Query 033750
Match_columns 112
No_of_seqs 148 out of 1016
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 05:53:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033750.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033750hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00106 60S ribosomal protein 100.0 4.9E-36 1.1E-40 202.2 12.6 107 1-108 1-107 (108)
2 PRK07283 hypothetical protein; 100.0 3E-32 6.5E-37 180.8 11.3 96 10-108 2-97 (98)
3 PRK05583 ribosomal protein L7A 100.0 3.7E-32 8.1E-37 182.2 10.8 97 11-109 2-98 (104)
4 PRK07714 hypothetical protein; 100.0 4.7E-32 1E-36 180.2 11.1 98 10-109 2-99 (100)
5 PRK01018 50S ribosomal protein 100.0 1.7E-31 3.8E-36 177.4 11.0 95 12-106 2-96 (99)
6 TIGR03677 rpl7ae 50S ribosomal 100.0 3.8E-30 8.2E-35 175.6 12.0 97 10-107 10-107 (117)
7 PRK04175 rpl7ae 50S ribosomal 100.0 1.4E-29 3.1E-34 173.9 11.9 98 9-107 13-111 (122)
8 PF01248 Ribosomal_L7Ae: Ribos 99.9 2E-26 4.3E-31 150.7 9.3 93 12-105 1-94 (95)
9 COG1358 RPL8A Ribosomal protei 99.9 2E-26 4.2E-31 157.1 9.4 100 8-109 9-109 (116)
10 PRK09190 hypothetical protein; 99.9 2.9E-26 6.2E-31 171.0 10.9 96 10-107 95-196 (220)
11 PRK06683 hypothetical protein; 99.9 8.9E-26 1.9E-30 145.5 10.1 79 18-97 3-81 (82)
12 COG1911 RPL30 Ribosomal protei 99.9 8.9E-26 1.9E-30 148.1 9.9 97 10-106 3-99 (100)
13 PRK13602 putative ribosomal pr 99.9 1.3E-25 2.9E-30 144.6 10.1 77 20-97 5-81 (82)
14 PRK13601 putative L7Ae-like ri 99.9 3.9E-24 8.4E-29 137.9 8.9 73 24-97 6-78 (82)
15 PRK13600 putative ribosomal pr 99.9 4.8E-21 1E-25 123.9 9.8 72 25-97 12-83 (84)
16 KOG2988 60S ribosomal protein 99.8 1.5E-18 3.2E-23 116.1 9.0 111 1-111 1-111 (112)
17 PTZ00222 60S ribosomal protein 99.7 9.2E-18 2E-22 127.0 8.6 73 27-101 133-206 (263)
18 PTZ00365 60S ribosomal protein 99.7 1.6E-16 3.5E-21 120.5 7.5 72 27-100 133-205 (266)
19 KOG3167 Box H/ACA snoRNP compo 99.7 2.1E-16 4.6E-21 109.9 6.8 99 7-106 40-140 (153)
20 KOG3387 60S ribosomal protein 99.5 5.3E-14 1.1E-18 96.5 7.2 92 9-101 17-112 (131)
21 KOG3406 40S ribosomal protein 99.5 4.7E-13 1E-17 91.8 8.9 89 12-101 20-120 (134)
22 PF08032 SpoU_sub_bind: RNA 2' 97.6 0.00023 5E-09 43.8 5.9 70 27-98 1-71 (76)
23 PF08228 RNase_P_pop3: RNase P 96.8 0.0054 1.2E-07 44.0 6.7 84 13-97 37-131 (158)
24 PF03465 eRF1_3: eRF1 domain 3 96.7 0.0031 6.8E-08 42.5 4.6 85 9-97 6-109 (113)
25 TIGR03676 aRF1/eRF1 peptide ch 96.4 0.02 4.4E-07 46.4 7.8 86 8-97 272-399 (403)
26 TIGR00111 pelota probable tran 95.8 0.04 8.7E-07 43.8 7.1 85 9-98 262-348 (351)
27 PRK04011 peptide chain release 95.7 0.055 1.2E-06 44.0 7.6 84 10-97 282-407 (411)
28 TIGR00108 eRF peptide chain re 95.6 0.069 1.5E-06 43.4 7.7 84 10-97 278-403 (409)
29 PRK11181 23S rRNA (guanosine-2 95.2 0.16 3.5E-06 38.3 8.1 72 26-99 3-76 (244)
30 cd01422 MGS Methylglyoxal synt 94.5 0.12 2.6E-06 34.8 5.3 45 29-73 57-106 (115)
31 TIGR00186 rRNA_methyl_3 rRNA m 94.1 0.39 8.5E-06 36.0 7.9 70 26-99 2-71 (237)
32 PRK05234 mgsA methylglyoxal sy 94.0 0.13 2.9E-06 36.0 4.8 57 30-86 63-124 (142)
33 PRK10864 putative methyltransf 93.7 0.48 1E-05 37.9 7.9 78 18-98 101-180 (346)
34 PF02142 MGS: MGS-like domain 92.4 0.23 5E-06 31.9 3.7 41 33-73 51-95 (95)
35 PF10087 DUF2325: Uncharacteri 91.8 0.57 1.2E-05 30.2 5.1 43 41-84 47-92 (97)
36 COG0566 SpoU rRNA methylases [ 91.4 2.2 4.7E-05 32.6 8.7 73 26-101 22-95 (260)
37 smart00851 MGS MGS-like domain 91.2 0.51 1.1E-05 29.9 4.3 48 25-72 38-89 (90)
38 cd00532 MGS-like MGS-like doma 90.7 0.66 1.4E-05 30.7 4.7 44 30-73 55-104 (112)
39 KOG4201 Anthranilate synthase 88.6 1.2 2.5E-05 34.1 5.0 72 27-101 145-217 (289)
40 cd01424 MGS_CPS_II Methylglyox 88.3 1.5 3.2E-05 28.7 4.9 45 29-73 54-100 (110)
41 PF15608 PELOTA_1: PELOTA RNA 86.8 2.8 6E-05 27.9 5.5 51 25-77 38-88 (100)
42 KOG3166 60S ribosomal protein 86.2 0.34 7.4E-06 36.2 1.0 41 27-67 110-151 (209)
43 COG0352 ThiE Thiamine monophos 85.4 6.4 0.00014 29.4 7.5 69 31-103 24-96 (211)
44 PF07997 DUF1694: Protein of u 85.0 2.6 5.7E-05 28.7 4.9 47 32-79 52-98 (120)
45 COG1168 MalY Bifunctional PLP- 83.0 2.7 5.9E-05 34.2 4.9 51 23-73 139-196 (388)
46 COG1503 eRF1 Peptide chain rel 83.0 4.7 0.0001 33.1 6.3 86 9-98 280-406 (411)
47 cd01483 E1_enzyme_family Super 82.1 2.6 5.6E-05 28.5 3.9 35 41-77 88-122 (143)
48 PRK13957 indole-3-glycerol-pho 79.0 16 0.00034 28.0 7.6 73 26-101 109-182 (247)
49 PF13344 Hydrolase_6: Haloacid 79.0 5 0.00011 26.0 4.3 83 24-107 12-97 (101)
50 cd03017 PRX_BCP Peroxiredoxin 78.8 16 0.00034 24.0 7.3 53 33-89 48-100 (140)
51 cd02969 PRX_like1 Peroxiredoxi 78.6 17 0.00038 25.1 7.3 67 33-100 49-119 (171)
52 cd01485 E1-1_like Ubiquitin ac 78.5 2.7 5.8E-05 30.6 3.2 34 42-77 113-146 (198)
53 TIGR00679 hpr-ser Hpr(Ser) kin 78.4 9.8 0.00021 30.0 6.5 53 33-87 73-125 (304)
54 PF00218 IGPS: Indole-3-glycer 78.1 23 0.00051 27.1 8.4 74 25-101 115-189 (254)
55 PF02603 Hpr_kinase_N: HPr Ser 76.6 7.9 0.00017 26.2 5.0 46 33-80 72-117 (127)
56 cd00757 ThiF_MoeB_HesA_family 75.5 3.8 8.3E-05 30.2 3.4 34 42-77 111-144 (228)
57 PLN02591 tryptophan synthase 74.7 29 0.00063 26.4 8.1 80 8-88 60-154 (250)
58 COG1648 CysG Siroheme synthase 74.0 7.2 0.00016 29.0 4.5 56 43-103 73-133 (210)
59 COG1436 NtpG Archaeal/vacuolar 73.3 13 0.00027 24.9 5.1 46 32-77 36-81 (104)
60 cd01492 Aos1_SUMO Ubiquitin ac 73.2 4.7 0.0001 29.3 3.3 34 42-77 110-143 (197)
61 PF03618 Kinase-PPPase: Kinase 73.0 13 0.00029 28.6 5.8 44 46-90 55-100 (255)
62 PRK06512 thiamine-phosphate py 72.1 23 0.00049 26.4 6.8 63 32-98 30-97 (221)
63 PF00578 AhpC-TSA: AhpC/TSA fa 72.0 11 0.00023 24.2 4.5 52 31-88 48-101 (124)
64 cd01491 Ube1_repeat1 Ubiquitin 71.6 4.9 0.00011 31.3 3.3 41 43-85 106-146 (286)
65 PF08534 Redoxin: Redoxin; In 71.1 22 0.00047 23.6 6.1 49 36-88 56-104 (146)
66 cd03012 TlpA_like_DipZ_like Tl 70.7 25 0.00055 22.9 6.3 66 33-99 47-114 (126)
67 PRK15116 sulfur acceptor prote 69.5 17 0.00036 28.1 5.7 46 37-90 116-161 (268)
68 COG2099 CobK Precorrin-6x redu 69.5 11 0.00024 29.1 4.7 60 29-88 53-127 (257)
69 PRK08057 cobalt-precorrin-6x r 69.4 14 0.0003 28.1 5.2 46 30-75 53-99 (248)
70 PF00899 ThiF: ThiF family; I 69.2 7.3 0.00016 26.1 3.4 41 32-76 84-124 (135)
71 cd01423 MGS_CPS_I_III Methylgl 69.1 7.7 0.00017 25.5 3.4 42 32-73 61-106 (116)
72 TIGR00160 MGSA methylglyoxal s 68.9 13 0.00028 26.3 4.6 64 23-87 55-123 (143)
73 PRK00278 trpC indole-3-glycero 68.4 45 0.00098 25.3 7.9 71 26-98 118-188 (260)
74 cd01493 APPBP1_RUB Ubiquitin a 68.2 6.7 0.00014 32.2 3.5 39 46-85 115-153 (425)
75 PF07085 DRTGG: DRTGG domain; 67.9 19 0.00041 23.1 5.0 51 33-85 52-102 (105)
76 PF02571 CbiJ: Precorrin-6x re 67.8 14 0.00031 28.0 5.0 45 30-74 54-99 (249)
77 PF15632 ATPgrasp_Ter: ATP-gra 67.6 16 0.00035 29.0 5.4 52 28-81 8-78 (329)
78 PRK05690 molybdopterin biosynt 67.4 6.8 0.00015 29.5 3.2 34 42-77 122-155 (245)
79 PF07905 PucR: Purine cataboli 67.4 20 0.00044 23.9 5.3 42 35-77 65-107 (123)
80 COG0796 MurI Glutamate racemas 67.2 31 0.00067 26.8 6.8 59 34-95 59-117 (269)
81 TIGR00715 precor6x_red precorr 67.1 12 0.00026 28.6 4.5 45 30-74 53-98 (256)
82 COG1493 HprK Serine kinase of 66.8 27 0.00058 27.7 6.4 52 32-85 71-122 (308)
83 PF13727 CoA_binding_3: CoA-bi 66.0 8.8 0.00019 26.0 3.3 43 30-72 129-172 (175)
84 cd02966 TlpA_like_family TlpA- 65.8 27 0.00059 21.1 6.7 64 34-100 44-107 (116)
85 cd01020 TroA_b Metal binding p 65.7 18 0.00038 27.3 5.2 17 56-72 194-210 (264)
86 TIGR03264 met_CoM_red_C methyl 65.6 3.8 8.3E-05 30.2 1.4 71 15-85 65-148 (194)
87 PRK09437 bcp thioredoxin-depen 65.6 23 0.00049 23.9 5.3 52 32-87 54-105 (154)
88 COG0420 SbcD DNA repair exonuc 65.3 18 0.00039 28.7 5.4 52 31-82 29-89 (390)
89 PRK03147 thiol-disulfide oxido 64.6 42 0.00091 22.8 7.0 12 77-88 126-137 (173)
90 cd03361 TOPRIM_TopoIA_RevGyr T 64.5 27 0.0006 24.8 5.7 58 29-86 103-168 (170)
91 cd02970 PRX_like2 Peroxiredoxi 63.6 39 0.00085 22.1 6.6 50 34-87 49-98 (149)
92 TIGR01470 cysG_Nterm siroheme 63.2 5.9 0.00013 29.0 2.1 63 42-108 69-139 (205)
93 cd00755 YgdL_like Family of ac 63.0 19 0.00042 27.0 4.9 37 36-73 96-132 (231)
94 cd02968 SCO SCO (an acronym fo 62.8 37 0.00081 22.2 5.9 46 42-87 59-107 (142)
95 PF02630 SCO1-SenC: SCO1/SenC; 62.5 20 0.00043 25.4 4.7 53 32-84 76-130 (174)
96 COG0134 TrpC Indole-3-glycerol 62.4 28 0.00061 26.8 5.7 75 25-101 113-187 (254)
97 COG1803 MgsA Methylglyoxal syn 62.4 29 0.00062 24.4 5.2 80 10-91 41-129 (142)
98 PF04609 MCR_C: Methyl-coenzym 61.9 2.8 6.1E-05 32.4 0.2 63 15-78 103-165 (268)
99 COG1537 PelA Predicted RNA-bin 61.5 30 0.00065 28.0 5.9 79 16-97 261-347 (352)
100 TIGR00315 cdhB CO dehydrogenas 61.2 24 0.00052 25.2 4.9 43 31-73 17-60 (162)
101 PF10686 DUF2493: Protein of u 61.2 36 0.00078 20.9 5.5 45 33-77 22-66 (71)
102 KOG4175 Tryptophan synthase al 61.0 33 0.00071 26.1 5.7 64 7-72 75-152 (268)
103 PRK06552 keto-hydroxyglutarate 59.7 32 0.00069 25.5 5.5 63 26-96 67-135 (213)
104 PRK05339 PEP synthetase regula 59.3 33 0.00071 26.7 5.6 48 43-90 58-106 (269)
105 cd01857 HSR1_MMR1 HSR1/MMR1. 57.8 27 0.00059 23.4 4.5 49 32-81 3-54 (141)
106 PRK08328 hypothetical protein; 57.6 15 0.00033 27.3 3.5 34 42-77 118-151 (231)
107 PRK01045 ispH 4-hydroxy-3-meth 57.5 50 0.0011 26.0 6.5 57 36-97 205-262 (298)
108 KOG2016 NEDD8-activating compl 57.5 9.3 0.0002 32.0 2.5 34 43-77 119-152 (523)
109 PLN02821 1-hydroxy-2-methyl-2- 57.4 48 0.0011 27.7 6.6 46 37-83 357-402 (460)
110 PRK00865 glutamate racemase; P 57.3 57 0.0012 24.6 6.6 38 33-73 58-96 (261)
111 PRK05428 HPr kinase/phosphoryl 56.9 44 0.00095 26.4 6.1 44 33-78 73-116 (308)
112 TIGR03025 EPS_sugtrans exopoly 56.4 36 0.00077 27.5 5.7 51 31-82 177-228 (445)
113 TIGR02342 chap_CCT_delta T-com 56.3 41 0.00088 28.0 6.1 56 32-88 263-322 (517)
114 PLN02460 indole-3-glycerol-pho 56.3 63 0.0014 26.0 6.9 73 26-101 188-262 (338)
115 PRK07688 thiamine/molybdopteri 56.3 17 0.00036 28.8 3.7 34 42-77 116-149 (339)
116 cd01028 TOPRIM_TopoIA TOPRIM_T 56.1 41 0.00089 22.9 5.3 45 41-85 89-139 (142)
117 PRK05724 acetyl-CoA carboxylas 56.1 13 0.00029 29.5 3.1 33 43-75 108-158 (319)
118 PRK13802 bifunctional indole-3 56.0 1.1E+02 0.0023 27.0 8.7 84 16-101 101-191 (695)
119 PRK06153 hypothetical protein; 55.9 30 0.00064 28.4 5.1 61 41-105 265-325 (393)
120 PRK12475 thiamine/molybdopteri 55.5 16 0.00035 28.9 3.5 34 42-77 116-149 (338)
121 PF02401 LYTB: LytB protein; 55.2 71 0.0015 24.8 7.0 58 35-97 203-261 (281)
122 TIGR02355 moeB molybdopterin s 55.2 17 0.00036 27.3 3.4 31 42-73 114-144 (240)
123 smart00187 INB Integrin beta s 54.9 41 0.00088 27.9 5.8 90 12-106 188-329 (423)
124 PF08862 DUF1829: Domain of un 54.6 25 0.00055 22.4 3.7 46 28-73 39-84 (88)
125 PF00205 TPP_enzyme_M: Thiamin 54.5 8 0.00017 25.9 1.5 44 32-75 2-46 (137)
126 TIGR00216 ispH_lytB (E)-4-hydr 54.4 58 0.0013 25.4 6.3 52 42-97 208-260 (280)
127 COG1707 ACT domain-containing 54.3 42 0.00091 24.8 5.2 70 28-105 123-197 (218)
128 cd01489 Uba2_SUMO Ubiquitin ac 54.1 19 0.00041 28.4 3.7 35 42-78 90-124 (312)
129 PF13905 Thioredoxin_8: Thiore 54.1 48 0.001 20.1 6.3 61 35-99 27-91 (95)
130 PF00009 GTP_EFTU: Elongation 54.0 17 0.00036 25.5 3.1 47 32-79 85-132 (188)
131 TIGR00513 accA acetyl-CoA carb 53.7 15 0.00033 29.1 3.1 32 43-74 108-157 (316)
132 PF01297 TroA: Periplasmic sol 53.6 33 0.00071 25.4 4.8 19 54-72 185-203 (256)
133 cd03338 TCP1_delta TCP-1 (CTT 53.4 51 0.0011 27.3 6.3 55 33-88 263-321 (515)
134 KOG2014 SMT3/SUMO-activating c 53.4 9.6 0.00021 30.4 1.9 28 46-73 123-150 (331)
135 cd01484 E1-2_like Ubiquitin ac 53.2 21 0.00046 26.8 3.7 35 41-77 90-124 (234)
136 cd03018 PRX_AhpE_like Peroxire 53.2 51 0.0011 21.8 5.3 52 33-88 53-106 (149)
137 TIGR03023 WcaJ_sugtrans Undeca 52.9 42 0.00092 27.1 5.6 51 31-82 180-231 (451)
138 PF13407 Peripla_BP_4: Peripla 52.6 46 0.00099 23.8 5.3 44 33-78 46-89 (257)
139 PRK05562 precorrin-2 dehydroge 52.5 26 0.00056 26.3 4.0 62 43-108 86-155 (223)
140 cd03420 SirA_RHOD_Pry_redox Si 52.3 41 0.00088 20.1 4.3 35 36-73 21-55 (69)
141 TIGR01917 gly_red_sel_B glycin 52.0 39 0.00085 28.0 5.2 65 32-97 326-392 (431)
142 PRK13111 trpA tryptophan synth 51.6 93 0.002 23.7 7.0 80 8-88 70-165 (258)
143 TIGR00035 asp_race aspartate r 51.2 40 0.00086 24.8 4.8 40 31-73 64-103 (229)
144 COG1880 CdhB CO dehydrogenase/ 51.0 44 0.00094 24.3 4.7 52 34-88 28-80 (170)
145 cd03769 SR_IS607_transposase_l 50.9 42 0.00091 22.7 4.6 45 29-73 49-95 (134)
146 TIGR03729 acc_ester putative p 50.5 59 0.0013 23.8 5.7 48 32-79 22-72 (239)
147 cd03011 TlpA_like_ScsD_MtbDsbE 49.8 65 0.0014 20.5 5.9 55 43-100 49-103 (123)
148 PF07498 Rho_N: Rho terminatio 49.6 8 0.00017 21.4 0.7 30 55-85 5-34 (43)
149 PF02844 GARS_N: Phosphoribosy 49.4 33 0.00071 22.7 3.7 39 32-72 52-90 (100)
150 PLN03230 acetyl-coenzyme A car 49.1 24 0.00051 29.3 3.5 34 43-76 178-229 (431)
151 cd01821 Rhamnogalacturan_acety 48.3 48 0.001 23.2 4.7 17 57-73 135-151 (198)
152 PF02037 SAP: SAP domain; Int 48.1 19 0.00042 18.9 2.0 24 56-82 5-28 (35)
153 cd02971 PRX_family Peroxiredox 47.9 75 0.0016 20.6 7.2 50 33-88 47-99 (140)
154 PRK00945 acetyl-CoA decarbonyl 47.8 53 0.0012 23.7 4.9 42 32-73 25-68 (171)
155 PRK06091 membrane protein FdrA 47.5 48 0.001 28.4 5.2 44 32-77 132-175 (555)
156 TIGR01182 eda Entner-Doudoroff 47.5 54 0.0012 24.3 5.0 68 15-88 47-121 (204)
157 cd07402 MPP_GpdQ Enterobacter 47.3 68 0.0015 23.0 5.5 55 32-86 28-91 (240)
158 PRK12360 4-hydroxy-3-methylbut 47.1 81 0.0018 24.6 6.1 52 42-98 209-262 (281)
159 COG0159 TrpA Tryptophan syntha 46.9 1.1E+02 0.0025 23.7 6.8 89 8-97 75-183 (265)
160 cd07396 MPP_Nbla03831 Homo sap 46.4 63 0.0014 24.1 5.4 48 32-79 30-84 (267)
161 CHL00198 accA acetyl-CoA carbo 46.3 24 0.00052 28.1 3.1 33 43-75 111-161 (322)
162 PRK13371 4-hydroxy-3-methylbut 46.2 1E+02 0.0022 25.3 6.7 47 35-83 281-328 (387)
163 TIGR01295 PedC_BrcD bacterioci 45.8 83 0.0018 20.9 5.4 52 25-77 7-61 (122)
164 PF13728 TraF: F plasmid trans 45.5 1.2E+02 0.0026 22.3 6.9 69 30-99 110-192 (215)
165 TIGR02356 adenyl_thiF thiazole 45.4 31 0.00068 25.0 3.5 34 42-77 111-144 (202)
166 cd01822 Lysophospholipase_L1_l 45.4 70 0.0015 21.5 5.1 46 28-73 87-140 (177)
167 PLN00144 acetylornithine trans 45.3 36 0.00079 26.9 4.1 50 32-82 157-214 (382)
168 TIGR01918 various_sel_PB selen 45.2 57 0.0012 27.1 5.2 65 32-97 326-392 (431)
169 cd01487 E1_ThiF_like E1_ThiF_l 45.2 32 0.00069 24.4 3.4 31 42-73 88-119 (174)
170 PF10281 Ish1: Putative stress 45.1 20 0.00044 19.1 1.8 26 58-84 7-33 (38)
171 PRK13010 purU formyltetrahydro 44.9 65 0.0014 25.0 5.3 38 31-73 107-146 (289)
172 PRK12723 flagellar biosynthesi 44.9 1E+02 0.0022 25.1 6.5 55 42-98 206-261 (388)
173 TIGR00067 glut_race glutamate 44.7 1.2E+02 0.0026 22.8 6.7 48 34-83 52-101 (251)
174 COG1748 LYS9 Saccharopine dehy 44.5 51 0.0011 26.9 4.8 76 24-105 51-133 (389)
175 cd03362 TOPRIM_TopoIA_TopoIII 44.5 90 0.002 21.5 5.5 44 42-85 98-148 (151)
176 TIGR02740 TraF-like TraF-like 44.4 1.3E+02 0.0028 23.0 6.8 68 31-99 157-238 (271)
177 COG4639 Predicted kinase [Gene 43.7 1E+02 0.0022 22.4 5.7 38 32-70 60-97 (168)
178 PF13545 HTH_Crp_2: Crp-like h 43.5 24 0.00053 20.9 2.2 33 58-90 5-43 (76)
179 PRK14722 flhF flagellar biosyn 43.4 63 0.0014 26.1 5.2 62 40-102 165-227 (374)
180 PRK02615 thiamine-phosphate py 43.3 1.1E+02 0.0024 24.5 6.5 62 33-98 162-227 (347)
181 PRK03512 thiamine-phosphate py 43.3 1E+02 0.0023 22.6 6.0 63 32-98 23-89 (211)
182 KOG2486 Predicted GTPase [Gene 43.2 30 0.00065 27.5 3.2 38 46-84 223-263 (320)
183 PF11823 DUF3343: Protein of u 42.9 20 0.00043 21.7 1.8 30 58-88 15-44 (73)
184 COG2047 Uncharacterized protei 42.9 39 0.00084 26.0 3.6 65 41-108 82-153 (258)
185 smart00513 SAP Putative DNA-bi 42.5 31 0.00067 17.9 2.3 24 56-82 5-28 (35)
186 COG1535 EntB Isochorismate hyd 42.5 22 0.00047 26.6 2.2 16 58-74 61-76 (218)
187 COG4052 Uncharacterized protei 42.3 13 0.00028 28.8 1.0 67 16-83 106-172 (310)
188 cd01537 PBP1_Repressors_Sugar_ 42.1 76 0.0016 22.1 5.0 40 32-73 45-84 (264)
189 TIGR01663 PNK-3'Pase polynucle 41.8 73 0.0016 27.0 5.5 43 32-75 411-453 (526)
190 PRK11018 hypothetical protein; 41.8 73 0.0016 19.6 4.3 37 34-73 28-64 (78)
191 cd03339 TCP1_epsilon TCP-1 (CT 41.5 96 0.0021 25.8 6.1 49 34-87 279-330 (526)
192 PRK02627 acetylornithine amino 41.3 47 0.001 25.8 4.1 50 32-83 173-230 (396)
193 PRK01395 V-type ATP synthase s 41.2 37 0.00079 22.4 3.0 51 27-78 27-80 (104)
194 COG1167 ARO8 Transcriptional r 41.2 69 0.0015 26.2 5.2 42 32-73 216-265 (459)
195 TIGR01460 HAD-SF-IIA Haloacid 41.2 67 0.0015 23.6 4.7 47 23-69 11-57 (236)
196 PRK09331 Sep-tRNA:Cys-tRNA syn 41.2 61 0.0013 25.5 4.8 43 31-73 141-193 (387)
197 cd03027 GRX_DEP Glutaredoxin ( 41.2 74 0.0016 18.6 4.3 42 45-87 3-49 (73)
198 PF02581 TMP-TENI: Thiamine mo 41.1 1.3E+02 0.0027 21.2 6.4 61 33-98 17-82 (180)
199 COG1419 FlhF Flagellar GTP-bin 41.0 71 0.0015 26.4 5.1 61 39-100 230-291 (407)
200 cd01850 CDC_Septin CDC/Septin. 40.9 1.2E+02 0.0025 23.1 6.1 64 32-96 134-209 (276)
201 TIGR01456 CECR5 HAD-superfamil 40.9 51 0.0011 25.6 4.2 48 23-70 13-64 (321)
202 PRK05597 molybdopterin biosynt 40.8 37 0.00081 26.9 3.5 31 42-73 118-148 (355)
203 TIGR03531 selenium_SpcS O-phos 40.8 63 0.0014 26.7 4.9 47 27-73 187-240 (444)
204 PRK00124 hypothetical protein; 40.6 40 0.00086 24.0 3.2 29 46-76 3-31 (151)
205 TIGR02634 xylF D-xylose ABC tr 40.1 89 0.0019 23.4 5.4 40 33-73 45-84 (302)
206 PRK09590 celB cellobiose phosp 39.8 42 0.00092 22.1 3.1 44 29-73 37-80 (104)
207 TIGR01019 sucCoAalpha succinyl 39.6 90 0.0019 24.3 5.4 39 35-73 81-119 (286)
208 PRK09932 glycerate kinase II; 39.6 97 0.0021 25.3 5.7 73 24-99 262-347 (381)
209 PF01990 ATP-synt_F: ATP synth 39.5 40 0.00087 21.4 2.9 40 39-78 39-78 (95)
210 cd07388 MPP_Tt1561 Thermus the 39.4 86 0.0019 23.4 5.1 47 33-79 22-73 (224)
211 COG4294 Uve UV damage repair e 39.0 23 0.0005 28.3 2.0 61 12-72 161-234 (347)
212 PRK00087 4-hydroxy-3-methylbut 39.0 1.1E+02 0.0024 26.3 6.3 51 42-97 206-258 (647)
213 PF01081 Aldolase: KDPG and KH 38.8 77 0.0017 23.3 4.7 59 23-87 56-120 (196)
214 TIGR02339 thermosome_arch ther 38.7 98 0.0021 25.7 5.8 48 33-85 273-320 (519)
215 cd00615 Orn_deC_like Ornithine 38.6 77 0.0017 23.9 4.8 42 31-73 142-188 (294)
216 TIGR03022 WbaP_sugtrans Undeca 38.5 71 0.0015 25.8 4.8 53 29-82 175-229 (456)
217 cd06312 PBP1_ABC_sugar_binding 38.5 98 0.0021 22.3 5.2 40 33-73 48-87 (271)
218 PRK12319 acetyl-CoA carboxylas 38.4 38 0.00082 26.0 3.1 18 58-75 88-105 (256)
219 PRK05294 carB carbamoyl phosph 38.4 50 0.0011 30.1 4.2 56 30-85 992-1049(1066)
220 TIGR02343 chap_CCT_epsi T-comp 38.3 1.1E+02 0.0024 25.6 6.0 49 34-87 283-334 (532)
221 cd05017 SIS_PGI_PMI_1 The memb 38.1 1.1E+02 0.0023 19.9 4.9 44 44-88 45-89 (119)
222 cd01018 ZntC Metal binding pro 38.1 71 0.0015 24.0 4.5 23 52-75 201-223 (266)
223 TIGR03697 NtcA_cyano global ni 38.1 39 0.00085 23.3 2.9 41 50-90 113-158 (193)
224 TIGR00655 PurU formyltetrahydr 37.9 1.2E+02 0.0027 23.4 5.9 37 32-73 99-137 (280)
225 cd06282 PBP1_GntR_like_2 Ligan 37.9 98 0.0021 21.9 5.1 39 33-73 46-84 (266)
226 PRK09427 bifunctional indole-3 37.7 94 0.002 25.8 5.5 74 25-101 116-190 (454)
227 cd06267 PBP1_LacI_sugar_bindin 37.7 99 0.0022 21.6 5.0 38 33-73 46-83 (264)
228 smart00685 DM14 Repeats in fly 37.6 22 0.00049 21.3 1.4 26 18-43 24-49 (59)
229 cd01994 Alpha_ANH_like_IV This 37.2 1.6E+02 0.0034 21.3 7.1 59 42-101 88-150 (194)
230 cd06378 PBP1_iGluR_NMDA_NR2 N- 37.0 59 0.0013 25.6 4.1 43 32-74 52-95 (362)
231 cd06318 PBP1_ABC_sugar_binding 37.0 1.1E+02 0.0024 22.0 5.3 40 33-73 46-85 (282)
232 cd01016 TroA Metal binding pro 36.9 73 0.0016 24.2 4.4 22 52-73 194-215 (276)
233 PRK13190 putative peroxiredoxi 36.9 1.6E+02 0.0035 21.2 7.2 55 31-87 50-108 (202)
234 PLN02721 threonine aldolase 36.8 92 0.002 23.5 5.0 43 31-73 120-176 (353)
235 TIGR03499 FlhF flagellar biosy 36.8 1.5E+02 0.0032 22.6 6.1 46 41-87 223-269 (282)
236 cd00378 SHMT Serine-glycine hy 36.7 84 0.0018 24.4 4.9 44 30-73 149-194 (402)
237 COG0533 QRI7 Metal-dependent p 36.6 73 0.0016 25.7 4.5 44 32-76 251-296 (342)
238 cd01539 PBP1_GGBP Periplasmic 36.4 1.1E+02 0.0024 22.8 5.3 39 33-73 48-87 (303)
239 TIGR02181 GRX_bact Glutaredoxi 36.4 93 0.002 18.3 4.5 35 38-72 19-53 (79)
240 cd06383 PBP1_iGluR_AMPA_Like N 36.3 1E+02 0.0022 24.3 5.3 40 34-74 58-97 (368)
241 COG0800 Eda 2-keto-3-deoxy-6-p 36.3 99 0.0021 23.2 4.9 49 31-85 75-123 (211)
242 PRK06015 keto-hydroxyglutarate 36.1 1.3E+02 0.0028 22.2 5.5 59 24-88 53-117 (201)
243 PF13519 VWA_2: von Willebrand 36.0 89 0.0019 20.5 4.4 48 26-73 81-131 (172)
244 PRK08762 molybdopterin biosynt 36.0 42 0.0009 26.7 3.1 34 42-77 225-258 (376)
245 cd00338 Ser_Recombinase Serine 35.7 1.2E+02 0.0026 19.6 4.9 45 29-73 52-100 (137)
246 PF13167 GTP-bdg_N: GTP-bindin 35.4 1.1E+02 0.0025 19.9 4.6 60 10-72 6-84 (95)
247 cd03363 TOPRIM_TopoIA_TopoI TO 35.3 77 0.0017 21.2 3.9 44 41-85 71-120 (123)
248 TIGR01369 CPSaseII_lrg carbamo 35.2 55 0.0012 29.8 4.0 44 30-73 992-1038(1050)
249 PF01041 DegT_DnrJ_EryC1: DegT 35.2 64 0.0014 25.2 4.0 45 29-73 101-145 (363)
250 TIGR02720 pyruv_oxi_spxB pyruv 35.0 88 0.0019 26.3 5.0 44 31-75 190-233 (575)
251 cd04795 SIS SIS domain. SIS (S 34.9 99 0.0021 18.2 5.8 60 46-105 2-63 (87)
252 PLN03229 acetyl-coenzyme A car 34.9 42 0.00091 29.8 3.1 34 43-76 199-250 (762)
253 smart00857 Resolvase Resolvase 34.8 1.3E+02 0.0028 19.9 5.0 44 29-73 52-100 (148)
254 PRK07377 hypothetical protein; 34.8 1.4E+02 0.0031 22.0 5.4 57 41-99 75-138 (184)
255 COG1363 FrvX Cellulase M and r 34.8 42 0.0009 27.1 2.9 52 46-97 257-316 (355)
256 cd03013 PRX5_like Peroxiredoxi 34.7 1.4E+02 0.0031 20.4 5.3 52 30-87 52-108 (155)
257 cd06300 PBP1_ABC_sugar_binding 34.7 1.2E+02 0.0026 21.7 5.2 40 33-73 51-90 (272)
258 PRK10124 putative UDP-glucose 34.6 1.2E+02 0.0025 25.0 5.5 49 32-81 193-242 (463)
259 COG1105 FruK Fructose-1-phosph 34.5 78 0.0017 25.1 4.3 20 70-90 179-198 (310)
260 PLN02828 formyltetrahydrofolat 34.4 1E+02 0.0022 23.8 4.9 46 28-73 77-128 (268)
261 KOG3009 Predicted carbohydrate 34.3 1.1E+02 0.0023 26.2 5.2 63 42-107 425-488 (614)
262 cd04165 GTPBP1_like GTPBP1-lik 34.2 71 0.0015 23.5 3.9 48 33-81 100-150 (224)
263 cd01391 Periplasmic_Binding_Pr 34.2 1.2E+02 0.0025 20.8 4.8 39 33-73 49-87 (269)
264 PLN02645 phosphoglycolate phos 34.2 90 0.0019 24.0 4.6 34 24-57 42-75 (311)
265 PF06971 Put_DNA-bind_N: Putat 34.2 90 0.0019 17.9 3.5 34 52-89 3-42 (50)
266 PRK00011 glyA serine hydroxyme 34.2 98 0.0021 24.3 4.9 43 31-73 154-198 (416)
267 PRK07114 keto-hydroxyglutarate 34.2 1.5E+02 0.0033 22.2 5.6 58 25-88 69-132 (222)
268 cd06281 PBP1_LacI_like_5 Ligan 34.1 1.2E+02 0.0025 21.8 5.0 42 32-76 45-86 (269)
269 PF00462 Glutaredoxin: Glutare 34.1 89 0.0019 17.5 4.3 39 34-72 15-53 (60)
270 PRK13011 formyltetrahydrofolat 33.9 1E+02 0.0022 23.9 4.9 38 31-73 103-142 (286)
271 TIGR01452 PGP_euk phosphoglyco 33.9 85 0.0019 23.6 4.4 31 24-54 16-46 (279)
272 PRK06036 translation initiatio 33.9 77 0.0017 25.4 4.2 40 34-73 218-264 (339)
273 cd01482 vWA_collagen_alphaI-XI 33.9 1.5E+02 0.0033 20.1 7.8 87 12-98 63-163 (164)
274 PRK07524 hypothetical protein; 33.8 87 0.0019 25.9 4.7 43 32-75 192-234 (535)
275 cd06295 PBP1_CelR Ligand bindi 33.7 1.4E+02 0.0031 21.4 5.5 38 32-73 54-92 (275)
276 PF11111 CENP-M: Centromere pr 33.6 67 0.0015 23.5 3.6 35 43-78 97-136 (176)
277 TIGR00300 conserved hypothetic 33.6 77 0.0017 26.1 4.2 46 11-77 267-312 (407)
278 PRK14072 6-phosphofructokinase 33.6 70 0.0015 26.2 4.1 49 29-77 90-141 (416)
279 PRK09792 4-aminobutyrate trans 33.6 86 0.0019 25.2 4.6 51 32-83 184-246 (421)
280 TIGR00045 glycerate kinase. Th 33.5 1E+02 0.0022 25.1 4.9 73 24-99 261-346 (375)
281 PRK11148 cyclic 3',5'-adenosin 33.5 1.4E+02 0.003 22.4 5.4 47 31-77 42-94 (275)
282 cd01147 HemV-2 Metal binding p 33.4 1.8E+02 0.0038 21.0 5.9 56 32-89 64-128 (262)
283 PRK12815 carB carbamoyl phosph 33.4 71 0.0015 29.2 4.4 57 29-85 991-1049(1068)
284 cd06451 AGAT_like Alanine-glyo 33.1 1.1E+02 0.0023 23.4 4.8 43 31-73 113-159 (356)
285 cd06313 PBP1_ABC_sugar_binding 33.0 1.4E+02 0.0031 21.7 5.4 40 33-73 46-85 (272)
286 PRK05703 flhF flagellar biosyn 33.0 1.6E+02 0.0034 24.1 6.0 61 40-101 249-310 (424)
287 PF01890 CbiG_C: Cobalamin syn 33.0 38 0.00082 22.8 2.1 26 58-85 48-73 (121)
288 PRK08644 thiamine biosynthesis 32.8 63 0.0014 23.7 3.4 31 42-73 117-148 (212)
289 PF13911 AhpC-TSA_2: AhpC/TSA 32.8 1.3E+02 0.0028 19.3 4.6 52 35-90 6-57 (115)
290 PF05889 SLA_LP_auto_ag: Solub 32.8 76 0.0016 26.0 4.1 46 28-73 138-190 (389)
291 PRK06939 2-amino-3-ketobutyrat 32.6 1.2E+02 0.0025 23.4 5.1 42 32-73 159-209 (397)
292 PRK02228 V-type ATP synthase s 32.6 1.4E+02 0.003 19.3 4.9 38 39-76 41-78 (100)
293 TIGR00530 AGP_acyltrn 1-acyl-s 32.5 1.3E+02 0.0029 19.0 4.8 42 31-72 79-125 (130)
294 PF03446 NAD_binding_2: NAD bi 32.4 1.3E+02 0.0029 20.6 4.9 33 41-73 85-117 (163)
295 PF09778 Guanylate_cyc_2: Guan 32.4 1.1E+02 0.0024 22.9 4.6 42 58-101 93-134 (212)
296 PF02347 GDC-P: Glycine cleava 32.4 65 0.0014 26.7 3.7 62 41-106 152-213 (429)
297 PF02421 FeoB_N: Ferrous iron 32.1 1.2E+02 0.0027 21.3 4.7 69 34-105 70-153 (156)
298 TIGR00583 mre11 DNA repair pro 31.9 1.4E+02 0.0031 24.4 5.6 24 31-54 31-54 (405)
299 PRK08574 cystathionine gamma-s 31.8 1.1E+02 0.0025 24.2 5.0 43 31-73 126-172 (385)
300 PF01751 Toprim: Toprim domain 31.8 65 0.0014 20.3 3.0 35 33-67 48-87 (100)
301 PRK13238 tnaA tryptophanase/L- 31.8 1.1E+02 0.0025 25.0 5.1 43 31-73 163-216 (460)
302 TIGR00853 pts-lac PTS system, 31.8 48 0.001 21.3 2.4 53 29-86 39-91 (95)
303 TIGR03603 cyclo_dehy_ocin bact 31.7 65 0.0014 25.3 3.5 32 42-73 151-183 (318)
304 TIGR03772 anch_rpt_subst ancho 31.6 1.1E+02 0.0025 25.6 5.0 34 54-88 406-447 (479)
305 PF13867 SAP30_Sin3_bdg: Sin3 31.6 23 0.0005 20.5 0.7 32 59-91 5-36 (53)
306 COG0182 Predicted translation 31.6 68 0.0015 25.9 3.5 40 34-73 220-267 (346)
307 PF02593 dTMP_synthase: Thymid 31.5 1.2E+02 0.0026 22.8 4.7 53 36-89 70-134 (217)
308 cd03343 cpn60 cpn60 chaperonin 31.3 1.4E+02 0.0031 24.7 5.6 47 34-85 271-317 (517)
309 cd06367 PBP1_iGluR_NMDA N-term 31.3 81 0.0018 24.1 4.0 50 31-81 52-103 (362)
310 TIGR00789 flhB_rel flhB C-term 31.2 75 0.0016 20.1 3.1 27 56-86 28-54 (82)
311 TIGR01408 Ube1 ubiquitin-activ 31.1 50 0.0011 30.2 3.0 41 42-84 110-152 (1008)
312 COG0403 GcvP Glycine cleavage 31.1 2.4E+02 0.0051 23.7 6.7 62 39-102 160-222 (450)
313 PLN02607 1-aminocyclopropane-1 30.9 1.2E+02 0.0026 24.7 5.0 33 41-73 199-238 (447)
314 TIGR01692 HIBADH 3-hydroxyisob 30.8 65 0.0014 24.4 3.3 31 43-73 83-113 (288)
315 PRK10444 UMP phosphatase; Prov 30.5 1.8E+02 0.0039 21.7 5.6 35 24-58 15-49 (248)
316 TIGR00619 sbcd exonuclease Sbc 30.5 1.6E+02 0.0034 22.1 5.3 24 32-55 29-52 (253)
317 TIGR01689 EcbF-BcbF capsule bi 30.4 1.2E+02 0.0025 20.7 4.2 44 29-73 27-82 (126)
318 PRK06027 purU formyltetrahydro 30.3 1.2E+02 0.0026 23.4 4.7 38 31-73 103-142 (286)
319 cd01017 AdcA Metal binding pro 30.1 1.1E+02 0.0025 23.0 4.5 63 25-88 171-245 (282)
320 PRK07561 DNA topoisomerase I s 30.1 46 0.001 29.7 2.6 76 29-105 71-154 (859)
321 PRK02936 argD acetylornithine 29.9 1.1E+02 0.0025 23.6 4.6 41 32-73 158-206 (377)
322 cd04501 SGNH_hydrolase_like_4 29.9 69 0.0015 21.9 3.1 46 28-73 82-143 (183)
323 COG2102 Predicted ATPases of P 29.8 2.5E+02 0.0054 21.3 6.9 72 31-103 75-150 (223)
324 COG1105 FruK Fructose-1-phosph 29.8 2.5E+02 0.0053 22.3 6.4 47 41-88 128-178 (310)
325 PLN02242 methionine gamma-lyas 29.6 1.1E+02 0.0024 24.8 4.5 43 31-73 152-198 (418)
326 TIGR01117 mmdA methylmalonyl-C 29.6 77 0.0017 26.7 3.8 34 43-76 315-358 (512)
327 cd03015 PRX_Typ2cys Peroxiredo 29.5 1.9E+02 0.0042 19.9 7.2 57 32-88 53-112 (173)
328 PF05621 TniB: Bacterial TniB 29.5 1.2E+02 0.0026 24.0 4.5 75 9-84 111-195 (302)
329 PRK10200 putative racemase; Pr 29.5 88 0.0019 23.2 3.7 38 33-73 66-103 (230)
330 cd06322 PBP1_ABC_sugar_binding 29.5 1.5E+02 0.0034 21.0 5.0 43 32-76 45-87 (267)
331 PF07505 Gp37_Gp68: Phage prot 29.5 89 0.0019 24.1 3.8 33 40-72 186-225 (261)
332 PRK05647 purN phosphoribosylgl 29.4 1.5E+02 0.0032 21.6 4.8 40 31-73 15-56 (200)
333 cd06294 PBP1_ycjW_transcriptio 29.4 1.7E+02 0.0037 20.8 5.2 39 33-76 51-90 (270)
334 PRK12290 thiE thiamine-phospha 29.3 1.9E+02 0.0041 24.1 5.9 62 32-97 221-286 (437)
335 PLN02884 6-phosphofructokinase 29.1 86 0.0019 25.7 3.9 52 26-77 127-181 (411)
336 cd06299 PBP1_LacI_like_13 Liga 28.9 1.7E+02 0.0038 20.7 5.2 38 33-73 46-83 (265)
337 cd06380 PBP1_iGluR_AMPA N-term 28.8 95 0.0021 24.0 4.0 46 29-77 50-95 (382)
338 cd00331 IGPS Indole-3-glycerol 28.8 2.2E+02 0.0048 20.4 7.8 64 32-97 85-148 (217)
339 PTZ00340 O-sialoglycoprotein e 28.8 1E+02 0.0023 24.7 4.2 44 32-76 253-298 (345)
340 PLN03028 pyrophosphate--fructo 28.7 57 0.0012 28.3 2.9 48 30-77 161-211 (610)
341 TIGR02742 TrbC_Ftype type-F co 28.7 1E+02 0.0022 21.2 3.7 28 45-72 2-29 (130)
342 PRK10342 glycerate kinase I; P 28.6 1.3E+02 0.0028 24.5 4.8 73 24-99 262-347 (381)
343 TIGR03351 PhnX-like phosphonat 28.3 1.9E+02 0.0042 20.3 5.3 39 25-63 86-124 (220)
344 cd06309 PBP1_YtfQ_like Peripla 28.2 1.6E+02 0.0035 21.1 5.0 42 34-77 47-88 (273)
345 cd00617 Tnase_like Tryptophana 28.1 1.1E+02 0.0025 25.0 4.4 43 31-73 138-191 (431)
346 cd01894 EngA1 EngA1 subfamily. 28.1 1.2E+02 0.0027 19.5 4.0 22 59-81 96-117 (157)
347 COG1151 6Fe-6S prismane cluste 28.0 1.8E+02 0.0039 25.2 5.6 59 33-91 398-465 (576)
348 PRK05600 thiamine biosynthesis 27.9 78 0.0017 25.4 3.4 31 42-73 131-161 (370)
349 TIGR02346 chap_CCT_theta T-com 27.9 2.2E+02 0.0048 23.8 6.2 51 33-88 270-323 (531)
350 cd06324 PBP1_ABC_sugar_binding 27.9 1.6E+02 0.0034 22.0 4.9 39 33-73 47-87 (305)
351 cd01143 YvrC Periplasmic bindi 27.9 1.7E+02 0.0037 20.0 4.8 55 32-90 50-113 (195)
352 cd06292 PBP1_LacI_like_10 Liga 27.8 1.9E+02 0.0042 20.6 5.3 43 33-76 46-90 (273)
353 TIGR00461 gcvP glycine dehydro 27.7 3.1E+02 0.0068 25.1 7.4 58 40-103 150-207 (939)
354 cd03770 SR_TndX_transposase Se 27.5 1.5E+02 0.0033 19.9 4.4 44 29-73 55-104 (140)
355 PF01039 Carboxyl_trans: Carbo 27.5 43 0.00094 27.8 1.9 34 43-76 294-337 (493)
356 PRK09517 multifunctional thiam 27.3 2.4E+02 0.0053 24.8 6.6 62 32-98 23-88 (755)
357 cd06452 SepCysS Sep-tRNA:Cys-t 27.3 1.4E+02 0.0031 22.9 4.7 42 32-73 123-174 (361)
358 COG1671 Uncharacterized protei 27.3 90 0.002 22.2 3.3 31 46-78 4-34 (150)
359 cd03418 GRX_GRXb_1_3_like Glut 27.2 1.3E+02 0.0029 17.3 4.9 9 65-73 21-29 (75)
360 KOG1468 Predicted translation 27.2 1.3E+02 0.0029 24.0 4.4 56 33-88 224-288 (354)
361 PRK01889 GTPase RsgA; Reviewed 27.2 67 0.0014 25.5 2.9 37 45-82 117-155 (356)
362 cd06273 PBP1_GntR_like_1 This 27.2 2.2E+02 0.0047 20.2 5.4 39 33-76 46-85 (268)
363 PRK10637 cysG siroheme synthas 27.1 1.1E+02 0.0024 25.1 4.2 61 43-107 73-141 (457)
364 PLN02331 phosphoribosylglycina 27.1 1.6E+02 0.0035 21.7 4.7 39 32-73 14-54 (207)
365 PRK07027 cobalamin biosynthesi 26.9 68 0.0015 21.7 2.5 27 56-84 48-74 (126)
366 cd06379 PBP1_iGluR_NMDA_NR1 N- 26.8 1.3E+02 0.0027 23.3 4.4 34 41-74 79-115 (377)
367 COG2870 RfaE ADP-heptose synth 26.8 2.6E+02 0.0056 23.5 6.2 47 41-88 142-206 (467)
368 cd06454 KBL_like KBL_like; thi 26.8 1.7E+02 0.0037 21.9 5.0 42 32-73 118-167 (349)
369 PRK06702 O-acetylhomoserine am 26.8 1.4E+02 0.0031 24.4 4.8 41 32-73 138-182 (432)
370 COG0550 TopA Topoisomerase IA 26.8 83 0.0018 27.0 3.5 76 31-107 63-147 (570)
371 TIGR01664 DNA-3'-Pase DNA 3'-p 26.8 2E+02 0.0043 20.0 5.0 44 28-71 44-95 (166)
372 PF04414 tRNA_deacylase: D-ami 26.7 1.3E+02 0.0029 22.4 4.3 43 30-72 169-212 (213)
373 cd01825 SGNH_hydrolase_peri1 S 26.7 1.7E+02 0.0037 19.8 4.6 46 28-73 80-142 (189)
374 TIGR03659 IsdE heme ABC transp 26.7 1.8E+02 0.0039 21.7 5.1 53 33-89 82-142 (289)
375 PF04244 DPRP: Deoxyribodipyri 26.7 1.6E+02 0.0035 22.0 4.7 55 32-86 81-140 (224)
376 PRK08611 pyruvate oxidase; Pro 26.6 1.5E+02 0.0033 24.8 5.1 41 32-73 194-234 (576)
377 cd06423 CESA_like CESA_like is 26.5 1.4E+02 0.0031 18.8 4.1 34 33-66 14-50 (180)
378 cd06310 PBP1_ABC_sugar_binding 26.5 1.9E+02 0.0042 20.6 5.1 40 34-76 49-89 (273)
379 TIGR00036 dapB dihydrodipicoli 26.5 1.7E+02 0.0037 22.1 4.9 30 41-72 67-96 (266)
380 COG1999 Uncharacterized protei 26.4 2.6E+02 0.0056 20.4 5.9 45 40-84 102-147 (207)
