0.0034 26.2 4.9 46 73-119 152-201 (418)
240 PF02401 LYTB: LytB protein; 23.8 1.8E+02 0.0039 24.9 5.1 57 78-139 204-261 (281)
241 TIGR00853 pts-lac PTS system, 23.7 76 0.0016 22.5 2.4 54 71-129 39-92 (95)
242 PRK08156 type III secretion sy 23.7 1.1E+02 0.0023 27.3 3.8 26 98-127 285-310 (361)
243 TIGR02181 GRX_bact Glutaredoxi 23.7 2.1E+02 0.0045 18.5 4.5 42 76-118 15-56 (79)
244 PRK09108 type III secretion sy 23.7 1E+02 0.0022 27.2 3.7 27 98-128 292-318 (353)
245 cd00331 IGPS Indole-3-glycerol 23.7 3.6E+02 0.0079 21.1 8.0 64 74-139 85-148 (217)
246 TIGR00067 glut_race glutamate 23.6 3.4E+02 0.0074 22.4 6.6 58 76-137 52-112 (251)
247 cd01391 Periplasmic_Binding_Pr 23.5 2.1E+02 0.0047 21.1 5.0 38 76-115 50-87 (269)
248 PRK08780 DNA topoisomerase I; 23.4 76 0.0016 30.9 3.0 67 83-150 72-148 (780)
249 PRK07377 hypothetical protein; 23.1 2.7E+02 0.0058 22.7 5.7 56 84-141 76-138 (184)
250 TIGR02339 thermosome_arch ther 23.1 2.3E+02 0.005 25.7 6.0 47 76-127 274-320 (519)
251 cd06318 PBP1_ABC_sugar_binding 23.0 2.2E+02 0.0048 22.3 5.2 39 76-115 47-85 (282)
252 PRK09590 celB cellobiose phosp 23.0 1.2E+02 0.0025 22.1 3.3 51 71-124 37-87 (104)
253 COG1803 MgsA Methylglyoxal syn 22.8 2.6E+02 0.0056 21.9 5.3 84 49-133 38-129 (142)
254 cd01539 PBP1_GGBP Periplasmic 22.7 2.3E+02 0.005 23.0 5.4 39 75-115 48-87 (303)
255 PF01890 CbiG_C: Cobalamin syn 22.7 74 0.0016 23.5 2.3 39 87-127 35-73 (121)
256 PRK07114 keto-hydroxyglutarate 22.7 2.4E+02 0.0052 23.2 5.5 58 67-130 69-132 (222)
257 cd01994 Alpha_ANH_like_IV This 22.5 3.9E+02 0.0085 21.1 7.5 61 85-145 89-152 (194)
258 TIGR03061 pip_yhgE_Nterm YhgE/ 22.5 3.4E+02 0.0074 20.4 7.4 64 83-149 42-113 (164)
259 PRK05597 molybdopterin biosynt 22.4 1E+02 0.0023 26.7 3.5 31 84-115 118-148 (355)
260 PRK10124 putative UDP-glucose 22.4 2.3E+02 0.005 25.6 5.7 49 74-123 193-242 (463)
261 TIGR02343 chap_CCT_epsi T-comp 22.3 2.6E+02 0.0057 25.6 6.2 49 76-129 283-334 (532)
262 cd01017 AdcA Metal binding pro 22.2 1.6E+02 0.0035 24.3 4.4 63 67-130 171-245 (282)
263 cd06300 PBP1_ABC_sugar_binding 22.0 2.5E+02 0.0054 21.9 5.3 40 75-115 51-90 (272)
264 PF00290 Trp_syntA: Tryptophan 22.0 4.9E+02 0.011 22.0 8.8 91 39-130 57-163 (259)
265 cd03363 TOPRIM_TopoIA_TopoI TO 22.0 1.5E+02 0.0033 21.8 3.9 44 83-127 71-120 (123)
266 COG2047 Uncharacterized protei 22.0 1.1E+02 0.0025 26.0 3.4 64 83-149 82-152 (258)
267 cd06423 CESA_like CESA_like is 21.8 1.7E+02 0.0036 20.1 3.9 35 75-109 14-51 (180)
268 cd06451 AGAT_like Alanine-glyo 21.7 1.9E+02 0.004 24.0 4.7 45 73-118 113-161 (356)
269 TIGR02742 TrbC_Ftype type-F co 21.6 1.4E+02 0.0031 22.7 3.7 29 87-115 2-30 (130)
270 PRK12468 flhB flagellar biosyn 21.6 1.2E+02 0.0026 27.1 3.8 26 98-127 297-322 (386)
271 cd05017 SIS_PGI_PMI_1 The memb 21.5 2.7E+02 0.0058 19.8 5.0 43 87-130 46-89 (119)
272 PRK13190 putative peroxiredoxi 21.5 4.1E+02 0.0089 20.9 7.3 52 76-129 53-108 (202)
273 COG0074 SucD Succinyl-CoA synt 21.5 2.5E+02 0.0055 24.5 5.5 42 73-114 79-120 (293)
274 PF03979 Sigma70_r1_1: Sigma-7 21.5 2.7E+02 0.0059 18.9 5.3 53 52-115 5-57 (82)
275 PLN03230 acetyl-coenzyme A car 21.4 1.1E+02 0.0024 28.1 3.5 33 85-117 178-228 (431)
276 PF02421 FeoB_N: Ferrous iron 21.3 1.4E+02 0.0029 23.3 3.6 71 75-147 69-153 (156)
277 PRK10444 UMP phosphatase; Prov 21.3 2.7E+02 0.0059 22.8 5.6 46 65-111 14-59 (248)
278 PRK01438 murD UDP-N-acetylmura 21.2 1.9E+02 0.004 25.7 4.9 51 84-139 78-128 (480)
279 COG1419 FlhF Flagellar GTP-bin 21.1 2.2E+02 0.0048 25.9 5.3 72 71-143 214-292 (407)
280 TIGR00328 flhB flagellar biosy 21.1 1.3E+02 0.0028 26.6 3.7 26 98-127 290-315 (347)
281 COG1748 LYS9 Saccharopine dehy 21.0 1.4E+02 0.0031 26.8 4.1 77 64-146 49-128 (389)
282 PLN02735 carbamoyl-phosphate s 21.0 1.4E+02 0.003 30.3 4.3 57 71-127 1026-1085(1102)
283 PRK08762 molybdopterin biosynt 20.8 1E+02 0.0022 26.9 3.1 31 84-115 225-255 (376)
284 PRK00124 hypothetical protein; 20.8 1.2E+02 0.0026 23.8 3.1 29 88-118 3-31 (151)
285 PRK00945 acetyl-CoA decarbonyl 20.8 2.1E+02 0.0046 22.7 4.7 42 74-115 25-68 (171)
286 PRK06753 hypothetical protein; 20.8 1.3E+02 0.0029 25.1 3.7 68 13-80 278-348 (373)
287 TIGR02253 CTE7 HAD superfamily 20.7 3.9E+02 0.0085 20.4 6.2 26 68-93 94-119 (221)
288 TIGR00619 sbcd exonuclease Sbc 20.7 2.4E+02 0.0053 23.1 5.2 23 75-97 30-52 (253)
289 KOG3463 Transcription initiati 20.6 44 0.00096 25.1 0.7 21 5-25 17-37 (109)
290 PRK12360 4-hydroxy-3-methylbut 20.5 2.9E+02 0.0062 23.7 5.7 52 84-139 209-261 (281)
291 PLN02828 formyltetrahydrofolat 20.4 2E+02 0.0043 24.5 4.6 47 69-115 76-128 (268)
292 cd00860 ThrRS_anticodon ThrRS 20.4 2.6E+02 0.0056 18.2 4.6 25 97-121 38-62 (91)
293 PRK12772 bifunctional flagella 20.4 1.3E+02 0.0028 28.5 3.8 26 98-127 553-578 (609)
294 cd04165 GTPBP1_like GTPBP1-lik 20.2 1.7E+02 0.0036 23.6 4.1 48 75-123 100-150 (224)
295 TIGR01056 topB DNA topoisomera 20.2 1E+02 0.0023 29.3 3.2 67 83-149 94-168 (660)
296 PRK07309 aromatic amino acid a 20.2 2.1E+02 0.0045 24.5 4.8 42 74-115 154-204 (391)
297 PRK12773 flhB flagellar biosyn 20.1 1.3E+02 0.0028 29.1 3.7 27 98-128 589-615 (646)
298 PF10281 Ish1: Putative stress 20.1 87 0.0019 18.4 1.8 27 99-126 6-33 (38)
299 TIGR01692 HIBADH 3-hydroxyisob 20.1 1.3E+02 0.0028 24.9 3.5 31 85-115 83-113 (288)
300 TIGR03679 arCOG00187 arCOG0018 20.1 4.7E+02 0.01 21.0 7.5 69 76-144 78-149 (218)
301 cd01141 TroA_d Periplasmic bin 20.1 2.5E+02 0.0055 21.0 4.8 54 75-131 60-124 (186)
No 1
>PRK09190 hypothetical protein; Provisional
Probab=100.00 E-value=4.9e-36 Score=245.75 Aligned_cols=129 Identities=18% Similarity=0.229 Sum_probs=122.7
Q ss_pred cccchhhhhcchhHHHHHhhhhhhhhhhh-------------hhhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCce
Q 047379 20 LLGLVCYFAAAREVFFGATKQSKMVTSKK-------------TKKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGK 86 (154)
Q Consensus 20 ~~grg~y~~~~~~~~~~a~~~~~~~~~~k-------------~~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkak 86 (154)
+-|||||.|.+++|++.|.+|+.|.|+|| +..+.++++++||||+|||++++|+++|+++|++|+++
T Consensus 50 ~pGRGaYvc~~~~c~~~A~kkk~l~Ralk~~v~v~~~l~~~l~~~l~~ril~lLGLArRAGklVsG~~~V~~alk~gk~~ 129 (220)
T PRK09190 50 LPGRGCWVSADRAAVEKAVAKKLFARAAKADVKVPPDLADLVEALLARRALDALGLARKAGQVVSGFEKVDAALRSGEAA 129 (220)
T ss_pred CCCCEEEEcCCHHHHHHHHHhChhHHHhCCCCCCCHHHHHHHHHHHHHHHHHHHHHHhhhCCEeecHHHHHHHHHcCCce
Confidence 46999999999999999999999999999 55667999999999999999999999999999999999
Q ss_pred EEEEeCCCChhhhhhHHHHHHh------CCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchHHHhcC
Q 047379 87 LIILSNNCPPLRKSEIEYYAML------AKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSDIIKSL 150 (154)
Q Consensus 87 LVIlA~Das~~~k~ki~~~c~~------~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~GfA~~i~~~ 150 (154)
|||+|+|+|++++++|.++|+. ++||++. .+|++|||.++|+++++ +++|+|.||++.|.+.
T Consensus 130 Lvi~A~DaS~~t~kKl~~~~~~~~~~~~~~Vp~v~-~~tk~eLg~AlGr~~~~-~vav~d~gfA~~l~~~ 197 (220)
T PRK09190 130 ALIHASDGAADGKRKLDQARRALVHETGREIPVIG-LFTAAELGLAFGRENVI-HAALLAGGAAERVVKR 197 (220)
T ss_pred EEEEeccCChhHHHHHHHHHHhhcccccCCccEEE-ecCHHHHHHHhCCCcee-EEEEcChHHHHHHHHH
Confidence 9999999999999999999999 9999996 89999999999999787 7999999999998764
No 2
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=99.97 E-value=1.9e-31 Score=197.48 Aligned_cols=101 Identities=70% Similarity=1.162 Sum_probs=96.4
Q ss_pred hhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 047379 50 KKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 50 ~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk 129 (154)
++..++|.++||+|+|+|++++|+++|+++|++|+++|||||+|+|++++++|+++|+.++||++.|++|++|||+|||+
T Consensus 7 ~~~~~~i~~~Lgla~raGKlv~G~~~vlkalk~gkaklViiA~D~~~~~kkki~~~~~~~~Vpv~~~~~t~~eLG~A~Gk 86 (108)
T PTZ00106 7 KKAQESINSKLQLVMKSGKYTLGTKSTLKALRNGKAKLVIISNNCPPIRRSEIEYYAMLSKTGVHHYAGNNNDLGTACGR 86 (108)
T ss_pred cccHhhHHHHHHHHHHhCCeeecHHHHHHHHHcCCeeEEEEeCCCCHHHHHHHHHHHhhcCCCEEEeCCCHHHHHHHhCC
Confidence 66789999999999999999999999999999999999999999999999999999999999998767999999999999
Q ss_pred cccEEEEEEeCcCchHHHhcC
Q 047379 130 YFRVSCLSIIDPGDSDIIKSL 150 (154)
Q Consensus 130 ~~~vsvvaI~D~GfA~~i~~~ 150 (154)
++++++++|+|+||+++|..+
T Consensus 87 ~~r~svvaI~D~G~a~~l~~~ 107 (108)
T PTZ00106 87 HFRVSVMSITDAGDSDILRAL 107 (108)
T ss_pred ccCeEEEEEeCcchHHHHhhc
Confidence 999989999999999998743
No 3
>PRK07283 hypothetical protein; Provisional
Probab=99.97 E-value=3.4e-30 Score=187.22 Aligned_cols=96 Identities=26% Similarity=0.397 Sum_probs=91.1
Q ss_pred HHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCccc
Q 047379 53 HESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFR 132 (154)
Q Consensus 53 ~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~ 132 (154)
+++++++||+|+|||++++|+++|+++|++|++++||+|+|+|+++++++.+.|+.++||++. ++|++|||++||++ +
T Consensus 3 ~~~~l~~LglA~raGklv~G~~~v~~aik~gk~~lVi~A~Das~~~~kk~~~~~~~~~Vp~~~-~~t~~eLG~a~Gk~-~ 80 (98)
T PRK07283 3 KQKISNLLGLAQRAGRIISGEELVVKAIQSGQAKLVFLANDAGPNLTKKVTDKSNYYQVEVST-VFSTLELSAAVGKP-R 80 (98)
T ss_pred HHHHHHHHHHHHHhCCeeEcHHHHHHHHHcCCccEEEEeCCCCHHHHHHHHHHHHHcCCCEEE-eCCHHHHHHHhCCC-c
Confidence 579999999999999999999999999999999999999999999999999999999999996 78999999999997 5
Q ss_pred EEEEEEeCcCchHHHhcCC
Q 047379 133 VSCLSIIDPGDSDIIKSLP 151 (154)
Q Consensus 133 vsvvaI~D~GfA~~i~~~~ 151 (154)
+ ++||+|+||+++|.+++
T Consensus 81 ~-vvai~d~g~a~~l~~~~ 98 (98)
T PRK07283 81 K-VLAVTDAGFSKKMRSLM 98 (98)
T ss_pred e-EEEEeChhHHHHHHHhC
Confidence 5 69999999999998753
No 4
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=99.97 E-value=3.8e-30 Score=189.29 Aligned_cols=99 Identities=23% Similarity=0.249 Sum_probs=94.2
Q ss_pred HHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcc
Q 047379 52 THESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYF 131 (154)
Q Consensus 52 ~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~ 131 (154)
+.++++++||+|+|||++++|+++|+++|++|+++|||+|+|+|++++++|.++|+.++||++. ++|++|||.+||+++
T Consensus 1 ~~~k~l~lLglA~rAGklv~G~~~v~~aik~gk~~lVI~A~D~s~~~kkki~~~~~~~~vp~~~-~~t~~eLg~a~Gk~~ 79 (104)
T PRK05583 1 MMNKFLNFLGLTKKAGKLLEGYNKCEEAIKKKKVYLIIISNDISENSKNKFKNYCNKYNIPYIE-GYSKEELGNAIGRDE 79 (104)
T ss_pred ChHHHHHHHHHHHHhCCeeecHHHHHHHHHcCCceEEEEeCCCCHhHHHHHHHHHHHcCCCEEE-ecCHHHHHHHhCCCC
Confidence 4689999999999999999999999999999999999999999999999999999999999997 699999999999998
Q ss_pred cEEEEEEeCcCchHHHhcCCC
Q 047379 132 RVSCLSIIDPGDSDIIKSLPG 152 (154)
Q Consensus 132 ~vsvvaI~D~GfA~~i~~~~~ 152 (154)
++ ++||+|+||++.|.++++
T Consensus 80 ~~-~iai~d~g~a~~l~~~~~ 99 (104)
T PRK05583 80 IK-ILGVKDKNMAKKLLKLWN 99 (104)
T ss_pred eE-EEEEeChHHHHHHHHHHH
Confidence 65 899999999999998774
No 5
>PRK07714 hypothetical protein; Provisional
Probab=99.97 E-value=6.5e-30 Score=185.95 Aligned_cols=98 Identities=26% Similarity=0.338 Sum_probs=93.8
Q ss_pred HHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCccc
Q 047379 53 HESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFR 132 (154)
Q Consensus 53 ~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~ 132 (154)
.++++++||+|+|||++++|+++|+++|++|++++||+|+|+|+++++++.++|+.++||++. ++|++|||.+||++++
T Consensus 3 ~~~~~~~Lgla~raGk~v~G~~~v~~al~~g~~~lViiA~D~s~~~~~ki~~~~~~~~vp~~~-~~sk~eLG~a~Gk~~~ 81 (100)
T PRK07714 3 MSDWKSFLGLANRARKVISGEELVLKEVRSGKAKLVLLSEDASVNTTKKITDKCTYYNVPMRK-VENRQQLGHAIGKDER 81 (100)
T ss_pred HHHHHHHHHHHHHhCCeeecHHHHHHHHHhCCceEEEEeCCCCHHHHHHHHHHHHhcCCCEEE-eCCHHHHHHHhCCCcc
Confidence 578999999999999999999999999999999999999999999999999999999999995 8999999999999988
Q ss_pred EEEEEEeCcCchHHHhcCCC
Q 047379 133 VSCLSIIDPGDSDIIKSLPG 152 (154)
Q Consensus 133 vsvvaI~D~GfA~~i~~~~~ 152 (154)
+ ++||+|+||++.|.++++
T Consensus 82 ~-~vai~d~g~a~~l~~~~~ 100 (100)
T PRK07714 82 V-VVAVLDEGFAKKLRSMLD 100 (100)
T ss_pred e-EEEEeCchhHHHHHHHhC
Confidence 8 899999999999988753
No 6
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=99.96 E-value=5.9e-29 Score=181.16 Aligned_cols=95 Identities=44% Similarity=0.820 Sum_probs=89.9
Q ss_pred HHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccE
Q 047379 54 ESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRV 133 (154)
Q Consensus 54 ~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~v 133 (154)
.++.+.|++|+|+|++++|.++|+++|++|+++|||||+|+|++++++++++|+.++||++.|.+|++|||++||+++++
T Consensus 2 ~~~~~~l~~a~ragkl~~G~~~v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Ip~~~~~~tk~eLG~a~Gk~~~~ 81 (99)
T PRK01018 2 MDFNRELRVAVDTGKVILGSKRTIKAIKLGKAKLVIVASNCPKDIKEDIEYYAKLSGIPVYEYEGSSVELGTLCGKPFTV 81 (99)
T ss_pred CCHHHHHHHHHHcCCEEEcHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEECCCHHHHHHHhCCCCCE
Confidence 46778899999999999999999999999999999999999999999999999999999986568999999999999877
Q ss_pred EEEEEeCcCchHHHh
Q 047379 134 SCLSIIDPGDSDIIK 148 (154)
Q Consensus 134 svvaI~D~GfA~~i~ 148 (154)
++++|+|+||++.|.
T Consensus 82 ~~vaI~D~G~a~~~~ 96 (99)
T PRK01018 82 SALAIVDPGESDILE 96 (99)
T ss_pred EEEEEecCCHHHHHH
Confidence 799999999999986
No 7
>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=99.95 E-value=5.4e-28 Score=180.87 Aligned_cols=98 Identities=16% Similarity=0.265 Sum_probs=92.6
Q ss_pred hHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChh-hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 047379 51 KTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPL-RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 51 ~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~-~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk 129 (154)
.+.++++++|++|+|+|++++|.++|+++|++|+++|||||+|+||+ ++++++++|+.++||++ |++|++|||++||+
T Consensus 9 ~l~~ki~~lL~la~ragkl~~G~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~-~~~sk~eLG~a~Gk 87 (117)
T TIGR03677 9 ELANKALEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYV-YVKKKEDLGAAAGL 87 (117)
T ss_pred HHHHHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEE-EeCCHHHHHHHhCC
Confidence 37899999999999999999999999999999999999999999996 78999999999999999 69999999999999
Q ss_pred cccEEEEEEeCcCchHHHhc
Q 047379 130 YFRVSCLSIIDPGDSDIIKS 149 (154)
Q Consensus 130 ~~~vsvvaI~D~GfA~~i~~ 149 (154)
++++++|+|+|+||++.+.+
T Consensus 88 ~~~~svvaI~d~g~a~~~~~ 107 (117)
T TIGR03677 88 EVGAASAAIVDEGKAEELLK 107 (117)
T ss_pred CCCeEEEEEEchhhhHHHHH
Confidence 76677999999999998765
No 8
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=99.95 E-value=1.1e-27 Score=180.63 Aligned_cols=99 Identities=17% Similarity=0.277 Sum_probs=93.1
Q ss_pred hhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChh-hhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 047379 50 KKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPL-RKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 128 (154)
Q Consensus 50 ~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~-~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~G 128 (154)
+.++++++++||+|+|+|++++|.++|+++|++|+++|||||+|+||+ +++++..+|+.++|||+ +++|++|||++||
T Consensus 12 ~~l~~ki~~lL~la~ragklv~G~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~-~~~tk~eLG~a~G 90 (122)
T PRK04175 12 EELAEKALEAVEKARDTGKIKKGTNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYV-YVPSKKDLGKAAG 90 (122)
T ss_pred HHHHHHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEE-EECCHHHHHHHhC
Confidence 448899999999999999999999999999999999999999999996 58999999999999999 6999999999999
Q ss_pred CcccEEEEEEeCcCchHHHhc
Q 047379 129 KYFRVSCLSIIDPGDSDIIKS 149 (154)
Q Consensus 129 k~~~vsvvaI~D~GfA~~i~~ 149 (154)
+++++++++|+|+||++.+.+
T Consensus 91 k~~~~svvaI~d~g~a~~~~~ 111 (122)
T PRK04175 91 LEVGAAAAAIVDAGKAKELVE 111 (122)
T ss_pred CCCCeEEEEEechhhhHHHHH
Confidence 997677999999999998765
No 9
>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=99.91 E-value=4.9e-24 Score=151.76 Aligned_cols=93 Identities=33% Similarity=0.552 Sum_probs=88.5
Q ss_pred HHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhh-HHHHHHhCCCcEEEecCCHHHHHhhhCCccc
Q 047379 54 ESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSE-IEYYAMLAKVGVHHYNGNNVDLGTACGKYFR 132 (154)
Q Consensus 54 ~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~k-i~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~ 132 (154)
++++++|++|+++|+++.|.++|.++|++|++++||+|+|++|+...+ +..+|+.++||++ +++|++|||++||+++.
T Consensus 1 ~~i~~~l~~a~~~~~lv~G~~~v~k~l~~~~~~lvilA~d~~~~~~~~~l~~~c~~~~Ip~~-~~~s~~eLG~~~g~~~~ 79 (95)
T PF01248_consen 1 DKIYKLLKLARKAGRLVKGIKEVLKALKKGKAKLVILAEDCSPDSIKKHLPALCEEKNIPYV-FVPSKEELGRACGKKRP 79 (95)
T ss_dssp HHHHHHHHHHHHHSEEEESHHHHHHHHHTTCESEEEEETTSSSGHHHHHHHHHHHHTTEEEE-EESHHHHHHHHTTSSST
T ss_pred ChHHHHHHHHHhcCCEEEchHHHHHHHHcCCCcEEEEcCCCChhhhcccchhheeccceeEE-EECCHHHHHHHHCCCCc
Confidence 579999999999999999999999999999999999999999998877 9999999999999 59999999999999987
Q ss_pred EEEEEEeCcCchHHH
Q 047379 133 VSCLSIIDPGDSDII 147 (154)
Q Consensus 133 vsvvaI~D~GfA~~i 147 (154)
+++++|+|+|+++.+
T Consensus 80 ~~~~~i~d~~~a~~l 94 (95)
T PF01248_consen 80 VSALAIKDAGDAKIL 94 (95)
T ss_dssp SSEEEEEESTTHHHH
T ss_pred EEEEEEECcccchhh
Confidence 779999999999876
No 10
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=99.91 E-value=5.2e-24 Score=159.78 Aligned_cols=101 Identities=21% Similarity=0.320 Sum_probs=94.7
Q ss_pred hhhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCC-hhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 49 TKKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCP-PLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 49 ~~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das-~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
...+.++++++++.|.++|+++.|.+++.++|++|+++|||||+|++ +++..+++.+|+.+||||+ |++|+.+||++|
T Consensus 8 ~~~~~~k~l~~l~~a~~~~ki~~G~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv-~V~sk~~LG~a~ 86 (116)
T COG1358 8 PEMLEQKALSLLGKASRAGKLKKGTNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYV-YVGSKKELGKAV 86 (116)
T ss_pred cHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEE-EeCCHHHHHHHh
Confidence 35688999999999999999999999999999999999999999999 5899999999999999999 699999999999
Q ss_pred CCcccEEEEEEeCcCchHHHhcCC
Q 047379 128 GKYFRVSCLSIIDPGDSDIIKSLP 151 (154)
Q Consensus 128 Gk~~~vsvvaI~D~GfA~~i~~~~ 151 (154)
|++.+. ++++.|.||++.+.++.
T Consensus 87 g~~~~~-vv~i~~~~~~~~~~~l~ 109 (116)
T COG1358 87 GKEVRK-VVAIVDKGFAKKLEDLV 109 (116)
T ss_pred CCCcce-eEEEeehhhhhHHHHHH
Confidence 999776 79999999998887754
No 11
>PRK06683 hypothetical protein; Provisional
Probab=99.90 E-value=1.3e-23 Score=148.79 Aligned_cols=79 Identities=16% Similarity=0.206 Sum_probs=75.6
Q ss_pred HHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 60 LALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 60 LglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
|..+.++|++++|.++|+++|++|++++||||+|++++++++|.++|+.++||++. ++|++|||++||+++.+++++|+
T Consensus 3 ~~~~~~agk~v~G~~~v~kaik~gkaklViiA~Da~~~~~~~i~~~~~~~~Vpv~~-~~t~~eLG~A~G~~~~~a~~ai~ 81 (82)
T PRK06683 3 YQKVSNAENVVVGHKRTLEAIKNGIVKEVVIAEDADMRLTHVIIRTALQHNIPITK-VESVRKLGKVAGIQVGASAIGII 81 (82)
T ss_pred hHHHHhCCCEEEcHHHHHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHhcCCCEEE-ECCHHHHHHHhCCcccEEEEEEe
Confidence 56678999999999999999999999999999999999999999999999999995 78999999999999999999986
No 12
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=99.90 E-value=2.3e-23 Score=147.30 Aligned_cols=78 Identities=22% Similarity=0.332 Sum_probs=74.0
Q ss_pred HHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 61 ALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 61 glA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
....|+|++++|.++|+++|++|+++|||||+|+||+++++|.++|+.++||++. ++|++|||++||+++++++++|+
T Consensus 4 ~~~~ragkl~~G~~~v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Vp~~~-~~s~~eLG~a~G~~~~~a~~ai~ 81 (82)
T PRK13602 4 EKVSQAKSIVIGTKQTVKALKRGSVKEVVVAEDADPRLTEKVEALANEKGVPVSK-VDSMKKLGKACGIEVGAAAVAII 81 (82)
T ss_pred HHHHhcCCEEEcHHHHHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHHcCCCEEE-ECCHHHHHHHHCCCcCEEEEEEe
Confidence 3456999999999999999999999999999999999999999999999999995 88999999999999999999986
No 13
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=99.89 E-value=5.7e-23 Score=149.36 Aligned_cols=97 Identities=48% Similarity=0.838 Sum_probs=93.5
Q ss_pred HHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcc
Q 047379 52 THESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYF 131 (154)
Q Consensus 52 ~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~ 131 (154)
..+.|..-|.++.++|+++.|+++++++++.|++|+||+|+|+++..+++++++|+..+||+++|.+|..|||.+|||++
T Consensus 3 ~~~~v~~~L~~avkTGkvilG~k~tiK~lk~gkaKliiiAsN~P~~~k~~ieyYAkLs~ipV~~y~Gt~~eLG~~cgkpf 82 (100)
T COG1911 3 MGDDVEKELKLAVKTGKVILGSKRTIKSLKLGKAKLIIIASNCPKELKEDIEYYAKLSDIPVYVYEGTSVELGTVCGKPF 82 (100)
T ss_pred ccchHHHHHHHHHhcCCEEEehHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHcCCcEEEecCCceeHHhhhCCCc
Confidence 45788899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cEEEEEEeCcCchHHHh
Q 047379 132 RVSCLSIIDPGDSDIIK 148 (154)
Q Consensus 132 ~vsvvaI~D~GfA~~i~ 148 (154)
++++++|+|+|.++++.
T Consensus 83 ~v~~laIiD~G~S~Il~ 99 (100)
T COG1911 83 RVAALAIIDEGDSDILA 99 (100)
T ss_pred eEEEEEEecCchhhhhc
Confidence 99999999999998874
No 14
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=99.87 E-value=5e-22 Score=140.88 Aligned_cols=73 Identities=15% Similarity=0.240 Sum_probs=69.9
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 66 SGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 66 AGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
-||+++|.++|+++|++|+++|||||+|+|++++++|.++|+.++||++ |++|++|||++||+++++++++|+
T Consensus 6 ~GKlv~G~~~vlkaIk~gkakLViiA~Da~~~~~k~i~~~c~~~~Vpv~-~~~t~~eLG~A~G~~v~aa~~~~~ 78 (82)
T PRK13601 6 PSKRVVGAKQTLKAITNCNVLQVYIAKDAEEHVTKKIKELCEEKSIKIV-YIDTMKELGVMCGIDVGAAAAADI 78 (82)
T ss_pred CccEEEchHHHHHHHHcCCeeEEEEeCCCCHHHHHHHHHHHHhCCCCEE-EeCCHHHHHHHHCCccCeeeEEEe
Confidence 3899999999999999999999999999999999999999999999998 699999999999999999888875
No 15
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=99.78 E-value=1.5e-18 Score=123.70 Aligned_cols=71 Identities=14% Similarity=0.280 Sum_probs=68.0
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 68 KYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 68 klv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
.++.|.+||+++|++|++++||+|.|++|+...++..+|+++||||+ |++||.+||++||+++++++++|+
T Consensus 13 ~~vvG~kqt~Kai~kg~~~~v~iA~Da~~~vv~~l~~lceek~Ip~v-~V~s~~~LGkAcgi~V~aa~aai~ 83 (84)
T PRK13600 13 HFVVGLKETLKALKKDQVTSLIIAEDVEVYLMTRVLSQINQKNIPVS-FFKSKHALGKHVGINVNATIVALI 83 (84)
T ss_pred CceeeHHHHHHHHhcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEE-EECCHHHHHHHhCCCcCeEEEEEe
Confidence 45999999999999999999999999999999999999999999999 799999999999999999888886
No 16
>KOG2988 consensus 60S ribosomal protein L30 [Translation, ribosomal structure and biogenesis]
Probab=99.68 E-value=2e-16 Score=117.26 Aligned_cols=107 Identities=74% Similarity=1.126 Sum_probs=101.4
Q ss_pred hhhhhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhh
Q 047379 47 KKTKKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTA 126 (154)
Q Consensus 47 ~k~~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a 126 (154)
||.++..+-|++-|-+++++|+.+.|++++++.++.|+++|+++|+++++--+.+|++++-..+.+|..|.++..|||.+
T Consensus 5 ~k~~k~~e~ins~lll~mksgkY~lgyK~T~k~~r~gkakL~~is~n~p~lrks~ieyyamlak~~v~~~sg~n~~lgt~ 84 (112)
T KOG2988|consen 5 KKSKKSGEFINSSLLLVMKSGKYILGYKQTLKSLRQGKAKLIIISSNCPPLRKSEIEYYAMLAKTGVHHYSGNNVELGTA 84 (112)
T ss_pred ccccccchhhhHHHHHHHhhcceeechHHHHHHHHhccceEEEeecCCCCcchhHHHHHHHHhcCceeeecCCcEeHHHH
Confidence 45566779999999999999999999999999999999999999999999999999999999999999899999999999
Q ss_pred hCCcccEEEEEEeCcCchHHHhcCCCC
Q 047379 127 CGKYFRVSCLSIIDPGDSDIIKSLPGD 153 (154)
Q Consensus 127 ~Gk~~~vsvvaI~D~GfA~~i~~~~~~ 153 (154)
||+-+|++|+.|+|.|.++++..+.|+
T Consensus 85 ~g~~fRv~v~~ivd~gds~~~~~l~e~ 111 (112)
T KOG2988|consen 85 CGKTFRVSVLSIVDLGDSDIIAALSER 111 (112)
T ss_pred hcCeeEeeEEEEEeccchhhhhhcccc
Confidence 999999999999999999999998775
No 17
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=99.67 E-value=7.8e-16 Score=128.75 Aligned_cols=73 Identities=19% Similarity=0.355 Sum_probs=68.3
Q ss_pred ceecHHHHHHHHhcCCceEEEEeCCCChhhhh-hHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 69 YTLGYKTVLRSLRTSKGKLIILSNNCPPLRKS-EIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 69 lv~G~~~VlkaIk~gkakLVIlA~Das~~~k~-ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
|++|.+.|+++|++|+++|||||+|+||++.. +|..+|+.++|||+ +++|+++||.++|+..++ +|+|+|.|-
T Consensus 133 LvsG~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCrk~~VPY~-iVktKaeLG~AIGkKtra-vVAItD~g~ 206 (263)
T PTZ00222 133 VVTGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYA-IVKDMARLGDAIGRKTAT-CVAITDVNA 206 (263)
T ss_pred eccCHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCCEE-EECCHHHHHHHHCCCCCe-EEEEeeCCc
Confidence 88999999999999999999999999999885 59999999999999 499999999999998776 899999884
No 18
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=99.57 E-value=1.6e-14 Score=121.16 Aligned_cols=72 Identities=14% Similarity=0.157 Sum_probs=66.7
Q ss_pred ceecHHHHHHHHhcCCceEEEEeCCCChhhhhhH-HHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcC
Q 047379 69 YTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEI-EYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPG 142 (154)
Q Consensus 69 lv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki-~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~G 142 (154)
+..|.+.|++.|++++++|||||+|+||++...+ .++|+.++|||+ +++|+++||.++|+..++ ||||+|-.
T Consensus 133 vk~Gin~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~VPY~-iv~sK~eLG~AIGkktra-VVAItdV~ 205 (266)
T PTZ00365 133 LKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYC-IIKGKSRLGKLVHQKTAA-VVAIDNVR 205 (266)
T ss_pred HHhhhHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccCCCEE-EECCHHHHHHHhCCCCce-EEEecccC
Confidence 7799999999999999999999999999998886 799999999999 499999999999998776 89998754
No 19
>KOG3167 consensus Box H/ACA snoRNP component, involved in ribosomal RNA pseudouridinylation [RNA processing and modification]
Probab=99.48 E-value=8.5e-14 Score=107.39 Aligned_cols=102 Identities=19% Similarity=0.230 Sum_probs=89.3
Q ss_pred hhhhhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 047379 47 KKTKKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGT 125 (154)
Q Consensus 47 ~k~~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG~ 125 (154)
..-+++..+++.++..|.+.+.|..|.++|.+.+++|.-.|+|||.|++| +...++.-+|+.++|||+ |..+++.||.
T Consensus 38 LA~kkl~kk~~KlvkKa~k~k~lrrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYv-y~psk~dlg~ 116 (153)
T KOG3167|consen 38 LASKKLAKKVYKLVKKAAKQKGLRRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYV-YTPSKEDLGA 116 (153)
T ss_pred cccHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCcc-ccccHHHHHH
Confidence 33567999999999999999999999999999999999999999999999 788999999999999999 7999999999
Q ss_pred hhCCcccEEEEEEeCcC-chHHHhc
Q 047379 126 ACGKYFRVSCLSIIDPG-DSDIIKS 149 (154)
Q Consensus 126 a~Gk~~~vsvvaI~D~G-fA~~i~~ 149 (154)
|-|.+++.++|-|.-.| +.+...+
T Consensus 117 A~~~krpt~~v~v~p~~eyke~yde 141 (153)
T KOG3167|consen 117 AGGTKRPTCCVFVKPGGEYKELYDE 141 (153)
T ss_pred hcCCCCCceEEEEeeChhHHHHHHH
Confidence 99988777666665433 4444443
No 20
>KOG3387 consensus 60S ribosomal protein 15.5kD/SNU13, NHP2/L7A family (includes ribonuclease P subunit p38), involved in splicing [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=99.23 E-value=3.2e-11 Score=91.77 Aligned_cols=91 Identities=15% Similarity=0.173 Sum_probs=82.8
Q ss_pred hHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC-
Q 047379 51 KTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG- 128 (154)
Q Consensus 51 ~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~G- 128 (154)
.+.++++.+.+.|..-..+..|.+++.+.+.+|...+||+|.|+.| .+..++..+|+.+||||+ |+.++..||.+||
T Consensus 17 ~L~ekildl~Qqa~~~kql~kg~NEaTk~Lnrgi~~~Vv~aaD~kP~eIt~HLp~LcedknVp~v-~Vpsk~alG~~cg~ 95 (131)
T KOG3387|consen 17 NLTEKILDLKQQATGYKQLKKGANEATKTLNRGISEFVVMAADVKPLEITLHLPLLCEDKNVPYV-FVPSKQALGLACGE 95 (131)
T ss_pred hhHHHHHHHHHHHhhHHHHhcccchHhhhhccCceeEEEEEccCCHHHHHHHhHHHhhccCCceE-EeeccHHhhhhhhh
Confidence 5778999999999999999999999999999999999999999999 567999999999999999 6999999999999
Q ss_pred --CcccEEEEEEeCcC
Q 047379 129 --KYFRVSCLSIIDPG 142 (154)
Q Consensus 129 --k~~~vsvvaI~D~G 142 (154)
..+++.+..|+..+
T Consensus 96 ~~~~r~~~a~~i~~~~ 111 (131)
T KOG3387|consen 96 LVVLRPVIACSITTNE 111 (131)
T ss_pred HhhcCcceeEEEEecc
Confidence 77777667776444
No 21
>KOG3406 consensus 40S ribosomal protein S12 [Translation, ribosomal structure and biogenesis]
Probab=99.10 E-value=2.7e-10 Score=86.77 Aligned_cols=92 Identities=17% Similarity=0.331 Sum_probs=80.2
Q ss_pred HHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC-
Q 047379 52 THESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK- 129 (154)
Q Consensus 52 ~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk- 129 (154)
+.+-+-..|..|+-.+.++.|..++-++|.++++.|++||+|+++ ++.+-++.+|.+++||+|. +++..+||.+.|.
T Consensus 18 v~~AL~~Vlk~al~~dGlarGi~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplik-V~d~k~LGew~Glc 96 (134)
T KOG3406|consen 18 VNTALQEVLKTALVHDGLARGIHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIK-VGDAKELGEWAGLC 96 (134)
T ss_pred HHHHHHHHHHHHHHhchHHhHHHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEE-eccchhhhhhhcee
Confidence 456666778888899999999999999999999999999999665 7889999999999999996 9999999999963
Q ss_pred ----------cccEEEEEEeCcCch
Q 047379 130 ----------YFRVSCLSIIDPGDS 144 (154)
Q Consensus 130 ----------~~~vsvvaI~D~GfA 144 (154)
-..+++++|+|-|.-
T Consensus 97 kid~eGnarKvvGcs~vvVkd~gee 121 (134)
T KOG3406|consen 97 KIDSEGNARKVVGCSCVVVKDYGEE 121 (134)
T ss_pred eecCCCCeeEeecceEEEEeecccc
Confidence 234678999998853
No 22
>cd00279 YlxR Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation
Probab=98.56 E-value=2.4e-08 Score=70.35 Aligned_cols=40 Identities=30% Similarity=0.337 Sum_probs=32.9
Q ss_pred cccchhhhhcchhHHHHHhhhhhhhhhhhhhhHHHHHHHHH
Q 047379 20 LLGLVCYFAAAREVFFGATKQSKMVTSKKTKKTHESINNRL 60 (154)
Q Consensus 20 ~~grg~y~~~~~~~~~~a~~~~~~~~~~k~~~~~~kil~lL 60 (154)
+-|||||.|.+.+|++.|.+|+.|.|+||+. +.+.+++-|
T Consensus 36 ~~GRGaYvc~~~~c~~~a~kk~~l~Ralk~~-v~~~~~~~L 75 (79)
T cd00279 36 LPGRGAYVCADRECIEKAKKKKLFNRAFKAK-VSDSVYDEL 75 (79)
T ss_pred CCCCeEEEcCCHHHHHHHHHhCHHHHHhCCC-CCHHHHHHH
Confidence 4599999999999999999999999999943 444554444
No 23
>PF04296 DUF448: Protein of unknown function (DUF448); InterPro: IPR007393 This entry represents a group of uncharacterised proteins. Some member sequences retain zinc-binding residues. The structure of the hypothetical cytosolic protein SP0554 from Streptococcus pneumoniae revealed an alpha+beta fold that could have evolved from a glucocorticoid receptor-like zinc finger domain [].; PDB: 1G2R_A.
Probab=98.52 E-value=4.4e-08 Score=68.53 Aligned_cols=42 Identities=26% Similarity=0.284 Sum_probs=31.7
Q ss_pred CcccchhhhhcchhHHHHHhhhhhhhhhhhhhhHHHHHHHHHH
Q 047379 19 PLLGLVCYFAAAREVFFGATKQSKMVTSKKTKKTHESINNRLA 61 (154)
Q Consensus 19 ~~~grg~y~~~~~~~~~~a~~~~~~~~~~k~~~~~~kil~lLg 61 (154)
-+-|||||.|.+.+|++.|.+++.|+|+||+. +.+.+++.|.
T Consensus 34 k~~GRGaYvc~~~~c~~~a~kkk~l~ra~k~~-v~~~~~~~L~ 75 (78)
T PF04296_consen 34 KLPGRGAYVCPDPECLEKAKKKKALNRAFKTK-VPEEVYEQLE 75 (78)
T ss_dssp ---SEEEEEES-HHHHHHHHHHTHHHHHHTS----HHHHHHHH
T ss_pred CCCCCeEEEcCCHHHHHHHHHHCHHHHHHCCC-CCHHHHHHHH
Confidence 35799999999999999999999999999955 6676777664
No 24
>COG2740 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]
Probab=98.16 E-value=8.2e-07 Score=64.71 Aligned_cols=43 Identities=23% Similarity=0.288 Sum_probs=33.7
Q ss_pred CCCCcccchhhhhcchhHHHHHhhhhhhhhhhhhhhHHHHHHHH
Q 047379 16 AASPLLGLVCYFAAAREVFFGATKQSKMVTSKKTKKTHESINNR 59 (154)
Q Consensus 16 ~~~~~~grg~y~~~~~~~~~~a~~~~~~~~~~k~~~~~~kil~l 59 (154)
-..-+-|||||.|.+.+|+++|++|+.|.|+|+.. +.+.++..
T Consensus 38 ~~~k~~GRGaYv~~~~~~~~~a~kk~~f~ra~~~~-~~~~~~~~ 80 (95)
T COG2740 38 PTGKLPGRGAYVCPDRECIEKAKKKKLFSRALKAK-VSDSLYDE 80 (95)
T ss_pred cccCCCCceEEEeCCHHHHHHHHHHHHHHHHHhcc-CCHHHHHH
Confidence 34456799999999999999999999999999833 22444443
No 25
>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=97.35 E-value=0.0008 Score=45.15 Aligned_cols=70 Identities=14% Similarity=0.096 Sum_probs=53.2
Q ss_pred ceecHHHHHHHHhcCC-ceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 047379 69 YTLGYKTVLRSLRTSK-GKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 140 (154)
Q Consensus 69 lv~G~~~VlkaIk~gk-akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D 140 (154)
++.|.+.|.++|+++. +.-|++..+........+...+...+||+. .-+++.|.+.++....-+++|+..