381 cd06301 PBP1_rhizopine_binding 26.4 1.8E+02 0.004 20.7 4.9 40 33-73 47-86 (272)
382 TIGR00693 thiE thiamine-phosph 26.3 2.3E+02 0.005 19.8 6.1 54 32-88 17-75 (196)
383 PRK07742 phosphate butyryltran 26.3 3E+02 0.0066 21.2 6.4 53 32-85 4-56 (299)
384 PRK00299 sulfur transfer prote 26.3 1.5E+02 0.0033 18.3 3.9 38 33-73 28-65 (81)
385 PRK07525 sulfoacetaldehyde ace 26.3 1.6E+02 0.0035 24.7 5.2 42 32-73 191-233 (588)
386 PF00290 Trp_syntA: Tryptophan 26.3 3E+02 0.0065 21.1 8.5 81 7-88 67-163 (259)
387 PLN03194 putative disease resi 26.3 2.4E+02 0.0051 20.8 5.4 56 27-83 64-126 (187)
388 PRK03244 argD acetylornithine 26.2 1.2E+02 0.0026 23.6 4.2 47 34-82 176-230 (398)
389 PF07005 DUF1537: Protein of u 26.2 84 0.0018 22.7 3.1 34 42-77 93-126 (223)
390 TIGR01769 GGGP geranylgeranylg 26.1 2.6E+02 0.0056 20.7 5.7 48 36-83 18-68 (205)
391 PRK05678 succinyl-CoA syntheta 26.0 2E+02 0.0043 22.4 5.3 39 35-73 83-121 (291)
392 PF11116 DUF2624: Protein of u 25.9 43 0.00093 21.6 1.3 28 56-85 16-43 (85)
393 PF03830 PTSIIB_sorb: PTS syst 25.9 84 0.0018 22.0 2.9 78 25-106 9-92 (151)
394 cd01879 FeoB Ferrous iron tran 25.9 1.7E+02 0.0037 18.9 4.4 41 41-82 73-114 (158)
395 COG0541 Ffh Signal recognition 25.8 1.1E+02 0.0025 25.5 4.0 39 35-73 121-160 (451)
396 PRK11172 dkgB 2,5-diketo-D-glu 25.8 2.8E+02 0.0061 20.6 7.0 63 12-74 108-178 (267)
397 PF04312 DUF460: Protein of un 25.7 58 0.0013 22.9 2.0 34 31-65 65-100 (138)
398 cd01828 sialate_O-acetylestera 25.6 1.8E+02 0.004 19.4 4.6 45 29-73 72-129 (169)
399 PRK00304 hypothetical protein; 25.6 75 0.0016 20.0 2.3 16 32-47 39-54 (75)
400 TIGR02739 TraF type-F conjugat 25.5 1.7E+02 0.0037 22.5 4.7 43 31-73 141-185 (256)
401 PLN02735 carbamoyl-phosphate s 25.4 1.1E+02 0.0024 28.3 4.2 57 29-85 1026-1085(1102)
402 PLN02522 ATP citrate (pro-S)-l 25.4 1.8E+02 0.004 25.2 5.3 61 13-73 64-135 (608)
403 cd01540 PBP1_arabinose_binding 25.3 2.1E+02 0.0046 20.7 5.1 36 36-73 48-84 (289)
404 cd06296 PBP1_CatR_like Ligand- 25.3 2E+02 0.0044 20.4 5.0 37 33-73 46-83 (270)
405 cd06330 PBP1_Arsenic_SBP_like 25.3 1.4E+02 0.003 22.5 4.2 40 32-73 57-96 (346)
406 PLN02898 HMP-P kinase/thiamin- 25.3 3.3E+02 0.0072 22.5 6.7 61 33-98 312-377 (502)
407 TIGR03274 methan_mark_7 putati 25.3 20 0.00044 28.1 -0.3 63 15-79 102-164 (302)
408 PRK04966 hypothetical protein; 25.2 78 0.0017 19.8 2.3 17 31-47 39-55 (72)
409 PF00988 CPSase_sm_chain: Carb 25.2 1.3E+02 0.0027 20.9 3.6 43 43-86 75-121 (131)
410 cd01545 PBP1_SalR Ligand-bindi 25.1 2.1E+02 0.0046 20.2 5.1 38 34-73 48-85 (270)
411 cd06320 PBP1_allose_binding Pe 25.1 2.2E+02 0.0047 20.4 5.1 38 35-73 50-87 (275)
412 PRK10528 multifunctional acyl- 25.0 1.5E+02 0.0032 20.9 4.1 43 31-73 97-147 (191)
413 cd06308 PBP1_sensor_kinase_lik 25.0 2.2E+02 0.0048 20.3 5.2 40 35-76 49-88 (270)
414 PF03693 RHH_2: Uncharacterise 25.0 85 0.0018 19.7 2.5 38 2-39 1-38 (80)
415 PF07796 DUF1638: Protein of u 24.9 2.4E+02 0.0053 19.6 6.6 50 36-85 112-163 (166)
416 PRK06965 acetolactate synthase 24.9 1.7E+02 0.0037 24.6 5.1 43 31-73 211-254 (587)
417 PRK08223 hypothetical protein; 24.9 1E+02 0.0022 24.1 3.5 32 42-73 117-149 (287)
418 PF06794 UPF0270: Uncharacteri 24.9 84 0.0018 19.5 2.4 19 30-48 38-56 (70)
419 PRK11889 flhF flagellar biosyn 24.9 3.3E+02 0.0071 22.8 6.5 45 41-86 268-313 (436)
420 PRK08999 hypothetical protein; 24.9 3.1E+02 0.0067 20.8 6.3 61 33-98 149-214 (312)
421 cd03421 SirA_like_N SirA_like_ 24.9 1.5E+02 0.0033 17.2 4.0 32 38-72 22-53 (67)
422 PRK07878 molybdopterin biosynt 24.9 96 0.0021 24.9 3.4 40 42-83 132-171 (392)
423 CHL00099 ilvB acetohydroxyacid 24.9 1.7E+02 0.0038 24.6 5.1 42 32-73 208-250 (585)
424 KOG3802 Transcription factor O 24.8 56 0.0012 26.9 2.0 40 51-90 199-238 (398)
425 PF13611 Peptidase_S76: Serine 24.7 70 0.0015 22.0 2.2 29 48-78 30-59 (121)
426 PRK00005 fmt methionyl-tRNA fo 24.7 1.9E+02 0.0041 22.3 5.0 41 33-73 14-61 (309)
427 PRK11565 dkgA 2,5-diketo-D-glu 24.7 3.1E+02 0.0066 20.6 7.0 63 12-74 117-186 (275)
428 COG0761 lytB 4-Hydroxy-3-methy 24.6 3.2E+02 0.007 21.6 6.1 60 35-98 206-265 (294)
429 PTZ00159 60S ribosomal protein 24.6 2E+02 0.0042 20.1 4.5 45 29-73 78-122 (133)
430 PF00875 DNA_photolyase: DNA p 24.5 1.9E+02 0.004 19.8 4.5 36 39-74 85-123 (165)
431 TIGR00639 PurN phosphoribosylg 24.5 2.2E+02 0.0048 20.5 5.0 39 32-73 15-55 (190)
432 PF04900 Fcf1: Fcf1; InterPro 24.5 1.5E+02 0.0032 18.8 3.7 39 29-73 52-90 (101)
433 cd07395 MPP_CSTP1 Homo sapiens 24.5 2.7E+02 0.0058 20.4 5.6 46 32-77 37-95 (262)
434 TIGR03061 pip_yhgE_Nterm YhgE/ 24.4 2.4E+02 0.0052 19.3 7.0 64 41-107 42-113 (164)
435 cd06347 PBP1_ABC_ligand_bindin 24.3 1.8E+02 0.0039 21.5 4.7 41 31-73 56-96 (334)
436 PLN02820 3-methylcrotonyl-CoA 24.2 1E+02 0.0022 26.4 3.6 33 44-76 372-409 (569)
437 PRK13599 putative peroxiredoxi 24.2 2.9E+02 0.0063 20.2 6.6 56 30-87 50-109 (215)
438 cd01490 Ube1_repeat2 Ubiquitin 24.2 99 0.0021 25.6 3.4 34 42-77 98-131 (435)
439 cd00861 ProRS_anticodon_short 24.2 1.7E+02 0.0037 17.6 4.1 25 55-81 42-66 (94)
440 PRK01278 argD acetylornithine 24.2 1.6E+02 0.0035 22.9 4.5 49 32-82 166-222 (389)
441 PRK12726 flagellar biosynthesi 24.1 2.6E+02 0.0055 23.2 5.7 43 43-86 235-278 (407)
442 PF04705 TSNR_N: Thiostrepton- 24.1 85 0.0018 21.2 2.5 61 12-73 16-78 (115)
443 cd01174 ribokinase Ribokinase 24.0 1.4E+02 0.0031 21.8 4.1 31 42-72 129-159 (292)
444 cd03334 Fab1_TCP TCP-1 like do 24.0 3.2E+02 0.0069 20.6 6.2 50 31-85 119-168 (261)
445 TIGR03333 salvage_mtnX 2-hydro 24.0 2.2E+02 0.0047 20.3 4.9 40 22-61 66-105 (214)
446 PF10107 Endonuc_Holl: Endonuc 24.0 88 0.0019 22.5 2.7 26 24-49 129-154 (156)
447 cd01839 SGNH_arylesterase_like 24.0 1.3E+02 0.0029 21.0 3.7 16 58-73 159-174 (208)
448 cd02979 PHOX_C FAD-dependent P 23.9 1E+02 0.0023 21.7 3.1 30 40-69 27-57 (167)
449 cd03028 GRX_PICOT_like Glutare 23.9 1.9E+02 0.004 17.9 4.3 29 60-88 29-62 (90)
450 cd00609 AAT_like Aspartate ami 23.8 1.9E+02 0.0041 21.3 4.7 43 34-77 124-173 (350)
451 cd06323 PBP1_ribose_binding Pe 23.7 2.2E+02 0.0047 20.1 4.8 40 33-73 46-85 (268)
452 PTZ00125 ornithine aminotransf 23.6 1.4E+02 0.0031 23.2 4.1 50 32-82 168-225 (400)
453 PF02348 CTP_transf_3: Cytidyl 23.5 1.6E+02 0.0034 20.8 4.0 33 36-73 33-65 (217)
454 COG1445 FrwB Phosphotransferas 23.5 1E+02 0.0022 21.2 2.9 35 41-82 55-89 (122)
455 PRK08334 translation initiatio 23.5 1.4E+02 0.003 24.1 4.1 37 37-73 233-277 (356)
456 TIGR01261 hisB_Nterm histidino 23.4 2.4E+02 0.0051 19.6 4.9 46 26-71 29-85 (161)
457 cd06340 PBP1_ABC_ligand_bindin 23.4 2.3E+02 0.005 21.5 5.2 48 33-82 61-108 (347)
458 PRK13730 conjugal transfer pil 23.3 1.3E+02 0.0027 22.7 3.5 33 41-73 89-121 (212)
459 cd01164 FruK_PfkB_like 1-phosp 23.3 2.2E+02 0.0049 20.9 5.0 42 42-84 128-173 (289)
460 PRK06371 translation initiatio 23.3 1E+02 0.0022 24.6 3.3 36 38-73 211-254 (329)
461 TIGR00854 pts-sorbose PTS syst 23.3 2.7E+02 0.0058 19.4 5.5 77 25-105 9-91 (151)
462 PRK02842 light-independent pro 23.3 1.7E+02 0.0038 23.6 4.7 45 29-73 79-134 (427)
463 cd01854 YjeQ_engC YjeQ/EngC. 23.2 1.1E+02 0.0024 23.3 3.4 23 58-81 99-121 (287)
464 COG1861 SpsF Spore coat polysa 23.1 2.8E+02 0.0061 21.3 5.4 50 33-86 33-85 (241)
465 TIGR03679 arCOG00187 arCOG0018 23.1 3.1E+02 0.0067 20.1 7.6 65 34-101 78-148 (218)
466 PF01655 Ribosomal_L32e: Ribos 22.9 1.2E+02 0.0026 20.4 3.1 42 31-72 67-108 (110)
467 cd00513 Ribosomal_L32_L32e Rib 22.9 2.2E+02 0.0048 19.1 4.3 41 32-72 66-106 (107)
468 PRK13703 conjugal pilus assemb 22.9 2E+02 0.0044 22.0 4.7 44 30-73 133-178 (248)
469 PF00532 Peripla_BP_1: Peripla 22.9 2E+02 0.0043 21.6 4.7 41 33-77 47-87 (279)
470 PHA01623 hypothetical protein 22.9 79 0.0017 18.5 2.0 28 43-70 11-38 (56)
471 PRK09552 mtnX 2-hydroxy-3-keto 22.8 2.4E+02 0.0052 20.1 4.9 33 22-54 70-102 (219)
472 TIGR03301 PhnW-AepZ 2-aminoeth 22.8 2.3E+02 0.0051 21.2 5.1 43 31-73 113-160 (355)
473 TIGR00283 arch_pth2 peptidyl-t 22.8 2.5E+02 0.0053 18.8 4.7 69 31-108 38-108 (115)
474 COG1810 Uncharacterized protei 22.8 1.8E+02 0.004 22.0 4.3 33 39-71 77-109 (224)
475 cd01450 vWFA_subfamily_ECM Von 22.8 2.2E+02 0.0049 18.4 5.8 48 41-88 102-155 (161)
476 PRK07085 diphosphate--fructose 22.8 77 0.0017 27.1 2.6 46 30-75 152-200 (555)
477 cd06269 PBP1_glutamate_recepto 22.7 2.8E+02 0.0062 19.5 5.3 51 31-82 56-109 (298)
478 PLN00125 Succinyl-CoA ligase [ 22.6 2.5E+02 0.0054 22.0 5.3 40 34-73 86-126 (300)
479 PRK08199 thiamine pyrophosphat 22.6 2.1E+02 0.0046 23.8 5.1 42 32-73 195-237 (557)
480 TIGR02637 RhaS rhamnose ABC tr 22.5 2.8E+02 0.0061 20.4 5.4 40 33-73 47-86 (302)
481 PRK06943 adenosylmethionine--8 22.3 1.9E+02 0.0041 23.7 4.7 33 41-73 220-261 (453)
482 TIGR01822 2am3keto_CoA 2-amino 22.3 2.3E+02 0.005 21.9 5.1 43 31-73 154-205 (393)
483 PRK06460 hypothetical protein; 22.3 2.1E+02 0.0046 22.6 4.9 42 32-73 120-165 (376)
484 cd07984 LPLAT_LABLAT-like Lyso 22.3 2.6E+02 0.0057 19.1 5.0 43 29-73 78-135 (192)
485 cd07383 MPP_Dcr2 Saccharomyces 22.3 2.6E+02 0.0057 19.6 5.0 43 34-76 33-84 (199)
486 TIGR01458 HAD-SF-IIA-hyp3 HAD- 22.3 2.2E+02 0.0048 21.2 4.8 30 26-55 21-50 (257)
487 PRK12721 secretion system appa 22.3 1E+02 0.0022 24.7 3.1 25 57-85 291-315 (349)
488 cd01494 AAT_I Aspartate aminot 22.1 1.8E+02 0.0039 18.8 3.9 45 34-79 84-132 (170)
489 cd06319 PBP1_ABC_sugar_binding 22.1 2.8E+02 0.006 19.8 5.2 36 37-73 50-85 (277)
490 TIGR01766 tspaseT_teng_C trans 22.0 94 0.002 18.8 2.3 21 55-76 57-77 (82)
491 cd07399 MPP_YvnB Bacillus subt 21.9 2.3E+02 0.0051 20.4 4.7 46 32-77 25-78 (214)
492 PRK06457 pyruvate dehydrogenas 21.8 1.9E+02 0.0041 24.1 4.7 41 32-73 186-226 (549)
493 cd03335 TCP1_alpha TCP-1 (CTT 21.8 3.3E+02 0.0072 22.6 6.1 49 35-88 267-318 (527)
494 cd06316 PBP1_ABC_sugar_binding 21.8 2.7E+02 0.0058 20.4 5.1 39 33-73 47-86 (294)
495 PRK08322 acetolactate synthase 21.8 2.2E+02 0.0048 23.5 5.1 42 32-73 187-229 (547)
496 cd06289 PBP1_MalI_like Ligand- 21.7 2.6E+02 0.0057 19.7 5.0 39 33-73 46-84 (268)
497 cd04185 GT_2_like_b Subfamily 21.6 1.7E+02 0.0037 20.0 3.8 41 32-72 13-56 (202)
498 TIGR02152 D_ribokin_bact ribok 21.5 1.7E+02 0.0036 21.6 4.0 30 43-72 125-154 (293)
499 cd06305 PBP1_methylthioribose_ 21.5 3E+02 0.0065 19.5 5.3 39 34-73 47-85 (273)
500 PRK01438 murD UDP-N-acetylmura 21.5 2.3E+02 0.0049 23.0 5.0 50 43-97 79-128 (480)
No 1
>PTZ00106 60S ribosomal protein L30; Provisional
Probab=100.00 E-value=4.9e-36 Score=202.20 Aligned_cols=107 Identities=68% Similarity=1.133 Sum_probs=101.2
Q ss_pred CccchhhhhhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHH
Q 033750 1 MVTSKKTKKTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVD 80 (112)
Q Consensus 1 ~~~~~~~~~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~e 80 (112)
||+.|+ ++..++|.++||+|+|+|++++|+++|+++|++|++++||+|+|+|+++++++.++|+.++||++.|++|++|
T Consensus 1 ~~~~~~-~~~~~~i~~~Lgla~raGKlv~G~~~vlkalk~gkaklViiA~D~~~~~kkki~~~~~~~~Vpv~~~~~t~~e 79 (108)
T PTZ00106 1 MMKKKK-KKAQESINSKLQLVMKSGKYTLGTKSTLKALRNGKAKLVIISNNCPPIRRSEIEYYAMLSKTGVHHYAGNNND 79 (108)
T ss_pred CCcccc-cccHhhHHHHHHHHHHhCCeeecHHHHHHHHHcCCeeEEEEeCCCCHHHHHHHHHHHhhcCCCEEEeCCCHHH
Confidence 676665 7799999999999999999999999999999999999999999999999999999999999999866799999
Q ss_pred HHhhhCCcccEEEEEEeCcCchHHHhcC
Q 033750 81 LGTACGKYFRVSCLSIIDPGDSDIIKSL 108 (112)
Q Consensus 81 LG~a~Gk~~~~~vvaI~d~g~a~~i~~~ 108 (112)
||+|||+++++++++|+|+|||++|..+
T Consensus 80 LG~A~Gk~~r~svvaI~D~G~a~~l~~~ 107 (108)
T PTZ00106 80 LGTACGRHFRVSVMSITDAGDSDILRAL 107 (108)
T ss_pred HHHHhCCccCeEEEEEeCcchHHHHhhc
Confidence 9999999999988999999999999765
No 2
>PRK07283 hypothetical protein; Provisional
Probab=100.00 E-value=3e-32 Score=180.76 Aligned_cols=96 Identities=27% Similarity=0.413 Sum_probs=90.6
Q ss_pred hHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcc
Q 033750 10 THESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYF 89 (112)
Q Consensus 10 ~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~ 89 (112)
..++++++||+|+|||++++|+++|+++|++|++++||+|+|+|+++++++.+.|+.++||++. ++|++|||.+||++
T Consensus 2 ~~~~~l~~LglA~raGklv~G~~~v~~aik~gk~~lVi~A~Das~~~~kk~~~~~~~~~Vp~~~-~~t~~eLG~a~Gk~- 79 (98)
T PRK07283 2 NKQKISNLLGLAQRAGRIISGEELVVKAIQSGQAKLVFLANDAGPNLTKKVTDKSNYYQVEVST-VFSTLELSAAVGKP- 79 (98)
T ss_pred cHHHHHHHHHHHHHhCCeeEcHHHHHHHHHcCCccEEEEeCCCCHHHHHHHHHHHHHcCCCEEE-eCCHHHHHHHhCCC-
Confidence 3579999999999999999999999999999999999999999999999999999999999995 78999999999997
Q ss_pred cEEEEEEeCcCchHHHhcC
Q 033750 90 RVSCLSIIDPGDSDIIKSL 108 (112)
Q Consensus 90 ~~~vvaI~d~g~a~~i~~~ 108 (112)
+. ++||+|+|||++|.++
T Consensus 80 ~~-vvai~d~g~a~~l~~~ 97 (98)
T PRK07283 80 RK-VLAVTDAGFSKKMRSL 97 (98)
T ss_pred ce-EEEEeChhHHHHHHHh
Confidence 44 6999999999999765
No 3
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=99.98 E-value=3.7e-32 Score=182.18 Aligned_cols=97 Identities=23% Similarity=0.251 Sum_probs=92.0
Q ss_pred HHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCccc
Q 033750 11 HESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFR 90 (112)
Q Consensus 11 ~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~ 90 (112)
+++++++||+|+|||++++|+++|+++|++|++++||+|+|+||++++++.++|+.++||++. ++|++|||.+||++++
T Consensus 2 ~~k~l~lLglA~rAGklv~G~~~v~~aik~gk~~lVI~A~D~s~~~kkki~~~~~~~~vp~~~-~~t~~eLg~a~Gk~~~ 80 (104)
T PRK05583 2 MNKFLNFLGLTKKAGKLLEGYNKCEEAIKKKKVYLIIISNDISENSKNKFKNYCNKYNIPYIE-GYSKEELGNAIGRDEI 80 (104)
T ss_pred hHHHHHHHHHHHHhCCeeecHHHHHHHHHcCCceEEEEeCCCCHhHHHHHHHHHHHcCCCEEE-ecCHHHHHHHhCCCCe
Confidence 478999999999999999999999999999999999999999999999999999999999997 6999999999999975
Q ss_pred EEEEEEeCcCchHHHhcCC
Q 033750 91 VSCLSIIDPGDSDIIKSLP 109 (112)
Q Consensus 91 ~~vvaI~d~g~a~~i~~~~ 109 (112)
+ ++||+|+||++.+.++.
T Consensus 81 ~-~iai~d~g~a~~l~~~~ 98 (104)
T PRK05583 81 K-ILGVKDKNMAKKLLKLW 98 (104)
T ss_pred E-EEEEeChHHHHHHHHHH
Confidence 4 89999999999997755
No 4
>PRK07714 hypothetical protein; Provisional
Probab=99.98 E-value=4.7e-32 Score=180.22 Aligned_cols=98 Identities=28% Similarity=0.340 Sum_probs=93.0
Q ss_pred hHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcc
Q 033750 10 THESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYF 89 (112)
Q Consensus 10 ~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~ 89 (112)
..++++++||+|+|||++++|+++|++++++|++++||+|+|+||++++++.++|+.++||++ +++|++|||.+||+++
T Consensus 2 ~~~~~~~~Lgla~raGk~v~G~~~v~~al~~g~~~lViiA~D~s~~~~~ki~~~~~~~~vp~~-~~~sk~eLG~a~Gk~~ 80 (100)
T PRK07714 2 SMSDWKSFLGLANRARKVISGEELVLKEVRSGKAKLVLLSEDASVNTTKKITDKCTYYNVPMR-KVENRQQLGHAIGKDE 80 (100)
T ss_pred CHHHHHHHHHHHHHhCCeeecHHHHHHHHHhCCceEEEEeCCCCHHHHHHHHHHHHhcCCCEE-EeCCHHHHHHHhCCCc
Confidence 457899999999999999999999999999999999999999999999999999999999999 5899999999999998
Q ss_pred cEEEEEEeCcCchHHHhcCC
Q 033750 90 RVSCLSIIDPGDSDIIKSLP 109 (112)
Q Consensus 90 ~~~vvaI~d~g~a~~i~~~~ 109 (112)
++ ++||+|+|||+.+.++.
T Consensus 81 ~~-~vai~d~g~a~~l~~~~ 99 (100)
T PRK07714 81 RV-VVAVLDEGFAKKLRSML 99 (100)
T ss_pred ce-EEEEeCchhHHHHHHHh
Confidence 87 79999999999997753
No 5
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=99.97 E-value=1.7e-31 Score=177.44 Aligned_cols=95 Identities=43% Similarity=0.813 Sum_probs=90.1
Q ss_pred HHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccE
Q 033750 12 ESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRV 91 (112)
Q Consensus 12 ~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~ 91 (112)
+++.+.|++|+|+|+++.|.++|+++|++|++++||+|+|+|+++++++.++|++++||++.|.+|++|||+|||+++++
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 46788999999999999999999999999999999999999999999999999999999986668999999999999877
Q ss_pred EEEEEeCcCchHHHh
Q 033750 92 SCLSIIDPGDSDIIK 106 (112)
Q Consensus 92 ~vvaI~d~g~a~~i~ 106 (112)
++++|+|+|||+.|.
T Consensus 82 ~~vaI~D~G~a~~~~ 96 (99)
T PRK01018 82 SALAIVDPGESDILE 96 (99)
T ss_pred EEEEEecCCHHHHHH
Confidence 799999999999986
No 6
>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=99.97 E-value=3.8e-30 Score=175.60 Aligned_cols=97 Identities=16% Similarity=0.259 Sum_probs=91.7
Q ss_pred hHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCch-hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 10 THESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPL-RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 10 ~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~-~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
+.++++++|++|+|+|+++.|.++|+++|++|++++||+|+|+||+ ++++++++|+.++|||+ |++|++|||++||++
T Consensus 10 l~~ki~~lL~la~ragkl~~G~~~v~kaikkgka~LVilA~D~s~~~~~~~i~~lc~~~~Ip~~-~~~sk~eLG~a~Gk~ 88 (117)
T TIGR03677 10 LANKALEAVEKARETGKIKKGTNEVTKAVERGIAKLVVIAEDVEPPEIVAHLPALCEEKGIPYV-YVKKKEDLGAAAGLE 88 (117)
T ss_pred HHHHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCCCcHHHHHHHHHHHHHcCCCEE-EeCCHHHHHHHhCCC
Confidence 7799999999999999999999999999999999999999999996 78999999999999999 699999999999997
Q ss_pred ccEEEEEEeCcCchHHHhc
Q 033750 89 FRVSCLSIIDPGDSDIIKS 107 (112)
Q Consensus 89 ~~~~vvaI~d~g~a~~i~~ 107 (112)
+++++++|+|+||++.+..
T Consensus 89 ~~~svvaI~d~g~a~~~~~ 107 (117)
T TIGR03677 89 VGAASAAIVDEGKAEELLK 107 (117)
T ss_pred CCeEEEEEEchhhhHHHHH
Confidence 7777999999999998644
No 7
>PRK04175 rpl7ae 50S ribosomal protein L7Ae; Validated
Probab=99.96 E-value=1.4e-29 Score=173.93 Aligned_cols=98 Identities=17% Similarity=0.271 Sum_probs=91.9
Q ss_pred hhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCch-hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 033750 9 KTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPL-RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 9 ~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~-~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk 87 (112)
.+.++++++|++|+|+|++++|.++|+++|++|++++||+|+|++|. +++++..+|++++|||+ |++|++|||+|||+
T Consensus 13 ~l~~ki~~lL~la~ragklv~G~~~v~kaikkgkakLVilA~D~s~~~i~~~~~~lc~~~~Vp~~-~~~tk~eLG~a~Gk 91 (122)
T PRK04175 13 ELAEKALEAVEKARDTGKIKKGTNETTKAVERGIAKLVVIAEDVDPEEIVAHLPLLCEEKKIPYV-YVPSKKDLGKAAGL 91 (122)
T ss_pred HHHHHHHHHHHHHHHcCCEeEcHHHHHHHHHcCCccEEEEeCCCChHHHHHHHHHHHHHcCCCEE-EECCHHHHHHHhCC
Confidence 36789999999999999999999999999999999999999999995 57999999999999999 69999999999999
Q ss_pred cccEEEEEEeCcCchHHHhc
Q 033750 88 YFRVSCLSIIDPGDSDIIKS 107 (112)
Q Consensus 88 ~~~~~vvaI~d~g~a~~i~~ 107 (112)
++++++++|+|+||++.+.+
T Consensus 92 ~~~~svvaI~d~g~a~~~~~ 111 (122)
T PRK04175 92 EVGAAAAAIVDAGKAKELVE 111 (122)
T ss_pred CCCeEEEEEechhhhHHHHH
Confidence 97777999999999998754
No 8
>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=99.94 E-value=2e-26 Score=150.74 Aligned_cols=93 Identities=32% Similarity=0.547 Sum_probs=88.2
Q ss_pred HHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhh-HHHHHHhCCCcEEEecCCHHHHHhhhCCccc
Q 033750 12 ESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSE-IEYYAMLAKVGVHHYNGNNVDLGTACGKYFR 90 (112)
Q Consensus 12 ~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~-i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~ 90 (112)
++++++|++|+++|+++.|.++|.+++++|++++||+|+|++|+...+ +..+|++++|||+ +++|++|||++||+++.
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 578999999999999999999999999999999999999999988877 9999999999999 59999999999999977
Q ss_pred EEEEEEeCcCchHHH
Q 033750 91 VSCLSIIDPGDSDII 105 (112)
Q Consensus 91 ~~vvaI~d~g~a~~i 105 (112)
+++++|+|+|+++.+
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 778999999999876
No 9
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=2e-26 Score=157.07 Aligned_cols=100 Identities=21% Similarity=0.318 Sum_probs=93.1
Q ss_pred hhhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCC-chhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 033750 8 KKTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 86 (112)
Q Consensus 8 ~~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G 86 (112)
.+..++++++++.|.++|+++.|.+++.++|++|+++|||+|+|++ +++.++++.+|++++|||+ |++|+.+||++||
T Consensus 9 ~~~~~k~l~~l~~a~~~~ki~~G~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv-~V~sk~~LG~a~g 87 (116)
T COG1358 9 EMLEQKALSLLGKASRAGKLKKGTNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYV-YVGSKKELGKAVG 87 (116)
T ss_pred HHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEE-EeCCHHHHHHHhC
Confidence 4578999999999999999999999999999999999999999999 5899999999999999999 7999999999999
Q ss_pred CcccEEEEEEeCcCchHHHhcCC
Q 033750 87 KYFRVSCLSIIDPGDSDIIKSLP 109 (112)
Q Consensus 87 k~~~~~vvaI~d~g~a~~i~~~~ 109 (112)
++.+. ++++.|+||++.+.++.
T Consensus 88 ~~~~~-vv~i~~~~~~~~~~~l~ 109 (116)
T COG1358 88 KEVRK-VVAIVDKGFAKKLEDLV 109 (116)
T ss_pred CCcce-eEEEeehhhhhHHHHHH
Confidence 99765 79999999997776643
No 10
>PRK09190 hypothetical protein; Provisional
Probab=99.94 E-value=2.9e-26 Score=171.00 Aligned_cols=96 Identities=17% Similarity=0.223 Sum_probs=91.3
Q ss_pred hHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHh------CCCcEEEecCCHHHHHh
Q 033750 10 THESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAML------AKVGVHHYNGNNVDLGT 83 (112)
Q Consensus 10 ~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~------~~Ip~i~~~~sk~eLG~ 83 (112)
+.++++++||+|+|||++++|+++|+++|++|+++|||+|+|+|++++++|.++|+. ++||++. .+|++|||.
T Consensus 95 l~~ril~lLGLArRAGklVsG~~~V~~alk~gk~~Lvi~A~DaS~~t~kKl~~~~~~~~~~~~~~Vp~v~-~~tk~eLg~ 173 (220)
T PRK09190 95 LARRALDALGLARKAGQVVSGFEKVDAALRSGEAAALIHASDGAADGKRKLDQARRALVHETGREIPVIG-LFTAAELGL 173 (220)
T ss_pred HHHHHHHHHHHHhhhCCEeecHHHHHHHHHcCCceEEEEeccCChhHHHHHHHHHHhhcccccCCccEEE-ecCHHHHHH
Confidence 468999999999999999999999999999999999999999999999999999998 9999995 899999999
Q ss_pred hhCCcccEEEEEEeCcCchHHHhc
Q 033750 84 ACGKYFRVSCLSIIDPGDSDIIKS 107 (112)
Q Consensus 84 a~Gk~~~~~vvaI~d~g~a~~i~~ 107 (112)
|+|+++++ +++|+|.|||+.+.+
T Consensus 174 AlGr~~~~-~vav~d~gfA~~l~~ 196 (220)
T PRK09190 174 AFGRENVI-HAALLAGGAAERVVK 196 (220)
T ss_pred HhCCCcee-EEEEcChHHHHHHHH
Confidence 99999777 799999999998865
No 11
>PRK06683 hypothetical protein; Provisional
Probab=99.93 E-value=8.9e-26 Score=145.54 Aligned_cols=79 Identities=16% Similarity=0.202 Sum_probs=75.3
Q ss_pred HHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 18 LALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 18 Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
|..+.++|++++|.++|+++|++|++++||+|+|++++++++|.++|+.++||++. ++|++|||++||+++.+++++|+
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 55678999999999999999999999999999999999999999999999999995 78999999999999999999986
No 12
>COG1911 RPL30 Ribosomal protein L30E [Translation, ribosomal structure and biogenesis]
Probab=99.93 E-value=8.9e-26 Score=148.07 Aligned_cols=97 Identities=47% Similarity=0.832 Sum_probs=93.4
Q ss_pred hHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcc
Q 033750 10 THESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYF 89 (112)
Q Consensus 10 ~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~ 89 (112)
..++|..-|.++.++|+++.|+++++++++.|++++||+|+|+++..+++++++++..+||++.|.+|..|||.+|||++
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 35788999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cEEEEEEeCcCchHHHh
Q 033750 90 RVSCLSIIDPGDSDIIK 106 (112)
Q Consensus 90 ~~~vvaI~d~g~a~~i~ 106 (112)
++++++|+|+|.++++.
T Consensus 83 ~v~~laIiD~G~S~Il~ 99 (100)
T COG1911 83 RVAALAIIDEGDSDILA 99 (100)
T ss_pred eEEEEEEecCchhhhhc
Confidence 99999999999998874
No 13
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=99.93 E-value=1.3e-25 Score=144.65 Aligned_cols=77 Identities=22% Similarity=0.319 Sum_probs=73.4
Q ss_pred HHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 20 LVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 20 la~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
...|+|+++.|.++|+++|++|++++||+|+|++|++++++.++|++++||++ +++|++|||+|||+++++++++|+
T Consensus 5 ~~~ragkl~~G~~~v~kai~~gkaklViiA~D~~~~~~~~i~~~c~~~~Vp~~-~~~s~~eLG~a~G~~~~~a~~ai~ 81 (82)
T PRK13602 5 KVSQAKSIVIGTKQTVKALKRGSVKEVVVAEDADPRLTEKVEALANEKGVPVS-KVDSMKKLGKACGIEVGAAAVAII 81 (82)
T ss_pred HHHhcCCEEEcHHHHHHHHHcCCeeEEEEECCCCHHHHHHHHHHHHHcCCCEE-EECCHHHHHHHHCCCcCEEEEEEe
Confidence 44699999999999999999999999999999999999999999999999999 488999999999999999999986
No 14
>PRK13601 putative L7Ae-like ribosomal protein; Provisional
Probab=99.91 E-value=3.9e-24 Score=137.90 Aligned_cols=73 Identities=15% Similarity=0.245 Sum_probs=70.0
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 24 SGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 24 agklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
-|++++|.++|+++|++|++++||+|+|++++++++|.++|+.++||++ |++|++|||++||+++++++++|+
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 4899999999999999999999999999999999999999999999998 799999999999999999888875
No 15
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=99.86 E-value=4.8e-21 Score=123.91 Aligned_cols=72 Identities=13% Similarity=0.266 Sum_probs=68.4
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 25 GKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
.+++.|.+|++++|++|++++||+|.|++|+...+++.+|++++|||+ |++|+.|||++||++++++++||+
T Consensus 12 ~~~vvG~kqt~Kai~kg~~~~v~iA~Da~~~vv~~l~~lceek~Ip~v-~V~s~~~LGkAcgi~V~aa~aai~ 83 (84)
T PRK13600 12 QHFVVGLKETLKALKKDQVTSLIIAEDVEVYLMTRVLSQINQKNIPVS-FFKSKHALGKHVGINVNATIVALI 83 (84)
T ss_pred cCceeeHHHHHHHHhcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEE-EECCHHHHHHHhCCCcCeEEEEEe
Confidence 346999999999999999999999999999999999999999999999 799999999999999999888886
No 16
>KOG2988 consensus 60S ribosomal protein L30 [Translation, ribosomal structure and biogenesis]
Probab=99.78 E-value=1.5e-18 Score=116.09 Aligned_cols=111 Identities=72% Similarity=1.092 Sum_probs=103.1
Q ss_pred CccchhhhhhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHH
Q 033750 1 MVTSKKTKKTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVD 80 (112)
Q Consensus 1 ~~~~~~~~~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~e 80 (112)
|+-.++.++..+.|+.-|-++.++|+.+.|++++.+.++.|+++|+++|+++++--+..|++++-....+|..|.+...|
T Consensus 1 ~~~~~k~~k~~e~ins~lll~mksgkY~lgyK~T~k~~r~gkakL~~is~n~p~lrks~ieyyamlak~~v~~~sg~n~~ 80 (112)
T KOG2988|consen 1 MVFFKKSKKSGEFINSSLLLVMKSGKYILGYKQTLKSLRQGKAKLIIISSNCPPLRKSEIEYYAMLAKTGVHHYSGNNVE 80 (112)
T ss_pred CcccccccccchhhhHHHHHHHhhcceeechHHHHHHHHhccceEEEeecCCCCcchhHHHHHHHHhcCceeeecCCcEe
Confidence 44456667788999999999999999999999999999999999999999999988999999998888999988999999
Q ss_pred HHhhhCCcccEEEEEEeCcCchHHHhcCCCC
Q 033750 81 LGTACGKYFRVSCLSIIDPGDSDIIKSLPGE 111 (112)
Q Consensus 81 LG~a~Gk~~~~~vvaI~d~g~a~~i~~~~~~ 111 (112)
||.+||+-+|++|++|+|+|.++++..+.++
T Consensus 81 lgt~~g~~fRv~v~~ivd~gds~~~~~l~e~ 111 (112)
T KOG2988|consen 81 LGTACGKTFRVSVLSIVDLGDSDIIAALSER 111 (112)
T ss_pred HHHHhcCeeEeeEEEEEeccchhhhhhcccc
Confidence 9999999999999999999999999988764
No 17
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=99.74 E-value=9.2e-18 Score=126.99 Aligned_cols=73 Identities=19% Similarity=0.349 Sum_probs=67.9
Q ss_pred ceecHHHHHHHHhcCCceEEEEeCCCCchhhh-hHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 27 YTLGYKTVLRSLRSSKGKLILLSNNCPPLRKS-EIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 27 lv~G~~~v~kai~~gka~lVilA~D~s~~~~~-~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
|++|.+.|.++|++++++|||||+|+||++.. +|..+|++++|||+ +++|+++||.++|+..++ +++|+|.|.
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 88999999999999999999999999998774 69999999999999 599999999999998665 799999875
No 18
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=99.67 E-value=1.6e-16 Score=120.51 Aligned_cols=72 Identities=14% Similarity=0.151 Sum_probs=66.4
Q ss_pred ceecHHHHHHHHhcCCceEEEEeCCCCchhhhhH-HHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcC
Q 033750 27 YTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEI-EYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPG 100 (112)
Q Consensus 27 lv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i-~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g 100 (112)
+..|.+.|.++|++++++|||||+|+||++...+ +.+|+.++|||+ +++|+++||.++|+..++ ++||+|-.
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 7799999999999999999999999999988775 799999999999 599999999999998665 79999764
No 19
>KOG3167 consensus Box H/ACA snoRNP component, involved in ribosomal RNA pseudouridinylation [RNA processing and modification]
Probab=99.66 E-value=2.1e-16 Score=109.86 Aligned_cols=99 Identities=18% Similarity=0.218 Sum_probs=86.9
Q ss_pred hhhhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 7 TKKTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 7 ~~~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
.+++..+++.++..|.+.+.|..|.++|.+.+++|+-.++|+|.|++| +...+|+.+|++++|||+ |..|+++||.|.
T Consensus 40 ~kkl~kk~~KlvkKa~k~k~lrrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYv-y~psk~dlg~A~ 118 (153)
T KOG3167|consen 40 SKKLAKKVYKLVKKAAKQKGLRRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYV-YTPSKEDLGAAG 118 (153)
T ss_pred cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCcc-ccccHHHHHHhc
Confidence 345889999999999999999999999999999999999999999999 899999999999999999 899999999999
Q ss_pred CCcccEEEEEEe-CcCchHHHh
Q 033750 86 GKYFRVSCLSII-DPGDSDIIK 106 (112)
Q Consensus 86 Gk~~~~~vvaI~-d~g~a~~i~ 106 (112)
|.+++.+++-|. +..+.+...
T Consensus 119 ~~krpt~~v~v~p~~eyke~yd 140 (153)
T KOG3167|consen 119 GTKRPTCCVFVKPGGEYKELYD 140 (153)
T ss_pred CCCCCceEEEEeeChhHHHHHH
Confidence 988777655554 443444433
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=99.51 E-value=5.3e-14 Score=96.50 Aligned_cols=92 Identities=15% Similarity=0.166 Sum_probs=83.5
Q ss_pred hhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC-
Q 033750 9 KTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG- 86 (112)
Q Consensus 9 ~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G- 86 (112)
.+.++++++.+.|..-.++..|.+++.+.+.+|...+|++|.|+.| ....+++.+|+..||||+ |+.|+..||.+||
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 4778999999999999999999999999999999999999999999 578999999999999999 7999999999999
Q ss_pred --CcccEEEEEEeCcCc
Q 033750 87 --KYFRVSCLSIIDPGD 101 (112)
Q Consensus 87 --k~~~~~vvaI~d~g~ 101 (112)
...++.+..|+..+-
T Consensus 96 ~~~~r~~~a~~i~~~~~ 112 (131)
T KOG3387|consen 96 LVVLRPVIACSITTNEA 112 (131)
T ss_pred HhhcCcceeEEEEeccc
Confidence 776665677765543
No 21
>KOG3406 consensus 40S ribosomal protein S12 [Translation, ribosomal structure and biogenesis]
Probab=99.46 E-value=4.7e-13 Score=91.83 Aligned_cols=89 Identities=19% Similarity=0.352 Sum_probs=77.2
Q ss_pred HHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC----
Q 033750 12 ESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG---- 86 (112)
Q Consensus 12 ~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G---- 86 (112)
.-+-..|..|+-.+.++.|..++.|++.++++.|+++|+|+++ +..+.+..+|.+++||+|. ++|..+||.|.|
T Consensus 20 ~AL~~Vlk~al~~dGlarGi~Ea~KaldkrqA~lcvLaencdep~yvKLVeALcaeh~iplik-V~d~k~LGew~Glcki 98 (134)
T KOG3406|consen 20 TALQEVLKTALVHDGLARGIHEAAKALDKRQAHLCVLAENCDEPMYVKLVEALCAEHQIPLIK-VGDAKELGEWAGLCKI 98 (134)
T ss_pred HHHHHHHHHHHHhchHHhHHHHHHHHHhhCceeEEEEeccCCchHHHHHHHHHHhhcCCCeEE-eccchhhhhhhceeee
Confidence 3444556667777999999999999999999999999999776 7899999999999999996 999999999997
Q ss_pred -------CcccEEEEEEeCcCc
Q 033750 87 -------KYFRVSCLSIIDPGD 101 (112)
Q Consensus 87 -------k~~~~~vvaI~d~g~ 101 (112)
|-..+++++|+|.|.
T Consensus 99 d~eGnarKvvGcs~vvVkd~ge 120 (134)
T KOG3406|consen 99 DSEGNARKVVGCSCVVVKDYGE 120 (134)
T ss_pred cCCCCeeEeecceEEEEeeccc
Confidence 233478899999985
No 22
>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=97.63 E-value=0.00023 Score=43.83 Aligned_cols=70 Identities=16% Similarity=0.102 Sum_probs=52.3
Q ss_pred ceecHHHHHHHHhcCC-ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 27 YTLGYKTVLRSLRSSK-GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 27 lv~G~~~v~kai~~gk-a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
++.|.+.|.++++.+. ..-|++..+........+...|...++|+.. -+++.|.+.++...+-.++|+..
T Consensus 1 lieG~~~V~eaL~~~~~i~~l~~~~~~~~~~~~~i~~~~~~~~i~v~~--v~~~~l~~ls~~~~hQGv~a~v~ 71 (76)
T PF08032_consen 1 LIEGRHAVEEALKSGPRIKKLFVTEEKADKRIKEILKLAKKKGIPVYE--VSKKVLDKLSDTENHQGVVAVVK 71 (76)
T ss_dssp EEESHHHHHHHHHCTGGEEEEEEETT---CCTHHHHHHHHHCT-EEEE--E-HHHHHHCTTTSS-TTEEEEEE
T ss_pred CEEEHHHHHHHHcCCCCccEEEEEcCccchhHHHHHHHHHHcCCeEEE--eCHHHHHHHcCCCCCCeEEEEEe
Confidence 5789999999999976 8888999984444457788899999999983 58899999997655555677654
No 23
>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=96.84 E-value=0.0054 Score=43.98 Aligned_cols=84 Identities=20% Similarity=0.291 Sum_probs=59.5
Q ss_pred HHHHHHHHHHHh-----CCceecHHHHHHHHhcCCc--eEEEEeCCCCc-hhhhhHHHHHHhCC--CcEEEec-CCHHHH
Q 033750 13 SINNRLALVMKS-----GKYTLGYKTVLRSLRSSKG--KLILLSNNCPP-LRKSEIEYYAMLAK--VGVHHYN-GNNVDL 81 (112)
Q Consensus 13 ~i~~~Lgla~ka-----gklv~G~~~v~kai~~gka--~lVilA~D~s~-~~~~~i~~~c~~~~--Ip~i~~~-~sk~eL 81 (112)
.+++.+.-.+++ -.+..|++++.+.+..... .+||++..-.| -...+|+.+|.-.+ |.++.++ ++.+.|
T Consensus 37 ~l~~~l~~~~~s~~~~~~~v~~GfNsi~~~Le~~~~~~~~vFVcr~D~ps~L~~h~P~Lva~as~~vrLV~Lpkgs~~rL 116 (158)
T PF08228_consen 37 KLLRPLKHLRESKPEWPWGVTVGFNSIVRYLECQASDNVYVFVCRSDQPSILTSHFPQLVATASKSVRLVQLPKGSEARL 116 (158)
T ss_pred HHHHHHHHHhhcCCCCCccEEEehHHHHHHHhcccCCCeEEEEECCCCcHHHHHHHHHHHHhccCcceEEeCChhHHHHH
Confidence 344444444442 4589999999999983322 35666654444 56799999998777 8888643 377899
Q ss_pred HhhhCCcccEEEEEEe
Q 033750 82 GTACGKYFRVSCLSII 97 (112)
Q Consensus 82 G~a~Gk~~~~~vvaI~ 97 (112)
+.++|.+ ++++++|.
T Consensus 117 s~aLgi~-r~g~l~v~ 131 (158)
T PF08228_consen 117 SEALGIP-RVGILAVR 131 (158)
T ss_pred HHHhCCC-CccEEEEe
Confidence 9999998 45689996
No 24
>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=96.73 E-value=0.0031 Score=42.49 Aligned_cols=85 Identities=21% Similarity=0.161 Sum_probs=59.6
Q ss_pred hhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchh-------------------hhhHHHHHHhCCC
Q 033750 9 KTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLR-------------------KSEIEYYAMLAKV 69 (112)
Q Consensus 9 ~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~-------------------~~~i~~~c~~~~I 69 (112)
+..++++..|. ...|..+.|.++|.+|+..|.+..++++.|..... ...+...+++.+.
T Consensus 6 ~~ve~f~~~l~--k~~~~~~yG~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g~ 83 (113)
T PF03465_consen 6 KLVEEFFEELA--KDPGLAVYGIEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSGA 83 (113)
T ss_dssp HHHHHHHHHHH--TTCSSEEESHHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTTS
T ss_pred HHHHHHHHHHh--hCCCcEEECHHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcCC
Confidence 45566665554 24489999999999999999999999998875432 4667778888999
Q ss_pred cEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 70 GVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 70 p~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
.+. ++.+..+-|.-+=+.+.- ++||+
T Consensus 84 ~v~-iis~~~e~G~~L~~~~gG-IaaiL 109 (113)
T PF03465_consen 84 KVE-IISSEHEEGEQLLKGFGG-IAAIL 109 (113)
T ss_dssp EEE-EE-TTSHHHHHHHHCTTT-EEEEE
T ss_pred EEE-EEcCCCccHHHHHhcCCc-EEEEE
Confidence 888 577777777766112221 46665
No 25
>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=96.36 E-value=0.02 Score=46.43 Aligned_cols=86 Identities=22% Similarity=0.197 Sum_probs=60.9
Q ss_pred hhhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCC------------------------------c---
Q 033750 8 KKTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCP------------------------------P--- 54 (112)
Q Consensus 8 ~~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s------------------------------~--- 54 (112)
++..++++..| ++..|+.+.|.++|++|+..|.+.-+|+..|.. |
T Consensus 272 ~~lle~f~~el--~~d~g~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~rc~~c~~~~~~~~~~~~~~~~~~~~~~~ 349 (403)
T TIGR03676 272 KKLMERFFKEL--VKDGGLAAYGEEEVRKALEMGAVDTLLISEDLRKIRVTFKCPNCGYEEEKTVKPEEGDKSEACPKCG 349 (403)
T ss_pred HHHHHHHHHHH--hcCCCcEEEcHHHHHHHHHhCCCcEEEEEccccceeEEEEcCCCCcceeeecccccccccccCcccC
Confidence 34555555444 346799999999999999999999999988762 1
Q ss_pred ---------hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 55 ---------LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 55 ---------~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
+....+...++.++..+. ++.+.-+-|.-+-+.+.- ++||+
T Consensus 350 ~~~~~~~~~~~ve~L~e~a~~~Ga~V~-~iS~~~eeG~ql~~~fGG-IaAiL 399 (403)
T TIGR03676 350 SELEIVEEEDIIEELSELAEESGAKVE-IISTDTEEGEQLLKAFGG-IAAIL 399 (403)
T ss_pred cccccchhhhHHHHHHHHHHHcCCEEE-EECCCChhHHHHHHcCCc-EEEEE
Confidence 233455667778888888 577777777666444433 56665
No 26
>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=95.84 E-value=0.04 Score=43.82 Aligned_cols=85 Identities=11% Similarity=0.066 Sum_probs=61.4
Q ss_pred hhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCC-Cc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 033750 9 KTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNC-PP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 86 (112)
Q Consensus 9 ~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~-s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G 86 (112)
+..++++..| +...|+.++|.++|.+|+..|-+.-++++.+. .. .-..++...+++.+..++. ..+.-+-|.-+
T Consensus 262 ~~l~~f~~~l--~kd~~~~~YG~~eV~~Ale~GAVetLLIsD~l~~~r~~~~~l~~~v~~~gg~V~i-~Ss~~e~G~qL- 337 (351)
T TIGR00111 262 MVIDEFLEHL--AKDGDKAVYGEDEVVKAAEYGAIEYLLVTDKVLVQREEIEKLLDSVESMGGKVVI-LSTEHELGKQL- 337 (351)
T ss_pred HHHHHHHHHH--hcCCCeEEECHHHHHHHHHcCCceEEEEecchhhhHHHHHHHHHHHHHcCCEEEE-EcCCCccHHHH-
Confidence 3455555555 33458999999999999999999999999988 32 2234566677889999984 67777778777
Q ss_pred CcccEEEEEEeC
Q 033750 87 KYFRVSCLSIID 98 (112)
Q Consensus 87 k~~~~~vvaI~d 98 (112)
+... .++||+-
T Consensus 338 ~~lg-GiaAiLR 348 (351)
T TIGR00111 338 DSLG-GIAGILR 348 (351)
T ss_pred hhCC-CEEEEEe
Confidence 3333 3577763
No 27
>PRK04011 peptide chain release factor 1; Provisional
Probab=95.74 E-value=0.055 Score=43.98 Aligned_cols=84 Identities=18% Similarity=0.133 Sum_probs=57.4
Q ss_pred hHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCc-----------------------------------
Q 033750 10 THESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPP----------------------------------- 54 (112)
Q Consensus 10 ~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~----------------------------------- 54 (112)
..++++..| ++..|+.+.|.++|.+|++.|.+.-+|+..|...
T Consensus 282 lle~f~~~l--~~d~g~avyG~~~V~~Ale~GAVetLLV~d~l~~~r~~~~c~~c~~~~~~~~~~~~~~~~~~c~~~~~~ 359 (411)
T PRK04011 282 LMEEFFKEL--AKDGGLAVYGEEEVRKALEMGAVDTLLISEDLRKDRVTYKCPNCGYEEEKTVKRREELPEKTCPKCGSE 359 (411)
T ss_pred HHHHHHHHH--hcCCCcEEEcHHHHHHHHHcCCceEEEEeccccceeEEEEcCCCCcceeeecccccccccccCcccCcc
Confidence 344444333 4457999999999999999999999999865411
Q ss_pred -------hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 55 -------LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 55 -------~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
+....+...+++++..+. ++.+.-+-|.-+=+.+.- ++||+
T Consensus 360 ~~~~~~~~~v~~l~e~a~~~g~~v~-iis~~~e~G~qL~~~fGG-IaAiL 407 (411)
T PRK04011 360 LEIVEEEDIIEELSELAEQSGTKVE-VISTDTEEGEQLLKAFGG-IAAIL 407 (411)
T ss_pred cccchhhhHHHHHHHHHHHcCCEEE-EECCCChhHHHHHHcCCC-EEEEE
Confidence 234556667788899888 577777777666333332 46665
No 28
>TIGR00108 eRF peptide chain release factor eRF/aRF, subunit 1. Alternative names include eRF1, SUP45, omnipotent suppressor protein 1.
Probab=95.62 E-value=0.069 Score=43.39 Aligned_cols=84 Identities=13% Similarity=0.076 Sum_probs=57.7
Q ss_pred hHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCc-----------------------------------
Q 033750 10 THESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPP----------------------------------- 54 (112)
Q Consensus 10 ~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~----------------------------------- 54 (112)
..++++..| ++..|+.+.|.++|.+|++.|.+..+|+..|..-
T Consensus 278 lle~F~~ei--~~d~G~avyG~~eV~~ALe~GAVetLLV~d~l~~~r~~~r~~~~~~~~~~~~~~~~~~~~~~c~~~~~~ 355 (409)
T TIGR00108 278 LVQRFLKEL--IQEDGLACYGEDEVLKALDLGAVETLIVSEDLEYIRVTYKCAECGEVIEKTVRELKDKKFAICPACGQE 355 (409)
T ss_pred HHHHHHHHH--hcCCCcEEeCHHHHHHHHHhCCCcEEEEeccccceeEEEEcCCCCceeecccccccccccccCcccCcc
Confidence 344444333 4457999999999999999999999999998621
Q ss_pred -------hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 55 -------LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 55 -------~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
+....+...|++++..+. ++.+..+=|.-+=+.+.- ++||+
T Consensus 356 ~~~~~~~~~ve~L~e~a~~~Ga~V~-iiS~~~eeG~ql~~~fGG-IaAiL 403 (409)
T TIGR00108 356 MDVVEERDLIEWLSELAENFGAKLE-FISTESEEGAQLLTAFGG-IGAIL 403 (409)
T ss_pred ccchhhhhHHHHHHHHHHHcCCEEE-EECCCChhHHHHHHhCCC-EEEEE
Confidence 123446667888898888 577777766554222322 46665
No 29
>PRK11181 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional
Probab=95.19 E-value=0.16 Score=38.31 Aligned_cols=72 Identities=10% Similarity=0.050 Sum_probs=54.0
Q ss_pred CceecHHHHHHHHhcC--CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCc
Q 033750 26 KYTLGYKTVLRSLRSS--KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDP 99 (112)
Q Consensus 26 klv~G~~~v~kai~~g--ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~ 99 (112)
.++.|.+.|.++++.+ ...-+++..+......+.+..+|...+||+. .-+.++|.+.++....-.++++..+
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 4689999999999853 4556777776644334566678888899987 3689999999987656567888764
No 30
>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=94.52 E-value=0.12 Score=34.78 Aligned_cols=45 Identities=2% Similarity=-0.031 Sum_probs=37.3
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCC-Cch----hhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNC-PPL----RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~-s~~----~~~~i~~~c~~~~Ip~i~ 73 (112)
-|..++.+.|++|++.+||-..|- +.+ --..|+..|-+++|||++
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 577889999999999999999883 322 246788999999999996
No 31
>TIGR00186 rRNA_methyl_3 rRNA methylase, putative, group 3. this is part of the trmH (spoU) family of rRNA methylases
Probab=94.12 E-value=0.39 Score=36.00 Aligned_cols=70 Identities=14% Similarity=0.198 Sum_probs=48.5
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCc
Q 033750 26 KYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDP 99 (112)
Q Consensus 26 klv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~ 99 (112)
.++.|.+.|.++++++. ++++. ..........+..+|++.+||+.. -++++|-+.+|...+-.++++.++
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 36799999999999883 33332 222112334577788888999984 489999999986555556777653
No 32
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=94.00 E-value=0.13 Score=35.96 Aligned_cols=57 Identities=9% Similarity=-0.024 Sum_probs=42.9
Q ss_pred cHHHHHHHHhcCCceEEEEeCCC-Cchh----hhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNC-PPLR----KSEIEYYAMLAKVGVHHYNGNNVDLGTACG 86 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~-s~~~----~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G 86 (112)
|..++.+.|++|++.+||-..|- +++. -..|+..|-.++||+++-..+-..+-+++.
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 3222 347889999999999974445556555554
No 33
>PRK10864 putative methyltransferase; Provisional
Probab=93.66 E-value=0.48 Score=37.89 Aligned_cols=78 Identities=13% Similarity=0.054 Sum_probs=55.2
Q ss_pred HHHHHHhCCceecHHHHHHHHhcC--CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEE
Q 033750 18 LALVMKSGKYTLGYKTVLRSLRSS--KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLS 95 (112)
Q Consensus 18 Lgla~kagklv~G~~~v~kai~~g--ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vva 95 (112)
+...+....++.|.+.|.++++++ .+.-+++.....+.. +.+..++...++|+. .-+.++|.++++....-.+++
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 344445567899999999999863 355666676665543 445556667789986 468999999998765555677
Q ss_pred EeC
Q 033750 96 IID 98 (112)
Q Consensus 96 I~d 98 (112)
+..
T Consensus 178 ~v~ 180 (346)
T PRK10864 178 LIK 180 (346)
T ss_pred EEe
Confidence 664
No 34
>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=92.36 E-value=0.23 Score=31.93 Aligned_cols=41 Identities=10% Similarity=0.085 Sum_probs=33.1
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhh----hhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRK----SEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~----~~i~~~c~~~~Ip~i~ 73 (112)
++.+.|++|++.+||.-.+...... ..+++.|.+++||+++
T Consensus 51 ~i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~~T 95 (95)
T PF02142_consen 51 QIMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPLFT 95 (95)
T ss_dssp HHHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHEEC
T ss_pred HHHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCCcC
Confidence 5999999999999999988877533 5678899999999973
No 35
>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=91.79 E-value=0.57 Score=30.19 Aligned_cols=43 Identities=14% Similarity=0.124 Sum_probs=32.8
Q ss_pred CCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecC--CHHHHHhh
Q 033750 41 SKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNG--NNVDLGTA 84 (112)
Q Consensus 41 gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~--sk~eLG~a 84 (112)
+++-+||+-.|+-. +....+...|+.+++|++ |.. +-..|-++
T Consensus 47 ~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~-~~~~~~~~~l~~~ 92 (97)
T PF10087_consen 47 KKADLVIVFTDYVSHNAMWKVKKAAKKYGIPII-YSRSRGVSSLERA 92 (97)
T ss_pred CCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEE-EECCCCHHHHHHH
Confidence 55788888888765 788999999999999999 554 33444333
No 36
>COG0566 SpoU rRNA methylases [Translation, ribosomal structure and biogenesis]
Probab=91.44 E-value=2.2 Score=32.60 Aligned_cols=73 Identities=19% Similarity=0.099 Sum_probs=58.0
Q ss_pred CceecHHHHHHHHhcC-CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 26 KYTLGYKTVLRSLRSS-KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 26 klv~G~~~v~kai~~g-ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
-++.|.+.|..+++.+ .+.-+++..+.. ....++...+...++|+. .-+++.|....+....-.++++.++-.
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 5999999999999999 677788888887 445556667778899997 478999999988665556677776554
No 37
>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=91.19 E-value=0.51 Score=29.88 Aligned_cols=48 Identities=10% Similarity=-0.002 Sum_probs=36.4
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCC-Cch---hhhhHHHHHHhCCCcEE
Q 033750 25 GKYTLGYKTVLRSLRSSKGKLILLSNNC-PPL---RKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka~lVilA~D~-s~~---~~~~i~~~c~~~~Ip~i 72 (112)
.++--|...+.+.++.|++.+||-..+- ... --..++..|.+++||++
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 3444456669999999999999997763 221 23578899999999997
No 38
>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=90.70 E-value=0.66 Score=30.70 Aligned_cols=44 Identities=18% Similarity=0.098 Sum_probs=35.3
Q ss_pred cHHHHHHHHhc-CCceEEEEeCCCCc-----hhhhhHHHHHHhCCCcEEE
Q 033750 30 GYKTVLRSLRS-SKGKLILLSNNCPP-----LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 30 G~~~v~kai~~-gka~lVilA~D~s~-----~~~~~i~~~c~~~~Ip~i~ 73 (112)
|..++.+.|++ |++.+||-..|-.. ..-..++..|-.++||+++
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 67789999999 99999999776221 1245788899999999996
No 39
>KOG4201 consensus Anthranilate synthase component II [Amino acid transport and metabolism]
Probab=88.60 E-value=1.2 Score=34.14 Aligned_cols=72 Identities=6% Similarity=-0.015 Sum_probs=58.2
Q ss_pred ceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCC-CcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 27 YTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAK-VGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 27 lv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~-Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
+++---|+..+--+|--.++++++=.+....+.+..+|+..+ -|+++ +.+.+|++++++.. +-++||.+.+.
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 445556777777788877788888888888888999999887 58997 99999999999995 44699988763
No 40
>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=88.30 E-value=1.5 Score=28.69 Aligned_cols=45 Identities=13% Similarity=0.100 Sum_probs=34.9
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCch--hhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPL--RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~--~~~~i~~~c~~~~Ip~i~ 73 (112)
.|..++.+.+++|++-+||-..+.... .-..++..|-+++||+++
T Consensus 54 ~~~~~i~~~i~~~~id~vIn~~~~~~~~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 54 EGRPNIVDLIKNGEIQLVINTPSGKRAIRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred CCchhHHHHHHcCCeEEEEECCCCCccCccHHHHHHHHHHhCCCEEe
Confidence 366889999999999999987653221 235688899999999995
No 41
>PF15608 PELOTA_1: PELOTA RNA binding domain
Probab=86.82 E-value=2.8 Score=27.94 Aligned_cols=51 Identities=14% Similarity=-0.018 Sum_probs=41.9
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 25 GKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
..+.-|.-++.+.+-++--..|++-...+ .-.++|..+|++.|||+.. .++
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 56888999999999988888777775555 4667899999999999996 444
No 42
>KOG3166 consensus 60S ribosomal protein L7A [Translation, ribosomal structure and biogenesis]
Probab=86.24 E-value=0.34 Score=36.23 Aligned_cols=41 Identities=15% Similarity=0.157 Sum_probs=36.8
Q ss_pred ceecHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhC
Q 033750 27 YTLGYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLA 67 (112)
Q Consensus 27 lv~G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~ 67 (112)
+..|.+.|..-+++.+|.||++|.|.+| ...--++.+|...
T Consensus 110 ~~~gvnTVttLVenKKAQLVV~ahDvDPIELVvFLPaLC~km 151 (209)
T KOG3166|consen 110 LRAGVNTVTTLVENKKAQLVVTAHDVDPIELVVFLPALCRKM 151 (209)
T ss_pred cccCcceEeehhhccccceeEEecccCchhheeecHHhhhhh
Confidence 6789999999999999999999999999 6677788899876
No 43
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=85.43 E-value=6.4 Score=29.38 Aligned_cols=69 Identities=17% Similarity=0.098 Sum_probs=54.2
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchh----hhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchH
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLR----KSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSD 103 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~----~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~a~ 103 (112)
.+.+.++++.|-..+.+-..|.+... .+++..+|..|++|++ ..+..+|....|-+ .+| ++=-|-..++
T Consensus 24 ~~~ve~al~~Gv~~vQlR~K~~~~~~~~~~a~~~~~lc~~~~v~li--INd~~dlA~~~~Ad-GVH-lGq~D~~~~~ 96 (211)
T COG0352 24 LEWVEAALKGGVTAVQLREKDLSDEEYLALAEKLRALCQKYGVPLI--INDRVDLALAVGAD-GVH-LGQDDMPLAE 96 (211)
T ss_pred HHHHHHHHhCCCeEEEEecCCCChHHHHHHHHHHHHHHHHhCCeEE--ecCcHHHHHhCCCC-EEE-cCCcccchHH
Confidence 68899999999888888899998854 3678899999999998 58889999988866 563 6555444433
No 44
>PF07997 DUF1694: Protein of unknown function (DUF1694); InterPro: IPR012543 This family contains many hypothetical proteins.; PDB: 2OHW_A.
Probab=85.02 E-value=2.6 Score=28.72 Aligned_cols=47 Identities=9% Similarity=-0.065 Sum_probs=36.2
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHH
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNV 79 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~ 79 (112)
.++.+.+++.....++|.++.+.+....+..+|+++++|+-. +.+..
T Consensus 52 ~~~~~~l~~~~~~~l~ing~l~~~~~~~YiklA~~~~~~fTi-v~~~~ 98 (120)
T PF07997_consen 52 PEFEQALKDYPNYKLKINGNLDYSFQSKYIKLANKHGIPFTI-VNDPE 98 (120)
T ss_dssp HHHHHHHHC-SSEEEEEETTS-HHHHHHHHHHHHHTT--EEE-E---S
T ss_pred HHHHHHHhhCCCeEEEEcCCCCHHHHHHHHHHHHHcCCCEEE-eCCCC
Confidence 678888999999999999999999999999999999999984 65544
No 45
>COG1168 MalY Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]
Probab=83.03 E-value=2.7 Score=34.18 Aligned_cols=51 Identities=20% Similarity=0.385 Sum_probs=44.2
Q ss_pred HhCCceecHHHHHHHHhcCCceEEEEeCCCCchhh-------hhHHHHHHhCCCcEEE
Q 033750 23 KSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRK-------SEIEYYAMLAKVGVHH 73 (112)
Q Consensus 23 kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~-------~~i~~~c~~~~Ip~i~ 73 (112)
..|+...-+++..+++..+++++.|+.+=-.|-.+ .++.++|..|||.+|.
T Consensus 139 ~~~~y~iD~~~LE~~~~~~~vkl~iLCnPHNP~Grvwt~eeL~~i~elc~kh~v~VIS 196 (388)
T COG1168 139 DDGRYEIDFDALEKAFVDERVKLFILCNPHNPTGRVWTKEELRKIAELCLRHGVRVIS 196 (388)
T ss_pred cCCcEEecHHHHHHHHhcCCccEEEEeCCCCCCCccccHHHHHHHHHHHHHcCCEEEe
Confidence 56888889999999999999999999988777433 6778899999999985
No 46
>COG1503 eRF1 Peptide chain release factor 1 (eRF1) [Translation, ribosomal structure and biogenesis]
Probab=83.03 E-value=4.7 Score=33.12 Aligned_cols=86 Identities=22% Similarity=0.166 Sum_probs=60.1
Q ss_pred hhHHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCch---------------------------------
Q 033750 9 KTHESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPL--------------------------------- 55 (112)
Q Consensus 9 ~~~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~--------------------------------- 55 (112)
+..+.++.-+. ..+|..+.|..+|.+++.-|.+..++++.|-...
T Consensus 280 ~l~e~f~~e~~--~~~Gla~yG~~~vr~aL~~gaVd~llv~Edl~~~r~~~~c~~~~~e~~~t~~~~~~~~~~~~~~~~e 357 (411)
T COG1503 280 KLMEEFFKELA--KDSGLAVYGEEEVREALEMGAVDTLLVSEDLEKERVTYKCPTCGYENLKSKREFEQKRFRCPECGSE 357 (411)
T ss_pred hHHHHHHHHhc--cCcceeecchHHHHHHHHhcccceEEeeccccccceeecCCCcchhhhhcccccccccccCcccccc
Confidence 34455544432 3468788999999999999999999999998732
Q ss_pred --------hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 56 --------RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 56 --------~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
....+...|+..+..+. +..+..+-|..+=+.+.. +.||++
T Consensus 358 ~~~v~~~d~vd~l~e~a~~~Ga~ve-~is~~~~eg~q~~~afgG-i~AiLR 406 (411)
T COG1503 358 MEEVEVSDLVDELAELAEESGAKVE-IISDDTDEGAQLLKAFGG-LAAILR 406 (411)
T ss_pred ccchhhhhHHHHHHHHHHhcCCeEE-EecCchHHHHHHHHcccc-hheeee
Confidence 23455566777777777 466766777776555554 456654
No 47
>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=82.05 E-value=2.6 Score=28.54 Aligned_cols=35 Identities=9% Similarity=0.016 Sum_probs=29.4
Q ss_pred CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 41 SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 41 gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
....+||.+.|. ...+..+.++|.++++|++. .++
T Consensus 88 ~~~diVi~~~d~-~~~~~~l~~~~~~~~i~~i~-~~~ 122 (143)
T cd01483 88 DGVDLVIDAIDN-IAVRRALNRACKELGIPVID-AGG 122 (143)
T ss_pred cCCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE-EcC
Confidence 357789989887 66788899999999999995 665
No 48
>PRK13957 indole-3-glycerol-phosphate synthase; Provisional
Probab=78.97 E-value=16 Score=28.02 Aligned_cols=73 Identities=8% Similarity=-0.054 Sum_probs=59.3
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCC-cEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 26 KYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKV-GVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 26 klv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~I-p~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
-.+.-..|+.++..-|--.+++++.-.++...+.+..+|...+. |+++ +.|.+||-+++--... ++||.+.+.
T Consensus 109 DFIid~~QI~ea~~~GADavLLI~~~L~~~~l~~l~~~a~~lGle~LVE-Vh~~~El~~a~~~ga~--iiGINnRdL 182 (247)
T PRK13957 109 DFILDEIQIREARAFGASAILLIVRILTPSQIKSFLKHASSLGMDVLVE-VHTEDEAKLALDCGAE--IIGINTRDL 182 (247)
T ss_pred cccCCHHHHHHHHHcCCCEEEeEHhhCCHHHHHHHHHHHHHcCCceEEE-ECCHHHHHHHHhCCCC--EEEEeCCCC
Confidence 35566788899988888888999999998888889999999997 4555 8999999999876544 489987764
No 49
>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=78.96 E-value=5 Score=26.04 Aligned_cols=83 Identities=12% Similarity=0.072 Sum_probs=47.0
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE--ecCCHHHHHhhhCC-cccEEEEEEeCcC
Q 033750 24 SGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH--YNGNNVDLGTACGK-YFRVSCLSIIDPG 100 (112)
Q Consensus 24 agklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~--~~~sk~eLG~a~Gk-~~~~~vvaI~d~g 100 (112)
.+...-|..+.++.+++...+++|++++.+.........+ +..++|+-. ...+...+...+-+ ...-.+..|-.++
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 3557789999999999999999999999876444444444 667777531 11133334444432 1122246666666
Q ss_pred chHHHhc
Q 033750 101 DSDIIKS 107 (112)
Q Consensus 101 ~a~~i~~ 107 (112)
+.+.+.+
T Consensus 91 l~~~l~~ 97 (101)
T PF13344_consen 91 LREELRE 97 (101)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 6666554
No 50
>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=78.81 E-value=16 Score=24.00 Aligned_cols=53 Identities=11% Similarity=0.078 Sum_probs=33.5
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcc
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYF 89 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~ 89 (112)
+..+.+....+.+|-++.|.. ..+..+++.+++++..+.+...++++++|...
T Consensus 48 ~~~~~~~~~~~~vv~is~d~~----~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv~~ 100 (140)
T cd03017 48 DLYEEFKALGAVVIGVSPDSV----ESHAKFAEKYGLPFPLLSDPDGKLAKAYGVWG 100 (140)
T ss_pred HHHHHHHHCCCEEEEEcCCCH----HHHHHHHHHhCCCceEEECCccHHHHHhCCcc
Confidence 344555556688888888743 34556666665544433455568999999764
No 51
>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=78.64 E-value=17 Score=25.07 Aligned_cols=67 Identities=9% Similarity=0.042 Sum_probs=42.6
Q ss_pred HHHHHHhcCCceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcC
Q 033750 33 TVLRSLRSSKGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPG 100 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g 100 (112)
+..+......+.+|.++.|-.. +....+..+.+.+++|+....+....+.+.+|....- ..-|.|++
T Consensus 49 ~l~~~~~~~~v~~v~is~d~~~~~~~d~~~~~~~~~~~~~~~~~~l~D~~~~~~~~~~v~~~P-~~~lid~~ 119 (171)
T cd02969 49 RLAKEYGAKGVAVVAINSNDIEAYPEDSPENMKAKAKEHGYPFPYLLDETQEVAKAYGAACTP-DFFLFDPD 119 (171)
T ss_pred HHHHHHhhCCeEEEEEecCccccccccCHHHHHHHHHHCCCCceEEECCchHHHHHcCCCcCC-cEEEECCC
Confidence 3444455556888888887643 4567777777777776654345666888888874322 35566643
No 52
>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=78.54 E-value=2.7 Score=30.62 Aligned_cols=34 Identities=9% Similarity=0.055 Sum_probs=26.5
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
...+||.+.| +...+..+..+|.+++||++. .++
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 4567776655 477888899999999999994 654
No 53
>TIGR00679 hpr-ser Hpr(Ser) kinase/phosphatase. The hprK gene of Enterococcus faecalis encodes a bifunctional enzyme: the HPr kinase/phosphatase
Probab=78.42 E-value=9.8 Score=30.05 Aligned_cols=53 Identities=11% Similarity=0.058 Sum_probs=42.2
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk 87 (112)
+..+.+-+.+.-++|++.+..+. ..+...|++++||++.......+++..+..
T Consensus 73 ~~~~~~~~~~~P~iIvt~~~~~p--~~l~~~a~~~~ip~l~t~~~~~~~~~~l~~ 125 (304)
T TIGR00679 73 QIIHNLLTLNPPAIILSKSFTDP--TVLLQVNETYQVPILKTDLFSTELSFRLET 125 (304)
T ss_pred HHHHHHhCCCCCEEEEECcCCCC--HHHHHHHHHhCCcEEEeCCcHHHHHHHHHH
Confidence 45666777889999999998775 678889999999999866677777776643
No 54
>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=78.08 E-value=23 Score=27.10 Aligned_cols=74 Identities=9% Similarity=0.030 Sum_probs=57.5
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCC-cEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 25 GKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKV-GVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~I-p~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
..++.-.-|+.++-.-|--.++++++=.+++....+..+|...|. |+++ +.|.+||-+++.-... ++||.+.++
T Consensus 115 KDFIid~~QI~eA~~~GADaVLLI~~~L~~~~l~~l~~~a~~lGle~lVE-Vh~~~El~~al~~~a~--iiGINnRdL 189 (254)
T PF00218_consen 115 KDFIIDPYQIYEARAAGADAVLLIAAILSDDQLEELLELAHSLGLEALVE-VHNEEELERALEAGAD--IIGINNRDL 189 (254)
T ss_dssp ES---SHHHHHHHHHTT-SEEEEEGGGSGHHHHHHHHHHHHHTT-EEEEE-ESSHHHHHHHHHTT-S--EEEEESBCT
T ss_pred ccCCCCHHHHHHHHHcCCCEeehhHHhCCHHHHHHHHHHHHHcCCCeEEE-ECCHHHHHHHHHcCCC--EEEEeCccc
Confidence 456777889999999999899999999999888999999999997 5555 8999999999855433 599987764
No 55
>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=76.63 E-value=7.9 Score=26.23 Aligned_cols=46 Identities=15% Similarity=0.093 Sum_probs=29.0
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHH
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVD 80 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~e 80 (112)
+.++.+-+.+.-++|++.|..+ -..+...|++++||+.....+..+
T Consensus 72 ~~l~~l~~~~~P~iIvt~~~~~--p~~l~e~a~~~~ipll~t~~~ts~ 117 (127)
T PF02603_consen 72 ERLEKLFSYNPPCIIVTRGLEP--PPELIELAEKYNIPLLRTPLSTSE 117 (127)
T ss_dssp CHHHHHCTTT-S-EEEETTT-----HHHHHHHHHCT--EEEESS-HHH
T ss_pred HHHHHHhCCCCCEEEEECcCCC--CHHHHHHHHHhCCcEEEcCCcHHH
Confidence 4566777788999999999954 455778899999999974444433
No 56
>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=75.46 E-value=3.8 Score=30.23 Aligned_cols=34 Identities=9% Similarity=-0.097 Sum_probs=28.5
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
..-+||.|.| ++..+..+..+|..+++|++. .+.
T Consensus 111 ~~DvVi~~~d-~~~~r~~l~~~~~~~~ip~i~-~g~ 144 (228)
T cd00757 111 GYDLVLDCTD-NFATRYLINDACVKLGKPLVS-GAV 144 (228)
T ss_pred CCCEEEEcCC-CHHHHHHHHHHHHHcCCCEEE-EEe
Confidence 3789999999 556788899999999999994 654
No 57
>PLN02591 tryptophan synthase
Probab=74.68 E-value=29 Score=26.43 Aligned_cols=80 Identities=9% Similarity=0.059 Sum_probs=56.5
Q ss_pred hhhHHHHHHHHHHHHHhCC------------ceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEec
Q 033750 8 KKTHESINNRLALVMKSGK------------YTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 8 ~~~~~~i~~~Lgla~kagk------------lv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~ 75 (112)
+...+++++++...|+.-+ +..|.+.-.+.+++--+.=||+. |.+.+....+...|+++++..+.++
T Consensus 60 G~~~~~~~~~~~~~r~~~~~p~ilm~Y~N~i~~~G~~~F~~~~~~aGv~Gviip-DLP~ee~~~~~~~~~~~gl~~I~lv 138 (250)
T PLN02591 60 GTTLDSVISMLKEVAPQLSCPIVLFTYYNPILKRGIDKFMATIKEAGVHGLVVP-DLPLEETEALRAEAAKNGIELVLLT 138 (250)
T ss_pred CCCHHHHHHHHHHHhcCCCCCEEEEecccHHHHhHHHHHHHHHHHcCCCEEEeC-CCCHHHHHHHHHHHHHcCCeEEEEe
Confidence 5566788888888775322 23488888888877667767766 8988888899999999997766444
Q ss_pred -CCH--HHHHhhhCCc
Q 033750 76 -GNN--VDLGTACGKY 88 (112)
Q Consensus 76 -~sk--~eLG~a~Gk~ 88 (112)
+|. +.+-.+....
T Consensus 139 ~Ptt~~~ri~~ia~~~ 154 (250)
T PLN02591 139 TPTTPTERMKAIAEAS 154 (250)
T ss_pred CCCCCHHHHHHHHHhC
Confidence 333 3466666444
No 58
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=74.03 E-value=7.2 Score=28.97 Aligned_cols=56 Identities=14% Similarity=0.117 Sum_probs=40.1
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHH-----HhhhCCcccEEEEEEeCcCchH
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDL-----GTACGKYFRVSCLSIIDPGDSD 103 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eL-----G~a~Gk~~~~~vvaI~d~g~a~ 103 (112)
+.+||.|+|-++ .-+.+.+.|+.+++|+.. +++ -++ .....+. ++ .++|...|-+-
T Consensus 73 ~~lviaAt~d~~-ln~~i~~~a~~~~i~vNv-~D~-p~~~~f~~Pa~~~r~-~l-~iaIsT~G~sP 133 (210)
T COG1648 73 AFLVIAATDDEE-LNERIAKAARERRILVNV-VDD-PELCDFIFPAIVDRG-PL-QIAISTGGKSP 133 (210)
T ss_pred ceEEEEeCCCHH-HHHHHHHHHHHhCCceec-cCC-cccCceecceeeccC-Ce-EEEEECCCCCh
Confidence 888888888654 667799999999999984 444 444 3344565 46 69998777433
No 59
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=73.26 E-value=13 Score=24.85 Aligned_cols=46 Identities=15% Similarity=0.121 Sum_probs=38.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
.++++.+.++.+.++++..|..++..+.++.+-+..-.|.+...++
T Consensus 36 ~~~~~~l~~~~~~iIiite~~a~~i~~~i~~~~~~~~~P~iv~IPs 81 (104)
T COG1436 36 RAALRVLAEDDVGIILITEDLAEKIREEIRRIIRSSVLPAIVEIPS 81 (104)
T ss_pred HHHHHhhccCCceEEEEeHHHHhhhHHHHHHHhhccCccEEEEeCC
Confidence 5677788888999999999999999999988876666888866677
No 60
>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=73.22 E-value=4.7 Score=29.31 Aligned_cols=34 Identities=9% Similarity=-0.003 Sum_probs=27.6
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
...+||.+.| +...+..+.++|.++++|++. .++
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 4678888877 567888999999999999994 654
No 61
>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=72.96 E-value=13 Score=28.55 Aligned_cols=44 Identities=11% Similarity=-0.036 Sum_probs=37.6
Q ss_pred EEEeCCCCchhhhhHHHHHHhCCCcEEEecC--CHHHHHhhhCCccc
Q 033750 46 ILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG--NNVDLGTACGKYFR 90 (112)
Q Consensus 46 VilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~--sk~eLG~a~Gk~~~ 90 (112)
+|+.+=.+++.++.+...|++++||++. .. --..|...+|.+..
T Consensus 55 iV~~Tlv~~~lr~~l~~~~~~~~i~~~D-ll~~~l~~l~~~lg~~p~ 100 (255)
T PF03618_consen 55 IVFYTLVDPELREYLEEFCREHGIPCVD-LLGPLLSALEEFLGQKPS 100 (255)
T ss_pred EEEEeCCCHHHHHHHHHHHHhcCCCEEe-ccHHHHHHHHHHHCcCcc
Confidence 7888889999999999999999999996 44 45689999998754
No 62
>PRK06512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=72.14 E-value=23 Score=26.36 Aligned_cols=63 Identities=8% Similarity=-0.073 Sum_probs=44.3
Q ss_pred HHHHHHHhcCCceE-EEEeCCCCchh----hhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 32 KTVLRSLRSSKGKL-ILLSNNCPPLR----KSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 32 ~~v~kai~~gka~l-VilA~D~s~~~----~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
+.+..++..|.+.+ .+=..|.+++. .+++..+|+.+++|++ +.+..+|...+|-+ .+| ++=.|
T Consensus 30 ~~l~~al~~G~v~~vQlR~K~l~~~~~~~~a~~l~~l~~~~gv~li--INd~~dlA~~~~ad-GVH-Lg~~d 97 (221)
T PRK06512 30 KLLRAALQGGDVASVILPQYGLDEATFQKQAEKLVPVIQEAGAAAL--IAGDSRIAGRVKAD-GLH-IEGNL 97 (221)
T ss_pred HHHHHHHcCCCccEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCEEE--EeCHHHHHHHhCCC-EEE-ECccc
Confidence 45566667775444 44467777643 4778889999999998 57889999999865 563 55333
No 63
>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=72.02 E-value=11 Score=24.18 Aligned_cols=52 Identities=17% Similarity=0.206 Sum_probs=35.3
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhC--CCcEEEecCCHHHHHhhhCCc
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLA--KVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~--~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
.++..+.++...+.++.++.|-.+ .+..+++.+ +.|++ .+...++.+..|..
T Consensus 48 l~~~~~~~~~~~~~vi~is~d~~~----~~~~~~~~~~~~~~~~--~D~~~~~~~~~~~~ 101 (124)
T PF00578_consen 48 LNELYKKYKDKGVQVIGISTDDPE----EIKQFLEEYGLPFPVL--SDPDGELAKAFGIE 101 (124)
T ss_dssp HHHHHHHHHTTTEEEEEEESSSHH----HHHHHHHHHTCSSEEE--EETTSHHHHHTTCE
T ss_pred HHHHhhhhccceEEeeeccccccc----chhhhhhhhccccccc--cCcchHHHHHcCCc
Confidence 344556667777899999998776 344455554 45665 34567899999876
No 64
>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=71.59 E-value=4.9 Score=31.27 Aligned_cols=41 Identities=7% Similarity=0.092 Sum_probs=31.0
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
..+||.+.| +...+.++..+|..++||++. ..+.--.|..+
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 778889999999999999994 77755555544
No 65
>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=71.12 E-value=22 Score=23.63 Aligned_cols=49 Identities=10% Similarity=0.101 Sum_probs=32.8
Q ss_pred HHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 36 RSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 36 kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
+..+...+.+|.++.|-++. +..+++.+++++..+.+...++..++|..
T Consensus 56 ~~~~~~~v~~v~v~~~~~~~----~~~~~~~~~~~~~~~~D~~~~~~~~~~~~ 104 (146)
T PF08534_consen 56 EKYKDKGVDVVGVSSDDDPP----VREFLKKYGINFPVLSDPDGALAKALGVT 104 (146)
T ss_dssp HHHHTTTCEEEEEEESSSHH----HHHHHHHTTTTSEEEEETTSHHHHHTTCE
T ss_pred hhhccCceEEEEecccCCHH----HHHHHHhhCCCceEEechHHHHHHHhCCc
Confidence 33455668888888888887 55555555544443345678999999955
No 66
>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=70.71 E-value=25 Score=22.92 Aligned_cols=66 Identities=14% Similarity=0.096 Sum_probs=35.3
Q ss_pred HHHHHHhcCCceEEEEeCCC--CchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCc
Q 033750 33 TVLRSLRSSKGKLILLSNNC--PPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDP 99 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~--s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~ 99 (112)
+..+..+...+.++.++++- .++....+..+.+++++++-.+.+...++...+|... .-..-|.|+
T Consensus 47 ~l~~~~~~~~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~~p~~~D~~~~~~~~~~v~~-~P~~~vid~ 114 (126)
T cd03012 47 DLEQKYKDDGLVVIGVHSPEFAFERDLANVKSAVLRYGITYPVANDNDYATWRAYGNQY-WPALYLIDP 114 (126)
T ss_pred HHHHHcCcCCeEEEEeccCccccccCHHHHHHHHHHcCCCCCEEECCchHHHHHhCCCc-CCeEEEECC
Confidence 33444444445666665432 2244566777777777655432345567778887532 123445554
No 67
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=69.51 E-value=17 Score=28.08 Aligned_cols=46 Identities=15% Similarity=0.090 Sum_probs=33.3
Q ss_pred HHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCccc
Q 033750 37 SLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFR 90 (112)
Q Consensus 37 ai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~ 90 (112)
.+-....-+||.|.|. ...+..+..+|..++||++. . |.+.|+-.+
T Consensus 116 ~ll~~~~D~VIdaiD~-~~~k~~L~~~c~~~~ip~I~-~------gGag~k~dp 161 (268)
T PRK15116 116 EYMSAGFSYVIDAIDS-VRPKAALIAYCRRNKIPLVT-T------GGAGGQIDP 161 (268)
T ss_pred HHhcCCCCEEEEcCCC-HHHHHHHHHHHHHcCCCEEE-E------CCcccCCCC
Confidence 3334567899999985 34577899999999999995 4 455666444
No 68
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=69.49 E-value=11 Score=29.14 Aligned_cols=60 Identities=12% Similarity=0.012 Sum_probs=45.9
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEe--------------cCCHHHHHhhhCCc
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHY--------------NGNNVDLGTACGKY 88 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~--------------~~sk~eLG~a~Gk~ 88 (112)
.|.+...+.++...+.+||=|+--=. +..+.....|++.||||+.| +.|-+|+.++.++.
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 36788899999999999997766533 55677778999999999763 45667777777654
No 69
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=69.40 E-value=14 Score=28.15 Aligned_cols=46 Identities=9% Similarity=-0.015 Sum_probs=37.8
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEec
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~ 75 (112)
+.+...+-|+++++.+||=|+--=+ ...+...+.|++.+|||+.|.
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 6678888889999999997777655 466778899999999999753
No 70
>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=69.17 E-value=7.3 Score=26.10 Aligned_cols=41 Identities=5% Similarity=-0.005 Sum_probs=29.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
....+.+ ...-+||.+.|- ...+..+.++|.++++|++. .+
T Consensus 84 ~~~~~~~--~~~d~vi~~~d~-~~~~~~l~~~~~~~~~p~i~-~~ 124 (135)
T PF00899_consen 84 ENIEELL--KDYDIVIDCVDS-LAARLLLNEICREYGIPFID-AG 124 (135)
T ss_dssp HHHHHHH--HTSSEEEEESSS-HHHHHHHHHHHHHTT-EEEE-EE
T ss_pred ccccccc--cCCCEEEEecCC-HHHHHHHHHHHHHcCCCEEE-EE
Confidence 3344444 246788888887 55778899999999999994 44
No 71
>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=69.14 E-value=7.7 Score=25.47 Aligned_cols=42 Identities=14% Similarity=-0.041 Sum_probs=31.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchh----hhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLR----KSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~----~~~i~~~c~~~~Ip~i~ 73 (112)
..+.+.|++|++.+||-..+-..+. --.++..|-+++||+++
T Consensus 61 ~~i~~~i~~~~idlVIn~~~~~~~~~~~~~~~iRr~Av~~~ip~iT 106 (116)
T cd01423 61 PSLRELLAEGKIDLVINLPSNRGKRVLDNDYVMRRAADDFAVPLIT 106 (116)
T ss_pred hhHHHHHHcCCceEEEECCCCCCCccccCcEeeehhhHhhCCcccc
Confidence 6688889999999998865433221 24577888899999984
No 72
>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=68.90 E-value=13 Score=26.34 Aligned_cols=64 Identities=9% Similarity=-0.051 Sum_probs=45.9
Q ss_pred HhCCceecHHHHHHHHhcCCceEEEEeCCC--C-c--hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 033750 23 KSGKYTLGYKTVLRSLRSSKGKLILLSNNC--P-P--LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 23 kagklv~G~~~v~kai~~gka~lVilA~D~--s-~--~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk 87 (112)
.+|.+ -|..|+-.-|..|++.+||+=.|- + | .-.+-+..+|..+|||+-+=..|-+-|=.....
T Consensus 55 ~SGpl-GGDqQIga~Ia~g~id~vIFf~DPl~~~phepDi~aLlRlc~v~nIP~AtN~aTA~~li~~~~~ 123 (143)
T TIGR00160 55 LSGPM-GGDQQIGALIAEGKIDAVIFFWDPLNAQPHEPDVKALLRLCTVWNIPLATNVATADFLIKSPHF 123 (143)
T ss_pred ccCCc-cHHHHHHHHHHhCCCCEEEEecCCCCCCCCCcCHHHHHHHHHhhCcccccCHHHHHHHHhCccc
Confidence 45655 678999999999999999999994 1 1 234667789999999998523355545444443
No 73
>PRK00278 trpC indole-3-glycerol-phosphate synthase; Reviewed
Probab=68.39 E-value=45 Score=25.29 Aligned_cols=71 Identities=11% Similarity=0.068 Sum_probs=54.1
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 26 KYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 26 klv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
.++.=.-|+..+..-|---+.+++++.++.+.+.+...|...+..++.-+.+.+|+-++.--.. ..+++..
T Consensus 118 dfi~~~~qi~~a~~~GAD~VlLi~~~l~~~~l~~li~~a~~lGl~~lvevh~~~E~~~A~~~ga--diIgin~ 188 (260)
T PRK00278 118 DFIIDPYQIYEARAAGADAILLIVAALDDEQLKELLDYAHSLGLDVLVEVHDEEELERALKLGA--PLIGINN 188 (260)
T ss_pred eecCCHHHHHHHHHcCCCEEEEEeccCCHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHcCC--CEEEECC
Confidence 3455556888899999888899999988888888999999998765434789999988774433 3577764
No 74
>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=68.23 E-value=6.7 Score=32.20 Aligned_cols=39 Identities=13% Similarity=0.090 Sum_probs=29.2
Q ss_pred EEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 46 ILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 46 VilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
+|++++.++.....+..+|..++||++ +..+.--.|...