T Consensus 1 lieG~~~V~eaL~~~~~i~~l~~~~~~~~~~~~~i~~~~~~~~i~v~--~v~~~~l~~ls~~~~hQGv~a~v~ 71 (76)
T PF08032_consen 1 LIEGRHAVEEALKSGPRIKKLFVTEEKADKRIKEILKLAKKKGIPVY--EVSKKVLDKLSDTENHQGVVAVVK 71 (76)
T ss_dssp EEESHHHHHHHHHCTGGEEEEEEETT---CCTHHHHHHHHHCT-EEE--EE-HHHHHHCTTTSS-TTEEEEEE
T ss_pred CEEEHHHHHHHHcCCCCccEEEEEcCccchhHHHHHHHHHHcCCeEE--EeCHHHHHHHcCCCCCCeEEEEEe
Confidence 5789999999999986 888999999545556788999999999998 478899999997655555677654
No 26
>PF08228 RNase_P_pop3: RNase P subunit Pop3; InterPro: IPR013241 This family of fungal proteins form a subunit of RNase P, the ribonucleoprotein enzyme that cleaves the leader sequence of precursor tRNAs to generate mature tRNAs. The structure of Pop3 has been assigned the L7Ae/L30e fold []. This RNA-binding fold is also present in human RNase P subunit Rpp38, raising the possibility that Pop3p and Rpp38 are functional homologues.
Probab=96.31 E-value=0.04 Score=43.60 Aligned_cols=99 Identities=19% Similarity=0.263 Sum_probs=67.4
Q ss_pred HHHHHHHHHHHHHHh-----CCceecHHHHHHHHhcCCc--eEEEEeCCCCh-hhhhhHHHHHHhCC--CcEEEec-CCH
Q 047379 52 THESINNRLALVMKS-----GKYTLGYKTVLRSLRTSKG--KLIILSNNCPP-LRKSEIEYYAMLAK--VGVHHYN-GNN 120 (154)
Q Consensus 52 ~~~kil~lLglA~rA-----Gklv~G~~~VlkaIk~gka--kLVIlA~Das~-~~k~ki~~~c~~~~--Vpvi~~~-~tk 120 (154)
+.+.+++.+.-.+++ -.+.+|.+++.+.|..... .+||++..-.| -...+|..+|...+ |.+|.+. ++.
T Consensus 34 L~~~l~~~l~~~~~s~~~~~~~v~~GfNsi~~~Le~~~~~~~~vFVcr~D~ps~L~~h~P~Lva~as~~vrLV~Lpkgs~ 113 (158)
T PF08228_consen 34 LQSKLLRPLKHLRESKPEWPWGVTVGFNSIVRYLECQASDNVYVFVCRSDQPSILTSHFPQLVATASKSVRLVQLPKGSE 113 (158)
T ss_pred HHHHHHHHHHHHhhcCCCCCccEEEehHHHHHHHhcccCCCeEEEEECCCCcHHHHHHHHHHHHhccCcceEEeCChhHH
Confidence 445555555555553 3689999999999983222 36666654444 45699999999887 8888632 367
Q ss_pred HHHHhhhCCcccEEEEEEe-CcCchHHHhcCC
Q 047379 121 VDLGTACGKYFRVSCLSII-DPGDSDIIKSLP 151 (154)
Q Consensus 121 eELG~a~Gk~~~vsvvaI~-D~GfA~~i~~~~ 151 (154)
+.|+.++|.+ ++++++|. |...++.+.+++
T Consensus 114 ~rLs~aLgi~-r~g~l~v~~~~~~~~~L~~~i 144 (158)
T PF08228_consen 114 ARLSEALGIP-RVGILAVRADAPGAKSLVDLI 144 (158)
T ss_pred HHHHHHhCCC-CccEEEEecCCcccHHHHHHH
Confidence 7999999998 55689996 333444444444
No 27
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=96.02 E-value=0.013 Score=43.30 Aligned_cols=75 Identities=20% Similarity=0.174 Sum_probs=57.4
Q ss_pred hhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhh-------------------hhhHHHHHHhCC
Q 047379 50 KKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLR-------------------KSEIEYYAMLAK 110 (154)
Q Consensus 50 ~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~-------------------k~ki~~~c~~~~ 110 (154)
+++.++++..|. +..|+.+.|.++|++|+..|-+..++|+.|..... ...+...++..|
T Consensus 5 ~~~ve~f~~~l~--k~~~~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g 82 (113)
T PF03465_consen 5 KKLVEEFFEELA--KDPGLAVYGIEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSG 82 (113)
T ss_dssp HHHHHHHHHHHH--TTCSSEEESHHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHh--hCCCcEEECHHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcC
Confidence 345566665553 35589999999999999999999999998876642 577888899999
Q ss_pred CcEEEecCCHHHHHhhh
Q 047379 111 VGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 111 Vpvi~~~~tkeELG~a~ 127 (154)
..+.. +.+.-+-|.-+
T Consensus 83 ~~v~i-is~~~e~G~~L 98 (113)
T PF03465_consen 83 AKVEI-ISSEHEEGEQL 98 (113)
T ss_dssp SEEEE-E-TTSHHHHHH
T ss_pred CEEEE-EcCCCccHHHH
Confidence 99884 77777777666
No 28
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=95.80 E-value=0.058 Score=47.12 Aligned_cols=104 Identities=10% Similarity=0.031 Sum_probs=74.2
Q ss_pred hhHHHHHhhhhhhhhhhh------hhhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCC-Ch-hhhhhH
Q 047379 31 REVFFGATKQSKMVTSKK------TKKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNC-PP-LRKSEI 102 (154)
Q Consensus 31 ~~~~~~a~~~~~~~~~~k------~~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Da-s~-~~k~ki 102 (154)
..-+..++++....+..+ +.++.++++..| ++..|+.+.|.++|.+|+..|-+.-++++.+. -. .-..++
T Consensus 236 ~~gl~EvL~~~~v~~~l~d~k~~~E~~~l~~f~~~l--~kd~~~~~YG~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l 313 (351)
T TIGR00111 236 RAGINEVLKRGLVARILQETRYAKEIMVIDEFLEHL--AKDGDKAVYGEDEVVKAAEYGAIEYLLVTDKVLVQREEIEKL 313 (351)
T ss_pred hhHHHHHHhChHHHHHHhhhhHHHHHHHHHHHHHHH--hcCCCeEEECHHHHHHHHHcCCceEEEEecchhhhHHHHHHH
Confidence 445666666655544444 445667777666 44568999999999999999999999999988 22 234567
Q ss_pred HHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 103 EYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 103 ~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
.+.++..|..++. +.+.-+-|.-+ +...- ++||+
T Consensus 314 ~~~v~~~gg~V~i-~Ss~~e~G~qL-~~lgG-iaAiL 347 (351)
T TIGR00111 314 LDSVESMGGKVVI-LSTEHELGKQL-DSLGG-IAGIL 347 (351)
T ss_pred HHHHHHcCCEEEE-EcCCCccHHHH-hhCCC-EEEEE
Confidence 7778889999985 67777777666 34443 56665
No 29
>TIGR03676 aRF1/eRF1 peptide chain release factor 1, archaeal and eukaryotic forms. Directs the termination of nascent peptide synthesis (translation) in response to the termination codons UAA, UAG and UGA. This model identifies both archaeal (aRF1) and eukaryotic (eRF1) of the protein. Also known as translation termination factor 1.
Probab=95.70 E-value=0.09 Score=46.92 Aligned_cols=87 Identities=20% Similarity=0.162 Sum_probs=63.3
Q ss_pred hhhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCC---------------------------------
Q 047379 49 TKKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCP--------------------------------- 95 (154)
Q Consensus 49 ~~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das--------------------------------- 95 (154)
++++.++++..| ++..|+.+.|.++|++|+..|.+.-+||..|..
T Consensus 271 E~~lle~f~~el--~~d~g~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~rc~~c~~~~~~~~~~~~~~~~~~~~~~ 348 (403)
T TIGR03676 271 EKKLMERFFKEL--VKDGGLAAYGEEEVRKALEMGAVDTLLISEDLRKIRVTFKCPNCGYEEEKTVKPEEGDKSEACPKC 348 (403)
T ss_pred HHHHHHHHHHHH--hcCCCcEEEcHHHHHHHHHhCCCcEEEEEccccceeEEEEcCCCCcceeeecccccccccccCccc
Confidence 445666666555 456799999999999999999999999988762
Q ss_pred ---------hhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 96 ---------PLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 96 ---------~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
.+....+...++..|..+. ++.+.-|-|.-+-+.+.- +.||+
T Consensus 349 ~~~~~~~~~~~~ve~L~e~a~~~Ga~V~-~iS~~~eeG~ql~~~fGG-IaAiL 399 (403)
T TIGR03676 349 GSELEIVEEEDIIEELSELAEESGAKVE-IISTDTEEGEQLLKAFGG-IAAIL 399 (403)
T ss_pred CcccccchhhhHHHHHHHHHHHcCCEEE-EECCCChhHHHHHHcCCc-EEEEE
Confidence 1234567788888999888 477777777655444443 45554
No 30
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=94.70 E-value=0.28 Score=43.87 Aligned_cols=86 Identities=16% Similarity=0.106 Sum_probs=59.5
Q ss_pred hhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCh---------------------------------
Q 047379 50 KKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPP--------------------------------- 96 (154)
Q Consensus 50 ~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~--------------------------------- 96 (154)
+++.++++..| ++..|+.+.|.++|++|+..|.+..+||..|..-
T Consensus 276 ~~lle~F~~ei--~~d~G~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~ 353 (409)
T TIGR00108 276 KKLVQRFLKEL--IQEDGLACYGEDEVLKALDLGAVETLIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACG 353 (409)
T ss_pred HHHHHHHHHHH--hcCCCcEEeCHHHHHHHHHhCCCcEEEEeccccceeEEEEcCCCCceeecccccccccccccCcccC
Confidence 34445554333 4558999999999999999999999999998631
Q ss_pred ---------hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 97 ---------LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 97 ---------~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
+....+...++.+|..+. ++.+..|=|.-+=+.+.- +.||+
T Consensus 354 ~~~~~~~~~~~ve~L~e~a~~~Ga~V~-iiS~~~eeG~ql~~~fGG-IaAiL 403 (409)
T TIGR00108 354 QEMDVVEERDLIEWLSELAENFGAKLE-FISTESEEGAQLLTAFGG-IGAIL 403 (409)
T ss_pred ccccchhhhhHHHHHHHHHHHcCCEEE-EECCCChhHHHHHHhCCC-EEEEE
Confidence 123556778899999888 477777666544222222 35554
No 31
>PRK04011 peptide chain release factor 1; Provisional
Probab=94.59 E-value=0.29 Score=43.79 Aligned_cols=85 Identities=18% Similarity=0.142 Sum_probs=59.0
Q ss_pred hHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCh----------------------------------
Q 047379 51 KTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPP---------------------------------- 96 (154)
Q Consensus 51 ~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~---------------------------------- 96 (154)
++.++++..| ++..|+.+.|.++|++|+..|.+.-+||..|...
T Consensus 281 ~lle~f~~~l--~~d~g~avyG~~~V~~Ale~GAVetLLV~d~l~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~ 358 (411)
T PRK04011 281 KLMEEFFKEL--AKDGGLAVYGEEEVRKALEMGAVDTLLISEDLRKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGS 358 (411)
T ss_pred HHHHHHHHHH--hcCCCcEEEcHHHHHHHHHcCCceEEEEeccccceeEEEEcCCCCcceeeecccccccccccCcccCc
Confidence 3445554433 4568999999999999999999999999876411
Q ss_pred --------hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 97 --------LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 97 --------~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
+....+...++..|..+. ++.+.-+-|.-+=+.+.- +.||+
T Consensus 359 ~~~~~~~~~~v~~l~e~a~~~g~~v~-iis~~~e~G~qL~~~fGG-IaAiL 407 (411)
T PRK04011 359 ELEIVEEEDIIEELSELAEQSGTKVE-VISTDTEEGEQLLKAFGG-IAAIL 407 (411)
T ss_pred ccccchhhhHHHHHHHHHHHcCCEEE-EECCCChhHHHHHHcCCC-EEEEE
Confidence 235667788888999988 477776766555223332 35553
No 32
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=94.08 E-value=0.33 Score=40.24 Aligned_cols=72 Identities=10% Similarity=0.045 Sum_probs=55.4
Q ss_pred CceecHHHHHHHHhcC--CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCc
Q 047379 68 KYTLGYKTVLRSLRTS--KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDP 141 (154)
Q Consensus 68 klv~G~~~VlkaIk~g--kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~ 141 (154)
.++.|.+.|.++++.+ .+.-|++..+......+.+..+++..+||+. .-+.++|-+.++....-.++++..+
T Consensus 3 ~~i~G~~~v~eal~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~--~v~~~~l~~ls~~~~~qGv~a~~~~ 76 (244)
T PRK11181 3 EIIYGIHAVQALLERAPERFIEVFVLKGREDKRLLPLINELEAQGIVIQ--LANRQTLDEKAEGAVHQGIIARVKP 76 (244)
T ss_pred cEEEehHHHHHHHhCCCCceeEEEEECCCcchHHHHHHHHHHHcCCcEE--EeCHHHHhhhhcCCCCceEEEEEec
Confidence 4678999999999853 4667777777654444667778888899997 4789999999987556667888764
No 33
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=91.87 E-value=0.98 Score=37.14 Aligned_cols=70 Identities=16% Similarity=0.202 Sum_probs=49.0
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCc
Q 047379 68 KYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDP 141 (154)
Q Consensus 68 klv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~ 141 (154)
.++.|.+.|.++++++. ++.+. ..........+..+++..+||++. -++++|-+.++....-.++++.++
T Consensus 2 ~~i~G~~~v~eal~~~~-~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~--v~~~~l~~l~~~~~~qGv~a~~~~ 71 (237)
T TIGR00186 2 EYLYGKNAVLEALLNQQ-RVFIL-KGLESKRLKKLIQLAKKQGINIQL--VDRQKLDQLTKGGNHQGIAAKVKP 71 (237)
T ss_pred cEEEehHHHHHHHhCCC-EEEEE-ecCcchHHHHHHHHHHHcCCcEEE--eCHHHHHHHhCCCCCCeEEEEEec
Confidence 36789999999999883 33332 222122345677888888999984 579999999986545456777653
No 34
>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=91.79 E-value=0.46 Score=35.05 Aligned_cols=45 Identities=4% Similarity=-0.030 Sum_probs=37.9
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCC-Ch----hhhhhHHHHHHhCCCcEEE
Q 047379 71 LGYKTVLRSLRTSKGKLIILSNNC-PP----LRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 71 ~G~~~VlkaIk~gkakLVIlA~Da-s~----~~k~ki~~~c~~~~Vpvi~ 115 (154)
-|..++.+.|++|++.+||-..|- ++ .....|+..|-.++|||++
T Consensus 57 ~g~~~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~T 106 (115)
T cd01422 57 GGDQQIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLAT 106 (115)
T ss_pred CchhHHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEE
Confidence 577889999999999999999873 32 2357899999999999986
No 35
>PRK10864 putative methyltransferase; Provisional
Probab=91.42 E-value=1.1 Score=39.42 Aligned_cols=78 Identities=12% Similarity=0.046 Sum_probs=56.3
Q ss_pred HHHHHHhCCceecHHHHHHHHhcC--CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEE
Q 047379 60 LALVMKSGKYTLGYKTVLRSLRTS--KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLS 137 (154)
Q Consensus 60 LglA~rAGklv~G~~~VlkaIk~g--kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvva 137 (154)
+...+....++.|.+.|.++|+++ .+.-|++.....+.. ..+..++..+++++. .-+.++|-++++......+++
T Consensus 101 ~~~~~~~~~~I~G~~aV~ealk~~~~~i~~l~~~~~~~~~~-~~il~~~~~~~~~v~--~V~~~~l~kls~~~~hqGV~A 177 (346)
T PRK10864 101 LRRQRAEETRVYGENACQALFQSRPEAIVRAWFIQSVTPRF-KEALRWMAANRKAYH--VVDEAELTKASGTEHHGGVCF 177 (346)
T ss_pred HhhccCCCcEEEEHHHHHHHHhCCCCceeEEEEecCccHHH-HHHHHHHHHcCCcEE--EeCHHHHHHHhCCCCCCeEEE
Confidence 344445568889999999999863 366667777665543 555566677889986 468999999999765555677
Q ss_pred EeC
Q 047379 138 IID 140 (154)
Q Consensus 138 I~D 140 (154)
+..
T Consensus 178 ~v~ 180 (346)
T PRK10864 178 LIK 180 (346)
T ss_pred EEe
Confidence 664
No 36
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=89.34 E-value=0.81 Score=35.21 Aligned_cols=57 Identities=11% Similarity=-0.016 Sum_probs=42.8
Q ss_pred cHHHHHHHHhcCCceEEEEeCCC-Chh----hhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 047379 72 GYKTVLRSLRTSKGKLIILSNNC-PPL----RKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 128 (154)
Q Consensus 72 G~~~VlkaIk~gkakLVIlA~Da-s~~----~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~G 128 (154)
|..++.+.|++|++.+||-..|- +++ -...|+..|-.+||||++-..+-+.+=+++.
T Consensus 63 g~~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T~l~tA~a~~~al~ 124 (142)
T PRK05234 63 GDQQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVATNRATADFLISSLL 124 (142)
T ss_pred CchhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEcCHHHHHHHHHHHh
Confidence 67889999999999999998752 322 2458899999999999974445555555543
No 37
>PRK12566 glycine dehydrogenase; Provisional
Probab=88.22 E-value=4.6 Score=40.13 Aligned_cols=138 Identities=12% Similarity=0.079 Sum_probs=86.1
Q ss_pred CchhhHHHHhhcCC----CCCcccchhhhhcchhHH-HHHhhhhhhhhhhhhhh------HHHH-------HHHHHHHHH
Q 047379 3 SDKETLDEFKSAGA----ASPLLGLVCYFAAAREVF-FGATKQSKMVTSKKTKK------THES-------INNRLALVM 64 (154)
Q Consensus 3 ~~~~~~~~~~~~~~----~~~~~grg~y~~~~~~~~-~~a~~~~~~~~~~k~~~------~~~k-------il~lLglA~ 64 (154)
|.-|.+.++++..+ ...++|-|+|-+.-+..+ +.-+.+..|..+.--+| ..+- |..|.|+-.
T Consensus 62 sE~e~~~~~~~~a~kN~~~~~fiG~G~y~~~~P~vi~~~i~~~~~~yTaYTPYQpEisQG~Lqal~e~Qtmi~~LtGm~v 141 (954)
T PRK12566 62 DEQAALARLRGYAEQNQVWTSLIGMGYHGTVTPTVILRNVLENPGWYTAYTPYQPEIAQGRLEALLNFQQMTIDLTGLDL 141 (954)
T ss_pred CHHHHHHHHHHHHhcCCCccccccccccCCcCcHHHHHHHHhCchhhhcCCCCCchhhhHHHHHHHHHHHHHHHHhCchh
Confidence 44567777766543 447999999999999988 88888888888777111 1122 222333322
Q ss_pred HhCCceecHH----HHHHHHh--cCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEE
Q 047379 65 KSGKYTLGYK----TVLRSLR--TSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSI 138 (154)
Q Consensus 65 rAGklv~G~~----~VlkaIk--~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI 138 (154)
-.-.+-=|.. .++-+.+ ++|-.-|+++.++.|.+..-+..+++..+|.++. .+ |-...+.+ ++.|.|
T Consensus 142 aNASl~D~atA~aEA~~ma~~~~~~k~~~~~v~~~~hP~~~~v~~t~~~~~g~~i~~--~~---~~~~~~~~--~~~v~v 214 (954)
T PRK12566 142 ANASLLDEATAAAEAMALAKRVAKSKSNRFFVDEHCHPQTLSVLRTRAEGFGFELVV--DA---VDNLAAHA--VFGALL 214 (954)
T ss_pred hhhhhccchhHHHHHHHHHHHHhhcCCCEEEECCCCCHHHHHHHHHhhhcCCcEEEE--cc---hhhcCCCC--EEEEEE
Confidence 2111111211 1222333 2334569999999999999999999999999984 33 33344433 445667
Q ss_pred eCcCchHHH
Q 047379 139 IDPGDSDII 147 (154)
Q Consensus 139 ~D~GfA~~i 147 (154)
..|++--.|
T Consensus 215 q~P~~~G~i 223 (954)
T PRK12566 215 QYPDTHGEI 223 (954)
T ss_pred ECCCCceEE
Confidence 777764444
No 38
>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=88.18 E-value=0.82 Score=32.16 Aligned_cols=40 Identities=13% Similarity=0.096 Sum_probs=33.4
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhh----hhHHHHHHhCCCcEE
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRK----SEIEYYAMLAKVGVH 114 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k----~ki~~~c~~~~Vpvi 114 (154)
++++.|++|++.+||.-.+-..... ..+++.|..++||++
T Consensus 51 ~i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 51 QIMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHEE
T ss_pred HHHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCCc
Confidence 5999999999999999988877543 577999999999996
No 39
>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=86.37 E-value=2 Score=30.30 Aligned_cols=35 Identities=14% Similarity=0.133 Sum_probs=29.9
Q ss_pred CCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecC
Q 047379 83 SKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNG 118 (154)
Q Consensus 83 gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~ 118 (154)
+++-+||+-.|.-. +....+...|+.+++|++ |..
T Consensus 47 ~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~-~~~ 82 (97)
T PF10087_consen 47 KKADLVIVFTDYVSHNAMWKVKKAAKKYGIPII-YSR 82 (97)
T ss_pred CCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEE-EEC
Confidence 45789999999877 678999999999999999 454
No 40
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=86.12 E-value=4.8 Score=33.76 Aligned_cols=73 Identities=16% Similarity=0.091 Sum_probs=59.5
Q ss_pred CceecHHHHHHHHhcC-CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 68 KYTLGYKTVLRSLRTS-KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 68 klv~G~~~VlkaIk~g-kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
.++.|.+.|.++++++ .+.-+++..+.. ....++.......++|+. .-+++.|-...+......++++.++-.
T Consensus 22 ~~~~G~~~v~~al~~~~~i~~i~~~~~~~-~~~~~~~~~~~~~~~~~~--~v~~~~l~~~~~~~~hqGi~a~~~~~~ 95 (260)
T COG0566 22 FLIEGEHAVLEALASGPKIVRILVTEGRL-PRFEELLALAAAKGIPVY--VVSEAILDKLSGTENHQGIVAVVKKRR 95 (260)
T ss_pred EEEeeHHHHHHHHhcCCCceEEEEecccc-hhHHHHHHHHHhcCCeEE--EECHHHHHHHhCCCCCCeEEEEEeccc
Confidence 7899999999999999 688888888888 555667777788999997 488999999988665556777776554
No 41
>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=85.59 E-value=1.9 Score=31.29 Aligned_cols=44 Identities=20% Similarity=0.105 Sum_probs=36.0
Q ss_pred cHHHHHHHHhc-CCceEEEEeCCCCh-----hhhhhHHHHHHhCCCcEEE
Q 047379 72 GYKTVLRSLRT-SKGKLIILSNNCPP-----LRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 72 G~~~VlkaIk~-gkakLVIlA~Das~-----~~k~ki~~~c~~~~Vpvi~ 115 (154)
|..++.+.|++ |++.+||--.|-.. ..-..++..|-.++||+++
T Consensus 55 g~~~i~~~i~~~g~idlVIn~~~~~~~~~~~~dg~~iRR~A~~~~Ip~~T 104 (112)
T cd00532 55 GEPTVDAAIAEKGKFDVVINLRDPRRDRCTDEDGTALLRLARLYKIPVTT 104 (112)
T ss_pred CCcHHHHHHhCCCCEEEEEEcCCCCcccccCCChHHHHHHHHHcCCCEEE
Confidence 67889999999 99999999776221 2257889999999999986
No 42
>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=85.42 E-value=1.9 Score=29.83 Aligned_cols=48 Identities=13% Similarity=-0.005 Sum_probs=36.7
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCC-Ch---hhhhhHHHHHHhCCCcEE
Q 047379 67 GKYTLGYKTVLRSLRTSKGKLIILSNNC-PP---LRKSEIEYYAMLAKVGVH 114 (154)
Q Consensus 67 Gklv~G~~~VlkaIk~gkakLVIlA~Da-s~---~~k~ki~~~c~~~~Vpvi 114 (154)
.++--|...+++.+++|++.+||-..+- .. +.-..++..|..++||++
T Consensus 38 ~ki~~~~~~i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip~~ 89 (90)
T smart00851 38 PKVHGGILAILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIPGA 89 (90)
T ss_pred CCCCCCCHHHHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCCee
Confidence 4444455669999999999999997653 22 124588999999999996
No 43
>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=82.31 E-value=4.7 Score=28.78 Aligned_cols=45 Identities=16% Similarity=0.098 Sum_probs=35.9
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCh--hhhhhHHHHHHhCCCcEEE
Q 047379 71 LGYKTVLRSLRTSKGKLIILSNNCPP--LRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 71 ~G~~~VlkaIk~gkakLVIlA~Das~--~~k~ki~~~c~~~~Vpvi~ 115 (154)
.|..++.+.|++|++-+||-..+... ..--.++..|-.++||+++
T Consensus 54 ~~~~~i~~~i~~~~id~vIn~~~~~~~~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 54 EGRPNIVDLIKNGEIQLVINTPSGKRAIRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred CCchhHHHHHHcCCeEEEEECCCCCccCccHHHHHHHHHHhCCCEEe
Confidence 37788999999999999998765322 1246789999999999985
No 44
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=79.72 E-value=10 Score=34.46 Aligned_cols=115 Identities=23% Similarity=0.169 Sum_probs=77.9
Q ss_pred cchhhhhcc--hhHHHHHhhhhhhhhhhhhhhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChh--
Q 047379 22 GLVCYFAAA--REVFFGATKQSKMVTSKKTKKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPL-- 97 (154)
Q Consensus 22 grg~y~~~~--~~~~~~a~~~~~~~~~~k~~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~-- 97 (154)
+-.+|+=.+ ++-+..|-.--+=+-.++++.+.++++.-+. ..+|..+.|..+|++++.-|.+..++++.|-...
T Consensus 249 vDv~y~~esg~~eli~~A~d~L~~~~~~~eK~l~e~f~~e~~--~~~Gla~yG~~~vr~aL~~gaVd~llv~Edl~~~r~ 326 (411)
T COG1503 249 VDVSYTGESGLRELIEKAEDALKDVDYVREKKLMEEFFKELA--KDSGLAVYGEEEVREALEMGAVDTLLVSEDLEKERV 326 (411)
T ss_pred ccccccccccHHHHHHHhHHHHHhhhhhcchhHHHHHHHHhc--cCcceeecchHHHHHHHHhcccceEEeeccccccce
Confidence 334555554 4445544443333335555667777766654 5678888999999999999999999999998832
Q ss_pred ---------------------------------------hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEE
Q 047379 98 ---------------------------------------RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSI 138 (154)
Q Consensus 98 ---------------------------------------~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI 138 (154)
....+...++..+..+. ++.+..+-|..+=+.+.. +.||
T Consensus 327 ~~~c~~~~~e~~~t~~~~~~~~~~~~~~~~e~~~v~~~d~vd~l~e~a~~~Ga~ve-~is~~~~eg~q~~~afgG-i~Ai 404 (411)
T COG1503 327 TYKCPTCGYENLKSKREFEQKRFRCPECGSEMEEVEVSDLVDELAELAEESGAKVE-IISDDTDEGAQLLKAFGG-LAAI 404 (411)
T ss_pred eecCCCcchhhhhcccccccccccCccccccccchhhhhHHHHHHHHHHhcCCeEE-EecCchHHHHHHHHcccc-hhee
Confidence 24566777788887777 477777777776555554 4555
Q ss_pred eC
Q 047379 139 ID 140 (154)
Q Consensus 139 ~D 140 (154)
++
T Consensus 405 LR 406 (411)
T COG1503 405 LR 406 (411)
T ss_pred ee
Confidence 43
No 45
>PF07997 DUF1694: Protein of unknown function (DUF1694); InterPro: IPR012543 This family contains many hypothetical proteins.; PDB: 2OHW_A.
Probab=79.10 E-value=10 Score=28.45 Aligned_cols=48 Identities=8% Similarity=-0.087 Sum_probs=36.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHH
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVD 122 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeE 122 (154)
.++.+.|++.....|+|..+.+.+....+..+|+.+|+|+-. +.+...
T Consensus 52 ~~~~~~l~~~~~~~l~ing~l~~~~~~~YiklA~~~~~~fTi-v~~~~~ 99 (120)
T PF07997_consen 52 PEFEQALKDYPNYKLKINGNLDYSFQSKYIKLANKHGIPFTI-VNDPEY 99 (120)
T ss_dssp HHHHHHHHC-SSEEEEEETTS-HHHHHHHHHHHHHTT--EEE-E---SS
T ss_pred HHHHHHHhhCCCeEEEEcCCCCHHHHHHHHHHHHHcCCCEEE-eCCCCc
Confidence 567888888999999999999999999999999999999985 555443
No 46
>KOG4201 consensus Anthranilate synthase component II [Amino acid transport and metabolism]
Probab=78.49 E-value=5 Score=34.10 Aligned_cols=72 Identities=4% Similarity=-0.021 Sum_probs=56.4
Q ss_pred ceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCC-CcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 69 YTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAK-VGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 69 lv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~-Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
.++---|++.+--+|-=.+++|+.=.|+...+.+-.+|+..+ -|+++ +.+.+|++++++.. +-+|||.+.++
T Consensus 145 Fivd~~QI~~aR~~GADaVLLIvamLs~~~lk~l~k~~K~L~me~LVE-Vn~~eEm~raleiG--akvvGvNNRnL 217 (289)
T KOG4201|consen 145 FIVDPYQIYEARLKGADAVLLIVAMLSDLLLKELYKISKDLGMEPLVE-VNDEEEMQRALEIG--AKVVGVNNRNL 217 (289)
T ss_pred HccCHHHHHHHHhcCCceeehHHHHcChHHHHHHHHHHHHcCCcceee-eccHHHHHHHHHhC--cEEEeecCCcc
Confidence 345556778887788766666777777777888888999887 68887 99999999999985 44699987764
No 47
>PF02347 GDC-P: Glycine cleavage system P-protein; InterPro: IPR020580 This family consists of glycine cleavage system P-proteins (1.4.4.2 from EC) from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex (2.1.2.10 from EC (GDC) also annotated as glycine cleavage system or glycine synthase. The P protein binds the alpha-amino group of glycine through its pyridoxal phosphate cofactor, carbon dioxide is released and the remaining methylamin moiety is then transferred to the lipoamide cofactor of the H protein. GDC consists of four proteins P, H, L and T []. The reaction catalysed by this protein is: Glycine + lipoylprotein = S-aminomethyldihydrolipoylprotein + CO2 ; GO: 0004375 glycine dehydrogenase (decarboxylating) activity, 0055114 oxidation-reduction process; PDB: 1WYV_A 1WYT_C 1WYU_A.
Probab=77.64 E-value=7.7 Score=35.23 Aligned_cols=128 Identities=11% Similarity=0.147 Sum_probs=67.6
Q ss_pred CCCcccchhhhhcchhHHHH-Hhhhhhhhhhhhhhh------HHHHHHHHHHHH-HHhCC-----------ceecHHHHH
Q 047379 17 ASPLLGLVCYFAAAREVFFG-ATKQSKMVTSKKTKK------THESINNRLALV-MKSGK-----------YTLGYKTVL 77 (154)
Q Consensus 17 ~~~~~grg~y~~~~~~~~~~-a~~~~~~~~~~k~~~------~~~kil~lLglA-~rAGk-----------lv~G~~~Vl 77 (154)
-..++|.|+|++..+.-+.. -+.+..|..+.--+| ..+-++++=.+. .=.|- -..|. .++
T Consensus 66 ~~~fiG~G~y~~~~P~~i~~~i~~~~ef~TaYtPYQpEisQG~Lq~lfe~Qs~i~eLTGmdvaNaSlyd~atA~aE-a~~ 144 (429)
T PF02347_consen 66 YTSFIGAGSYTHYVPAVIDRNILSRPEFYTAYTPYQPEISQGRLQALFEYQSMICELTGMDVANASLYDGATAAAE-AML 144 (429)
T ss_dssp TTS---CTTT-----HHHHH-HHCCHHCCCS-STTSGGGBHHHHHHHHHHHHHHHHHHTSSEE-SEBSSCCHHHHH-HHH
T ss_pred CCccccccccCceeChhhcCccccChhhhccCCCCCcHHHHHHHHHHHHHHHHHHHhhCCCccCCCCCChhHHHHH-HHH
Confidence 56789999999999999998 889999988765111 112222221111 11221 11222 223
Q ss_pred HHHh--cCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchHHHhc
Q 047379 78 RSLR--TSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSDIIKS 149 (154)
Q Consensus 78 kaIk--~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~GfA~~i~~ 149 (154)
-+++ +++..-|+++.++.|.+..-+..+|...++.++. ....+ -|..- +..+++|.|+.|++--.+.+
T Consensus 145 ma~r~~~~~~~~vlv~~~~hP~~~~v~~t~a~~~g~~iv~-~~~~~-~~~~d--~~~~a~v~vq~Pn~~G~~ed 214 (429)
T PF02347_consen 145 MAVRATKRKRNKVLVPESLHPQTRAVLRTYAAPLGIEIVE-VPLDE-DGTTD--DDDTAAVMVQNPNTFGVFED 214 (429)
T ss_dssp HHHHHHTT---EEEEETTS-CHHHHHHHHHCCHCCEEEEE-E-BBT-TCSB---STTEEEEEEESS-TTSB--T
T ss_pred HHHHhcccCCcEEEEcCCcChhhHHHHHHhhhhCCeEEEE-ecccc-cCCcc--ccCeEEEEeecCCCCceEee
Confidence 3333 3334589999999999999999999999999996 43222 22222 33566799999987554443
No 48
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=72.86 E-value=10 Score=28.02 Aligned_cols=51 Identities=12% Similarity=-0.025 Sum_probs=42.1
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 67 GKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 67 Gklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
+.+.-|.-++...|-+.-.-.|++-...+ .-..++..+|+++|||+.. .++
T Consensus 38 N~IKPGIgEaTRvLLRRvP~~vLVr~~~~-pd~~Hl~~LA~ekgVpVe~-~~d 88 (100)
T PF15608_consen 38 NLIKPGIGEATRVLLRRVPWKVLVRDPDD-PDLAHLLLLAEEKGVPVEV-YPD 88 (100)
T ss_pred ccccCChhHHHHHHHhcCCCEEEECCCCC-ccHHHHHHHHHHcCCcEEE-eCC
Confidence 57888999999999988877777765544 5678999999999999996 554
No 49
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=72.06 E-value=5.4 Score=32.58 Aligned_cols=59 Identities=15% Similarity=0.149 Sum_probs=42.8
Q ss_pred ceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHh-----hhCCcccEEEEEEeCcCchHHHh
Q 047379 85 GKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT-----ACGKYFRVSCLSIIDPGDSDIIK 148 (154)
Q Consensus 85 akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~-----a~Gk~~~vsvvaI~D~GfA~~i~ 148 (154)
+.|||.|+|-++ .-+.|...|+.+++||.. .+.-+++. ...++ ++ .|+|...|-+..+.
T Consensus 73 ~~lviaAt~d~~-ln~~i~~~a~~~~i~vNv--~D~p~~~~f~~Pa~~~r~-~l-~iaIsT~G~sP~la 136 (210)
T COG1648 73 AFLVIAATDDEE-LNERIAKAARERRILVNV--VDDPELCDFIFPAIVDRG-PL-QIAISTGGKSPVLA 136 (210)
T ss_pred ceEEEEeCCCHH-HHHHHHHHHHHhCCceec--cCCcccCceecceeeccC-Ce-EEEEECCCCChHHH
Confidence 889999888544 778899999999999984 55555543 34555 45 69999888544443
No 50
>TIGR00461 gcvP glycine dehydrogenase (decarboxylating). This apparently ubiquitous enzyme is found in bacterial, mammalian and plant sources. The enzyme catalyzes the reaction: GLYCINE + LIPOYLPROTEIN = S-AMINOMETHYL-DIHYDROLIPOYLPROTEIN + CO2. It is part of the glycine decarboxylase multienzyme complex (GDC) consisting of four proteins P, H, L and T. Active site in E.coli is located as the (K) residues at position 713 of the SEED alignment.
Probab=71.68 E-value=35 Score=34.11 Aligned_cols=139 Identities=15% Similarity=0.102 Sum_probs=84.1
Q ss_pred CchhhHHHHhhcCC----CCCcccchhhhhcchhHHH-HHhhhhhhhhhhhhhh------HHHHHH-------HHHHHHH
Q 047379 3 SDKETLDEFKSAGA----ASPLLGLVCYFAAAREVFF-GATKQSKMVTSKKTKK------THESIN-------NRLALVM 64 (154)
Q Consensus 3 ~~~~~~~~~~~~~~----~~~~~grg~y~~~~~~~~~-~a~~~~~~~~~~k~~~------~~~kil-------~lLglA~ 64 (154)
|..|.+.+|+.... ...++|.|.|-+.-...+. .-+.+.-|..+.--+| ..+-++ .+.|+-.
T Consensus 47 sE~e~~~~~~~la~~N~~~~~fig~G~y~~~~p~~i~r~v~~~p~~~TaytPyQ~EisQG~Le~l~e~Qt~i~eLtGm~~ 126 (939)
T TIGR00461 47 KEYEALAHLKKIASKNHKFKSYIGMGYYGTILPPVIQRNLLENPGWYTAYTPYQPEISQGRLEALLNFQTVVSDLTGLPV 126 (939)
T ss_pred CHHHHHHHHHHHHhcCCCccccCCCCcCCCcCChHHHHHHHhCchhhhcCCCCChhhhhHHHHHHHHHHHHHHHHHCCCh
Confidence 44566677665433 3356799999876666666 6667777766665111 112222 2333222
Q ss_pred HhCCceecH----HHHHHHH--hcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEE
Q 047379 65 KSGKYTLGY----KTVLRSL--RTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSI 138 (154)
Q Consensus 65 rAGklv~G~----~~VlkaI--k~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI 138 (154)
-.-.+.-|. +.++.+. .+++..-||++.++-|.+..-+..+++..++.++. .+-++|-..+ + ++++.+
T Consensus 127 aNaSl~d~atA~aEa~~~a~~~~~~~~~~vlv~~~~hP~~~~v~~t~a~~~g~~v~~--~~~~~l~~~~--~--~~~v~~ 200 (939)
T TIGR00461 127 ANASLLDEGTAAAEAMALSFNVSKKKANKFFVAKDLHPQTKSVLHTRAKPFGIEVIV--VDCSDIKKAV--D--VFGCLL 200 (939)
T ss_pred hhhhccchhhHHHHHHHHHHHhhcCCCCEEEECCCCCcchHHHHHHHHHhcCcEEEE--EcHHHHhhcC--C--EEEEEE
Confidence 211222222 2344453 33445679999999999999999999999999985 3556676555 2 335667
Q ss_pred eCcCchHHH
Q 047379 139 IDPGDSDII 147 (154)
Q Consensus 139 ~D~GfA~~i 147 (154)
+.|++--.+
T Consensus 201 q~Pn~~G~i 209 (939)
T TIGR00461 201 QYPATDGSI 209 (939)
T ss_pred ECCCCCeEE
Confidence 777764433
No 51
>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=70.41 E-value=34 Score=24.43 Aligned_cols=45 Identities=13% Similarity=0.031 Sum_probs=29.0
Q ss_pred CCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcc
Q 047379 83 SKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYF 131 (154)
Q Consensus 83 gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~ 131 (154)
..+.+|-|+.|.. ..+..+++.+++++..+.....++++.+|...
T Consensus 56 ~~~~vv~is~d~~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~~ 100 (140)
T cd03017 56 LGAVVIGVSPDSV----ESHAKFAEKYGLPFPLLSDPDGKLAKAYGVWG 100 (140)
T ss_pred CCCEEEEEcCCCH----HHHHHHHHHhCCCceEEECCccHHHHHhCCcc
Confidence 3478888888743 44556666665544432345568999999764
No 52
>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=70.28 E-value=9.4 Score=27.19 Aligned_cols=82 Identities=12% Similarity=0.067 Sum_probs=46.5
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE--ecCCHHHHHhhhCC-cccEEEEEEeCcC
Q 047379 66 SGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH--YNGNNVDLGTACGK-YFRVSCLSIIDPG 142 (154)
Q Consensus 66 AGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~--~~~tkeELG~a~Gk-~~~vsvvaI~D~G 142 (154)
.+...-|..+.++.|++...+++|++++.+.....-...+ +..|+|+-. .+.+-..+...+-+ .....|..|-.++
T Consensus 12 g~~~ipga~e~l~~L~~~g~~~~~lTNns~~s~~~~~~~L-~~~Gi~~~~~~i~ts~~~~~~~l~~~~~~~~v~vlG~~~ 90 (101)
T PF13344_consen 12 GNEPIPGAVEALDALRERGKPVVFLTNNSSRSREEYAKKL-KKLGIPVDEDEIITSGMAAAEYLKEHKGGKKVYVLGSDG 90 (101)
T ss_dssp TTEE-TTHHHHHHHHHHTTSEEEEEES-SSS-HHHHHHHH-HHTTTT--GGGEEEHHHHHHHHHHHHTTSSEEEEES-HH
T ss_pred CCCcCcCHHHHHHHHHHcCCCEEEEeCCCCCCHHHHHHHH-HhcCcCCCcCEEEChHHHHHHHHHhcCCCCEEEEEcCHH
Confidence 3566789999999999998999999998776544444444 678888642 11223333333332 1122245666666
Q ss_pred chHHHh
Q 047379 143 DSDIIK 148 (154)
Q Consensus 143 fA~~i~ 148 (154)
+.+.+.
T Consensus 91 l~~~l~ 96 (101)
T PF13344_consen 91 LREELR 96 (101)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 655544
No 53
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=66.69 E-value=11 Score=33.97 Aligned_cols=52 Identities=21% Similarity=0.339 Sum_probs=45.0
Q ss_pred HHhCCceecHHHHHHHHhcCCceEEEEeCCCChhh-------hhhHHHHHHhCCCcEEE
Q 047379 64 MKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLR-------KSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 64 ~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~-------k~ki~~~c~~~~Vpvi~ 115 (154)
...|+..+-.++..+++..+++++.||.+=-.|-. ..++.++|+++||.+|.
T Consensus 138 ~~~~~y~iD~~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VIS 196 (388)
T COG1168 138 EDDGRYEIDFDALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVIS 196 (388)
T ss_pred ccCCcEEecHHHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEEe
Confidence 36788888999999999999999999998887733 37788999999999995
No 54
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=66.64 E-value=38 Score=28.58 Aligned_cols=74 Identities=8% Similarity=-0.056 Sum_probs=59.2
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 68 KYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 68 klv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
....=..|+.++-.-|-=.+++++.-.++...+.+...|...|..++.-+.|.+||-+++--... ++||.+.++
T Consensus 109 DFIid~~QI~ea~~~GADavLLI~~~L~~~~l~~l~~~a~~lGle~LVEVh~~~El~~a~~~ga~--iiGINnRdL 182 (247)
T PRK13957 109 DFILDEIQIREARAFGASAILLIVRILTPSQIKSFLKHASSLGMDVLVEVHTEDEAKLALDCGAE--IIGINTRDL 182 (247)
T ss_pred cccCCHHHHHHHHHcCCCEEEeEHhhCCHHHHHHHHHHHHHcCCceEEEECCHHHHHHHHhCCCC--EEEEeCCCC
Confidence 34556678888888887777888888888888999999999997665448999999999876544 599987765
No 55
>cd02969 PRX_like1 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic cysteine found in PRXs, which aligns to the second cysteine in the CXXC motif of TRX. In addition, these proteins do not contain the other two conserved 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.
Probab=66.11 E-value=40 Score=25.42 Aligned_cols=60 Identities=10% Similarity=0.027 Sum_probs=38.5
Q ss_pred hcCCceEEEEeCCCCh----hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCc
Q 047379 81 RTSKGKLIILSNNCPP----LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDP 141 (154)
Q Consensus 81 k~gkakLVIlA~Das~----~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~ 141 (154)
.+.++.+|.++.|... +....+..+.+.+++|+.........+.+.+|....- .+-|+|+
T Consensus 55 ~~~~v~~v~is~d~~~~~~~d~~~~~~~~~~~~~~~~~~l~D~~~~~~~~~~v~~~P-~~~lid~ 118 (171)
T cd02969 55 GAKGVAVVAINSNDIEAYPEDSPENMKAKAKEHGYPFPYLLDETQEVAKAYGAACTP-DFFLFDP 118 (171)
T ss_pred hhCCeEEEEEecCccccccccCHHHHHHHHHHCCCCceEEECCchHHHHHcCCCcCC-cEEEECC
Confidence 3345888888887653 4567777777788776554344566888888864322 2455553
No 56
>cd01483 E1_enzyme_family Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common reaction mechanism catalyzed by MoeB, ThiF and the E1 enzymes begins with a nucleophilic attack of the C-terminal carboxylate of MoaD, ThiS and ubiquitin, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS.