T Consensus 115 iVI~t~~~~~~~~~L~~~c~~~~iPlI-~~~s~G~~G~v~ 153 (425)
T cd01493 115 VVIATNLPESTLLRLADVLWSANIPLL-YVRSYGLYGYIR 153 (425)
T ss_pred EEEECCCCHHHHHHHHHHHHHcCCCEE-EEecccCEEEEE
Confidence 345666677777889999999999999 577765555443
No 75
>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=67.86 E-value=19 Score=23.11 Aligned_cols=51 Identities=12% Similarity=0.032 Sum_probs=29.5
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
.+....-...+..+|+..+..| ...+..+|++.+||++..+.+.-+-.+.+
T Consensus 52 di~~~a~~~~i~~iIltg~~~~--~~~v~~la~~~~i~vi~t~~dtf~ta~~i 102 (105)
T PF07085_consen 52 DIQLAAIEAGIACIILTGGLEP--SEEVLELAKELGIPVISTPYDTFETARLI 102 (105)
T ss_dssp HHHHHHCCTTECEEEEETT------HHHHHHHHHHT-EEEE-SS-HHHHHHHH
T ss_pred HHHHHHHHhCCCEEEEeCCCCC--CHHHHHHHHHCCCEEEEECCCHHHHHHHH
Confidence 3444444444888999987755 34567788899999997555655554443
No 76
>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=67.83 E-value=14 Score=28.02 Aligned_cols=45 Identities=4% Similarity=-0.124 Sum_probs=37.0
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEe
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~ 74 (112)
|.+.....|+...+.+||=|+--=. ...+.+...|++.||||+.|
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 6678888889999999997777655 45677888999999999874
No 77
>PF15632 ATPgrasp_Ter: ATP-grasp in the biosynthetic pathway with Ter operon
Probab=67.60 E-value=16 Score=29.02 Aligned_cols=52 Identities=17% Similarity=0.254 Sum_probs=39.8
Q ss_pred eecHHHHHHHHhcCCceEEEEeCCCCchh-------------------hhhHHHHHHhCCCcEEEecCCHHHH
Q 033750 28 TLGYKTVLRSLRSSKGKLILLSNNCPPLR-------------------KSEIEYYAMLAKVGVHHYNGNNVDL 81 (112)
Q Consensus 28 v~G~~~v~kai~~gka~lVilA~D~s~~~-------------------~~~i~~~c~~~~Ip~i~~~~sk~eL 81 (112)
.++...++.+|+++ ..+-|+|+|.+++. ...+.+.|++++|.++ ++.-..++
T Consensus 8 ~s~~~~~i~~lr~~-~~~~i~~sh~~~~~~~~~~aD~~~~eP~~~~~yv~~~l~~C~~~~Idv~-~P~~~~~~ 78 (329)
T PF15632_consen 8 FSSQRDIIRSLRAN-RDFTIIASHRDPRAPILYAADEAYLEPADGEEYVDWCLDFCKEHGIDVF-VPGRNREL 78 (329)
T ss_pred CccHHHHHHHHHcC-CCeEEEEEeCCCCchHHhcCceeeecCCCHHHHHHHHHHHHHHhCCeEE-EcCccHHH
Confidence 45677788889888 88899999887542 3566779999999999 57754444
No 78
>PRK05690 molybdopterin biosynthesis protein MoeB; Provisional
Probab=67.43 E-value=6.8 Score=29.47 Aligned_cols=34 Identities=12% Similarity=0.113 Sum_probs=27.6
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
...+||.|.|. +..+..+..+|..+++|++. ...
T Consensus 122 ~~DiVi~~~D~-~~~r~~ln~~~~~~~ip~v~-~~~ 155 (245)
T PRK05690 122 GHDLVLDCTDN-VATRNQLNRACFAAKKPLVS-GAA 155 (245)
T ss_pred cCCEEEecCCC-HHHHHHHHHHHHHhCCEEEE-eee
Confidence 47799999984 45788899999999999994 443
No 79
>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=67.37 E-value=20 Score=23.86 Aligned_cols=42 Identities=14% Similarity=-0.048 Sum_probs=29.3
Q ss_pred HHHH-hcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 35 LRSL-RSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 35 ~kai-~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
.+.+ ++|-+.++|--.+.-+..=+.+.++|+++++|++. .+.
T Consensus 65 i~~L~~~~~agL~i~~~~~~~~iP~~~i~~A~~~~lPli~-ip~ 107 (123)
T PF07905_consen 65 IRELAEKGAAGLGIKTGRYLDEIPEEIIELADELGLPLIE-IPW 107 (123)
T ss_pred HHHHHHCCCeEEEEeccCccccCCHHHHHHHHHcCCCEEE-eCC
Confidence 3444 44556666655545556778899999999999996 443
No 80
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=67.24 E-value=31 Score=26.83 Aligned_cols=59 Identities=12% Similarity=0.053 Sum_probs=33.4
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEE
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLS 95 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vva 95 (112)
+...+....++++|+|.|..-- --++.+=+.++||++. +---..=...+.++..+.++|
T Consensus 59 i~~~l~~~~ik~lVIACNTASa--~al~~LR~~~~iPVvG-viPaik~A~~~t~~~~IgVia 117 (269)
T COG0796 59 IVDFLLERGIKALVIACNTASA--VALEDLREKFDIPVVG-VIPAIKPAVALTRNGRIGVIA 117 (269)
T ss_pred HHHHHHHcCCCEEEEecchHHH--HHHHHHHHhCCCCEEE-eccchHHHHHhccCCeEEEEe
Confidence 3344444449999999998542 2234444567999996 332233333344444454443
No 81
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=67.13 E-value=12 Score=28.59 Aligned_cols=45 Identities=2% Similarity=-0.071 Sum_probs=36.9
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEe
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~ 74 (112)
+.+...+.++..++.+||-|+--=. ...+.....|++.+|||+.|
T Consensus 53 ~~~~l~~~l~~~~i~~VIDAtHPfA~~is~~a~~a~~~~~ipylR~ 98 (256)
T TIGR00715 53 DPQELREFLKRHSIDILVDATHPFAAQITTNATAVCKELGIPYVRF 98 (256)
T ss_pred CHHHHHHHHHhcCCCEEEEcCCHHHHHHHHHHHHHHHHhCCcEEEE
Confidence 4566668888899999998887665 56677889999999999985
No 82
>COG1493 HprK Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]
Probab=66.84 E-value=27 Score=27.72 Aligned_cols=52 Identities=15% Similarity=0.086 Sum_probs=41.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
.+.++.+-.-+--++|++.+..+ -..+.++|+.++||+.....+..+|..-+
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 45666677778889999999977 56688999999999998666777776655
No 83
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=65.99 E-value=8.8 Score=25.98 Aligned_cols=43 Identities=9% Similarity=-0.038 Sum_probs=31.6
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEE
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i 72 (112)
..++..+.++++.+.-|++|-+-++ +...++...|+..+|++.
T Consensus 129 ~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~~v~v~ 172 (175)
T PF13727_consen 129 DLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENHGVRVR 172 (175)
T ss_dssp -GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTTT-EEE
T ss_pred CHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhCCCEEE
Confidence 4688999999999999999976665 677889999999999887
No 84
>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=65.79 E-value=27 Score=21.09 Aligned_cols=64 Identities=8% Similarity=0.045 Sum_probs=36.8
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcC
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPG 100 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g 100 (112)
..+...+..+.++.+..|.. +...+..+.+.++.|+..+.+...++.+..|.... -.+.|.|++
T Consensus 44 ~~~~~~~~~~~~~~v~~d~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-P~~~l~d~~ 107 (116)
T cd02966 44 LAKEYKDDGVEVVGVNVDDD--DPAAVKAFLKKYGITFPVLLDPDGELAKAYGVRGL-PTTFLIDRD 107 (116)
T ss_pred HHHHhCCCCeEEEEEECCCC--CHHHHHHHHHHcCCCcceEEcCcchHHHhcCcCcc-ceEEEECCC
Confidence 33334445577777777764 34445555555555555334455788999887422 235667754
No 85
>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=65.67 E-value=18 Score=27.30 Aligned_cols=17 Identities=0% Similarity=-0.097 Sum_probs=9.2
Q ss_pred hhhhHHHHHHhCCCcEE
Q 033750 56 RKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 56 ~~~~i~~~c~~~~Ip~i 72 (112)
...++....++.+|+++
T Consensus 194 ~l~~l~~~ik~~~v~~i 210 (264)
T cd01020 194 DIAAFQNAIKNRQIDAL 210 (264)
T ss_pred HHHHHHHHHHhCCCCEE
Confidence 34455555555555555
No 86
>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=65.59 E-value=3.8 Score=30.18 Aligned_cols=71 Identities=11% Similarity=-0.015 Sum_probs=56.4
Q ss_pred HHHHHHHHHhC----------CceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEE---EecCCHHHH
Q 033750 15 NNRLALVMKSG----------KYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVH---HYNGNNVDL 81 (112)
Q Consensus 15 ~~~Lgla~kag----------klv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i---~~~~sk~eL 81 (112)
.++|+|++-+| +-.+|.++-+..+-+..--.||+-.+...-...|.+.+.+.-+||++ .++-+.|++
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 45677777778 88999999888888777777888888877788888888888899988 235688888
Q ss_pred Hhhh
Q 033750 82 GTAC 85 (112)
Q Consensus 82 G~a~ 85 (112)
.++-
T Consensus 145 ak~G 148 (194)
T TIGR03264 145 AKIG 148 (194)
T ss_pred HHhC
Confidence 8764
No 87
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=65.57 E-value=23 Score=23.93 Aligned_cols=52 Identities=8% Similarity=0.147 Sum_probs=33.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk 87 (112)
.+..+.+....+.+|-++.|. ...+..+++++++|+..+.+...++++.+|.
T Consensus 54 ~~~~~~~~~~~v~vi~Is~d~----~~~~~~~~~~~~~~~~~l~D~~~~~~~~~gv 105 (154)
T PRK09437 54 RDNMDELKKAGVVVLGISTDK----PEKLSRFAEKELLNFTLLSDEDHQVAEQFGV 105 (154)
T ss_pred HHHHHHHHHCCCEEEEEcCCC----HHHHHHHHHHhCCCCeEEECCCchHHHHhCC
Confidence 334445555567788887763 3556667777777665334556788888885
No 88
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=65.32 E-value=18 Score=28.65 Aligned_cols=52 Identities=15% Similarity=0.118 Sum_probs=33.7
Q ss_pred HHHHHHHHhcCCceEEEEeCCCC------chhhhhHHH---HHHhCCCcEEEecCCHHHHH
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCP------PLRKSEIEY---YAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s------~~~~~~i~~---~c~~~~Ip~i~~~~sk~eLG 82 (112)
+.++++.++..++-+||+|.|.= ++....+.. .....+||++...|+-+-.+
T Consensus 29 f~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~~~Ipv~~I~GNHD~~~ 89 (390)
T COG0420 29 FDELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKDAGIPVVVIAGNHDSPS 89 (390)
T ss_pred HHHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhccCCCcEEEecCCCCchh
Confidence 45677788889999999999983 233322222 22236799997666544433
No 89
>PRK03147 thiol-disulfide oxidoreductase; Provisional
Probab=64.58 E-value=42 Score=22.81 Aligned_cols=12 Identities=17% Similarity=0.008 Sum_probs=7.5
Q ss_pred CHHHHHhhhCCc
Q 033750 77 NNVDLGTACGKY 88 (112)
Q Consensus 77 sk~eLG~a~Gk~ 88 (112)
...++.+.+|..
T Consensus 126 ~~~~~~~~~~v~ 137 (173)
T PRK03147 126 KGRQVIDAYGVG 137 (173)
T ss_pred CcchHHHHcCCC
Confidence 345677777754
No 90
>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=64.47 E-value=27 Score=24.83 Aligned_cols=58 Identities=9% Similarity=-0.054 Sum_probs=37.6
Q ss_pred ecHHHHHHHHhc--CCceEEEEeCCCCch---hhhhHHHHHHhCCCcEEEec---CCHHHHHhhhC
Q 033750 29 LGYKTVLRSLRS--SKGKLILLSNNCPPL---RKSEIEYYAMLAKVGVHHYN---GNNVDLGTACG 86 (112)
Q Consensus 29 ~G~~~v~kai~~--gka~lVilA~D~s~~---~~~~i~~~c~~~~Ip~i~~~---~sk~eLG~a~G 86 (112)
.+.....+.|++ .++.-||+|.|++.. +-..+.+++...+.|+...+ .|..++=+|+.
T Consensus 103 ~~~~~~~~~l~~l~~~~~~iiiatD~drEGe~I~~~i~~~~~~~~~~v~R~~fs~it~~~I~~a~~ 168 (170)
T cd03361 103 DDKLETLEALRELALEVDEVLIATDPDTEGEKIAWDVYLALRPYNKNIKRAEFHEVTRRAILEALR 168 (170)
T ss_pred cchHHHHHHHHHHHhhCCEEEEecCCCccHHHHHHHHHHHhccCCCCeEEEEEecCCHHHHHHHHh
Confidence 456666666655 678999999999864 34667777765455554333 36666666553
No 91
>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=63.56 E-value=39 Score=22.12 Aligned_cols=50 Identities=18% Similarity=0.149 Sum_probs=29.9
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk 87 (112)
..+.+....+.+|.++.|..+.. ..+++.+++|+-.+.+...++.+++|.
T Consensus 49 ~~~~~~~~~v~vv~V~~~~~~~~----~~~~~~~~~~~p~~~D~~~~~~~~~g~ 98 (149)
T cd02970 49 LLPELDALGVELVAVGPESPEKL----EAFDKGKFLPFPVYADPDRKLYRALGL 98 (149)
T ss_pred HHHHHHhcCeEEEEEeCCCHHHH----HHHHHhcCCCCeEEECCchhHHHHcCc
Confidence 34444445577888887755432 245556655444334556788888886
No 92
>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=63.21 E-value=5.9 Score=29.04 Aligned_cols=63 Identities=13% Similarity=0.082 Sum_probs=39.9
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh-C---CcccEEEEEEeC----cCchHHHhcC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC-G---KYFRVSCLSIID----PGDSDIIKSL 108 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~-G---k~~~~~vvaI~d----~g~a~~i~~~ 108 (112)
.+.+||.|.|-++ .-..+...|+..+||+.. +++ -+++... . ..-.. .++|.. |.+|+.|++.
T Consensus 69 ~~~lVi~at~d~~-ln~~i~~~a~~~~ilvn~-~d~-~e~~~f~~pa~~~~g~l-~iaisT~G~sP~la~~lr~~ 139 (205)
T TIGR01470 69 GAFLVIAATDDEE-LNRRVAHAARARGVPVNV-VDD-PELCSFIFPSIVDRSPV-VVAISSGGAAPVLARLLRER 139 (205)
T ss_pred CcEEEEECCCCHH-HHHHHHHHHHHcCCEEEE-CCC-cccCeEEEeeEEEcCCE-EEEEECCCCCcHHHHHHHHH
Confidence 4788888888753 446788899999999974 444 4444432 1 11235 588874 4456665543
No 93
>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=62.98 E-value=19 Score=26.97 Aligned_cols=37 Identities=14% Similarity=0.110 Sum_probs=28.7
Q ss_pred HHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 36 RSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 36 kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
..+-..+.-+||.|.|..+ .+..+..+|..++||++.
T Consensus 96 ~~l~~~~~D~VvdaiD~~~-~k~~L~~~c~~~~ip~I~ 132 (231)
T cd00755 96 EDLLGGDPDFVVDAIDSIR-AKVALIAYCRKRKIPVIS 132 (231)
T ss_pred HHHhcCCCCEEEEcCCCHH-HHHHHHHHHHHhCCCEEE
Confidence 3344456889999988654 667799999999999995
No 94
>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=62.76 E-value=37 Score=22.18 Aligned_cols=46 Identities=17% Similarity=0.132 Sum_probs=30.7
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC---HHHHHhhhCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN---NVDLGTACGK 87 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s---k~eLG~a~Gk 87 (112)
++.+|.++.|-..+....+..+.+.++.++....++ ...|.+.+|.
T Consensus 59 ~v~~v~vs~d~~~d~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~g~ 107 (142)
T cd02968 59 DVQVVFISVDPERDTPEVLKAYAKAFGPGWIGLTGTPEEIEALAKAFGV 107 (142)
T ss_pred ceEEEEEEECCCCCCHHHHHHHHHHhCCCcEEEECCHHHHHHHHHHhcE
Confidence 688999998876556666777777776544421233 3578888884
No 95
>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=62.48 E-value=20 Score=25.35 Aligned_cols=53 Identities=9% Similarity=0.103 Sum_probs=38.3
Q ss_pred HHHHHHHhc--CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhh
Q 033750 32 KTVLRSLRS--SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTA 84 (112)
Q Consensus 32 ~~v~kai~~--gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a 84 (112)
.++.+.+.. .++.+|+++-|-..++-+.+..+++.++..+..+.++.+++-.+
T Consensus 76 ~~~~~~l~~~~~~v~~v~ISvDP~~DTp~~L~~Y~~~~~~~~~~ltg~~~~i~~l 130 (174)
T PF02630_consen 76 SQLQKQLGEEGKDVQFVFISVDPERDTPEVLKKYAKKFGPDFIGLTGSREEIEEL 130 (174)
T ss_dssp HHHHHHHHHTTTTEEEEEEESSTTTC-HHHHHHHHHCHTTTCEEEEEEHHHHHHH
T ss_pred HHHHHHhhhccCceEEEEEEeCCCCCCHHHHHHHHHhcCCCcceeEeCHHHHHHH
Confidence 344555543 36899999999888899999999998887766555676665544
No 96
>COG0134 TrpC Indole-3-glycerol phosphate synthase [Amino acid transport and metabolism]
Probab=62.44 E-value=28 Score=26.82 Aligned_cols=75 Identities=11% Similarity=0.007 Sum_probs=57.2
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 25 GKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
.-.+...-|+..+-.-|--.++++++=.++...+.+..+|.+.|..+..=+.+.+||-+|+-.... ++||.+.++
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 345666777777777776666677777777777889999999997444348999999999986644 599998875
No 97
>COG1803 MgsA Methylglyoxal synthase [Carbohydrate transport and metabolism]
Probab=62.35 E-value=29 Score=24.38 Aligned_cols=80 Identities=16% Similarity=0.013 Sum_probs=55.5
Q ss_pred hHHHHHHHHHHHH---HhCCceecHHHHHHHHhcCCceEEEEeCCC------CchhhhhHHHHHHhCCCcEEEecCCHHH
Q 033750 10 THESINNRLALVM---KSGKYTLGYKTVLRSLRSSKGKLILLSNNC------PPLRKSEIEYYAMLAKVGVHHYNGNNVD 80 (112)
Q Consensus 10 ~~~~i~~~Lgla~---kagklv~G~~~v~kai~~gka~lVilA~D~------s~~~~~~i~~~c~~~~Ip~i~~~~sk~e 80 (112)
+-..|.+.-|+.. ++|-+ -|..|+-..|..|++-++|+--|- +|+ ++-+..+|.-+|||+-+-..|.+-
T Consensus 41 TG~~i~~atgL~v~~~~SGPm-GGDQQiGa~Iaeg~id~lIFf~DPLtaqPHdpD-VkAL~Rl~~V~nIP~A~N~aTAe~ 118 (142)
T COG1803 41 TGGLIQEATGLNVHRLKSGPM-GGDQQIGALIAEGKIDVLIFFWDPLTAQPHDPD-VKALLRLATVYNIPVATNRATAEF 118 (142)
T ss_pred chHHHHHHhCCceEEeecCCC-CccHHHHHHHhcCcceEEEEEecCCCCCCCCcC-HHHHHHHHHhhcccchhhHhHHHH
Confidence 3344444444432 34444 578889999999999999998875 333 455778999999999864557777
Q ss_pred HHhhhCCcccE
Q 033750 81 LGTACGKYFRV 91 (112)
Q Consensus 81 LG~a~Gk~~~~ 91 (112)
|=+..+.....
T Consensus 119 li~~~~~~~~~ 129 (142)
T COG1803 119 LIKSLLFNDFV 129 (142)
T ss_pred HHhccccCCce
Confidence 77777766544
No 98
>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=61.86 E-value=2.8 Score=32.43 Aligned_cols=63 Identities=11% Similarity=0.003 Sum_probs=54.2
Q ss_pred HHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH
Q 033750 15 NNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 15 ~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
.|+|+|++-+|+-.+|.++-...+-+..--.||+-.+...-...+...+.+.-+||++. .+.-
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 37899999999999999999999988888888888998888888888888888999884 5554
No 99
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=61.54 E-value=30 Score=27.96 Aligned_cols=79 Identities=13% Similarity=0.031 Sum_probs=54.3
Q ss_pred HHHHHHHH-hCCceecHHHHHHHHhcCCceEEEEeCCC------Cc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 033750 16 NRLALVMK-SGKYTLGYKTVLRSLRSSKGKLILLSNNC------PP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 16 ~~Lgla~k-agklv~G~~~v~kai~~gka~lVilA~D~------s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk 87 (112)
.+|....+ -+++.+|.++|.+|+.=|-+.-++++-.. .. .....+....+..+-+++. +.+--+.|.-+-.
T Consensus 261 ~fl~~iak~~~~v~YG~~eV~~A~e~GAve~LLv~De~lr~~~~~~re~~~~ll~~ve~~ggkV~I-vs~~he~Ge~Lk~ 339 (352)
T COG1537 261 EFLERLAKDDDKVAYGLEEVEKAAEYGAVETLLVTDELLRSDDVEEREDVEELLEEVESMGGKVVI-VSTEHEPGERLKA 339 (352)
T ss_pred HHHHHHhcCCCceeEcHHHHHHHHhcCcceeEEeehhhhcccchhhHHHHHHHHHHHHHcCCeEEE-EecCCcchHHHHh
Confidence 34443444 68999999999999999999988887543 11 2334455566678889884 7777788877644
Q ss_pred cccEEEEEEe
Q 033750 88 YFRVSCLSII 97 (112)
Q Consensus 88 ~~~~~vvaI~ 97 (112)
=-. ++||+
T Consensus 340 lGG--iaaIL 347 (352)
T COG1537 340 LGG--IAAIL 347 (352)
T ss_pred ccC--eEEEE
Confidence 322 35554
No 100
>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=61.21 E-value=24 Score=25.25 Aligned_cols=43 Identities=16% Similarity=0.082 Sum_probs=35.2
Q ss_pred HHHHHHHHhcCCceEEEEeCCCC-chhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~ 73 (112)
-+++.+.|++.+--++++..-+. +...+.+..+++..++|++.
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 35677888888877888877775 57788999999999999997
No 101
>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=61.16 E-value=36 Score=20.88 Aligned_cols=45 Identities=13% Similarity=0.208 Sum_probs=29.7
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
.++..+....-.++|+...++.-.=.....+|++.+||++.|..+
T Consensus 22 ~~Ld~~~~~~~~~~lvhGga~~GaD~iA~~wA~~~gv~~~~~~ad 66 (71)
T PF10686_consen 22 AALDKVHARHPDMVLVHGGAPKGADRIAARWARERGVPVIRFPAD 66 (71)
T ss_pred HHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHHHCCCeeEEeCcC
Confidence 345555556666777776664333344467899999999987665
No 102
>KOG4175 consensus Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=61.03 E-value=33 Score=26.14 Aligned_cols=64 Identities=14% Similarity=0.184 Sum_probs=48.7
Q ss_pred hhhhHHHHHHHHHHHHHhCC-------------ceecHHHHHHHHhc-CCceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 7 TKKTHESINNRLALVMKSGK-------------YTLGYKTVLRSLRS-SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 7 ~~~~~~~i~~~Lgla~kagk-------------lv~G~~~v~kai~~-gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
++...+++++++..|+.+|- +..|....++-+++ |--.++| -|.+|.-...++..|+.++|.++
T Consensus 75 ng~tl~~i~emvk~ar~~gvt~PIiLmgYYNPIl~yG~e~~iq~ak~aGanGfii--vDlPpEEa~~~Rne~~k~gislv 152 (268)
T KOG4175|consen 75 NGTTLNSIIEMVKEARPQGVTCPIILMGYYNPILRYGVENYIQVAKNAGANGFII--VDLPPEEAETLRNEARKHGISLV 152 (268)
T ss_pred cCCcHHHHHHHHHHhcccCcccceeeeecccHHHhhhHHHHHHHHHhcCCCceEe--ccCChHHHHHHHHHHHhcCceEE
Confidence 35678999999999999863 45677777777655 4444444 49999999999999999996444
No 103
>PRK06552 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=59.68 E-value=32 Score=25.50 Aligned_cols=63 Identities=13% Similarity=0.047 Sum_probs=45.7
Q ss_pred Cceec------HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEE
Q 033750 26 KYTLG------YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSI 96 (112)
Q Consensus 26 klv~G------~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI 96 (112)
.+..| .+++.+++..| +.+++ ||..-..+..+|.++++|++-=..|-.|+=.+..-.. ..+.+
T Consensus 67 ~~~vGaGTV~~~~~~~~a~~aG-A~Fiv-----sP~~~~~v~~~~~~~~i~~iPG~~T~~E~~~A~~~Ga--d~vkl 135 (213)
T PRK06552 67 EVLIGAGTVLDAVTARLAILAG-AQFIV-----SPSFNRETAKICNLYQIPYLPGCMTVTEIVTALEAGS--EIVKL 135 (213)
T ss_pred CeEEeeeeCCCHHHHHHHHHcC-CCEEE-----CCCCCHHHHHHHHHcCCCEECCcCCHHHHHHHHHcCC--CEEEE
Confidence 47776 47788888877 55555 7888888999999999999832348888888874332 23555
No 104
>PRK05339 PEP synthetase regulatory protein; Provisional
Probab=59.28 E-value=33 Score=26.67 Aligned_cols=48 Identities=13% Similarity=-0.019 Sum_probs=38.2
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC-CHHHHHhhhCCccc
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG-NNVDLGTACGKYFR 90 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~-sk~eLG~a~Gk~~~ 90 (112)
..-+|+.+=.++..++.+...|+.++||++...+ --..|...+|.+..
T Consensus 58 ~~~iV~~Tlv~~elr~~l~~~~~~~~i~~vdll~p~i~~le~~lg~~p~ 106 (269)
T PRK05339 58 ERPIVFYTLVDPELREILEERCAEFGIPCIDILGPLIAPLEQELGLKPT 106 (269)
T ss_pred cCCEEEEeCCCHHHHHHHHHHHHHcCCCEEeccHHHHHHHHHHHCcCCC
Confidence 3447888888999999999999999999997333 45688888887643
No 105
>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=57.79 E-value=27 Score=23.35 Aligned_cols=49 Identities=20% Similarity=0.244 Sum_probs=22.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCCch-hhhhHHHHHHhC--CCcEEEecCCHHHH
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPL-RKSEIEYYAMLA--KVGVHHYNGNNVDL 81 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~-~~~~i~~~c~~~--~Ip~i~~~~sk~eL 81 (112)
+++.++++.-.+-++++....+.. .-..+..+.... +.|++ .+.+|.+|
T Consensus 3 ~~~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~~~~k~~i-ivlNK~DL 54 (141)
T cd01857 3 RQLWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEVDPRKKNI-LLLNKADL 54 (141)
T ss_pred HHHHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhccCCCcEE-EEEechhc
Confidence 455566655554444443322221 122444444333 56666 36666555
No 106
>PRK08328 hypothetical protein; Provisional
Probab=57.64 E-value=15 Score=27.27 Aligned_cols=34 Identities=12% Similarity=0.026 Sum_probs=28.0
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
...+||-+.|- +.++..+.++|..+++|++. ...
T Consensus 118 ~~D~Vid~~d~-~~~r~~l~~~~~~~~ip~i~-g~~ 151 (231)
T PRK08328 118 GVDVIVDCLDN-FETRYLLDDYAHKKGIPLVH-GAV 151 (231)
T ss_pred cCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE-Eee
Confidence 47889999988 56788899999999999994 444
No 107
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=57.48 E-value=50 Score=25.96 Aligned_cols=57 Identities=9% Similarity=0.062 Sum_probs=37.2
Q ss_pred HHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHh-hhCCcccEEEEEEe
Q 033750 36 RSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT-ACGKYFRVSCLSII 97 (112)
Q Consensus 36 kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~-a~Gk~~~~~vvaI~ 97 (112)
..|.+.-=.++|+.+--|.|+++ |.+.|+.++.|.+ +..+-+||-. ++ +.. ..+||+
T Consensus 205 ~~La~~vD~miVVGg~~SsNT~k-L~~i~~~~~~~t~-~Ie~~~el~~~~l-~~~--~~VGit 262 (298)
T PRK01045 205 KELAPQADLVIVVGSKNSSNSNR-LREVAEEAGAPAY-LIDDASEIDPEWF-KGV--KTVGVT 262 (298)
T ss_pred HHHHhhCCEEEEECCCCCccHHH-HHHHHHHHCCCEE-EECChHHCcHHHh-cCC--CEEEEE
Confidence 34443333455566666667765 7779999999999 5999999974 34 222 246776
No 108
>KOG2016 consensus NEDD8-activating complex, APP-BP1/UBA5 component [Posttranslational modification, protein turnover, chaperones]
Probab=57.46 E-value=9.3 Score=32.03 Aligned_cols=34 Identities=9% Similarity=-0.028 Sum_probs=29.3
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
---|++|++..+++.-++...|.++|||++. ..|
T Consensus 119 qFtvViatnl~E~~~~kl~~~l~~~~vpll~-~rs 152 (523)
T KOG2016|consen 119 QFTVVIATNLNEQTLLKLAEILREANVPLLL-TRS 152 (523)
T ss_pred eeeeeeccccchhhhhhhHHHHHhcCCceEE-Eee
Confidence 3458999999999999999999999999994 544
No 109
>PLN02821 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate reductase
Probab=57.42 E-value=48 Score=27.74 Aligned_cols=46 Identities=15% Similarity=0.148 Sum_probs=32.5
Q ss_pred HHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 033750 37 SLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 83 (112)
Q Consensus 37 ai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~ 83 (112)
.|-..++-++|+-.+-.-.-..+|...|+..++|.+ +..+.+||+.
T Consensus 357 ~L~~~~vDlmiVVGG~NSSNT~~L~eIa~~~g~~sy-~Ie~~~eI~~ 402 (460)
T PLN02821 357 KLVEEKLDLMLVVGGWNSSNTSHLQEIAEHKGIPSY-WIDSEERIGP 402 (460)
T ss_pred HHhhcCCCEEEEECCCCCccHHHHHHHHHHhCCCEE-EECCHHHcCc
Confidence 343345666665555544444558889999999999 5999999985
No 110
>PRK00865 glutamate racemase; Provisional
Probab=57.27 E-value=57 Score=24.61 Aligned_cols=38 Identities=11% Similarity=0.114 Sum_probs=27.1
Q ss_pred HHHHHHhcCCceEEEEeCCCCch-hhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPL-RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~-~~~~i~~~c~~~~Ip~i~ 73 (112)
+..+.+.+..+.++++|.+.... ....++ +..++|++.
T Consensus 58 ~~~~~L~~~g~d~iVIaCNTa~~~~l~~lr---~~~~iPvig 96 (261)
T PRK00865 58 EIVEFLLEYGVKMLVIACNTASAVALPDLR---ERYDIPVVG 96 (261)
T ss_pred HHHHHHHhCCCCEEEEeCchHHHHHHHHHH---HhCCCCEEe
Confidence 45556666779999999998764 334444 456899985
No 111
>PRK05428 HPr kinase/phosphorylase; Provisional
Probab=56.93 E-value=44 Score=26.44 Aligned_cols=44 Identities=18% Similarity=0.083 Sum_probs=34.1
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
+..+.+-+.+.-++|++.+..+.. .+...|++++||++....+.
T Consensus 73 ~~~~~l~~~~~P~iIvt~~~~~p~--~l~~~a~~~~ipll~t~~~t 116 (308)
T PRK05428 73 ERLKKLFSLEPPCIIVTRGLEPPP--ELLEAAKEAGIPLLRTPLST 116 (308)
T ss_pred HHHHHHhCCCCCEEEEECcCCCCH--HHHHHHHHcCCcEEEeCCcH
Confidence 456667778899999999997743 37889999999999744433
No 112
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=56.35 E-value=36 Score=27.46 Aligned_cols=51 Identities=10% Similarity=0.032 Sum_probs=40.2
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
.++..+.+++..+.-|++|.+..+ +...++...|+..++++.. .++-.|+.
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 466778888889999999977655 4567888899999999984 77777753
No 113
>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=56.27 E-value=41 Score=28.00 Aligned_cols=56 Identities=7% Similarity=0.077 Sum_probs=39.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhh-hhHHHHHHhCCCcEEEecCCHHH---HHhhhCCc
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRK-SEIEYYAMLAKVGVHHYNGNNVD---LGTACGKY 88 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~-~~i~~~c~~~~Ip~i~~~~sk~e---LG~a~Gk~ 88 (112)
.+..+.+.+..+.+||.+.+.+.+.. ....+++.+++|.++. ..++++ |..++|-.
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 34556666677899999999976544 4456778889999996 666555 55555643
No 114
>PLN02460 indole-3-glycerol-phosphate synthase
Probab=56.27 E-value=63 Score=25.96 Aligned_cols=73 Identities=7% Similarity=0.065 Sum_probs=56.1
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCC-cEEEecCCHHHHHhhhCC-cccEEEEEEeCcCc
Q 033750 26 KYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKV-GVHHYNGNNVDLGTACGK-YFRVSCLSIIDPGD 101 (112)
Q Consensus 26 klv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~I-p~i~~~~sk~eLG~a~Gk-~~~~~vvaI~d~g~ 101 (112)
-++.-.-|+.++-.-|--.++++|+=.++.....+..+|...+. ++++ +.|.+||-+++.. .. .++||.+.++
T Consensus 188 DFIID~yQI~eAr~~GADAVLLIaaiL~~~~L~~l~~~A~~LGme~LVE-VH~~~ElerAl~~~ga--~iIGINNRdL 262 (338)
T PLN02460 188 EFIVDAWQIYYARSKGADAILLIAAVLPDLDIKYMLKICKSLGMAALIE-VHDEREMDRVLGIEGV--ELIGINNRSL 262 (338)
T ss_pred cccCCHHHHHHHHHcCCCcHHHHHHhCCHHHHHHHHHHHHHcCCeEEEE-eCCHHHHHHHHhcCCC--CEEEEeCCCC
Confidence 35666677777777776666777777777778889999999997 5555 8999999999986 43 3699998765
No 115
>PRK07688 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated
Probab=56.27 E-value=17 Score=28.81 Aligned_cols=34 Identities=12% Similarity=-0.048 Sum_probs=27.9
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
..-+||-+.| ++.++..+.++|..+++|++ |...
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 4789999988 45678889999999999999 5544
No 116
>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=56.07 E-value=41 Score=22.91 Aligned_cols=45 Identities=16% Similarity=-0.055 Sum_probs=29.1
Q ss_pred CCceEEEEeCCCCchh---hhhHHHHHHhCCCcEEEec---CCHHHHHhhh
Q 033750 41 SKGKLILLSNNCPPLR---KSEIEYYAMLAKVGVHHYN---GNNVDLGTAC 85 (112)
Q Consensus 41 gka~lVilA~D~s~~~---~~~i~~~c~~~~Ip~i~~~---~sk~eLG~a~ 85 (112)
.++..||+|+|++... -.++..+|...+.|+...+ .|.+++=+|+
T Consensus 89 ~~~d~iiiAtD~DrEGE~I~~~i~~~~~~~~~~v~R~~fsslT~~~I~~A~ 139 (142)
T cd01028 89 KKADEIVLATDPDREGELIAWEILEVLKCDNKPVKRAWFSEITPKAIREAF 139 (142)
T ss_pred hcCCEEEEcCCCCcchHHHHHHHHHHhCCCCCCeEEEEEccCCHHHHHHHH
Confidence 3568999999999754 3566667765345654433 3666665554
No 117
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=56.05 E-value=13 Score=29.45 Aligned_cols=33 Identities=6% Similarity=0.037 Sum_probs=23.3
Q ss_pred ceEEEEeCCCC---------------chh---hhhHHHHHHhCCCcEEEec
Q 033750 43 GKLILLSNNCP---------------PLR---KSEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 43 a~lVilA~D~s---------------~~~---~~~i~~~c~~~~Ip~i~~~ 75 (112)
-.+.|+|.|.. |.. ..++..+|..+++|+++++
T Consensus 108 rpV~VIa~d~g~~~~e~~~~~~G~~~peg~rKa~R~m~lA~~f~lPIVtlv 158 (319)
T PRK05724 108 RPVMVIGHQKGRDTKEKIRRNFGMPRPEGYRKALRLMKMAEKFGLPIITFI 158 (319)
T ss_pred EEEEEEEecCCccccccccccCCCCCHHHHHHHHHHHHHHHHcCCCEEEEE
Confidence 46688898863 222 2455679999999999753
No 118
>PRK13802 bifunctional indole-3-glycerol phosphate synthase/tryptophan synthase subunit beta; Provisional
Probab=56.01 E-value=1.1e+02 Score=27.03 Aligned_cols=84 Identities=7% Similarity=-0.003 Sum_probs=64.8
Q ss_pred HHHHHHHHh-------CCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 16 NRLALVMKS-------GKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 16 ~~Lgla~ka-------gklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
+.|..++++ ..++.-.-|+.++-.-|--.++++++=.++...+.+..+|...+...+.-+.|.+||-+++--.
T Consensus 101 ~~l~~vr~~v~~PvLrKDFIid~~QI~ea~~~GADavLLI~~~L~~~~l~~l~~~a~~lGme~LvEvh~~~el~~a~~~g 180 (695)
T PRK13802 101 DDFDKVRAAVHIPVLRKDFIVTDYQIWEARAHGADLVLLIVAALDDAQLKHLLDLAHELGMTVLVETHTREEIERAIAAG 180 (695)
T ss_pred HHHHHHHHhCCCCEEeccccCCHHHHHHHHHcCCCEeehhHhhcCHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHhCC
Confidence 345555554 4567778889999888887788888878877888899999999974443389999999999866
Q ss_pred ccEEEEEEeCcCc
Q 033750 89 FRVSCLSIIDPGD 101 (112)
Q Consensus 89 ~~~~vvaI~d~g~ 101 (112)
.. +++|.+.++
T Consensus 181 a~--iiGINnRdL 191 (695)
T PRK13802 181 AK--VIGINARNL 191 (695)
T ss_pred CC--EEEEeCCCC
Confidence 44 599987765
No 119
>PRK06153 hypothetical protein; Provisional
Probab=55.86 E-value=30 Score=28.38 Aligned_cols=61 Identities=11% Similarity=0.145 Sum_probs=40.7
Q ss_pred CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchHHH
Q 033750 41 SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSDII 105 (112)
Q Consensus 41 gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~a~~i 105 (112)
...-+||.|.|..+ .+..+..+|..++||++. .+-.-++. =|....+.-+-...|+-+..+
T Consensus 265 ~~~DiV~dcvDn~~-aR~~ln~~a~~~gIP~Id-~G~~l~~~--~g~l~G~~Rvt~~~p~~~~~~ 325 (393)
T PRK06153 265 DGFTFVFVCVDKGS-SRKLIVDYLEALGIPFID-VGMGLELS--NGSLGGILRVTLSTPDKRDHV 325 (393)
T ss_pred cCCCEEEEcCCCHH-HHHHHHHHHHHcCCCEEE-eeecceec--CCCcCcEEEEEEecCCccccc
Confidence 45889999999655 688888999999999995 77766664 222112223344566544433
No 120
>PRK12475 thiamine/molybdopterin biosynthesis MoeB-like protein; Provisional
Probab=55.49 E-value=16 Score=28.86 Aligned_cols=34 Identities=15% Similarity=0.055 Sum_probs=27.6
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
.+-+||.+.|- ..++..+.++|..+++|++ |...
T Consensus 116 ~~DlVid~~D~-~~~r~~in~~~~~~~ip~i-~~~~ 149 (338)
T PRK12475 116 EVDLIIDATDN-FDTRLLINDLSQKYNIPWI-YGGC 149 (338)
T ss_pred CCCEEEEcCCC-HHHHHHHHHHHHHcCCCEE-EEEe
Confidence 47899999985 4577788999999999999 5543
No 121
>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=55.25 E-value=71 Score=24.83 Aligned_cols=58 Identities=10% Similarity=-0.017 Sum_probs=33.8
Q ss_pred HHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHH-hhhCCcccEEEEEEe
Q 033750 35 LRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLG-TACGKYFRVSCLSII 97 (112)
Q Consensus 35 ~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG-~a~Gk~~~~~vvaI~ 97 (112)
.+.|.+.-=.++|+.+--|.|+++ |.+.|++++.|.+ +..+-+||- .++.... .+||+
T Consensus 203 ~~~La~~vD~miVIGg~~SsNT~k-L~eia~~~~~~t~-~Ie~~~el~~~~l~~~~---~VGIt 261 (281)
T PF02401_consen 203 ARELAKEVDAMIVIGGKNSSNTRK-LAEIAKEHGKPTY-HIETADELDPEWLKGVK---KVGIT 261 (281)
T ss_dssp HHHHHCCSSEEEEES-TT-HHHHH-HHHHHHHCTTCEE-EESSGGG--HHHHTT-S---EEEEE
T ss_pred HHHHHhhCCEEEEecCCCCccHHH-HHHHHHHhCCCEE-EeCCccccCHhHhCCCC---EEEEE
Confidence 344444333445555555555554 7789999999999 599999995 4444332 36665
No 122
>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=55.19 E-value=17 Score=27.31 Aligned_cols=31 Identities=10% Similarity=0.129 Sum_probs=26.4
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
...+||.+.|-. .++..+.++|..+++|++.
T Consensus 114 ~~DlVvd~~D~~-~~r~~ln~~~~~~~ip~v~ 144 (240)
T TIGR02355 114 EHDIVVDCTDNV-EVRNQLNRQCFAAKVPLVS 144 (240)
T ss_pred cCCEEEEcCCCH-HHHHHHHHHHHHcCCCEEE
Confidence 477899898874 5788899999999999993
No 123
>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=54.89 E-value=41 Score=27.87 Aligned_cols=90 Identities=11% Similarity=0.244 Sum_probs=61.2
Q ss_pred HHHHHHHHHHHHhCCce---ecHHHHHHHH--------hcCCceEEEEeCCCCch-------------------------
Q 033750 12 ESINNRLALVMKSGKYT---LGYKTVLRSL--------RSSKGKLILLSNNCPPL------------------------- 55 (112)
Q Consensus 12 ~~i~~~Lgla~kagklv---~G~~~v~kai--------~~gka~lVilA~D~s~~------------------------- 55 (112)
..+.+.++..+-+|++- -|++.++++. |++--++||+++|+...
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 44555555555566654 4899999888 55667899999999742
Q ss_pred ----------hhhhHHHHHHhCCCcEEEecCCH------HHHHhhhCCcccEEEEEEeCcCchHHHh
Q 033750 56 ----------RKSEIEYYAMLAKVGVHHYNGNN------VDLGTACGKYFRVSCLSIIDPGDSDIIK 106 (112)
Q Consensus 56 ----------~~~~i~~~c~~~~Ip~i~~~~sk------~eLG~a~Gk~~~~~vvaI~d~g~a~~i~ 106 (112)
...+|.+.-.++||-.| |.-|+ ++|...+.. +.++++...-+.++.
T Consensus 268 Yt~s~~~DYPSi~ql~~kL~e~nI~~I-FAVT~~~~~~Y~~Ls~lipg----s~vg~Ls~DSsNIv~ 329 (423)
T smart00187 268 YTMSTTQDYPSIGQLNQKLAENNINPI-FAVTKKQVSLYKELSALIPG----SSVGVLSEDSSNVVE 329 (423)
T ss_pred cCccCcCCCCCHHHHHHHHHhcCceEE-EEEcccchhHHHHHHHhcCc----ceeeecccCcchHHH
Confidence 33556666678888887 65443 577777753 358888776665554
No 124
>PF08862 DUF1829: Domain of unknown function DUF1829; InterPro: IPR014961 This short protein is usually associated with IPR014960 from INTERPRO.
Probab=54.63 E-value=25 Score=22.43 Aligned_cols=46 Identities=11% Similarity=0.093 Sum_probs=35.9
Q ss_pred eecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 28 TLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 28 v~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.....|.+.-+..+..+.++..|........+..+.++++|+++-
T Consensus 39 ~f~w~D~~~~~~~~~~~~~ii~ND~e~~i~~~~~~a~~~y~I~~i~ 84 (88)
T PF08862_consen 39 IFAWEDTKKRNRKSNSKFYIILNDSEKPISEDIINALEQYNIKPIP 84 (88)
T ss_pred HHHHhhhhhhccCCCceEEEEECCCCCccCHHHHHHHHHCCCceec
Confidence 3333344355566778999999999888999999999999999984
No 125
>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=54.55 E-value=8 Score=25.87 Aligned_cols=44 Identities=18% Similarity=0.087 Sum_probs=31.4
Q ss_pred HHHHHHHhcCCceEEEEeCCCC-chhhhhHHHHHHhCCCcEEEec
Q 033750 32 KTVLRSLRSSKGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~~~ 75 (112)
+++.+.|.+.+--++++...+. ......+..+++..++|+++.+
T Consensus 2 ~~~~~~L~~A~rP~il~G~g~~~~~a~~~l~~lae~~~~Pv~~t~ 46 (137)
T PF00205_consen 2 DEAADLLSSAKRPVILAGRGARRSGAAEELRELAEKLGIPVATTP 46 (137)
T ss_dssp HHHHHHHHH-SSEEEEE-HHHHHTTCHHHHHHHHHHHTSEEEEEG
T ss_pred HHHHHHHHhCCCEEEEEcCCcChhhHHHHHHHHHHHHCCCEEecC
Confidence 4667777776666666666554 2678899999999999999733
No 126
>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=54.44 E-value=58 Score=25.37 Aligned_cols=52 Identities=12% Similarity=-0.023 Sum_probs=34.0
Q ss_pred CceE-EEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 42 KGKL-ILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 42 ka~l-VilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
++-+ +++.+--|.|+++ |.+.|+.++.|.+ +..+.+||....=+... .+||+
T Consensus 208 ~vD~miVVGg~nSsNT~r-L~ei~~~~~~~t~-~Ie~~~el~~~~l~~~~--~VGiT 260 (280)
T TIGR00216 208 EVDLMIVIGGKNSSNTTR-LYEIAEEHGPPSY-LIETAEELPEEWLKGVK--VVGIT 260 (280)
T ss_pred hCCEEEEECCCCCchHHH-HHHHHHHhCCCEE-EECChHHCCHHHhCCCC--EEEEE
Confidence 3444 4555555666665 7789999999999 59999999743212212 36776
No 127
>COG1707 ACT domain-containing protein [General function prediction only]
Probab=54.30 E-value=42 Score=24.78 Aligned_cols=70 Identities=13% Similarity=0.158 Sum_probs=48.8
Q ss_pred eecHHHHHHHHh----cCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCch
Q 033750 28 TLGYKTVLRSLR----SSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDS 102 (112)
Q Consensus 28 v~G~~~v~kai~----~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~a 102 (112)
..|.++..++++ -.++..+++|...-- ...+.+..+-++++||++. .+ .+|.-+.++=+.++||=.|
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 357777777764 367888888887754 6677788888899999996 22 3455445556777888665
Q ss_pred HHH
Q 033750 103 DII 105 (112)
Q Consensus 103 ~~i 105 (112)
-.+
T Consensus 195 Gvl 197 (218)
T COG1707 195 GVL 197 (218)
T ss_pred hhh
Confidence 443
No 128
>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=54.14 E-value=19 Score=28.36 Aligned_cols=35 Identities=11% Similarity=0.166 Sum_probs=28.3
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
...+||.|.|- ...+..+..+|..++||++. .++.
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 36688888874 55788999999999999995 6664
No 129
>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=54.12 E-value=48 Score=20.15 Aligned_cols=61 Identities=15% Similarity=0.176 Sum_probs=35.0
Q ss_pred HHHHh-cCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC---CHHHHHhhhCCcccEEEEEEeCc
Q 033750 35 LRSLR-SSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG---NNVDLGTACGKYFRVSCLSIIDP 99 (112)
Q Consensus 35 ~kai~-~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~---sk~eLG~a~Gk~~~~~vvaI~d~ 99 (112)
.+... .+++.+|.++.|-+ ...+..+.+..+.|+..+.. ...+|.+.+|... +-.+.|+|+
T Consensus 27 ~~~~~~~~~v~~v~Vs~d~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~i~~-iP~~~lld~ 91 (95)
T PF13905_consen 27 YKKYKKKDDVEFVFVSLDED---EEEWKKFLKKNNFPWYNVPFDDDNNSELLKKYGING-IPTLVLLDP 91 (95)
T ss_dssp HHHHTTTTTEEEEEEE-SSS---HHHHHHHHHTCTTSSEEEETTTHHHHHHHHHTT-TS-SSEEEEEET
T ss_pred HHHhCCCCCEEEEEEEeCCC---HHHHHHHHHhcCCCceEEeeCcchHHHHHHHCCCCc-CCEEEEECC
Confidence 33444 56799999999844 33455555566455443333 2568888888653 334666665
No 130
>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=53.97 E-value=17 Score=25.50 Aligned_cols=47 Identities=15% Similarity=0.089 Sum_probs=29.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHH
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNV 79 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~ 79 (112)
.++..+++.-.+.++++..+.+. .....+...|...++|++ ++.+|-
T Consensus 85 ~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~~p~i-vvlNK~ 132 (188)
T PF00009_consen 85 KEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELGIPII-VVLNKM 132 (188)
T ss_dssp HHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT-SEE-EEEETC
T ss_pred ecccceecccccceeeeecccccccccccccccccccccceE-Eeeeec
Confidence 35666666666667777666444 344556667889999988 465553
No 131
>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=53.72 E-value=15 Score=29.09 Aligned_cols=32 Identities=9% Similarity=0.115 Sum_probs=23.2
Q ss_pred ceEEEEeCCCC---------------chh---hhhHHHHHHhCCCcEEEe
Q 033750 43 GKLILLSNNCP---------------PLR---KSEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 43 a~lVilA~D~s---------------~~~---~~~i~~~c~~~~Ip~i~~ 74 (112)
-.+.|+|.|.. |.. ..++..+|..+++|++++
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 46789999964 222 245567999999999975
No 132
>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=53.64 E-value=33 Score=25.40 Aligned_cols=19 Identities=21% Similarity=0.069 Sum_probs=10.9
Q ss_pred chhhhhHHHHHHhCCCcEE
Q 033750 54 PLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 54 ~~~~~~i~~~c~~~~Ip~i 72 (112)
+.....+...+++++|+++
T Consensus 185 ~~~l~~l~~~ik~~~v~~i 203 (256)
T PF01297_consen 185 PKDLAELIKLIKENKVKCI 203 (256)
T ss_dssp HHHHHHHHHHHHHTT-SEE
T ss_pred HHHHHHHHHHhhhcCCcEE
Confidence 3445556666666677666
No 133
>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=53.42 E-value=51 Score=27.29 Aligned_cols=55 Identities=11% Similarity=0.030 Sum_probs=37.9
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhh-hHHHHHHhCCCcEEEecCCHH---HHHhhhCCc
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKS-EIEYYAMLAKVGVHHYNGNNV---DLGTACGKY 88 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~-~i~~~c~~~~Ip~i~~~~sk~---eLG~a~Gk~ 88 (112)
...+.+.+..+.+||.+.|.+++... .+.+++..++|-++. ...++ .|..++|-.
T Consensus 263 ~~v~~i~~~g~~lvi~~~~i~~~~v~~l~~~~l~~~~I~av~-~~~~~~LerIa~~tGa~ 321 (515)
T cd03338 263 NMCKKIKKSGCNVLLIQKSILRDAVSDLALHFLAKLKIMVVK-DIEREEIEFICKTIGCK 321 (515)
T ss_pred HHHHHHHhcCCCEEEECCCcccccccHHHHHHHHHCCceEEe-cCCHHHHHHHHHHHCCE
Confidence 34555666668999999999766544 446677789999996 66654 555566643
No 134
>KOG2014 consensus SMT3/SUMO-activating complex, AOS1/RAD31 component [Posttranslational modification, protein turnover, chaperones]
Probab=53.38 E-value=9.6 Score=30.38 Aligned_cols=28 Identities=4% Similarity=0.086 Sum_probs=25.8
Q ss_pred EEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 46 ILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 46 VilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
++++.|.+.+...++...|+..+|+++.
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 6778999999999999999999999985
No 135
>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=53.24 E-value=21 Score=26.81 Aligned_cols=35 Identities=9% Similarity=0.099 Sum_probs=28.5
Q ss_pred CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 41 SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 41 gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
.+..+||-|.|- ...+..+.++|..+++|++. .++
T Consensus 90 ~~~DvVi~a~Dn-~~aR~~ln~~c~~~~iplI~-~g~ 124 (234)
T cd01484 90 EQFHIIVNALDN-IIARRYVNGMLIFLIVPLIE-SGT 124 (234)
T ss_pred hCCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE-Ecc
Confidence 346788888885 44788899999999999995 666
No 136
>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=53.18 E-value=51 Score=21.78 Aligned_cols=52 Identities=12% Similarity=0.149 Sum_probs=31.3
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH--HHHHhhhCCc
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN--VDLGTACGKY 88 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk--~eLG~a~Gk~ 88 (112)
+..+.+.+..+.+|.+..|..+ .+..+.+.+++++..+.+.. .++++.+|..
T Consensus 53 ~~~~~~~~~~v~vi~vs~d~~~----~~~~~~~~~~~~~~~~~D~~~~~~~~~~~g~~ 106 (149)
T cd03018 53 DSLELFEAAGAEVLGISVDSPF----SLRAWAEENGLTFPLLSDFWPHGEVAKAYGVF 106 (149)
T ss_pred HHHHHHHhCCCEEEEecCCCHH----HHHHHHHhcCCCceEecCCCchhHHHHHhCCc
Confidence 3444555556888888877433 34555666665555323434 6788888864
No 137
>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=52.88 E-value=42 Score=27.08 Aligned_cols=51 Identities=12% Similarity=-0.005 Sum_probs=40.7
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
.++..+.+++..+.-|++|....+ ....++...|+..++++.. .++-.|+.
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 467888889999999999987655 4567888899999999985 77766654
No 138
>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=52.58 E-value=46 Score=23.82 Aligned_cols=44 Identities=16% Similarity=-0.011 Sum_probs=26.6
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
+.++.+...++..+|+..--++.....+ ..|...+||++. .++-
T Consensus 46 ~~i~~~i~~~~d~Iiv~~~~~~~~~~~l-~~~~~~gIpvv~-~d~~ 89 (257)
T PF13407_consen 46 EQIEQAISQGVDGIIVSPVDPDSLAPFL-EKAKAAGIPVVT-VDSD 89 (257)
T ss_dssp HHHHHHHHTTESEEEEESSSTTTTHHHH-HHHHHTTSEEEE-ESST
T ss_pred HHHHHHHHhcCCEEEecCCCHHHHHHHH-HHHhhcCceEEE-Eecc
Confidence 3444444455777776655554455444 557788999995 4443
No 139
>PRK05562 precorrin-2 dehydrogenase; Provisional
Probab=52.48 E-value=26 Score=26.33 Aligned_cols=62 Identities=10% Similarity=-0.019 Sum_probs=40.9
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh----CCcccEEEEEEeCc----CchHHHhcC
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC----GKYFRVSCLSIIDP----GDSDIIKSL 108 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~----Gk~~~~~vvaI~d~----g~a~~i~~~ 108 (112)
+.+||.|+| ++..-+.+...|+..++++.. +++. +++... -..-.+ ++||... .+|+.|++.
T Consensus 86 ~~LViaATd-D~~vN~~I~~~a~~~~~lvn~-vd~p-~~~dFi~PAiv~rg~l-~IaIST~G~sP~lar~lR~~ 155 (223)
T PRK05562 86 KHLIVIATD-DEKLNNKIRKHCDRLYKLYID-CSDY-KKGLCIIPYQRSTKNF-VFALNTKGGSPKTSVFIGEK 155 (223)
T ss_pred CcEEEECCC-CHHHHHHHHHHHHHcCCeEEE-cCCc-ccCeEEeeeEEecCCE-EEEEECCCcCcHHHHHHHHH
Confidence 688888887 556778899999999999985 6554 444332 112235 5888744 456665543
No 140
>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=52.32 E-value=41 Score=20.11 Aligned_cols=35 Identities=6% Similarity=0.011 Sum_probs=24.3
Q ss_pred HHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 36 RSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 36 kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.+..|. .|.|++.|. .....+..+|+..+-.+..
T Consensus 21 ~~l~~G~-~l~V~~d~~--~a~~di~~~~~~~G~~~~~ 55 (69)
T cd03420 21 DKLQDGE-QLEVKASDP--GFARDAQAWCKSTGNTLIS 55 (69)
T ss_pred HcCCCCC-EEEEEECCc--cHHHHHHHHHHHcCCEEEE
Confidence 3333454 466667654 5678899999999988874
No 141
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=51.96 E-value=39 Score=28.02 Aligned_cols=65 Identities=12% Similarity=0.136 Sum_probs=49.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
.++.+.++...+-.|||.+.|.- ++-.-+..--+..+||++. ..+-..+....|-++-+..++|.
T Consensus 326 ~eIa~~Lk~dgVDAvILtstCgtCtrcga~m~keiE~~GIPvV~-i~~~~pI~~~vGanRiv~~~~i~ 392 (431)
T TIGR01917 326 KEFSKELLAAGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVH-ICTVTPIALTVGANRIIPAIAIP 392 (431)
T ss_pred HHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEE-EeechhHHHhcCCCceecCCCCC
Confidence 45788889999999999999986 3334444444678999996 88999999999988655444454
No 142
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=51.62 E-value=93 Score=23.71 Aligned_cols=80 Identities=9% Similarity=0.089 Sum_probs=55.2
Q ss_pred hhhHHHHHHHHHHHHHhC---C----------ceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEe
Q 033750 8 KKTHESINNRLALVMKSG---K----------YTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 8 ~~~~~~i~~~Lgla~kag---k----------lv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~ 74 (112)
+...+++++++...++.. . +..|.+...+.+++--+.=||+ .|.+.+....+...|+++++..+.+
T Consensus 70 G~~~~~~~~~~~~~r~~~~~~p~vlm~Y~N~i~~~G~e~f~~~~~~aGvdGvii-pDLp~ee~~~~~~~~~~~gl~~I~l 148 (258)
T PRK13111 70 GVTLADVFELVREIREKDPTIPIVLMTYYNPIFQYGVERFAADAAEAGVDGLII-PDLPPEEAEELRAAAKKHGLDLIFL 148 (258)
T ss_pred CCCHHHHHHHHHHHHhcCCCCCEEEEecccHHhhcCHHHHHHHHHHcCCcEEEE-CCCCHHHHHHHHHHHHHcCCcEEEE
Confidence 445678888888877221 1 2347888888887766777777 5999988889999999999766632
Q ss_pred --cCC-HHHHHhhhCCc
Q 033750 75 --NGN-NVDLGTACGKY 88 (112)
Q Consensus 75 --~~s-k~eLG~a~Gk~ 88 (112)
+.| .+++-......
T Consensus 149 vap~t~~eri~~i~~~s 165 (258)
T PRK13111 149 VAPTTTDERLKKIASHA 165 (258)
T ss_pred eCCCCCHHHHHHHHHhC
Confidence 333 35566665444
No 143
>TIGR00035 asp_race aspartate racemase.
Probab=51.24 E-value=40 Score=24.81 Aligned_cols=40 Identities=10% Similarity=0.137 Sum_probs=29.0
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
..+..+.+.+..+.++++|.+.+......+. +..+||++.
T Consensus 64 l~~~~~~L~~~g~d~iviaCNTah~~~~~l~---~~~~iPii~ 103 (229)
T TIGR00035 64 LIDIAVKLENAGADFIIMPCNTAHKFAEDIQ---KAIGIPLIS 103 (229)
T ss_pred HHHHHHHHHHcCCCEEEECCccHHHHHHHHH---HhCCCCEec
Confidence 4445566667889999999999776544444 456899996
No 144
>COG1880 CdhB CO dehydrogenase/acetyl-CoA synthase epsilon subunit [Energy production and conversion]
Probab=50.99 E-value=44 Score=24.26 Aligned_cols=52 Identities=10% Similarity=0.040 Sum_probs=39.9
Q ss_pred HHHHHhcCCceEEEEeCCCC-chhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 34 VLRSLRSSKGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
+..-|++-+--|+|+..++- |+..+.+..+.+..|||++- |...++..+|+.
T Consensus 28 ~ammIkkAkrPLlivGp~~~dee~~E~~vKi~ekfnipiva---Ta~~~~~~~~~~ 80 (170)
T COG1880 28 VAMMIKKAKRPLLIVGPLALDEELLELAVKIIEKFNIPIVA---TASSMGNLIGRG 80 (170)
T ss_pred HHHHHHhcCCceEEecccccCHHHHHHHHHHHHhcCCceEe---cchhhcchhhcc
Confidence 34566777888999999987 67888888999999999985 555556555554
No 145
>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=50.86 E-value=42 Score=22.69 Aligned_cols=45 Identities=11% Similarity=0.088 Sum_probs=30.1
Q ss_pred ecHHHHHHHHhcCCceEEEEe-CC-CCchhhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLS-NN-CPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA-~D-~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
-|+++.++.++.|++..||+. -| .+-+....+..+|+.++|.++.
T Consensus 49 p~l~~ll~~i~~g~~d~lvV~~ldRl~R~~~d~~~~~l~~~gv~l~~ 95 (134)
T cd03769 49 KGLLKLLEDVLAGKVERVVITYKDRLARFGFELLEELFKAYGVEIVV 95 (134)
T ss_pred HHHHHHHHHHHcCCCCEEEEEeccHHHHhhHHHHHHHHHHCCCEEEE
Confidence 677888899999986554442 34 3333444455678888988884
No 146
>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=50.54 E-value=59 Score=23.80 Aligned_cols=48 Identities=19% Similarity=0.134 Sum_probs=30.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchh---hhhHHHHHHhCCCcEEEecCCHH
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLR---KSEIEYYAMLAKVGVHHYNGNNV 79 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~---~~~i~~~c~~~~Ip~i~~~~sk~ 79 (112)
+.+++.+.+.++.+||++.|..... ..-+..+.+..++|++...|+-+
T Consensus 22 ~~~~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~l~~~~~~pv~~v~GNHD 72 (239)
T TIGR03729 22 ETLAQYLKKQKIDHLHIAGDISNDFQRSLPFIEKLQELKGIKVTFNAGNHD 72 (239)
T ss_pred HHHHHHHHhcCCCEEEECCccccchhhHHHHHHHHHHhcCCcEEEECCCCC
Confidence 4567777777899999999988632 22333344445688864344433
No 147
>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=49.82 E-value=65 Score=20.45 Aligned_cols=55 Identities=13% Similarity=0.186 Sum_probs=30.2
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcC
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPG 100 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g 100 (112)
..++.++.|- +....+..+.+++++|+-...+...++.+..|.... -.+-|.|++
T Consensus 49 ~~~i~i~~~~--~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~i~~~-P~~~vid~~ 103 (123)
T cd03011 49 YPVVSVALRS--GDDGAVARFMQKKGYGFPVINDPDGVISARWGVSVT-PAIVIVDPG 103 (123)
T ss_pred CCEEEEEccC--CCHHHHHHHHHHcCCCccEEECCCcHHHHhCCCCcc-cEEEEEcCC
Confidence 4455555543 234445556666666555323445678888886532 345666654
No 148
>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=49.56 E-value=8 Score=21.42 Aligned_cols=30 Identities=17% Similarity=-0.033 Sum_probs=21.3
Q ss_pred hhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 55 LRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 55 ~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
.+...+..+|++++||-+. ...+.||=.++
T Consensus 5 ~~~~eL~~iAk~lgI~~~~-~~~K~eLI~~I 34 (43)
T PF07498_consen 5 MTLSELREIAKELGIEGYS-KMRKQELIFAI 34 (43)
T ss_dssp S-HHHHHHHHHCTT-TTGC-CS-HHHHHHHH
T ss_pred CCHHHHHHHHHHcCCCCCC-cCCHHHHHHHH
Confidence 3567889999999999884 78999885543
No 149
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=49.41 E-value=33 Score=22.68 Aligned_cols=39 Identities=10% Similarity=0.053 Sum_probs=19.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
+.+.+..++.++-|||+..+. ....-+.+..++.+||++
T Consensus 52 ~~l~~~a~~~~idlvvvGPE~--pL~~Gl~D~l~~~gi~vf 90 (100)
T PF02844_consen 52 EELADFAKENKIDLVVVGPEA--PLVAGLADALRAAGIPVF 90 (100)
T ss_dssp HHHHHHHHHTTESEEEESSHH--HHHTTHHHHHHHTT-CEE
T ss_pred HHHHHHHHHcCCCEEEECChH--HHHHHHHHHHHHCCCcEE
Confidence 445555555666666665443 233444455555666664
No 150
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=49.08 E-value=24 Score=29.30 Aligned_cols=34 Identities=3% Similarity=-0.104 Sum_probs=23.9
Q ss_pred ceEEEEeCCCCch---------------h---hhhHHHHHHhCCCcEEEecC
Q 033750 43 GKLILLSNNCPPL---------------R---KSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 43 a~lVilA~D~s~~---------------~---~~~i~~~c~~~~Ip~i~~~~ 76 (112)
-.++|+|.|...+ . ...+..+|..+++|+++|++
T Consensus 178 rpV~VIandkg~~~ke~~~rnfG~~~peGyRKAlR~mklAekf~lPIVtLVD 229 (431)
T PLN03230 178 MSFMFIGHQKGRNTKENIYRNFAMPQPNGYRKALRFMRHAEKFGFPILTFVD 229 (431)
T ss_pred EEEEEEEeccCcccccccccCCCCCCHHHHHHHHHHHHHHHHcCCCEEEEEe
Confidence 4678899996322 2 24556799999999998643
No 151
>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=48.28 E-value=48 Score=23.15 Aligned_cols=17 Identities=12% Similarity=0.008 Sum_probs=14.5
Q ss_pred hhhHHHHHHhCCCcEEE
Q 033750 57 KSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 57 ~~~i~~~c~~~~Ip~i~ 73 (112)
.+.+..+|+++++|++.
T Consensus 135 ~~~~~~~a~~~~~~~vD 151 (198)
T cd01821 135 PAAMRELAAEEGVPLID 151 (198)
T ss_pred HHHHHHHHHHhCCCEEe
Confidence 46778899999999986
No 152
>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=48.08 E-value=19 Score=18.91 Aligned_cols=24 Identities=13% Similarity=0.112 Sum_probs=18.6
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 56 RKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 56 ~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
+...+...|+..++|. .|++.+|=
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 5678899999999997 47888873
No 153
>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=47.87 E-value=75 Score=20.57 Aligned_cols=50 Identities=10% Similarity=0.133 Sum_probs=30.3
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhC-C--CcEEEecCCHHHHHhhhCCc
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLA-K--VGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~-~--Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
+..+.++.+.+.++.++.|-.+ .+..+.+.+ + .|++ .+....+++.+|..
T Consensus 47 ~~~~~~~~~~~~~i~is~d~~~----~~~~~~~~~~~~~~~~l--~D~~~~~~~~~g~~ 99 (140)
T cd02971 47 DLAEEFAKGGAEVLGVSVDSPF----SHKAWAEKEGGLNFPLL--SDPDGEFAKAYGVL 99 (140)
T ss_pred HHHHHHHHCCCEEEEEeCCCHH----HHHHHHhcccCCCceEE--ECCChHHHHHcCCc
Confidence 3444555566888888887432 344444544 4 4554 34556898998865
No 154
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=47.75 E-value=53 Score=23.73 Aligned_cols=42 Identities=14% Similarity=0.040 Sum_probs=33.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCC--chhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCP--PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s--~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.+.+.|++.+--++++...+. +...+.+..+++..++|++.
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 5677777777777777777664 45678899999999999996
No 155
>PRK06091 membrane protein FdrA; Validated
Probab=47.52 E-value=48 Score=28.43 Aligned_cols=44 Identities=11% Similarity=0.037 Sum_probs=36.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
..+.+++++| ..++|+++..+......+..+|+++++.++- +.+
T Consensus 132 ~al~ea~~~G-~~viI~S~gfg~~~E~~L~e~Ar~~GlrvmG-PNC 175 (555)
T PRK06091 132 ELAEQALDRN-LNVMMFSDNVTLEDEIRLKTRAREKGLLVMG-PDC 175 (555)
T ss_pred HHHHHHHHcC-CeEEEEcCCCCHHHHHHHHHHHHHcCCEEEC-CCC
Confidence 4567777888 5788999999877888899999999999985 555
No 156
>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=47.49 E-value=54 Score=24.26 Aligned_cols=68 Identities=12% Similarity=0.059 Sum_probs=46.4
Q ss_pred HHHHHHHHH-hCCceec------HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 033750 15 NNRLALVMK-SGKYTLG------YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 15 ~~~Lgla~k-agklv~G------~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk 87 (112)
++.+...++ -+.+..| .+++.+++..| +.++ .||..-..+..+|+++++|++-=..|-.|+-.|..-
T Consensus 47 ~~~i~~l~~~~~~~~vGAGTVl~~~~a~~a~~aG-A~Fi-----vsP~~~~~v~~~~~~~~i~~iPG~~TptEi~~A~~~ 120 (204)
T TIGR01182 47 LDAIRLLRKEVPDALIGAGTVLNPEQLRQAVDAG-AQFI-----VSPGLTPELAKHAQDHGIPIIPGVATPSEIMLALEL 120 (204)
T ss_pred HHHHHHHHHHCCCCEEEEEeCCCHHHHHHHHHcC-CCEE-----ECCCCCHHHHHHHHHcCCcEECCCCCHHHHHHHHHC
Confidence 334444443 2456666 46777788776 6666 467777789999999999998423488888888754
Q ss_pred c
Q 033750 88 Y 88 (112)
Q Consensus 88 ~ 88 (112)
.
T Consensus 121 G 121 (204)
T TIGR01182 121 G 121 (204)
T ss_pred C
Confidence 3
No 157
>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=47.31 E-value=68 Score=23.00 Aligned_cols=55 Identities=13% Similarity=0.164 Sum_probs=34.8
Q ss_pred HHHHHHHhcC--CceEEEEeCCCCchhh----hhHHHHHHhCCCcEEEecCCHH---HHHhhhC
Q 033750 32 KTVLRSLRSS--KGKLILLSNNCPPLRK----SEIEYYAMLAKVGVHHYNGNNV---DLGTACG 86 (112)
Q Consensus 32 ~~v~kai~~g--ka~lVilA~D~s~~~~----~~i~~~c~~~~Ip~i~~~~sk~---eLG~a~G 86 (112)
+++++.+++. ++.+||++.|...... +.+...-+..++|++...|+-+ ..+..++
T Consensus 28 ~~~~~~i~~~~~~~d~vi~~GDl~~~~~~~~~~~~~~~l~~~~~p~~~v~GNHD~~~~~~~~~~ 91 (240)
T cd07402 28 EAVLAHINALHPRPDLVLVTGDLTDDGSPESYERLRELLAALPIPVYLLPGNHDDRAAMRAVFP 91 (240)
T ss_pred HHHHHHHHhcCCCCCEEEECccCCCCCCHHHHHHHHHHHhhcCCCEEEeCCCCCCHHHHHHhhc
Confidence 5566777665 8999999999876422 3344444556899885455333 3444444
No 158
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=47.11 E-value=81 Score=24.57 Aligned_cols=52 Identities=8% Similarity=0.045 Sum_probs=34.3
Q ss_pred CceE-EEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHH-hhhCCcccEEEEEEeC
Q 033750 42 KGKL-ILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLG-TACGKYFRVSCLSIID 98 (112)
Q Consensus 42 ka~l-VilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG-~a~Gk~~~~~vvaI~d 98 (112)
++-+ +|+.+--|.|+.+ |.+.|..++.|.+ +..+.+||- .++--. ..+||+-
T Consensus 209 ~vD~miVVGg~~SsNT~r-L~eia~~~~~~t~-~Ie~~~el~~~~~~~~---~~VGita 262 (281)
T PRK12360 209 EVDVMIVIGGKHSSNTQK-LVKICEKNCPNTF-HIETADELDLEMLKDY---KIIGITA 262 (281)
T ss_pred hCCEEEEecCCCCccHHH-HHHHHHHHCCCEE-EECChHHCCHHHhCCC---CEEEEEc
Confidence 3444 5555555667665 6778999999998 599999995 344322 2477763
No 159
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=46.92 E-value=1.1e+02 Score=23.66 Aligned_cols=89 Identities=17% Similarity=0.188 Sum_probs=60.0
Q ss_pred hhhHHHHHHHHHHHHHhC-C------------ceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEe
Q 033750 8 KKTHESINNRLALVMKSG-K------------YTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 8 ~~~~~~i~~~Lgla~kag-k------------lv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~ 74 (112)
+...+++++++...+..+ + +..|.+.-.+.+++--+.=||+ -|.+++....+...|++++|.+|.+
T Consensus 75 g~t~~~~lel~~~~r~~~~~~Pivlm~Y~Npi~~~Gie~F~~~~~~~GvdGliv-pDLP~ee~~~~~~~~~~~gi~~I~l 153 (265)
T COG0159 75 GVTLEDTLELVEEIRAKGVKVPIVLMTYYNPIFNYGIEKFLRRAKEAGVDGLLV-PDLPPEESDELLKAAEKHGIDPIFL 153 (265)
T ss_pred CCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHHHhhHHHHHHHHHHcCCCEEEe-CCCChHHHHHHHHHHHHcCCcEEEE
Confidence 456688999999988653 3 4578888677776655555555 5999999999999999998766632
Q ss_pred --cC-CHHHHHhhhCC----cccEEEEEEe
Q 033750 75 --NG-NNVDLGTACGK----YFRVSCLSII 97 (112)
Q Consensus 75 --~~-sk~eLG~a~Gk----~~~~~vvaI~ 97 (112)
+. +.+.|-+.... -.-++..++|
T Consensus 154 vaPtt~~~rl~~i~~~a~GFiY~vs~~GvT 183 (265)
T COG0159 154 VAPTTPDERLKKIAEAASGFIYYVSRMGVT 183 (265)
T ss_pred eCCCCCHHHHHHHHHhCCCcEEEEeccccc
Confidence 22 33555555533 3334444555
No 160
>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=46.42 E-value=63 Score=24.13 Aligned_cols=48 Identities=13% Similarity=0.036 Sum_probs=32.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhh----hhH---HHHHHhCCCcEEEecCCHH
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRK----SEI---EYYAMLAKVGVHHYNGNNV 79 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~----~~i---~~~c~~~~Ip~i~~~~sk~ 79 (112)
+++++.+.+.++.+||++.|...... +.+ .......++|++..+|+-+
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 34566777777999999999976443 333 3455567899985444433
No 161
>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional
Probab=46.32 E-value=24 Score=28.10 Aligned_cols=33 Identities=9% Similarity=0.045 Sum_probs=23.2
Q ss_pred ceEEEEeCCCC---------------chh---hhhHHHHHHhCCCcEEEec
Q 033750 43 GKLILLSNNCP---------------PLR---KSEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 43 a~lVilA~D~s---------------~~~---~~~i~~~c~~~~Ip~i~~~ 75 (112)
-.+.|+|.|.. |.. ...+..+|..+++|+++++
T Consensus 111 rpV~VIa~dkg~~~~e~~~~~~G~~~p~g~rKa~Rlm~lA~~f~lPIItlv 161 (322)
T CHL00198 111 RTIVFLGHQRGRNTKENVLRNFGMPSPGGYRKALRLMKHANKFGLPILTFI 161 (322)
T ss_pred EEEEEEEecCCccchhhhhhcCCCCCHHHHHHHHHHHHHHHHcCCCEEEEE
Confidence 36788999974 211 1345679999999999753
No 162
>PRK13371 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=46.22 E-value=1e+02 Score=25.31 Aligned_cols=47 Identities=9% Similarity=-0.008 Sum_probs=31.6
Q ss_pred HHHHhcCCceEEE-EeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 033750 35 LRSLRSSKGKLIL-LSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 83 (112)
Q Consensus 35 ~kai~~gka~lVi-lA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~ 83 (112)
.+.|...++-++| +.+--|.|+++ |...|+..+.|.+ +..+.+||-.
T Consensus 281 ~~~La~~~vD~miVVGG~nSSNT~r-L~eia~~~g~~ty-~Ie~~~eL~~ 328 (387)
T PRK13371 281 MFSLVEEPLDLMVVIGGYNSSNTTH-LQEIAIERGIPSY-HIDSPERILS 328 (387)
T ss_pred HHHHhhcCCCEEEEECCCCCccHHH-HHHHHHhcCCCEE-EECCHHHcCC
Confidence 3344333454544 44444556655 7789999999999 5999999975
No 163
>TIGR01295 PedC_BrcD bacteriocin transport accessory protein, putative. This model describes a small family of proteins believed to aid in the export of various class II bacteriocins, which are ribosomally-synthesized, non-lantibiotic bacterial peptide antibiotics. Members of this family are found in operons for pediocin PA-1 from Pediococcus acidilactici and brochocin-C from Brochothrix campestris.
Probab=45.84 E-value=83 Score=20.88 Aligned_cols=52 Identities=13% Similarity=0.160 Sum_probs=36.1
Q ss_pred CCceecHHHHHHHHhcCCc-eEEEEeCCCCc--hhhhhHHHHHHhCCCcEEEecCC
Q 033750 25 GKYTLGYKTVLRSLRSSKG-KLILLSNNCPP--LRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka-~lVilA~D~s~--~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
|-.....++..+.+.+++. -+.|-++.|++ ...-.+..+.++.++|++ |+.+
T Consensus 7 ~~~~it~~~~~~~i~~~~~~iv~f~~~~Cp~C~~~~P~l~~~~~~~~~~~y-~vdv 61 (122)
T TIGR01295 7 GLEVTTVVRALEALDKKETATFFIGRKTCPYCRKFSGTLSGVVAQTKAPIY-YIDS 61 (122)
T ss_pred cceecCHHHHHHHHHcCCcEEEEEECCCChhHHHHhHHHHHHHHhcCCcEE-EEEC
Confidence 3344566778888888886 45566777777 344567778888889888 4554
No 164
>PF13728 TraF: F plasmid transfer operon protein
Probab=45.52 E-value=1.2e+02 Score=22.33 Aligned_cols=69 Identities=14% Similarity=0.232 Sum_probs=45.9
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHHhCCCcEEEecCC------------HHHHHhhhCCcccEEEEE
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAMLAKVGVHHYNGN------------NVDLGTACGKYFRVSCLS 95 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~~~~Ip~i~~~~s------------k~eLG~a~Gk~~~~~vva 95 (112)
-.+++++.+..+-.-++|..+||+- ...--+..++.+++++++.+..| -..+...+|....= ++.
T Consensus 110 ~~~~~l~~la~~~gL~~F~~~~C~~C~~~~pil~~~~~~yg~~v~~vs~DG~~~~~fp~~~~~~g~~~~l~v~~~P-al~ 188 (215)
T PF13728_consen 110 KRDKALKQLAQKYGLFFFYRSDCPYCQQQAPILQQFADKYGFSVIPVSLDGRPIPSFPNPRPDPGQAKRLGVKVTP-ALF 188 (215)
T ss_pred HHHHHHHHHhhCeEEEEEEcCCCchhHHHHHHHHHHHHHhCCEEEEEecCCCCCcCCCCCCCCHHHHHHcCCCcCC-EEE
Confidence 3467888888666777778899885 34466778999999998853222 14566677875433 344
Q ss_pred EeCc
Q 033750 96 IIDP 99 (112)
Q Consensus 96 I~d~ 99 (112)
+.++
T Consensus 189 Lv~~ 192 (215)
T PF13728_consen 189 LVNP 192 (215)
T ss_pred EEEC
Confidence 4444
No 165
>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=45.44 E-value=31 Score=24.96 Aligned_cols=34 Identities=9% Similarity=-0.064 Sum_probs=27.4
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
...+||.|.|- ...+..+.++|..+++|++. ...
T Consensus 111 ~~D~Vi~~~d~-~~~r~~l~~~~~~~~ip~i~-~~~ 144 (202)
T TIGR02356 111 NVDLVLDCTDN-FATRYLINDACVALGTPLIS-AAV 144 (202)
T ss_pred CCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE-EEe
Confidence 47788888876 45788899999999999994 543
No 166
>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=45.39 E-value=70 Score=21.48 Aligned_cols=46 Identities=11% Similarity=0.122 Sum_probs=30.2
Q ss_pred eecHHHHHHHHhcCCceEEEEeCCCCc--------hhhhhHHHHHHhCCCcEEE
Q 033750 28 TLGYKTVLRSLRSSKGKLILLSNNCPP--------LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 28 v~G~~~v~kai~~gka~lVilA~D~s~--------~~~~~i~~~c~~~~Ip~i~ 73 (112)
.....+.++.+++..++++++..-.++ .....+..+|+++++|++.
T Consensus 87 ~~~l~~li~~~~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~d 140 (177)
T cd01822 87 RANLRQMIETAQARGAPVLLVGMQAPPNYGPRYTRRFAAIYPELAEEYGVPLVP 140 (177)
T ss_pred HHHHHHHHHHHHHCCCeEEEEecCCCCccchHHHHHHHHHHHHHHHHcCCcEec
Confidence 334566777777667888777543332 2235566789999999885
No 167
>PLN00144 acetylornithine transaminase
Probab=45.33 E-value=36 Score=26.95 Aligned_cols=50 Identities=10% Similarity=0.074 Sum_probs=32.7
Q ss_pred HHHHHHHhcCCceEEEEeC------CCCc--hhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 32 KTVLRSLRSSKGKLILLSN------NCPP--LRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~------D~s~--~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
+...+.++.++...||+-. -.++ ...+.+..+|+++++++|. ..-.-.+|
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 3445566566777777762 2333 3489999999999999995 44333343
No 168
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=45.24 E-value=57 Score=27.11 Aligned_cols=65 Identities=14% Similarity=0.164 Sum_probs=49.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
.++.+.++...+-.|||.+.|.- ++-.-+-.--+..+||++. ..+--.++...|-++-+-.++|.
T Consensus 326 ~eIa~~Lk~dgVDAVILTstCgtC~r~~a~m~keiE~~GiPvv~-~~~~~pis~tvGanrivp~~~ip 392 (431)
T TIGR01918 326 KEFVVELKQGGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVH-MCTVIPIALTVGANRIVPTIAIP 392 (431)
T ss_pred HHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEE-EeecccHhhhcCccceecccCcC
Confidence 45778888899999999999986 3334444444668999996 88888999999988666556665
No 169
>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=45.22 E-value=32 Score=24.37 Aligned_cols=31 Identities=6% Similarity=-0.055 Sum_probs=21.6
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhC-CCcEEE
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLA-KVGVHH 73 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~-~Ip~i~ 73 (112)
..-+||.|.|- +..+..+...|..+ ++|++.
T Consensus 88 ~~DlVi~~~d~-~~~r~~i~~~~~~~~~ip~i~ 119 (174)
T cd01487 88 DCDIVVEAFDN-AETKAMLAESLLGNKNKPVVC 119 (174)
T ss_pred CCCEEEECCCC-HHHHHHHHHHHHHHCCCCEEE
Confidence 47788888774 45666566555555 999994
No 170
>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=45.11 E-value=20 Score=19.11 Aligned_cols=26 Identities=12% Similarity=0.123 Sum_probs=19.8
Q ss_pred hhHHHHHHhCCCcEEEecC-CHHHHHhh
Q 033750 58 SEIEYYAMLAKVGVHHYNG-NNVDLGTA 84 (112)
Q Consensus 58 ~~i~~~c~~~~Ip~i~~~~-sk~eLG~a 84 (112)
..|..+.+.+|||+-. .. ++++|=..
T Consensus 7 ~~L~~wL~~~gi~~~~-~~~~rd~Ll~~ 33 (38)
T PF10281_consen 7 SDLKSWLKSHGIPVPK-SAKTRDELLKL 33 (38)
T ss_pred HHHHHHHHHcCCCCCC-CCCCHHHHHHH
Confidence 5677888899999975 55 88888443
No 171
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=44.94 E-value=65 Score=25.04 Aligned_cols=38 Identities=18% Similarity=0.315 Sum_probs=28.7
Q ss_pred HHHHHHHHhcCC--ceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSK--GKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gk--a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
....+.+++.|. +.++++-+|-+. +..+|+++|||++.
T Consensus 107 l~al~~~~~~~~l~~~i~~visn~~~-----~~~~A~~~gIp~~~ 146 (289)
T PRK13010 107 LNDLLYRWRMGELDMDIVGIISNHPD-----LQPLAVQHDIPFHH 146 (289)
T ss_pred HHHHHHHHHCCCCCcEEEEEEECChh-----HHHHHHHcCCCEEE
Confidence 456666677775 788888888764 35889999999984
No 172
>PRK12723 flagellar biosynthesis regulator FlhF; Provisional
Probab=44.88 E-value=1e+02 Score=25.08 Aligned_cols=55 Identities=15% Similarity=0.128 Sum_probs=40.7
Q ss_pred CceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 42 KGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 42 ka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
..++.+++.|+-. .....+..+|+..++|+.. ..+.+++..++..-...- +.|.|
T Consensus 206 g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~-~~~~~~l~~~L~~~~~~D-lVLID 261 (388)
T PRK12723 206 SLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKA-IESFKDLKEEITQSKDFD-LVLVD 261 (388)
T ss_pred CCeEEEEeccCccHHHHHHHHHHhhcCCcceEe-eCcHHHHHHHHHHhCCCC-EEEEc
Confidence 3578889999854 4567799999999999984 888888988776544443 44444
No 173
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=44.74 E-value=1.2e+02 Score=22.82 Aligned_cols=48 Identities=15% Similarity=-0.013 Sum_probs=30.2
Q ss_pred HHHHHh-cCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEec-CCHHHHHh
Q 033750 34 VLRSLR-SSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYN-GNNVDLGT 83 (112)
Q Consensus 34 v~kai~-~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~-~sk~eLG~ 83 (112)
..+.+. +..+.++++|.|..--. -++.+-+..++|++... .+-+.+..
T Consensus 52 ~~~~L~~~~g~d~ivIaCNTA~a~--~~~~l~~~~~iPii~iie~~v~~a~~ 101 (251)
T TIGR00067 52 LLTFLKERHNIKLLVVACNTASAL--ALEDLQRNFDFPVVGVIEPAIKAAIR 101 (251)
T ss_pred HHHHHHHhCCCCEEEEeCchHHHH--HHHHHHHHCCCCEEeecHHHHHHHHH
Confidence 445566 77799999999987522 13344456789999622 33444443
No 174
>COG1748 LYS9 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]
Probab=44.50 E-value=51 Score=26.90 Aligned_cols=76 Identities=13% Similarity=0.070 Sum_probs=43.1
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH---HHHHhhhCCcccEEEEEEe---
Q 033750 24 SGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN---VDLGTACGKYFRVSCLSII--- 97 (112)
Q Consensus 24 agklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk---~eLG~a~Gk~~~~~vvaI~--- 97 (112)
+-.+-....+.+.++-++. .+||-+..- ..-..+.+.|-+.+|+|+...... .++...+.+.- +.+|+
T Consensus 51 ~~~vD~~d~~al~~li~~~-d~VIn~~p~--~~~~~i~ka~i~~gv~yvDts~~~~~~~~~~~~a~~Ag---it~v~~~G 124 (389)
T COG1748 51 ALQVDAADVDALVALIKDF-DLVINAAPP--FVDLTILKACIKTGVDYVDTSYYEEPPWKLDEEAKKAG---ITAVLGCG 124 (389)
T ss_pred eEEecccChHHHHHHHhcC-CEEEEeCCc--hhhHHHHHHHHHhCCCEEEcccCCchhhhhhHHHHHcC---eEEEcccC
Confidence 3344444444444444444 777777544 344478889999999999733333 33566665542 34555
Q ss_pred -CcCchHHH
Q 033750 98 -DPGDSDII 105 (112)
Q Consensus 98 -d~g~a~~i 105 (112)
|||+...+
T Consensus 125 ~dPGi~nv~ 133 (389)
T COG1748 125 FDPGITNVL 133 (389)
T ss_pred cCcchHHHH
Confidence 55554443
No 175
>cd03362 TOPRIM_TopoIA_TopoIII TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. 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=44.47 E-value=90 Score=21.46 Aligned_cols=44 Identities=16% Similarity=0.077 Sum_probs=27.6
Q ss_pred CceEEEEeCCCCchh---hhhHHHHHHh-CCCcEEEecC---CHHHHHhhh
Q 033750 42 KGKLILLSNNCPPLR---KSEIEYYAML-AKVGVHHYNG---NNVDLGTAC 85 (112)
Q Consensus 42 ka~lVilA~D~s~~~---~~~i~~~c~~-~~Ip~i~~~~---sk~eLG~a~ 85 (112)
++.-||+|+|++... -..+..+|.. .+.|+...++ |.+++=+|+
T Consensus 98 ~ad~ii~atD~DrEGE~I~~~i~~~~~~~~~~~v~R~~fsslT~~~I~~A~ 148 (151)
T cd03362 98 RADEIVIATDADREGELIGREILEYAKCVKRKPVKRAWFSSLTPKAIRRAF 148 (151)
T ss_pred CCCeEEEccCCCccccHHHHHHHHHhCCCCCCcEEEEEEccCCHHHHHHHH
Confidence 568899999998754 3556666665 2456554333 555555544
No 176
>TIGR02740 TraF-like TraF-like protein. This protein is related to the F-type conjugation system pilus assembly proteins TraF (TIGR02739)and TrbB (TIGR02738) both of which exhibit a thioredoxin fold. The protein represented by this model has the same length and architecture as TraF, but lacks the CXXC-motif found in TrbB and believed to be responsible for the disulfide isomerase activity of that protein.
Probab=44.42 E-value=1.3e+02 Score=23.03 Aligned_cols=68 Identities=13% Similarity=0.236 Sum_probs=42.1
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHHhCCCcEEEecCCH------------HHHHhhhCCcccEEEEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAMLAKVGVHHYNGNN------------VDLGTACGKYFRVSCLSI 96 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~~~~Ip~i~~~~sk------------~eLG~a~Gk~~~~~vvaI 96 (112)
.+.+++.+...-+-+.|.|++|++ ...-.|..+++++++.++....+. ..+...+|... +-.+.+
T Consensus 157 ~~~~l~~l~~k~~Lv~F~AswCp~C~~~~P~L~~la~~yg~~Vi~VsvD~~~~~~fp~~~~d~~la~~~gV~~-vPtl~L 235 (271)
T TIGR02740 157 KDRVMKDLAKKSGLFFFFKSDCPYCHQQAPILQAFEDRYGIEVLPVSVDGGPLPGFPNARPDAGQAQQLKIRT-VPAVFL 235 (271)
T ss_pred HHHHHHHhcCCeEEEEEECCCCccHHHHhHHHHHHHHHcCcEEEEEeCCCCccccCCcccCCHHHHHHcCCCc-CCeEEE
Confidence 345677776555666788999988 334567788899997776321121 34677777642 223555
Q ss_pred eCc
Q 033750 97 IDP 99 (112)
Q Consensus 97 ~d~ 99 (112)
.|+
T Consensus 236 v~~ 238 (271)
T TIGR02740 236 ADP 238 (271)
T ss_pred EEC
Confidence 554
No 177
>COG4639 Predicted kinase [General function prediction only]
Probab=43.69 E-value=1e+02 Score=22.41 Aligned_cols=38 Identities=18% Similarity=0.073 Sum_probs=29.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCc
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVG 70 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip 70 (112)
.+..+.+++|+ ..||=|.+..+..++++.++|..|+..
T Consensus 60 ~~l~qrl~~Gk-~tiidAtn~rr~~r~~l~~La~~y~~~ 97 (168)
T COG4639 60 KQLEQRLRRGK-FTIIDATNLRREDRRKLIDLAKAYGYK 97 (168)
T ss_pred HHHHHHHHcCC-eEEEEcccCCHHHHHHHHHHHHHhCCe
Confidence 34455566665 357889999999999999999999853
No 178
>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=43.46 E-value=24 Score=20.86 Aligned_cols=33 Identities=6% Similarity=-0.222 Sum_probs=22.1
Q ss_pred hhHHHHHHhCCCc------EEEecCCHHHHHhhhCCccc
Q 033750 58 SEIEYYAMLAKVG------VHHYNGNNVDLGTACGKYFR 90 (112)
Q Consensus 58 ~~i~~~c~~~~Ip------~i~~~~sk~eLG~a~Gk~~~ 90 (112)
.-+..+|+..+.+ .+.++.|.++|+..+|.++.
T Consensus 5 ~~Ll~l~~~~~~~~~~~~~~~~~~lt~~~iA~~~g~sr~ 43 (76)
T PF13545_consen 5 RFLLELAERFGRRQDGDGIRIPLPLTQEEIADMLGVSRE 43 (76)
T ss_dssp HHHHHHHHHHEEEEETTEEEEEEESSHHHHHHHHTSCHH
T ss_pred HHHHHHHHHHCCCCCCCCceEEecCCHHHHHHHHCCCHH
Confidence 3445566655443 22358899999999998754
No 179
>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=43.37 E-value=63 Score=26.15 Aligned_cols=62 Identities=19% Similarity=0.148 Sum_probs=42.8
Q ss_pred cCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCch
Q 033750 40 SSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDS 102 (112)
Q Consensus 40 ~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~a 102 (112)
.|..++.++..|.-. .....+..+++..++|+.. ..+..+|..++..-....++-|=.+|..
T Consensus 165 ~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~-~~~~~~l~~~l~~l~~~DlVLIDTaG~~ 227 (374)
T PRK14722 165 FGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHA-VKDGGDLQLALAELRNKHMVLIDTIGMS 227 (374)
T ss_pred cCCCeEEEEecccccccHHHHHHHHHHHcCCceEe-cCCcccHHHHHHHhcCCCEEEEcCCCCC
Confidence 355577788888753 4678899999999999995 7787778777753223333445555654
No 180
>PRK02615 thiamine-phosphate pyrophosphorylase; Provisional
Probab=43.31 E-value=1.1e+02 Score=24.46 Aligned_cols=62 Identities=13% Similarity=0.039 Sum_probs=44.6
Q ss_pred HHHHHHhcCCceEEEEeCCCCch----hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPL----RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~----~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
.+.+++..|-..+.+=..+.++. ..+.+..+|+.++++++ ..+..+|..++|-+ .++ ++-.|
T Consensus 162 ~l~~al~~Gv~~VQLR~K~~~~~~~~~~a~~L~~l~~~~~~~lI--IND~vdlAl~~~aD-GVH-Lgq~d 227 (347)
T PRK02615 162 VVEAALKGGVTLVQYRDKTADDRQRLEEAKKLKELCHRYGALFI--VNDRVDIALAVDAD-GVH-LGQED 227 (347)
T ss_pred HHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHHHHHHHhCCeEE--EeChHHHHHHcCCC-EEE-eChhh
Confidence 45667777744444666666653 34778889999999998 57889999999976 664 65544
No 181
>PRK03512 thiamine-phosphate pyrophosphorylase; Provisional
Probab=43.29 E-value=1e+02 Score=22.56 Aligned_cols=63 Identities=14% Similarity=0.011 Sum_probs=44.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhh----hhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRK----SEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~----~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
+.+.+++..|-..+.+=-.|.+++.. ..+..+|+.+++|++ ..+.-+|...+|-+ .++ ++-.|
T Consensus 23 ~~l~~~l~~G~~~vqLR~k~~~~~~~~~la~~l~~~~~~~~~~li--Ind~~~lA~~~~ad-GVH-lg~~d 89 (211)
T PRK03512 23 QWIERLLDAGVRTLQLRIKDRRDEEVEADVVAAIALGRRYQARLF--INDYWRLAIKHQAY-GVH-LGQED 89 (211)
T ss_pred HHHHHHHhCCCCEEEEcCCCCCHHHHHHHHHHHHHHHHHhCCeEE--EeCHHHHHHHcCCC-EEE-cChHh
Confidence 45777888886666666777776433 555678999999998 47888999888865 553 55433
No 182
>KOG2486 consensus Predicted GTPase [General function prediction only]
Probab=43.15 E-value=30 Score=27.49 Aligned_cols=38 Identities=8% Similarity=-0.088 Sum_probs=25.1
Q ss_pred EEEeCCCC--c-hhhhhHHHHHHhCCCcEEEecCCHHHHHhh
Q 033750 46 ILLSNNCP--P-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTA 84 (112)
Q Consensus 46 VilA~D~s--~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a 84 (112)
+|++-|++ . .+=-....+|.++|||+. +++|+-+=-..