Probab=65.42 E-value=11 Score=27.76 Aligned_cols=34 Identities=12% Similarity=0.023 Sum_probs=29.1
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
...+||.+.|. ...+..+.++|..+++|++. .++
T Consensus 89 ~~diVi~~~d~-~~~~~~l~~~~~~~~i~~i~-~~~ 122 (143)
T cd01483 89 GVDLVIDAIDN-IAVRRALNRACKELGIPVID-AGG 122 (143)
T ss_pred CCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE-EcC
Confidence 57899999987 66789999999999999995 655
No 57
>PF00218 IGPS: Indole-3-glycerol phosphate synthase; InterPro: IPR013798 Indole-3-glycerol phosphate synthase (4.1.1.48 from EC) (IGPS) catalyses the fourth step in the biosynthesis of tryptophan, the ring closure of 1-(2-carboxy-phenylamino)-1-deoxyribulose into indol-3-glycerol-phosphate. In some bacteria, IGPS is a single chain enzyme. In others, such as Escherichia coli, it is the N-terminal domain of a bifunctional enzyme that also catalyses N-(5'-phosphoribosyl)anthranilate isomerase (5.3.1.24 from EC) (PRAI) activity (see IPR001240 from INTERPRO), the third step of tryptophan biosynthesis. In fungi, IGPS is the central domain of a trifunctional enzyme that contains a PRAI C-terminal domain and a glutamine amidotransferase (2.4.2 from EC) (GATase) N-terminal domain (see IPR000991 from INTERPRO). A structure of the IGPS domain of the bifunctional enzyme from the mesophilic bacterium E. coli (eIGPS) has been compared with the monomeric indole-3-glycerol phosphate synthase from the hyperthermophilic archaeon Sulfolobus solfataricus (sIGPS). Both are single-domain (beta/alpha)8 barrel proteins, with one (eIGPS) or two (sIGPS) additional helices inserted before the first beta strand []. ; GO: 0004425 indole-3-glycerol-phosphate synthase activity; PDB: 1VC4_A 1PII_A 1JCM_P 1I4N_B 1J5T_A 3TSM_B 4FB7_A 3QJA_A 1JUL_A 2C3Z_A ....
Probab=62.62 E-value=37 Score=28.64 Aligned_cols=75 Identities=8% Similarity=-0.009 Sum_probs=58.1
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 67 GKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 67 Gklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
...++-..|+.++-.-|--.++++++=.++.....+..+|...|..++.-+.|.+||-+++.-.. .++||.+.++
T Consensus 115 KDFIid~~QI~eA~~~GADaVLLI~~~L~~~~l~~l~~~a~~lGle~lVEVh~~~El~~al~~~a--~iiGINnRdL 189 (254)
T PF00218_consen 115 KDFIIDPYQIYEARAAGADAVLLIAAILSDDQLEELLELAHSLGLEALVEVHNEEELERALEAGA--DIIGINNRDL 189 (254)
T ss_dssp ES---SHHHHHHHHHTT-SEEEEEGGGSGHHHHHHHHHHHHHTT-EEEEEESSHHHHHHHHHTT---SEEEEESBCT
T ss_pred ccCCCCHHHHHHHHHcCCCEeehhHHhCCHHHHHHHHHHHHHcCCCeEEEECCHHHHHHHHHcCC--CEEEEeCccc
Confidence 45677788999999999888888899999999899999999999765545899999999985543 3699987664
No 58
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=62.61 E-value=28 Score=28.55 Aligned_cols=66 Identities=17% Similarity=0.090 Sum_probs=51.2
Q ss_pred HHHHHHHHhcCCceEEEEeCCCChhh----hhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcC
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPPLR----KSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPG 142 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~~~----k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~G 142 (154)
.+.+.++++.|-.-+.+-..|.+... .+++..+|..|++|++ +.+.-+|....|-. .++ ++=-|-.
T Consensus 24 ~~~ve~al~~Gv~~vQlR~K~~~~~~~~~~a~~~~~lc~~~~v~li--INd~~dlA~~~~Ad-GVH-lGq~D~~ 93 (211)
T COG0352 24 LEWVEAALKGGVTAVQLREKDLSDEEYLALAEKLRALCQKYGVPLI--INDRVDLALAVGAD-GVH-LGQDDMP 93 (211)
T ss_pred HHHHHHHHhCCCeEEEEecCCCChHHHHHHHHHHHHHHHHhCCeEE--ecCcHHHHHhCCCC-EEE-cCCcccc
Confidence 57889999999888888899988854 3788999999999998 57888888877755 453 4444333
No 59
>PF02603 Hpr_kinase_N: HPr Serine kinase N terminus; InterPro: IPR011126 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the N-terminal region of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller. The blades are formed by two N-terminal domains each, and the compact central hub assembles the C-terminal kinase domains []. ; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 1KNX_B 1KO7_A.
Probab=62.45 E-value=20 Score=26.63 Aligned_cols=44 Identities=16% Similarity=0.089 Sum_probs=28.9
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCH
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 120 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tk 120 (154)
+.++.+-+.+.-.+|++.|..+ -..+...|++++||+.....+-
T Consensus 72 ~~l~~l~~~~~P~iIvt~~~~~--p~~l~e~a~~~~ipll~t~~~t 115 (127)
T PF02603_consen 72 ERLEKLFSYNPPCIIVTRGLEP--PPELIELAEKYNIPLLRTPLST 115 (127)
T ss_dssp CHHHHHCTTT-S-EEEETTT-----HHHHHHHHHCT--EEEESS-H
T ss_pred HHHHHHhCCCCCEEEEECcCCC--CHHHHHHHHHhCCcEEEcCCcH
Confidence 4677787888999999999954 4677888999999998644333
No 60
>cd01423 MGS_CPS_I_III Methylglyoxal synthase-like domain found in pyr1 and URA1-like carbamoyl phosphate synthetases (CPS), including ammonia-dependent CPS Type I, and glutamine-dependent CPS Type III. These are multidomain proteins, in which MGS is the C-terminal domain.
Probab=60.91 E-value=12 Score=27.01 Aligned_cols=42 Identities=17% Similarity=-0.034 Sum_probs=32.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhh----hhhHHHHHHhCCCcEEE
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLR----KSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~----k~ki~~~c~~~~Vpvi~ 115 (154)
..+.+.|++|++.+||-..+-+... --.++..|-.++||+++
T Consensus 61 ~~i~~~i~~~~idlVIn~~~~~~~~~~~~~~~iRr~Av~~~ip~iT 106 (116)
T cd01423 61 PSLRELLAEGKIDLVINLPSNRGKRVLDNDYVMRRAADDFAVPLIT 106 (116)
T ss_pred hhHHHHHHcCCceEEEECCCCCCCccccCcEeeehhhHhhCCcccc
Confidence 6689999999999999865433221 35688899999999974
No 61
>KOG3166 consensus 60S ribosomal protein L7A [Translation, ribosomal structure and biogenesis]
Probab=60.32 E-value=4.2 Score=33.70 Aligned_cols=41 Identities=15% Similarity=0.165 Sum_probs=34.9
Q ss_pred ceecHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhC
Q 047379 69 YTLGYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLA 109 (154)
Q Consensus 69 lv~G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~ 109 (154)
+..|.+.|..-+.+.++.||++|.|.+| ...--+..+|...
T Consensus 110 ~~~gvnTVttLVenKKAQLVV~ahDvDPIELVvFLPaLC~km 151 (209)
T KOG3166|consen 110 LRAGVNTVTTLVENKKAQLVVTAHDVDPIELVVFLPALCRKM 151 (209)
T ss_pred cccCcceEeehhhccccceeEEecccCchhheeecHHhhhhh
Confidence 6679999999999999999999999999 4555667788776
No 62
>PF03618 Kinase-PPPase: Kinase/pyrophosphorylase; InterPro: IPR005177 This entry represents a family of uncharacterised proteins which are predicted to function as phosphotransferases.; GO: 0005524 ATP binding, 0016772 transferase activity, transferring phosphorus-containing groups
Probab=59.72 E-value=25 Score=29.88 Aligned_cols=45 Identities=11% Similarity=-0.040 Sum_probs=38.4
Q ss_pred EEEeCCCChhhhhhHHHHHHhCCCcEEEecC--CHHHHHhhhCCcccE
Q 047379 88 IILSNNCPPLRKSEIEYYAMLAKVGVHHYNG--NNVDLGTACGKYFRV 133 (154)
Q Consensus 88 VIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~--tkeELG~a~Gk~~~v 133 (154)
+|+.+=+++..++.+...|+.++||++. .. --..|...+|.+..-
T Consensus 55 iV~~Tlv~~~lr~~l~~~~~~~~i~~~D-ll~~~l~~l~~~lg~~p~~ 101 (255)
T PF03618_consen 55 IVFYTLVDPELREYLEEFCREHGIPCVD-LLGPLLSALEEFLGQKPSR 101 (255)
T ss_pred EEEEeCCCHHHHHHHHHHHHhcCCCEEe-ccHHHHHHHHHHHCcCccc
Confidence 8888999999999999999999999996 44 456899999987543
No 63
>PF08534 Redoxin: Redoxin; InterPro: IPR013740 This redoxin domain is found in peroxiredoxin, thioredoxin and glutaredoxin proteins. Peroxiredoxins (Prxs) constitute a family of thiol peroxidases that reduce hydrogen peroxide, peroxinitrite, and hydroperoxides using a strictly conserved cysteine []. Chloroplast thioredoxin systems in plants regulate the enzymes involved in photosynthetic carbon assimilation []. It is thought that redoxins have a large role to play in anti-oxidant defence. Cadmium-sensitive proteins are also regulated via thioredoxin and glutaredoxin thiol redox systems [].; GO: 0016491 oxidoreductase activity; PDB: 2H30_A 1TP9_A 1Y25_A 1XVQ_A 2B1K_A 2G0F_A 2B1L_B 3K8N_A 1Z5Y_E 3OR5_A ....
Probab=59.25 E-value=51 Score=23.81 Aligned_cols=46 Identities=11% Similarity=0.099 Sum_probs=30.8
Q ss_pred hcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 047379 81 RTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 130 (154)
Q Consensus 81 k~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~ 130 (154)
+...+.+|.+..|-++. +..+.+.+++++........++...+|..
T Consensus 59 ~~~~v~~v~v~~~~~~~----~~~~~~~~~~~~~~~~D~~~~~~~~~~~~ 104 (146)
T PF08534_consen 59 KDKGVDVVGVSSDDDPP----VREFLKKYGINFPVLSDPDGALAKALGVT 104 (146)
T ss_dssp HTTTCEEEEEEESSSHH----HHHHHHHTTTTSEEEEETTSHHHHHTTCE
T ss_pred ccCceEEEEecccCCHH----HHHHHHhhCCCceEEechHHHHHHHhCCc
Confidence 34558899998888887 44455555544443234667999999954
No 64
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=58.80 E-value=28 Score=25.61 Aligned_cols=46 Identities=13% Similarity=0.110 Sum_probs=39.6
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
.++++.+.++.+.++++.+|.-++..+.+..+-+..-.|.+...++
T Consensus 36 ~~~~~~l~~~~~~iIiite~~a~~i~~~i~~~~~~~~~P~iv~IPs 81 (104)
T COG1436 36 RAALRVLAEDDVGIILITEDLAEKIREEIRRIIRSSVLPAIVEIPS 81 (104)
T ss_pred HHHHHhhccCCceEEEEeHHHHhhhHHHHHHHhhccCccEEEEeCC
Confidence 5678888888999999999999999999998877777888876777
No 65
>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase
Probab=58.17 E-value=36 Score=29.64 Aligned_cols=54 Identities=17% Similarity=0.090 Sum_probs=42.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk 129 (154)
.+.++.+-+.+.-.+|++.+..+. ..+...|++++||++.......+++..+-.
T Consensus 72 ~~~~~~~~~~~~P~iIvt~~~~~p--~~l~~~a~~~~ip~l~t~~~~~~~~~~l~~ 125 (304)
T TIGR00679 72 KQIIHNLLTLNPPAIILSKSFTDP--TVLLQVNETYQVPILKTDLFSTELSFRLET 125 (304)
T ss_pred HHHHHHHhCCCCCEEEEECcCCCC--HHHHHHHHHhCCcEEEeCCcHHHHHHHHHH
Confidence 346677777888899999998885 778889999999999855666777776643
No 66
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=57.82 E-value=35 Score=23.20 Aligned_cols=46 Identities=11% Similarity=0.167 Sum_probs=33.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
..+|..+......++|+...++.-.=.-...+|+.++||++.|..+
T Consensus 21 ~~~Ld~~~~~~~~~~lvhGga~~GaD~iA~~wA~~~gv~~~~~~ad 66 (71)
T PF10686_consen 21 WAALDKVHARHPDMVLVHGGAPKGADRIAARWARERGVPVIRFPAD 66 (71)
T ss_pred HHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHHHCCCeeEEeCcC
Confidence 3456666767777888887775544456688999999999976554
No 67
>PRK05367 glycine dehydrogenase; Provisional
Probab=56.77 E-value=71 Score=31.90 Aligned_cols=117 Identities=13% Similarity=0.132 Sum_probs=74.5
Q ss_pred CchhhHHHHhhcCC----CCCcccchhhhhcchhHH-HHHhhhhhhhhhhh-------hhhH------HHHHHHHHHHHH
Q 047379 3 SDKETLDEFKSAGA----ASPLLGLVCYFAAAREVF-FGATKQSKMVTSKK-------TKKT------HESINNRLALVM 64 (154)
Q Consensus 3 ~~~~~~~~~~~~~~----~~~~~grg~y~~~~~~~~-~~a~~~~~~~~~~k-------~~~~------~~kil~lLglA~ 64 (154)
|..|.+.+|+.... ...++|-|.|-+.++..+ +.-+.+.-|..+.- +..+ ..-+..++|+-.
T Consensus 59 sE~e~~~~~~~la~~N~~~~~~ig~G~y~~~~P~vi~~~i~~~~~~~t~ytPyQ~EisQG~Leal~~~Qt~la~LtG~~~ 138 (954)
T PRK05367 59 SEAEALAELRAIASKNKVFRSYIGQGYYGTHTPPVILRNILENPAWYTAYTPYQPEISQGRLEALLNFQTMVADLTGLEI 138 (954)
T ss_pred CHHHHHHHHHHHHhcCCCCCcccCCCCCCCcCcHHHHHHHHhCcchhhccCCCChHHHHHHHHHHHHHHHHHHHHHCCCh
Confidence 44566777665433 346799999999999977 66777777766655 1111 123344444433
Q ss_pred HhCCce----ecHHHHHHHHh--cCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCH
Q 047379 65 KSGKYT----LGYKTVLRSLR--TSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 120 (154)
Q Consensus 65 rAGklv----~G~~~VlkaIk--~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tk 120 (154)
..=-+. .+.+.++.+++ +++..-||++.+.-|.+..-+..+++..|+.++. +...
T Consensus 139 anaSl~d~aTAa~ea~~~a~~~~~~~~~~vlv~~~~hP~~~~v~~t~a~~~G~ev~~-~~~~ 199 (954)
T PRK05367 139 ANASLLDEATAAAEAMALAKRVSKSKSNRFFVDDDVHPQTLDVLRTRAEPLGIEVVV-GDAA 199 (954)
T ss_pred hhccccccHHHHHHHHHHhhhhccCCCCEEEEcCccCHHHHHHHHHHHHhCCCEEEE-ecCc
Confidence 221222 33344444543 2223578899999999999999999999999995 5543
No 68
>COG0403 GcvP Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]
Probab=56.01 E-value=71 Score=29.41 Aligned_cols=140 Identities=15% Similarity=0.134 Sum_probs=86.7
Q ss_pred CchhhHHHHhhcC----CCCCcccchhhhhcchhHHH-HHhhhhhhhhhhh------hhhHHHHHHHHHHHHH-------
Q 047379 3 SDKETLDEFKSAG----AASPLLGLVCYFAAAREVFF-GATKQSKMVTSKK------TKKTHESINNRLALVM------- 64 (154)
Q Consensus 3 ~~~~~~~~~~~~~----~~~~~~grg~y~~~~~~~~~-~a~~~~~~~~~~k------~~~~~~kil~lLglA~------- 64 (154)
|..|.|.+++... -.-+++|.|.|-.-.+..+. .-+++..|..+.. .|=..+-++++=.+..
T Consensus 58 sE~e~l~~l~~ia~kN~~~~sfiG~GyY~~~~P~vI~rnile~pewyTaYTPYQpEISQGrLqaLfefQtlv~dLTGm~V 137 (450)
T COG0403 58 SEYEALAELKEIASKNKVFTSFIGAGYYDTYTPPVILRNILENPEWYTAYTPYQPEISQGRLEALFEFQTLVADLTGLDV 137 (450)
T ss_pred CHHHHHHHHHHHHhcCchhhhhccCcccCCcCcHHHHHHhhcCccccccCCCCchhhhhHHHHHHHHHHHHHHHHhCCCc
Confidence 3445666665432 23468999999999999999 7888999988877 1112233333322222
Q ss_pred HhCCceecHHHH----H--HHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecC-CHHHHHhhhCCcccEEEEE
Q 047379 65 KSGKYTLGYKTV----L--RSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG-NNVDLGTACGKYFRVSCLS 137 (154)
Q Consensus 65 rAGklv~G~~~V----l--kaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~-tkeELG~a~Gk~~~vsvva 137 (154)
-.-.+-=|.... + ..+.+++..-++++.|+-|.+..-+..+++-.++.++.+.. +-+.|-.+ +...+..+.
T Consensus 138 ANASm~DeaTAaAEAm~ma~r~~k~k~~~~~V~~~vhpqt~~Vl~Tra~~~g~~i~~~~~~d~~~l~~~--~~~~~~gv~ 215 (450)
T COG0403 138 ANASMLDEATAAAEAMLMAKRVTKKKRNKFLVPKDVHPQTLDVLRTRAEGLGIEIEVVDADDLDDLESA--DDGDVFGVL 215 (450)
T ss_pred ccchhhhhHHHHHHHHHHHHHhhcCcCceEEecCCCCHHHHHHHHhhcccCceEEEEeccchhhhhhhc--cccCeEEEE
Confidence 111222222222 1 22344558899999999999999999999999998886333 33344444 332344566
Q ss_pred EeCcCch
Q 047379 138 IIDPGDS 144 (154)
Q Consensus 138 I~D~GfA 144 (154)
+.-||+-
T Consensus 216 vQyP~~~ 222 (450)
T COG0403 216 VQYPNTF 222 (450)
T ss_pred EecCCCC
Confidence 6666653
No 69
>cd02966 TlpA_like_family TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a CXXC motif located in the periplasm. The TRX domains of this family contain an insert, approximately 25 residues in length, which correspond to an extra alpha helix and a beta strand when compared with TRX. TlpA catalyzes an essential reaction in the biogenesis of cytochrome aa3, while ResA and DsbE are essential proteins in cytochrome c maturation. Also included in this family are proteins containing a TlpA-like TRX domain with domain architectures similar to E. coli DipZ protein, and the N-terminal TRX domain of PilB protein from Neisseria which acts as a disulfide reductase that can recylce methionine sulfoxide reductases.
Probab=55.41 E-value=56 Score=21.36 Aligned_cols=56 Identities=9% Similarity=0.049 Sum_probs=34.7
Q ss_pred CCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC-cccEEEEEEeCcC
Q 047379 83 SKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK-YFRVSCLSIIDPG 142 (154)
Q Consensus 83 gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk-~~~vsvvaI~D~G 142 (154)
..+.++.+..|.. +.+.+..+.+.++.|+..+.....++.+..|. ..+. +.|.|++
T Consensus 51 ~~~~~~~v~~d~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~--~~l~d~~ 107 (116)
T cd02966 51 DGVEVVGVNVDDD--DPAAVKAFLKKYGITFPVLLDPDGELAKAYGVRGLPT--TFLIDRD 107 (116)
T ss_pred CCeEEEEEECCCC--CHHHHHHHHHHcCCCcceEEcCcchHHHhcCcCccce--EEEECCC
Confidence 4577777777765 44555555566665555433455789999987 3333 5566643
No 70
>TIGR01470 cysG_Nterm siroheme synthase, N-terminal domain. This model represents a subfamily of CysG N-terminal region-related sequences. All sequences in the seed alignment for this model are N-terminal regions of known or predicted siroheme synthases. The C-terminal region of each is uroporphyrin-III C-methyltransferase (EC 2.1.1.107), which catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). The region represented by this model completes the process of oxidation and iron insertion to yield siroheme. Siroheme is a cofactor for nitrite and sulfite reductases, so siroheme synthase is CysG of cysteine biosynthesis in some organisms.
Probab=55.07 E-value=10 Score=30.54 Aligned_cols=64 Identities=14% Similarity=0.077 Sum_probs=41.9
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh-C---CcccEEEEEEeCcC----chHHHhcCC
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC-G---KYFRVSCLSIIDPG----DSDIIKSLP 151 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~-G---k~~~vsvvaI~D~G----fA~~i~~~~ 151 (154)
.+.+||+|+|-++ .-..+...|+..+|||.. +.+ -+++... . ..-.. +|+|...| +++.|.+.+
T Consensus 69 ~~~lVi~at~d~~-ln~~i~~~a~~~~ilvn~-~d~-~e~~~f~~pa~~~~g~l-~iaisT~G~sP~la~~lr~~i 140 (205)
T TIGR01470 69 GAFLVIAATDDEE-LNRRVAHAARARGVPVNV-VDD-PELCSFIFPSIVDRSPV-VVAISSGGAAPVLARLLRERI 140 (205)
T ss_pred CcEEEEECCCCHH-HHHHHHHHHHHcCCEEEE-CCC-cccCeEEEeeEEEcCCE-EEEEECCCCCcHHHHHHHHHH
Confidence 4889999988763 456899999999999974 444 4555433 1 12235 68897555 555555443
No 71
>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=54.29 E-value=28 Score=28.68 Aligned_cols=17 Identities=0% Similarity=-0.097 Sum_probs=8.9
Q ss_pred hhhhHHHHHHhCCCcEE
Q 047379 98 RKSEIEYYAMLAKVGVH 114 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi 114 (154)
...++....+..+|+++
T Consensus 194 ~l~~l~~~ik~~~v~~i 210 (264)
T cd01020 194 DIAAFQNAIKNRQIDAL 210 (264)
T ss_pred HHHHHHHHHHhCCCCEE
Confidence 34555555555555555
No 72
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=54.04 E-value=18 Score=26.53 Aligned_cols=44 Identities=11% Similarity=-0.046 Sum_probs=32.1
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEE
Q 047379 72 GYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 72 G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~ 115 (154)
..++..+.++++.+.-|++|-+-++ ...+++...|+..+|++..
T Consensus 129 ~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~~ 173 (175)
T PF13727_consen 129 DLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVRV 173 (175)
T ss_dssp -GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEEE
T ss_pred CHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEEE
Confidence 3588999999999999999976655 6779999999999999873
No 73
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=53.75 E-value=40 Score=28.58 Aligned_cols=53 Identities=13% Similarity=0.120 Sum_probs=36.9
Q ss_pred HHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 78 RSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 78 kaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
..+-..+.-+||.|.|. ...+..+..+|..++||++. . |-+.|+-.+. -+-|.
T Consensus 115 ~~ll~~~~D~VIdaiD~-~~~k~~L~~~c~~~~ip~I~-~------gGag~k~dp~-~~~~~ 167 (268)
T PRK15116 115 AEYMSAGFSYVIDAIDS-VRPKAALIAYCRRNKIPLVT-T------GGAGGQIDPT-QIQVV 167 (268)
T ss_pred HHHhcCCCCEEEEcCCC-HHHHHHHHHHHHHcCCCEEE-E------CCcccCCCCC-eEEEE
Confidence 34444568899999995 44678899999999999995 4 4556664444 24443
No 74
>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=52.84 E-value=58 Score=22.49 Aligned_cols=49 Identities=18% Similarity=0.209 Sum_probs=32.8
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhC--CCcEEEecCCHHHHHhhhCCc
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLA--KVGVHHYNGNNVDLGTACGKY 130 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~--~Vpvi~~~~tkeELG~a~Gk~ 130 (154)
..+.++...+.++.+..|-.+ .+..+.+.+ +.|++ .....++.+..|..
T Consensus 51 ~~~~~~~~~~~vi~is~d~~~----~~~~~~~~~~~~~~~~--~D~~~~~~~~~~~~ 101 (124)
T PF00578_consen 51 LYKKYKDKGVQVIGISTDDPE----EIKQFLEEYGLPFPVL--SDPDGELAKAFGIE 101 (124)
T ss_dssp HHHHHHTTTEEEEEEESSSHH----HHHHHHHHHTCSSEEE--EETTSHHHHHTTCE
T ss_pred HhhhhccceEEeeeccccccc----chhhhhhhhccccccc--cCcchHHHHHcCCc
Confidence 334455566899999998777 444444544 45665 24567899999866
No 75
>cd01485 E1-1_like Ubiquitin activating enzyme (E1), repeat 1-like. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. A set of novel molecules with a structural similarity to Ub, called Ub-like proteins (Ubls), have similar conjugation cascades. In contrast to ubiquitin-E1, which is a single-chain protein with a weakly conserved two-fold repeat, many of the Ubls-E1are a heterodimer where each subunit corresponds to one half of a single-chain E1. This CD represents the family homol
Probab=52.83 E-value=19 Score=28.72 Aligned_cols=34 Identities=12% Similarity=0.067 Sum_probs=27.0
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
...+||.+.| +...+..+.++|.+++||++. .++
T Consensus 113 ~~dvVi~~~d-~~~~~~~ln~~c~~~~ip~i~-~~~ 146 (198)
T cd01485 113 KFTLVIATEE-NYERTAKVNDVCRKHHIPFIS-CAT 146 (198)
T ss_pred CCCEEEECCC-CHHHHHHHHHHHHHcCCCEEE-EEe
Confidence 3667777755 477889999999999999994 554
No 76
>cd00757 ThiF_MoeB_HesA_family ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD and ThiS, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS. MoeB, as the MPT synthase (MoaE/MoaD complex) sulfurase, is involved in the biosynthesis of the molybdenum cofactor, a derivative of the tricyclic pterin, molybdopterin (MPT). ThiF catalyzes the adenylation of ThiS, as part of the biosynthesis pathway of thiamin pyrophosphate (vitamin B1).
Probab=51.71 E-value=20 Score=28.91 Aligned_cols=33 Identities=6% Similarity=-0.101 Sum_probs=28.3
Q ss_pred ceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 85 GKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 85 akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
..+||.+.| ++..+..+.++|..+++|++. .+.
T Consensus 112 ~DvVi~~~d-~~~~r~~l~~~~~~~~ip~i~-~g~ 144 (228)
T cd00757 112 YDLVLDCTD-NFATRYLINDACVKLGKPLVS-GAV 144 (228)
T ss_pred CCEEEEcCC-CHHHHHHHHHHHHHcCCCEEE-EEe
Confidence 789999999 567888999999999999994 554
No 77
>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=51.67 E-value=86 Score=22.33 Aligned_cols=44 Identities=14% Similarity=0.084 Sum_probs=28.1
Q ss_pred cCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 047379 82 TSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 82 ~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk 129 (154)
...+.+|.|+.|..+... .+.+.+++|+-.+.....++.+++|.
T Consensus 55 ~~~v~vv~V~~~~~~~~~----~~~~~~~~~~p~~~D~~~~~~~~~g~ 98 (149)
T cd02970 55 ALGVELVAVGPESPEKLE----AFDKGKFLPFPVYADPDRKLYRALGL 98 (149)
T ss_pred hcCeEEEEEeCCCHHHHH----HHHHhcCCCCeEEECCchhHHHHcCc
Confidence 344788888887654332 45566665444334556788899887
No 78
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=51.37 E-value=1.1e+02 Score=25.46 Aligned_cols=70 Identities=10% Similarity=0.070 Sum_probs=54.0
Q ss_pred ceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 047379 69 YTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 140 (154)
Q Consensus 69 lv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D 140 (154)
+.+=..|+..+...|-=-+.+++++.++.+.+.+...|+..|..++.-+.|.+|+-++.--. +-.+++..
T Consensus 119 fi~~~~qi~~a~~~GAD~VlLi~~~l~~~~l~~li~~a~~lGl~~lvevh~~~E~~~A~~~g--adiIgin~ 188 (260)
T PRK00278 119 FIIDPYQIYEARAAGADAILLIVAALDDEQLKELLDYAHSLGLDVLVEVHDEEELERALKLG--APLIGINN 188 (260)
T ss_pred ecCCHHHHHHHHHcCCCEEEEEeccCCHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHcC--CCEEEECC
Confidence 44455588888888887888888888888899999999999977654478999998887443 23578764
No 79
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=50.79 E-value=9.6 Score=25.55 Aligned_cols=32 Identities=13% Similarity=0.120 Sum_probs=26.8
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 130 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~ 130 (154)
..-+.+.+++..|+|+.. .++..+++.-||..
T Consensus 13 ~a~~~ek~lk~~gi~~~l-iP~P~~i~~~CG~a 44 (73)
T PF11823_consen 13 DAMKAEKLLKKNGIPVRL-IPTPREISAGCGLA 44 (73)
T ss_pred HHHHHHHHHHHCCCcEEE-eCCChhccCCCCEE
Confidence 345567788999999995 99999999999965
No 80
>PLN02591 tryptophan synthase
Probab=49.75 E-value=1.4e+02 Score=25.02 Aligned_cols=90 Identities=9% Similarity=0.067 Sum_probs=61.3
Q ss_pred hhhhhhhhhhhhHHHHHHHHHHHHHHhCC------------ceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHH
Q 047379 40 QSKMVTSKKTKKTHESINNRLALVMKSGK------------YTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAM 107 (154)
Q Consensus 40 ~~~~~~~~k~~~~~~kil~lLglA~rAGk------------lv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~ 107 (154)
|+.-.|+.+.....+++++++...++.-+ +..|.+...+.+++--+.=||+. |.+.+-...+...|+
T Consensus 50 q~a~~rAL~~G~~~~~~~~~~~~~r~~~~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~Gviip-DLP~ee~~~~~~~~~ 128 (250)
T PLN02591 50 QAAATRALEKGTTLDSVISMLKEVAPQLSCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVP-DLPLEETEALRAEAA 128 (250)
T ss_pred HHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeC-CCCHHHHHHHHHHHH
Confidence 33345555555566788888887775322 12377888888877667767776 899988999999999
Q ss_pred hCCCcEEEec-CC--HHHHHhhhCCc
Q 047379 108 LAKVGVHHYN-GN--NVDLGTACGKY 130 (154)
Q Consensus 108 ~~~Vpvi~~~-~t--keELG~a~Gk~ 130 (154)
.+++..|.++ +| .+.+-.+....
T Consensus 129 ~~gl~~I~lv~Ptt~~~ri~~ia~~~ 154 (250)
T PLN02591 129 KNGIELVLLTTPTTPTERMKAIAEAS 154 (250)
T ss_pred HcCCeEEEEeCCCCCHHHHHHHHHhC
Confidence 9997776544 33 34466666444
No 81
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=48.56 E-value=1.1e+02 Score=22.63 Aligned_cols=50 Identities=6% Similarity=-0.029 Sum_probs=30.1
Q ss_pred HHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 047379 78 RSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 130 (154)
Q Consensus 78 kaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~ 130 (154)
+......+.+|.+..|-++ ..+..+.+.+++|+..+.....++.+..|..
T Consensus 88 ~~~~~~~~~vi~i~~d~~~---~~~~~~~~~~~~~~~~~~d~~~~~~~~~~v~ 137 (173)
T PRK03147 88 PKYKEKGVEIIAVNVDETE---LAVKNFVNRYGLTFPVAIDKGRQVIDAYGVG 137 (173)
T ss_pred HHhhcCCeEEEEEEcCCCH---HHHHHHHHHhCCCceEEECCcchHHHHcCCC
Confidence 3344444677777777554 3444555666666554344557888888854
No 82
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=48.09 E-value=58 Score=21.14 Aligned_cols=62 Identities=3% Similarity=-0.040 Sum_probs=40.3
Q ss_pred EEEeCCCChhhhhhHHHHHHhC-CCcEEEecCCHHHHHh-hhCCcccEEEEEEeCcCchHHHhc
Q 047379 88 IILSNNCPPLRKSEIEYYAMLA-KVGVHHYNGNNVDLGT-ACGKYFRVSCLSIIDPGDSDIIKS 149 (154)
Q Consensus 88 VIlA~Das~~~k~ki~~~c~~~-~Vpvi~~~~tkeELG~-a~Gk~~~vsvvaI~D~GfA~~i~~ 149 (154)
+|++...|......+..+.... ++|+.........++. +...+..-.+++|...|-.+.+.+
T Consensus 2 ~i~g~G~s~~~a~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i~iS~sg~t~~~~~ 65 (87)
T cd04795 2 FVIGIGGSGAIAAYFALELLELTGIEVVALIATELEHASLLSLLRKGDVVIALSYSGRTEELLA 65 (87)
T ss_pred EEEEcCHHHHHHHHHHHHHhcccCCceEEeCCcHHHHHHHHhcCCCCCEEEEEECCCCCHHHHH
Confidence 5778888888888888888888 8888853333334443 222222333789988887665554
No 83
>cd01492 Aos1_SUMO Ubiquitin activating enzyme (E1) subunit Aos1. Aos1 is part of the heterodimeric activating enzyme (E1), specific for the SUMO family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by SUMO family of ubiquitin-like proteins (Ublps) is involved in cell division, nuclear transport, the stress response and signal transduction. Aos1 contains part of the adenylation domain.
Probab=48.02 E-value=24 Score=28.05 Aligned_cols=34 Identities=9% Similarity=0.009 Sum_probs=27.9
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
...+||.+.| +......+.++|.+++||++. .++
T Consensus 110 ~~dvVi~~~~-~~~~~~~ln~~c~~~~ip~i~-~~~ 143 (197)
T cd01492 110 QFDVVVATEL-SRAELVKINELCRKLGVKFYA-TGV 143 (197)
T ss_pred CCCEEEECCC-CHHHHHHHHHHHHHcCCCEEE-EEe
Confidence 3678888877 577889999999999999995 554
No 84
>PRK05690 molybdopterin biosynthesis protein MoeB; Provisional
Probab=47.94 E-value=22 Score=29.32 Aligned_cols=31 Identities=10% Similarity=0.104 Sum_probs=26.7
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
...+||.+.|. ..++..+.++|..+++|++.
T Consensus 122 ~~DiVi~~~D~-~~~r~~ln~~~~~~~ip~v~ 152 (245)
T PRK05690 122 GHDLVLDCTDN-VATRNQLNRACFAAKKPLVS 152 (245)
T ss_pred cCCEEEecCCC-HHHHHHHHHHHHHhCCEEEE
Confidence 47799999994 46788999999999999994
No 85
>PF00899 ThiF: ThiF family; InterPro: IPR000594 Ubiquitin-activating enzyme (E1 enzyme) [, ] activates ubiquitin by first adenylating with ATP its C-terminal glycine residue and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thiolester and free AMP. Later the ubiquitin moiety is transferred to a cysteine residue on one of the many forms of ubiquitin- conjugating enzymes (E2). The family of ubiquitin-activating enzymes shares in its catalytic domain significant similarity with a large family of NAD/FAD-binding proteins. This domain is based on the common NAD/FAD-binding fold and finds members of several families, including UBA ubiquitin activating enzymes; the hesA/moeB/thiF family; NADH peroxidases; the LDH family; sarcosin oxidase; phytoene dehydrogenases; alanine dehydrogenases; hydroxyacyl-CoA dehydrogenases and many other NAD/FAD dependent dehydrogenases and oxidases.; GO: 0003824 catalytic activity; PDB: 1ZKM_D 1ZUD_3 1ZFN_D 1R4M_G 2NVU_A 1R4N_C 3DBR_A 3DBH_C 3DBL_G 1YOV_A ....
Probab=47.86 E-value=28 Score=25.46 Aligned_cols=31 Identities=3% Similarity=-0.109 Sum_probs=25.1
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
..-+||.+.|- ...+..+.++|..+++|++.
T Consensus 92 ~~d~vi~~~d~-~~~~~~l~~~~~~~~~p~i~ 122 (135)
T PF00899_consen 92 DYDIVIDCVDS-LAARLLLNEICREYGIPFID 122 (135)
T ss_dssp TSSEEEEESSS-HHHHHHHHHHHHHTT-EEEE
T ss_pred CCCEEEEecCC-HHHHHHHHHHHHHcCCCEEE
Confidence 46788888887 66788899999999999994
No 86
>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=47.25 E-value=74 Score=22.28 Aligned_cols=48 Identities=15% Similarity=0.057 Sum_probs=27.9
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 125 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~ 125 (154)
+....-...+..+||..+..+ -+.+..+|+..+||++....+.-+-.+
T Consensus 53 i~~~a~~~~i~~iIltg~~~~--~~~v~~la~~~~i~vi~t~~dtf~ta~ 100 (105)
T PF07085_consen 53 IQLAAIEAGIACIILTGGLEP--SEEVLELAKELGIPVISTPYDTFETAR 100 (105)
T ss_dssp HHHHHCCTTECEEEEETT------HHHHHHHHHHT-EEEE-SS-HHHHHH
T ss_pred HHHHHHHhCCCEEEEeCCCCC--CHHHHHHHHHCCCEEEEECCCHHHHHH
Confidence 344443344889999986655 456778889999999975555544443
No 87
>cd03361 TOPRIM_TopoIA_RevGyr TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to the ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=46.98 E-value=66 Score=25.17 Aligned_cols=57 Identities=7% Similarity=-0.069 Sum_probs=35.7
Q ss_pred ecHHHHHHHHhc--CCceEEEEeCCCChh---hhhhHHHHHHhCCCcEEEecC---CHHHHHhhh
Q 047379 71 LGYKTVLRSLRT--SKGKLIILSNNCPPL---RKSEIEYYAMLAKVGVHHYNG---NNVDLGTAC 127 (154)
Q Consensus 71 ~G~~~VlkaIk~--gkakLVIlA~Das~~---~k~ki~~~c~~~~Vpvi~~~~---tkeELG~a~ 127 (154)
.+.....+.|++ .++..||+|.|++.. +...+.+++...+.|+...++ |+.++=+|+
T Consensus 103 ~~~~~~~~~l~~l~~~~~~iiiatD~drEGe~I~~~i~~~~~~~~~~v~R~~fs~it~~~I~~a~ 167 (170)
T cd03361 103 DDKLETLEALRELALEVDEVLIATDPDTEGEKIAWDVYLALRPYNKNIKRAEFHEVTRRAILEAL 167 (170)
T ss_pred cchHHHHHHHHHHHhhCCEEEEecCCCccHHHHHHHHHHHhccCCCCeEEEEEecCCHHHHHHHH
Confidence 344455555543 568899999999874 456777777654555544332 555655554
No 88
>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=46.95 E-value=96 Score=22.04 Aligned_cols=46 Identities=11% Similarity=-0.060 Sum_probs=28.7
Q ss_pred CceEEEEeCCC--ChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 047379 84 KGKLIILSNNC--PPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 84 kakLVIlA~Da--s~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk 129 (154)
.+.+|.++.+- .++....+..+.+++++++-.......++...+|.
T Consensus 56 ~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~~p~~~D~~~~~~~~~~v 103 (126)
T cd03012 56 GLVVIGVHSPEFAFERDLANVKSAVLRYGITYPVANDNDYATWRAYGN 103 (126)
T ss_pred CeEEEEeccCccccccCHHHHHHHHHHcCCCCCEEECCchHHHHHhCC
Confidence 35666665532 23456777888888876654323455678888885
No 89
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=46.77 E-value=1.1e+02 Score=27.41 Aligned_cols=100 Identities=10% Similarity=0.009 Sum_probs=66.0
Q ss_pred chhhhhcchhHHHHHhhhhhhhhhhhhhhHHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCC------Ch
Q 047379 23 LVCYFAAAREVFFGATKQSKMVTSKKTKKTHESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNC------PP 96 (154)
Q Consensus 23 rg~y~~~~~~~~~~a~~~~~~~~~~k~~~~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Da------s~ 96 (154)
+|-|.-..+.-+....+-.+.++-- ++.++++.. +|+.-++...|.++|++|+.=|-+.-|+++-.. ..
T Consensus 232 ~gi~EvLkr~~v~ki~~e~ria~e~---~~~e~fl~~--iak~~~~v~YG~~eV~~A~e~GAve~LLv~De~lr~~~~~~ 306 (352)
T COG1537 232 AGINEVLKRGAVDKILSETRIAEEI---ELVEEFLER--LAKDDDKVAYGLEEVEKAAEYGAVETLLVTDELLRSDDVEE 306 (352)
T ss_pred HHHHHHHhhhhHHhHhhhhHHHHHH---HHHHHHHHH--HhcCCCceeEcHHHHHHHHhcCcceeEEeehhhhcccchhh
Confidence 3555555555555444444443333 244555443 355578999999999999999999888887542 22
Q ss_pred -hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 047379 97 -LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 128 (154)
Q Consensus 97 -~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~G 128 (154)
....++....+..|-+++. +.+--+.|.-+-
T Consensus 307 re~~~~ll~~ve~~ggkV~I-vs~~he~Ge~Lk 338 (352)
T COG1537 307 REDVEELLEEVESMGGKVVI-VSTEHEPGERLK 338 (352)
T ss_pred HHHHHHHHHHHHHcCCeEEE-EecCCcchHHHH
Confidence 3446677778888999985 677777777664
No 90
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=46.66 E-value=24 Score=29.24 Aligned_cols=63 Identities=11% Similarity=0.019 Sum_probs=42.7
Q ss_pred ceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh----CCcccEEEEEEeCcC----chHHHhcCC
Q 047379 85 GKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC----GKYFRVSCLSIIDPG----DSDIIKSLP 151 (154)
Q Consensus 85 akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~----Gk~~~vsvvaI~D~G----fA~~i~~~~ 151 (154)
+.|||.|+| ++..=+.+...|+..+++|.. +.+. +++... -..-.. +|||...| +++.|.+.+
T Consensus 86 ~~LViaATd-D~~vN~~I~~~a~~~~~lvn~-vd~p-~~~dFi~PAiv~rg~l-~IaIST~G~sP~lar~lR~~i 156 (223)
T PRK05562 86 KHLIVIATD-DEKLNNKIRKHCDRLYKLYID-CSDY-KKGLCIIPYQRSTKNF-VFALNTKGGSPKTSVFIGEKV 156 (223)
T ss_pred CcEEEECCC-CHHHHHHHHHHHHHcCCeEEE-cCCc-ccCeEEeeeEEecCCE-EEEEECCCcCcHHHHHHHHHH
Confidence 789999988 566778899999999999985 5554 445432 122245 68997655 455555433
No 91
>PF04609 MCR_C: Methyl-coenzyme M reductase operon protein C; InterPro: IPR007687 Methyl-coenzyme M reductase (MCR) catalyses the reduction of methyl-coenzyme M (CH3-SCoM) and coenzyme B (HS-CoB) to methane and the corresponding heterosulphide CoM-S-S-CoB (2.8.4.1 from EC), the final step in methane biosynthesis. This reaction proceeds under anaerobic conditions by methanogenic Archaea [], and requires a nickel-porphinoid prosthetic group, coenzyme F430, which is in the EPR-detectable Ni(I) oxidation state in the active enzyme. Studies on a catalytically inactive enzyme aerobically co-crystallized with coenzyme M displayed a fully occupied coenzyme M-binding site with no alternate conformations. The binding of coenzyme M appears to induce specific conformational changes that suggests a molecular mechanism by which the enzyme ensures that methyl-coenzyme M enters the substrate channel prior to coenzyme B, as required by the active-site geometry []. MCR is a hexamer composed of 2 alpha, 2 beta, and 2 gamma subunits with two identical nickel porphinoid active sites, which form two long active site channels with F430 embedded at the bottom [, ]. Genes encoding the beta (mcrB) and gamma (mcrG) subunits of MCR are separated by two open reading frames coding for two proteins C and D [, ]. The function of proteins C and D is unknown. This entry represents protein C.; GO: 0003824 catalytic activity, 0015948 methanogenesis
Probab=46.18 E-value=7.8 Score=33.22 Aligned_cols=63 Identities=11% Similarity=-0.004 Sum_probs=55.2
Q ss_pred HHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCH
Q 047379 57 NNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 120 (154)
Q Consensus 57 l~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tk 120 (154)
-|+|+|++-+|+-.+|.++-...+-+..--.||.-.|...-+..|...+.+.-+||++. .+..