T Consensus 223 ~FLLvd~sv~i~~~D~~~i~~~ge~~VP~t-~vfTK~DK~k~ 263 (320)
T KOG2486|consen 223 VFLLVDASVPIQPTDNPEIAWLGENNVPMT-SVFTKCDKQKK 263 (320)
T ss_pred eeeeeeccCCCCCCChHHHHHHhhcCCCeE-Eeeehhhhhhh
Confidence 44444444 3 344556789999999999 58887654433
No 183
>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=42.94 E-value=20 Score=21.72 Aligned_cols=30 Identities=13% Similarity=0.156 Sum_probs=25.4
Q ss_pred hhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 58 SEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 58 ~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
-+...+++..++|+. ..++..+++..||..
T Consensus 15 ~~~ek~lk~~gi~~~-liP~P~~i~~~CG~a 44 (73)
T PF11823_consen 15 MKAEKLLKKNGIPVR-LIPTPREISAGCGLA 44 (73)
T ss_pred HHHHHHHHHCCCcEE-EeCCChhccCCCCEE
Confidence 446678889999999 499999999999964
No 184
>COG2047 Uncharacterized protein (ATP-grasp superfamily) [General function prediction only]
Probab=42.93 E-value=39 Score=25.98 Aligned_cols=65 Identities=15% Similarity=0.095 Sum_probs=51.3
Q ss_pred CCceEEEEeCCCCch-------hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchHHHhcC
Q 033750 41 SKGKLILLSNNCPPL-------RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSDIIKSL 108 (112)
Q Consensus 41 gka~lVilA~D~s~~-------~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~a~~i~~~ 108 (112)
++--++|+..|.-.. ...++.+.+++++++.| |..----.|+.+..+ ++ .-|++++...+.+++.
T Consensus 82 ~~~Dliil~Gd~Q~~~~~gqyel~~~~Ld~a~e~g~~~I-yTLGGy~vGkl~eep-~V-lGA~ts~eLi~~lke~ 153 (258)
T COG2047 82 GERDLIILVGDTQATSSEGQYELTGKILDIAKEFGARMI-YTLGGYGVGKLVEEP-RV-LGAVTSKELIEELKEH 153 (258)
T ss_pred CCCcEEEEeccccccCcchhHHHHHHHHHHHHHcCCcEE-EEecCcccCcccCCc-ee-EEecCCHHHHHHHHHc
Confidence 667899999998542 23667789999999999 788878889999988 45 4678898888888764
No 185
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=42.48 E-value=31 Score=17.93 Aligned_cols=24 Identities=17% Similarity=0.188 Sum_probs=19.2
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 56 RKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 56 ~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
+...+...|...++|. .+++.+|=
T Consensus 5 ~~~~Lk~~l~~~gl~~---~G~K~~Lv 28 (35)
T smart00513 5 KVSELKDELKKRGLST---SGTKAELV 28 (35)
T ss_pred cHHHHHHHHHHcCCCC---CCCHHHHH
Confidence 4577899999999995 47888873
No 186
>COG1535 EntB Isochorismate hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=42.47 E-value=22 Score=26.56 Aligned_cols=16 Identities=19% Similarity=0.384 Sum_probs=14.4
Q ss_pred hhHHHHHHhCCCcEEEe
Q 033750 58 SEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 58 ~~i~~~c~~~~Ip~i~~ 74 (112)
.+++.+|++.+||++ |
T Consensus 61 ~~Lr~~~~~~giPVv-y 76 (218)
T COG1535 61 AKLRIWCKQAGIPVV-Y 76 (218)
T ss_pred HHHHHHHHHcCCcEE-E
Confidence 678889999999999 5
No 187
>COG4052 Uncharacterized protein related to methyl coenzyme M reductase subunit C [General function prediction only]
Probab=42.33 E-value=13 Score=28.80 Aligned_cols=67 Identities=13% Similarity=0.083 Sum_probs=47.0
Q ss_pred HHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 033750 16 NRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 83 (112)
Q Consensus 16 ~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~ 83 (112)
|++|+||-.|+-++-..+-.+-+-+..--.||.-.+.++=.+++=..+-+.-.||++. .+..+|+-.
T Consensus 106 NmIGLARG~Gr~is~l~e~ErrLieEHDlavf~~GsF~dCI~~~K~~Lf~~i~iPvvV-tGgPeeid~ 172 (310)
T COG4052 106 NMIGLARGMGRRISQLREYERRLIEEHDLAVFVFGSFEDCIKKKKPHLFEGIEIPVVV-TGGPEEIDT 172 (310)
T ss_pred chhhhhhhccchhHHHHHHHHHhhhhcceEEEEecCHHHHHhhcCCcccccccccEEE-eCCcccccC
Confidence 6899999999988888888888776666666666665553443223333446799995 888887643
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=42.05 E-value=76 Score=22.13 Aligned_cols=40 Identities=18% Similarity=0.029 Sum_probs=23.4
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+..+.+..+++..+|+.....+... ....+.+.++|++.
T Consensus 45 ~~~~~~~~~~~~d~ii~~~~~~~~~~--~~~~l~~~~ip~v~ 84 (264)
T cd01537 45 LSALENLIARGVDGIIIAPSDLTAPT--IVKLARKAGIPVVL 84 (264)
T ss_pred HHHHHHHHHcCCCEEEEecCCCcchh--HHHHhhhcCCCEEE
Confidence 34455555556776666553333322 44566778899984
No 189
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=41.79 E-value=73 Score=27.00 Aligned_cols=43 Identities=14% Similarity=0.121 Sum_probs=34.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEec
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~ 75 (112)
..+.++++.|+ .+||=+++..+..++.+..+|+++++|+.-++
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 45667788886 47888888888999999999999999987433
No 190
>PRK11018 hypothetical protein; Provisional
Probab=41.77 E-value=73 Score=19.60 Aligned_cols=37 Identities=19% Similarity=0.055 Sum_probs=24.5
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.++.+..|+. |.|++.|. .....+..+|+..+-.++.
T Consensus 28 ~l~~l~~G~~-L~V~~d~~--~a~~di~~~~~~~G~~v~~ 64 (78)
T PRK11018 28 ALPQLKKGEI-LEVVSDCP--QSINNIPLDARNHGYTVLD 64 (78)
T ss_pred HHHhCCCCCE-EEEEeCCc--cHHHHHHHHHHHcCCEEEE
Confidence 3344455554 55566654 4566899999999888864
No 191
>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=41.53 E-value=96 Score=25.83 Aligned_cols=49 Identities=8% Similarity=0.112 Sum_probs=33.4
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHH---HHhhhCC
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVD---LGTACGK 87 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~e---LG~a~Gk 87 (112)
.++.+.+-.+.+||.+.+.++. ..+++.+++|.++. ..++.+ |.+++|-
T Consensus 279 ~v~~i~~~g~~lvi~~~~I~~~----al~~L~~~~I~av~-~v~~~~LerIa~~tGa 330 (526)
T cd03339 279 MVEQVKDAGANLVICQWGFDDE----ANHLLLQNGLPAVR-WVGGVEIELIAIATGG 330 (526)
T ss_pred HHHHHHHCCCCEEEeCCCCCHH----HHHHHHHCCCEEEE-eCCHHHHHHHHHHhCC
Confidence 3455555667899999999885 44466788998886 555555 4455553
No 192
>PRK02627 acetylornithine aminotransferase; Provisional
Probab=41.27 E-value=47 Score=25.80 Aligned_cols=50 Identities=6% Similarity=0.041 Sum_probs=33.3
Q ss_pred HHHHHHHhcCCceEEEEeCC--------CCchhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 033750 32 KTVLRSLRSSKGKLILLSNN--------CPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 83 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D--------~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~ 83 (112)
+...+.+ ..+.++|++-.- .++...++|..+|++++++++. .....++|+
T Consensus 173 ~~l~~~i-~~~~~~vii~p~~~~~G~~~~~~~~l~~l~~l~~~~~~~lI~-DE~~~g~g~ 230 (396)
T PRK02627 173 EALKAAI-TDKTAAVMLEPIQGEGGVNPADKEYLQALRELCDENGILLIL-DEVQTGMGR 230 (396)
T ss_pred HHHHHhc-CCCeEEEEEecccCCCCCccCCHHHHHHHHHHHHHcCCEEEE-echhcCCCc
Confidence 3445555 357888888532 2345678999999999999994 554444543
No 193
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=41.20 E-value=37 Score=22.41 Aligned_cols=51 Identities=12% Similarity=0.046 Sum_probs=33.4
Q ss_pred ceecHHHHHH---HHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH
Q 033750 27 YTLGYKTVLR---SLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 27 lv~G~~~v~k---ai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
.+...+++.+ .+.++...+|++..+..+.....+..+ +....|.+...+++
T Consensus 27 ~v~~~ee~~~~i~~l~~~d~gII~Ite~~a~~i~~~i~~~-~~~~~P~Il~IP~~ 80 (104)
T PRK01395 27 PVIDEQEAINTLRKLAMEDYGIIYITEQIAADIPETIERY-DNQVLPAIILIPSN 80 (104)
T ss_pred EecChHHHHHHHHHHhcCCcEEEEEcHHHHHHhHHHHHHh-cCCCCCEEEEeCCC
Confidence 3444444444 344567888888888888887777776 45567877555553
No 194
>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=41.20 E-value=69 Score=26.19 Aligned_cols=42 Identities=14% Similarity=0.073 Sum_probs=34.2
Q ss_pred HHHHHHHhcCCceEEEEeCCC--------CchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNC--------PPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~--------s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+...+.++..+++++++-.+. |...++.|..+|+++++++|+
T Consensus 216 e~le~~~~~~~~k~~y~~P~~qNPtG~tms~~rR~~Ll~lA~~~~~~IIE 265 (459)
T COG1167 216 EALEEALAQWKPKAVYVTPTFQNPTGVTMSLERRKALLALAEKYDVLIIE 265 (459)
T ss_pred HHHHHHHhhcCCcEEEECCCCCCCCCCccCHHHHHHHHHHHHHcCCeEEe
Confidence 456677777789999988776 456678999999999999997
No 195
>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=41.20 E-value=67 Score=23.60 Aligned_cols=47 Identities=23% Similarity=0.227 Sum_probs=32.3
Q ss_pred HhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCC
Q 033750 23 KSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKV 69 (112)
Q Consensus 23 kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~I 69 (112)
.......|..+.++.+++....++|++++.+.....-...+.+..++
T Consensus 11 ~~~~~~~~a~e~i~~l~~~g~~~~~~tN~~~~~~~~~~~~l~~~~g~ 57 (236)
T TIGR01460 11 LGHKPIPGAAEALNRLRAKGKPVVFLTNNSSRSEEDYAEKLSSLLGV 57 (236)
T ss_pred cCCccCcCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHHHHHHhcCC
Confidence 44566778999999999888999999988865444333444443343
No 196
>PRK09331 Sep-tRNA:Cys-tRNA synthetase; Provisional
Probab=41.19 E-value=61 Score=25.46 Aligned_cols=43 Identities=9% Similarity=-0.038 Sum_probs=30.2
Q ss_pred HHHHHHHHhcC------CceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSS------KGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~g------ka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+.+.+++.+. +.++|++..=.++ .-.++|..+|++++++++.
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 6888888753222 3457788899999999884
No 197
>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=41.17 E-value=74 Score=18.62 Aligned_cols=42 Identities=10% Similarity=0.033 Sum_probs=20.2
Q ss_pred EEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC-----HHHHHhhhCC
Q 033750 45 LILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN-----NVDLGTACGK 87 (112)
Q Consensus 45 lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s-----k~eLG~a~Gk 87 (112)
+++...+.-|..+ +...+.++++|||..+..+ +.+|-+..|.
T Consensus 3 v~ly~~~~C~~C~-ka~~~L~~~gi~~~~~di~~~~~~~~el~~~~g~ 49 (73)
T cd03027 3 VTIYSRLGCEDCT-AVRLFLREKGLPYVEINIDIFPERKAELEERTGS 49 (73)
T ss_pred EEEEecCCChhHH-HHHHHHHHCCCceEEEECCCCHHHHHHHHHHhCC
Confidence 3444444334333 2444556677777643222 2345555554
No 198
>PF02581 TMP-TENI: Thiamine monophosphate synthase/TENI; InterPro: IPR003733 Thiamine monophosphate synthase (TMP) (2.5.1.3 from EC) catalyzes the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate in the thiamine biosynthesis pathway []. TENI, a protein from Bacillus subtilis that regulates the production of several extracellular enzymes by reducing alkaline protease production belongs to this group [].; GO: 0004789 thiamine-phosphate diphosphorylase activity, 0009228 thiamine biosynthetic process; PDB: 3NL5_A 3NL2_A 3NM1_A 3NM3_C 3NL6_B 3NL3_A 3CEU_A 3O63_B 3QH2_C 1YAD_D ....
Probab=41.07 E-value=1.3e+02 Score=21.19 Aligned_cols=61 Identities=18% Similarity=0.129 Sum_probs=37.7
Q ss_pred HHHHHHhcCCceEE-EEeCCCCch----hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 33 TVLRSLRSSKGKLI-LLSNNCPPL----RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 33 ~v~kai~~gka~lV-ilA~D~s~~----~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
.+.+++..| +.+| +=-.|.+++ ..+.+...|..+++|++ ..+.-+|...+|-+ .++ ++-.|
T Consensus 17 ~l~~~~~~g-v~~v~lR~k~~~~~~~~~~a~~l~~~~~~~~~~li--in~~~~la~~~~~d-GvH-l~~~~ 82 (180)
T PF02581_consen 17 QLEAALAAG-VDLVQLREKDLSDEELLELARRLAELCQKYGVPLI--INDRVDLALELGAD-GVH-LGQSD 82 (180)
T ss_dssp HHHHHHHTT--SEEEEE-SSS-HHHHHHHHHHHHHHHHHTTGCEE--EES-HHHHHHCT-S-EEE-EBTTS
T ss_pred HHHHHHHCC-CcEEEEcCCCCCccHHHHHHHHHHHHhhcceEEEE--ecCCHHHHHhcCCC-EEE-ecccc
Confidence 345566666 5554 445566653 34677889999999998 47789999998875 553 44333
No 199
>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]
Probab=40.98 E-value=71 Score=26.36 Aligned_cols=61 Identities=13% Similarity=0.113 Sum_probs=47.4
Q ss_pred hcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcC
Q 033750 39 RSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPG 100 (112)
Q Consensus 39 ~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g 100 (112)
..++-++=||..|+=- --.+++..||+-.++|+.. +.|..||-.++.--..+-+|-|=..|
T Consensus 230 ~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~v-v~~~~el~~ai~~l~~~d~ILVDTaG 291 (407)
T COG1419 230 LKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEV-VYSPKELAEAIEALRDCDVILVDTAG 291 (407)
T ss_pred hccCcceEEEEeccchhhHHHHHHHHHHHhCCceEE-ecCHHHHHHHHHHhhcCCEEEEeCCC
Confidence 5677888999999866 3568999999999999995 99999999999754444434443334
No 200
>cd01850 CDC_Septin CDC/Septin. Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.
Probab=40.92 E-value=1.2e+02 Score=23.14 Aligned_cols=64 Identities=6% Similarity=0.046 Sum_probs=38.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCCc-------hhhhhHHHHHHhCCCcEEEecCCHH-----HHHhhhCCcccEEEEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPP-------LRKSEIEYYAMLAKVGVHHYNGNNV-----DLGTACGKYFRVSCLSI 96 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~-------~~~~~i~~~c~~~~Ip~i~~~~sk~-----eLG~a~Gk~~~~~vvaI 96 (112)
-+.++.+.. .+-++++.+-++. ..++.+....+.++|+++.|..+.+ +....++...+-++++=
T Consensus 134 ~~~lk~l~~-~v~vi~VinK~D~l~~~e~~~~k~~i~~~l~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~Pfavi~s 209 (276)
T cd01850 134 IEFMKRLSK-RVNIIPVIAKADTLTPEELKEFKQRIMEDIEEHNIKIYKFPEDEEDDETIEENKKLRSLIPFAVVGS 209 (276)
T ss_pred HHHHHHHhc-cCCEEEEEECCCcCCHHHHHHHHHHHHHHHHHcCCceECCCCCcccHHHHHHHHhhccCCCcEEEec
Confidence 456777775 5667777776654 2345667778889999986433222 24555555444444543
No 201
>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=40.89 E-value=51 Score=25.56 Aligned_cols=48 Identities=25% Similarity=0.221 Sum_probs=34.4
Q ss_pred HhCCceecHHHHHHHHhcC----CceEEEEeCCCCchhhhhHHHHHHhCCCc
Q 033750 23 KSGKYTLGYKTVLRSLRSS----KGKLILLSNNCPPLRKSEIEYYAMLAKVG 70 (112)
Q Consensus 23 kagklv~G~~~v~kai~~g----ka~lVilA~D~s~~~~~~i~~~c~~~~Ip 70 (112)
+.+.++-|..++++.++.. ...++++.++.+.........+.+..+++
T Consensus 13 ~g~~~i~ga~eal~~L~~~~~~~g~~~~flTNn~g~s~~~~~~~l~~~lG~~ 64 (321)
T TIGR01456 13 RGKKPIAGASDALRRLNRNQGQLKIPYIFLTNGGGFSERARAEEISSLLGVD 64 (321)
T ss_pred CCccccHHHHHHHHHHhccccccCCCEEEEecCCCCCHHHHHHHHHHHcCCC
Confidence 4567788999999999987 78889999988655444444444554543
No 202
>PRK05597 molybdopterin biosynthesis protein MoeB; Validated
Probab=40.85 E-value=37 Score=26.91 Aligned_cols=31 Identities=10% Similarity=-0.041 Sum_probs=25.8
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
..-+||-+.|- ..++..+..+|..++||++.
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 37789988885 46777889999999999994
No 203
>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=40.80 E-value=63 Score=26.68 Aligned_cols=47 Identities=19% Similarity=0.218 Sum_probs=31.9
Q ss_pred ceecHHHHHHHHhc-C-CceEEEEeCC-C----CchhhhhHHHHHHhCCCcEEE
Q 033750 27 YTLGYKTVLRSLRS-S-KGKLILLSNN-C----PPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 27 lv~G~~~v~kai~~-g-ka~lVilA~D-~----s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+..=.+.+.++|.. + ++.++++.+- + +++-.+.|..+|++++||++.
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 33445677888864 2 5566666432 2 456677888999999999985
No 204
>PRK00124 hypothetical protein; Validated
Probab=40.57 E-value=40 Score=23.98 Aligned_cols=29 Identities=21% Similarity=0.115 Sum_probs=24.3
Q ss_pred EEEeCCCCchhhhhHHHHHHhCCCcEEEecC
Q 033750 46 ILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 46 VilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
+++=.|+-| .+..+...|+.+++|++ ++-
T Consensus 3 I~VDADACP-Vk~~i~r~a~r~~i~v~-~Va 31 (151)
T PRK00124 3 IYVDADACP-VKDIIIRVAERHGIPVT-LVA 31 (151)
T ss_pred EEEECCCCc-HHHHHHHHHHHHCCeEE-EEE
Confidence 567778888 88999999999999999 454
No 205
>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=40.14 E-value=89 Score=23.38 Aligned_cols=40 Identities=10% Similarity=-0.036 Sum_probs=24.0
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+..+.+...++.-+|+.+.-+ +........+.+.+||++.
T Consensus 45 ~~i~~l~~~~vDgIIi~~~~~-~~~~~~l~~~~~~~iPvV~ 84 (302)
T TIGR02634 45 SQIENLIARGVDVLVIIPQNG-QVLSNAVQEAKDEGIKVVA 84 (302)
T ss_pred HHHHHHHHcCCCEEEEeCCCh-hHHHHHHHHHHHCCCeEEE
Confidence 555666667777777765222 2223344556778899884
No 206
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=39.81 E-value=42 Score=22.10 Aligned_cols=44 Identities=11% Similarity=-0.003 Sum_probs=31.9
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+..++...+.....-+++++.+.+- ..+++...|..+++|+..
T Consensus 37 ~~~~e~~~~~~~~~~DvIll~PQi~~-~~~~i~~~~~~~~ipv~~ 80 (104)
T PRK09590 37 ITATEGEKAIAAAEYDLYLVSPQTKM-YFKQFEEAGAKVGKPVVQ 80 (104)
T ss_pred ecHHHHHHhhccCCCCEEEEChHHHH-HHHHHHHHhhhcCCCEEE
Confidence 45555555555556788998877753 356788889999999984
No 207
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=39.62 E-value=90 Score=24.25 Aligned_cols=39 Identities=5% Similarity=0.128 Sum_probs=29.0
Q ss_pred HHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 35 LRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 35 ~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.++.++|--.+||+++-.++...+.+.+.|+++++.++-
T Consensus 81 ~e~~~~Gvk~avIis~Gf~e~~~~~l~~~a~~~girilG 119 (286)
T TIGR01019 81 FEAIDAGIELIVCITEGIPVHDMLKVKRYMEESGTRLIG 119 (286)
T ss_pred HHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHcCCEEEC
Confidence 344456666777888888776567888899998888874
No 208
>PRK09932 glycerate kinase II; Provisional
Probab=39.56 E-value=97 Score=25.27 Aligned_cols=73 Identities=15% Similarity=0.089 Sum_probs=47.9
Q ss_pred hCCceecHHHHHHHHhc----CCceEEEEeCCCCch------hhhhHHHHHHhCCCcEEEecCCH-HHH--HhhhCCccc
Q 033750 24 SGKYTLGYKTVLRSLRS----SKGKLILLSNNCPPL------RKSEIEYYAMLAKVGVHHYNGNN-VDL--GTACGKYFR 90 (112)
Q Consensus 24 agklv~G~~~v~kai~~----gka~lVilA~D~s~~------~~~~i~~~c~~~~Ip~i~~~~sk-~eL--G~a~Gk~~~ 90 (112)
.+++..|++-|.+.+.- ..+-|||-.+-.-+. +--.+-++|+.+++|++-+.++- .+. -...|..
T Consensus 262 ~a~l~~G~d~v~~~~~l~~~l~~ADlVITGEG~~D~Qt~~GK~p~~Va~~A~~~~~Pvi~i~G~~~~~~~~~~~~g~~-- 339 (381)
T PRK09932 262 NADIKPGIEIVLNAVNLEQAVQGAALVITGEGRIDSQTAGGKAPLGVASVAKQFNVPVIGIAGVLGDGVEVVHQYGID-- 339 (381)
T ss_pred CCEEccHHHHHHHhcChHHHhccCCEEEECCCcccccccCCccHHHHHHHHHHcCCCEEEEecccCCChHHHHhcCce--
Confidence 47789999999988732 458888888765442 22556779999999999766651 222 2333433
Q ss_pred EEEEEEeCc
Q 033750 91 VSCLSIIDP 99 (112)
Q Consensus 91 ~~vvaI~d~ 99 (112)
++..|.+.
T Consensus 340 -~~~~i~~~ 347 (381)
T PRK09932 340 -AVFSILPR 347 (381)
T ss_pred -EEEEcCCC
Confidence 35677664
No 209
>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=39.54 E-value=40 Score=21.38 Aligned_cols=40 Identities=8% Similarity=0.135 Sum_probs=30.9
Q ss_pred hcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH
Q 033750 39 RSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 39 ~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
++....++|+..+..+.....+..+-....-|++...++.
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 4678899999999988888888887677777887544443
No 210
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=39.44 E-value=86 Score=23.38 Aligned_cols=47 Identities=13% Similarity=0.007 Sum_probs=28.5
Q ss_pred HHHHHHhcCCceEEEEeCCCCchh-----hhhHHHHHHhCCCcEEEecCCHH
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLR-----KSEIEYYAMLAKVGVHHYNGNNV 79 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~-----~~~i~~~c~~~~Ip~i~~~~sk~ 79 (112)
.+.+.++...+-+||++.|..... ...+...-...++|++...++.+
T Consensus 22 ~l~~~~~~~~~D~vv~~GDl~~~g~~~~~~~~~l~~l~~l~~pv~~V~GNhD 73 (224)
T cd07388 22 KLVGLAPETGADAIVLIGNLLPKAAKSEDYAAFFRILGEAHLPTFYVPGPQD 73 (224)
T ss_pred HHHHHHhhcCCCEEEECCCCCCCCCCHHHHHHHHHHHHhcCCceEEEcCCCC
Confidence 344445556799999999996643 22233333455678875455544
No 211
>COG4294 Uve UV damage repair endonuclease [DNA replication, recombination, and repair]
Probab=39.01 E-value=23 Score=28.32 Aligned_cols=61 Identities=18% Similarity=0.130 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHh------CCceecHHHHHHHHhcCCc------e-EEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 12 ESINNRLALVMKS------GKYTLGYKTVLRSLRSSKG------K-LILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 12 ~~i~~~Lgla~ka------gklv~G~~~v~kai~~gka------~-lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
.++++.+|++-|+ |-.--|-++..+.+.++-. + -+.+=+|--.-+...+..+|++.+||++
T Consensus 161 ~r~l~~mgl~~Rs~~~lhlgg~~gGK~~~~eqf~kni~~LP~~vksRl~LENDd~sYs~eelL~lCek~~iPlV 234 (347)
T COG4294 161 YRILDGMGLAERSVWNLHLGGTHGGKKERLEQFIKNIQRLPDSVKSRLTLENDDKSYSTEELLPLCEKLNIPLV 234 (347)
T ss_pred HHHHhhcCCCcCCceEEEeccccCCchhHHHHHHHHHhhcCHHHHHhheeecccccccHHHHHHHHHHhCCCEE
Confidence 5788888888554 3344454444444433321 1 1445555555677889999999999998
No 212
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=38.99 E-value=1.1e+02 Score=26.29 Aligned_cols=51 Identities=8% Similarity=-0.046 Sum_probs=34.1
Q ss_pred CceE-EEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHh-hhCCcccEEEEEEe
Q 033750 42 KGKL-ILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT-ACGKYFRVSCLSII 97 (112)
Q Consensus 42 ka~l-VilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~-a~Gk~~~~~vvaI~ 97 (112)
++-+ +|+.+--|.|+.+ |.+.|+..+.|.+ +..+.+||-. ++--. ..+||+
T Consensus 206 ~~d~~~vvGg~~SsNt~~-L~~i~~~~~~~~~-~ie~~~el~~~~~~~~---~~vgit 258 (647)
T PRK00087 206 KVDVMIVVGGKNSSNTTK-LYEICKSNCTNTI-HIENAGELPEEWFKGV---KIIGVT 258 (647)
T ss_pred hCCEEEEECCCCCccHHH-HHHHHHHHCCCEE-EECChHHCCHHHhCCC---CEEEEE
Confidence 3444 5555555666665 7779999999999 5999999976 33211 136776
No 213
>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=38.85 E-value=77 Score=23.30 Aligned_cols=59 Identities=12% Similarity=0.050 Sum_probs=41.5
Q ss_pred HhCCceec------HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 033750 23 KSGKYTLG------YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 23 kagklv~G------~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk 87 (112)
+-..+..| .+++.++++.| +.+++ ||..-..+..+|.++++|++-=..|-.|+-.|...
T Consensus 56 ~~p~~~vGAGTV~~~e~a~~a~~aG-A~Fiv-----SP~~~~~v~~~~~~~~i~~iPG~~TptEi~~A~~~ 120 (196)
T PF01081_consen 56 EFPDLLVGAGTVLTAEQAEAAIAAG-AQFIV-----SPGFDPEVIEYAREYGIPYIPGVMTPTEIMQALEA 120 (196)
T ss_dssp HHTTSEEEEES--SHHHHHHHHHHT--SEEE-----ESS--HHHHHHHHHHTSEEEEEESSHHHHHHHHHT
T ss_pred HCCCCeeEEEeccCHHHHHHHHHcC-CCEEE-----CCCCCHHHHHHHHHcCCcccCCcCCHHHHHHHHHC
Confidence 44667777 47788888887 55554 55666778889999999998435699998777643
No 214
>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=38.66 E-value=98 Score=25.69 Aligned_cols=48 Identities=8% Similarity=0.157 Sum_probs=34.2
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
+..+.|.+-++.+||.+.+.++.... ++..+||.++. ..++++|.+.+
T Consensus 273 ~~v~~i~~~g~~lvi~~~~I~~~al~----~L~~~gI~~v~-~v~~~~L~rIa 320 (519)
T TIGR02339 273 EMVDKIADAGANVVFCQKGIDDLAQH----YLAKAGILAVR-RVKKSDIEKLA 320 (519)
T ss_pred HHHHHHHhcCCcEEEECCCccHHHHH----HHHHCCCEEEe-cCCHHHHHHHH
Confidence 34456666778999999999886544 34578888885 77777666554
No 215
>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=38.58 E-value=77 Score=23.87 Aligned_cols=42 Identities=17% Similarity=0.049 Sum_probs=30.4
Q ss_pred HHHHHHHHhc-CCceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRS-SKGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~-gka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+++.+++++ .+.++|++.+- .+ .-.+.|..+|++++++++.
T Consensus 142 ~~~l~~~l~~~~~~k~v~l~~p-~~~G~~~dl~~I~~~~~~~g~~liv 188 (294)
T cd00615 142 PETFKKALIEHPDAKAAVITNP-TYYGICYNLRKIVEEAHHRGLPVLV 188 (294)
T ss_pred HHHHHHHHHhCCCceEEEEECC-CCCCEecCHHHHHHHHHhcCCeEEE
Confidence 5667788865 56888888753 22 1246788899999999984
No 216
>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=38.50 E-value=71 Score=25.82 Aligned_cols=53 Identities=9% Similarity=0.012 Sum_probs=39.6
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCC-cEEEecCCHHHHH
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKV-GVHHYNGNNVDLG 82 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~I-p~i~~~~sk~eLG 82 (112)
.|.++..+.+++..+.-|++|-+..+ ...+++...|+..++ ++. ..++-.|+.
T Consensus 175 lg~~~l~~~i~~~~id~ViIAip~~~~~~~~~ll~~l~~~~v~~V~-~vP~~~e~~ 229 (456)
T TIGR03022 175 VGADDALRLYARTRYAYVIVAMPGTQAEDMARLVRKLGALHFRNVL-IVPSLFGLP 229 (456)
T ss_pred cChhHHHHHHHhCCCCEEEEecCCccHHHHHHHHHHHHhCCCeEEE-EeCcccccc
Confidence 44467778888888988888876544 566788888988888 777 477777665
No 217
>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=38.48 E-value=98 Score=22.32 Aligned_cols=40 Identities=15% Similarity=0.061 Sum_probs=22.6
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+...++..+|+..- +++........+.+.+||++.
T Consensus 48 ~~i~~l~~~~vdgiii~~~-~~~~~~~~l~~~~~~~ipvV~ 87 (271)
T cd06312 48 RLIEAAIAAKPDGIVVTIP-DPDALDPAIKRAVAAGIPVIS 87 (271)
T ss_pred HHHHHHHHhCCCEEEEeCC-ChHHhHHHHHHHHHCCCeEEE
Confidence 3444555567777777652 222222333445677899985
No 218
>PRK12319 acetyl-CoA carboxylase subunit alpha; Provisional
Probab=38.40 E-value=38 Score=25.98 Aligned_cols=18 Identities=11% Similarity=-0.182 Sum_probs=14.2
Q ss_pred hhHHHHHHhCCCcEEEec
Q 033750 58 SEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 58 ~~i~~~c~~~~Ip~i~~~ 75 (112)
.++..+|.+.++|+++++
T Consensus 88 ~R~~~lA~~~~lPvV~lv 105 (256)
T PRK12319 88 LRLMKQAEKFGRPVVTFI 105 (256)
T ss_pred HHHHHHHHHcCCCEEEEE
Confidence 455679999999999753
No 219
>PRK05294 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=38.36 E-value=50 Score=30.09 Aligned_cols=56 Identities=13% Similarity=0.004 Sum_probs=41.0
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCchh--hhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPPLR--KSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~~~--~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
|...+.+.|++|++.+||-..+..... --.++..|-+++||+++-..+-..+-.++
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 24578899999999997444555665665
No 220
>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=38.30 E-value=1.1e+02 Score=25.62 Aligned_cols=49 Identities=6% Similarity=0.095 Sum_probs=32.9
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHH---HHhhhCC
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVD---LGTACGK 87 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~e---LG~a~Gk 87 (112)
.++.|.+..+.+||.+.++++.. .+++.+++|..+. ..++.+ |..++|-
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 34555556678999999998854 3455678898886 555554 4555553
No 221
>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=38.13 E-value=1.1e+02 Score=19.91 Aligned_cols=44 Identities=7% Similarity=-0.102 Sum_probs=25.6
Q ss_pred eEEEEeCCC-CchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 44 KLILLSNNC-PPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 44 ~lVilA~D~-s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
-++|+.|.. .....-+.-+.|++.++|++.+.. ..+|...+-..
T Consensus 45 dl~I~iS~SG~t~e~i~~~~~a~~~g~~iI~IT~-~~~l~~~~~~~ 89 (119)
T cd05017 45 TLVIAVSYSGNTEETLSAVEQAKERGAKIVAITS-GGKLLEMAREH 89 (119)
T ss_pred CEEEEEECCCCCHHHHHHHHHHHHCCCEEEEEeC-CchHHHHHHHc
Confidence 344444433 333344455577888999886443 34688877654
No 222
>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=38.10 E-value=71 Score=23.95 Aligned_cols=23 Identities=17% Similarity=0.039 Sum_probs=17.2
Q ss_pred CCchhhhhHHHHHHhCCCcEEEec
Q 033750 52 CPPLRKSEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 52 ~s~~~~~~i~~~c~~~~Ip~i~~~ 75 (112)
.|+....++....++++|+++ |.
T Consensus 201 ps~~~l~~l~~~ik~~~v~~i-f~ 223 (266)
T cd01018 201 PSPADLKRLIDLAKEKGVRVV-FV 223 (266)
T ss_pred CCHHHHHHHHHHHHHcCCCEE-EE
Confidence 344566778888889999998 44
No 223
>TIGR03697 NtcA_cyano global nitrogen regulator NtcA, cyanobacterial. Members of this protein family, found in the cyanobacteria, are the global nitrogen regulator NtcA. This DNA-binding transcriptional regulator is required for expressing many different ammonia-repressible genes. The consensus NtcA-binding site is G T A N(8)T A C.
Probab=38.08 E-value=39 Score=23.29 Aligned_cols=41 Identities=10% Similarity=-0.130 Sum_probs=28.8
Q ss_pred CCCCchhhhhHHHHHHhCCCc-----EEEecCCHHHHHhhhCCccc
Q 033750 50 NNCPPLRKSEIEYYAMLAKVG-----VHHYNGNNVDLGTACGKYFR 90 (112)
Q Consensus 50 ~D~s~~~~~~i~~~c~~~~Ip-----~i~~~~sk~eLG~a~Gk~~~ 90 (112)
.|+.++...-+..+|+.++.| .+.++.|.+||+..+|..+.
T Consensus 113 ~~~~~Rla~~L~~l~~~~~~~~~~~~~~~~~~t~~~iA~~lG~tre 158 (193)
T TIGR03697 113 RDMGSRLVSFLLILCRDFGVPGQRGVTIDLRLSHQAIAEAIGSTRV 158 (193)
T ss_pred CCHHHHHHHHHHHHHHHhCCCCCCeEEecCCCCHHHHHHHhCCcHH
Confidence 355566667777778876544 23357899999999997654
No 224
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=37.92 E-value=1.2e+02 Score=23.36 Aligned_cols=37 Identities=14% Similarity=0.122 Sum_probs=25.5
Q ss_pred HHHHHHHhcCC--ceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSK--GKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gk--a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++++++.|. +.++++-+|-+. +..+|++++||++.
T Consensus 99 ~~l~~~~~~g~l~~~i~~visn~~~-----~~~~A~~~gIp~~~ 137 (280)
T TIGR00655 99 GDLLWRWYSGELDAEIALVISNHED-----LRSLVERFGIPFHY 137 (280)
T ss_pred HHHHHHHHcCCCCcEEEEEEEcChh-----HHHHHHHhCCCEEE
Confidence 44555556665 677777777654 34469999999984
No 225
>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=37.89 E-value=98 Score=21.91 Aligned_cols=39 Identities=8% Similarity=-0.047 Sum_probs=24.3
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+..+.+...++.-+|+....+. .. .+...+.+.+||++.
T Consensus 46 ~~~~~l~~~~vdgiii~~~~~~-~~-~~~~~~~~~~ipvV~ 84 (266)
T cd06282 46 DAVETLLRQRVDGLILTVADAA-TS-PALDLLDAERVPYVL 84 (266)
T ss_pred HHHHHHHhcCCCEEEEecCCCC-ch-HHHHHHhhCCCCEEE
Confidence 4555666678888887643222 12 244566778999874
No 226
>PRK09427 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional
Probab=37.72 E-value=94 Score=25.82 Aligned_cols=74 Identities=8% Similarity=0.024 Sum_probs=58.4
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCC-cEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 25 GKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKV-GVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~I-p~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
.-++.-.-|+.++-.-|--.++++++=.++.....+..+|...+. |+++ +.|.+||-+++--... ++||.+.++
T Consensus 116 KDFiid~~QI~ea~~~GADavLLI~~~L~~~~l~~l~~~a~~lGl~~lvE-vh~~~El~~al~~~a~--iiGiNnRdL 190 (454)
T PRK09427 116 KDFIIDPYQIYLARYYGADAILLMLSVLDDEQYRQLAAVAHSLNMGVLTE-VSNEEELERAIALGAK--VIGINNRNL 190 (454)
T ss_pred ccccCCHHHHHHHHHcCCCchhHHHHhCCHHHHHHHHHHHHHcCCcEEEE-ECCHHHHHHHHhCCCC--EEEEeCCCC
Confidence 446667778888888887777777777787788889999999986 5665 8999999999976544 599988764
No 227
>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=37.68 E-value=99 Score=21.58 Aligned_cols=38 Identities=16% Similarity=-0.085 Sum_probs=23.0
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+..+.+..+++..+|+....+.... ...+...+||++.
T Consensus 46 ~~~~~~~~~~~d~iii~~~~~~~~~---~~~~~~~~ipvv~ 83 (264)
T cd06267 46 EALELLLSRRVDGIILAPSRLDDEL---LEELAALGIPVVL 83 (264)
T ss_pred HHHHHHHHcCcCEEEEecCCcchHH---HHHHHHcCCCEEE
Confidence 4555555667777666555444333 3345678899885
No 228
>smart00685 DM14 Repeats in fly CG4713, worm Y37H9A.3 and human FLJ20241.
Probab=37.59 E-value=22 Score=21.33 Aligned_cols=26 Identities=4% Similarity=0.124 Sum_probs=21.6
Q ss_pred HHHHHHhCCceecHHHHHHHHhcCCc
Q 033750 18 LALVMKSGKYTLGYKTVLRSLRSSKG 43 (112)
Q Consensus 18 Lgla~kagklv~G~~~v~kai~~gka 43 (112)
+..|++-++++.|++..+++.+.|+-
T Consensus 24 ~~kAr~~~R~~K~~~~~I~~~~aG~p 49 (59)
T smart00685 24 EEKARRHLRIAKQFDDAIKAARAGRP 49 (59)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHCCCC
Confidence 45677778899999999999999873
No 229
>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=37.25 E-value=1.6e+02 Score=21.28 Aligned_cols=59 Identities=7% Similarity=0.029 Sum_probs=38.7
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC---CHHH-HHhhhCCcccEEEEEEeCcCc
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG---NNVD-LGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~---sk~e-LG~a~Gk~~~~~vvaI~d~g~ 101 (112)
.+..|+-....++..+..++..|++.++..+ ++. +.++ |-..+-..+.+-++++...|+
T Consensus 88 g~~~vv~G~i~sd~~~~~~e~~~~~~gl~~~-~PLW~~~~~~ll~e~~~~g~~~~iv~v~~~~L 150 (194)
T cd01994 88 GVDAVVFGAILSEYQRTRVERVCERLGLEPL-APLWGRDQEELLREMIEAGFKAIIIKVAAEGL 150 (194)
T ss_pred CCCEEEECccccHHHHHHHHHHHHHcCCEEE-ecccCCCHHHHHHHHHHcCCeEEEEEeccCCC
Confidence 3667777777788899999999999997555 232 4444 455554444444566665554
No 230
>cd06378 PBP1_iGluR_NMDA_NR2 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR2 subunit of NMDA receptor family. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer composed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. Among NMDA receptor subtypes, the NR2B subunit containing receptors appear particularly important for pain perception; thus NR2B-selective antagonists may be useful in
Probab=36.99 E-value=59 Score=25.63 Aligned_cols=43 Identities=5% Similarity=0.077 Sum_probs=29.8
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhh-hHHHHHHhCCCcEEEe
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKS-EIEYYAMLAKVGVHHY 74 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~-~i~~~c~~~~Ip~i~~ 74 (112)
+++.+-+.++++..+|+.-+.++.... -+...|.+++||++.+
T Consensus 52 ~~vC~ll~~~~V~aiIfgp~~~~~~~a~~~s~~~~~~~vP~is~ 95 (362)
T cd06378 52 TQLCDLLSTTKVHGVVFEDDTDQEAVAQILDFISAQTFLPILGI 95 (362)
T ss_pred HHHHHHhcccceEEEEecCCCCccccchhhhhhhhceeccEEEe
Confidence 456677778888877777777664443 3555666699999974
No 231
>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=36.96 E-value=1.1e+02 Score=22.01 Aligned_cols=40 Identities=15% Similarity=0.024 Sum_probs=21.7
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+...++-.+|+... +++....+...+...+||++.
T Consensus 46 ~~i~~~~~~~~Dgiii~~~-~~~~~~~~i~~~~~~~iPvV~ 85 (282)
T cd06318 46 ADVEDLLTRGVNVLIINPV-DPEGLVPAVAAAKAAGVPVVV 85 (282)
T ss_pred HHHHHHHHcCCCEEEEecC-CccchHHHHHHHHHCCCCEEE
Confidence 3455566667766666542 222222233444567888884
No 232
>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=36.92 E-value=73 Score=24.16 Aligned_cols=22 Identities=9% Similarity=-0.073 Sum_probs=16.5
Q ss_pred CCchhhhhHHHHHHhCCCcEEE
Q 033750 52 CPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 52 ~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.|+....++....++++|+++.
T Consensus 194 ps~~~l~~l~~~ik~~~v~~if 215 (276)
T cd01016 194 AGLRDINELVDLIVERKIKAIF 215 (276)
T ss_pred CCHHHHHHHHHHHHHcCCCEEE
Confidence 3445667788888889999883
No 233
>PRK13190 putative peroxiredoxin; Provisional
Probab=36.89 E-value=1.6e+02 Score=21.20 Aligned_cols=55 Identities=9% Similarity=-0.034 Sum_probs=34.4
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCC----CcEEEecCCHHHHHhhhCC
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAK----VGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~----Ip~i~~~~sk~eLG~a~Gk 87 (112)
..+..+.+++..+.+|-++.|.......-+....+..+ .|++ .+...++.+++|.
T Consensus 50 l~~~~~~f~~~~~~vi~vS~D~~~~~~~w~~~~~~~~g~~~~fPll--~D~~~~ia~~ygv 108 (202)
T PRK13190 50 FSRRYEDFKKLGVELVGLSVDSIYSHIAWLRDIEERFGIKIPFPVI--ADIDKELAREYNL 108 (202)
T ss_pred HHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHhHHHhcCCCceEEEE--ECCChHHHHHcCC
Confidence 34555666666788888888866544433443333333 4665 3556789999986
No 234
>PLN02721 threonine aldolase
Probab=36.81 E-value=92 Score=23.50 Aligned_cols=43 Identities=16% Similarity=0.189 Sum_probs=29.4
Q ss_pred HHHHHHHHhc------CCceEEEEeCCC--------CchhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRS------SKGKLILLSNNC--------PPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~------gka~lVilA~D~--------s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+.+.+.+.+ .+.++|++.+-. +++..+.|..+|++++++++.
T Consensus 120 ~~~l~~~i~~~~~~~~~~~~~v~l~~~~~np~G~~~~~~~l~~l~~l~~~~g~~liv 176 (353)
T PLN02721 120 LDAIEAAIRPKGDDHFPTTRLICLENTHANCGGRCLSVEYTDKVGELAKRHGLKLHI 176 (353)
T ss_pred HHHHHHHHHhccCCCCCcceEEEEeccccccCCccccHHHHHHHHHHHHHcCCEEEE
Confidence 4566667753 367888885421 122357888999999999984
No 235
>TIGR03499 FlhF flagellar biosynthetic protein FlhF.
Probab=36.78 E-value=1.5e+02 Score=22.61 Aligned_cols=46 Identities=17% Similarity=0.212 Sum_probs=33.8
Q ss_pred CCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC
Q 033750 41 SKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 41 gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk 87 (112)
|.-++.++..|.-. .....+..+++..++|+.. ..+..+|..++..
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 45677888888633 2456777788888999984 7788888887764
No 236
>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=36.66 E-value=84 Score=24.45 Aligned_cols=44 Identities=16% Similarity=0.078 Sum_probs=31.9
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHHhCCCcEEE
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~~~~Ip~i~ 73 (112)
-.+++.+++...+.++|++.....+ ...+.|..+|++++++++.
T Consensus 149 d~~~l~~~i~~~~~~~v~~~~~~~~~~~~~~~I~~l~~~~~~~li~ 194 (402)
T cd00378 149 DYDALEKMALEFKPKLIVAGASAYPRPIDFKRFREIADEVGAYLLV 194 (402)
T ss_pred CHHHHHHHHHhCCCCEEEecCcccCCCcCHHHHHHHHHhcCCEEEE
Confidence 4567777787667888887554433 2457788899999999984
No 237
>COG0533 QRI7 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=36.57 E-value=73 Score=25.68 Aligned_cols=44 Identities=11% Similarity=0.089 Sum_probs=35.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCCch--hhhhHHHHHHhCCCcEEEecC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPL--RKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~--~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
+.+.++++.-..+-++++.=.+.| .++.+..+|..+++.++ |++
T Consensus 251 ~kt~rAl~~~~~~~lvi~GGVaaN~~LR~~l~~~~~~~g~~~~-~p~ 296 (342)
T COG0533 251 EKTERALKHTGKKELVIAGGVAANSRLREMLEEMCKERGAEVY-IPP 296 (342)
T ss_pred HHHHHHHHHhCCCEEEEeccHHHhHHHHHHHHHHHHhcCCEEE-cCC
Confidence 457788888888899999999886 56889999998888776 443
No 238
>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=36.41 E-value=1.1e+02 Score=22.82 Aligned_cols=39 Identities=10% Similarity=0.082 Sum_probs=22.4
Q ss_pred HHHHHHhcCCceEEEEe-CCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLS-NNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA-~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+...++.-+|+. .| +.........+...+||++.