T Consensus 103 tn~i~L~~G~G~~~~gl~~~E~~~I~~Hd~AV~~~Gn~~~~I~~K~~~ll~~i~iPiVv-~~~P 165 (268)
T PF04609_consen 103 TNMIGLARGSGGRIFGLTPKEIEQINEHDLAVFHLGNFKSCIIYKKRHLLRGIDIPIVV-CGGP 165 (268)
T ss_pred cceEEEeccCCCCccCCCHHHHHHHhhcCEEEEEeCCHHHHHHHHHHHHHhhcCCcEEE-ecCC
Confidence 38899999999999999999999888887788888999998999899999999999885 6655
No 92
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=46.11 E-value=36 Score=23.92 Aligned_cols=28 Identities=14% Similarity=-0.077 Sum_probs=22.1
Q ss_pred hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 047379 97 LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 128 (154)
Q Consensus 97 ~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~G 128 (154)
....+|...|++++||+++ ...|.+.+-
T Consensus 27 ~~A~~I~~~A~e~~VPi~~----~~~LAr~L~ 54 (82)
T TIGR00789 27 EVAERIIEIAKKHGIPIVE----DPDLVDVLL 54 (82)
T ss_pred HHHHHHHHHHHHcCCCEEe----CHHHHHHHH
Confidence 4678999999999999997 356666663
No 93
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=45.80 E-value=55 Score=26.68 Aligned_cols=63 Identities=13% Similarity=0.061 Sum_probs=47.4
Q ss_pred Cceec------HHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEE
Q 047379 68 KYTLG------YKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSI 138 (154)
Q Consensus 68 klv~G------~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI 138 (154)
.+.+| .+++..++..| +.+++ ||..-..+..+|.+++||++-=..|..|+=.+.... +..+.+
T Consensus 67 ~~~vGaGTV~~~~~~~~a~~aG-A~Fiv-----sP~~~~~v~~~~~~~~i~~iPG~~T~~E~~~A~~~G--ad~vkl 135 (213)
T PRK06552 67 EVLIGAGTVLDAVTARLAILAG-AQFIV-----SPSFNRETAKICNLYQIPYLPGCMTVTEIVTALEAG--SEIVKL 135 (213)
T ss_pred CeEEeeeeCCCHHHHHHHHHcC-CCEEE-----CCCCCHHHHHHHHHcCCCEECCcCCHHHHHHHHHcC--CCEEEE
Confidence 47777 46788888887 77776 888888999999999999985344888988887433 223555
No 94
>cd03011 TlpA_like_ScsD_MtbDsbE TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif. The Salmonella typhimurium ScsD is a thioredoxin-like protein which confers copper tolerance to copper-sensitive mutants of E. coli. MtbDsbE has been characterized as an oxidase in vitro, catalyzing the disulfide bond formation of substrates like hirudin. The reduced form of MtbDsbE is more stable than its oxidized form, consistent with an oxidase function. This is in contrast to the function of DsbE from gram-negative bacteria which is a specific reductase of apocytochrome c.
Probab=45.66 E-value=89 Score=21.68 Aligned_cols=55 Identities=13% Similarity=0.192 Sum_probs=32.2
Q ss_pred ceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcC
Q 047379 85 GKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPG 142 (154)
Q Consensus 85 akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~G 142 (154)
..++.++.|.+ ....+..+.+.+++|+-.......++.+..|....- .+-|.|++
T Consensus 49 ~~~i~i~~~~~--~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~i~~~P-~~~vid~~ 103 (123)
T cd03011 49 YPVVSVALRSG--DDGAVARFMQKKGYGFPVINDPDGVISARWGVSVTP-AIVIVDPG 103 (123)
T ss_pred CCEEEEEccCC--CHHHHHHHHHHcCCCccEEECCCcHHHHhCCCCccc-EEEEEcCC
Confidence 44566666632 345566666777766654234456788888865332 35555544
No 95
>cd01491 Ube1_repeat1 Ubiquitin activating enzyme (E1), repeat 1. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Ubiquitin-E1 is a single-chain protein with a weakly conserved two-fold repeat. This CD represents the first repeat of Ub-E1.
Probab=45.61 E-value=26 Score=29.99 Aligned_cols=41 Identities=7% Similarity=0.103 Sum_probs=31.2
Q ss_pred ceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 85 GKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 85 akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
..+||.+.| +...+.++.++|..++||++. ..+.--.|.+.
T Consensus 106 fdvVV~~~~-~~~~~~~in~~c~~~~ipfI~-a~~~G~~G~vf 146 (286)
T cd01491 106 FQVVVLTDA-SLEDQLKINEFCHSPGIKFIS-ADTRGLFGSIF 146 (286)
T ss_pred CCEEEEecC-CHHHHHHHHHHHHHcCCEEEE-EeccccEEEEE
Confidence 456666655 888899999999999999994 76655555543
No 96
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=43.85 E-value=62 Score=27.72 Aligned_cols=46 Identities=13% Similarity=-0.024 Sum_probs=37.5
Q ss_pred EEEEeCCCChhhhhhHHHHHHhCCCcEEEecC-CHHHHHhhhCCccc
Q 047379 87 LIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG-NNVDLGTACGKYFR 132 (154)
Q Consensus 87 LVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~-tkeELG~a~Gk~~~ 132 (154)
-+|+.+=+++..++.+...|..++||++...+ --..|...+|.+..
T Consensus 60 ~iV~~Tlv~~elr~~l~~~~~~~~i~~vdll~p~i~~le~~lg~~p~ 106 (269)
T PRK05339 60 PIVFYTLVDPELREILEERCAEFGIPCIDILGPLIAPLEQELGLKPT 106 (269)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHcCCCEEeccHHHHHHHHHHHCcCCC
Confidence 37888889999999999999999999997322 45688888887644
No 97
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=43.53 E-value=77 Score=26.80 Aligned_cols=66 Identities=15% Similarity=0.161 Sum_probs=49.4
Q ss_pred hhhhhHHHHHHHHHHHHHHhCC-------------ceecHHHHHHHHhcCC-ceEEEEeCCCChhhhhhHHHHHHhCCCc
Q 047379 47 KKTKKTHESINNRLALVMKSGK-------------YTLGYKTVLRSLRTSK-GKLIILSNNCPPLRKSEIEYYAMLAKVG 112 (154)
Q Consensus 47 ~k~~~~~~kil~lLglA~rAGk-------------lv~G~~~VlkaIk~gk-akLVIlA~Das~~~k~ki~~~c~~~~Vp 112 (154)
.+...+.+++++++..|+.+|- +..|.+..+.-+++-- -.|+| -|.+|.-...++..|+.++|.
T Consensus 73 L~ng~tl~~i~emvk~ar~~gvt~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfii--vDlPpEEa~~~Rne~~k~gis 150 (268)
T KOG4175|consen 73 LLNGTTLNSIIEMVKEARPQGVTCPIILMGYYNPILRYGVENYIQVAKNAGANGFII--VDLPPEEAETLRNEARKHGIS 150 (268)
T ss_pred HHcCCcHHHHHHHHHHhcccCcccceeeeecccHHHhhhHHHHHHHHHhcCCCceEe--ccCChHHHHHHHHHHHhcCce
Confidence 3334567999999999999974 3457777777665533 44544 499999999999999999965
Q ss_pred EE
Q 047379 113 VH 114 (154)
Q Consensus 113 vi 114 (154)
++
T Consensus 151 lv 152 (268)
T KOG4175|consen 151 LV 152 (268)
T ss_pred EE
Confidence 54
No 98
>cd01493 APPBP1_RUB Ubiquitin activating enzyme (E1) subunit APPBP1. APPBP1 is part of the heterodimeric activating enzyme (E1), specific for the Rub family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin(-like) by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by Rub family of ubiquitin-like proteins (Ublps) activates SCF ubiquitin ligases and is involved in cell cycle control, signaling and embryogenesis. ABPP1 contains part of the adenylation domain.
Probab=43.04 E-value=30 Score=31.26 Aligned_cols=38 Identities=11% Similarity=0.036 Sum_probs=29.2
Q ss_pred EEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhh
Q 047379 88 IILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTA 126 (154)
Q Consensus 88 VIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a 126 (154)
+|++++.+.....++..+|..++||++. ..+.--.|..
T Consensus 115 iVI~t~~~~~~~~~L~~~c~~~~iPlI~-~~s~G~~G~v 152 (425)
T cd01493 115 VVIATNLPESTLLRLADVLWSANIPLLY-VRSYGLYGYI 152 (425)
T ss_pred EEEECCCCHHHHHHHHHHHHHcCCCEEE-EecccCEEEE
Confidence 3456677787888899999999999994 7776555544
No 99
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=42.93 E-value=53 Score=27.07 Aligned_cols=38 Identities=13% Similarity=0.087 Sum_probs=29.8
Q ss_pred HHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 77 LRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 77 lkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
...+-..+.-+||.|.|..+ .+..+..+|..++||++.
T Consensus 95 ~~~l~~~~~D~VvdaiD~~~-~k~~L~~~c~~~~ip~I~ 132 (231)
T cd00755 95 SEDLLGGDPDFVVDAIDSIR-AKVALIAYCRKRKIPVIS 132 (231)
T ss_pred HHHHhcCCCCEEEEcCCCHH-HHHHHHHHHHHhCCCEEE
Confidence 34444456889999999654 667899999999999995
No 100
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=42.81 E-value=77 Score=23.27 Aligned_cols=43 Identities=7% Similarity=0.099 Sum_probs=28.5
Q ss_pred CCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 047379 83 SKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 83 gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk 129 (154)
..+.+|-|..|. ...+..+++.+++|+..+.....++++..|.
T Consensus 63 ~~v~vi~Is~d~----~~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv 105 (154)
T PRK09437 63 AGVVVLGISTDK----PEKLSRFAEKELLNFTLLSDEDHQVAEQFGV 105 (154)
T ss_pred CCCEEEEEcCCC----HHHHHHHHHHhCCCCeEEECCCchHHHHhCC
Confidence 347788887763 3556667777777655333455788888884
No 101
>COG1493 HprK Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]
Probab=42.58 E-value=90 Score=27.40 Aligned_cols=52 Identities=15% Similarity=0.089 Sum_probs=41.8
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
.++++.+-.-+.-.||++.+..+ -..+.+.|++++||+.....+..+|..-+
T Consensus 71 ~~~i~~~~~~~~P~iI~sk~~~~--p~~l~~~a~~~~~pil~s~~~ts~l~~~l 122 (308)
T COG1493 71 KKRIGKLFSLDTPALIVSKGLPI--PEELLDAAKKYNIPILTSKLSTSELSFTL 122 (308)
T ss_pred HHHHHHHhCcCCCEEEEECCCCC--CHHHHHHHHHcCCceEEecchHHHHHHHH
Confidence 45677777788999999999988 56788999999999997656666766554
No 102
>PLN02414 glycine dehydrogenase (decarboxylating)
Probab=42.13 E-value=1.1e+02 Score=30.91 Aligned_cols=116 Identities=15% Similarity=0.137 Sum_probs=73.1
Q ss_pred CchhhHHHHhhcCCCC----CcccchhhhhcchhHH-HHHhhhhhhhhhhhhhh-------------HHHHHHHHHHHHH
Q 047379 3 SDKETLDEFKSAGAAS----PLLGLVCYFAAAREVF-FGATKQSKMVTSKKTKK-------------THESINNRLALVM 64 (154)
Q Consensus 3 ~~~~~~~~~~~~~~~~----~~~grg~y~~~~~~~~-~~a~~~~~~~~~~k~~~-------------~~~kil~lLglA~ 64 (154)
|..|.+.+|+...... ..+|-|.|.+.-...+ +.-+.+..|-.+---++ ...-|..++|+-.
T Consensus 86 sE~e~~~~~~~la~kN~~~~~fiG~G~y~~~~P~~v~~~i~~~~~~~TaytPYqaEisQG~lqal~~~Qt~ia~LtG~~~ 165 (993)
T PLN02414 86 TESQMLEHMKSLASKNKVFKSYIGMGYYNTHVPPVILRNILENPGWYTQYTPYQAEIAQGRLESLLNYQTMITDLTGLPM 165 (993)
T ss_pred CHHHHHHHHHHHHhcCCccccccCCCCCCccCCHHHHHHHHhChHHHhhcCCCchHHHHHHHHHHHHHHHHHHHHhCCCh
Confidence 4556777777654433 4589999999777777 66667777755554111 1233445555433
Q ss_pred HhCCceecHHH----HHHHHh--cCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 65 KSGKYTLGYKT----VLRSLR--TSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 65 rAGklv~G~~~----VlkaIk--~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
..=-+.-|... ++-+++ .|+-.-|+++...-|.+..-+..+|+..||.++. +..
T Consensus 166 anaSL~d~aTAaaea~~~a~~~~~g~~~~VlVs~~~hP~~~~v~~t~a~~~GieV~~-v~~ 225 (993)
T PLN02414 166 SNASLLDEGTAAAEAMAMCNNILKGKKKKFLIASNCHPQTIDVCQTRADGLGLEVVV-ADE 225 (993)
T ss_pred hhEeecCChHHHHHHHHHHHhcccCCCCEEEEcCccCHhHHHHHHHhhhhcCCEEEE-ecc
Confidence 22233333333 433432 3444568888889999999999999999999985 443
No 103
>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=41.97 E-value=70 Score=28.20 Aligned_cols=51 Identities=12% Similarity=0.037 Sum_probs=40.3
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLG 124 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG 124 (154)
.++..+.+++..+.-||+|.+..+ ....++.+.|+..+|++.. .++-.|+-
T Consensus 177 ~~~l~~~i~~~~id~ViIa~p~~~~~~~~~ll~~~~~~gv~V~~-vP~~~e~~ 228 (445)
T TIGR03025 177 LDDLVELVRAHRVDEVIIALPLSEEARILELLLQLRDLGVDVRL-VPDLFEFL 228 (445)
T ss_pred HHHHHHHHHhCCCCEEEEecCcccHHHHHHHHHHHHhcCCEEEE-eCchhhhc
Confidence 356777888888999999976655 4568889999999999995 77777753
No 104
>PF08862 DUF1829: Domain of unknown function DUF1829; InterPro: IPR014961 This short protein is usually associated with IPR014960 from INTERPRO.
Probab=41.81 E-value=44 Score=23.59 Aligned_cols=38 Identities=16% Similarity=0.078 Sum_probs=32.8
Q ss_pred HHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 78 RSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 78 kaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+.-+..+..+.++..|....+...+....+.|+|+++-
T Consensus 47 ~~~~~~~~~~~ii~ND~e~~i~~~~~~a~~~y~I~~i~ 84 (88)
T PF08862_consen 47 KRNRKSNSKFYIILNDSEKPISEDIINALEQYNIKPIP 84 (88)
T ss_pred hhccCCCceEEEEECCCCCccCHHHHHHHHHCCCceec
Confidence 44456678999999999999999999999999999984
No 105
>cd02968 SCO SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c oxidase (COX). They contain a metal binding motif, typically CXXXC, which is located in a flexible loop. COX, the terminal enzyme in the respiratory chain, is imbedded in the inner mitochondrial membrane of all eukaryotes and in the plasma membrane of some prokaryotes. It is composed of two subunits, COX I and COX II. It has been proposed that Sco1 specifically delivers copper to the CuA site, a dinuclear copper center, of the COX II subunit. Mutations in human Sco1 and Sco2 cause fatal infantile hepatoencephalomyopathy and cardioencephalomyopathy, respectively. Both disorders are associated with severe COX deficiency in affected tissues. More recently, it has been argued that the redox sensitivity of the copper binding properti
Probab=41.66 E-value=1e+02 Score=21.95 Aligned_cols=47 Identities=17% Similarity=0.125 Sum_probs=31.3
Q ss_pred CCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC---HHHHHhhhCC
Q 047379 83 SKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN---NVDLGTACGK 129 (154)
Q Consensus 83 gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t---keELG~a~Gk 129 (154)
+++.+|.|+.|-..+....+..+.+.++.++.....+ ...|.+.+|.
T Consensus 58 ~~v~~v~vs~d~~~d~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~g~ 107 (142)
T cd02968 58 DDVQVVFISVDPERDTPEVLKAYAKAFGPGWIGLTGTPEEIEALAKAFGV 107 (142)
T ss_pred CceEEEEEEECCCCCCHHHHHHHHHHhCCCcEEEECCHHHHHHHHHHhcE
Confidence 3689999998876556667777777776444421233 3578888884
No 106
>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=41.66 E-value=63 Score=25.01 Aligned_cols=45 Identities=9% Similarity=0.070 Sum_probs=35.3
Q ss_pred CCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 83 SKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 83 gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
.++.+|+|+-|-..++-+.+..+++..+.....+.++.+++-.+.
T Consensus 87 ~~v~~v~ISvDP~~DTp~~L~~Y~~~~~~~~~~ltg~~~~i~~l~ 131 (174)
T PF02630_consen 87 KDVQFVFISVDPERDTPEVLKKYAKKFGPDFIGLTGSREEIEELA 131 (174)
T ss_dssp TTEEEEEEESSTTTC-HHHHHHHHHCHTTTCEEEEEEHHHHHHHH
T ss_pred CceEEEEEEeCCCCCCHHHHHHHHHhcCCCcceeEeCHHHHHHHH
Confidence 369999999998888999999999998877666667776665543
No 107
>PRK06512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=40.94 E-value=99 Score=25.20 Aligned_cols=59 Identities=7% Similarity=-0.011 Sum_probs=41.6
Q ss_pred HHHHHHhcCCceEEEE-eCCCChhh----hhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEE
Q 047379 75 TVLRSLRTSKGKLIIL-SNNCPPLR----KSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLS 137 (154)
Q Consensus 75 ~VlkaIk~gkakLVIl-A~Das~~~----k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvva 137 (154)
.+..++..|.+.+|.+ ..|.+++. .+++..+|..+++|++ +.+..+|...+|-. .++ ++
T Consensus 31 ~l~~al~~G~v~~vQlR~K~l~~~~~~~~a~~l~~l~~~~gv~li--INd~~dlA~~~~ad-GVH-Lg 94 (221)
T PRK06512 31 LLRAALQGGDVASVILPQYGLDEATFQKQAEKLVPVIQEAGAAAL--IAGDSRIAGRVKAD-GLH-IE 94 (221)
T ss_pred HHHHHHcCCCccEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCEEE--EeCHHHHHHHhCCC-EEE-EC
Confidence 4555666664455555 56666643 4888999999999998 57889999988854 443 44
No 108
>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=40.48 E-value=28 Score=20.34 Aligned_cols=24 Identities=13% Similarity=0.112 Sum_probs=19.3
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHH
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLG 124 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG 124 (154)
+..++...|+..|+|. .|+|.+|=
T Consensus 5 ~v~eLk~~l~~~gL~~---~G~K~~Li 28 (35)
T PF02037_consen 5 TVAELKEELKERGLST---SGKKAELI 28 (35)
T ss_dssp HHHHHHHHHHHTTS-S---TSSHHHHH
T ss_pred cHHHHHHHHHHCCCCC---CCCHHHHH
Confidence 5678899999999998 58998873
No 109
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=40.34 E-value=96 Score=28.67 Aligned_cols=48 Identities=13% Similarity=0.139 Sum_probs=36.8
Q ss_pred HHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 047379 77 LRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 125 (154)
Q Consensus 77 lkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~ 125 (154)
+..|-..++-++|+-.+-...--.++..+|+..++|.+ ++.+.++|..
T Consensus 355 ~~~L~~~~vDlmiVVGG~NSSNT~~L~eIa~~~g~~sy-~Ie~~~eI~~ 402 (460)
T PLN02821 355 MYKLVEEKLDLMLVVGGWNSSNTSHLQEIAEHKGIPSY-WIDSEERIGP 402 (460)
T ss_pred HHHHhhcCCCEEEEECCCCCccHHHHHHHHHHhCCCEE-EECCHHHcCc
Confidence 44454455777777777766566788899999999999 5999999985
No 110
>COG4052 Uncharacterized protein related to methyl coenzyme M reductase subunit C [General function prediction only]
Probab=39.91 E-value=15 Score=31.54 Aligned_cols=67 Identities=12% Similarity=0.067 Sum_probs=50.5
Q ss_pred HHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 047379 57 NNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLG 124 (154)
Q Consensus 57 l~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG 124 (154)
-|++|||+-.|+-++-..+-.+-+-+..=-.|+.-.+.++=++++=.++-+.-.||++. .+..+|+-
T Consensus 105 ~NmIGLARG~Gr~is~l~e~ErrLieEHDlavf~~GsF~dCI~~~K~~Lf~~i~iPvvV-tGgPeeid 171 (310)
T COG4052 105 TNMIGLARGMGRRISQLREYERRLIEEHDLAVFVFGSFEDCIKKKKPHLFEGIEIPVVV-TGGPEEID 171 (310)
T ss_pred cchhhhhhhccchhHHHHHHHHHhhhhcceEEEEecCHHHHHhhcCCcccccccccEEE-eCCccccc
Confidence 37899999999999888888888877776667777776665555334444557799996 88888764
No 111
>cd01857 HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.
Probab=38.97 E-value=72 Score=23.29 Aligned_cols=49 Identities=22% Similarity=0.239 Sum_probs=22.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCChh-hhhhHHHHHHhC--CCcEEEecCCHHHH
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPL-RKSEIEYYAMLA--KVGVHHYNGNNVDL 123 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~-~k~ki~~~c~~~--~Vpvi~~~~tkeEL 123 (154)
+++.++|++-.+-++++....+.. .-..+..+-... +.|++. +.+|.+|
T Consensus 3 ~~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~ii-vlNK~DL 54 (141)
T cd01857 3 RQLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNIL-LLNKADL 54 (141)
T ss_pred HHHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEEE-EEechhc
Confidence 355666665554444443322222 112444444333 566663 6666555
No 112
>TIGR03264 met_CoM_red_C methyl-coenzyme M reductase I operon protein C. has several modified sites, so accessory proteins are expected. Several methanogens have encode two such enzymes, designated I and II; this protein occurs only operons of type I. The precise function is unknown.
Probab=38.85 E-value=19 Score=29.43 Aligned_cols=70 Identities=13% Similarity=-0.018 Sum_probs=56.8
Q ss_pred HHHHHHHHHhC----------CceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE---ecCCHHHH
Q 047379 57 NNRLALVMKSG----------KYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH---YNGNNVDL 123 (154)
Q Consensus 57 l~lLglA~rAG----------klv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~---~~~tkeEL 123 (154)
-|+|+|++-+| +-.+|.++-+..+-+..--.||.-.|...-+..|.+.+.+.-+||++. .+-+.|++
T Consensus 65 ts~lvLnaG~GvP~da~~~~~g~~fgl~~~E~~qI~~HklAV~h~GNvk~hIi~K~r~ilr~vdIP~IiVcq~PvdfEdf 144 (194)
T TIGR03264 65 TSVLVLNAGSGIPPDAPRGGGGSTFGLTPEEIEQINRHKLAVIHLGNVKSHIIYKARLILKHVDIPAIIVCQAPVDFEDF 144 (194)
T ss_pred cceEEEecCCCCCCcccccccccccCCCHHHHHHHhhcCEEEEEeCCHHHHHHHHHHHHHhcCCCCEEEEeCCCcCHHHH
Confidence 57889999999 889999998888877776777777888888888888888888999982 34578888
Q ss_pred Hhh
Q 047379 124 GTA 126 (154)
Q Consensus 124 G~a 126 (154)
.++
T Consensus 145 ak~ 147 (194)
T TIGR03264 145 AKI 147 (194)
T ss_pred HHh
Confidence 765
No 113
>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=38.64 E-value=77 Score=26.45 Aligned_cols=45 Identities=7% Similarity=-0.118 Sum_probs=37.0
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEe
Q 047379 72 GYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHY 116 (154)
Q Consensus 72 G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~ 116 (154)
|.++..+.|+...+.+||=|+--=. .+-+.+...|++.||||+.|
T Consensus 54 ~~~~l~~~l~~~~i~~vIDATHPfA~~is~na~~a~~~~~ipylR~ 99 (249)
T PF02571_consen 54 DEEGLAEFLRENGIDAVIDATHPFAAEISQNAIEACRELGIPYLRF 99 (249)
T ss_pred CHHHHHHHHHhCCCcEEEECCCchHHHHHHHHHHHHhhcCcceEEE
Confidence 5677888889999999998887666 35578889999999999864
No 114
>PRK08328 hypothetical protein; Provisional
Probab=38.31 E-value=41 Score=27.37 Aligned_cols=31 Identities=13% Similarity=0.056 Sum_probs=27.0
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
...+||-+.|- ..++..+.++|..+++|++.
T Consensus 118 ~~D~Vid~~d~-~~~r~~l~~~~~~~~ip~i~ 148 (231)
T PRK08328 118 GVDVIVDCLDN-FETRYLLDDYAHKKGIPLVH 148 (231)
T ss_pred cCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE
Confidence 37899999998 56888999999999999994
No 115
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=38.24 E-value=47 Score=28.27 Aligned_cols=75 Identities=9% Similarity=-0.000 Sum_probs=58.1
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 67 GKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 67 Gklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
...++-..|+..+-.-|-=.+++|++=.++...+.+..+|...|..+..-+.+.+||-+|+-...+ +|||.+.++
T Consensus 113 KDFiiD~yQI~~Ar~~GADavLLI~~~L~~~~l~el~~~A~~LGm~~LVEVh~~eEl~rAl~~ga~--iIGINnRdL 187 (254)
T COG0134 113 KDFIIDPYQIYEARAAGADAVLLIVAALDDEQLEELVDRAHELGMEVLVEVHNEEELERALKLGAK--IIGINNRDL 187 (254)
T ss_pred ccCCCCHHHHHHHHHcCcccHHHHHHhcCHHHHHHHHHHHHHcCCeeEEEECCHHHHHHHHhCCCC--EEEEeCCCc
Confidence 345667777887777776556666667778888999999999997665558999999999986644 599988775
No 116
>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=38.23 E-value=55 Score=26.48 Aligned_cols=22 Identities=18% Similarity=0.018 Sum_probs=12.9
Q ss_pred CChhhhhhHHHHHHhCCCcEEE
Q 047379 94 CPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 94 as~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.|+....++....+.++|+++.
T Consensus 183 ps~~~l~~l~~~ik~~~v~~i~ 204 (256)
T PF01297_consen 183 PSPKDLAELIKLIKENKVKCIF 204 (256)
T ss_dssp S-HHHHHHHHHHHHHTT-SEEE
T ss_pred CCHHHHHHHHHHhhhcCCcEEE
Confidence 3445556667777777777763
No 117
>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=38.20 E-value=85 Score=27.73 Aligned_cols=51 Identities=12% Similarity=-0.012 Sum_probs=40.8
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLG 124 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG 124 (154)
.++..+.+++..+.-||+|....+ ....++...|+..+|++.. .++-.|+.
T Consensus 180 ~~dl~~~i~~~~vd~ViIA~p~~~~~~~~~ll~~~~~~gv~V~v-vP~~~e~~ 231 (451)
T TIGR03023 180 LDDLEELIREGEVDEVYIALPLAAEDRILELLDALEDLTVDVRL-VPDLFDFA 231 (451)
T ss_pred HHHHHHHHHhcCCCEEEEeeCcccHHHHHHHHHHHHhcCCEEEE-eCchhhhc
Confidence 466778888899999999987654 4568889999999999995 77766654
No 118
>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=38.15 E-value=1e+02 Score=23.99 Aligned_cols=44 Identities=16% Similarity=-0.019 Sum_probs=27.6
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCH
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 120 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tk 120 (154)
+.++.+.+.++.-||+..--++... .+...|...|||++. +.+-
T Consensus 46 ~~i~~~i~~~~d~Iiv~~~~~~~~~-~~l~~~~~~gIpvv~-~d~~ 89 (257)
T PF13407_consen 46 EQIEQAISQGVDGIIVSPVDPDSLA-PFLEKAKAAGIPVVT-VDSD 89 (257)
T ss_dssp HHHHHHHHTTESEEEEESSSTTTTH-HHHHHHHHTTSEEEE-ESST
T ss_pred HHHHHHHHhcCCEEEecCCCHHHHH-HHHHHHhhcCceEEE-Eecc
Confidence 3444444555887777755555555 444557888999996 4433
No 119
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=37.78 E-value=69 Score=27.38 Aligned_cols=60 Identities=13% Similarity=0.017 Sum_probs=46.3
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEe--------------cCCHHHHHhhhCCc
Q 047379 71 LGYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHY--------------NGNNVDLGTACGKY 130 (154)
Q Consensus 71 ~G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~--------------~~tkeELG~a~Gk~ 130 (154)
.|.+...+.|+...+.+||=|+.-=. ++-+.....|++.||||+.| +.|-+|+..+.++.
T Consensus 53 l~~e~l~~~l~e~~i~llIDATHPyAa~iS~Na~~aake~gipy~r~eRP~~~~~gd~~~~V~d~~ea~~~~~~~ 127 (257)
T COG2099 53 LGAEGLAAFLREEGIDLLIDATHPYAARISQNAARAAKETGIPYLRLERPPWAPNGDNWIEVADIEEAAEAAKQL 127 (257)
T ss_pred CCHHHHHHHHHHcCCCEEEECCChHHHHHHHHHHHHHHHhCCcEEEEECCccccCCCceEEecCHHHHHHHHhcc
Confidence 36788889999999999997776544 45577788999999999753 44667777777765
No 120
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=37.28 E-value=96 Score=24.82 Aligned_cols=48 Identities=19% Similarity=0.132 Sum_probs=31.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhh---hhhHHHHHHhCCCcEEEecCCHH
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLR---KSEIEYYAMLAKVGVHHYNGNNV 121 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~---k~ki~~~c~~~~Vpvi~~~~tke 121 (154)
+.+++.+++.++.+||++.|..... ..-+..+.+..++|++...|+-+
T Consensus 22 ~~~~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~l~~~~~~pv~~v~GNHD 72 (239)
T TIGR03729 22 ETLAQYLKKQKIDHLHIAGDISNDFQRSLPFIEKLQELKGIKVTFNAGNHD 72 (239)
T ss_pred HHHHHHHHhcCCCEEEECCccccchhhHHHHHHHHHHhcCCcEEEECCCCC
Confidence 4467777777899999999988733 23334444445688864344443
No 121
>cd03769 SR_IS607_transposase_like Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.
Probab=37.17 E-value=82 Score=23.39 Aligned_cols=46 Identities=11% Similarity=0.091 Sum_probs=31.9
Q ss_pred eecHHHHHHHHhcCCceEEEEe-CC-CChhhhhhHHHHHHhCCCcEEE
Q 047379 70 TLGYKTVLRSLRTSKGKLIILS-NN-CPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 70 v~G~~~VlkaIk~gkakLVIlA-~D-as~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.-|..+.++.++.|++..||+. -| .+.+..+-+..+++.+||.++.
T Consensus 48 Rp~l~~ll~~i~~g~~d~lvV~~ldRl~R~~~d~~~~~l~~~gv~l~~ 95 (134)
T cd03769 48 RKGLLKLLEDVLAGKVERVVITYKDRLARFGFELLEELFKAYGVEIVV 95 (134)
T ss_pred CHHHHHHHHHHHcCCCCEEEEEeccHHHHhhHHHHHHHHHHCCCEEEE
Confidence 4677889999999987555543 33 3334445566778899999885
No 122
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=37.00 E-value=43 Score=24.39 Aligned_cols=41 Identities=15% Similarity=0.030 Sum_probs=31.6
Q ss_pred HhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHH
Q 047379 80 LRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNV 121 (154)
Q Consensus 80 Ik~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tke 121 (154)
+.++...+|++.++.-+...+.+..+ +....|.+...+++.
T Consensus 41 l~~~d~gII~Ite~~a~~i~~~i~~~-~~~~~P~Il~IP~~~ 81 (104)
T PRK01395 41 LAMEDYGIIYITEQIAADIPETIERY-DNQVLPAIILIPSNQ 81 (104)
T ss_pred HhcCCcEEEEEcHHHHHHhHHHHHHh-cCCCCCEEEEeCCCC
Confidence 44567999999999999888888877 566788887566643
No 123
>PRK13802 bifunctional indole-3-glycerol phosphate synthase/tryptophan synthase subunit beta; Provisional
Probab=36.99 E-value=2.6e+02 Score=27.14 Aligned_cols=75 Identities=5% Similarity=-0.027 Sum_probs=59.6
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 67 GKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 67 Gklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
...++=..|+.++-.-|-=.++++++=.++...+.+..+|...+..++.-+.|.+||-+++--... +|+|.+.++
T Consensus 117 KDFIid~~QI~ea~~~GADavLLI~~~L~~~~l~~l~~~a~~lGme~LvEvh~~~el~~a~~~ga~--iiGINnRdL 191 (695)
T PRK13802 117 KDFIVTDYQIWEARAHGADLVLLIVAALDDAQLKHLLDLAHELGMTVLVETHTREEIERAIAAGAK--VIGINARNL 191 (695)
T ss_pred ccccCCHHHHHHHHHcCCCEeehhHhhcCHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHhCCCC--EEEEeCCCC
Confidence 456677788888888887666677776777888999999999997666458999999999986644 599987775
No 124
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=36.80 E-value=89 Score=26.07 Aligned_cols=46 Identities=11% Similarity=-0.008 Sum_probs=37.7
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEec
Q 047379 72 GYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYN 117 (154)
Q Consensus 72 G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~ 117 (154)
+.+...+-|++.++.+||=|+--=. .+-+.+...|++.||||+.|.
T Consensus 53 ~~~~l~~~l~~~~i~~VIDATHPfA~~is~~a~~ac~~~~ipyiR~e 99 (248)
T PRK08057 53 GAEGLAAYLREEGIDLVIDATHPYAAQISANAAAACRALGIPYLRLE 99 (248)
T ss_pred CHHHHHHHHHHCCCCEEEECCCccHHHHHHHHHHHHHHhCCcEEEEe
Confidence 5677888889999999998887666 455788899999999999753
No 125
>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon
Probab=36.62 E-value=98 Score=27.09 Aligned_cols=52 Identities=19% Similarity=0.253 Sum_probs=39.9
Q ss_pred eecHHHHHHHHhcCCceEEEEeCCCChhh-------------------hhhHHHHHHhCCCcEEEecCCHHHH
Q 047379 70 TLGYKTVLRSLRTSKGKLIILSNNCPPLR-------------------KSEIEYYAMLAKVGVHHYNGNNVDL 123 (154)
Q Consensus 70 v~G~~~VlkaIk~gkakLVIlA~Das~~~-------------------k~ki~~~c~~~~Vpvi~~~~tkeEL 123 (154)
.++...++.+|+++ ..+-|+|+|.+++. ...+.++|++++|.++. .+-..++
T Consensus 8 ~s~~~~~i~~lr~~-~~~~i~~sh~~~~~~~~~~aD~~~~eP~~~~~yv~~~l~~C~~~~Idv~~-P~~~~~~ 78 (329)
T PF15632_consen 8 FSSQRDIIRSLRAN-RDFTIIASHRDPRAPILYAADEAYLEPADGEEYVDWCLDFCKEHGIDVFV-PGRNREL 78 (329)
T ss_pred CccHHHHHHHHHcC-CCeEEEEEeCCCCchHHhcCceeeecCCCHHHHHHHHHHHHHHhCCeEEE-cCccHHH
Confidence 45677888999888 88888998887643 35567999999999994 6644444
No 126
>PRK02627 acetylornithine aminotransferase; Provisional
Probab=35.88 E-value=58 Score=27.56 Aligned_cols=49 Identities=8% Similarity=0.038 Sum_probs=33.9
Q ss_pred HHHHHHhcCCceEEEEeCC--------CChhhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 047379 75 TVLRSLRTSKGKLIILSNN--------CPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 125 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~D--------as~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~ 125 (154)
...+.+ .++.++||+-.. .++...++|..+|++++++++. +..-..+|.
T Consensus 174 ~l~~~i-~~~~~~vii~p~~~~~G~~~~~~~~l~~l~~l~~~~~~~lI~-DE~~~g~g~ 230 (396)
T PRK02627 174 ALKAAI-TDKTAAVMLEPIQGEGGVNPADKEYLQALRELCDENGILLIL-DEVQTGMGR 230 (396)
T ss_pred HHHHhc-CCCeEEEEEecccCCCCCccCCHHHHHHHHHHHHHcCCEEEE-echhcCCCc
Confidence 344444 467888888532 2455689999999999999995 555455553
No 127
>COG0550 TopA Topoisomerase IA [DNA replication, recombination, and repair]
Probab=35.84 E-value=38 Score=31.82 Aligned_cols=77 Identities=14% Similarity=0.061 Sum_probs=55.8
Q ss_pred HHHHHHHHhc--CCceEEEEeCCCChh---hhhhHHHHHHhCC-CcEEEe---cCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 73 YKTVLRSLRT--SKGKLIILSNNCPPL---RKSEIEYYAMLAK-VGVHHY---NGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 73 ~~~VlkaIk~--gkakLVIlA~Das~~---~k~ki~~~c~~~~-Vpvi~~---~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
...+...|+. .++.-|+||+|.+.. +.-++.+.+...+ .++... .-|+..+=.|+..++.. =+...|.++
T Consensus 63 k~~~v~~lk~~ak~ad~v~lAtD~DREGE~I~~~i~~~l~~~~~~~~~R~~F~eiT~~aI~~A~~~p~~i-d~~lv~A~~ 141 (570)
T COG0550 63 KKKVVKKLKKLAKKADEVYLATDPDREGEAIGWHILEVLKLKNPSKVKRVVFSEITKKAILSAFKNPREI-DMNLVDAQL 141 (570)
T ss_pred hHHHHHHHHHHhccCCEEEECCCCCcchHHHHHHHHHHhCccCCCceeEEEEecCCHHHHHHHHhCchhh-chHHHHHHH
Confidence 5556666665 789999999999874 4577777777765 333332 34899999999988666 467777778
Q ss_pred hHHHhcC
Q 047379 144 SDIIKSL 150 (154)
Q Consensus 144 A~~i~~~ 150 (154)
|+.+.+.
T Consensus 142 aR~~lD~ 148 (570)
T COG0550 142 ARRILDR 148 (570)
T ss_pred HHHHHHH
Confidence 8777764
No 128
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=35.58 E-value=81 Score=28.09 Aligned_cols=61 Identities=18% Similarity=0.159 Sum_probs=43.0
Q ss_pred CCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCch
Q 047379 83 SKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDS 144 (154)
Q Consensus 83 gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~GfA 144 (154)
|..++.++..|.-. .-.+.+..+++..+||+.. ..+..+|..++..-....+|-|=.+|..
T Consensus 166 G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~-~~~~~~l~~~l~~l~~~DlVLIDTaG~~ 227 (374)
T PRK14722 166 GASKVALLTTDSYRIGGHEQLRIFGKILGVPVHA-VKDGGDLQLALAELRNKHMVLIDTIGMS 227 (374)
T ss_pred CCCeEEEEecccccccHHHHHHHHHHHcCCceEe-cCCcccHHHHHHHhcCCCEEEEcCCCCC
Confidence 54577788888753 4568999999999999995 7787778777753222234556666665
No 129
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=35.32 E-value=74 Score=26.66 Aligned_cols=45 Identities=2% Similarity=-0.062 Sum_probs=36.8
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEe
Q 047379 72 GYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHY 116 (154)
Q Consensus 72 G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~ 116 (154)
+.+...+.|+..++.+||=|+--=. .+-+.+...|++.+|||+.|
T Consensus 53 ~~~~l~~~l~~~~i~~VIDAtHPfA~~is~~a~~a~~~~~ipylR~ 98 (256)
T TIGR00715 53 DPQELREFLKRHSIDILVDATHPFAAQITTNATAVCKELGIPYVRF 98 (256)
T ss_pred CHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHHHhCCcEEEE
Confidence 4566668888888999999887666 45688899999999999975
No 130
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=35.31 E-value=1.3e+02 Score=25.76 Aligned_cols=58 Identities=10% Similarity=0.048 Sum_probs=34.5
Q ss_pred HHHHhcCCceEEEEeCCCChhhh-hhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEE
Q 047379 77 LRSLRTSKGKLIILSNNCPPLRK-SEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSI 138 (154)
Q Consensus 77 lkaIk~gkakLVIlA~Das~~~k-~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI 138 (154)
...+....+++||||-|...... ..++ +.++||++- +---..=...+.++..+.|+|-
T Consensus 60 ~~~l~~~~ik~lVIACNTASa~al~~LR---~~~~iPVvG-viPaik~A~~~t~~~~IgViaT 118 (269)
T COG0796 60 VDFLLERGIKALVIACNTASAVALEDLR---EKFDIPVVG-VIPAIKPAVALTRNGRIGVIAT 118 (269)
T ss_pred HHHHHHcCCCEEEEecchHHHHHHHHHH---HhCCCCEEE-eccchHHHHHhccCCeEEEEec
Confidence 33444444999999999876433 4443 667999996 4333333344455545655553
No 131
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=35.26 E-value=85 Score=25.60 Aligned_cols=58 Identities=10% Similarity=0.025 Sum_probs=44.3
Q ss_pred CCceec------HHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 047379 67 GKYTLG------YKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 130 (154)
Q Consensus 67 Gklv~G------~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~ 130 (154)
..+.+| .+++.+++..| +.++ .||..-..+...|.+++||++-=..|..|+-.|....
T Consensus 58 ~~~~vGAGTVl~~~~a~~a~~aG-A~Fi-----vsP~~~~~v~~~~~~~~i~~iPG~~TptEi~~A~~~G 121 (204)
T TIGR01182 58 PDALIGAGTVLNPEQLRQAVDAG-AQFI-----VSPGLTPELAKHAQDHGIPIIPGVATPSEIMLALELG 121 (204)
T ss_pred CCCEEEEEeCCCHHHHHHHHHcC-CCEE-----ECCCCCHHHHHHHHHcCCcEECCCCCHHHHHHHHHCC
Confidence 456666 46777888877 7777 5777778899999999999985335888988887544
No 132
>TIGR02342 chap_CCT_delta T-complex protein 1, delta subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT delta chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=34.99 E-value=1.1e+02 Score=28.00 Aligned_cols=56 Identities=5% Similarity=0.027 Sum_probs=38.8
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhh-hhHHHHHHhCCCcEEEecCCHH---HHHhhhCCc
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRK-SEIEYYAMLAKVGVHHYNGNNV---DLGTACGKY 130 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k-~ki~~~c~~~~Vpvi~~~~tke---ELG~a~Gk~ 130 (154)
.+.++.|.+-.+.+||++.+++.+.. .-..+++..+||.++. ..++. .|.+++|-.
T Consensus 263 ~~~v~~i~~~g~~lvi~~~~I~~~~l~~l~~~~l~~~~I~av~-~v~~~~LerIa~~tGa~ 322 (517)
T TIGR02342 263 LNIVKKIKKTGCNVLLIQKSILRDAVNDLALHFLAKMKIMVVK-DIEREEVEFICKTIGCK 322 (517)
T ss_pred HHHHHHHHhcCCCEEEECCCcccccccHHHHHHHhhCCceEEe-cCCHHHHHHHHHHHCCE
Confidence 34556666667899999999876544 4557777889999996 66654 555555643
No 133
>TIGR00160 MGSA methylglyoxal synthase. Methylglyoxal synthase (MGS) generates methylglyoxal (MG), a toxic metabolite (that may also be a regulatory metabolite and) that is detoxified, prinicipally, through a pathway involving glutathione and glyoxylase I. Totemeyer, et al. (MUID:98149311) propose that, during a loss of control over carbon flux, with accumulation of phosphorylated sugars and depletion of phosphate, as might happen during a rapid shift to a richer medium, MGS aids the cell by converting some dihydroxyacetone phosphate (DHAP) to MG and phosphate. This is therefore an alternative to triosephosphate isomerase and the remainder of the glycolytic pathway for the disposal of DHAP during the stress of a sudden increase in available sugars.