T Consensus 48 ~~i~~l~~~~vdgiii~~~~--~~~~~~~~~~~~~~giPvV~ 87 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLVD--PTAAQTVINKAKQKNIPVIF 87 (303)
T ss_pred HHHHHHHHcCCCEEEEecCc--hhhHHHHHHHHHHCCCCEEE
Confidence 45655555566655554 44 22223344455678999985
No 239
>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=36.38 E-value=93 Score=18.35 Aligned_cols=35 Identities=14% Similarity=0.015 Sum_probs=15.4
Q ss_pred HhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 38 LRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 38 i~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
+++..+.+-++--|.++...+.+........+|.+
T Consensus 19 L~~~~i~~~~~di~~~~~~~~~~~~~~g~~~vP~i 53 (79)
T TIGR02181 19 LSSKGVTFTEIRVDGDPALRDEMMQRSGRRTVPQI 53 (79)
T ss_pred HHHcCCCcEEEEecCCHHHHHHHHHHhCCCCcCEE
Confidence 33333444444333334444444444444456665
No 240
>cd06383 PBP1_iGluR_AMPA_Like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of uncharacterized AMPA-like receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excitatory synaptic current.
Probab=36.33 E-value=1e+02 Score=24.33 Aligned_cols=40 Identities=15% Similarity=0.006 Sum_probs=28.8
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEe
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~ 74 (112)
++.-+.+|.+...|+....+. ....+..+|...+||.+.+
T Consensus 58 ~C~~~~~gv~~~AIiGp~ss~-~a~~V~si~~~~~IP~Is~ 97 (368)
T cd06383 58 VCDKADSAIVPHLVLDTTTCG-DASEIKSVTGALGIPTFSA 97 (368)
T ss_pred HHHHHHccCCcEEEECCCcch-hHHHHHHHHhccCCCEEEc
Confidence 455667787666677776554 4445899999999999863
No 241
>COG0800 Eda 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]
Probab=36.29 E-value=99 Score=23.22 Aligned_cols=49 Identities=10% Similarity=0.045 Sum_probs=35.9
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
.+++.+++..| +.++| ||+.-.++...|..+++|++-=..|-.|+=.|+
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 46677777777 55554 788888899999999999983233777766655
No 242
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=36.05 E-value=1.3e+02 Score=22.22 Aligned_cols=59 Identities=12% Similarity=0.052 Sum_probs=42.5
Q ss_pred hCCceec------HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 24 SGKYTLG------YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 24 agklv~G------~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
-+.+..| .+++.+++..| +.+++ ||.....+..+|+++++|++-=..|-.|+=.+..-.
T Consensus 53 ~~~~~vGAGTVl~~e~a~~ai~aG-A~Fiv-----SP~~~~~vi~~a~~~~i~~iPG~~TptEi~~A~~~G 117 (201)
T PRK06015 53 VEEAIVGAGTILNAKQFEDAAKAG-SRFIV-----SPGTTQELLAAANDSDVPLLPGAATPSEVMALREEG 117 (201)
T ss_pred CCCCEEeeEeCcCHHHHHHHHHcC-CCEEE-----CCCCCHHHHHHHHHcCCCEeCCCCCHHHHHHHHHCC
Confidence 3557666 46777777777 55554 667777889999999999983234888888777543
No 243
>PF13519 VWA_2: von Willebrand factor type A domain; PDB: 3IBS_B 3RAG_B 2X5N_A.
Probab=35.98 E-value=89 Score=20.53 Aligned_cols=48 Identities=13% Similarity=0.048 Sum_probs=27.6
Q ss_pred CceecHHHHHHHHhcC--CceEEEEeCCCCchh-hhhHHHHHHhCCCcEEE
Q 033750 26 KYTLGYKTVLRSLRSS--KGKLILLSNNCPPLR-KSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 26 klv~G~~~v~kai~~g--ka~lVilA~D~s~~~-~~~i~~~c~~~~Ip~i~ 73 (112)
.+..|.....+.+... ..+.+|+=+|..++. ....-..+...+|+++.
T Consensus 81 ~~~~al~~a~~~~~~~~~~~~~iv~iTDG~~~~~~~~~~~~~~~~~i~i~~ 131 (172)
T PF13519_consen 81 NLYDALQEAAKMLASSDNRRRAIVLITDGEDNSSDIEAAKALKQQGITIYT 131 (172)
T ss_dssp -HHHHHHHHHHHHHC-SSEEEEEEEEES-TTHCHHHHHHHHHHCTTEEEEE
T ss_pred cHHHHHHHHHHHHHhCCCCceEEEEecCCCCCcchhHHHHHHHHcCCeEEE
Confidence 3556667777777654 366777778877642 12233345577888765
No 244
>PRK08762 molybdopterin biosynthesis protein MoeB; Validated
Probab=35.97 E-value=42 Score=26.70 Aligned_cols=34 Identities=6% Similarity=0.021 Sum_probs=27.2
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
..-+||-+.|..+ .+..+.++|..++||++ +...
T Consensus 225 ~~D~Vv~~~d~~~-~r~~ln~~~~~~~ip~i-~~~~ 258 (376)
T PRK08762 225 DVDVVVDGADNFP-TRYLLNDACVKLGKPLV-YGAV 258 (376)
T ss_pred CCCEEEECCCCHH-HHHHHHHHHHHcCCCEE-EEEe
Confidence 4788998988754 67779999999999999 4543
No 245
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=35.68 E-value=1.2e+02 Score=19.61 Aligned_cols=45 Identities=16% Similarity=0.107 Sum_probs=30.5
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCC----chhhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCP----PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s----~~~~~~i~~~c~~~~Ip~i~ 73 (112)
-|+++.++.++.++...|++.+-.- +.....+...|..++|+++.
T Consensus 52 ~~~~~ll~~~~~~~~d~ivv~~~~Rl~R~~~~~~~~~~~l~~~gi~l~~ 100 (137)
T cd00338 52 PGLQRLLADVKAGKIDVVLVEKLDRLSRNLVDLLELLELLEAHGVRVVT 100 (137)
T ss_pred HHHHHHHHHHHcCCCCEEEEEecchhhCCHHHHHHHHHHHHHCCCEEEE
Confidence 3788889999988877666554321 12234556678888999984
No 246
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=35.40 E-value=1.1e+02 Score=19.86 Aligned_cols=60 Identities=18% Similarity=0.261 Sum_probs=42.1
Q ss_pred hHHHHHHHHHHHHHhCCceec-------------------HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCc
Q 033750 10 THESINNRLALVMKSGKYTLG-------------------YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVG 70 (112)
Q Consensus 10 ~~~~i~~~Lgla~kagklv~G-------------------~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip 70 (112)
..+.+-.+.+|+..+|--+.| .+++...++...+.+||+=.+.||...+.+.... +++
T Consensus 6 ~~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~Lsp~Q~rNLe~~~---~~~ 82 (95)
T PF13167_consen 6 FEESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNELSPSQQRNLEKAL---GVK 82 (95)
T ss_pred HHHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCCCCHHHHHHHHHHH---CCe
Confidence 345666677777776654443 2455566677789999999999998888887654 677
Q ss_pred EE
Q 033750 71 VH 72 (112)
Q Consensus 71 ~i 72 (112)
++
T Consensus 83 V~ 84 (95)
T PF13167_consen 83 VI 84 (95)
T ss_pred ee
Confidence 76
No 247
>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=35.31 E-value=77 Score=21.25 Aligned_cols=44 Identities=16% Similarity=0.014 Sum_probs=27.7
Q ss_pred CCceEEEEeCCCCchh---hhhHHHHHHhCCCcEEEecC---CHHHHHhhh
Q 033750 41 SKGKLILLSNNCPPLR---KSEIEYYAMLAKVGVHHYNG---NNVDLGTAC 85 (112)
Q Consensus 41 gka~lVilA~D~s~~~---~~~i~~~c~~~~Ip~i~~~~---sk~eLG~a~ 85 (112)
.++.-||+|.|++... -..+.+++.. +.|+...++ |.+++=+++
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 4578899999998754 3556666654 566654333 555555544
No 248
>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=35.25 E-value=55 Score=29.83 Aligned_cols=44 Identities=14% Similarity=0.095 Sum_probs=33.8
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCchh---hhhHHHHHHhCCCcEEE
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPPLR---KSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~~~---~~~i~~~c~~~~Ip~i~ 73 (112)
|...+.+.|++|++.+||-..+-+.+. --.++..|-+++||+++
T Consensus 992 ~~~~~~~~i~~~~i~lvin~~~~~~~~~~~g~~iRr~Ai~~~ip~~t 1038 (1050)
T TIGR01369 992 GRPNILDLIKNGEIELVINTTSKGAGTATDGYKIRREALDYGVPLIT 1038 (1050)
T ss_pred CCccHHHHHHcCCeEEEEECCCCCcccccccHHHHHHHHHcCCCEEe
Confidence 446688999999999999875533322 24688899999999996
No 249
>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=35.18 E-value=64 Score=25.16 Aligned_cols=45 Identities=7% Similarity=0.084 Sum_probs=25.2
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.-.+.+.+.|..+...+++.---..+.-...+..+|++++|++|+
T Consensus 101 id~~~~~~~i~~~t~ai~~~h~~G~~~d~~~i~~~~~~~~i~lIe 145 (363)
T PF01041_consen 101 IDPEALEKAITPKTKAILVVHLFGNPADMDAIRAIARKHGIPLIE 145 (363)
T ss_dssp B-HHHHHHHHHTTEEEEEEE-GGGB---HHHHHHHHHHTT-EEEE
T ss_pred cCHHHHHHHhccCccEEEEecCCCCcccHHHHHHHHHHcCCcEEE
Confidence 334566677765542333323333344567789999999999996
No 250
>TIGR02720 pyruv_oxi_spxB pyruvate oxidase. Members of this family are examples of pyruvate oxidase (EC 1.2.3.3), an enzyme with FAD and TPP as cofactors that catalyzes the reaction pyruvate + phosphate + O2 + H2O = acetyl phosphate + CO2 + H2O2. It should not be confused with pyruvate dehydrogenase [cytochrome] (EC 1.2.2.2) as in E. coli PoxB, although the E. coli enzyme is closely homologous and has pyruvate oxidase as an alternate name.
Probab=34.95 E-value=88 Score=26.27 Aligned_cols=44 Identities=11% Similarity=0.140 Sum_probs=32.1
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEec
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~ 75 (112)
.+++.+.|.+.+--++++..-+. +..+.+..+|+..++|+++.+
T Consensus 190 v~~~~~~L~~AkrPvil~G~g~~-~a~~~l~~lae~l~~PV~tt~ 233 (575)
T TIGR02720 190 VTRAVQTLKAAERPVIYYGIGAR-KAGEELEALSEKLKIPLISTG 233 (575)
T ss_pred HHHHHHHHHcCCCcEEEECcchh-hHHHHHHHHHHHhCCCEEEcc
Confidence 44566677777766666666554 566889999999999999633
No 251
>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=34.93 E-value=99 Score=18.22 Aligned_cols=60 Identities=3% Similarity=-0.043 Sum_probs=36.9
Q ss_pred EEEeCCCCchhhhhHHHHHHhC-CCcEEEecCCHHHHHh-hhCCcccEEEEEEeCcCchHHH
Q 033750 46 ILLSNNCPPLRKSEIEYYAMLA-KVGVHHYNGNNVDLGT-ACGKYFRVSCLSIIDPGDSDII 105 (112)
Q Consensus 46 VilA~D~s~~~~~~i~~~c~~~-~Ip~i~~~~sk~eLG~-a~Gk~~~~~vvaI~d~g~a~~i 105 (112)
+|++...|...-..+.++..+. ++|+..........+. +...+..-.+++|...|..+.+
T Consensus 2 ~i~g~G~s~~~a~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i~iS~sg~t~~~ 63 (87)
T cd04795 2 FVIGIGGSGAIAAYFALELLELTGIEVVALIATELEHASLLSLLRKGDVVIALSYSGRTEEL 63 (87)
T ss_pred EEEEcCHHHHHHHHHHHHHhcccCCceEEeCCcHHHHHHHHhcCCCCCEEEEEECCCCCHHH
Confidence 5677777777777888887777 8888743333334443 2222222336888877765544
No 252
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=34.93 E-value=42 Score=29.80 Aligned_cols=34 Identities=12% Similarity=0.217 Sum_probs=23.8
Q ss_pred ceEEEEeCCCC---------------ch-h--hhhHHHHHHhCCCcEEEecC
Q 033750 43 GKLILLSNNCP---------------PL-R--KSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 43 a~lVilA~D~s---------------~~-~--~~~i~~~c~~~~Ip~i~~~~ 76 (112)
-.++|+|.|.. |. . ...+..+|..+++|+++|++
T Consensus 199 rpV~VIAndkg~~tke~~~rnfG~~~peGyRKAlRlmkLAekfgLPIVtLVD 250 (762)
T PLN03229 199 KRYMFIGHQKGRNTKENIMRNFGMPTPHGYRKALRMMYYADHHGFPIVTFID 250 (762)
T ss_pred EEEEEEEecCCccccccccccCCCCCHHHHHHHHHHHHHHHHcCCCEEEEEE
Confidence 36788999963 22 1 24456799999999997533
No 253
>smart00857 Resolvase Resolvase, N terminal domain. The N-terminal domain of the resolvase family contains the active site and the dimer interface. The extended arm at the C-terminus of this domain connects to the C-terminal helix-turn-helix domain of resolvase.
Probab=34.84 E-value=1.3e+02 Score=19.87 Aligned_cols=44 Identities=11% Similarity=0.062 Sum_probs=28.4
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCc---h--hhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPP---L--RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~---~--~~~~i~~~c~~~~Ip~i~ 73 (112)
-++++.++.+++|++..|++. +.+. + ....+...|..++|+++.
T Consensus 52 p~l~~ll~~~~~g~~~~ivv~-~~~Rl~R~~~~~~~~~~~l~~~gi~l~~ 100 (148)
T smart00857 52 PGLQRLLADLRAGDIDVLVVY-KLDRLGRSLRDLLALLELLEKKGVRLVS 100 (148)
T ss_pred HHHHHHHHHHHcCCCCEEEEe-ccchhhCcHHHHHHHHHHHHHCCCEEEE
Confidence 457788888888987555443 3332 1 223455677888999884
No 254
>PRK07377 hypothetical protein; Provisional
Probab=34.83 E-value=1.4e+02 Score=21.99 Aligned_cols=57 Identities=9% Similarity=-0.090 Sum_probs=37.6
Q ss_pred CCceEEEEeC-----CCCchhhhhHHHHHHhCC--CcEEEecCCHHHHHhhhCCcccEEEEEEeCc
Q 033750 41 SKGKLILLSN-----NCPPLRKSEIEYYAMLAK--VGVHHYNGNNVDLGTACGKYFRVSCLSIIDP 99 (112)
Q Consensus 41 gka~lVilA~-----D~s~~~~~~i~~~c~~~~--Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~ 99 (112)
...++-|+.. |........++++++.++ +.++. ..+.++|.+++--. .+++++.-|.
T Consensus 75 ~~~Rlgv~~~~~~~~~~~~~l~~~l~~~~~~y~~rlElv~-y~~~~~l~~aL~~~-eVh~~c~~~~ 138 (184)
T PRK07377 75 LVMRLGVLEIETETSSVFDQLIDQLRTILDKYHLRLELVV-YPDLQALEQALRDK-EVHAICLESG 138 (184)
T ss_pred cEEEEEEEeccccccccHHHHHHHHHHHHHHhCceeeEEe-cCCHHHHHHHHhcC-CccEEecCCC
Confidence 3456666652 323345677888999887 77885 68999999999654 3444444443
No 255
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=34.81 E-value=42 Score=27.08 Aligned_cols=52 Identities=13% Similarity=0.111 Sum_probs=31.7
Q ss_pred EEEeCCCC----chhhhhHHHHHHhCCCcEEEecCC--HHHHHhh--hCCcccEEEEEEe
Q 033750 46 ILLSNNCP----PLRKSEIEYYAMLAKVGVHHYNGN--NVDLGTA--CGKYFRVSCLSII 97 (112)
Q Consensus 46 VilA~D~s----~~~~~~i~~~c~~~~Ip~i~~~~s--k~eLG~a--~Gk~~~~~vvaI~ 97 (112)
+|...|.+ +..++.|...|+++||||-.+... --+=|.+ -|-..++++++|.
T Consensus 257 ~i~~~D~~~~~~~~l~~~L~~~A~~~~Ip~Q~~v~~~ggTDA~a~~~~g~gvpta~Igip 316 (355)
T COG1363 257 VIRVKDASGIYHPKLRKFLLELAEKNNIPYQVDVSPGGGTDAGAAHLTGGGVPTALIGIP 316 (355)
T ss_pred EEEEEcCCCCCCHHHHHHHHHHHHHcCCCeEEEecCCCCccHHHHHHcCCCCceEEEecc
Confidence 45566663 668899999999999999743222 1222222 2333455567764
No 256
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=34.73 E-value=1.4e+02 Score=20.44 Aligned_cols=52 Identities=19% Similarity=0.222 Sum_probs=34.0
Q ss_pred cHHHHHHHHhcCCc-eEEEEeCCCCchhhhhHHHHHHhCCC----cEEEecCCHHHHHhhhCC
Q 033750 30 GYKTVLRSLRSSKG-KLILLSNNCPPLRKSEIEYYAMLAKV----GVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 30 G~~~v~kai~~gka-~lVilA~D~s~~~~~~i~~~c~~~~I----p~i~~~~sk~eLG~a~Gk 87 (112)
++.+....+++..+ .++.++.|.... ...+|+.+++ |++ .+...++++++|.
T Consensus 52 ~~~~~~~~f~~~g~~~V~~iS~D~~~~----~~~~~~~~~~~~~f~lL--sD~~~~~~~~ygv 108 (155)
T cd03013 52 GYVENADELKAKGVDEVICVSVNDPFV----MKAWGKALGAKDKIRFL--ADGNGEFTKALGL 108 (155)
T ss_pred HHHHhHHHHHHCCCCEEEEEECCCHHH----HHHHHHhhCCCCcEEEE--ECCCHHHHHHcCC
Confidence 34455667766666 488888887663 3345555554 555 4566899999985
No 257
>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=34.72 E-value=1.2e+02 Score=21.74 Aligned_cols=40 Identities=18% Similarity=0.130 Sum_probs=22.8
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+...++.-+|+..- +.+........+.+.+||++.
T Consensus 51 ~~~~~~~~~~vdgiIi~~~-~~~~~~~~l~~~~~~~iPvv~ 90 (272)
T cd06300 51 ADIRNLIAQGVDAIIINPA-SPTALNPVIEEACEAGIPVVS 90 (272)
T ss_pred HHHHHHHHcCCCEEEEeCC-ChhhhHHHHHHHHHCCCeEEE
Confidence 4444555567777777542 222222333455678999985
No 258
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=34.56 E-value=1.2e+02 Score=25.01 Aligned_cols=49 Identities=6% Similarity=-0.002 Sum_probs=39.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHH
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDL 81 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eL 81 (112)
++..+.+++.++.-|++|-+..+ ...+++.+.|+..++++.. .++-.++
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 4567888899999999884 6666544
No 259
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=34.50 E-value=78 Score=25.09 Aligned_cols=20 Identities=15% Similarity=0.127 Sum_probs=14.6
Q ss_pred cEEEecCCHHHHHhhhCCccc
Q 033750 70 GVHHYNGNNVDLGTACGKYFR 90 (112)
Q Consensus 70 p~i~~~~sk~eLG~a~Gk~~~ 90 (112)
|+. .-++.+||..++|.+..
T Consensus 179 P~l-IKPN~~EL~~~~g~~~~ 198 (310)
T COG1105 179 PWL-IKPNREELEALFGRELT 198 (310)
T ss_pred CcE-EecCHHHHHHHhCCCCC
Confidence 666 36788888888887654
No 260
>PLN02828 formyltetrahydrofolate deformylase
Probab=34.36 E-value=1e+02 Score=23.82 Aligned_cols=46 Identities=7% Similarity=0.005 Sum_probs=29.1
Q ss_pred eecHHHHHH----HHhcCC--ceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 28 TLGYKTVLR----SLRSSK--GKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 28 v~G~~~v~k----ai~~gk--a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
++|....+. +++.|. +.++.+-+|-++.....+..+|++++||+..
T Consensus 77 vSg~g~nl~~ll~~~~~g~l~~eI~~ViSn~~~~~~a~~~~~A~~~gIP~~~ 128 (268)
T PLN02828 77 ASKQDHCLIDLLHRWQDGRLPVDITCVISNHERGPNTHVMRFLERHGIPYHY 128 (268)
T ss_pred EcCCChhHHHHHHhhhcCCCCceEEEEEeCCCCCCCchHHHHHHHcCCCEEE
Confidence 456544444 445664 5666666665432334677789999999983
No 261
>KOG3009 consensus Predicted carbohydrate kinase, contains PfkB domain [General function prediction only]
Probab=34.33 E-value=1.1e+02 Score=26.21 Aligned_cols=63 Identities=19% Similarity=0.240 Sum_probs=44.8
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC-CHHHHHhhhCCcccEEEEEEeCcCchHHHhc
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG-NNVDLGTACGKYFRVSCLSIIDPGDSDIIKS 107 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~-sk~eLG~a~Gk~~~~~vvaI~d~g~a~~i~~ 107 (112)
.+.++++-+++|+.....+.. ++.+.+|++ |.+ +...-++.+-.- .+..+-...|+..+.|+.
T Consensus 425 ~a~~I~~DsNiS~~~Ma~il~-ak~~k~~V~-fEPTd~~k~~K~fk~l-~v~~i~~i~PN~~Ell~a 488 (614)
T KOG3009|consen 425 SADFILLDSNISVPVMARILE-AKKHKKQVW-FEPTDIDKVKKVFKTL-LVGAITAISPNANELLKA 488 (614)
T ss_pred cCCEEEEcCCCCHHHHHHHHH-hhhccCceE-ecCCCchhhhhhhhhc-ceeeEEeeCCCHHHHHHH
Confidence 589999999999999888888 888999999 655 555555555433 222344457776666543
No 262
>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=34.25 E-value=71 Score=23.52 Aligned_cols=48 Identities=19% Similarity=0.122 Sum_probs=26.7
Q ss_pred HHHHHHhc--CCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHH
Q 033750 33 TVLRSLRS--SKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDL 81 (112)
Q Consensus 33 ~v~kai~~--gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eL 81 (112)
.+..++.. ....++++..|..+ ..-..+..++...++|++. +.+|.++
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 34455542 23444555444333 3345556678888999884 6666554
No 263
>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=34.22 E-value=1.2e+02 Score=20.82 Aligned_cols=39 Identities=18% Similarity=0.065 Sum_probs=23.6
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+..+.+....+..||+........ . +...+...+||++.
T Consensus 49 ~~~~~~~~~~~d~ii~~~~~~~~~-~-~~~~~~~~~ip~v~ 87 (269)
T cd01391 49 EALRDLIQQGVDGIIGPPSSSSAL-A-VVELAAAAGIPVVS 87 (269)
T ss_pred HHHHHHHHcCCCEEEecCCCHHHH-H-HHHHHHHcCCcEEE
Confidence 344445555666666655443322 2 56677788999985
No 264
>PLN02645 phosphoglycolate phosphatase
Probab=34.22 E-value=90 Score=24.03 Aligned_cols=34 Identities=32% Similarity=0.390 Sum_probs=27.2
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEeCCCCchhh
Q 033750 24 SGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRK 57 (112)
Q Consensus 24 agklv~G~~~v~kai~~gka~lVilA~D~s~~~~ 57 (112)
.+.+.-|..+.++.+++...+++|++++.+....
T Consensus 42 ~~~~~~ga~e~l~~lr~~g~~~~~~TN~~~~~~~ 75 (311)
T PLN02645 42 GDKLIEGVPETLDMLRSMGKKLVFVTNNSTKSRA 75 (311)
T ss_pred CCccCcCHHHHHHHHHHCCCEEEEEeCCCCCCHH
Confidence 4567889999999999988888888888755433
No 265
>PF06971 Put_DNA-bind_N: Putative DNA-binding protein N-terminus; InterPro: IPR009718 This entry represents the C terminus (approximately 30 residues) of a number of Rex proteins. These are redox-sensing repressors that appear to be widespread among Gram-positive bacteria []. They modulate transcription in response to changes in cellular NADH/NAD(+) redox state. Rex is predicted to include a pyridine nucleotide-binding domain (Rossmann fold), and residues that might play key structural and nucleotide binding roles are highly conserved.; GO: 0045892 negative regulation of transcription, DNA-dependent, 0051775 response to redox state, 0005737 cytoplasm; PDB: 3IL2_B 3IKT_A 3IKV_B 1XCB_F 2DT5_A 2VT3_A 2VT2_A 3KEO_B 3KET_A 3KEQ_A ....
Probab=34.21 E-value=90 Score=17.93 Aligned_cols=34 Identities=18% Similarity=0.119 Sum_probs=19.4
Q ss_pred CCchhhhhHHHHH------HhCCCcEEEecCCHHHHHhhhCCcc
Q 033750 52 CPPLRKSEIEYYA------MLAKVGVHHYNGNNVDLGTACGKYF 89 (112)
Q Consensus 52 ~s~~~~~~i~~~c------~~~~Ip~i~~~~sk~eLG~a~Gk~~ 89 (112)
+++.+.+.+..|- ...++..+ +..|||..+|.+.
T Consensus 3 Ip~~ti~RL~~Y~r~L~~l~~~G~~~v----SS~~La~~~gi~~ 42 (50)
T PF06971_consen 3 IPKATIRRLPLYLRYLEQLKEEGVERV----SSQELAEALGITP 42 (50)
T ss_dssp -SHHHHHHHHHHHHHHHHHHHTT-SEE-----HHHHHHHHTS-H
T ss_pred CCHHHHHHHHHHHHHHHHHHHcCCeeE----CHHHHHHHHCCCH
Confidence 4445555444322 24577776 7899999999863
No 266
>PRK00011 glyA serine hydroxymethyltransferase; Reviewed
Probab=34.20 E-value=98 Score=24.35 Aligned_cols=43 Identities=16% Similarity=0.067 Sum_probs=30.0
Q ss_pred HHHHHHHHhcCCceEEEEe-CCCCc-hhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLS-NNCPP-LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA-~D~s~-~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+++.+.+...+.++|++. +..+- .-.+.|..+|++++++++.
T Consensus 154 ~~~l~~~i~~~~~k~v~~~~~~~~~~~~~~~I~~la~~~~~~liv 198 (416)
T PRK00011 154 YDEVEKLALEHKPKLIIAGASAYSRPIDFKRFREIADEVGAYLMV 198 (416)
T ss_pred HHHHHHHHHhcCCCEEEECCCcCCCccCHHHHHHHHHHcCCEEEE
Confidence 4567777766677888885 33331 2357788899999999884
No 267
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=34.15 E-value=1.5e+02 Score=22.20 Aligned_cols=58 Identities=21% Similarity=0.147 Sum_probs=41.8
Q ss_pred CCceec------HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 25 GKYTLG------YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 25 gklv~G------~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
+.+..| .+++..++..| +.+++ ||.....+..+|.+++||++-=..|-.|+-.|....
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 446666 46777777776 55554 666777889999999999983234888988887543
No 268
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=34.13 E-value=1.2e+02 Score=21.84 Aligned_cols=42 Identities=12% Similarity=0.044 Sum_probs=25.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
....+.+..+++.-+|+.+... +. ..+...+.+.+||++. .+
T Consensus 45 ~~~i~~l~~~~vdgii~~~~~~-~~-~~~~~~~~~~~ipvV~-i~ 86 (269)
T cd06281 45 LEILRSFEQRRMDGIIIAPGDE-RD-PELVDALASLDLPIVL-LD 86 (269)
T ss_pred HHHHHHHHHcCCCEEEEecCCC-Cc-HHHHHHHHhCCCCEEE-Ee
Confidence 3566667777777777654322 21 2344456677899884 44
No 269
>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=34.06 E-value=89 Score=17.46 Aligned_cols=39 Identities=8% Similarity=-0.103 Sum_probs=19.5
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
+.+.+++..+..-++==|.++..++.+..+.....+|.+
T Consensus 15 ~~~~L~~~~i~y~~~dv~~~~~~~~~l~~~~g~~~~P~v 53 (60)
T PF00462_consen 15 AKEFLDEKGIPYEEVDVDEDEEAREELKELSGVRTVPQV 53 (60)
T ss_dssp HHHHHHHTTBEEEEEEGGGSHHHHHHHHHHHSSSSSSEE
T ss_pred HHHHHHHcCCeeeEcccccchhHHHHHHHHcCCCccCEE
Confidence 344444444555444444444455555554444556666
No 270
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=33.94 E-value=1e+02 Score=23.87 Aligned_cols=38 Identities=21% Similarity=0.300 Sum_probs=27.2
Q ss_pred HHHHHHHHhcCC--ceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSK--GKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gk--a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
....+++++.|+ +.++++-+|-++ +..+|++++||++.
T Consensus 103 l~al~~~~~~~~~~~~i~~visn~~~-----~~~lA~~~gIp~~~ 142 (286)
T PRK13011 103 LNDLLYRWRIGELPMDIVGVVSNHPD-----LEPLAAWHGIPFHH 142 (286)
T ss_pred HHHHHHHHHcCCCCcEEEEEEECCcc-----HHHHHHHhCCCEEE
Confidence 355666666775 688887777543 55669999999984
No 271
>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=33.93 E-value=85 Score=23.59 Aligned_cols=31 Identities=16% Similarity=0.256 Sum_probs=25.3
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEeCCCCc
Q 033750 24 SGKYTLGYKTVLRSLRSSKGKLILLSNNCPP 54 (112)
Q Consensus 24 agklv~G~~~v~kai~~gka~lVilA~D~s~ 54 (112)
.++..-|..++++.++.....++|++++.+.
T Consensus 16 ~~~~~~ga~e~l~~L~~~g~~~~~~Tnns~~ 46 (279)
T TIGR01452 16 GERVVPGAPELLDRLARAGKAALFVTNNSTK 46 (279)
T ss_pred CCeeCcCHHHHHHHHHHCCCeEEEEeCCCCC
Confidence 4556778999999999888899999888654
No 272
>PRK06036 translation initiation factor IF-2B subunit alpha; Provisional
Probab=33.92 E-value=77 Score=25.36 Aligned_cols=40 Identities=5% Similarity=-0.155 Sum_probs=26.8
Q ss_pred HHHHHhcCCceEEEEeCCCCc-h-hh-----hhHHHHHHhCCCcEEE
Q 033750 34 VLRSLRSSKGKLILLSNNCPP-L-RK-----SEIEYYAMLAKVGVHH 73 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~-~-~~-----~~i~~~c~~~~Ip~i~ 73 (112)
+--.+++|++..||+..|.=- | +. -.+--+|+.++||++.
T Consensus 218 ~~~~M~~~~Vd~VivGAd~I~anGv~NKiGT~~lA~~Ak~~~vPfyV 264 (339)
T PRK06036 218 AGIVMRQGMVDKVIVGADRITRDAVFNKIGTYTHSVLAKEHEIPFYV 264 (339)
T ss_pred HHHHhccCCCCEEEECccchhhcCeehhhhHHHHHHHHHHhCCCEEE
Confidence 333456678999999888622 2 22 3345578899999984
No 273
>cd01482 vWA_collagen_alphaI-XII-like Collagen: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=33.89 E-value=1.5e+02 Score=20.07 Aligned_cols=87 Identities=11% Similarity=0.048 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHh-C--CceecHHHHHHHHh-------cCCceEEEEeCCCCch-hhhhHHHHHHhCCCcEEEec---CC
Q 033750 12 ESINNRLALVMKS-G--KYTLGYKTVLRSLR-------SSKGKLILLSNNCPPL-RKSEIEYYAMLAKVGVHHYN---GN 77 (112)
Q Consensus 12 ~~i~~~Lgla~ka-g--klv~G~~~v~kai~-------~gka~lVilA~D~s~~-~~~~i~~~c~~~~Ip~i~~~---~s 77 (112)
+.+++.|.-.+.. | ++-.|.+.+.+.+. .+..+++|+-+|..++ .........+..+|.++.+. .+
T Consensus 63 ~~l~~~l~~~~~~~g~T~~~~aL~~a~~~~~~~~~~~r~~~~k~iillTDG~~~~~~~~~a~~lk~~gi~i~~ig~g~~~ 142 (164)
T cd01482 63 EDVLAAIKNLPYKGGNTRTGKALTHVREKNFTPDAGARPGVPKVVILITDGKSQDDVELPARVLRNLGVNVFAVGVKDAD 142 (164)
T ss_pred HHHHHHHHhCcCCCCCChHHHHHHHHHHHhcccccCCCCCCCEEEEEEcCCCCCchHHHHHHHHHHCCCEEEEEecCcCC
Confidence 4555555533322 2 24444454554442 2345677777898764 23344455567888887632 24
Q ss_pred HHHHHhhhCCcccEEEEEEeC
Q 033750 78 NVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 78 k~eLG~a~Gk~~~~~vvaI~d 98 (112)
..+|....+.+...++.-+.|
T Consensus 143 ~~~L~~ia~~~~~~~~~~~~d 163 (164)
T cd01482 143 ESELKMIASKPSETHVFNVAD 163 (164)
T ss_pred HHHHHHHhCCCchheEEEcCC
Confidence 778999999887666555544
No 274
>PRK07524 hypothetical protein; Provisional
Probab=33.82 E-value=87 Score=25.88 Aligned_cols=43 Identities=14% Similarity=0.060 Sum_probs=30.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEec
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYN 75 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~ 75 (112)
+++.+.|.+-+--++++...+. +..+.+.++|+..++|+++.+
T Consensus 192 ~~~~~~L~~AkrPvil~G~g~~-~a~~~l~~lae~l~~pV~tt~ 234 (535)
T PRK07524 192 AQAAERLAAARRPLILAGGGAL-AAAAALRALAERLDAPVALTI 234 (535)
T ss_pred HHHHHHHHhCCCcEEEECCChH-HHHHHHHHHHHHHCCCEEEcc
Confidence 3445666666666666666654 566789999999999999743
No 275
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=33.71 E-value=1.4e+02 Score=21.38 Aligned_cols=38 Identities=11% Similarity=-0.000 Sum_probs=22.6
Q ss_pred HHHHHHHhcCCceEEEEeC-CCCchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSN-NCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~-D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.++.+.+..+++.-+|+.+ +.++ .....+...+||++.
T Consensus 54 ~~~~~~l~~~~~dgiii~~~~~~~----~~~~~~~~~~ipvV~ 92 (275)
T cd06295 54 DWLARYLASGRADGVILIGQHDQD----PLPERLAETGLPFVV 92 (275)
T ss_pred HHHHHHHHhCCCCEEEEeCCCCCh----HHHHHHHhCCCCEEE
Confidence 3566666667777666644 3332 223455678899884
No 276
>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []. CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].
Probab=33.63 E-value=67 Score=23.47 Aligned_cols=35 Identities=17% Similarity=0.212 Sum_probs=25.1
Q ss_pred ceEEEEeCCCCch-----hhhhHHHHHHhCCCcEEEecCCH
Q 033750 43 GKLILLSNNCPPL-----RKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 43 a~lVilA~D~s~~-----~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
-+++|++.++... ....+..++..|+.|++ |..-.
T Consensus 97 GKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL-~~~le 136 (176)
T PF11111_consen 97 GKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLL-FADLE 136 (176)
T ss_pred cceEEEEcCCCcccccccCHHHHHHHHHHhCCCEE-Eeecc
Confidence 4566777776553 34778889999999999 55533
No 277
>TIGR00300 conserved hypothetical protein TIGR00300. All members of the family come from genome projects. A partial length search brings in two plant lysine-ketoglutarate reductase/saccharopine dehydrogenase bifunctional enzymes hitting the N-terminal region of the family.
Probab=33.62 E-value=77 Score=26.15 Aligned_cols=46 Identities=13% Similarity=0.208 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 11 HESINNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 11 ~~~i~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
...-+..+...+++|.+ .++++.| ..+.-+.+.|-++||||+ ..+|
T Consensus 267 H~~Hl~~IN~irraGSI-------~~aVe~G-------------~l~~Gimy~cvk~~VPfV-LAGS 312 (407)
T TIGR00300 267 HRHHLKAINSVRRAGGI-------RDAVEQG-------------IIKKGVMYECVKNNIPYV-LAGS 312 (407)
T ss_pred hHHHHHHHHHHHHcCCH-------HHHHHhC-------------CCccchHHHHHhCCCCEE-Eeee
Confidence 34556677777777764 3444444 234456667777777776 3554
No 278
>PRK14072 6-phosphofructokinase; Provisional
Probab=33.61 E-value=70 Score=26.19 Aligned_cols=49 Identities=10% Similarity=0.080 Sum_probs=39.0
Q ss_pred ecHHHHHHHHhcCC-ceEEEEeCCCCchhhhhHHHHHHhCC--CcEEEecCC
Q 033750 29 LGYKTVLRSLRSSK-GKLILLSNNCPPLRKSEIEYYAMLAK--VGVHHYNGN 77 (112)
Q Consensus 29 ~G~~~v~kai~~gk-a~lVilA~D~s~~~~~~i~~~c~~~~--Ip~i~~~~s 77 (112)
.+.+++.+.+++-. -.||++..|-|-++..+|.+++++++ ||++..+.|
T Consensus 90 ~~~~~~~~~l~~~~Id~LivIGGdgS~~~a~~L~e~~~~~g~~i~vIgIPkT 141 (416)
T PRK14072 90 AEYERLLEVFKAHDIGYFFYNGGNDSMDTALKVSQLAKKMGYPIRCIGIPKT 141 (416)
T ss_pred HHHHHHHHHHHHcCCCEEEEECChHHHHHHHHHHHHHHHhCCCceEEEeeec
Confidence 46788888887655 67899999999999999998887666 999874444
No 279
>PRK09792 4-aminobutyrate transaminase; Provisional
Probab=33.57 E-value=86 Score=25.21 Aligned_cols=51 Identities=8% Similarity=0.060 Sum_probs=33.3
Q ss_pred HHHHHHHh----cCCceEEEEeCC-------C-CchhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 033750 32 KTVLRSLR----SSKGKLILLSNN-------C-PPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 83 (112)
Q Consensus 32 ~~v~kai~----~gka~lVilA~D-------~-s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~ 83 (112)
+...+.++ .+++..||+-.- . ++...+.+..+|+++++++|. ..-...+|+
T Consensus 184 ~~l~~~~~~~~~~~~iaavi~EPvq~~~G~~~~~~~~l~~l~~lc~~~g~llI~-DEv~tg~gr 246 (421)
T PRK09792 184 DAIERLFKSDIEAKQVAAIIFEPVQGEGGFNVAPKELVAAIRRLCDEHGIVMIA-DEVQSGFAR 246 (421)
T ss_pred HHHHHHHHhccCCCceEEEEEccccCCCCCccCCHHHHHHHHHHHHHcCCEEEE-eccccCCCC
Confidence 34455554 255667666432 2 456789999999999999994 554445554
No 280
>TIGR00045 glycerate kinase. The only characterized member of this family so far is the glycerate kinase GlxK (EC 2.7.1.31) of E. coli. This enzyme acts after glyoxylate carboligase and 2-hydroxy-3-oxopropionate reductase (tartronate semialdehyde reductase) in the conversion of glyoxylate to 3-phosphoglycerate (the D-glycerate pathway) as a part of allantoin degradation.
Probab=33.55 E-value=1e+02 Score=25.10 Aligned_cols=73 Identities=18% Similarity=0.139 Sum_probs=48.3
Q ss_pred hCCceecHHHHHHHHh----cCCceEEEEeCCCCchh------hhhHHHHHHhCCCcEEEecCCH-H--HHHhhhCCccc
Q 033750 24 SGKYTLGYKTVLRSLR----SSKGKLILLSNNCPPLR------KSEIEYYAMLAKVGVHHYNGNN-V--DLGTACGKYFR 90 (112)
Q Consensus 24 agklv~G~~~v~kai~----~gka~lVilA~D~s~~~------~~~i~~~c~~~~Ip~i~~~~sk-~--eLG~a~Gk~~~ 90 (112)
.++++.|++-+.+.+. =..+-|||-.+-.-+.. --.+-++|+.+++|++-+.++- . +--...|..
T Consensus 261 ga~l~~G~d~v~~~~~l~~~l~~ADlVITGEG~~D~Qtl~GK~p~~Va~~A~~~~vPviai~G~v~~~~~~~~~~g~~-- 338 (375)
T TIGR00045 261 GARLKPGIDLVLELLDLEQKIKDADLVITGEGRLDRQSLMGKAPVGVAKRAKKYGVPVIAIAGSLGDGVDVLPQHGID-- 338 (375)
T ss_pred CCEEccHHHHHHHhhCHHHHhcCCCEEEECCCcccccccCCchHHHHHHHHHHhCCeEEEEecccCCChHHHHhcCcc--
Confidence 4789999999988873 24588999887654432 2566779999999999765542 1 112233433
Q ss_pred EEEEEEeCc
Q 033750 91 VSCLSIIDP 99 (112)
Q Consensus 91 ~~vvaI~d~ 99 (112)
++..|.+.
T Consensus 339 -a~~~i~~~ 346 (375)
T TIGR00045 339 -AAFSILPS 346 (375)
T ss_pred -EEEEcCCC
Confidence 35677664
No 281
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=33.46 E-value=1.4e+02 Score=22.35 Aligned_cols=47 Identities=17% Similarity=0.201 Sum_probs=31.5
Q ss_pred HHHHHHHHhcC--CceEEEEeCCCCchh-h---hhHHHHHHhCCCcEEEecCC
Q 033750 31 YKTVLRSLRSS--KGKLILLSNNCPPLR-K---SEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 31 ~~~v~kai~~g--ka~lVilA~D~s~~~-~---~~i~~~c~~~~Ip~i~~~~s 77 (112)
++.+++.+.+. ++-+||++.|...+. . ..+.......++|++..+|+
T Consensus 42 l~~~i~~i~~~~~~~D~vvitGDl~~~~~~~~~~~~~~~l~~l~~Pv~~v~GN 94 (275)
T PRK11148 42 YQAVLEAIRAQQHEFDLIVATGDLAQDHSSEAYQHFAEGIAPLRKPCVWLPGN 94 (275)
T ss_pred HHHHHHHHHhhCCCCCEEEECCCCCCCCCHHHHHHHHHHHhhcCCcEEEeCCC
Confidence 45566666543 689999999998753 2 33444455678999855665
No 282
>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=33.43 E-value=1.8e+02 Score=21.02 Aligned_cols=56 Identities=16% Similarity=0.100 Sum_probs=34.4
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC---------HHHHHhhhCCcc
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN---------NVDLGTACGKYF 89 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s---------k~eLG~a~Gk~~ 89 (112)
..-.+.|..=+.-|||......+. ..+..+.+..+||++.+... -..||.++|++.
T Consensus 64 ~~n~E~i~~l~PDLIi~~~~~~~~--~~~~~l~~~~gipvv~~~~~~~~~~~~~~i~~lg~~~g~~~ 128 (262)
T cd01147 64 TPNYEKIAALKPDVVIDVGSDDPT--SIADDLQKKTGIPVVVLDGGDSLEDTPEQIRLLGKVLGKEE 128 (262)
T ss_pred CCCHHHHHhcCCCEEEEecCCccc--hhHHHHHHhhCCCEEEEecCCchHhHHHHHHHHHHHhCCHH
Confidence 445667777778888876544332 23344444478998854322 356889988753
No 283
>PRK12815 carB carbamoyl phosphate synthase large subunit; Reviewed
Probab=33.43 E-value=71 Score=29.24 Aligned_cols=57 Identities=11% Similarity=0.057 Sum_probs=39.8
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCchh--hhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPLR--KSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~~--~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
-|...+.+.|++|++.+||-........ --.++..|-+++||+++-..+...+-.++
T Consensus 991 ~~~~~~~~~~~~~~~~~vin~~~~~~~~~~~~~irr~a~~~~ip~~t~~~~a~~~~~~~ 1049 (1068)
T PRK12815 991 EGSPSLLERIKQHRIVLVVNTSLSDSASEDAIKIRDEALSTHIPVFTELETAQAFLQVL 1049 (1068)
T ss_pred CCCccHHHHHHcCCeEEEEECCCCcccccccHHHHHHHHHcCCCEEecHHHHHHHHHHH
Confidence 4566788999999999999876432211 24688899999999997333444444444
No 284
>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=33.11 E-value=1.1e+02 Score=23.37 Aligned_cols=43 Identities=14% Similarity=0.015 Sum_probs=29.7
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCch----hhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPL----RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~----~~~~i~~~c~~~~Ip~i~ 73 (112)
.+.+.++++..+.++|++..-.++. -.+.|..+|++++++++.
T Consensus 113 ~~~l~~~i~~~~~~~v~i~~~~~~~G~~~~~~~i~~~a~~~~~~li~ 159 (356)
T cd06451 113 PEEIAEALEQHDIKAVTLTHNETSTGVLNPLEGIGALAKKHDALLIV 159 (356)
T ss_pred HHHHHHHHhccCCCEEEEeccCCCcccccCHHHHHHHHHhcCCEEEE
Confidence 4577777766577888775543332 236678899999999984
No 285
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=33.02 E-value=1.4e+02 Score=21.68 Aligned_cols=40 Identities=13% Similarity=0.006 Sum_probs=21.6
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+...++--+|+.+.- +.....+...+...+||++.
T Consensus 46 ~~i~~~~~~~vdgiii~~~~-~~~~~~~i~~~~~~~iPvV~ 85 (272)
T cd06313 46 AAIENMASQGWDFIAVDPLG-IGTLTEAVQKAIARGIPVID 85 (272)
T ss_pred HHHHHHHHcCCCEEEEcCCC-hHHhHHHHHHHHHCCCcEEE
Confidence 44555555666666664321 22223333455667888884
No 286
>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated
Probab=33.01 E-value=1.6e+02 Score=24.07 Aligned_cols=61 Identities=16% Similarity=0.178 Sum_probs=40.8
Q ss_pred cCCceEEEEeCCCCch-hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 40 SSKGKLILLSNNCPPL-RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 40 ~gka~lVilA~D~s~~-~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
.+..++.++..|.-.. ....+..+++..++|+.. ..+..+|..++..-...-+|-|=.+|.
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 4556788888887432 356788889999999984 788888888875433333233333443
No 287
>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=33.01 E-value=38 Score=22.78 Aligned_cols=26 Identities=8% Similarity=-0.070 Sum_probs=20.6
Q ss_pred hhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 58 SEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 58 ~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
.-+.++++.+++|++. ++.+||-..-
T Consensus 48 ~~l~~~A~~l~~~~~~--~~~eeL~~~~ 73 (121)
T PF01890_consen 48 PGLLELAEELGIPLRF--FSAEELNAVE 73 (121)
T ss_dssp HHHHHHHHHCTSEEEE--E-HHHHHCHH
T ss_pred HHHHHHHHHhCCCeEE--ECHHHHhcCC
Confidence 4578899999999983 7999998655
No 288
>PRK08644 thiamine biosynthesis protein ThiF; Provisional
Probab=32.84 E-value=63 Score=23.66 Aligned_cols=31 Identities=3% Similarity=-0.052 Sum_probs=24.3
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhC-CCcEEE
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLA-KVGVHH 73 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~-~Ip~i~ 73 (112)
...+||-|.|-.+ .+..+...|..+ ++|++.
T Consensus 117 ~~DvVI~a~D~~~-~r~~l~~~~~~~~~~p~I~ 148 (212)
T PRK08644 117 DCDIVVEAFDNAE-TKAMLVETVLEHPGKKLVA 148 (212)
T ss_pred CCCEEEECCCCHH-HHHHHHHHHHHhCCCCEEE
Confidence 4778888877554 667788889988 999994
No 289
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=32.76 E-value=1.3e+02 Score=19.26 Aligned_cols=52 Identities=21% Similarity=0.180 Sum_probs=35.9
Q ss_pred HHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCccc
Q 033750 35 LRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFR 90 (112)
Q Consensus 35 ~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~ 90 (112)
...++...+++|+|.....+. +..+|+..+.|+-.|.+...+|=+++|....