Probab=34.92 E-value=79 Score=24.74 Aligned_cols=80 Identities=14% Similarity=-0.026 Sum_probs=54.0
Q ss_pred hhhHHHHHHHHHHH---HHHhCCceecHHHHHHHHhcCCceEEEEeCCCCh-----hhhhhHHHHHHhCCCcEEEecCCH
Q 047379 49 TKKTHESINNRLAL---VMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPP-----LRKSEIEYYAMLAKVGVHHYNGNN 120 (154)
Q Consensus 49 ~~~~~~kil~lLgl---A~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~-----~~k~ki~~~c~~~~Vpvi~~~~tk 120 (154)
+..+...|....|+ ...+|.+ -|..|.-..|..|++.+||.=.|--. .-.+-+..+|.-+|||+-.-..|-
T Consensus 36 TgTTG~~i~~~tgL~V~~~~SGpl-GGDqQIga~Ia~g~id~vIFf~DPl~~~phepDi~aLlRlc~v~nIP~AtN~aTA 114 (143)
T TIGR00160 36 TGTTGNLISRATGLNINAMLSGPM-GGDQQIGALIAEGKIDAVIFFWDPLNAQPHEPDVKALLRLCTVWNIPLATNVATA 114 (143)
T ss_pred CccHHHHHHHHHCCCeEEeccCCc-cHHHHHHHHHHhCCCCEEEEecCCCCCCCCCcCHHHHHHHHHhhCcccccCHHHH
Confidence 44444444444443 3455655 67888889999999999999999311 235778899999999998644455
Q ss_pred HHHHhhhCC
Q 047379 121 VDLGTACGK 129 (154)
Q Consensus 121 eELG~a~Gk 129 (154)
+-|=....+
T Consensus 115 ~~li~~~~~ 123 (143)
T TIGR00160 115 DFLIKSPHF 123 (143)
T ss_pred HHHHhCccc
Confidence 555444433
No 134
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=34.86 E-value=50 Score=23.06 Aligned_cols=40 Identities=10% Similarity=0.140 Sum_probs=33.0
Q ss_pred hcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCH
Q 047379 81 RTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 120 (154)
Q Consensus 81 k~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tk 120 (154)
++....+||+.++..+...+.+..+-+...-|++...+++
T Consensus 39 ~~~~~gIIii~e~~~~~~~~~l~~~~~~~~~P~iv~IP~~ 78 (95)
T PF01990_consen 39 KDEDVGIIIITEDLAEKIRDELDEYREESSLPLIVEIPSK 78 (95)
T ss_dssp HHTTEEEEEEEHHHHTTHHHHHHHHHHTSSSSEEEEESTT
T ss_pred cCCCccEEEeeHHHHHHHHHHHHHHHhccCCceEEEcCCC
Confidence 4677999999999999999999988777788888655554
No 135
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=34.56 E-value=87 Score=25.22 Aligned_cols=54 Identities=11% Similarity=0.046 Sum_probs=40.9
Q ss_pred HHHHHhcCCceEEEEeCCCC-hhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCccc
Q 047379 76 VLRSLRTSKGKLIILSNNCP-PLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFR 132 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das-~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~ 132 (154)
+-.-|++-|--|+|+..++- ++..+.+..+.+..|||++- |...++..+|+...
T Consensus 28 ~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipiva---Ta~~~~~~~~~~i~ 82 (170)
T COG1880 28 VAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVA---TASSMGNLIGRGIG 82 (170)
T ss_pred HHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEe---cchhhcchhhcccc
Confidence 34556777777888888887 78889999999999999984 55566666665533
No 136
>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=34.37 E-value=94 Score=23.65 Aligned_cols=18 Identities=11% Similarity=-0.025 Sum_probs=15.3
Q ss_pred hhhhHHHHHHhCCCcEEE
Q 047379 98 RKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~ 115 (154)
....+..+|++++||++.
T Consensus 134 ~~~~~~~~a~~~~~~~vD 151 (198)
T cd01821 134 YPAAMRELAAEEGVPLID 151 (198)
T ss_pred HHHHHHHHHHHhCCCEEe
Confidence 346788999999999985
No 137
>TIGR02355 moeB molybdopterin synthase sulfurylase MoeB. This model describes the molybdopterin biosynthesis protein MoeB in E. coli and related species. The enzyme covalently modifies the molybdopterin synthase MoaD by sulfurylation. This enzyme is closely related to ThiF, a thiamine biosynthesis enzyme that modifies ThiS by an analogous adenylation. Both MoeB and ThiF belong to the HesA/MoeB/ThiF family (pfam00899).
Probab=34.07 E-value=53 Score=27.04 Aligned_cols=31 Identities=10% Similarity=0.143 Sum_probs=26.8
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
...+||.+.|.. .++..+.++|..++||++.
T Consensus 114 ~~DlVvd~~D~~-~~r~~ln~~~~~~~ip~v~ 144 (240)
T TIGR02355 114 EHDIVVDCTDNV-EVRNQLNRQCFAAKVPLVS 144 (240)
T ss_pred cCCEEEEcCCCH-HHHHHHHHHHHHcCCCEEE
Confidence 477999999875 5889999999999999994
No 138
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=33.97 E-value=1e+02 Score=26.64 Aligned_cols=51 Identities=12% Similarity=0.029 Sum_probs=31.6
Q ss_pred HHHHHHHhcCCceEEEEeCCCCh------hhhhhHH---HHHHhCCCcEEEecCCHHHHH
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPP------LRKSEIE---YYAMLAKVGVHHYNGNNVDLG 124 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~------~~k~ki~---~~c~~~~Vpvi~~~~tkeELG 124 (154)
.++++.++..++-+||+|.|.=+ +....+. ......+||++...|+-+-..
T Consensus 30 ~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~~~Ipv~~I~GNHD~~~ 89 (390)
T COG0420 30 DELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKDAGIPVVVIAGNHDSPS 89 (390)
T ss_pred HHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhccCCCcEEEecCCCCchh
Confidence 35666777788999999999733 3332222 222336799997666544433
No 139
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=33.79 E-value=45 Score=19.23 Aligned_cols=24 Identities=17% Similarity=0.188 Sum_probs=19.7
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHH
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLG 124 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG 124 (154)
+...+...|+.+|+|. .++|.+|=
T Consensus 5 ~~~~Lk~~l~~~gl~~---~G~K~~Lv 28 (35)
T smart00513 5 KVSELKDELKKRGLST---SGTKAELV 28 (35)
T ss_pred cHHHHHHHHHHcCCCC---CCCHHHHH
Confidence 4577899999999996 58898873
No 140
>cd01147 HemV-2 Metal binding protein HemV-2. 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=33.64 E-value=1.4e+02 Score=23.57 Aligned_cols=57 Identities=19% Similarity=0.130 Sum_probs=36.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC---------HHHHHhhhCCccc
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN---------NVDLGTACGKYFR 132 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t---------keELG~a~Gk~~~ 132 (154)
..-++.|..=+.-|||......+. ..+..+.+..+||++.+... -..||.++|++..
T Consensus 64 ~~n~E~i~~l~PDLIi~~~~~~~~--~~~~~l~~~~gipvv~~~~~~~~~~~~~~i~~lg~~~g~~~~ 129 (262)
T cd01147 64 TPNYEKIAALKPDVVIDVGSDDPT--SIADDLQKKTGIPVVVLDGGDSLEDTPEQIRLLGKVLGKEER 129 (262)
T ss_pred CCCHHHHHhcCCCEEEEecCCccc--hhHHHHHHhhCCCEEEEecCCchHhHHHHHHHHHHHhCCHHH
Confidence 456777877889999987554432 23333444478998853322 3578999987643
No 141
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=33.60 E-value=91 Score=24.59 Aligned_cols=43 Identities=19% Similarity=0.091 Sum_probs=34.5
Q ss_pred HHHHHHHHhcCCceEEEEeCCCC-hhhhhhHHHHHHhCCCcEEE
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCP-PLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das-~~~k~ki~~~c~~~~Vpvi~ 115 (154)
-+++.+.|++.+--++|+-.-+. +...+.+..+++..++|++.
T Consensus 17 p~~aa~lLk~AKRPvIivG~ga~~~~a~e~l~~laEklgiPVvt 60 (162)
T TIGR00315 17 PKLVAMMIKRAKRPLLIVGPENLEDEEKELIVKFIEKFDLPVVA 60 (162)
T ss_pred HHHHHHHHHcCCCcEEEECCCcCcccHHHHHHHHHHHHCCCEEE
Confidence 36677888877766777776664 57889999999999999997
No 142
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=33.33 E-value=1.3e+02 Score=21.90 Aligned_cols=38 Identities=13% Similarity=-0.145 Sum_probs=28.4
Q ss_pred hcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 81 RTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 81 k~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
++|-+.|+|--.+.-+.+=+.+.++|+++++|++. .+.
T Consensus 70 ~~~~agL~i~~~~~~~~iP~~~i~~A~~~~lPli~-ip~ 107 (123)
T PF07905_consen 70 EKGAAGLGIKTGRYLDEIPEEIIELADELGLPLIE-IPW 107 (123)
T ss_pred HCCCeEEEEeccCccccCCHHHHHHHHHcCCCEEE-eCC
Confidence 34556677756556667779999999999999996 443
No 143
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=32.94 E-value=54 Score=23.07 Aligned_cols=30 Identities=17% Similarity=0.086 Sum_probs=23.1
Q ss_pred ceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 85 GKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 85 akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+.|||.|.|- +..-+.+...|+.++||+..
T Consensus 61 ~~lV~~at~d-~~~n~~i~~~a~~~~i~vn~ 90 (103)
T PF13241_consen 61 ADLVFAATDD-PELNEAIYADARARGILVNV 90 (103)
T ss_dssp ESEEEE-SS--HHHHHHHHHHHHHTTSEEEE
T ss_pred heEEEecCCC-HHHHHHHHHHHhhCCEEEEE
Confidence 7788888875 44668899999999999984
No 144
>PLN02460 indole-3-glycerol-phosphate synthase
Probab=32.93 E-value=99 Score=27.36 Aligned_cols=74 Identities=7% Similarity=0.043 Sum_probs=54.2
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC-cccEEEEEEeCcCc
Q 047379 68 KYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK-YFRVSCLSIIDPGD 143 (154)
Q Consensus 68 klv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk-~~~vsvvaI~D~Gf 143 (154)
..++=.-|+.++-.-|-=.+++|+.=.++.....+..+|...|..++.-+.|.+||-+++.. . +.+|||.+.++
T Consensus 188 DFIID~yQI~eAr~~GADAVLLIaaiL~~~~L~~l~~~A~~LGme~LVEVH~~~ElerAl~~~g--a~iIGINNRdL 262 (338)
T PLN02460 188 EFIVDAWQIYYARSKGADAILLIAAVLPDLDIKYMLKICKSLGMAALIEVHDEREMDRVLGIEG--VELIGINNRSL 262 (338)
T ss_pred cccCCHHHHHHHHHcCCCcHHHHHHhCCHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHhcCC--CCEEEEeCCCC
Confidence 34555666666666665455555666677788889999999996655448999999999986 4 33699998775
No 145
>PRK06153 hypothetical protein; Provisional
Probab=32.63 E-value=93 Score=28.14 Aligned_cols=67 Identities=12% Similarity=0.147 Sum_probs=44.1
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchHHHh
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSDIIK 148 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~GfA~~i~ 148 (154)
....+ ...-+||.|.|..+ .+..+..+|..++||++. .+-..++. =|...++.-+-...+|-...+.
T Consensus 260 n~~~L--~~~DiV~dcvDn~~-aR~~ln~~a~~~gIP~Id-~G~~l~~~--~g~l~G~~Rvt~~~p~~~~~~~ 326 (393)
T PRK06153 260 NVDEL--DGFTFVFVCVDKGS-SRKLIVDYLEALGIPFID-VGMGLELS--NGSLGGILRVTLSTPDKRDHVD 326 (393)
T ss_pred HHHHh--cCCCEEEEcCCCHH-HHHHHHHHHHHcCCCEEE-eeecceec--CCCcCcEEEEEEecCCcccccc
Confidence 34444 35889999999666 688899999999999995 77766664 2221123234445666544443
No 146
>cd01143 YvrC Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. 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.
Probab=32.20 E-value=76 Score=23.80 Aligned_cols=55 Identities=15% Similarity=0.035 Sum_probs=36.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecC-C--------HHHHHhhhCCccc
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG-N--------NVDLGTACGKYFR 132 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~-t--------keELG~a~Gk~~~ 132 (154)
+.-++.|.+=+.-|||......+. +....+..++|++.+.. + -..||+++|++.+
T Consensus 50 ~~n~E~l~~l~PDlii~~~~~~~~----~~~~l~~~gi~v~~~~~~~~~~~~~~~~~~lg~~~g~~~~ 113 (195)
T cd01143 50 NPNVEKIVALKPDLVIVSSSSLAE----LLEKLKDAGIPVVVLPAASSLDEIYDQIELIGKITGAEEE 113 (195)
T ss_pred CCCHHHHhccCCCEEEEcCCcCHH----HHHHHHHcCCcEEEeCCCCCHHHHHHHHHHHHHHhCChHH
Confidence 456788888889999886544433 33444677899875322 1 2379999998644
No 147
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=31.81 E-value=60 Score=24.79 Aligned_cols=46 Identities=15% Similarity=0.081 Sum_probs=30.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCH
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNN 120 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tk 120 (154)
.++..+++.-.+.++++..+.+. .....+..+|...++|++. +.+|
T Consensus 85 ~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~iv-vlNK 131 (188)
T PF00009_consen 85 KEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPIIV-VLNK 131 (188)
T ss_dssp HHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEEE-EEET
T ss_pred ecccceecccccceeeeecccccccccccccccccccccceEE-eeee
Confidence 34666676666777777766443 3456666788999999884 6665
No 148
>TIGR01460 HAD-SF-IIA Haloacid Dehalogenase Superfamily Class (subfamily) IIA. Many of the genes in this subfamily have been annotated as "pNPPase" "4-nitrophenyl phosphatase" or "NPPase". These all refer to the same activity versus a common lab test compound used to determine phosphatase activity. There is no evidence that this activity is physiologically relevant.
Probab=31.79 E-value=65 Score=25.95 Aligned_cols=49 Identities=22% Similarity=0.201 Sum_probs=34.8
Q ss_pred HHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCc
Q 047379 64 MKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVG 112 (154)
Q Consensus 64 ~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vp 112 (154)
...+....|..+.++.+++....++|++++.+.....-...+.+..++|
T Consensus 10 ~~~~~~~~~a~e~i~~l~~~g~~~~~~tN~~~~~~~~~~~~l~~~~g~~ 58 (236)
T TIGR01460 10 WLGHKPIPGAAEALNRLRAKGKPVVFLTNNSSRSEEDYAEKLSSLLGVD 58 (236)
T ss_pred CcCCccCcCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHHHHHHhcCCC
Confidence 3456677799999999998889999999888765554444554534443
No 149
>PF13905 Thioredoxin_8: Thioredoxin-like; PDB: 1FG4_A 1I5G_A 1OC8_B 1O6J_A 1OC9_B 1O81_A 3FKF_A 1O85_A 1O7U_A 1O8W_A ....
Probab=31.66 E-value=1.6e+02 Score=19.49 Aligned_cols=56 Identities=16% Similarity=0.108 Sum_probs=31.6
Q ss_pred cCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecC---CHHHHHhhhCCcccEEEEEEeCc
Q 047379 82 TSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG---NNVDLGTACGKYFRVSCLSIIDP 141 (154)
Q Consensus 82 ~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~---tkeELG~a~Gk~~~vsvvaI~D~ 141 (154)
++++.+|.|+.|-+ .+.+...-+.++.|...+.. ...+|.+.+|...-= .+.|+|+
T Consensus 33 ~~~v~~v~Vs~d~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~iP-~~~lld~ 91 (95)
T PF13905_consen 33 KDDVEFVFVSLDED---EEEWKKFLKKNNFPWYNVPFDDDNNSELLKKYGINGIP-TLVLLDP 91 (95)
T ss_dssp TTTEEEEEEE-SSS---HHHHHHHHHTCTTSSEEEETTTHHHHHHHHHTT-TSSS-EEEEEET
T ss_pred CCCEEEEEEEeCCC---HHHHHHHHHhcCCCceEEeeCcchHHHHHHHCCCCcCC-EEEEECC
Confidence 56799999999944 33445555666444433222 256888888854322 3555554
No 150
>PRK06091 membrane protein FdrA; Validated
Probab=31.45 E-value=1e+02 Score=29.18 Aligned_cols=41 Identities=12% Similarity=0.058 Sum_probs=35.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
..+.+++.+| ...+|+++..+......+..+|+++|+.++-
T Consensus 132 ~al~ea~~~G-~~viI~S~gfg~~~E~~L~e~Ar~~GlrvmG 172 (555)
T PRK06091 132 ELAEQALDRN-LNVMMFSDNVTLEDEIRLKTRAREKGLLVMG 172 (555)
T ss_pred HHHHHHHHcC-CeEEEEcCCCCHHHHHHHHHHHHHcCCEEEC
Confidence 3567778888 6789999999888889999999999999984
No 151
>TIGR00035 asp_race aspartate racemase.
Probab=31.38 E-value=1.1e+02 Score=24.50 Aligned_cols=38 Identities=13% Similarity=0.170 Sum_probs=27.9
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+..+.+.+..+.+++++.+......+.++ +..+||++.
T Consensus 66 ~~~~~L~~~g~d~iviaCNTah~~~~~l~---~~~~iPii~ 103 (229)
T TIGR00035 66 DIAVKLENAGADFIIMPCNTAHKFAEDIQ---KAIGIPLIS 103 (229)
T ss_pred HHHHHHHHcCCCEEEECCccHHHHHHHHH---HhCCCCEec
Confidence 34555666779999999999776655554 456899986
No 152
>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=31.37 E-value=1.1e+02 Score=20.02 Aligned_cols=37 Identities=8% Similarity=0.122 Sum_probs=25.9
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.++.+..|. .|.|++.| +.....|..+|+..|-.++.
T Consensus 19 al~~l~~G~-~l~V~~d~--~~a~~di~~~~~~~G~~~~~ 55 (69)
T cd03420 19 EIDKLQDGE-QLEVKASD--PGFARDAQAWCKSTGNTLIS 55 (69)
T ss_pred HHHcCCCCC-EEEEEECC--ccHHHHHHHHHHHcCCEEEE
Confidence 344444454 46666664 44678999999999988874
No 153
>cd03338 TCP1_delta TCP-1 (CTT or eukaryotic type II) chaperonin family, delta subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=31.25 E-value=1.4e+02 Score=27.04 Aligned_cols=54 Identities=7% Similarity=0.009 Sum_probs=36.6
Q ss_pred HHHHHhcCCceEEEEeCCCChhhh-hhHHHHHHhCCCcEEEecCCH---HHHHhhhCCc
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRK-SEIEYYAMLAKVGVHHYNGNN---VDLGTACGKY 130 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k-~ki~~~c~~~~Vpvi~~~~tk---eELG~a~Gk~ 130 (154)
.++.|.+-.+.+||++.|++++.. .-+.++...+||-++. ...+ +.|..++|-.
T Consensus 264 ~v~~i~~~g~~lvi~~~~i~~~~v~~l~~~~l~~~~I~av~-~~~~~~LerIa~~tGa~ 321 (515)
T cd03338 264 MCKKIKKSGCNVLLIQKSILRDAVSDLALHFLAKLKIMVVK-DIEREEIEFICKTIGCK 321 (515)
T ss_pred HHHHHHhcCCCEEEECCCcccccccHHHHHHHHHCCceEEe-cCCHHHHHHHHHHHCCE
Confidence 444555566789999999876543 4446777789999996 5554 4556666643
No 154
>smart00187 INB Integrin beta subunits (N-terminal portion of extracellular region). Portion of beta integrins that lies N-terminal to their EGF-like repeats. Integrins are cell adhesion molecules that mediate cell-extracellular matrix and cell-cell interactions. They contain both alpha and beta subunits. Beta integrins are proposed to have a von Willebrand factor type-A "insert" or "I" -like domain (although this remains to be confirmed).
Probab=31.17 E-value=1.4e+02 Score=27.41 Aligned_cols=89 Identities=10% Similarity=0.234 Sum_probs=60.0
Q ss_pred HHHHHHHHHHHHhCCce---ecHHHHHHHH--------hcCCceEEEEeCCCChh-------------------------
Q 047379 54 ESINNRLALVMKSGKYT---LGYKTVLRSL--------RTSKGKLIILSNNCPPL------------------------- 97 (154)
Q Consensus 54 ~kil~lLglA~rAGklv---~G~~~VlkaI--------k~gkakLVIlA~Das~~------------------------- 97 (154)
+++...+...+-+|++= -|.+.+|.++ |++--+|||+++|++-.
T Consensus 188 ~~F~~~V~~~~iSgN~D~PEgG~DAimQaaVC~~~IGWR~~a~rllv~~TDa~fH~AGDGkLaGIv~PNDg~CHL~~~g~ 267 (423)
T smart00187 188 DEFNEEVKKQRISGNLDAPEGGFDAIMQAAVCTEQIGWREDARRLLVFSTDAGFHFAGDGKLAGIVQPNDGQCHLDNNGE 267 (423)
T ss_pred HHHHHHHhhceeecCCcCCcccHHHHHHHHhhccccccCCCceEEEEEEcCCCccccCCcceeeEecCCCCcceeCCCCC
Confidence 34444455555566654 5899998888 55667999999999864
Q ss_pred ----------hhhhHHHHHHhCCCcEEEecCCH------HHHHhhhCCcccEEEEEEeCcCchHHH
Q 047379 98 ----------RKSEIEYYAMLAKVGVHHYNGNN------VDLGTACGKYFRVSCLSIIDPGDSDII 147 (154)
Q Consensus 98 ----------~k~ki~~~c~~~~Vpvi~~~~tk------eELG~a~Gk~~~vsvvaI~D~GfA~~i 147 (154)
...+|.+.-.+++|-.| |.-|+ ++|...+.. + .++++...-++.+
T Consensus 268 Yt~s~~~DYPSi~ql~~kL~e~nI~~I-FAVT~~~~~~Y~~Ls~lipg---s-~vg~Ls~DSsNIv 328 (423)
T smart00187 268 YTMSTTQDYPSIGQLNQKLAENNINPI-FAVTKKQVSLYKELSALIPG---S-SVGVLSEDSSNVV 328 (423)
T ss_pred cCccCcCCCCCHHHHHHHHHhcCceEE-EEEcccchhHHHHHHHhcCc---c-eeeecccCcchHH
Confidence 34566777788898888 44333 677888863 2 5888755544443
No 155
>cd01822 Lysophospholipase_L1_like Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity.
Probab=30.60 E-value=1.4e+02 Score=21.80 Aligned_cols=44 Identities=9% Similarity=0.125 Sum_probs=29.1
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCh--------hhhhhHHHHHHhCCCcEEE
Q 047379 72 GYKTVLRSLRTSKGKLIILSNNCPP--------LRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 72 G~~~VlkaIk~gkakLVIlA~Das~--------~~k~ki~~~c~~~~Vpvi~ 115 (154)
...+.++.+++..++++++..-.++ ..-..+..+|+++++|++.
T Consensus 89 ~l~~li~~~~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~d 140 (177)
T cd01822 89 NLRQMIETAQARGAPVLLVGMQAPPNYGPRYTRRFAAIYPELAEEYGVPLVP 140 (177)
T ss_pred HHHHHHHHHHHCCCeEEEEecCCCCccchHHHHHHHHHHHHHHHHcCCcEec
Confidence 3455666676666777777543332 2235667889999999985
No 156
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=30.29 E-value=1.9e+02 Score=20.03 Aligned_cols=74 Identities=9% Similarity=-0.009 Sum_probs=48.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh-CCcccEEEEEEeCcCchHHHhc
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC-GKYFRVSCLSIIDPGDSDIIKS 149 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~-Gk~~~vsvvaI~D~GfA~~i~~ 149 (154)
+++.+.|.+- -+++|++...+......+...-...+.++.. ..+.++..... ..+....++.|.-.|....+.+
T Consensus 4 ~~~~~~i~~~-~~i~i~g~g~s~~~a~~~~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~iS~~g~~~~~~~ 78 (139)
T cd05013 4 EKAVDLLAKA-RRIYIFGVGSSGLVAEYLAYKLLRLGKPVVL-LSDPHLQLMSAANLTPGDVVIAISFSGETKETVE 78 (139)
T ss_pred HHHHHHHHhC-CEEEEEEcCchHHHHHHHHHHHHHcCCceEE-ecCHHHHHHHHHcCCCCCEEEEEeCCCCCHHHHH
Confidence 3455555443 4688889999999999898888888888884 55655554332 2222334788888877555443
No 157
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=30.23 E-value=36 Score=24.80 Aligned_cols=43 Identities=14% Similarity=0.081 Sum_probs=30.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCC-hhhhhhHHHHHHhCCCcEEEe
Q 047379 74 KTVLRSLRTSKGKLIILSNNCP-PLRKSEIEYYAMLAKVGVHHY 116 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das-~~~k~ki~~~c~~~~Vpvi~~ 116 (154)
+++.+.|++-+-=++|+...+. ....+.+..+++..++|+++.
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t 45 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATT 45 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEE
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEec
Confidence 4566777666555555555444 267899999999999999973
No 158
>PLN00144 acetylornithine transaminase
Probab=29.96 E-value=79 Score=27.41 Aligned_cols=50 Identities=10% Similarity=0.076 Sum_probs=33.3
Q ss_pred HHHHHHHhcCCceEEEEe------CCCCh--hhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 047379 74 KTVLRSLRTSKGKLIILS------NNCPP--LRKSEIEYYAMLAKVGVHHYNGNNVDLG 124 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA------~Das~--~~k~ki~~~c~~~~Vpvi~~~~tkeELG 124 (154)
+...+.++.+++..||+- .-.++ ...+.+..+|+++++++|. +.-.-.+|
T Consensus 157 ~~l~~~~~~~~~aavi~eP~q~~gg~~~~~~~~~~~l~~l~~~~g~llI~-DEv~tg~g 214 (382)
T PLN00144 157 EAARKLIQKGKTAAVFVEPVQGEGGIYPATKEFLQGLRALCDEAGALLVF-DEVQCGLG 214 (382)
T ss_pred HHHHHhcCCCCeEEEEEccccCCCCCccCCHHHHHHHHHHHHHcCCEEEE-echhhCCC
Confidence 344556666777777776 22333 3489999999999999995 44434343
No 159
>PRK05428 HPr kinase/phosphorylase; Provisional
Probab=29.86 E-value=1.6e+02 Score=25.65 Aligned_cols=43 Identities=21% Similarity=0.103 Sum_probs=34.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecC
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG 118 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~ 118 (154)
.+.++.+-+.+.-.+|++.+..+.. .+...|++++||+.....
T Consensus 72 ~~~~~~l~~~~~P~iIvt~~~~~p~--~l~~~a~~~~ipll~t~~ 114 (308)
T PRK05428 72 KERLKKLFSLEPPCIIVTRGLEPPP--ELLEAAKEAGIPLLRTPL 114 (308)
T ss_pred HHHHHHHhCCCCCEEEEECcCCCCH--HHHHHHHHcCCcEEEeCC
Confidence 4566777778889999999988743 378999999999987333
No 160
>cd01487 E1_ThiF_like E1_ThiF_like. Member of superfamily of activating enzymes (E1) of the ubiquitin-like proteins. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=29.74 E-value=73 Score=24.75 Aligned_cols=31 Identities=6% Similarity=-0.041 Sum_probs=22.5
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhC-CCcEEE
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLA-KVGVHH 115 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~-~Vpvi~ 115 (154)
..-+||.+.|- +.++..+.+.|..+ ++|++.
T Consensus 88 ~~DlVi~~~d~-~~~r~~i~~~~~~~~~ip~i~ 119 (174)
T cd01487 88 DCDIVVEAFDN-AETKAMLAESLLGNKNKPVVC 119 (174)
T ss_pred CCCEEEECCCC-HHHHHHHHHHHHHHCCCCEEE
Confidence 37799999774 55666666666665 999994
No 161
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=29.60 E-value=1.3e+02 Score=28.12 Aligned_cols=43 Identities=16% Similarity=0.129 Sum_probs=35.6
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEec
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYN 117 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~ 117 (154)
..+.++|++|+ .+||=+++..+..++.+..+|+.+++|+..++
T Consensus 411 ~~a~~~L~~G~-sVVIDaTn~~~~~R~~~i~lAk~~gv~v~~i~ 453 (526)
T TIGR01663 411 TACERALDQGK-RCAIDNTNPDAASRAKFLQCARAAGIPCRCFL 453 (526)
T ss_pred HHHHHHHhCCC-cEEEECCCCCHHHHHHHHHHHHHcCCeEEEEE
Confidence 45677888886 47888999999999999999999999987533
No 162
>TIGR01456 CECR5 HAD-superfamily class IIA hydrolase, TIGR01456, CECR5. The Schizosaccharomyces pombe sequence (EGAD|138276) is annotated as "phosphatidyl synthase," however this is due entirely to a C-terminal region of the protein (outside the region of similarity of this model) which is highly homologous to a family of CDP-alcohol phosphatidyltransferases. (Thus, the annotation of GP|4226073 from C. elegans as similar to phosphatidyl synthase, is a mistake as this gene does not contain the C-terminal portion). The physical connection of the phosphatidyl synthase and the HAD-superfamily hydrolase domain in S. pombe may, however, be an important clue to the substrate for the hydrolases in this equivalog.
Probab=29.58 E-value=55 Score=27.81 Aligned_cols=50 Identities=26% Similarity=0.239 Sum_probs=37.6
Q ss_pred HHhCCceecHHHHHHHHhcC----CceEEEEeCCCChhhhhhHHHHHHhCCCcE
Q 047379 64 MKSGKYTLGYKTVLRSLRTS----KGKLIILSNNCPPLRKSEIEYYAMLAKVGV 113 (154)
Q Consensus 64 ~rAGklv~G~~~VlkaIk~g----kakLVIlA~Das~~~k~ki~~~c~~~~Vpv 113 (154)
.+.+.+.-|..++++.++.. ...++++.++.+.........+.+..++++
T Consensus 12 ~~g~~~i~ga~eal~~L~~~~~~~g~~~~flTNn~g~s~~~~~~~l~~~lG~~~ 65 (321)
T TIGR01456 12 FRGKKPIAGASDALRRLNRNQGQLKIPYIFLTNGGGFSERARAEEISSLLGVDV 65 (321)
T ss_pred ECCccccHHHHHHHHHHhccccccCCCEEEEecCCCCCHHHHHHHHHHHcCCCC
Confidence 35567788999999999986 788899999987666655565556666654
No 163
>PRK07688 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated
Probab=29.40 E-value=69 Score=27.80 Aligned_cols=34 Identities=15% Similarity=-0.037 Sum_probs=28.1
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
..-+||.+.| +..++..+.++|..+++|++ +...
T Consensus 116 ~~DlVid~~D-n~~~r~~ln~~~~~~~iP~i-~~~~ 149 (339)
T PRK07688 116 GVDLIIDATD-NFETRFIVNDAAQKYGIPWI-YGAC 149 (339)
T ss_pred CCCEEEEcCC-CHHHHHHHHHHHHHhCCCEE-EEee
Confidence 3789999999 45688899999999999999 4443
No 164
>PRK09331 Sep-tRNA:Cys-tRNA synthetase; Provisional
Probab=29.32 E-value=1.1e+02 Score=26.35 Aligned_cols=43 Identities=7% Similarity=-0.049 Sum_probs=31.1
Q ss_pred HHHHHHHHhcC------CceEEEEeCCCCh----hhhhhHHHHHHhCCCcEEE
Q 047379 73 YKTVLRSLRTS------KGKLIILSNNCPP----LRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 73 ~~~VlkaIk~g------kakLVIlA~Das~----~~k~ki~~~c~~~~Vpvi~ 115 (154)
.+.+.++|++. ++++|++..=.++ .-.++|..+|+++|++++.
T Consensus 141 ~~~l~~~l~~~~~~~~~~~~lV~l~~~~~~tG~~~~l~~I~~la~~~g~~liv 193 (387)
T PRK09331 141 PEAYAEKIEEVKEETGKPPALALLTHVDGNYGNLADAKKVAKVAHEYGIPFLL 193 (387)
T ss_pred HHHHHHHHHHhhhccCCCCEEEEEECCCCCCcccccHHHHHHHHHHcCCEEEE
Confidence 46677777643 6889988753222 2358889999999999985
No 165
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=29.03 E-value=1.2e+02 Score=24.97 Aligned_cols=45 Identities=16% Similarity=0.036 Sum_probs=32.0
Q ss_pred HHHHHHHHhc-CCceEEEEeCCCCh---hhhhhHHHHHHhCCCcEEEecC
Q 047379 73 YKTVLRSLRT-SKGKLIILSNNCPP---LRKSEIEYYAMLAKVGVHHYNG 118 (154)
Q Consensus 73 ~~~VlkaIk~-gkakLVIlA~Das~---~~k~ki~~~c~~~~Vpvi~~~~ 118 (154)
.+.+.+++++ .++++|++.+-... .-.++|..+|++++++++. +.
T Consensus 142 ~~~l~~~l~~~~~~k~v~l~~p~~~G~~~dl~~I~~~~~~~g~~liv-De 190 (294)
T cd00615 142 PETFKKALIEHPDAKAAVITNPTYYGICYNLRKIVEEAHHRGLPVLV-DE 190 (294)
T ss_pred HHHHHHHHHhCCCceEEEEECCCCCCEecCHHHHHHHHHhcCCeEEE-EC
Confidence 4667788865 56899998853111 1247899999999999995 44
No 166
>PRK00865 glutamate racemase; Provisional
Probab=29.00 E-value=2.5e+02 Score=23.14 Aligned_cols=37 Identities=11% Similarity=0.115 Sum_probs=25.9
Q ss_pred HHHHHhcCCceEEEEeCCCChhh-hhhHHHHHHhCCCcEEE
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLR-KSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~-k~ki~~~c~~~~Vpvi~ 115 (154)
..+.+.+..+.++++|.+..... .+.++ +..+||++.
T Consensus 59 ~~~~L~~~g~d~iVIaCNTa~~~~l~~lr---~~~~iPvig 96 (261)
T PRK00865 59 IVEFLLEYGVKMLVIACNTASAVALPDLR---ERYDIPVVG 96 (261)
T ss_pred HHHHHHhCCCCEEEEeCchHHHHHHHHHH---HhCCCCEEe
Confidence 44455556699999999987643 45555 446899985
No 167
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=28.77 E-value=1.6e+02 Score=24.14 Aligned_cols=70 Identities=13% Similarity=0.168 Sum_probs=48.1
Q ss_pred eecHHHHHHHHh----cCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCch
Q 047379 70 TLGYKTVLRSLR----TSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDS 144 (154)
Q Consensus 70 v~G~~~VlkaIk----~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~GfA 144 (154)
.+|.++.-++++ -.++..++||...-- .+.+.+..+-++++||++. .+ ..|--+.++=+.|+||=.|
T Consensus 123 lVGEE~laEAVkAV~rLpRv~iLVLAGslMGGkIteaVk~lr~~hgI~VIS--L~------M~GSVpdVADlVvtDPvqA 194 (218)
T COG1707 123 LVGEEELAEAVKAVARLPRVGILVLAGSLMGGKITEAVKELREEHGIPVIS--LN------MFGSVPDVADLVVTDPVQA 194 (218)
T ss_pred ccChHHHHHHHHHHhccccceeEEEecccccchHHHHHHHHHHhcCCeEEE--ec------cCCCCcchhheeecCchHh
Confidence 467777777664 356888888876544 6778888888999999996 22 3454445555677777655
Q ss_pred HHH
Q 047379 145 DII 147 (154)
Q Consensus 145 ~~i 147 (154)
-.+
T Consensus 195 Gvl 197 (218)
T COG1707 195 GVL 197 (218)
T ss_pred hhh
Confidence 443
No 168
>PRK05294 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=28.74 E-value=81 Score=31.55 Aligned_cols=56 Identities=14% Similarity=0.009 Sum_probs=41.2
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCChhh--hhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 72 GYKTVLRSLRTSKGKLIILSNNCPPLR--KSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 72 G~~~VlkaIk~gkakLVIlA~Das~~~--k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
|...+++.|++|++.+||-..+..... --.++..|-.+|||+++...+-..+=.++
T Consensus 992 ~~~~i~~~i~~~~idlvIn~~~~~~~~~~g~~iRr~Av~~~ip~~T~~~~a~~~v~al 1049 (1066)
T PRK05294 992 GRPHIVDLIKNGEIDLVINTPTGRQAIRDGFSIRRAALEYKVPYITTLAGARAAVKAI 1049 (1066)
T ss_pred cCccHHHHHHcCCeEEEEECCCCcccccccHHHHHHHHHcCCCEEecHHHHHHHHHHH
Confidence 456689999999999999887642222 35789999999999997444555555555
No 169
>PRK12475 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional
Probab=28.73 E-value=73 Score=27.66 Aligned_cols=33 Identities=18% Similarity=0.087 Sum_probs=27.5
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecC
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG 118 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~ 118 (154)
++-+||.+.|- ..++..+.++|..++||++ +..
T Consensus 116 ~~DlVid~~D~-~~~r~~in~~~~~~~ip~i-~~~ 148 (338)
T PRK12475 116 EVDLIIDATDN-FDTRLLINDLSQKYNIPWI-YGG 148 (338)
T ss_pred CCCEEEEcCCC-HHHHHHHHHHHHHcCCCEE-EEE
Confidence 47899999985 5577889999999999999 443
No 170
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=28.62 E-value=1.9e+02 Score=24.10 Aligned_cols=46 Identities=15% Similarity=0.203 Sum_probs=34.5
Q ss_pred CCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 047379 83 SKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 83 gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk 129 (154)
|.-+..++..|.-. .....+..+++..++|+.. ..+..+|-.++..
T Consensus 223 g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~-~~~~~~l~~~l~~ 269 (282)
T TIGR03499 223 GNKKVALITTDTYRIGAVEQLKTYAKILGVPVKV-ARDPKELRKALDR 269 (282)
T ss_pred CCCeEEEEECCccchhHHHHHHHHHHHhCCceec-cCCHHHHHHHHHH
Confidence 55678888888633 2357778889999999985 7788888888764
No 171
>cd01028 TOPRIM_TopoIA TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli topisomerases I and III, eukaryotic topoisomerase III and, ATP-dependent reverse gyrase found in archaea and thermophilic bacteria. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA. These enzymes cleave one strand of the DNA duplex, covalently link to the 5' phosphoryl end of the DNA break and allow the other strand of the duplex to pass through the gap. Reverse gyrase is also able to insert positive supercoils in the presence of ATP and negative supercoils in the presence of AMPPNP. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general b
Probab=28.60 E-value=1.7e+02 Score=21.71 Aligned_cols=44 Identities=16% Similarity=-0.063 Sum_probs=28.7
Q ss_pred CceEEEEeCCCChh---hhhhHHHHHHhCCCcEEEecC---CHHHHHhhh
Q 047379 84 KGKLIILSNNCPPL---RKSEIEYYAMLAKVGVHHYNG---NNVDLGTAC 127 (154)
Q Consensus 84 kakLVIlA~Das~~---~k~ki~~~c~~~~Vpvi~~~~---tkeELG~a~ 127 (154)
++..||+|+|++.. +..++..++...+.|+...++ |++++=+|+
T Consensus 90 ~~d~iiiAtD~DrEGE~I~~~i~~~~~~~~~~v~R~~fsslT~~~I~~A~ 139 (142)
T cd01028 90 KADEIVLATDPDREGELIAWEILEVLKCDNKPVKRAWFSEITPKAIREAF 139 (142)
T ss_pred cCCEEEEcCCCCcchHHHHHHHHHHhCCCCCCeEEEEEccCCHHHHHHHH
Confidence 46899999999984 456777777654556654333 555554443
No 172
>PF01081 Aldolase: KDPG and KHG aldolase; InterPro: IPR000887 4-Hydroxy-2-oxoglutarate aldolase (4.1.3.16 from EC) (KHG-aldolase) catalyzes the interconversion of 4-hydroxy-2-oxoglutarate into pyruvate and glyoxylate. Phospho-2-dehydro-3-deoxygluconate aldolase (4.1.2.14 from EC) (KDPG-aldolase) catalyzes the interconversion of 6-phospho-2-dehydro-3-deoxy-D-gluconate into pyruvate and glyceraldehyde 3-phosphate. These two enzymes are structurally and functionally related []. They are both homotrimeric proteins of approximately 220 amino-acid residues. They are class I aldolases whose catalytic mechanism involves the formation of a Schiff-base intermediate between the substrate and the epsilon-amino group of a lysine residue. In both enzymes, an arginine is required for catalytic activity.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VCR_A 1FQ0_A 1EUN_A 1EUA_B 1FWR_A 2C0A_B 1WBH_A 1WAU_A 2YW3_B 2YW4_A ....
Probab=28.56 E-value=1.2e+02 Score=24.51 Aligned_cols=68 Identities=12% Similarity=0.031 Sum_probs=46.8
Q ss_pred HHHHH-HHHHhCCceec------HHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 047379 57 NNRLA-LVMKSGKYTLG------YKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 57 l~lLg-lA~rAGklv~G------~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk 129 (154)
+..|. +..+-..+.+| .+++.++++.| +.+++ ||..-..+..+|.+++||++-=..|..|+-.|...
T Consensus 47 ~~~I~~l~~~~p~~~vGAGTV~~~e~a~~a~~aG-A~Fiv-----SP~~~~~v~~~~~~~~i~~iPG~~TptEi~~A~~~ 120 (196)
T PF01081_consen 47 LEAIEALRKEFPDLLVGAGTVLTAEQAEAAIAAG-AQFIV-----SPGFDPEVIEYAREYGIPYIPGVMTPTEIMQALEA 120 (196)
T ss_dssp HHHHHHHHHHHTTSEEEEES--SHHHHHHHHHHT--SEEE-----ESS--HHHHHHHHHHTSEEEEEESSHHHHHHHHHT
T ss_pred HHHHHHHHHHCCCCeeEEEeccCHHHHHHHHHcC-CCEEE-----CCCCCHHHHHHHHHcCCcccCCcCCHHHHHHHHHC
Confidence 33444 33344677777 47788888888 66765 56677788999999999998545699999777644
Q ss_pred c
Q 047379 130 Y 130 (154)
Q Consensus 130 ~ 130 (154)
.
T Consensus 121 G 121 (196)
T PF01081_consen 121 G 121 (196)
T ss_dssp T
T ss_pred C
Confidence 3
No 173
>PRK06298 type III secretion system protein; Validated
Probab=28.25 E-value=76 Score=28.07 Aligned_cols=26 Identities=27% Similarity=0.123 Sum_probs=21.5
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
...+|+..|+++|||+++ ...|.+++
T Consensus 291 ~A~~Ir~iA~e~~VPive----n~pLARaL 316 (356)
T PRK06298 291 RAKRIIAEAEKYGVPIMR----NVPLAHQL 316 (356)
T ss_pred HHHHHHHHHHHcCCCEEe----CHHHHHHH
Confidence 468899999999999997 45677766
No 174
>PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase. This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A ....
Probab=28.16 E-value=78 Score=21.97 Aligned_cols=28 Identities=18% Similarity=-0.017 Sum_probs=19.7
Q ss_pred CCceEEEEeCCCChh---hhhhHHHHHHhCC
Q 047379 83 SKGKLIILSNNCPPL---RKSEIEYYAMLAK 110 (154)
Q Consensus 83 gkakLVIlA~Das~~---~k~ki~~~c~~~~ 110 (154)
.++.-||+|+|.+.. +..++..++...+
T Consensus 58 ~~~~~iiiatD~D~EGe~Ia~~i~~~~~~~~ 88 (100)
T PF01751_consen 58 KKADEIIIATDPDREGELIAWEIIELLGKNN 88 (100)
T ss_dssp HSCSEEEEEC-SSHHHHHHHHHHHHHHHHHS
T ss_pred hhccEeeecCCCChHHHHHHHHHHHHHhHhC
Confidence 458999999999985 4566666665544
No 175
>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=27.84 E-value=1e+02 Score=25.59 Aligned_cols=22 Identities=9% Similarity=-0.073 Sum_probs=17.0
Q ss_pred CChhhhhhHHHHHHhCCCcEEE
Q 047379 94 CPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 94 as~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.|+....++..+.+.++|+++.
T Consensus 194 ps~~~l~~l~~~ik~~~v~~if 215 (276)
T cd01016 194 AGLRDINELVDLIVERKIKAIF 215 (276)
T ss_pred CCHHHHHHHHHHHHHcCCCEEE
Confidence 4456678888888888999884
No 176
>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=27.75 E-value=2.2e+02 Score=20.00 Aligned_cols=44 Identities=11% Similarity=0.138 Sum_probs=27.0
Q ss_pred cCCceEEEEeCCCChhhhhhHHHHHHhC-C--CcEEEecCCHHHHHhhhCCcc
Q 047379 82 TSKGKLIILSNNCPPLRKSEIEYYAMLA-K--VGVHHYNGNNVDLGTACGKYF 131 (154)
Q Consensus 82 ~gkakLVIlA~Das~~~k~ki~~~c~~~-~--Vpvi~~~~tkeELG~a~Gk~~ 131 (154)
.+.+.+|.|+.|-.+ .+..+.+.+ + .|++ ......+++.+|...
T Consensus 54 ~~~~~~i~is~d~~~----~~~~~~~~~~~~~~~~l--~D~~~~~~~~~g~~~ 100 (140)
T cd02971 54 KGGAEVLGVSVDSPF----SHKAWAEKEGGLNFPLL--SDPDGEFAKAYGVLI 100 (140)
T ss_pred HCCCEEEEEeCCCHH----HHHHHHhcccCCCceEE--ECCChHHHHHcCCcc
Confidence 345788888887433 344444544 4 5555 244468999998653
No 177
>TIGR03659 IsdE heme ABC transporter, heme-binding protein isdE. This family of ABC substrate-binding proteins is observed primarily in close proximity with proteins localized to the cell wall and bearing the NEAT (NEAr Transporter, pfam05031) heme-binding domain. IsdE has been shown to bind heme and is involved in the process of scavenging heme for the purpose of obtaining iron.
Probab=27.74 E-value=1.5e+02 Score=24.25 Aligned_cols=55 Identities=11% Similarity=0.118 Sum_probs=37.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecC-C-------HHHHHhhhCCccc
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG-N-------NVDLGTACGKYFR 132 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~-t-------keELG~a~Gk~~~ 132 (154)
..-++.|..=+.-|||.....+++..+++. ..+||++.+.. + -+.||+++|++.+
T Consensus 81 ~~n~E~I~al~PDlIi~~~~~~~~~~~~l~----~~gi~v~~~~~~~~~~~~~~i~~lg~~~G~~~~ 143 (289)
T TIGR03659 81 SPDMEKIKSLKPTVVLSVTTLEEDLGPKFK----QLGVEATFLNLTSVDGMKKSITELGEKYGREEQ 143 (289)
T ss_pred CCCHHHHhccCCcEEEEcCcccHHHHHHHH----HcCCcEEEEcCCCHHHHHHHHHHHHHHhCCHHH
Confidence 356777888889999987666666555554 45789874222 2 4578999987654
No 178
>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=27.58 E-value=1.1e+02 Score=25.14 Aligned_cols=47 Identities=11% Similarity=-0.042 Sum_probs=28.0
Q ss_pred CceecHHHHHHHHhc-CCceEEEE---eCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 68 KYTLGYKTVLRSLRT-SKGKLIIL---SNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 68 klv~G~~~VlkaIk~-gkakLVIl---A~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.+++..+ ....+-+ =-...+-+ -.+.|+....++....+.++|+++.
T Consensus 172 ~~v~~H~-af~Y~~~~ygl~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~if 222 (266)
T cd01018 172 AFMVYHP-AWGYFARDYGLTQIPIEEEGKEPSPADLKRLIDLAKEKGVRVVF 222 (266)
T ss_pred eEEEECc-hhHHHHHHcCCEEEecCCCCCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 3455433 5566532 22333322 2344556778888999999999994
No 179
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=27.37 E-value=1.8e+02 Score=20.70 Aligned_cols=39 Identities=3% Similarity=-0.087 Sum_probs=31.1
Q ss_pred hcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 81 RTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 81 k~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
.++...+|++.++.-+...+.+...-+....|.+...++
T Consensus 41 ~~~d~gII~Ite~~~~~i~e~i~~~~~~~~~P~ii~IP~ 79 (100)
T PRK02228 41 EDDDVGILVMHDDDLEKLPRRLRRTLEESVEPTVVTLGG 79 (100)
T ss_pred hCCCEEEEEEehhHhHhhHHHHHHHHhcCCCCEEEEECC
Confidence 567799999999988888888888777788888864443
No 180
>cd01484 E1-2_like Ubiquitin activating enzyme (E1), repeat 2-like. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. A set of novel molecules with a structural similarity to Ub, called Ub-like proteins (Ubls), have similar conjugation cascades. In contrast to ubiquitin-E1, which is a single-chain protein with a weakly conserved two-fold repeat, many of the Ubls-E1are a heterodimer where each subunit corresponds to one half of a single-chain E1. This CD represents the family homologou
Probab=27.32 E-value=90 Score=25.77 Aligned_cols=34 Identities=9% Similarity=0.113 Sum_probs=28.4
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
+..+||.+.|- ...+..+..+|..+++|++. .++
T Consensus 91 ~~DvVi~a~Dn-~~aR~~ln~~c~~~~iplI~-~g~ 124 (234)
T cd01484 91 QFHIIVNALDN-IIARRYVNGMLIFLIVPLIE-SGT 124 (234)
T ss_pred CCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE-Ecc
Confidence 47799999895 45789999999999999995 665
No 181
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=27.17 E-value=82 Score=27.77 Aligned_cols=26 Identities=23% Similarity=0.142 Sum_probs=20.7
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
...+|+..|+++|||+++ .-.|.+++
T Consensus 290 ~A~~Ir~iA~e~~VPive----n~pLARaL 315 (349)
T PRK12721 290 QALHIVKLAERNGIPVVE----NIPLARAL 315 (349)
T ss_pred HHHHHHHHHHHcCCCEEe----CHHHHHHH
Confidence 457899999999999997 35566665
No 182
>PRK00011 glyA serine hydroxymethyltransferase; Reviewed
Probab=27.14 E-value=1.3e+02 Score=25.81 Aligned_cols=43 Identities=19% Similarity=0.074 Sum_probs=30.8
Q ss_pred HHHHHHHHhcCCceEEEEe-CCCCh-hhhhhHHHHHHhCCCcEEE
Q 047379 73 YKTVLRSLRTSKGKLIILS-NNCPP-LRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA-~Das~-~~k~ki~~~c~~~~Vpvi~ 115 (154)
.+++.+.|+..+.++|++. +..+. .-.++|..+|+.++++++.
T Consensus 154 ~~~l~~~i~~~~~k~v~~~~~~~~~~~~~~~I~~la~~~~~~liv 198 (416)
T PRK00011 154 YDEVEKLALEHKPKLIIAGASAYSRPIDFKRFREIADEVGAYLMV 198 (416)
T ss_pred HHHHHHHHHhcCCCEEEECCCcCCCccCHHHHHHHHHHcCCEEEE
Confidence 4566777766678888885 33332 2358889999999999985
No 183
>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=27.05 E-value=2.4e+02 Score=20.17 Aligned_cols=44 Identities=11% Similarity=0.139 Sum_probs=26.6
Q ss_pred CCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCH--HHHHhhhCCc
Q 047379 83 SKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN--VDLGTACGKY 130 (154)
Q Consensus 83 gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tk--eELG~a~Gk~ 130 (154)
..+.+|.|..|..+ .+..+.+.+++++..+.... .++++..|..
T Consensus 61 ~~v~vi~vs~d~~~----~~~~~~~~~~~~~~~~~D~~~~~~~~~~~g~~ 106 (149)
T cd03018 61 AGAEVLGISVDSPF----SLRAWAEENGLTFPLLSDFWPHGEVAKAYGVF 106 (149)
T ss_pred CCCEEEEecCCCHH----HHHHHHHhcCCCceEecCCCchhHHHHHhCCc
Confidence 44778888877533 34455566655554323333 6788888864
No 184
>cd01489 Uba2_SUMO Ubiquitin activating enzyme (E1) subunit UBA2. UBA2 is part of the heterodimeric activating enzyme (E1), specific for the SUMO family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by SUMO family of ubiquitin-like proteins (Ublps) is involved in cell division, nuclear transport, the stress response and signal transduction. UBA2 contains both the nucleotide-binding motif involved in adenylation and the catalytic cysteine involved in the thioester intermediate and Ublp transfer to E2.
Probab=27.00 E-value=88 Score=27.12 Aligned_cols=35 Identities=11% Similarity=0.156 Sum_probs=28.5
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCH
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 120 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tk 120 (154)
...+||.|.|- ...+..+..+|..++||++. .++.
T Consensus 90 ~~DvVv~a~Dn-~~ar~~in~~c~~~~ip~I~-~gt~ 124 (312)
T cd01489 90 QFDLVFNALDN-LAARRHVNKMCLAADVPLIE-SGTT 124 (312)
T ss_pred cCCEEEECCCC-HHHHHHHHHHHHHCCCCEEE-EecC
Confidence 36788888884 56789999999999999995 6653
No 185
>PRK12815 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=26.98 E-value=95 Score=31.16 Aligned_cols=57 Identities=11% Similarity=0.063 Sum_probs=40.0
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCChh--hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 71 LGYKTVLRSLRTSKGKLIILSNNCPPL--RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 71 ~G~~~VlkaIk~gkakLVIlA~Das~~--~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
-|...+++.|++|++.+||-....... .--.++..|-.++||+++...+...+-.++
T Consensus 991 ~~~~~~~~~~~~~~~~~vin~~~~~~~~~~~~~irr~a~~~~ip~~t~~~~a~~~~~~~ 1049 (1068)
T PRK12815 991 EGSPSLLERIKQHRIVLVVNTSLSDSASEDAIKIRDEALSTHIPVFTELETAQAFLQVL 1049 (1068)
T ss_pred CCCccHHHHHHcCCeEEEEECCCCcccccccHHHHHHHHHcCCCEEecHHHHHHHHHHH
Confidence 355668899999999999987543221 236789999999999996333444444444
No 186
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=26.98 E-value=82 Score=27.88 Aligned_cols=27 Identities=19% Similarity=0.055 Sum_probs=21.5
Q ss_pred hhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 97 LRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 97 ~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
....+|+..|+++|||+++ .-.|.+++
T Consensus 298 ~~A~~Ir~~A~e~~VPive----n~pLARaL 324 (358)
T PRK13109 298 LIALKIREIAEENGIPVIE----DKPLARSL 324 (358)
T ss_pred HHHHHHHHHHHHcCCCEEe----CHHHHHHH
Confidence 3568899999999999997 35666665
No 187
>TIGR03531 selenium_SpcS O-phosphoseryl-tRNA(Sec) selenium transferase. In the archaea and eukaryotes, the conversion of the mischarged serine to selenocysteine (Sec) on its tRNA is accomplished in two steps. This enzyme, O-phosphoseryl-tRNA(Sec) selenium transferase, acts second, after a phosphophorylation step catalyzed by a homolog of the bacterial SelA protein.
Probab=26.97 E-value=1.4e+02 Score=27.12 Aligned_cols=47 Identities=19% Similarity=0.225 Sum_probs=32.7
Q ss_pred ceecHHHHHHHHhc-C-CceEEEEeCC-C----ChhhhhhHHHHHHhCCCcEEE
Q 047379 69 YTLGYKTVLRSLRT-S-KGKLIILSNN-C----PPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 69 lv~G~~~VlkaIk~-g-kakLVIlA~D-a----s~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+..=.+.+.++|.. + +..++++.+- + +++-.+.|..+|++++||++.
T Consensus 187 ~~iD~e~Le~aIt~~~~kai~~Vv~Tp~t~~~g~~ddL~eIa~la~k~gI~lIv 240 (444)
T TIGR03531 187 LTTDVEDIERAIEEIGPDNILCVLSTTSCFAPRSPDDIEEIAKICANYDIPHIV 240 (444)
T ss_pred CCcCHHHHHHHHHhccCCCEEEEEEcCCcCCCcchhCHHHHHHHHHHcCCEEEE
Confidence 44445667788863 2 5566666432 2 456778999999999999986
No 188
>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=26.92 E-value=1.5e+02 Score=22.29 Aligned_cols=40 Identities=20% Similarity=0.035 Sum_probs=22.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.+.++.+.+.++..+|+.....+... ....+...+||++.
T Consensus 45 ~~~~~~~~~~~~d~ii~~~~~~~~~~--~~~~l~~~~ip~v~ 84 (264)
T cd01537 45 LSALENLIARGVDGIIIAPSDLTAPT--IVKLARKAGIPVVL 84 (264)
T ss_pred HHHHHHHHHcCCCEEEEecCCCcchh--HHHHhhhcCCCEEE
Confidence 34455555556666666543333332 44556777888874
No 189
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=26.89 E-value=3.8e+02 Score=22.43 Aligned_cols=88 Identities=9% Similarity=0.073 Sum_probs=58.7
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHhC---C----------ceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCC
Q 047379 44 VTSKKTKKTHESINNRLALVMKSG---K----------YTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAK 110 (154)
Q Consensus 44 ~~~~k~~~~~~kil~lLglA~rAG---k----------lv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~ 110 (154)
.|+.+.....+++++++...++.. . +..|.+..++.+++--+.=||+ .|.+.+..+.+...|++++
T Consensus 64 ~~AL~~G~~~~~~~~~~~~~r~~~~~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGvii-pDLp~ee~~~~~~~~~~~g 142 (258)
T PRK13111 64 LRALAAGVTLADVFELVREIREKDPTIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLII-PDLPPEEAEELRAAAKKHG 142 (258)
T ss_pred HHHHHcCCCHHHHHHHHHHHHhcCCCCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEE-CCCCHHHHHHHHHHHHHcC
Confidence 444443435567888888776221 1 1237788888887766777777 5999999999999999999
Q ss_pred CcEEEe--cCC-HHHHHhhhCCccc
Q 047379 111 VGVHHY--NGN-NVDLGTACGKYFR 132 (154)
Q Consensus 111 Vpvi~~--~~t-keELG~a~Gk~~~ 132 (154)
+..|.+ ..| .+++-.+......
T Consensus 143 l~~I~lvap~t~~eri~~i~~~s~g 167 (258)
T PRK13111 143 LDLIFLVAPTTTDERLKKIASHASG 167 (258)
T ss_pred CcEEEEeCCCCCHHHHHHHHHhCCC
Confidence 776641 223 3667766654433
No 190
>cd00378 SHMT Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl group of N5, N10-methylene tetrahydrofolate to glycine resulting in the formation of serine and tetrahydrofolate. Both eukaryotic and prokaryotic SHMT enzymes form tight obligate homodimers; the mammalian enzyme forms a homotetramer comprising four pyridoxal phosphate-bound active sites.
Probab=26.87 E-value=1.4e+02 Score=25.39 Aligned_cols=46 Identities=15% Similarity=0.070 Sum_probs=33.1
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCh--hhhhhHHHHHHhCCCcEEEecCC
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPP--LRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~--~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
.+.+.+++...+.++|++.....+ ...++|..+|++++++++. +..
T Consensus 150 ~~~l~~~i~~~~~~~v~~~~~~~~~~~~~~~I~~l~~~~~~~li~-D~a 197 (402)
T cd00378 150 YDALEKMALEFKPKLIVAGASAYPRPIDFKRFREIADEVGAYLLV-DMA 197 (402)
T ss_pred HHHHHHHHHhCCCCEEEecCcccCCCcCHHHHHHHHHhcCCEEEE-Ecc
Confidence 456777777667888887554433 2457889999999999985 443
No 191
>PF07498 Rho_N: Rho termination factor, N-terminal domain; InterPro: IPR011112 The Rho termination factor disengages newly transcribed RNA from its DNA template at certain, specific transcripts. It is thought that two copies of Rho bind to RNA and that Rho functions as a hexamer of protomers []. This domain is found to the N terminus of the RNA binding domain (IPR011113 from INTERPRO).; GO: 0006353 transcription termination, DNA-dependent; PDB: 1A8V_B 1PVO_A 1PV4_D 3ICE_A 1XPU_C 1XPO_D 1XPR_F 2A8V_B 2HT1_B 1A63_A ....
Probab=26.64 E-value=30 Score=21.18 Aligned_cols=29 Identities=17% Similarity=-0.066 Sum_probs=20.8
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
+..++..+|+.+|||-+. ...|.||=.++
T Consensus 6 ~~~eL~~iAk~lgI~~~~-~~~K~eLI~~I 34 (43)
T PF07498_consen 6 TLSELREIAKELGIEGYS-KMRKQELIFAI 34 (43)
T ss_dssp -HHHHHHHHHCTT-TTGC-CS-HHHHHHHH
T ss_pred CHHHHHHHHHHcCCCCCC-cCCHHHHHHHH
Confidence 567889999999999874 77898885444
No 192
>PRK08574 cystathionine gamma-synthase; Provisional
Probab=26.60 E-value=1.3e+02 Score=26.17 Aligned_cols=46 Identities=11% Similarity=0.182 Sum_probs=32.6
Q ss_pred HHHHHHHHhcCCceEEEEeCCCChh----hhhhHHHHHHhCCCcEEEecCC
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPPL----RKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~~----~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
.+++.++|+..+.++|++-+=.+|. -.+.|..+|++++++++. +.+
T Consensus 126 ~~~l~~~i~~~~tklV~ie~p~NPtG~v~dl~~I~~la~~~gi~liv-D~t 175 (385)
T PRK08574 126 TEDIIEAIKEGRTKLVFIETMTNPTLKVIDVPEVAKAAKELGAILVV-DNT 175 (385)
T ss_pred HHHHHHhcCccCceEEEEECCCCCCCEecCHHHHHHHHHHcCCEEEE-ECC
Confidence 3567777765578999985444432 257889999999999985 444
No 193
>cd03339 TCP1_epsilon TCP-1 (CTT or eukaryotic type II) chaperonin family, epsilon subunit. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. In contrast to bacterial group I chaperonins (GroEL), each ring of the eukaryotic cytosolic chaperonin (CTT) consists of eight different, but homologous subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis. The best studied in vivo substrates of CTT are actin and tubulin.
Probab=26.56 E-value=1.9e+02 Score=26.32 Aligned_cols=48 Identities=10% Similarity=0.127 Sum_probs=33.5
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHH---HHhhhC
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVD---LGTACG 128 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeE---LG~a~G 128 (154)
.++.|.+-.+-+||.+.++++. ..+++..+||.++. ...+.+ |.+++|
T Consensus 279 ~v~~i~~~g~~lvi~~~~I~~~----al~~L~~~~I~av~-~v~~~~LerIa~~tG 329 (526)
T cd03339 279 MVEQVKDAGANLVICQWGFDDE----ANHLLLQNGLPAVR-WVGGVEIELIAIATG 329 (526)
T ss_pred HHHHHHHCCCCEEEeCCCCCHH----HHHHHHHCCCEEEE-eCCHHHHHHHHHHhC
Confidence 3555666668899999999885 45566788999886 555544 455555
No 194
>PLN02721 threonine aldolase
Probab=26.46 E-value=1.5e+02 Score=24.29 Aligned_cols=42 Identities=17% Similarity=0.195 Sum_probs=28.9
Q ss_pred HHHHHHHhc------CCceEEEEeCCC--------ChhhhhhHHHHHHhCCCcEEE
Q 047379 74 KTVLRSLRT------SKGKLIILSNNC--------PPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 74 ~~VlkaIk~------gkakLVIlA~Da--------s~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+.+.+.|.. .+.++|++..-. ++...+.|..+|+.+|++++.
T Consensus 121 ~~l~~~i~~~~~~~~~~~~~v~l~~~~~np~G~~~~~~~l~~l~~l~~~~g~~liv 176 (353)
T PLN02721 121 DAIEAAIRPKGDDHFPTTRLICLENTHANCGGRCLSVEYTDKVGELAKRHGLKLHI 176 (353)
T ss_pred HHHHHHHHhccCCCCCcceEEEEeccccccCCccccHHHHHHHHHHHHHcCCEEEE
Confidence 455566653 367888885421 122357899999999999985
No 195
>cd07402 MPP_GpdQ Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain. GpdQ (glycerophosphodiesterase Q, also known as Rv0805 in Mycobacterium tuberculosis) is a binuclear metallophosphoesterase from Enterobacter aerogenes that catalyzes the hydrolysis of mono-, di-, and triester substrates, including some organophosphate pesticides and products of the degradation of nerve agents. The GpdQ homolog, Rv0805, has 2',3'-cyclic nucleotide phosphodiesterase activity. GpdQ and Rv0805 belong 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-diacylglucosa
Probab=26.43 E-value=1.8e+02 Score=22.75 Aligned_cols=56 Identities=11% Similarity=0.158 Sum_probs=35.0
Q ss_pred HHHHHHHhcC--CceEEEEeCCCChhhh----hhHHHHHHhCCCcEEEecCCHH---HHHhhhCC
Q 047379 74 KTVLRSLRTS--KGKLIILSNNCPPLRK----SEIEYYAMLAKVGVHHYNGNNV---DLGTACGK 129 (154)
Q Consensus 74 ~~VlkaIk~g--kakLVIlA~Das~~~k----~ki~~~c~~~~Vpvi~~~~tke---ELG~a~Gk 129 (154)
+.+++.+++. ++.+||++.|...... +.+...-+..++|++...|+-+ ..+..++.
T Consensus 28 ~~~~~~i~~~~~~~d~vi~~GDl~~~~~~~~~~~~~~~l~~~~~p~~~v~GNHD~~~~~~~~~~~ 92 (240)
T cd07402 28 EAVLAHINALHPRPDLVLVTGDLTDDGSPESYERLRELLAALPIPVYLLPGNHDDRAAMRAVFPE 92 (240)
T ss_pred HHHHHHHHhcCCCCCEEEECccCCCCCCHHHHHHHHHHHhhcCCCEEEeCCCCCCHHHHHHhhcc
Confidence 4566666665 8999999999876422 3444444556899885455443 34455543
No 196
>PF01041 DegT_DnrJ_EryC1: DegT/DnrJ/EryC1/StrS aminotransferase family; InterPro: IPR000653 This entry represents a family that are probably all pyridoxal-phosphate-dependent aminotransferase enzymes with a variety of molecular functions. The family includes StsA P72454 from SWISSPROT, StsC P77952 from SWISSPROT and StsS []. The aminotransferase activity was demonstrated for purified StsC protein as the L-glutamine:scyllo-inosose aminotransferase 2.6.1.50 from EC, which catalyses the first amino transfer in the biosynthesis of the streptidine subunit of streptomycin [].; PDB: 2FNI_A 2FNU_A 2FN6_A 2PO3_A 3UWC_A 1O61_B 1O62_B 1O69_B 1B9I_A 1B9H_A ....
Probab=26.41 E-value=1e+02 Score=26.27 Aligned_cols=43 Identities=7% Similarity=0.073 Sum_probs=24.4
Q ss_pred HHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.+.+.+.|..+.-.+|++---..+.-.+.|..+|+++||++|+
T Consensus 103 ~~~~~~~i~~~t~ai~~~h~~G~~~d~~~i~~~~~~~~i~lIe 145 (363)
T PF01041_consen 103 PEALEKAITPKTKAILVVHLFGNPADMDAIRAIARKHGIPLIE 145 (363)
T ss_dssp HHHHHHHHHTTEEEEEEE-GGGB---HHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHhccCccEEEEecCCCCcccHHHHHHHHHHcCCcEEE
Confidence 4455666654443333333333444568889999999999996
No 197
>PRK02936 argD acetylornithine aminotransferase; Provisional
Probab=26.40 E-value=99 Score=26.11 Aligned_cols=44 Identities=9% Similarity=0.020 Sum_probs=31.0
Q ss_pred HHHHHHHhcCCceEEEEe--------CCCChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 74 KTVLRSLRTSKGKLIILS--------NNCPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA--------~Das~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
+.+.+.+ ..+.+.||+- ...++...+++..+|+++++++|. +.-
T Consensus 158 ~~l~~~~-~~~~~~ii~e~i~~~~G~~~~~~~~l~~l~~l~~~~~~~lI~-DEv 209 (377)
T PRK02936 158 KALKEVM-NEEVAAVMLEVVQGEGGVIPADPAFLQEVQTLCKKFGALLII-DEV 209 (377)
T ss_pred HHHHHhc-cCCeEEEEEecccCCCCCccCCHHHHHHHHHHHHHcCCEEEE-ecc
Confidence 3444444 3567777773 245667899999999999999995 443
No 198
>KOG2016 consensus NEDD8-activating complex, APP-BP1/UBA5 component [Posttranslational modification, protein turnover, chaperones]
Probab=26.12 E-value=56 Score=30.43 Aligned_cols=99 Identities=12% Similarity=0.035 Sum_probs=65.1
Q ss_pred cccchhhhhcchhHHHHHhhhhhhhhhhh--hhhHHHHHHHHHHHHHHh--CCceecHHHHH--HHHhcCCceEEEEeCC
Q 047379 20 LLGLVCYFAAAREVFFGATKQSKMVTSKK--TKKTHESINNRLALVMKS--GKYTLGYKTVL--RSLRTSKGKLIILSNN 93 (154)
Q Consensus 20 ~~grg~y~~~~~~~~~~a~~~~~~~~~~k--~~~~~~kil~lLglA~rA--Gklv~G~~~Vl--kaIk~gkakLVIlA~D 93 (154)
|-|-|.+|=...+|+.+.--=.+|..--| -+...+..+.+|+--... |..+.=.-..+ ....-..---|++|++
T Consensus 48 l~Gigs~tvvd~~~v~~~d~g~nF~~~~~~~GksrA~a~~e~LqeLN~~V~~~~vee~p~~Li~~~p~ff~qFtvViatn 127 (523)
T KOG2016|consen 48 LPGIGSFTVVDGSKVEQGDLGNNFFLDAKSIGKSRAEATLEFLQELNPSVSGSFVEESPDFLIDNDPSFFSQFTVVIATN 127 (523)
T ss_pred ccccccEEEEecceeeecchhhHHHHHHHhhchhHHHHHHHHHHHhChhhhcCccccChhhhhhcCchhhheeeeeeccc
Confidence 45788899999999998866667755544 334455566666654443 22222211111 1112223445899999
Q ss_pred CChhhhhhHHHHHHhCCCcEEEecCC
Q 047379 94 CPPLRKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 94 as~~~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
..+.+.-++.+.|...|||++. ..|
T Consensus 128 l~E~~~~kl~~~l~~~~vpll~-~rs 152 (523)
T KOG2016|consen 128 LNEQTLLKLAEILREANVPLLL-TRS 152 (523)
T ss_pred cchhhhhhhHHHHHhcCCceEE-Eee
Confidence 9999999999999999999994 544
No 199
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=26.11 E-value=1.7e+02 Score=25.02 Aligned_cols=38 Identities=5% Similarity=0.142 Sum_probs=29.3
Q ss_pred HHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEE
Q 047379 77 LRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVH 114 (154)
Q Consensus 77 lkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi 114 (154)
.+..++|--.+||+++-.++...+++.+.|+++++.++
T Consensus 81 ~e~~~~Gvk~avIis~Gf~e~~~~~l~~~a~~~giril 118 (286)
T TIGR01019 81 FEAIDAGIELIVCITEGIPVHDMLKVKRYMEESGTRLI 118 (286)
T ss_pred HHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHcCCEEE
Confidence 34445666677888888888766889999999998887
No 200
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=26.00 E-value=82 Score=28.21 Aligned_cols=27 Identities=19% Similarity=-0.006 Sum_probs=21.7
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 128 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~G 128 (154)
..-+|+..|+++|||+++ .-.|.+++=
T Consensus 297 ~AlkIreiA~e~~Ipi~e----nppLARaLY 323 (363)
T COG1377 297 VALKIREIAKEHGIPIIE----NPPLARALY 323 (363)
T ss_pred HHHHHHHHHHHcCCceec----ChHHHHHHH
Confidence 568899999999999996 356777663
No 201
>TIGR00216 ispH_lytB (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming). Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response.
Probab=25.93 E-value=1.5e+02 Score=25.45 Aligned_cols=53 Identities=11% Similarity=-0.033 Sum_probs=34.6
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
++-++|+-.+-...--.++.+.|+.++.|.+ ++.+.+||-...=+... .|||+
T Consensus 208 ~vD~miVVGg~nSsNT~rL~ei~~~~~~~t~-~Ie~~~el~~~~l~~~~--~VGiT 260 (280)
T TIGR00216 208 EVDLMIVIGGKNSSNTTRLYEIAEEHGPPSY-LIETAEELPEEWLKGVK--VVGIT 260 (280)
T ss_pred hCCEEEEECCCCCchHHHHHHHHHHhCCCEE-EECChHHCCHHHhCCCC--EEEEE
Confidence 3555555555544444567789999999999 59999999754322222 37776
No 202
>TIGR03022 WbaP_sugtrans Undecaprenyl-phosphate galactose phosphotransferase, WbaP. This model includes the enterobacterial enzymes, where the function is presumed to be identical to the S. typhimurium enzyme as well as a somewhat broader group which are likely to catalyze the same or highly similar reactions based on a phylogenetic tree-building analysis of the broader sugar transferase family. Most of these genes are found within large operons dedicated to the production of complex exopolysaccharides such as the enterobacterial O-antigen. The most likely heterogeneity would be in the precise nature of the sugar molecule transferred.
Probab=25.92 E-value=1.4e+02 Score=26.48 Aligned_cols=54 Identities=11% Similarity=0.010 Sum_probs=40.6
Q ss_pred eecHHHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCC-cEEEecCCHHHHH
Q 047379 70 TLGYKTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKV-GVHHYNGNNVDLG 124 (154)
Q Consensus 70 v~G~~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~V-pvi~~~~tkeELG 124 (154)
+.|.++..+.+++.++.-||+|-+..+ ...+++.+.|+..++ ++.. .++-.|+.
T Consensus 174 Vlg~~~l~~~i~~~~id~ViIAip~~~~~~~~~ll~~l~~~~v~~V~~-vP~~~e~~ 229 (456)
T TIGR03022 174 VVGADDALRLYARTRYAYVIVAMPGTQAEDMARLVRKLGALHFRNVLI-VPSLFGLP 229 (456)
T ss_pred ccChhHHHHHHHhCCCCEEEEecCCccHHHHHHHHHHHHhCCCeEEEE-eCcccccc
Confidence 345566777888888988888876544 567888889999888 8774 77777765
No 203
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=25.87 E-value=77 Score=27.80 Aligned_cols=32 Identities=6% Similarity=0.080 Sum_probs=23.5
Q ss_pred ceEEEEeCCCC---------------hhh---hhhHHHHHHhCCCcEEEe
Q 047379 85 GKLIILSNNCP---------------PLR---KSEIEYYAMLAKVGVHHY 116 (154)
Q Consensus 85 akLVIlA~Das---------------~~~---k~ki~~~c~~~~Vpvi~~ 116 (154)
-.+.|+|.|.. +.. ..++..+|...++|++.+
T Consensus 108 rpV~VIa~d~g~~~~e~~~~~~G~~~peg~rKa~R~m~lA~~f~lPIVtl 157 (319)
T PRK05724 108 RPVMVIGHQKGRDTKEKIRRNFGMPRPEGYRKALRLMKMAEKFGLPIITF 157 (319)
T ss_pred EEEEEEEecCCccccccccccCCCCCHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 46788898863 211 256689999999999975
No 204
>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=25.79 E-value=1.8e+02 Score=23.69 Aligned_cols=40 Identities=10% Similarity=-0.030 Sum_probs=21.6
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+.++.+...++.-+|+...-+ +........+...+||++.
T Consensus 45 ~~i~~l~~~~vDgIIi~~~~~-~~~~~~l~~~~~~~iPvV~ 84 (302)
T TIGR02634 45 SQIENLIARGVDVLVIIPQNG-QVLSNAVQEAKDEGIKVVA 84 (302)
T ss_pred HHHHHHHHcCCCEEEEeCCCh-hHHHHHHHHHHHCCCeEEE
Confidence 455556666666666654222 2223344455677888874
No 205
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=25.53 E-value=1.9e+02 Score=23.55 Aligned_cols=60 Identities=12% Similarity=0.062 Sum_probs=45.0
Q ss_pred HhCCceec------HHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 047379 65 KSGKYTLG------YKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 130 (154)
Q Consensus 65 rAGklv~G------~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~ 130 (154)
+-..+.+| .+++.+++..| +.+++ ||..-..+..+|++++||++-=..|..|+=.+....
T Consensus 52 ~~~~~~vGAGTVl~~e~a~~ai~aG-A~Fiv-----SP~~~~~vi~~a~~~~i~~iPG~~TptEi~~A~~~G 117 (201)
T PRK06015 52 EVEEAIVGAGTILNAKQFEDAAKAG-SRFIV-----SPGTTQELLAAANDSDVPLLPGAATPSEVMALREEG 117 (201)
T ss_pred HCCCCEEeeEeCcCHHHHHHHHHcC-CCEEE-----CCCCCHHHHHHHHHcCCCEeCCCCCHHHHHHHHHCC
Confidence 33557666 46777888877 67765 677788899999999999985344888988887544
No 206
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=25.43 E-value=1.5e+02 Score=24.59 Aligned_cols=49 Identities=10% Similarity=0.051 Sum_probs=38.0
Q ss_pred HHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
.+++.+++..| +.|+| ||++-.++...|..+++|++-=+.|..|+=.++
T Consensus 75 ~~q~~~a~~aG-a~fiV-----sP~~~~ev~~~a~~~~ip~~PG~~TptEi~~Al 123 (211)
T COG0800 75 PEQARQAIAAG-AQFIV-----SPGLNPEVAKAANRYGIPYIPGVATPTEIMAAL 123 (211)
T ss_pred HHHHHHHHHcC-CCEEE-----CCCCCHHHHHHHHhCCCcccCCCCCHHHHHHHH
Confidence 36677888877 67765 888889999999999999984334777776665
No 207
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=25.38 E-value=77 Score=20.43 Aligned_cols=35 Identities=6% Similarity=-0.213 Sum_probs=23.6
Q ss_pred hhhHHHHHHhCCCc------EEEecCCHHHHHhhhCCcccE
Q 047379 99 KSEIEYYAMLAKVG------VHHYNGNNVDLGTACGKYFRV 133 (154)
Q Consensus 99 k~ki~~~c~~~~Vp------vi~~~~tkeELG~a~Gk~~~v 133 (154)
..-+.++|+..+.+ .+.+..|.++|+..+|.++..
T Consensus 4 a~~Ll~l~~~~~~~~~~~~~~~~~~lt~~~iA~~~g~sr~t 44 (76)
T PF13545_consen 4 ARFLLELAERFGRRQDGDGIRIPLPLTQEEIADMLGVSRET 44 (76)
T ss_dssp HHHHHHHHHHHEEEEETTEEEEEEESSHHHHHHHHTSCHHH
T ss_pred HHHHHHHHHHHCCCCCCCCceEEecCCHHHHHHHHCCCHHH
Confidence 34455666665543 222578999999999988654
No 208
>PF02268 TFIIA_gamma_N: Transcription initiation factor IIA, gamma subunit, helical domain; InterPro: IPR015872 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the alpha-helical domain found at the N-terminal of the gamma subunit of transcription factor TFIIA.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=25.31 E-value=29 Score=22.36 Aligned_cols=18 Identities=39% Similarity=0.650 Sum_probs=14.5
Q ss_pred hhhHHHHhhcCCCCCccc
Q 047379 5 KETLDEFKSAGAASPLLG 22 (154)
Q Consensus 5 ~~~~~~~~~~~~~~~~~g 22 (154)
-+||||+-+.|..+|-++
T Consensus 16 ~dtLDeli~~~~I~p~La 33 (49)
T PF02268_consen 16 TDTLDELIQEGKITPQLA 33 (49)
T ss_dssp HHHHHHHHHTTSS-HHHH
T ss_pred HHHHHHHHHcCCCCHHHH
Confidence 479999999999998764
No 209
>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=25.31 E-value=1.9e+02 Score=21.92 Aligned_cols=38 Identities=16% Similarity=-0.081 Sum_probs=21.8
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+..+.+.++++..+|+....+.... ...+...+||++.
T Consensus 46 ~~~~~~~~~~~d~iii~~~~~~~~~---~~~~~~~~ipvv~ 83 (264)
T cd06267 46 EALELLLSRRVDGIILAPSRLDDEL---LEELAALGIPVVL 83 (264)
T ss_pred HHHHHHHHcCcCEEEEecCCcchHH---HHHHHHcCCCEEE
Confidence 4455555556666665544444333 3445778888885
No 210
>PF15379 DUF4606: Domain of unknown function (DUF4606)
Probab=25.28 E-value=93 Score=23.17 Aligned_cols=38 Identities=16% Similarity=0.100 Sum_probs=27.5
Q ss_pred chhHH--HHHhhhhhhhhhhh--------hhhHH-----HHHHHHHHHHHHhC
Q 047379 30 AREVF--FGATKQSKMVTSKK--------TKKTH-----ESINNRLALVMKSG 67 (154)
Q Consensus 30 ~~~~~--~~a~~~~~~~~~~k--------~~~~~-----~kil~lLglA~rAG 67 (154)
+++|. ++.+.+..|+|.+| +.+++ .+.+.++|-+.+++
T Consensus 34 Cp~C~kkraeLa~~~Flr~KktlLE~~ll~EKieehl~tkD~LtlIgEi~~~l 86 (104)
T PF15379_consen 34 CPSCNKKRAELAQSAFLRRKKTLLESLLLQEKIEEHLYTKDFLTLIGEIHRSL 86 (104)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHcC
Confidence 34565 46888999999999 33343 45678899888876
No 211
>PLN02607 1-aminocyclopropane-1-carboxylate synthase
Probab=25.26 E-value=1.5e+02 Score=26.44 Aligned_cols=33 Identities=6% Similarity=0.096 Sum_probs=25.1
Q ss_pred CCceEEEEeCC-------CChhhhhhHHHHHHhCCCcEEE
Q 047379 83 SKGKLIILSNN-------CPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 83 gkakLVIlA~D-------as~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.++++|++.+= .++...+.+..+|+.+++.+|.
T Consensus 199 ~~vk~lll~nP~NPtG~~~s~e~l~~l~~~~~~~~i~lI~ 238 (447)
T PLN02607 199 IRVRGVLITNPSNPLGATVQRSVLEDILDFVVRKNIHLVS 238 (447)
T ss_pred CCeeEEEEeCCCCCcCcccCHHHHHHHHHHHHHCCCEEEE
Confidence 46899999633 3344568889999999999885
No 212
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=25.23 E-value=2.8e+02 Score=24.73 Aligned_cols=72 Identities=15% Similarity=0.121 Sum_probs=48.3
Q ss_pred ecHHHHHHHHhc--------CCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCc
Q 047379 71 LGYKTVLRSLRT--------SKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDP 141 (154)
Q Consensus 71 ~G~~~VlkaIk~--------gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~ 141 (154)
+|-..+...|.. ...+..+++.|+-. .....+..+|+..+||+.. ..+..+|..++..-...-+|-|=.+
T Consensus 185 vGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~-~~~~~~l~~~L~~~~~~DlVLIDTa 263 (388)
T PRK12723 185 VGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKA-IESFKDLKEEITQSKDFDLVLVDTI 263 (388)
T ss_pred CCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEe-eCcHHHHHHHHHHhCCCCEEEEcCC
Confidence 455555554431 23578889999854 4567799999999999985 7888889887765444433444334
Q ss_pred Cc
Q 047379 142 GD 143 (154)
Q Consensus 142 Gf 143 (154)
|.
T Consensus 264 Gr 265 (388)
T PRK12723 264 GK 265 (388)
T ss_pred CC
Confidence 43
No 213
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=25.23 E-value=94 Score=27.26 Aligned_cols=26 Identities=19% Similarity=0.229 Sum_probs=20.9
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
...+|...|+++|||+++ .-.|.+++
T Consensus 289 ~A~~Ir~iA~e~~VPive----n~pLAR~L 314 (342)
T TIGR01404 289 QALAVRAYAEEAGIPVVR----DIPLARQL 314 (342)
T ss_pred HHHHHHHHHHHcCCCEee----CHHHHHHH
Confidence 468899999999999997 35566665
No 214
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=25.18 E-value=1.8e+02 Score=22.40 Aligned_cols=39 Identities=13% Similarity=-0.028 Sum_probs=22.2
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+..+.+...++.-+|+....+.. .++...+...+||++.
T Consensus 46 ~~~~~l~~~~vdgiii~~~~~~~--~~~~~~~~~~~ipvV~ 84 (266)
T cd06282 46 DAVETLLRQRVDGLILTVADAAT--SPALDLLDAERVPYVL 84 (266)
T ss_pred HHHHHHHhcCCCEEEEecCCCCc--hHHHHHHhhCCCCEEE
Confidence 44555556677777765432221 1244556777888774
No 215
>cd07396 MPP_Nbla03831 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain. Nbla03831 (also known as LOC56985) is an uncharacterized Homo sapiens protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=25.17 E-value=1.8e+02 Score=23.72 Aligned_cols=48 Identities=13% Similarity=0.048 Sum_probs=32.4
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhh----h---hHHHHHHhCCCcEEEecCCHH
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRK----S---EIEYYAMLAKVGVHHYNGNNV 121 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k----~---ki~~~c~~~~Vpvi~~~~tke 121 (154)
+++++.|++.++.+||++.|...... + .+.......++|++...|+-+
T Consensus 30 ~~~i~~i~~~~~d~vv~~GDlv~~~~~~~~~~~~~~~~~l~~l~~p~~~v~GNHD 84 (267)
T cd07396 30 EEAVEEWNRESLDFVVQLGDIIDGDNARAEEALDAVLAILDRLKGPVHHVLGNHD 84 (267)
T ss_pred HHHHHHHHcCCCCEEEECCCeecCCCchHHHHHHHHHHHHHhcCCCEEEecCccc
Confidence 34567777777999999999976443 2 334455567899986445444
No 216
>PF07796 DUF1638: Protein of unknown function (DUF1638); InterPro: IPR012437 This entry contains sequences covering an approximately 270 amino acid stretch of a group of hypothetical proteins and are confined to Bacteria and Archaea.
Probab=25.17 E-value=3.1e+02 Score=20.92 Aligned_cols=50 Identities=8% Similarity=0.094 Sum_probs=39.2
Q ss_pred HHHhcCCceEEEEeCCCChh--hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 78 RSLRTSKGKLIILSNNCPPL--RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 78 kaIk~gkakLVIlA~Das~~--~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
+.+-.+--++++|.+.+.+. ..+.+..+|+..++|+....++-.-|-+++
T Consensus 112 ~~~~~~y~~~~~Idtg~~~~~~~~~~~~~~a~~~~l~~~~~~g~l~~l~~ll 163 (166)
T PF07796_consen 112 RMMFGHYKRVVLIDTGVYDEEDFEEKVREFAEFLGLPIEEIPGDLDLLEKLL 163 (166)
T ss_pred HHHHhCCCeEEEEecccccchHHHHHHHHHHHHhCCCEEEEeCCHHHHHHHH
Confidence 45555668899999877764 489999999999999998777777666554
No 217
>PRK07561 DNA topoisomerase I subunit omega; Validated
Probab=25.08 E-value=60 Score=31.84 Aligned_cols=77 Identities=9% Similarity=0.035 Sum_probs=50.7
Q ss_pred cHHHHHHHHhc--CCceEEEEeCCCChh---hhhhHHHHHHhCCCcEEEec---CCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 72 GYKTVLRSLRT--SKGKLIILSNNCPPL---RKSEIEYYAMLAKVGVHHYN---GNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 72 G~~~VlkaIk~--gkakLVIlA~Das~~---~k~ki~~~c~~~~Vpvi~~~---~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
+.+.+++.|++ .++..||+|+|.+.. +.-+|..++...+.|+...+ .|+.++=+|+..+.... ....+.+.
T Consensus 72 ~k~~~~~~lk~~~k~ad~iilAtD~DREGE~I~~~i~~~l~~~~~~v~Ri~f~~iT~~aI~~A~~n~~~~~-~~l~~A~~ 150 (859)
T PRK07561 72 GKEKVVSELKKAAKDADELYLATDPDREGEAIAWHLLEVLGGDDVPVKRVVFNEITKNAIQEAFENPRELD-INLVNAQQ 150 (859)
T ss_pred cHHHHHHHHHHHHhcCCEEEECCCCCccchHHHHHHHHHhCCCCCCeEEEEEccCCHHHHHHHHhCcccCC-HHHHHHHH
Confidence 44444444432 358899999999984 45677777764455664433 38999999998776653 55556666
Q ss_pred hHHHhc
Q 047379 144 SDIIKS 149 (154)
Q Consensus 144 A~~i~~ 149 (154)
++.+.+
T Consensus 151 aRr~lD 156 (859)
T PRK07561 151 ARRFLD 156 (859)
T ss_pred HHHHHH
Confidence 666654
No 218
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=25.03 E-value=2.6e+02 Score=25.26 Aligned_cols=48 Identities=8% Similarity=0.014 Sum_probs=33.9
Q ss_pred HHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 047379 77 LRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 125 (154)
Q Consensus 77 lkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~ 125 (154)
...|...++-++|+-.+-...--.++..+|+..+.|.+ ++.+.+||-.
T Consensus 281 ~~~La~~~vD~miVVGG~nSSNT~rL~eia~~~g~~ty-~Ie~~~eL~~ 328 (387)
T PRK13371 281 MFSLVEEPLDLMVVIGGYNSSNTTHLQEIAIERGIPSY-HIDSPERILS 328 (387)
T ss_pred HHHHhhcCCCEEEEECCCCCccHHHHHHHHHhcCCCEE-EECCHHHcCC
Confidence 44454344666666665555455677789999999999 5999999965
No 219
>TIGR02356 adenyl_thiF thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily. Members of the HesA/MoeB/ThiF family of proteins (pfam00899) include a number of members encoded in the midst of thiamine biosynthetic operons. This mix of known and putative ThiF proteins shows a deep split in phylogenetic trees, with the Escherichia. coli ThiF and the E. coli MoeB proteins seemingly more closely related than E. coli ThiF and Campylobacter (for example) ThiF. This model represents the more widely distributed clade of ThiF proteins such found in E. coli.
Probab=24.99 E-value=1e+02 Score=24.49 Aligned_cols=33 Identities=6% Similarity=-0.056 Sum_probs=27.2
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecC
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG 118 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~ 118 (154)
...+||.+.|. ...+..+.++|..+++|++. .+
T Consensus 111 ~~D~Vi~~~d~-~~~r~~l~~~~~~~~ip~i~-~~ 143 (202)
T TIGR02356 111 NVDLVLDCTDN-FATRYLINDACVALGTPLIS-AA 143 (202)
T ss_pred CCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE-EE
Confidence 47788888876 55788899999999999994 44
No 220
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=24.96 E-value=1.7e+02 Score=17.90 Aligned_cols=41 Identities=7% Similarity=-0.100 Sum_probs=26.7
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.+.+.|++..+.+-++==|.++..++.+..+.....+|.+.
T Consensus 14 ~~~~~L~~~~i~y~~~dv~~~~~~~~~l~~~~g~~~~P~v~ 54 (60)
T PF00462_consen 14 KAKEFLDEKGIPYEEVDVDEDEEAREELKELSGVRTVPQVF 54 (60)
T ss_dssp HHHHHHHHTTBEEEEEEGGGSHHHHHHHHHHHSSSSSSEEE
T ss_pred HHHHHHHHcCCeeeEcccccchhHHHHHHHHcCCCccCEEE
Confidence 34555666666766666666666667777666667788873
No 221
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=24.89 E-value=2.3e+02 Score=25.42 Aligned_cols=61 Identities=15% Similarity=0.171 Sum_probs=42.0
Q ss_pred cCCceEEEEeCCCChh-hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 82 TSKGKLIILSNNCPPL-RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 82 ~gkakLVIlA~Das~~-~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
++..+..++..|.-.. ....+..+++..++|+.. ..+..+|..++..-...-+|-|=.+|.
T Consensus 249 ~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~-~~~~~~l~~~l~~~~~~DlVlIDt~G~ 310 (424)
T PRK05703 249 YGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEV-VYDPKELAKALEQLRDCDVILIDTAGR 310 (424)
T ss_pred cCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEc-cCCHHhHHHHHHHhCCCCEEEEeCCCC
Confidence 4557788888887542 357888999999999985 788888888876433332344444554
No 222
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=24.78 E-value=3.4e+02 Score=23.21 Aligned_cols=100 Identities=16% Similarity=0.183 Sum_probs=67.7
Q ss_pred hhhhhhhhhhhhHHHHHHHHHHHHHHhC-C------------ceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHH
Q 047379 40 QSKMVTSKKTKKTHESINNRLALVMKSG-K------------YTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYA 106 (154)
Q Consensus 40 ~~~~~~~~k~~~~~~kil~lLglA~rAG-k------------lv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c 106 (154)
|+.=.|+.+.....++++.++...+..+ + ...|.+.-++.+++--+.=||+ -|.+++....+...|
T Consensus 65 q~A~~rAL~~g~t~~~~lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGliv-pDLP~ee~~~~~~~~ 143 (265)
T COG0159 65 QAAHLRALAAGVTLEDTLELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLV-PDLPPEESDELLKAA 143 (265)
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEe-CCCChHHHHHHHHHH
Confidence 3334455555557789999999999664 3 4568888677776655665555 499999999999999
Q ss_pred HhCCCcEEEec--C-CHHHHHhhh----CCcccEEEEEEeC
Q 047379 107 MLAKVGVHHYN--G-NNVDLGTAC----GKYFRVSCLSIID 140 (154)
Q Consensus 107 ~~~~Vpvi~~~--~-tkeELG~a~----Gk~~~vsvvaI~D 140 (154)
+.++|..|.++ . +.+.|-+.. |--+-++..++|.
T Consensus 144 ~~~gi~~I~lvaPtt~~~rl~~i~~~a~GFiY~vs~~GvTG 184 (265)
T COG0159 144 EKHGIDPIFLVAPTTPDERLKKIAEAASGFIYYVSRMGVTG 184 (265)
T ss_pred HHcCCcEEEEeCCCCCHHHHHHHHHhCCCcEEEEecccccC
Confidence 99996666422 2 345666555 4344455556664
No 223
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=24.75 E-value=1.8e+02 Score=18.60 Aligned_cols=10 Identities=0% Similarity=-0.320 Sum_probs=4.7
Q ss_pred HHhCCCcEEE
Q 047379 106 AMLAKVGVHH 115 (154)
Q Consensus 106 c~~~~Vpvi~ 115 (154)
.+.++||+..
T Consensus 21 L~~~gi~~~~ 30 (73)
T cd03027 21 LREKGLPYVE 30 (73)
T ss_pred HHHCCCceEE
Confidence 3445555543
No 224
>TIGR00513 accA acetyl-CoA carboxylase, carboxyl transferase, alpha subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=24.61 E-value=84 Score=27.52 Aligned_cols=32 Identities=9% Similarity=0.167 Sum_probs=23.8
Q ss_pred ceEEEEeCCCC---------------hh---hhhhHHHHHHhCCCcEEEe
Q 047379 85 GKLIILSNNCP---------------PL---RKSEIEYYAMLAKVGVHHY 116 (154)
Q Consensus 85 akLVIlA~Das---------------~~---~k~ki~~~c~~~~Vpvi~~ 116 (154)
-.+.|+|.|.. +. -..++..+|...++|++.+
T Consensus 108 rpV~VIa~d~g~~~~e~~~~~~G~~~p~g~rKa~R~m~lA~~f~iPvVtl 157 (316)
T TIGR00513 108 RPVVVIGHQKGRDTKEKLRRNFGMPAPEGYRKALRLMKMAERFKMPIITF 157 (316)
T ss_pred EEEEEEEecCCccccccccccCCCCCHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 46788999964 21 1256689999999999974
No 225
>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=24.58 E-value=1.7e+02 Score=26.18 Aligned_cols=58 Identities=14% Similarity=0.072 Sum_probs=39.9
Q ss_pred HHHHHHHHhCCceecH---------HHHHHHHhcCCceEEEEeCCC--------ChhhhhhHHHHHHhCCCcEEE
Q 047379 58 NRLALVMKSGKYTLGY---------KTVLRSLRTSKGKLIILSNNC--------PPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 58 ~lLglA~rAGklv~G~---------~~VlkaIk~gkakLVIlA~Da--------s~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.++......|--+.+. +...+.+++.++|++++-.+. |...++++..+|+++++++|+
T Consensus 191 ~~~~~~~~~g~~~~~vp~d~~G~~~e~le~~~~~~~~k~~y~~P~~qNPtG~tms~~rR~~Ll~lA~~~~~~IIE 265 (459)
T COG1167 191 GALQALEALGARVIPVPVDEDGIDPEALEEALAQWKPKAVYVTPTFQNPTGVTMSLERRKALLALAEKYDVLIIE 265 (459)
T ss_pred HHHHHHHHcCCcEEecCCCCCCCCHHHHHHHHhhcCCcEEEECCCCCCCCCCccCHHHHHHHHHHHHHcCCeEEe
Confidence 3444555555444443 445666677788888887664 445578899999999999997
No 226
>PRK06939 2-amino-3-ketobutyrate coenzyme A ligase; Provisional
Probab=24.53 E-value=1.7e+02 Score=24.45 Aligned_cols=42 Identities=19% Similarity=0.015 Sum_probs=29.3
Q ss_pred HHHHHHHhc---C--CceEEEEeCCCCh----hhhhhHHHHHHhCCCcEEE
Q 047379 74 KTVLRSLRT---S--KGKLIILSNNCPP----LRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 74 ~~VlkaIk~---g--kakLVIlA~Das~----~~k~ki~~~c~~~~Vpvi~ 115 (154)
+...+.++. . +.++|+...-.++ ...+.|..+|++++++++.
T Consensus 159 ~~l~~~i~~~~~~~~~~~~v~~~~v~~~~G~~~~~~~l~~la~~~~~~li~ 209 (397)
T PRK06939 159 ADLEAQLKEAKEAGARHKLIATDGVFSMDGDIAPLPEICDLADKYDALVMV 209 (397)
T ss_pred HHHHHHHHhhhccCCCCeEEEEecCcCCCCCcCCHHHHHHHHHHhCCEEEE
Confidence 344455543 2 6777777654555 4578999999999999985
No 227
>PLN02645 phosphoglycolate phosphatase
Probab=24.27 E-value=1.3e+02 Score=25.34 Aligned_cols=51 Identities=22% Similarity=0.254 Sum_probs=34.6
Q ss_pred HHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCc
Q 047379 61 ALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVG 112 (154)
Q Consensus 61 glA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vp 112 (154)
|.-.+.+.+.-|..+.++.+++...+++|++++.+.....-+..+ +..+++
T Consensus 37 Gtl~~~~~~~~ga~e~l~~lr~~g~~~~~~TN~~~~~~~~~~~~l-~~lGi~ 87 (311)
T PLN02645 37 GVIWKGDKLIEGVPETLDMLRSMGKKLVFVTNNSTKSRAQYGKKF-ESLGLN 87 (311)
T ss_pred CCeEeCCccCcCHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHHHH-HHCCCC
Confidence 444555778899999999999888888888888755444333333 334443
No 228
>TIGR01452 PGP_euk phosphoglycolate/pyridoxal phosphate phosphatase family. This model is closely related to a family of bacterial sequences including the E. coli NagD and B. subtilus AraL genes which are characterized by the ability to hydrolyze para-nitrophenylphosphate (pNPPases or NPPases). The chlamydomonas PGPase does not catalyze this reaction and so presumably these two groups have different functions and substrate specificities. Many of the genes in this alignment have been annotated as pNPPases due to this association.
Probab=24.22 E-value=1.3e+02 Score=24.65 Aligned_cols=35 Identities=17% Similarity=0.241 Sum_probs=26.9
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEeCCCChhhhh
Q 047379 66 SGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKS 100 (154)
Q Consensus 66 AGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ 100 (154)
.++..-|..++++.+++....++|++++.+.....
T Consensus 16 ~~~~~~ga~e~l~~L~~~g~~~~~~Tnns~~~~~~ 50 (279)
T TIGR01452 16 GERVVPGAPELLDRLARAGKAALFVTNNSTKSRAE 50 (279)
T ss_pred CCeeCcCHHHHHHHHHHCCCeEEEEeCCCCCCHHH
Confidence 45667789999999998888999998886553333
No 229
>PRK07220 DNA topoisomerase I; Validated
Probab=24.21 E-value=77 Score=30.59 Aligned_cols=78 Identities=10% Similarity=0.124 Sum_probs=51.3
Q ss_pred ecHHHHHHHHhc--CCceEEEEeCCCChh---hhhhHHHHHHhC--CCcEEEe---cCCHHHHHhhhCCcccEEEEEEeC
Q 047379 71 LGYKTVLRSLRT--SKGKLIILSNNCPPL---RKSEIEYYAMLA--KVGVHHY---NGNNVDLGTACGKYFRVSCLSIID 140 (154)
Q Consensus 71 ~G~~~VlkaIk~--gkakLVIlA~Das~~---~k~ki~~~c~~~--~Vpvi~~---~~tkeELG~a~Gk~~~vsvvaI~D 140 (154)
.|...+.+.|++ .++.-||+|+|.+.. +..++.+++... +.|+... ..|++++=+++....... ....+
T Consensus 82 ~~~~~~~~~lk~l~k~ad~viiAtD~DREGE~I~~~i~~~l~~~~~~~~~~R~~fs~iT~~~I~~A~~n~~~~d-~~l~~ 160 (740)
T PRK07220 82 PTQKKIVTALKKLGKEADRVTIATDYDREGELIGVEALNIIKKVNPDIKFDRVRYSAITKKEIERAFSNPVEVD-FNLAD 160 (740)
T ss_pred CCHHHHHHHHHHHHhcCCEEEECCCCCccHHHHHHHHHHHHHhcCCCCceEEEEEccCCHHHHHHHHhCCCCCC-hhHHH
Confidence 445556555543 468899999999974 345566666653 3565442 348999999998776653 55556
Q ss_pred cCchHHHhc
Q 047379 141 PGDSDIIKS 149 (154)
Q Consensus 141 ~GfA~~i~~ 149 (154)
.+.++.+.+
T Consensus 161 A~~aR~~~D 169 (740)
T PRK07220 161 AGHSRQVID 169 (740)
T ss_pred HHHHHHHHH
Confidence 666666655
No 230
>PRK13238 tnaA tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional
Probab=24.14 E-value=1.6e+02 Score=26.45 Aligned_cols=44 Identities=7% Similarity=-0.013 Sum_probs=30.4
Q ss_pred HHHHHHHhc---CCceEEEEeCCC--------ChhhhhhHHHHHHhCCCcEEEecC
Q 047379 74 KTVLRSLRT---SKGKLIILSNNC--------PPLRKSEIEYYAMLAKVGVHHYNG 118 (154)
Q Consensus 74 ~~VlkaIk~---gkakLVIlA~Da--------s~~~k~ki~~~c~~~~Vpvi~~~~ 118 (154)
+.+.+.|.. .+.++|++..=. |....+.|..+|+++|++++. +.
T Consensus 164 e~Le~~i~~~~~~~tk~Ivl~~p~NptGG~v~s~~~l~~I~~ia~~~gi~li~-Da 218 (460)
T PRK13238 164 EKLEALIEEVGAENVPFIVMTITNNSAGGQPVSMANLRAVYEIAKKYGIPVVI-DA 218 (460)
T ss_pred HHHHHHHhhcCCCceeEEEEecCCCCCCCcCCCHHHHHHHHHHHHHcCCEEEE-EC
Confidence 455566653 368888886322 233457899999999999995 54
No 231
>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=24.05 E-value=2.2e+02 Score=22.34 Aligned_cols=39 Identities=15% Similarity=0.071 Sum_probs=17.5
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.++.+...++.-+|+..- ++.........+...+||++.
T Consensus 49 ~i~~l~~~~vdgiii~~~-~~~~~~~~l~~~~~~~ipvV~ 87 (271)
T cd06312 49 LIEAAIAAKPDGIVVTIP-DPDALDPAIKRAVAAGIPVIS 87 (271)
T ss_pred HHHHHHHhCCCEEEEeCC-ChHHhHHHHHHHHHCCCeEEE
Confidence 334444445555555442 222112233334556677764
No 232
>TIGR01369 CPSaseII_lrg carbamoyl-phosphate synthase, large subunit. In several thermophilic species (Methanobacterium thermoautotrophicum, Methanococcus jannaschii, Aquifex aeolicus), the large subunit appears split, at different points, into two separate genes.
Probab=24.05 E-value=1e+02 Score=30.86 Aligned_cols=44 Identities=16% Similarity=0.101 Sum_probs=34.1
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCChhh---hhhHHHHHHhCCCcEEE
Q 047379 72 GYKTVLRSLRTSKGKLIILSNNCPPLR---KSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 72 G~~~VlkaIk~gkakLVIlA~Das~~~---k~ki~~~c~~~~Vpvi~ 115 (154)
|...+++.|++|++.|||=..+-+... --.++..|-.++||+++
T Consensus 992 ~~~~~~~~i~~~~i~lvin~~~~~~~~~~~g~~iRr~Ai~~~ip~~t 1038 (1050)
T TIGR01369 992 GRPNILDLIKNGEIELVINTTSKGAGTATDGYKIRREALDYGVPLIT 1038 (1050)
T ss_pred CCccHHHHHHcCCeEEEEECCCCCcccccccHHHHHHHHHcCCCEEe
Confidence 445688999999999999875433322 35789999999999986
No 233
>COG4639 Predicted kinase [General function prediction only]
Probab=24.05 E-value=2.2e+02 Score=22.93 Aligned_cols=51 Identities=16% Similarity=0.006 Sum_probs=35.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE--ecCCHHHHHh
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH--YNGNNVDLGT 125 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~--~~~tkeELG~ 125 (154)
.+..+.+++|+ ..||=|++..+..++++.++|..|+...+. |+..-++++.
T Consensus 60 ~~l~qrl~~Gk-~tiidAtn~rr~~r~~l~~La~~y~~~~~~ivfdtp~~~c~a 112 (168)
T COG4639 60 KQLEQRLRRGK-FTIIDATNLRREDRRKLIDLAKAYGYKIYAIVFDTPLELCLA 112 (168)
T ss_pred HHHHHHHHcCC-eEEEEcccCCHHHHHHHHHHHHHhCCeEEEEEEeCCHHHHHH
Confidence 34455666664 457889999999999999999999854432 3334444443
No 234
>KOG1470 consensus Phosphatidylinositol transfer protein PDR16 and related proteins [Lipid transport and metabolism]
Probab=24.05 E-value=2.1e+02 Score=25.23 Aligned_cols=65 Identities=18% Similarity=0.241 Sum_probs=50.2
Q ss_pred CCCCCcccchhhhhcchhHHHHHhhhhhhhhhhh--hhhHHHHHHHHHHHHHHhCCce-ecHHHHHHHHhcCCce
Q 047379 15 GAASPLLGLVCYFAAAREVFFGATKQSKMVTSKK--TKKTHESINNRLALVMKSGKYT-LGYKTVLRSLRTSKGK 86 (154)
Q Consensus 15 ~~~~~~~grg~y~~~~~~~~~~a~~~~~~~~~~k--~~~~~~kil~lLglA~rAGklv-~G~~~VlkaIk~gkak 86 (154)
-+-.||.++-+-.| +++||. .|.|+.+ .++....+.+.|.--+..|.-. ...+++...+..||+-
T Consensus 34 ~~~~pl~~~~~~~~-~d~cll------RfLrAr~wnv~kA~kml~~tL~WR~~~~~~~~~~~~Ev~~e~~tGK~y 101 (324)
T KOG1470|consen 34 KLLGPLTEKESKWC-SDACLL------RFLRARKWNVKKASKMLSNTLKWRRSFGPEEVIEADEVAAELETGKAY 101 (324)
T ss_pred HhhcchhhhhHhcC-cHHHHH------HHHHHcCCcHHHHHHHHHHHhHHHHhcCCccccCHHHHHHHhhcCcEE
Confidence 34459999999999 899998 4666666 5556677778888777777666 8888888888887754
No 235
>PRK09427 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional
Probab=24.02 E-value=2e+02 Score=26.36 Aligned_cols=75 Identities=9% Similarity=0.047 Sum_probs=56.8
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 67 GKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 67 Gklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
...++=..|+.++-.-|-=.+++++.=.++.....+.++|...|...+.-+.|.+||-+++--... ++||.+.++
T Consensus 116 KDFiid~~QI~ea~~~GADavLLI~~~L~~~~l~~l~~~a~~lGl~~lvEvh~~~El~~al~~~a~--iiGiNnRdL 190 (454)
T PRK09427 116 KDFIIDPYQIYLARYYGADAILLMLSVLDDEQYRQLAAVAHSLNMGVLTEVSNEEELERAIALGAK--VIGINNRNL 190 (454)
T ss_pred ccccCCHHHHHHHHHcCCCchhHHHHhCCHHHHHHHHHHHHHcCCcEEEEECCHHHHHHHHhCCCC--EEEEeCCCC
Confidence 445666777778777776666666777777788889999999996554348999999999976534 599987765
No 236
>PF09778 Guanylate_cyc_2: Guanylylate cyclase; InterPro: IPR018616 Members of this family of proteins catalyse the conversion of guanosine triphosphate (GTP) to 3',5'-cyclic guanosine monophosphate (cGMP) and pyrophosphate.
Probab=23.98 E-value=1.8e+02 Score=24.17 Aligned_cols=44 Identities=9% Similarity=-0.060 Sum_probs=35.2
Q ss_pred hhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCch
Q 047379 99 KSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDS 144 (154)
Q Consensus 99 k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~GfA 144 (154)
..++-..|+..||++..-..|.+||-.-+.... + +|+++|.++-
T Consensus 92 V~~lF~~A~~~gi~V~~rsvs~~ei~~hl~~g~-~-aIvLVd~~~L 135 (212)
T PF09778_consen 92 VNRLFQKAKAAGINVEKRSVSIQEIIEHLSSGG-P-AIVLVDASLL 135 (212)
T ss_pred HHHHHHHHHHcCCceEEeeccHHHHHHHHhCCC-c-EEEEEccccc
Confidence 355567888899999876679999999998886 5 5899998753
No 237
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=23.95 E-value=1.7e+02 Score=25.30 Aligned_cols=58 Identities=10% Similarity=0.109 Sum_probs=36.0
Q ss_pred HHHHhcCCceEEEEeCCC-ChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 77 LRSLRTSKGKLIILSNNC-PPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 77 lkaIk~gkakLVIlA~Da-s~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
...|.+ ++-++|+-.+- |.|+ .++.+.|+..+.|.+ ++.+.+||-...=+... .|||+
T Consensus 204 ~~~La~-~vD~miVVGg~~SsNT-~kL~~i~~~~~~~t~-~Ie~~~el~~~~l~~~~--~VGit 262 (298)
T PRK01045 204 VKELAP-QADLVIVVGSKNSSNS-NRLREVAEEAGAPAY-LIDDASEIDPEWFKGVK--TVGVT 262 (298)
T ss_pred HHHHHh-hCCEEEEECCCCCccH-HHHHHHHHHHCCCEE-EECChHHCcHHHhcCCC--EEEEE
Confidence 334443 45555554444 5555 566779999999999 59999999743212222 47776
No 238
>KOG2014 consensus SMT3/SUMO-activating complex, AOS1/RAD31 component [Posttranslational modification, protein turnover, chaperones]
Probab=23.94 E-value=76 Score=28.06 Aligned_cols=28 Identities=4% Similarity=0.101 Sum_probs=25.7
Q ss_pred EEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 88 IILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 88 VIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
++++.|.+...+.++..+|...+|+++.
T Consensus 123 lVV~~~~s~e~~~kvn~icrk~~i~F~a 150 (331)
T KOG2014|consen 123 LVVATDQSREEKCKVNEICRKLNIAFYA 150 (331)
T ss_pred EEEEeccchhhhhhHHHHHHhcCceEEe
Confidence 6778999999999999999999999974
No 239
>PLN02242 methionine gamma-lyase
Probab=23.82 E-value=1.6e+02 Score=26.16 Aligned_cols=46 Identities=17% Similarity=0.188 Sum_probs=32.7
Q ss_pred HHHHHHHHhcCCceEEEEeCCCChh----hhhhHHHHHHhCCCcEEEecCC
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPPL----RKSEIEYYAMLAKVGVHHYNGN 119 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~~----~k~ki~~~c~~~~Vpvi~~~~t 119 (154)
.+++.++|..++.++|++-+=.+|. ..+.|..+|++++++++. +.+
T Consensus 152 ~e~l~~~i~~~~tklV~lesp~NPtG~v~dl~~I~~la~~~gi~liv-Dea 201 (418)
T PLN02242 152 LEAVKKAVVPGKTKVLYFESISNPTLTVADIPELARIAHEKGVTVVV-DNT 201 (418)
T ss_pred HHHHHHhcCcCCCEEEEEecCCCCCCcccCHHHHHHHHHHhCCEEEE-ECC
Confidence 3556666755468888887665552 247888999999999985 443
No 240
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=23.76 E-value=1.8e+02 Score=24.89 Aligned_cols=57 Identities=11% Similarity=-0.029 Sum_probs=34.6
Q ss_pred HHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHh-hhCCcccEEEEEEe
Q 047379 78 RSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT-ACGKYFRVSCLSII 139 (154)
Q Consensus 78 kaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~-a~Gk~~~vsvvaI~ 139 (154)
+.|.+ ++-++|+-.+-...-..++-..|+.++.|.+ ++.+.+||=. .+... . .|||+
T Consensus 204 ~~La~-~vD~miVIGg~~SsNT~kL~eia~~~~~~t~-~Ie~~~el~~~~l~~~-~--~VGIt 261 (281)
T PF02401_consen 204 RELAK-EVDAMIVIGGKNSSNTRKLAEIAKEHGKPTY-HIETADELDPEWLKGV-K--KVGIT 261 (281)
T ss_dssp HHHHC-CSSEEEEES-TT-HHHHHHHHHHHHCTTCEE-EESSGGG--HHHHTT--S--EEEEE
T ss_pred HHHHh-hCCEEEEecCCCCccHHHHHHHHHHhCCCEE-EeCCccccCHhHhCCC-C--EEEEE
Confidence 44443 4656665555555555677789999999999 5999999953 34322 2 36666
No 241
>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=23.74 E-value=76 Score=22.48 Aligned_cols=54 Identities=13% Similarity=0.144 Sum_probs=38.0
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 047379 71 LGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 71 ~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk 129 (154)
.+..++.+.+ ...-+|+++..... ..+++...++.+|||+.. -+.+.-|..=|.
T Consensus 39 ~~~~~~~~~~--~~~Dvill~pqi~~-~~~~i~~~~~~~~ipv~~--I~~~~Y~~mdg~ 92 (95)
T TIGR00853 39 GSYGAAGEKL--DDADVVLLAPQVAY-MLPDLKKETDKKGIPVEV--INGAQYGKLTGA 92 (95)
T ss_pred ecHHHHHhhc--CCCCEEEECchHHH-HHHHHHHHhhhcCCCEEE--eChhhcccCCcc
Confidence 3555555444 35789999887766 678888899999999984 556666655543
No 242
>PRK08156 type III secretion system protein SpaS; Validated
Probab=23.74 E-value=1.1e+02 Score=27.26 Aligned_cols=26 Identities=23% Similarity=0.263 Sum_probs=21.2
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
...+|+..|++++||+++ .--|.+++
T Consensus 285 ~A~~IreiA~e~~VPive----n~pLARaL 310 (361)
T PRK08156 285 RALAVRAYAEKVGVPVVR----DIKLARRL 310 (361)
T ss_pred HHHHHHHHHHHCCCCEee----CHHHHHHH
Confidence 568999999999999997 35666665
No 243
>TIGR02181 GRX_bact Glutaredoxin, GrxC family. This family of glutaredoxins includes the E. coli protein GrxC (Grx3) which appears to have a secondary role in reducing ribonucleotide reductase (in the absence of GrxA) possibly indicating a role in the reduction of other protein disulfides.
Probab=23.73 E-value=2.1e+02 Score=18.47 Aligned_cols=42 Identities=12% Similarity=0.000 Sum_probs=23.8
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecC
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG 118 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~ 118 (154)
+...+++..+.+-++--|.++...+.+........+|.+. +.
T Consensus 15 a~~~L~~~~i~~~~~di~~~~~~~~~~~~~~g~~~vP~i~-i~ 56 (79)
T TIGR02181 15 AKALLSSKGVTFTEIRVDGDPALRDEMMQRSGRRTVPQIF-IG 56 (79)
T ss_pred HHHHHHHcCCCcEEEEecCCHHHHHHHHHHhCCCCcCEEE-EC
Confidence 3334444445555555555555666666655556788873 44
No 244
>PRK09108 type III secretion system protein HrcU; Validated
Probab=23.68 E-value=1e+02 Score=27.19 Aligned_cols=27 Identities=11% Similarity=-0.062 Sum_probs=21.8
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 128 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~G 128 (154)
...+|...|++++||+++ .-.|.+++=
T Consensus 292 ~A~~Ir~~A~e~~VPvve----n~pLARaLy 318 (353)
T PRK09108 292 GALALRRHAHALGIPIVG----NPPVARALY 318 (353)
T ss_pred HHHHHHHHHHHcCCCEEe----CHHHHHHHh
Confidence 468899999999999997 356777664
No 245
>cd00331 IGPS Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the release of carbon dioxide and water. IGPS is active as a separate monomer in most organisms, but is also found fused to other enzymes as part of a bifunctional or multifunctional enzyme involved in tryptophan biosynthesis.
Probab=23.67 E-value=3.6e+02 Score=21.12 Aligned_cols=64 Identities=9% Similarity=-0.004 Sum_probs=47.6
Q ss_pred HHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
.++..+...|--.+++...|.++...+++...+...++.++..+.+.+|+-++.-.. +..++++
T Consensus 85 ~~v~~~~~~Gad~v~l~~~~~~~~~~~~~~~~~~~~g~~~~v~v~~~~e~~~~~~~g--~~~i~~t 148 (217)
T cd00331 85 YQIYEARAAGADAVLLIVAALDDEQLKELYELARELGMEVLVEVHDEEELERALALG--AKIIGIN 148 (217)
T ss_pred HHHHHHHHcCCCEEEEeeccCCHHHHHHHHHHHHHcCCeEEEEECCHHHHHHHHHcC--CCEEEEe
Confidence 467778888877788889999887778888888888988754467888877776544 2346666
No 246
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=23.55 E-value=3.4e+02 Score=22.37 Aligned_cols=58 Identities=14% Similarity=0.012 Sum_probs=34.1
Q ss_pred HHHHHh-cCCceEEEEeCCCChhh-hhhHHHHHHhCCCcEEEec-CCHHHHHhhhCCcccEEEEE
Q 047379 76 VLRSLR-TSKGKLIILSNNCPPLR-KSEIEYYAMLAKVGVHHYN-GNNVDLGTACGKYFRVSCLS 137 (154)
Q Consensus 76 VlkaIk-~gkakLVIlA~Das~~~-k~ki~~~c~~~~Vpvi~~~-~tkeELG~a~Gk~~~vsvva 137 (154)
..+.+. +..+.++++|.|..-.. .+.++ +..+||++... .+-+.+-.. +...+++++|
T Consensus 52 ~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~---~~~~iPii~iie~~v~~a~~~-~~~~~IgvLA 112 (251)
T TIGR00067 52 LLTFLKERHNIKLLVVACNTASALALEDLQ---RNFDFPVVGVIEPAIKAAIRL-TANGRVLVIA 112 (251)
T ss_pred HHHHHHHhCCCCEEEEeCchHHHHHHHHHH---HHCCCCEEeecHHHHHHHHHh-CCCCeEEEEe
Confidence 344555 66799999999987533 34443 55689999622 344445433 3322454444
No 247
>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=23.55 E-value=2.1e+02 Score=21.08 Aligned_cols=38 Identities=21% Similarity=0.063 Sum_probs=23.0
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
..+.+....+..||+......... +...+...+||++.
T Consensus 50 ~~~~~~~~~~d~ii~~~~~~~~~~--~~~~~~~~~ip~v~ 87 (269)
T cd01391 50 ALRDLIQQGVDGIIGPPSSSSALA--VVELAAAAGIPVVS 87 (269)
T ss_pred HHHHHHHcCCCEEEecCCCHHHHH--HHHHHHHcCCcEEE
Confidence 444444456666666554433322 66677888899885
No 248
>PRK08780 DNA topoisomerase I; Provisional
Probab=23.41 E-value=76 Score=30.89 Aligned_cols=67 Identities=6% Similarity=-0.044 Sum_probs=46.4
Q ss_pred CCceEEEEeCCCChh---hhhhHHHHHHhC----CCcEEEe---cCCHHHHHhhhCCcccEEEEEEeCcCchHHHhcC
Q 047379 83 SKGKLIILSNNCPPL---RKSEIEYYAMLA----KVGVHHY---NGNNVDLGTACGKYFRVSCLSIIDPGDSDIIKSL 150 (154)
Q Consensus 83 gkakLVIlA~Das~~---~k~ki~~~c~~~----~Vpvi~~---~~tkeELG~a~Gk~~~vsvvaI~D~GfA~~i~~~ 150 (154)
.++..||+|+|.+.. +.-+|.+++... +.|+... .-|+.++=+|+..+.... ....+.+.|+.+.+.
T Consensus 72 k~ad~vilAtD~DREGE~Ia~~i~~~l~~~~~~~~~~v~Ri~f~eiT~~aI~~A~~n~r~~d-~~l~~A~~aRr~lD~ 148 (780)
T PRK08780 72 KSADDLYLATDPDREGEAISWHLAEILKERGLLKDKPMQRVVFTEITPRAIKEAMAKPRDIA-SDLVDAQQARRALDY 148 (780)
T ss_pred HhCCEEEECCCCCcccHHHHHHHHHHhcccccCCCCceEEEEEccCCHHHHHHHHhCCCcCc-HhHHHHHHHHHHHHH
Confidence 357889999999874 457777777531 2455332 348999999998877763 566667777766653
No 249
>PRK07377 hypothetical protein; Provisional
Probab=23.14 E-value=2.7e+02 Score=22.75 Aligned_cols=56 Identities=9% Similarity=-0.049 Sum_probs=38.2
Q ss_pred CceEEEEe-----CCCChhhhhhHHHHHHhCC--CcEEEecCCHHHHHhhhCCcccEEEEEEeCc
Q 047379 84 KGKLIILS-----NNCPPLRKSEIEYYAMLAK--VGVHHYNGNNVDLGTACGKYFRVSCLSIIDP 141 (154)
Q Consensus 84 kakLVIlA-----~Das~~~k~ki~~~c~~~~--Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~ 141 (154)
+.++-|+. .|........++.+++.|+ +.++. ..+.++|.+++--. .+.++..-|.
T Consensus 76 ~~Rlgv~~~~~~~~~~~~~l~~~l~~~~~~y~~rlElv~-y~~~~~l~~aL~~~-eVh~~c~~~~ 138 (184)
T PRK07377 76 VMRLGVLEIETETSSVFDQLIDQLRTILDKYHLRLELVV-YPDLQALEQALRDK-EVHAICLESG 138 (184)
T ss_pred EEEEEEEeccccccccHHHHHHHHHHHHHHhCceeeEEe-cCCHHHHHHHHhcC-CccEEecCCC
Confidence 35666666 3334456688889999998 88886 78999999999643 3444444343
No 250
>TIGR02339 thermosome_arch thermosome, various subunits, archaeal. Thermosome is the name given to the archaeal rather than eukaryotic form of the group II chaperonin (counterpart to the group I chaperonin, GroEL/GroES, in bacterial), a torroidal, ATP-dependent molecular chaperone that assists in the folding or refolding of nascent or denatured proteins. Various homologous subunits, one to five per archaeal genome, may be designated alpha, beta, etc., but phylogenetic analysis does not show distinct alpha subunit and beta subunit lineages traceable to ancient paralogs.
Probab=23.07 E-value=2.3e+02 Score=25.74 Aligned_cols=47 Identities=9% Similarity=0.150 Sum_probs=33.4
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
.++.|.+-++.+||.+.++++.... ++..+||.++. ..++.+|.+.+
T Consensus 274 ~v~~i~~~g~~lvi~~~~I~~~al~----~L~~~gI~~v~-~v~~~~L~rIa 320 (519)
T TIGR02339 274 MVDKIADAGANVVFCQKGIDDLAQH----YLAKAGILAVR-RVKKSDIEKLA 320 (519)
T ss_pred HHHHHHhcCCcEEEECCCccHHHHH----HHHHCCCEEEe-cCCHHHHHHHH
Confidence 4456666778999999999885544 34578888885 67776666554
No 251
>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=23.01 E-value=2.2e+02 Score=22.27 Aligned_cols=39 Identities=21% Similarity=0.037 Sum_probs=17.8
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
.++.+...++.-||+...-++ ........+..++||++.
T Consensus 47 ~i~~~~~~~~Dgiii~~~~~~-~~~~~i~~~~~~~iPvV~ 85 (282)
T cd06318 47 DVEDLLTRGVNVLIINPVDPE-GLVPAVAAAKAAGVPVVV 85 (282)
T ss_pred HHHHHHHcCCCEEEEecCCcc-chHHHHHHHHHCCCCEEE
Confidence 444455555555555431121 112223344556777764
No 252
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=22.97 E-value=1.2e+02 Score=22.07 Aligned_cols=51 Identities=8% Similarity=-0.095 Sum_probs=35.0
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 047379 71 LGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLG 124 (154)
Q Consensus 71 ~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG 124 (154)
.+..++.+.+.....-+|+++.+++= ..+++...|..++||+.. -+...-|
T Consensus 37 ~~~~e~~~~~~~~~~DvIll~PQi~~-~~~~i~~~~~~~~ipv~~--I~~~~Y~ 87 (104)
T PRK09590 37 ITATEGEKAIAAAEYDLYLVSPQTKM-YFKQFEEAGAKVGKPVVQ--IPPQAYI 87 (104)
T ss_pred ecHHHHHHhhccCCCCEEEEChHHHH-HHHHHHHHhhhcCCCEEE--eCHHHcC
Confidence 45555555555556888888876653 467888899999999984 4444433
No 253
>COG1803 MgsA Methylglyoxal synthase [Carbohydrate transport and metabolism]
Probab=22.76 E-value=2.6e+02 Score=21.86 Aligned_cols=84 Identities=17% Similarity=-0.009 Sum_probs=60.1
Q ss_pred hhhHHHHHHHHHHHHH---HhCCceecHHHHHHHHhcCCceEEEEeCCCCh-----hhhhhHHHHHHhCCCcEEEecCCH
Q 047379 49 TKKTHESINNRLALVM---KSGKYTLGYKTVLRSLRTSKGKLIILSNNCPP-----LRKSEIEYYAMLAKVGVHHYNGNN 120 (154)
Q Consensus 49 ~~~~~~kil~lLglA~---rAGklv~G~~~VlkaIk~gkakLVIlA~Das~-----~~k~ki~~~c~~~~Vpvi~~~~tk 120 (154)
+..+...|..--||.. ++|-+ -|..|+=..|..|++-++|.--|-=- .-.+-+..+|.-+|||+-.-..|-
T Consensus 38 TGTTG~~i~~atgL~v~~~~SGPm-GGDQQiGa~Iaeg~id~lIFf~DPLtaqPHdpDVkAL~Rl~~V~nIP~A~N~aTA 116 (142)
T COG1803 38 TGTTGGLIQEATGLNVHRLKSGPM-GGDQQIGALIAEGKIDVLIFFWDPLTAQPHDPDVKALLRLATVYNIPVATNRATA 116 (142)
T ss_pred ecCchHHHHHHhCCceEEeecCCC-CccHHHHHHHhcCcceEEEEEecCCCCCCCCcCHHHHHHHHHhhcccchhhHhHH
Confidence 4555666666666553 34443 47888888899999999999887421 235677889999999998756787
Q ss_pred HHHHhhhCCcccE
Q 047379 121 VDLGTACGKYFRV 133 (154)
Q Consensus 121 eELG~a~Gk~~~v 133 (154)
+-|=+..+.....
T Consensus 117 e~li~~~~~~~~~ 129 (142)
T COG1803 117 EFLIKSLLFNDFV 129 (142)
T ss_pred HHHHhccccCCce
Confidence 8787777765444
No 254
>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=22.70 E-value=2.3e+02 Score=22.99 Aligned_cols=39 Identities=10% Similarity=0.055 Sum_probs=19.8
Q ss_pred HHHHHHhcCCceEEEE-eCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 75 TVLRSLRTSKGKLIIL-SNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 75 ~VlkaIk~gkakLVIl-A~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+.++.+...++.-+|+ +.| +.........++..+||+|.
T Consensus 48 ~~i~~l~~~~vdgiii~~~~--~~~~~~~~~~~~~~giPvV~ 87 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLVD--PTAAQTVINKAKQKNIPVIF 87 (303)
T ss_pred HHHHHHHHcCCCEEEEecCc--hhhHHHHHHHHHHCCCCEEE
Confidence 3455444445554444 334 22223344445667888874
No 255
>PF01890 CbiG_C: Cobalamin synthesis G C-terminus; InterPro: IPR002750 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. CbiG proteins are specific for anaerobic cobalamin biosynthesis. CbiG, which shows homology with CobE of the aerobic pathway, participates in the conversion of cobalt-precorrin 5 into cobalt-precorrin 6 []. CbiG is responsible for the opening of the delta-lactone ring and extrusion of the C2-unit []. The aerobic pathway uses molecular oxygen to trigger the events at C-20 leading to contraction and expulsion of the C2-unit as acetic acid from a metal-free intermediate, whereas the anaerobic route involves the internal delivery of oxygen from a carboxylic acid terminus to C-20 followed by extrusion of the C2-unit as acetaldehyde, using cobalt complexes as substrates []. This entry represents the core domain of CibG.; GO: 0009236 cobalamin biosynthetic process; PDB: 3BY5_A 2W6K_A 2W6L_A 3EEQ_B.
Probab=22.68 E-value=74 Score=23.54 Aligned_cols=39 Identities=5% Similarity=-0.101 Sum_probs=25.4
Q ss_pred EEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 87 LIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 87 LVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
+-.||+=.-.....-+..+++.+|+|++ .++.+||-..-
T Consensus 35 i~~iasi~~K~~E~~l~~~A~~l~~~~~--~~~~eeL~~~~ 73 (121)
T PF01890_consen 35 IAAIASIDIKADEPGLLELAEELGIPLR--FFSAEELNAVE 73 (121)
T ss_dssp EEEEEESSSSS--HHHHHHHHHCTSEEE--EE-HHHHHCHH
T ss_pred ccEEEeccccCCCHHHHHHHHHhCCCeE--EECHHHHhcCC
Confidence 3344443333344567899999999998 48999998655
No 256
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=22.67 E-value=2.4e+02 Score=23.25 Aligned_cols=58 Identities=21% Similarity=0.159 Sum_probs=43.9
Q ss_pred CCceec------HHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 047379 67 GKYTLG------YKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 130 (154)
Q Consensus 67 Gklv~G------~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~ 130 (154)
..+.+| .+++..++..| +.+++ ||..-..+..+|.+++||++-=..|..|+-.+....
T Consensus 69 p~~~vGaGTVl~~e~a~~a~~aG-A~FiV-----sP~~~~~v~~~~~~~~i~~iPG~~TpsEi~~A~~~G 132 (222)
T PRK07114 69 PGMILGVGSIVDAATAALYIQLG-ANFIV-----TPLFNPDIAKVCNRRKVPYSPGCGSLSEIGYAEELG 132 (222)
T ss_pred CCeEEeeEeCcCHHHHHHHHHcC-CCEEE-----CCCCCHHHHHHHHHcCCCEeCCCCCHHHHHHHHHCC
Confidence 346666 46777888877 66665 677778889999999999985344889998887544
No 257
>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=22.54 E-value=3.9e+02 Score=21.12 Aligned_cols=61 Identities=7% Similarity=0.077 Sum_probs=41.5
Q ss_pred ceEEEEeCCCChhhhhhHHHHHHhCCCcEEE--ec-CCHHHHHhhhCCcccEEEEEEeCcCchH
Q 047379 85 GKLIILSNNCPPLRKSEIEYYAMLAKVGVHH--YN-GNNVDLGTACGKYFRVSCLSIIDPGDSD 145 (154)
Q Consensus 85 akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~--~~-~tkeELG~a~Gk~~~vsvvaI~D~GfA~ 145 (154)
+..|+-....++..+..++..|++.|+..+. |- .+.+-|-..+-..+.+.++.|...|+-.
T Consensus 89 ~~~vv~G~i~sd~~~~~~e~~~~~~gl~~~~PLW~~~~~~ll~e~~~~g~~~~iv~v~~~~L~~ 152 (194)
T cd01994 89 VDAVVFGAILSEYQRTRVERVCERLGLEPLAPLWGRDQEELLREMIEAGFKAIIIKVAAEGLDE 152 (194)
T ss_pred CCEEEECccccHHHHHHHHHHHHHcCCEEEecccCCCHHHHHHHHHHcCCeEEEEEeccCCCCH
Confidence 6667777777888999999999999987764 11 2344455555555566567776666543
No 258
>TIGR03061 pip_yhgE_Nterm YhgE/Pip N-terminal domain. This family contains the N-terminal domain of a family of multiple membrane-spanning proteins of Gram-positive bacteria. One member was shown to be a host protein essential for phage infection, so many members of this family are called "phage infection protein". A separate model, TIGR03062, represents the conserved C-terminal domain. The domains are separated by regions highly variable in both length and sequence, often containing extended heptad repeats as described in model TIGR03057.
Probab=22.50 E-value=3.4e+02 Score=20.40 Aligned_cols=64 Identities=6% Similarity=-0.035 Sum_probs=48.2
Q ss_pred CCceEEEEeCCCChh--------hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchHHHhc
Q 047379 83 SKGKLIILSNNCPPL--------RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSDIIKS 149 (154)
Q Consensus 83 gkakLVIlA~Das~~--------~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~GfA~~i~~ 149 (154)
.+..+.|+-.|-++. .+.-+..+-....+.+.. .+.+|.-.++-.. .+.++.+..+||.+.+.+
T Consensus 42 ~~lpvaVVd~D~s~~~~~~~~~~s~~l~~~l~~~~~~~~~~--~~~~ea~~~l~~g-~~~~~ivIP~~Fs~~l~~ 113 (164)
T TIGR03061 42 DNLPVAVVNEDKGATYDGKTLNAGDDLVKELKKNDDLDWHF--VSAKEAEKGLADG-KYYMVITIPEDFSENATS 113 (164)
T ss_pred CCCeEEEEECCCCCCcCCcccchHHHHHHHHhcCCCcceEE--cCHHHHHHHhHcC-cEEEEEEECcchhHHHHh
Confidence 468999999999986 555556665556677763 3888998888766 344678899999999875
No 259
>PRK05597 molybdopterin biosynthesis protein MoeB; Validated
Probab=22.45 E-value=1e+02 Score=26.75 Aligned_cols=31 Identities=6% Similarity=-0.054 Sum_probs=26.2
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
...+||.+.|- ..++..+...|..++||++.
T Consensus 118 ~~DvVvd~~d~-~~~r~~~n~~c~~~~ip~v~ 148 (355)
T PRK05597 118 DADVILDGSDN-FDTRHLASWAAARLGIPHVW 148 (355)
T ss_pred CCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE
Confidence 37899999985 56777899999999999994
No 260
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=22.40 E-value=2.3e+02 Score=25.55 Aligned_cols=49 Identities=6% Similarity=-0.010 Sum_probs=39.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHH
Q 047379 74 KTVLRSLRTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDL 123 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeEL 123 (154)
++..+.+++.++.-||+|-+..+ ...+++.+.|+..+|++.. .++..++
T Consensus 193 ~dL~~~v~~~~IdeViIAip~~~~~~l~ell~~~~~~~v~V~i-vP~l~~~ 242 (463)
T PRK10124 193 QQLVEDAKAGKIHNVYIAMSMCDGARVKKLVRQLADTTCSVLL-IPDVFTF 242 (463)
T ss_pred HHHHHHHHhCCCCEEEEeCCCcchHHHHHHHHHHHHcCCeEEE-ecchhhc
Confidence 66778889999999999987665 4568889999999999985 7766544
No 261
>TIGR02343 chap_CCT_epsi T-complex protein 1, epsilon subunit. Members of this family, all eukaryotic, are part of the group II chaperonin complex called CCT (chaperonin containing TCP-1) or TRiC. The archaeal equivalent group II chaperonin is often called the thermosome. Both are somewhat related to the group I chaperonin of bacterial, GroEL/GroES. This family consists exclusively of the CCT epsilon chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=22.29 E-value=2.6e+02 Score=25.62 Aligned_cols=49 Identities=8% Similarity=0.058 Sum_probs=32.8
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHH---HHHhhhCC
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNV---DLGTACGK 129 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tke---ELG~a~Gk 129 (154)
.++.|.+-.+-+||.+.++++.. .+++..+||.++. ..++. .|.+++|-
T Consensus 283 ~l~~i~~~g~~lvi~~~~I~~~a----l~~L~~~~i~~v~-~~~~~~l~~Ia~~tGa 334 (532)
T TIGR02343 283 MIDDIKKSGANIVICQWGFDDEA----NHLLLQNDLPAVR-WVGGHELELIAIATGG 334 (532)
T ss_pred HHHHHHHcCCCEEEeCCCccHHH----HHHHHHCCcEEEE-cCCHHHHHHHHHHhCC
Confidence 34556556678999999998854 4456778888886 55544 45555553
No 262
>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=22.19 E-value=1.6e+02 Score=24.34 Aligned_cols=63 Identities=19% Similarity=0.135 Sum_probs=36.8
Q ss_pred CCceecHHHHHHHHhcC-CceEE-EE--e--CCCChhhhhhHHHHHHhCCCcEEEecCC------HHHHHhhhCCc
Q 047379 67 GKYTLGYKTVLRSLRTS-KGKLI-IL--S--NNCPPLRKSEIEYYAMLAKVGVHHYNGN------NVDLGTACGKY 130 (154)
Q Consensus 67 Gklv~G~~~VlkaIk~g-kakLV-Il--A--~Das~~~k~ki~~~c~~~~Vpvi~~~~t------keELG~a~Gk~ 130 (154)
++.++-+.....++-+. ..+.+ ++ . ...|+....++....+..+|+++. ..+ -+.|.+..|.+
T Consensus 171 ~~~~v~~H~af~Y~~~~~gl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~if-~e~~~~~~~~~~la~~~g~~ 245 (282)
T cd01017 171 GKTFVTQHAAFGYLARRYGLKQIAIVGVSPEVEPSPKQLAELVEFVKKSDVKYIF-FEENASSKIAETLAKETGAK 245 (282)
T ss_pred CCeEEEecccHHHHHHHCCCeEEecccCCCCCCCCHHHHHHHHHHHHHcCCCEEE-EeCCCChHHHHHHHHHcCCc
Confidence 44445555577766432 23322 12 1 345556778889999999999994 431 24455556644
No 263
>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=22.03 E-value=2.5e+02 Score=21.88 Aligned_cols=40 Identities=20% Similarity=0.135 Sum_probs=20.9
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+.++.+...++.-||+..- +.+........+...+||++.
T Consensus 51 ~~~~~~~~~~vdgiIi~~~-~~~~~~~~l~~~~~~~iPvv~ 90 (272)
T cd06300 51 ADIRNLIAQGVDAIIINPA-SPTALNPVIEEACEAGIPVVS 90 (272)
T ss_pred HHHHHHHHcCCCEEEEeCC-ChhhhHHHHHHHHHCCCeEEE
Confidence 4444445556666666442 222222333455667888875
No 264
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=21.97 E-value=4.9e+02 Score=21.96 Aligned_cols=91 Identities=13% Similarity=0.087 Sum_probs=56.9
Q ss_pred hhhhhhhhhhhhhHHHHHHHHHHHHH-HhCCc------------eecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHH
Q 047379 39 KQSKMVTSKKTKKTHESINNRLALVM-KSGKY------------TLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYY 105 (154)
Q Consensus 39 ~~~~~~~~~k~~~~~~kil~lLglA~-rAGkl------------v~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~ 105 (154)
=|+.-.|+.+.....++++.++...+ +.-++ ..|.+.-.+..++--+.=||+ -|.+.+....+...
T Consensus 57 Iq~A~~rAL~~G~~~~~~~~~~~~ir~~~~~~pivlm~Y~N~i~~~G~e~F~~~~~~aGvdGlIi-pDLP~ee~~~~~~~ 135 (259)
T PF00290_consen 57 IQKASQRALKNGFTLEKIFELVKEIRKKEPDIPIVLMTYYNPIFQYGIERFFKEAKEAGVDGLII-PDLPPEESEELREA 135 (259)
T ss_dssp HHHHHHHHHHTT--HHHHHHHHHHHHHHCTSSEEEEEE-HHHHHHH-HHHHHHHHHHHTEEEEEE-TTSBGGGHHHHHHH
T ss_pred HHHHHHHHHHCCCCHHHHHHHHHHHhccCCCCCEEEEeeccHHhccchHHHHHHHHHcCCCEEEE-cCCChHHHHHHHHH
Confidence 34444555555556788888888888 33222 247777777776655655555 59999889999999
Q ss_pred HHhCCCcEEEec---CCHHHHHhhhCCc
Q 047379 106 AMLAKVGVHHYN---GNNVDLGTACGKY 130 (154)
Q Consensus 106 c~~~~Vpvi~~~---~tkeELG~a~Gk~ 130 (154)
|+.++++.|.++ .+.+.+-.++...
T Consensus 136 ~~~~gl~~I~lv~p~t~~~Ri~~i~~~a 163 (259)
T PF00290_consen 136 AKKHGLDLIPLVAPTTPEERIKKIAKQA 163 (259)
T ss_dssp HHHTT-EEEEEEETTS-HHHHHHHHHH-
T ss_pred HHHcCCeEEEEECCCCCHHHHHHHHHhC
Confidence 999986666433 2466777766443
No 265
>cd03363 TOPRIM_TopoIA_TopoI TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving one strand of the DNA duplex, covalently linking to the 5' phosphoryl end of the DNA break and, allowing the other strand of the duplex to pass through the gap. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). For topoisomerases the conserved glutamate is believed to act as a general base in strand joining and, as a general acid in strand cleavage. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function.
Probab=21.97 E-value=1.5e+02 Score=21.79 Aligned_cols=44 Identities=16% Similarity=-0.002 Sum_probs=27.3
Q ss_pred CCceEEEEeCCCChh---hhhhHHHHHHhCCCcEEEecC---CHHHHHhhh
Q 047379 83 SKGKLIILSNNCPPL---RKSEIEYYAMLAKVGVHHYNG---NNVDLGTAC 127 (154)
Q Consensus 83 gkakLVIlA~Das~~---~k~ki~~~c~~~~Vpvi~~~~---tkeELG~a~ 127 (154)
.++.-||+|.|++.. +...+.+++.. ++|+...++ |.+++=+++
T Consensus 71 ~~~~eiiiAtD~drEGe~i~~~i~~~~~~-~~~v~Rl~~sslt~~~I~~A~ 120 (123)
T cd03363 71 KKADEIYLATDPDREGEAIAWHLAEVLKL-KKNVKRVVFNEITKEAIKEAL 120 (123)
T ss_pred hcCCEEEEcCCCCcchHHHHHHHHHHcCC-CCCeEEEEEccCCHHHHHHHH
Confidence 348899999999874 34556666653 566655333 444444443
No 266
>COG2047 Uncharacterized protein (ATP-grasp superfamily) [General function prediction only]
Probab=21.96 E-value=1.1e+02 Score=26.01 Aligned_cols=64 Identities=17% Similarity=0.112 Sum_probs=51.0
Q ss_pred CCceEEEEeCCCChh-------hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchHHHhc
Q 047379 83 SKGKLIILSNNCPPL-------RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSDIIKS 149 (154)
Q Consensus 83 gkakLVIlA~Das~~-------~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~GfA~~i~~ 149 (154)
++--++|+..|.-.- ...++.+.+++++++-| |..---..|+.+..+ ++ .=|++++.+++.+++
T Consensus 82 ~~~Dliil~Gd~Q~~~~~gqyel~~~~Ld~a~e~g~~~I-yTLGGy~vGkl~eep-~V-lGA~ts~eLi~~lke 152 (258)
T COG2047 82 GERDLIILVGDTQATSSEGQYELTGKILDIAKEFGARMI-YTLGGYGVGKLVEEP-RV-LGAVTSKELIEELKE 152 (258)
T ss_pred CCCcEEEEeccccccCcchhHHHHHHHHHHHHHcCCcEE-EEecCcccCcccCCc-ee-EEecCCHHHHHHHHH
Confidence 567899999997652 24778899999999999 677778889999988 55 467889888888765
No 267
>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=21.76 E-value=1.7e+02 Score=20.09 Aligned_cols=35 Identities=20% Similarity=0.166 Sum_probs=21.8
Q ss_pred HHHHHHhcC---CceEEEEeCCCChhhhhhHHHHHHhC
Q 047379 75 TVLRSLRTS---KGKLIILSNNCPPLRKSEIEYYAMLA 109 (154)
Q Consensus 75 ~VlkaIk~g---kakLVIlA~Das~~~k~ki~~~c~~~ 109 (154)
+++++|.+. ...++|+....++++...+..+....
T Consensus 14 ~~l~sl~~q~~~~~~iivvdd~s~d~t~~~~~~~~~~~ 51 (180)
T cd06423 14 RTIESLLALDYPKLEVIVVDDGSTDDTLEILEELAALY 51 (180)
T ss_pred HHHHHHHhCCCCceEEEEEeCCCccchHHHHHHHhccc
Confidence 445555544 46677776666667777777666553
No 268
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=21.69 E-value=1.9e+02 Score=24.00 Aligned_cols=45 Identities=13% Similarity=0.038 Sum_probs=31.3
Q ss_pred HHHHHHHHhcCCceEEEEeCCCChh----hhhhHHHHHHhCCCcEEEecC
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPPL----RKSEIEYYAMLAKVGVHHYNG 118 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~~----~k~ki~~~c~~~~Vpvi~~~~ 118 (154)
.+.+.++++..+.++|++..-.++. -.+.|..+|++++++++. +.
T Consensus 113 ~~~l~~~i~~~~~~~v~i~~~~~~~G~~~~~~~i~~~a~~~~~~li~-D~ 161 (356)
T cd06451 113 PEEIAEALEQHDIKAVTLTHNETSTGVLNPLEGIGALAKKHDALLIV-DA 161 (356)
T ss_pred HHHHHHHHhccCCCEEEEeccCCCcccccCHHHHHHHHHhcCCEEEE-ee
Confidence 3567777766578888885543332 146788899999999985 44
No 269
>TIGR02742 TrbC_Ftype type-F conjugative transfer system pilin assembly protein TrbC. This protein is an essential component of the F-type conjugative pilus assembly system for the transfer of plasmid DNA. The N-terminal portion of these proteins are heterogeneous and are not covered by this model.
Probab=21.62 E-value=1.4e+02 Score=22.68 Aligned_cols=29 Identities=10% Similarity=-0.014 Sum_probs=26.2
Q ss_pred EEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 87 LIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 87 LVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+||++...++.+.+.+..-++.+++|++.
T Consensus 2 ~vFvS~SMP~~~Lk~l~~~a~~~g~~~Vl 30 (130)
T TIGR02742 2 MVFVSFSMPEPLLKQLLDQAEALGAPLVI 30 (130)
T ss_pred EEEEEcCCCHHHHHHHHHHHHHhCCeEEE
Confidence 68999999999999999999999999885
No 270
>PRK12468 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=21.62 E-value=1.2e+02 Score=27.14 Aligned_cols=26 Identities=12% Similarity=0.011 Sum_probs=21.2
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
...+|...|+++|||+++ .-.|.+++
T Consensus 297 ~A~~Ir~~A~e~~VPive----n~pLARaL 322 (386)
T PRK12468 297 VALRIRELGAEHRIPLLE----APPLARAL 322 (386)
T ss_pred HHHHHHHHHHHcCCcEEe----CHHHHHHH
Confidence 458999999999999997 35666665
No 271
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=21.53 E-value=2.7e+02 Score=19.76 Aligned_cols=43 Identities=9% Similarity=-0.105 Sum_probs=25.3
Q ss_pred EEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 047379 87 LIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 130 (154)
Q Consensus 87 LVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~ 130 (154)
++|+.+..+. ...-+....|+++++|++... +..+|...+-..
T Consensus 46 l~I~iS~SG~t~e~i~~~~~a~~~g~~iI~IT-~~~~l~~~~~~~ 89 (119)
T cd05017 46 LVIAVSYSGNTEETLSAVEQAKERGAKIVAIT-SGGKLLEMAREH 89 (119)
T ss_pred EEEEEECCCCCHHHHHHHHHHHHCCCEEEEEe-CCchHHHHHHHc
Confidence 4444443333 344555667788899988633 344688777644
No 272
>PRK13190 putative peroxiredoxin; Provisional
Probab=21.52 E-value=4.1e+02 Score=20.93 Aligned_cols=52 Identities=10% Similarity=-0.072 Sum_probs=32.1
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCC----CcEEEecCCHHHHHhhhCC
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAK----VGVHHYNGNNVDLGTACGK 129 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~----Vpvi~~~~tkeELG~a~Gk 129 (154)
..+.+++..+.+|-++.|.......-+....+..+ .|++. ....++.++.|.
T Consensus 53 ~~~~f~~~~~~vi~vS~D~~~~~~~w~~~~~~~~g~~~~fPll~--D~~~~ia~~ygv 108 (202)
T PRK13190 53 RYEDFKKLGVELVGLSVDSIYSHIAWLRDIEERFGIKIPFPVIA--DIDKELAREYNL 108 (202)
T ss_pred HHHHHHHCCCEEEEEeCCCHHHHHHHHHhHHHhcCCCceEEEEE--CCChHHHHHcCC
Confidence 33444545588888988876554444444444443 56663 455789999986
No 273
>COG0074 SucD Succinyl-CoA synthetase, alpha subunit [Energy production and conversion]
Probab=21.49 E-value=2.5e+02 Score=24.48 Aligned_cols=42 Identities=17% Similarity=0.269 Sum_probs=36.2
Q ss_pred HHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEE
Q 047379 73 YKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVH 114 (154)
Q Consensus 73 ~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi 114 (154)
.+.++++|..|---+|++++.++..-..++..++++.++-++
T Consensus 79 adai~EAida~i~liv~ITEgIP~~D~~~~~~~a~~~g~~ii 120 (293)
T COG0074 79 ADAILEAIDAGIKLVVIITEGIPVLDMLELKRYAREKGTRLI 120 (293)
T ss_pred HHHHHHHHhCCCcEEEEEeCCCCHHHHHHHHHHHHhcCCEEE
Confidence 578999999998888899999999888889999999886554
No 274
>PF03979 Sigma70_r1_1: Sigma-70 factor, region 1.1; InterPro: IPR007127 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This entry represents Region 1.1 which modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase [, ]. Region 1.1 is also involved in promoter binding.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2K6X_A.
Probab=21.48 E-value=2.7e+02 Score=18.91 Aligned_cols=53 Identities=19% Similarity=0.157 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 52 THESINNRLALVMKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 52 ~~~kil~lLglA~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
-...|-.||..+++.|.| =+.++..+|- ..+.++.....|...-...||.++.
T Consensus 5 ~~~~i~~Li~~gK~~G~l--T~~eI~~~L~---------~~~~~~e~id~i~~~L~~~gI~Vvd 57 (82)
T PF03979_consen 5 YEEAIKKLIEKGKKKGYL--TYDEINDALP---------EDDLDPEQIDEIYDTLEDEGIEVVD 57 (82)
T ss_dssp HHHHHHHHHHHHHHHSS---BHHHHHHH-S----------S---HHHHHHHHHHHHTT----B-
T ss_pred hHHHHHHHHHHHhhcCcC--CHHHHHHHcC---------ccCCCHHHHHHHHHHHHHCCCEEec
Confidence 457788999999999984 4567888885 3457888889998888999999985
No 275
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=21.38 E-value=1.1e+02 Score=28.06 Aligned_cols=33 Identities=3% Similarity=-0.110 Sum_probs=24.3
Q ss_pred ceEEEEeCCCChhh------------------hhhHHHHHHhCCCcEEEec
Q 047379 85 GKLIILSNNCPPLR------------------KSEIEYYAMLAKVGVHHYN 117 (154)
Q Consensus 85 akLVIlA~Das~~~------------------k~ki~~~c~~~~Vpvi~~~ 117 (154)
-.++|+|.|-..++ ..++..+|...++|+|.++
T Consensus 178 rpV~VIandkg~~~ke~~~rnfG~~~peGyRKAlR~mklAekf~lPIVtLV 228 (431)
T PLN03230 178 MSFMFIGHQKGRNTKENIYRNFAMPQPNGYRKALRFMRHAEKFGFPILTFV 228 (431)
T ss_pred EEEEEEEeccCcccccccccCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEE
Confidence 46788899963221 2567899999999999754
No 276
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=21.27 E-value=1.4e+02 Score=23.26 Aligned_cols=71 Identities=15% Similarity=0.091 Sum_probs=44.7
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhh-hhHHHHHHhCCCcEEEecCCH-------------HHHHhhhCCcccEEEEEEeC
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRK-SEIEYYAMLAKVGVHHYNGNN-------------VDLGTACGKYFRVSCLSIID 140 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k-~ki~~~c~~~~Vpvi~~~~tk-------------eELG~a~Gk~~~vsvvaI~D 140 (154)
-+.+++..++..++|+--|++.-.+ ..+...-.+.++|++. +.+| ++|.+.+|.+ .+.+.|.+.
T Consensus 69 v~~~~l~~~~~D~ii~VvDa~~l~r~l~l~~ql~e~g~P~vv-vlN~~D~a~~~g~~id~~~Ls~~Lg~p-vi~~sa~~~ 146 (156)
T PF02421_consen 69 VARDYLLSEKPDLIIVVVDATNLERNLYLTLQLLELGIPVVV-VLNKMDEAERKGIEIDAEKLSERLGVP-VIPVSARTG 146 (156)
T ss_dssp HHHHHHHHTSSSEEEEEEEGGGHHHHHHHHHHHHHTTSSEEE-EEETHHHHHHTTEEE-HHHHHHHHTS--EEEEBTTTT
T ss_pred HHHHHHhhcCCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEE-EEeCHHHHHHcCCEECHHHHHHHhCCC-EEEEEeCCC
Confidence 3466677788888888888876222 2223344567899984 6655 5677778876 233455667
Q ss_pred cCchHHH
Q 047379 141 PGDSDII 147 (154)
Q Consensus 141 ~GfA~~i 147 (154)
.|+.+..
T Consensus 147 ~g~~~L~ 153 (156)
T PF02421_consen 147 EGIDELK 153 (156)
T ss_dssp BTHHHHH
T ss_pred cCHHHHH
Confidence 7765543
No 277
>PRK10444 UMP phosphatase; Provisional
Probab=21.27 E-value=2.7e+02 Score=22.81 Aligned_cols=46 Identities=15% Similarity=0.120 Sum_probs=32.0
Q ss_pred HhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCC
Q 047379 65 KSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKV 111 (154)
Q Consensus 65 rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~V 111 (154)
+.+.+.-|..++++.+++....++|++++.+.....-...+ ...|+
T Consensus 14 ~~~~~~p~a~~~l~~L~~~g~~~~~~Tn~~~~~~~~~~~~l-~~~G~ 59 (248)
T PRK10444 14 HDNVAVPGAAEFLHRILDKGLPLVLLTNYPSQTGQDLANRF-ATAGV 59 (248)
T ss_pred eCCeeCccHHHHHHHHHHCCCeEEEEeCCCCCCHHHHHHHH-HHcCC
Confidence 34567788999999999888888888888876443333333 44454
No 278
>PRK01438 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=21.23 E-value=1.9e+02 Score=25.66 Aligned_cols=51 Identities=14% Similarity=-0.049 Sum_probs=34.5
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
.+-+||++.-++|+. .+...++..+||++. ..+-++..+....+.-+||||
T Consensus 78 ~~D~Vv~s~Gi~~~~--~~~~~a~~~gi~v~~---~~e~~~~~~~~~~~~~~I~VT 128 (480)
T PRK01438 78 DTDLVVTSPGWRPDA--PLLAAAADAGIPVWG---EVELAWRLRDPDRPAPWLAVT 128 (480)
T ss_pred CCCEEEECCCcCCCC--HHHHHHHHCCCeecc---hHHHHHHhhhccCCCCEEEEe
Confidence 478999999988865 345567889999973 344456666533222258887
No 279
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=21.12 E-value=2.2e+02 Score=25.91 Aligned_cols=72 Identities=18% Similarity=0.176 Sum_probs=53.3
Q ss_pred ecHHHHHHHH------hcCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 047379 71 LGYKTVLRSL------RTSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 143 (154)
Q Consensus 71 ~G~~~VlkaI------k~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~D~Gf 143 (154)
+|-..++..| ..++-++=||..|.=. .-.+++..||+-.|||+.. +.+..||-.++.--...-+|-|=..|.
T Consensus 214 VGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~v-v~~~~el~~ai~~l~~~d~ILVDTaGr 292 (407)
T COG1419 214 VGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEV-VYSPKELAEAIEALRDCDVILVDTAGR 292 (407)
T ss_pred CcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEE-ecCHHHHHHHHHHhhcCCEEEEeCCCC
Confidence 5666665544 4677888899999877 4569999999999999996 999999999997322223455544443
No 280
>TIGR00328 flhB flagellar biosynthetic protein FlhB. FlhB and its functionally equivalent orthologs, from among a larger superfamily of proteins involved in type III protein export systems, are specifically involved in flagellar protein export. The seed members are restricted and the trusted cutoff is set high such that the proteins gathered by this model play roles specifically related to flagellar structures. Full-length homologs scoring below the trusted cutoff are involved in peptide export but not necessarily in the creation of flagella.
Probab=21.09 E-value=1.3e+02 Score=26.55 Aligned_cols=26 Identities=23% Similarity=0.086 Sum_probs=21.1
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
...+|..+|+++|||+++ ...|.+++
T Consensus 290 ~A~~I~~~A~~~~vPi~~----~~~LAr~L 315 (347)
T TIGR00328 290 LALKIKEIARENNVPIVE----NPPLARAL 315 (347)
T ss_pred HHHHHHHHHHHcCCCEEe----CHHHHHHH
Confidence 457899999999999997 35666666
No 281
>COG1748 LYS9 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]
Probab=21.00 E-value=1.4e+02 Score=26.84 Aligned_cols=77 Identities=13% Similarity=0.026 Sum_probs=44.2
Q ss_pred HHhCCceecHHHHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecCCH---HHHHhhhCCcccEEEEEEeC
Q 047379 64 MKSGKYTLGYKTVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN---VDLGTACGKYFRVSCLSIID 140 (154)
Q Consensus 64 ~rAGklv~G~~~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~tk---eELG~a~Gk~~~vsvvaI~D 140 (154)
.++-.+=......+.++-++. .+||-+-. +..-..+...|-+.+|+|+...... -++...+.+. .+.+|++
T Consensus 49 v~~~~vD~~d~~al~~li~~~-d~VIn~~p--~~~~~~i~ka~i~~gv~yvDts~~~~~~~~~~~~a~~A---git~v~~ 122 (389)
T COG1748 49 VEALQVDAADVDALVALIKDF-DLVINAAP--PFVDLTILKACIKTGVDYVDTSYYEEPPWKLDEEAKKA---GITAVLG 122 (389)
T ss_pred ceeEEecccChHHHHHHHhcC-CEEEEeCC--chhhHHHHHHHHHhCCCEEEcccCCchhhhhhHHHHHc---CeEEEcc
Confidence 334444444554554554454 77777654 4444588999999999999622222 3355566555 2355554
Q ss_pred cCchHH
Q 047379 141 PGDSDI 146 (154)
Q Consensus 141 ~GfA~~ 146 (154)
-||+.-
T Consensus 123 ~G~dPG 128 (389)
T COG1748 123 CGFDPG 128 (389)
T ss_pred cCcCcc
Confidence 444433
No 282
>PLN02735 carbamoyl-phosphate synthase
Probab=20.97 E-value=1.4e+02 Score=30.33 Aligned_cols=57 Identities=14% Similarity=0.139 Sum_probs=40.1
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCChh---hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 71 LGYKTVLRSLRTSKGKLIILSNNCPPL---RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 71 ~G~~~VlkaIk~gkakLVIlA~Das~~---~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
-|...+++.|++|++.+||-..+.... ---.++..|-.++||+++...+-..+-.++
T Consensus 1026 ~~~~~~~~~i~~~~i~~vin~~~~~~~~~~d~~~iRr~a~~~~ip~~t~~~~a~~~~~~~ 1085 (1102)
T PLN02735 1026 EGRPHAGDMLANGQIQLMVITSSGDALDQKDGRQLRRMALAYKVPIITTVAGALATAQAV 1085 (1102)
T ss_pred CCCccHHHHHHcCCeEEEEECCCCccccccccHHHHHHHHHcCCCEEecHHHHHHHHHHH
Confidence 355669999999999999976552221 135789999999999997433444444444
No 283
>PRK08762 molybdopterin biosynthesis protein MoeB; Validated
Probab=20.82 E-value=1e+02 Score=26.86 Aligned_cols=31 Identities=3% Similarity=-0.056 Sum_probs=26.3
Q ss_pred CceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 84 KGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 84 kakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
..-+||-+.|..+ ++..+.++|..++||++.
T Consensus 225 ~~D~Vv~~~d~~~-~r~~ln~~~~~~~ip~i~ 255 (376)
T PRK08762 225 DVDVVVDGADNFP-TRYLLNDACVKLGKPLVY 255 (376)
T ss_pred CCCEEEECCCCHH-HHHHHHHHHHHcCCCEEE
Confidence 4789999998754 677899999999999994
No 284
>PRK00124 hypothetical protein; Validated
Probab=20.82 E-value=1.2e+02 Score=23.82 Aligned_cols=29 Identities=21% Similarity=0.085 Sum_probs=25.3
Q ss_pred EEEeCCCChhhhhhHHHHHHhCCCcEEEecC
Q 047379 88 IILSNNCPPLRKSEIEYYAMLAKVGVHHYNG 118 (154)
Q Consensus 88 VIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~ 118 (154)
+++=.|+-| .++.+...|+++++|++. +-
T Consensus 3 I~VDADACP-Vk~~i~r~a~r~~i~v~~-Va 31 (151)
T PRK00124 3 IYVDADACP-VKDIIIRVAERHGIPVTL-VA 31 (151)
T ss_pred EEEECCCCc-HHHHHHHHHHHHCCeEEE-EE
Confidence 677788888 999999999999999994 54
No 285
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=20.76 E-value=2.1e+02 Score=22.74 Aligned_cols=42 Identities=14% Similarity=0.051 Sum_probs=32.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCC--hhhhhhHHHHHHhCCCcEEE
Q 047379 74 KTVLRSLRTSKGKLIILSNNCP--PLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 74 ~~VlkaIk~gkakLVIlA~Das--~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+.+.+.|++-+-=++|+-..+. +...+.+..+++..++|++.
T Consensus 25 ~~aa~lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvt 68 (171)
T PRK00945 25 KIAAMMIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAA 68 (171)
T ss_pred HHHHHHHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEE
Confidence 5667777777666777666664 45678899999999999996
No 286
>PRK06753 hypothetical protein; Provisional
Probab=20.75 E-value=1.3e+02 Score=25.14 Aligned_cols=68 Identities=16% Similarity=0.089 Sum_probs=39.7
Q ss_pred hcCCCCCcccchhhhhcchhHH-HHHhhhhhhhhhhh--hhhHHHHHHHHHHHHHHhCCceecHHHHHHHH
Q 047379 13 SAGAASPLLGLVCYFAAAREVF-FGATKQSKMVTSKK--TKKTHESINNRLALVMKSGKYTLGYKTVLRSL 80 (154)
Q Consensus 13 ~~~~~~~~~grg~y~~~~~~~~-~~a~~~~~~~~~~k--~~~~~~kil~lLglA~rAGklv~G~~~VlkaI 80 (154)
.|.+.+|+.|.|+.+++.-... -.+.+......+++ ++....++..++...++.+++..-.......+
T Consensus 278 AAh~~~P~~GqG~n~ai~Da~~L~~~L~~~~~~~al~~Y~~~r~~~~~~~~~~s~~~~~~~~~~~~~~~~~ 348 (373)
T PRK06753 278 AAHATTPNMGQGAGQAMEDAIVLANCLNAYDFEKALQRYDKIRVKHTAKVIKRSRKIGKIAQIESKLLVAL 348 (373)
T ss_pred ccccCCCCcCccHHHHHHHHHHHHHHhhhccHHHHHHHHHHHhhHHHHHHHHHHHHHhHHHhcCCchHHHH
Confidence 4667899999999988754322 22333333444444 34455667777777777776554333333333
No 287
>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=20.74 E-value=3.9e+02 Score=20.39 Aligned_cols=26 Identities=27% Similarity=0.346 Sum_probs=15.5
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCC
Q 047379 68 KYTLGYKTVLRSLRTSKGKLIILSNN 93 (154)
Q Consensus 68 klv~G~~~VlkaIk~gkakLVIlA~D 93 (154)
.+.-|..++++.+++...++.|+++-
T Consensus 94 ~~~~g~~~~L~~L~~~g~~~~i~Tn~ 119 (221)
T TIGR02253 94 RVYPGVRDTLMELRESGYRLGIITDG 119 (221)
T ss_pred CCCCCHHHHHHHHHHCCCEEEEEeCC
Confidence 55667777777776555555444443
No 288
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=20.72 E-value=2.4e+02 Score=23.06 Aligned_cols=23 Identities=4% Similarity=0.108 Sum_probs=15.1
Q ss_pred HHHHHHhcCCceEEEEeCCCChh
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPL 97 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~ 97 (154)
.+.+.+++.++.+||++.|.-+.
T Consensus 30 ~l~~~~~~~~~D~lli~GDi~d~ 52 (253)
T TIGR00619 30 DLLEFAKAEQIDALLVAGDVFDT 52 (253)
T ss_pred HHHHHHHHcCCCEEEECCccCCC
Confidence 34445555667888888887664
No 289
>KOG3463 consensus Transcription initiation factor IIA, gamma subunit [Transcription]
Probab=20.64 E-value=44 Score=25.05 Aligned_cols=21 Identities=38% Similarity=0.529 Sum_probs=17.3
Q ss_pred hhhHHHHhhcCCCCCcccchh
Q 047379 5 KETLDEFKSAGAASPLLGLVC 25 (154)
Q Consensus 5 ~~~~~~~~~~~~~~~~~grg~ 25 (154)
.+||||+-+.|-.+|-|+-=+
T Consensus 17 ~~tLDe~v~~g~itp~la~~V 37 (109)
T KOG3463|consen 17 QKTLDELVSDGVITPSLAKKV 37 (109)
T ss_pred HHHHHHHHHcCCCCHHHHHHH
Confidence 479999999999999876433
No 290
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=20.51 E-value=2.9e+02 Score=23.72 Aligned_cols=52 Identities=8% Similarity=-0.004 Sum_probs=33.5
Q ss_pred CceEEEEeCCC-ChhhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 047379 84 KGKLIILSNNC-PPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 139 (154)
Q Consensus 84 kakLVIlA~Da-s~~~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~Gk~~~vsvvaI~ 139 (154)
++-++|+-.+- |.|+ .++.+.|+..+.|.+ ++.+.+||-...=+... .|||+
T Consensus 209 ~vD~miVVGg~~SsNT-~rL~eia~~~~~~t~-~Ie~~~el~~~~~~~~~--~VGit 261 (281)
T PRK12360 209 EVDVMIVIGGKHSSNT-QKLVKICEKNCPNTF-HIETADELDLEMLKDYK--IIGIT 261 (281)
T ss_pred hCCEEEEecCCCCccH-HHHHHHHHHHCCCEE-EECChHHCCHHHhCCCC--EEEEE
Confidence 45555555555 5555 566778999999988 59999999543212222 47776
No 291
>PLN02828 formyltetrahydrofolate deformylase
Probab=20.44 E-value=2e+02 Score=24.53 Aligned_cols=47 Identities=6% Similarity=0.004 Sum_probs=30.8
Q ss_pred ceecHHHHHH----HHhcCC--ceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 69 YTLGYKTVLR----SLRTSK--GKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 69 lv~G~~~Vlk----aIk~gk--akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+++|....+. ++++|. +.++.+-+|-++.-...+..+|+.+|||+..
T Consensus 76 lvSg~g~nl~~ll~~~~~g~l~~eI~~ViSn~~~~~~a~~~~~A~~~gIP~~~ 128 (268)
T PLN02828 76 LASKQDHCLIDLLHRWQDGRLPVDITCVISNHERGPNTHVMRFLERHGIPYHY 128 (268)
T ss_pred EEcCCChhHHHHHHhhhcCCCCceEEEEEeCCCCCCCchHHHHHHHcCCCEEE
Confidence 4566655544 456664 6677776766433334677889999999973
No 292
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=20.38 E-value=2.6e+02 Score=18.16 Aligned_cols=25 Identities=16% Similarity=-0.008 Sum_probs=16.2
Q ss_pred hhhhhHHHHHHhCCCcEEEecCCHH
Q 047379 97 LRKSEIEYYAMLAKVGVHHYNGNNV 121 (154)
Q Consensus 97 ~~k~ki~~~c~~~~Vpvi~~~~tke 121 (154)
....+-..+|+..|+|++.+++.++
T Consensus 38 ~~~~~~~~~a~~~g~~~~iiig~~e 62 (91)
T cd00860 38 EKLGKKIREAQLQKIPYILVVGDKE 62 (91)
T ss_pred CCHHHHHHHHHHcCCCEEEEECcch
Confidence 3444444567899999886555544
No 293
>PRK12772 bifunctional flagellar biosynthesis protein FliR/FlhB; Provisional
Probab=20.36 E-value=1.3e+02 Score=28.54 Aligned_cols=26 Identities=19% Similarity=0.046 Sum_probs=21.4
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 127 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~ 127 (154)
...+|++.|++++||+++ ...|.+++
T Consensus 553 ~A~~Ir~~A~e~~VPive----~~~LAR~L 578 (609)
T PRK12772 553 VALKIKEIAKENDVPIIE----NKPLARLI 578 (609)
T ss_pred HHHHHHHHHHHCCCcEEe----CHHHHHHH
Confidence 568899999999999997 45677666
No 294
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=20.24 E-value=1.7e+02 Score=23.61 Aligned_cols=48 Identities=19% Similarity=0.132 Sum_probs=27.4
Q ss_pred HHHHHHh--cCCceEEEEeCCCCh-hhhhhHHHHHHhCCCcEEEecCCHHHH
Q 047379 75 TVLRSLR--TSKGKLIILSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDL 123 (154)
Q Consensus 75 ~VlkaIk--~gkakLVIlA~Das~-~~k~ki~~~c~~~~Vpvi~~~~tkeEL 123 (154)
.+..++. .-...++++..|.+. ..-+.+..++...++|++. +.||-++
T Consensus 100 ~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~ip~iv-vvNK~D~ 150 (224)
T cd04165 100 TTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALALNIPVFV-VVTKIDL 150 (224)
T ss_pred HHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHcCCCEEE-EEECccc
Confidence 3455554 233445555444332 3445566678889999885 6666554
No 295
>TIGR01056 topB DNA topoisomerase III, bacteria and conjugative plasmid. This model describes topoisomerase III from bacteria and its equivalents encoded on plasmids. The gene is designated topB if found in the bacterial chromosome, traE on conjugative plasmid RP4, etc. These enzymes are involved in the control of DNA topology. DNA topoisomerase III belongs to the type I topoisomerases, which are ATP-independent.
Probab=20.24 E-value=1e+02 Score=29.32 Aligned_cols=67 Identities=12% Similarity=0.075 Sum_probs=44.6
Q ss_pred CCceEEEEeCCCChh---hhhhHHHHHHhCC-CcEEEe---cCCHHHHHhhhCCcccEE-EEEEeCcCchHHHhc
Q 047379 83 SKGKLIILSNNCPPL---RKSEIEYYAMLAK-VGVHHY---NGNNVDLGTACGKYFRVS-CLSIIDPGDSDIIKS 149 (154)
Q Consensus 83 gkakLVIlA~Das~~---~k~ki~~~c~~~~-Vpvi~~---~~tkeELG~a~Gk~~~vs-vvaI~D~GfA~~i~~ 149 (154)
.++.-||+|+|.+.. +..+|.+++...+ .|+... .-|+.++=+|+....... -....+.+.|+.+.+
T Consensus 94 ~~ad~Ii~AtDpDREGE~I~~~i~~~l~~~~~~~v~Ri~f~~iT~~~I~~A~~n~~~~~~~~~l~~a~~aR~~~D 168 (660)
T TIGR01056 94 NKVDEVVIATDPDREGELIAREILDYLKVTDKVTIKRLWISSLVDSSIRKAFKNLRPKSETEGLYKSGVARARAD 168 (660)
T ss_pred cCCCEEEECCCCCcchHHHHHHHHHHhCCCCCCceEEEEeccCCHHHHHHHHHcCCCchhhhhHHHHHHHHHHHH
Confidence 368899999999874 4567777776432 365442 348899999998765421 244556666666665
No 296
>PRK07309 aromatic amino acid aminotransferase; Validated
Probab=20.19 E-value=2.1e+02 Score=24.50 Aligned_cols=42 Identities=14% Similarity=0.056 Sum_probs=27.9
Q ss_pred HHHHHHHhc--CCceEEEEeC--C-----CChhhhhhHHHHHHhCCCcEEE
Q 047379 74 KTVLRSLRT--SKGKLIILSN--N-----CPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 74 ~~VlkaIk~--gkakLVIlA~--D-----as~~~k~ki~~~c~~~~Vpvi~ 115 (154)
+.+.+++++ .+.++|++.. | .++...+.+..+|++++++++.
T Consensus 154 ~~l~~~~~~~~~~~~~i~l~~P~NPtG~~~s~~~~~~l~~~~~~~~~~ii~ 204 (391)
T PRK07309 154 EMLEKAILEQGDKLKAVILNYPANPTGVTYSREQIKALADVLKKYDIFVIS 204 (391)
T ss_pred HHHHHHhhccCCCeEEEEEECCCCCCCcCcCHHHHHHHHHHHHHcCcEEEE
Confidence 445555554 2578888863 2 1233468888999999999985
No 297
>PRK12773 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=20.14 E-value=1.3e+02 Score=29.07 Aligned_cols=27 Identities=11% Similarity=-0.282 Sum_probs=22.1
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 047379 98 RKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 128 (154)
Q Consensus 98 ~k~ki~~~c~~~~Vpvi~~~~tkeELG~a~G 128 (154)
...+|...|+++|||+++ ...|.+++=
T Consensus 589 lAlrIReiAeE~gVPIVE----NpPLARALY 615 (646)
T PRK12773 589 FALLIIRIARENGVPTVE----DRLQARGLY 615 (646)
T ss_pred HHHHHHHHHHHcCCcEEE----CHHHHHHHH
Confidence 568999999999999997 466777763
No 298
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=20.13 E-value=87 Score=18.41 Aligned_cols=27 Identities=11% Similarity=0.124 Sum_probs=20.2
Q ss_pred hhhHHHHHHhCCCcEEEecC-CHHHHHhh
Q 047379 99 KSEIEYYAMLAKVGVHHYNG-NNVDLGTA 126 (154)
Q Consensus 99 k~ki~~~c~~~~Vpvi~~~~-tkeELG~a 126 (154)
-..+..+.+.+|||+-. .. +++||=..
T Consensus 6 ~~~L~~wL~~~gi~~~~-~~~~rd~Ll~~ 33 (38)
T PF10281_consen 6 DSDLKSWLKSHGIPVPK-SAKTRDELLKL 33 (38)
T ss_pred HHHHHHHHHHcCCCCCC-CCCCHHHHHHH
Confidence 35678888899999975 55 88888443
No 299
>TIGR01692 HIBADH 3-hydroxyisobutyrate dehydrogenase. This enzyme belongs to the 3-hydroxyacid dehydrogenase family, sharing a common evolutionary origin and enzymatic mechanism with 6-phosphogluconate. HIBADH exhibits sequence similarity to the NAD binding domain of 6-phosphogluconate dehydrogenase above trusted (pfam03446).
Probab=20.11 E-value=1.3e+02 Score=24.88 Aligned_cols=31 Identities=16% Similarity=0.130 Sum_probs=26.8
Q ss_pred ceEEEEeCCCChhhhhhHHHHHHhCCCcEEE
Q 047379 85 GKLIILSNNCPPLRKSEIEYYAMLAKVGVHH 115 (154)
Q Consensus 85 akLVIlA~Das~~~k~ki~~~c~~~~Vpvi~ 115 (154)
-.+||-.+-.+|.+.+.+...++++++.++.
T Consensus 83 g~~vid~st~~p~~~~~~~~~~~~~g~~~vd 113 (288)
T TIGR01692 83 GSLLIDCSTIDPDSARKLAELAAAHGAVFMD 113 (288)
T ss_pred CCEEEECCCCCHHHHHHHHHHHHHcCCcEEE
Confidence 3588888899999999999999999988874
No 300
>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=20.09 E-value=4.7e+02 Score=21.03 Aligned_cols=69 Identities=17% Similarity=0.140 Sum_probs=43.8
Q ss_pred HHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEE--ecCCHHHHHhhhC-CcccEEEEEEeCcCch
Q 047379 76 VLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHH--YNGNNVDLGTACG-KYFRVSCLSIIDPGDS 144 (154)
Q Consensus 76 VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~--~~~tkeELG~a~G-k~~~vsvvaI~D~GfA 144 (154)
.++.+++..+..|+.....++.....++..|...+++++. +..+++||=+.+- ..+.+.++.|...|+-
T Consensus 78 ~l~~~~~~g~~~vv~G~i~sd~~~~~~e~v~~~~gl~~~~PLw~~~~~el~~~~~~~G~~~~i~~v~~~~l~ 149 (218)
T TIGR03679 78 ALKELKREGVEGIVTGAIASRYQKSRIERICEELGLKVFAPLWGRDQEEYLRELVERGFRFIIVSVSAYGLD 149 (218)
T ss_pred HHHHHHHcCCCEEEECCcccHhHHHHHHHHHHhCCCeEEeehhcCCHHHHHHHHHHCCCEEEEEEEecCCCC
Confidence 3344443347777777778888889999999999998885 2337776644332 2233434556544543
No 301
>cd01141 TroA_d Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. 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 their ligands in the cleft between these domains.
Probab=20.06 E-value=2.5e+02 Score=21.04 Aligned_cols=54 Identities=17% Similarity=-0.040 Sum_probs=32.8
Q ss_pred HHHHHHhcCCceEEEEeCCCChhhhhhHHHHHHhCCCcEEEecC--C-------HHHHHhhhC--Ccc
Q 047379 75 TVLRSLRTSKGKLIILSNNCPPLRKSEIEYYAMLAKVGVHHYNG--N-------NVDLGTACG--KYF 131 (154)
Q Consensus 75 ~VlkaIk~gkakLVIlA~Das~~~k~ki~~~c~~~~Vpvi~~~~--t-------keELG~a~G--k~~ 131 (154)
.-++.|.+=+.-|||.....++. .+...-+..+||++.+.. + -..+|+++| ++.
T Consensus 60 ~n~E~ll~l~PDlii~~~~~~~~---~~~~~l~~~gIpvv~i~~~~~~~~~~~~i~~~g~~~g~~~~~ 124 (186)
T cd01141 60 LNVELIVALKPDLVILYGGFQAQ---TILDKLEQLGIPVLYVNEYPSPLGRAEWIKFAAAFYGVGKED 124 (186)
T ss_pred CCHHHHhccCCCEEEEecCCCch---hHHHHHHHcCCCEEEeCCCCChhhHHHHHHHHHHHcCCchHH
Confidence 45677777779998875543332 233333677899975322 1 234888888 543
Done!