T Consensus 6 ~~~l~~~gv~lv~I~~g~~~~----~~~f~~~~~~p~~ly~D~~~~lY~~lg~~~~ 57 (115)
T PF13911_consen 6 KPELEAAGVKLVVIGCGSPEG----IEKFCELTGFPFPLYVDPERKLYKALGLKRG 57 (115)
T ss_pred HHHHHHcCCeEEEEEcCCHHH----HHHHHhccCCCCcEEEeCcHHHHHHhCCccc
Confidence 455666678899988554432 6666765555444467888999999998753
No 290
>PF05889 SLA_LP_auto_ag: Soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen); InterPro: IPR008829 This family consists of several eukaryotic and archaeal proteins which are related to the Homo sapiens soluble liver antigen/liver pancreas antigen (SLA/LP autoantigen). Autoantibodies are a hallmark of autoimmune hepatitis, but most are not disease specific. Autoantibodies to soluble liver antigen (SLA) and to liver and pancreas antigen (LP) have been described as disease specific, occurring in about 30% of all patients with autoimmune hepatitis []. The function of SLA/LP is unknown, however, it has been suggested that the protein may function as a serine hydroxymethyltransferase and may be an important enzyme in the thus far poorly understood selenocysteine pathway []. The archaeal sequences Q8TXK0 from SWISSPROT and Q8TYR3 from SWISSPROT are annotated as being pyridoxal phosphate-dependent enzymes.; GO: 0016740 transferase activity; PDB: 2E7J_B 2E7I_B 2Z67_C 3HL2_D 3BC8_A 3BCA_A 3BCB_A.
Probab=32.75 E-value=76 Score=26.02 Aligned_cols=46 Identities=9% Similarity=0.016 Sum_probs=27.5
Q ss_pred eecHHHHHHHHhc---CCceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEE
Q 033750 28 TLGYKTVLRSLRS---SKGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 28 v~G~~~v~kai~~---gka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~ 73 (112)
..-.+.+.+.+++ ..+-.|+-..|+-. +-..+|-.+|++++||.+.
T Consensus 138 ~td~~~ie~~i~~~G~~~iLcvltttscfapr~~D~i~~IakiC~~~~IPhlv 190 (389)
T PF05889_consen 138 ITDLEAIEAKIEELGADNILCVLTTTSCFAPRLPDDIEEIAKICKEYDIPHLV 190 (389)
T ss_dssp EEHHHHHHHHHHHHCGGGEEEEEEESSTTTTB----HHHHHHHHHHHT--EEE
T ss_pred eccHHHHHHHHHHhCCCCeEEEEEecCccCCCCCccHHHHHHHHHHcCCceEE
Confidence 3334445555543 33566777778754 3456788899999999984
No 291
>PRK06939 2-amino-3-ketobutyrate coenzyme A ligase; Provisional
Probab=32.59 E-value=1.2e+02 Score=23.35 Aligned_cols=42 Identities=19% Similarity=0.014 Sum_probs=28.7
Q ss_pred HHHHHHHhc---C--CceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRS---S--KGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~---g--ka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~ 73 (112)
+...+.++. . +.++|+...-.++ .-.+.|..+|++++++++.
T Consensus 159 ~~l~~~i~~~~~~~~~~~~v~~~~v~~~~G~~~~~~~l~~la~~~~~~li~ 209 (397)
T PRK06939 159 ADLEAQLKEAKEAGARHKLIATDGVFSMDGDIAPLPEICDLADKYDALVMV 209 (397)
T ss_pred HHHHHHHHhhhccCCCCeEEEEecCcCCCCCcCCHHHHHHHHHHhCCEEEE
Confidence 445555543 2 6677776544444 4568899999999999984
No 292
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=32.56 E-value=1.4e+02 Score=19.28 Aligned_cols=38 Identities=3% Similarity=-0.100 Sum_probs=28.3
Q ss_pred hcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC
Q 033750 39 RSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 39 ~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
.+....+|++..+.-+.....+...-+....|.+...+
T Consensus 41 ~~~d~gII~Ite~~~~~i~e~i~~~~~~~~~P~ii~IP 78 (100)
T PRK02228 41 EDDDVGILVMHDDDLEKLPRRLRRTLEESVEPTVVTLG 78 (100)
T ss_pred hCCCEEEEEEehhHhHhhHHHHHHHHhcCCCCEEEEEC
Confidence 56778889998888777777777766677788775444
No 293
>TIGR00530 AGP_acyltrn 1-acyl-sn-glycerol-3-phosphate acyltransferases. 1-acyl-sn-glycerol-3-phosphate acyltransferase is also called 1-AGP acyltransferase, lysophosphatidic acid acyltransferase, and LPA acyltransferase.
Probab=32.53 E-value=1.3e+02 Score=19.00 Aligned_cols=42 Identities=17% Similarity=0.109 Sum_probs=25.9
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchh-----hhhHHHHHHhCCCcEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLR-----KSEIEYYAMLAKVGVH 72 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~-----~~~i~~~c~~~~Ip~i 72 (112)
.+++.+.+++|..-+++--.+.+... +.-+..++.+.++|++
T Consensus 79 ~~~~~~~l~~g~~v~ifPeG~~~~~~~~~~f~~g~~~la~~~~~pvv 125 (130)
T TIGR00530 79 LKAAIEVLKQGRSIGVFPEGTRSRGRDILPFKKGAFHIAIKAGVPIL 125 (130)
T ss_pred HHHHHHHHhCCCEEEEeCCCCCCCCCCCCCcchhHHHHHHHcCCCEE
Confidence 45677888888754444333333221 2455667888888887
No 294
>PF03446 NAD_binding_2: NAD binding domain of 6-phosphogluconate dehydrogenase; InterPro: IPR006115 6-Phosphogluconate dehydrogenase (1.1.1.44 from EC) (6PGD) is an oxidative carboxylase that catalyses the decarboxylating reduction of 6-phosphogluconate into ribulose 5-phosphate in the presence of NADP. This reaction is a component of the hexose mono-phosphate shunt and pentose phosphate pathways (PPP) [, ]. Prokaryotic and eukaryotic 6PGD are proteins of about 470 amino acids whose sequence are highly conserved []. The protein is a homodimer in which the monomers act independently []: each contains a large, mainly alpha-helical domain and a smaller beta-alpha-beta domain, containing a mixed parallel and anti-parallel 6-stranded beta sheet []. NADP is bound in a cleft in the small domain, the substrate binding in an adjacent pocket []. This family represents the NADP binding domain of 6-phosphogluconate dehydrogenase which adopts a Rossman fold. The C-terminal domain is described in IPR006114 from INTERPRO.; GO: 0004616 phosphogluconate dehydrogenase (decarboxylating) activity, 0006098 pentose-phosphate shunt, 0055114 oxidation-reduction process; PDB: 3AX6_D 3PDU_G 3Q3C_A 3OBB_A 4DLL_B 1PGP_A 1PGN_A 2PGD_A 1PGQ_A 1PGO_A ....
Probab=32.38 E-value=1.3e+02 Score=20.62 Aligned_cols=33 Identities=18% Similarity=0.158 Sum_probs=25.9
Q ss_pred CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 41 SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 41 gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+-.++|-.+..+|....++...+..+++.|+.
T Consensus 85 ~~g~iiid~sT~~p~~~~~~~~~~~~~g~~~vd 117 (163)
T PF03446_consen 85 RPGKIIIDMSTISPETSRELAERLAAKGVRYVD 117 (163)
T ss_dssp -TTEEEEE-SS--HHHHHHHHHHHHHTTEEEEE
T ss_pred ccceEEEecCCcchhhhhhhhhhhhhccceeee
Confidence 457889999999999999999999999988886
No 295
>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=32.37 E-value=1.1e+02 Score=22.94 Aligned_cols=42 Identities=10% Similarity=-0.033 Sum_probs=33.2
Q ss_pred hhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 58 SEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 58 ~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
..+-..|...+|++..-..|.+||-..+.... + +++++|.+.
T Consensus 93 ~~lF~~A~~~gi~V~~rsvs~~ei~~hl~~g~-~-aIvLVd~~~ 134 (212)
T PF09778_consen 93 NRLFQKAKAAGINVEKRSVSIQEIIEHLSSGG-P-AIVLVDASL 134 (212)
T ss_pred HHHHHHHHHcCCceEEeeccHHHHHHHHhCCC-c-EEEEEcccc
Confidence 55566788899999865679999999998886 4 588888764
No 296
>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=32.37 E-value=65 Score=26.66 Aligned_cols=62 Identities=15% Similarity=0.217 Sum_probs=39.1
Q ss_pred CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchHHHh
Q 033750 41 SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSDIIK 106 (112)
Q Consensus 41 gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~a~~i~ 106 (112)
++..-|+++.++.|.+..-+..+|...++.++. .+..++ |..- +..++++-|+.|++--.+.
T Consensus 152 ~~~~~vlv~~~~hP~~~~v~~t~a~~~g~~iv~-~~~~~~-~~~d--~~~~a~v~vq~Pn~~G~~e 213 (429)
T PF02347_consen 152 RKRNKVLVPESLHPQTRAVLRTYAAPLGIEIVE-VPLDED-GTTD--DDDTAAVMVQNPNTFGVFE 213 (429)
T ss_dssp T---EEEEETTS-CHHHHHHHHHCCHCCEEEEE-E-BBTT-CSB---STTEEEEEEESS-TTSB--
T ss_pred cCCcEEEEcCCcChhhHHHHHHhhhhCCeEEEE-eccccc-CCcc--ccCeEEEEeecCCCCceEe
Confidence 344579999999999998889999999999996 432221 2211 3456678899998754443
No 297
>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=32.07 E-value=1.2e+02 Score=21.27 Aligned_cols=69 Identities=14% Similarity=0.066 Sum_probs=43.4
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHH--HHHHhCCCcEEEecCCH-------------HHHHhhhCCcccEEEEEEeC
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIE--YYAMLAKVGVHHYNGNN-------------VDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~--~~c~~~~Ip~i~~~~sk-------------~eLG~a~Gk~~~~~vvaI~d 98 (112)
+.+.+..++..++|+--|++. ..+.+. ..-.+.++|++. +.++ ++|++.+|.| .+.+.|...
T Consensus 70 ~~~~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 70 ARDYLLSEKPDLIIVVVDATN-LERNLYLTLQLLELGIPVVV-VLNKMDEAERKGIEIDAEKLSERLGVP-VIPVSARTG 146 (156)
T ss_dssp HHHHHHHTSSSEEEEEEEGGG-HHHHHHHHHHHHHTTSSEEE-EEETHHHHHHTTEEE-HHHHHHHHTS--EEEEBTTTT
T ss_pred HHHHHhhcCCCEEEEECCCCC-HHHHHHHHHHHHHcCCCEEE-EEeCHHHHHHcCCEECHHHHHHHhCCC-EEEEEeCCC
Confidence 456667788889888888876 333332 233468999994 6554 5667777776 333455566
Q ss_pred cCchHHH
Q 033750 99 PGDSDII 105 (112)
Q Consensus 99 ~g~a~~i 105 (112)
.|+.+..
T Consensus 147 ~g~~~L~ 153 (156)
T PF02421_consen 147 EGIDELK 153 (156)
T ss_dssp BTHHHHH
T ss_pred cCHHHHH
Confidence 6665543
No 298
>TIGR00583 mre11 DNA repair protein (mre11). All proteins in this family for which functions are known are subunits of a nuclease complex made up of multiple proteins including MRE11 and RAD50 homologs. The functions of this nuclease complex include recombinational repair and non-homolgous end joining. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). The proteins in this family are distantly related to proteins in the SbcCD complex of bacteria.
Probab=31.93 E-value=1.4e+02 Score=24.35 Aligned_cols=24 Identities=21% Similarity=0.339 Sum_probs=20.2
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCc
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPP 54 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~ 54 (112)
++++++.+...++-+|++|.|.=.
T Consensus 31 f~eil~~a~~~~vD~VLiaGDLFd 54 (405)
T TIGR00583 31 FEEVLQIAKEQDVDMILLGGDLFH 54 (405)
T ss_pred HHHHHHHHHHcCCCEEEECCccCC
Confidence 567788888899999999999844
No 299
>PRK08574 cystathionine gamma-synthase; Provisional
Probab=31.84 E-value=1.1e+02 Score=24.24 Aligned_cols=43 Identities=12% Similarity=0.180 Sum_probs=30.6
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCch----hhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPL----RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~----~~~~i~~~c~~~~Ip~i~ 73 (112)
.+++.+++...+.++|++-+=.+|. -.+.|..+|++++++++.
T Consensus 126 ~~~l~~~i~~~~tklV~ie~p~NPtG~v~dl~~I~~la~~~gi~liv 172 (385)
T PRK08574 126 TEDIIEAIKEGRTKLVFIETMTNPTLKVIDVPEVAKAAKELGAILVV 172 (385)
T ss_pred HHHHHHhcCccCceEEEEECCCCCCCEecCHHHHHHHHHHcCCEEEE
Confidence 4567777766578888875444432 246788899999999984
No 300
>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=31.80 E-value=65 Score=20.34 Aligned_cols=35 Identities=14% Similarity=0.094 Sum_probs=21.8
Q ss_pred HHHHHHhc--CCceEEEEeCCCCchh---hhhHHHHHHhC
Q 033750 33 TVLRSLRS--SKGKLILLSNNCPPLR---KSEIEYYAMLA 67 (112)
Q Consensus 33 ~v~kai~~--gka~lVilA~D~s~~~---~~~i~~~c~~~ 67 (112)
..++.|++ .++.-||+|.|++... ..++..++...
T Consensus 48 ~~i~~l~~~~~~~~~iiiatD~D~EGe~Ia~~i~~~~~~~ 87 (100)
T PF01751_consen 48 KQIKNLKKLLKKADEIIIATDPDREGELIAWEIIELLGKN 87 (100)
T ss_dssp HHHHHHHHHHHSCSEEEEEC-SSHHHHHHHHHHHHHHHHH
T ss_pred ccchhhHHHhhhccEeeecCCCChHHHHHHHHHHHHHhHh
Confidence 33444443 4689999999999854 45566555544
No 301
>PRK13238 tnaA tryptophanase/L-cysteine desulfhydrase, PLP-dependent; Provisional
Probab=31.80 E-value=1.1e+02 Score=25.03 Aligned_cols=43 Identities=7% Similarity=-0.052 Sum_probs=29.9
Q ss_pred HHHHHHHHhc---CCceEEEEeCCCC--------chhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRS---SKGKLILLSNNCP--------PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~---gka~lVilA~D~s--------~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+++.+.|.. .+.++|++.+=.. ....+.|..+|+++|++++.
T Consensus 163 ~e~Le~~i~~~~~~~tk~Ivl~~p~NptGG~v~s~~~l~~I~~ia~~~gi~li~ 216 (460)
T PRK13238 163 LEKLEALIEEVGAENVPFIVMTITNNSAGGQPVSMANLRAVYEIAKKYGIPVVI 216 (460)
T ss_pred HHHHHHHHhhcCCCceeEEEEecCCCCCCCcCCCHHHHHHHHHHHHHcCCEEEE
Confidence 4666677754 3688888763222 23346888999999999995
No 302
>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=31.78 E-value=48 Score=21.28 Aligned_cols=53 Identities=15% Similarity=0.157 Sum_probs=36.2
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 86 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G 86 (112)
.+..++...+ ...-+|+++..... ..+++...++.+++|+.. -+..+-|..-|
T Consensus 39 ~~~~~~~~~~--~~~Dvill~pqi~~-~~~~i~~~~~~~~ipv~~--I~~~~Y~~mdg 91 (95)
T TIGR00853 39 GSYGAAGEKL--DDADVVLLAPQVAY-MLPDLKKETDKKGIPVEV--INGAQYGKLTG 91 (95)
T ss_pred ecHHHHHhhc--CCCCEEEECchHHH-HHHHHHHHhhhcCCCEEE--eChhhcccCCc
Confidence 3555555444 45788998888765 567788889999999984 45555555444
No 303
>TIGR03603 cyclo_dehy_ocin bacteriocin biosynthesis cyclodehydratase, SagC family. Members of this protein family include enzymes related to SagC, a cyclodehydratase involved in the biosynthesis of streptolysin S in Streptococcus pyogenes from the protoxin polypeptide (product of the sagA gene). This protein family serves as a marker for widely distributed prokaryotic systems for making a general class of heterocycle-containing bacteriocins. Note that this model does not find all possible examples of bacteriocin biosynthesis cyclodehydratases, an in particular misses the E. coli plasmid protein McbB of microcin B17 biosynthesis.
Probab=31.72 E-value=65 Score=25.30 Aligned_cols=32 Identities=6% Similarity=-0.065 Sum_probs=26.5
Q ss_pred CceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEE
Q 033750 42 KGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 42 ka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~ 73 (112)
..-+||.++|-.+ +....+.++|..+++|++.
T Consensus 151 ~~DlVid~tDn~~~r~L~~iN~ac~~~~~PlV~ 183 (318)
T TIGR03603 151 DYNYIIICTEHSNISLLRGLNKLSKETKKPNTI 183 (318)
T ss_pred CCCEEEECCCCccHhHHHHHHHHHHHHCCCEEE
Confidence 3789999998776 4557799999999999993
No 304
>TIGR03772 anch_rpt_subst anchored repeat ABC transporter, substrate-binding protein. Members of this protein family are ABC transporter permease subunits as identified by pfam00950, but additionally contain the Actinobacterial insert domain described by TIGR03769. Some homologs (lacking the insert) have been described as transporters of manganese or of chelated iron. Members of this family typically are found along with an ATP-binding cassette protein, a permease, and an LPXTG-anchored protein with two or three copies of the TIGR03769 insert that occurs just once in this protein family.
Probab=31.64 E-value=1.1e+02 Score=25.57 Aligned_cols=34 Identities=9% Similarity=-0.027 Sum_probs=22.0
Q ss_pred chhhhhHHHHHHhCCCcEEEecCC--------HHHHHhhhCCc
Q 033750 54 PLRKSEIEYYAMLAKVGVHHYNGN--------NVDLGTACGKY 88 (112)
Q Consensus 54 ~~~~~~i~~~c~~~~Ip~i~~~~s--------k~eLG~a~Gk~ 88 (112)
+....++....++.+|+++ |... -+.|.+-.|.+
T Consensus 406 ~~~L~~Li~~IK~~~V~~I-F~Epq~~~~~~~l~~IA~e~Gv~ 447 (479)
T TIGR03772 406 LADRRRLTRTIENLKVPAV-FLEPNLAARSTTLNEIADELGVR 447 (479)
T ss_pred HHHHHHHHHHHHHcCCCEE-EEeCCCCCchHHHHHHHHHcCCc
Confidence 3456777778888889888 4321 24666666654
No 305
>PF13867 SAP30_Sin3_bdg: Sin3 binding region of histone deacetylase complex subunit SAP30; PDB: 2LD7_A.
Probab=31.62 E-value=23 Score=20.50 Aligned_cols=32 Identities=19% Similarity=0.203 Sum_probs=21.0
Q ss_pred hHHHHHHhCCCcEEEecCCHHHHHhhhCCcccE
Q 033750 59 EIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRV 91 (112)
Q Consensus 59 ~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~ 91 (112)
-|..++..+++|... ..|++||..+..+.+..
T Consensus 5 tLrrY~~~~~l~~~~-~~sK~qLa~~V~kHF~s 36 (53)
T PF13867_consen 5 TLRRYKKHYKLPERP-RSSKEQLANAVRKHFNS 36 (53)
T ss_dssp HHHHHHHHTT----S-S--HHHHHHHHHHHHTT
T ss_pred HHHHHHHHhCCCCCC-CCCHHHHHHHHHHHHhc
Confidence 367788899999885 78999999999887654
No 306
>COG0182 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=31.56 E-value=68 Score=25.87 Aligned_cols=40 Identities=5% Similarity=-0.071 Sum_probs=28.8
Q ss_pred HHHHHhcCCceEEEEeCCCCc---hhhhhH-----HHHHHhCCCcEEE
Q 033750 34 VLRSLRSSKGKLILLSNNCPP---LRKSEI-----EYYAMLAKVGVHH 73 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~---~~~~~i-----~~~c~~~~Ip~i~ 73 (112)
+--.+++|.+.+||+..|-=- ++-.|| --+|+.++||++.
T Consensus 220 ag~~M~~g~Id~viVGADRI~~nGdvaNKIGTY~lAvlAk~~gIPFyV 267 (346)
T COG0182 220 AGHLMQQGMIDAVIVGADRIAANGDVANKIGTYQLAVLAKHHGIPFYV 267 (346)
T ss_pred HHHHHHhCCCcEEEEccceeecCCcchhhhhHHHHHHHHHHcCCCeEE
Confidence 334478889999999988522 344555 3489999999985
No 307
>PF02593 dTMP_synthase: Thymidylate synthase; InterPro: IPR003745 This entry describes proteins of unknown function.
Probab=31.46 E-value=1.2e+02 Score=22.81 Aligned_cols=53 Identities=9% Similarity=0.092 Sum_probs=36.7
Q ss_pred HHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecC-----C------HHHHHhhhCCcc
Q 033750 36 RSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNG-----N------NVDLGTACGKYF 89 (112)
Q Consensus 36 kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~-----s------k~eLG~a~Gk~~ 89 (112)
+-+++..++.||+.+-.+. -.++.+...|+.++|-++ ++. . =++....+|+|.
T Consensus 70 ~~~~e~g~kavIvp~~~~~~g~~~~lk~~~e~~gi~~~-~P~~~CsL~~~~~p~i~~F~~~fGkP~ 134 (217)
T PF02593_consen 70 EIAKEAGVKAVIVPSESPKPGLRRQLKKQLEEFGIEVE-FPKPFCSLEENGNPQIDEFAEYFGKPK 134 (217)
T ss_pred HHHHHcCCCEEEEecCCCccchHHHHHHHHHhcCceee-cCccccccCCCCChhHHHHHHHhCCce
Confidence 3344467888888887777 778899999999887555 232 1 245556689883
No 308
>cd03343 cpn60 cpn60 chaperonin family. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings. Archaeal cpn60 (thermosome), together with TF55 from thermophilic bacteria and the eukaryotic cytosol chaperonin (CTT), belong to the type II group of chaperonins. Cpn60 consists of two stacked octameric rings, which are composed of one or two different subunits. Their common function is to sequester nonnative proteins inside their central cavity and promote folding by using energy derived from ATP hydrolysis.
Probab=31.35 E-value=1.4e+02 Score=24.65 Aligned_cols=47 Identities=6% Similarity=0.089 Sum_probs=33.0
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
..+.|.+-.+.+||.+.+.++..... +.++||-++. ..++++|.+.+
T Consensus 271 ~v~~i~~~g~~lvi~~~~I~~~al~~----l~~~gI~~v~-~v~~~~l~~Ia 317 (517)
T cd03343 271 MVDKIADTGANVVFCQKGIDDLAQHY----LAKAGILAVR-RVKKSDMEKLA 317 (517)
T ss_pred HHHHHHhcCCCEEEeCCCccHHHHHH----HhHCCcEEEE-eCCHHHHHHHH
Confidence 44466666789999999998865443 3468888886 67776665554
No 309
>cd06367 PBP1_iGluR_NMDA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. The function of the NMDA subtype receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer comprising two NR1 and two NR2 (A, B, C, and D) or NR3 (A and B) subunits
Probab=31.33 E-value=81 Score=24.15 Aligned_cols=50 Identities=8% Similarity=0.013 Sum_probs=30.2
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCch--hhhhHHHHHHhCCCcEEEecCCHHHH
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPL--RKSEIEYYAMLAKVGVHHYNGNNVDL 81 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~--~~~~i~~~c~~~~Ip~i~~~~sk~eL 81 (112)
...+.+-+..+++..|+ ..-+|.. ....+..+|..++||++.+..+...+
T Consensus 52 ~~~~~~~l~~~~v~~ii-g~~~s~~~~~~~~~~~v~~~~~iP~Is~~~~~~~~ 103 (362)
T cd06367 52 LLSVCDLLVVQVVAGVV-FSDPTDEEAVAQILDFTSAQTRIPVVGISGRESIF 103 (362)
T ss_pred HHHHHHHhcccceEEEE-ecCCCCccchhhhhhhhhhhhcCcEEEeecccccc
Confidence 34455666666555544 4444443 34556778999999999754444444
No 310
>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=31.21 E-value=75 Score=20.11 Aligned_cols=27 Identities=15% Similarity=-0.045 Sum_probs=20.4
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 033750 56 RKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 86 (112)
Q Consensus 56 ~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G 86 (112)
.-.+|...+++++||+++ ...|.+++-
T Consensus 28 ~A~~I~~~A~e~~VPi~~----~~~LAr~L~ 54 (82)
T TIGR00789 28 VAERIIEIAKKHGIPIVE----DPDLVDVLL 54 (82)
T ss_pred HHHHHHHHHHHcCCCEEe----CHHHHHHHH
Confidence 557889999999999996 245666553
No 311
>TIGR01408 Ube1 ubiquitin-activating enzyme E1. This model represents the full length, over a thousand amino acids, of a multicopy family of eukaryotic proteins, many of which are designated ubiquitin-activating enzyme E1. Members have two copies of the ThiF family domain (pfam00899), a repeat found in ubiquitin-activating proteins (pfam02134), and other regions.
Probab=31.12 E-value=50 Score=30.22 Aligned_cols=41 Identities=12% Similarity=0.064 Sum_probs=29.5
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCC--CcEEEecCCHHHHHhh
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAK--VGVHHYNGNNVDLGTA 84 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~--Ip~i~~~~sk~eLG~a 84 (112)
+..+||.+ +.+......+.++|..++ ||++ +..+.--.|..
T Consensus 110 ~fdvVV~t-~~~~~~~~~in~~cr~~~~~I~fI-~~~~~G~~G~v 152 (1008)
T TIGR01408 110 KFQCVVLT-EMSLPLQKEINDFCHSQCPPIAFI-SADVRGLFGSL 152 (1008)
T ss_pred CCCEEEEC-CCCHHHHHHHHHHHHHcCCCeEEE-EEeecceEEEE
Confidence 35566665 556778888999999999 9999 46665555543
No 312
>COG0403 GcvP Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]
Probab=31.11 E-value=2.4e+02 Score=23.68 Aligned_cols=62 Identities=15% Similarity=0.073 Sum_probs=44.4
Q ss_pred hcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC-CHHHHHhhhCCcccEEEEEEeCcCch
Q 033750 39 RSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG-NNVDLGTACGKYFRVSCLSIIDPGDS 102 (112)
Q Consensus 39 ~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~-sk~eLG~a~Gk~~~~~vvaI~d~g~a 102 (112)
.+.+..-++++.|+-|.+..-+..+++-.++.++.+.. +-++|-.+ .+..++.+.+..|++-
T Consensus 160 ~k~k~~~~~V~~~vhpqt~~Vl~Tra~~~g~~i~~~~~~d~~~l~~~--~~~~~~gv~vQyP~~~ 222 (450)
T COG0403 160 TKKKRNKFLVPKDVHPQTLDVLRTRAEGLGIEIEVVDADDLDDLESA--DDGDVFGVLVQYPNTF 222 (450)
T ss_pred hcCcCceEEecCCCCHHHHHHHHhhcccCceEEEEeccchhhhhhhc--cccCeEEEEEecCCCC
Confidence 44558899999999999999999999999988885322 33445555 3333445667777654
No 313
>PLN02607 1-aminocyclopropane-1-carboxylate synthase
Probab=30.87 E-value=1.2e+02 Score=24.72 Aligned_cols=33 Identities=9% Similarity=0.102 Sum_probs=24.3
Q ss_pred CCceEEEEeCCCC-------chhhhhHHHHHHhCCCcEEE
Q 033750 41 SKGKLILLSNNCP-------PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 41 gka~lVilA~D~s-------~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.++++|++.+=.. +...+.+..+|+++++.+|.
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 4688898864333 34567888899999999874
No 314
>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=30.84 E-value=65 Score=24.37 Aligned_cols=31 Identities=13% Similarity=0.117 Sum_probs=26.5
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
-.+||-.+-.+|.+.+.+...+.++++.|+.
T Consensus 83 g~~vid~st~~p~~~~~~~~~~~~~g~~~vd 113 (288)
T TIGR01692 83 GSLLIDCSTIDPDSARKLAELAAAHGAVFMD 113 (288)
T ss_pred CCEEEECCCCCHHHHHHHHHHHHHcCCcEEE
Confidence 3588888899999999999999988988875
No 315
>PRK10444 UMP phosphatase; Provisional
Probab=30.54 E-value=1.8e+02 Score=21.73 Aligned_cols=35 Identities=17% Similarity=0.135 Sum_probs=27.7
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEeCCCCchhhh
Q 033750 24 SGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKS 58 (112)
Q Consensus 24 agklv~G~~~v~kai~~gka~lVilA~D~s~~~~~ 58 (112)
.+.+.-|..++++.+++....++|++++.+.....
T Consensus 15 ~~~~~p~a~~~l~~L~~~g~~~~~~Tn~~~~~~~~ 49 (248)
T PRK10444 15 DNVAVPGAAEFLHRILDKGLPLVLLTNYPSQTGQD 49 (248)
T ss_pred CCeeCccHHHHHHHHHHCCCeEEEEeCCCCCCHHH
Confidence 34677889999999999888899988888754433
No 316
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.50 E-value=1.6e+02 Score=22.07 Aligned_cols=24 Identities=8% Similarity=0.134 Sum_probs=18.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCCch
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPL 55 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~ 55 (112)
+++.+.+++.++.+||++.|.-..
T Consensus 29 ~~l~~~~~~~~~D~lli~GDi~d~ 52 (253)
T TIGR00619 29 DDLLEFAKAEQIDALLVAGDVFDT 52 (253)
T ss_pred HHHHHHHHHcCCCEEEECCccCCC
Confidence 456666677789999999998664
No 317
>TIGR01689 EcbF-BcbF capsule biosynthesis phosphatase. Due to the likelihood that the substrates of these enzymes are different depending on the nature of the particular polysaccharides associated with each species, this model has been classified as a subfamily despite the close homology.
Probab=30.40 E-value=1.2e+02 Score=20.68 Aligned_cols=44 Identities=14% Similarity=0.051 Sum_probs=25.1
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCchh------------hhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPLR------------KSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~~------------~~~i~~~c~~~~Ip~i~ 73 (112)
.+..++++.+++....++|.++= +... ......++..++|||-.
T Consensus 27 ~~~ie~L~~l~~~G~~IiiaTGR-~~~~~~~n~~~i~~~~~~~t~~wL~k~~ipYd~ 82 (126)
T TIGR01689 27 LAVIEKLRHYKALGFEIVISSSR-NMRTYEGNVGKINIHTLPIIILWLNQHNVPYDE 82 (126)
T ss_pred HHHHHHHHHHHHCCCEEEEECCC-CchhhhccccccchhhHHHHHHHHHHcCCCCce
Confidence 34455555554444444444432 2222 23677888999999954
No 318
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=30.25 E-value=1.2e+02 Score=23.38 Aligned_cols=38 Identities=16% Similarity=0.197 Sum_probs=25.9
Q ss_pred HHHHHHHHhcCC--ceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSK--GKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gk--a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+...++++.|. +.++++-+|-+ .+..+|+++|||++.
T Consensus 103 l~al~~~~~~~~~~~~i~~visn~~-----~~~~lA~~~gIp~~~ 142 (286)
T PRK06027 103 LGDLLWRWRSGELPVEIAAVISNHD-----DLRSLVERFGIPFHH 142 (286)
T ss_pred HHHHHHHHHcCCCCcEEEEEEEcCh-----hHHHHHHHhCCCEEE
Confidence 455556666664 67777777754 345569999999984
No 319
>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=30.08 E-value=1.1e+02 Score=23.00 Aligned_cols=63 Identities=17% Similarity=0.156 Sum_probs=34.3
Q ss_pred CCceecHHHHHHHHhcC-CceEE-EE--e--CCCCchhhhhHHHHHHhCCCcEEEecCC------HHHHHhhhCCc
Q 033750 25 GKYTLGYKTVLRSLRSS-KGKLI-LL--S--NNCPPLRKSEIEYYAMLAKVGVHHYNGN------NVDLGTACGKY 88 (112)
Q Consensus 25 gklv~G~~~v~kai~~g-ka~lV-il--A--~D~s~~~~~~i~~~c~~~~Ip~i~~~~s------k~eLG~a~Gk~ 88 (112)
++-+.-+......+-+. -...+ ++ . .+.|+....++....++.+|+++ |... -+.|.+..|.+
T Consensus 171 ~~~~v~~H~af~Y~~~~~gl~~~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~i-f~e~~~~~~~~~~la~~~g~~ 245 (282)
T cd01017 171 GKTFVTQHAAFGYLARRYGLKQIAIVGVSPEVEPSPKQLAELVEFVKKSDVKYI-FFEENASSKIAETLAKETGAK 245 (282)
T ss_pred CCeEEEecccHHHHHHHCCCeEEecccCCCCCCCCHHHHHHHHHHHHHcCCCEE-EEeCCCChHHHHHHHHHcCCc
Confidence 44444455566655332 12222 12 2 23444666788888999999999 4431 13455556643
No 320
>PRK07561 DNA topoisomerase I subunit omega; Validated
Probab=30.07 E-value=46 Score=29.73 Aligned_cols=76 Identities=9% Similarity=0.055 Sum_probs=48.3
Q ss_pred ecHHHHHHHHhc--CCceEEEEeCCCCchh---hhhHHHHHHhCCCcEEEe---cCCHHHHHhhhCCcccEEEEEEeCcC
Q 033750 29 LGYKTVLRSLRS--SKGKLILLSNNCPPLR---KSEIEYYAMLAKVGVHHY---NGNNVDLGTACGKYFRVSCLSIIDPG 100 (112)
Q Consensus 29 ~G~~~v~kai~~--gka~lVilA~D~s~~~---~~~i~~~c~~~~Ip~i~~---~~sk~eLG~a~Gk~~~~~vvaI~d~g 100 (112)
.|...+.+.|++ .++..||+|+|.+... -.+|..++...+.|+... ..|+.++=+|+..+.... ..+.+.+
T Consensus 71 ~~k~~~~~~lk~~~k~ad~iilAtD~DREGE~I~~~i~~~l~~~~~~v~Ri~f~~iT~~aI~~A~~n~~~~~-~~l~~A~ 149 (859)
T PRK07561 71 PGKEKVVSELKKAAKDADELYLATDPDREGEAIAWHLLEVLGGDDVPVKRVVFNEITKNAIQEAFENPRELD-INLVNAQ 149 (859)
T ss_pred ccHHHHHHHHHHHHhcCCEEEECCCCCccchHHHHHHHHHhCCCCCCeEEEEEccCCHHHHHHHHhCcccCC-HHHHHHH
Confidence 344455555543 4688999999998753 466777776444555432 348999999998776553 3444444
Q ss_pred chHHH
Q 033750 101 DSDII 105 (112)
Q Consensus 101 ~a~~i 105 (112)
.|..+
T Consensus 150 ~aRr~ 154 (859)
T PRK07561 150 QARRF 154 (859)
T ss_pred HHHHH
Confidence 44444
No 321
>PRK02936 argD acetylornithine aminotransferase; Provisional
Probab=29.91 E-value=1.1e+02 Score=23.59 Aligned_cols=41 Identities=10% Similarity=0.028 Sum_probs=28.5
Q ss_pred HHHHHHHhcCCceEEEEe--------CCCCchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLS--------NNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA--------~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+...+.+. .+.++||+- ...++...+.+..+|++++++++.
T Consensus 158 ~~l~~~~~-~~~~~ii~e~i~~~~G~~~~~~~~l~~l~~l~~~~~~~lI~ 206 (377)
T PRK02936 158 KALKEVMN-EEVAAVMLEVVQGEGGVIPADPAFLQEVQTLCKKFGALLII 206 (377)
T ss_pred HHHHHhcc-CCeEEEEEecccCCCCCccCCHHHHHHHHHHHHHcCCEEEE
Confidence 34444443 456777773 234557789999999999999984
No 322
>cd04501 SGNH_hydrolase_like_4 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=29.86 E-value=69 Score=21.86 Aligned_cols=46 Identities=13% Similarity=-0.003 Sum_probs=28.2
Q ss_pred eecHHHHHHHHhcCCceEEEEeCC------C-------Cc---hhhhhHHHHHHhCCCcEEE
Q 033750 28 TLGYKTVLRSLRSSKGKLILLSNN------C-------PP---LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 28 v~G~~~v~kai~~gka~lVilA~D------~-------s~---~~~~~i~~~c~~~~Ip~i~ 73 (112)
..+.++..+.+++..+.+|++..- . .+ ...+.+..+|.+.++|++.
T Consensus 82 ~~~~~~li~~~~~~~~~~il~~~~p~~~~~~~~~~~~~~~~~~~~n~~~~~~a~~~~v~~vd 143 (183)
T cd04501 82 KDNIRSMVELAEANGIKVILASPLPVDDYPWKPQWLRPANKLKSLNRWLKDYARENGLLFLD 143 (183)
T ss_pred HHHHHHHHHHHHHCCCcEEEEeCCCcCccccchhhcchHHHHHHHHHHHHHHHHHcCCCEEe
Confidence 344556666666666777776521 1 01 1234567789999999996
No 323
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=29.85 E-value=2.5e+02 Score=21.31 Aligned_cols=72 Identities=14% Similarity=0.086 Sum_probs=45.9
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEec---CCHHHHHhhh-CCcccEEEEEEeCcCchH
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYN---GNNVDLGTAC-GKYFRVSCLSIIDPGDSD 103 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~---~sk~eLG~a~-Gk~~~~~vvaI~d~g~a~ 103 (112)
.++..+++++=++.-|+...=.|+..+..++.+|++.++..+. + -+.++|-..+ -..+.+-++++-..|+-+
T Consensus 75 ve~L~~~l~~l~~d~iv~GaI~s~yqk~rve~lc~~lGl~~~~-PLWg~d~~ell~e~~~~Gf~~~Iv~Vsa~gL~~ 150 (223)
T COG2102 75 VEELKEALRRLKVDGIVAGAIASEYQKERVERLCEELGLKVYA-PLWGRDPEELLEEMVEAGFEAIIVAVSAEGLDE 150 (223)
T ss_pred HHHHHHHHHhCcccEEEEchhhhHHHHHHHHHHHHHhCCEEee-cccCCCHHHHHHHHHHcCCeEEEEEEeccCCCh
Confidence 3444555555445555544445668999999999999986663 3 2666666555 232555568887777654
No 324
>COG1105 FruK Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]
Probab=29.80 E-value=2.5e+02 Score=22.32 Aligned_cols=47 Identities=17% Similarity=0.128 Sum_probs=37.0
Q ss_pred CCceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 41 SKGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 41 gka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
.+.-+|++|...++ +.=.++...|++.+++++ +.-|.+.|-.++--+
T Consensus 128 ~~~d~VvlsGSlP~g~~~d~y~~li~~~~~~g~~vi-lD~Sg~~L~~~L~~~ 178 (310)
T COG1105 128 ESDDIVVLSGSLPPGVPPDAYAELIRILRQQGAKVI-LDTSGEALLAALEAK 178 (310)
T ss_pred ccCCEEEEeCCCCCCCCHHHHHHHHHHHHhcCCeEE-EECChHHHHHHHccC
Confidence 44566999996665 444777889999999999 588999998888655
No 325
>PLN02242 methionine gamma-lyase
Probab=29.57 E-value=1.1e+02 Score=24.76 Aligned_cols=43 Identities=19% Similarity=0.185 Sum_probs=31.2
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCch----hhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPL----RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~----~~~~i~~~c~~~~Ip~i~ 73 (112)
.+++.+++..++.++|++-+=.+|. -.+.|..+|++++++++.
T Consensus 152 ~e~l~~~i~~~~tklV~lesp~NPtG~v~dl~~I~~la~~~gi~liv 198 (418)
T PLN02242 152 LEAVKKAVVPGKTKVLYFESISNPTLTVADIPELARIAHEKGVTVVV 198 (418)
T ss_pred HHHHHHhcCcCCCEEEEEecCCCCCCcccCHHHHHHHHHHhCCEEEE
Confidence 4567777765568888887665552 247788899999999985
No 326
>TIGR01117 mmdA methylmalonyl-CoA decarboxylase alpha subunit. This model describes methymalonyl-CoA decarboxylase aplha subunit in archaea and bacteria. Metylmalonyl-CoA decarboxylase Na+ pump is a representative of a class of Na+ transport decarboxylases that couples the energy derived by decarboxylation of carboxylic acid substrates to drive the extrusion of Na+ ion across the membrane.
Probab=29.56 E-value=77 Score=26.65 Aligned_cols=34 Identities=3% Similarity=0.006 Sum_probs=23.2
Q ss_pred ceEEEEeCCCC-------chhh---hhHHHHHHhCCCcEEEecC
Q 033750 43 GKLILLSNNCP-------PLRK---SEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 43 a~lVilA~D~s-------~~~~---~~i~~~c~~~~Ip~i~~~~ 76 (112)
-.+.|+|+|.. ++.- .++..+|.+.++|++.+++
T Consensus 315 ~~V~vvAnd~~~~~G~~~~~~~~K~~r~i~~a~~~~lPlV~lvD 358 (512)
T TIGR01117 315 QSVGIIANQPKVMAGCLDIDSSDKIARFIRFCDAFNIPIVTFVD 358 (512)
T ss_pred EEEEEEEeccccccCCCCHHHHHHHHHHHHHHHHcCCCEEEEEe
Confidence 36688899942 3333 4456799999999996533
No 327
>cd03015 PRX_Typ2cys Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides. The functional unit of typical 2-cys PRX is a homodimer. A unique intermolecular redox-active disulfide center is utilized for its activity. Upon reaction with peroxides, its peroxidatic cysteine is oxidized into a sulfenic acid intermediate which is resolved by bonding with the resolving cysteine from the other subunit of the homodimer. This intermolecular disulfide bond is then reduced by thioredoxin, tryparedoxin or AhpF. Typical 2-cys PRXs, like 1-cys PRXs, form decamers which are stabilized by reduction of the active site cysteine. Typical 2-cys PRX interacts through beta strands at one edge of the monomer (B-type interface) to form the functional homodimer, and uses an A-type interface (similar to the dimeric
Probab=29.51 E-value=1.9e+02 Score=19.88 Aligned_cols=57 Identities=7% Similarity=0.029 Sum_probs=30.6
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHH---hCCCcEEEecCCHHHHHhhhCCc
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAM---LAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~---~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
++..+.+....+.++.++.|..+....-.....+ ..+.|+..+.+...++.+.+|..
T Consensus 53 ~~~~~~~~~~~v~vv~Is~d~~~~~~~~~~~~~~~~~~~~~~f~~l~D~~~~~~~~~gv~ 112 (173)
T cd03015 53 SDRYEEFKKLNAEVLGVSTDSHFSHLAWRNTPRKEGGLGKINFPLLADPKKKISRDYGVL 112 (173)
T ss_pred HHHHHHHHHCCCEEEEEecCCHHHHHHHHHhhhhhCCccCcceeEEECCchhHHHHhCCc
Confidence 3445555556688888887754332222222111 13344443345667888888853
No 328
>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins. TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].
Probab=29.51 E-value=1.2e+02 Score=24.03 Aligned_cols=75 Identities=11% Similarity=0.094 Sum_probs=51.8
Q ss_pred hhHHHHHHHHHHHHHhCC-ceecHHHHHHHHhcCCceEEEE-------eCCCCc--hhhhhHHHHHHhCCCcEEEecCCH
Q 033750 9 KTHESINNRLALVMKSGK-YTLGYKTVLRSLRSSKGKLILL-------SNNCPP--LRKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 9 ~~~~~i~~~Lgla~kagk-lv~G~~~v~kai~~gka~lVil-------A~D~s~--~~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
.....|++.|+.=.+... ...=..++..-++.=.++++|+ ++.... ....-+..+|++.+||++ .+||.
T Consensus 111 ~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV-~vGt~ 189 (302)
T PF05621_consen 111 RFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIV-GVGTR 189 (302)
T ss_pred HHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeE-EeccH
Confidence 455677777776665433 3333455778888888999886 333333 244667889999999999 59999
Q ss_pred HHHHhh
Q 033750 79 VDLGTA 84 (112)
Q Consensus 79 ~eLG~a 84 (112)
+..-..
T Consensus 190 ~A~~al 195 (302)
T PF05621_consen 190 EAYRAL 195 (302)
T ss_pred HHHHHh
Confidence 887643
No 329
>PRK10200 putative racemase; Provisional
Probab=29.49 E-value=88 Score=23.20 Aligned_cols=38 Identities=18% Similarity=0.132 Sum_probs=28.8
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+..+.+.+..+.++++|.|..-...+.+. +..+||++.
T Consensus 66 ~~~~~L~~~g~~~iviaCNTah~~~~~l~---~~~~iPii~ 103 (230)
T PRK10200 66 EAALGLQRAGAEGIVLCTNTMHKVADAIE---SRCSLPFLH 103 (230)
T ss_pred HHHHHHHHcCCCEEEECCchHHHHHHHHH---HhCCCCEee
Confidence 45556677779999999999887655554 456899996
No 330
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=29.48 E-value=1.5e+02 Score=21.04 Aligned_cols=43 Identities=19% Similarity=0.037 Sum_probs=24.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
.+..+.+...++.-+|+..--++.....+. .+...+||++. .+
T Consensus 45 ~~~~~~~~~~~vdgiii~~~~~~~~~~~~~-~~~~~~ipvV~-~~ 87 (267)
T cd06322 45 LSDVEDFITKKVDAIVLSPVDSKGIRAAIA-KAKKAGIPVIT-VD 87 (267)
T ss_pred HHHHHHHHHcCCCEEEEcCCChhhhHHHHH-HHHHCCCCEEE-Ec
Confidence 345555566677777774422222233343 45678899985 44
No 331
>PF07505 Gp37_Gp68: Phage protein Gp37/Gp68; InterPro: IPR011101 This entry is represented by Burkholderia phage phiE125, Gp37. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=29.46 E-value=89 Score=24.10 Aligned_cols=33 Identities=12% Similarity=0.030 Sum_probs=25.8
Q ss_pred cCCceEEEEeCCCCchh-------hhhHHHHHHhCCCcEE
Q 033750 40 SSKGKLILLSNNCPPLR-------KSEIEYYAMLAKVGVH 72 (112)
Q Consensus 40 ~gka~lVilA~D~s~~~-------~~~i~~~c~~~~Ip~i 72 (112)
...+..||+..-..+.- .+.|.+.|..++||+.
T Consensus 186 ~~~IdWVIvGGESG~~ARp~~~~Wvr~irdqC~~~gvpFf 225 (261)
T PF07505_consen 186 LEGIDWVIVGGESGPGARPMHPDWVRSIRDQCAAAGVPFF 225 (261)
T ss_pred CCCCCEEEECCCcCCCCCcCCHHHHHHHHHHHHHcCCcEE
Confidence 35577888887655433 4889999999999998
No 332
>PRK05647 purN phosphoribosylglycinamide formyltransferase; Reviewed
Probab=29.40 E-value=1.5e+02 Score=21.65 Aligned_cols=40 Identities=8% Similarity=0.089 Sum_probs=25.5
Q ss_pred HHHHHHHHhcCC--ceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSK--GKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gk--a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
...+++++.++. +.++++=+|-+. .....+|++.+||++.
T Consensus 15 ~~~ll~~~~~~~~~~~I~~vvs~~~~---~~~~~~a~~~gIp~~~ 56 (200)
T PRK05647 15 LQAIIDACAAGQLPAEIVAVISDRPD---AYGLERAEAAGIPTFV 56 (200)
T ss_pred HHHHHHHHHcCCCCcEEEEEEecCcc---chHHHHHHHcCCCEEE
Confidence 456777777765 444443344332 1257789999999985
No 333
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=29.36 E-value=1.7e+02 Score=20.76 Aligned_cols=39 Identities=15% Similarity=0.043 Sum_probs=22.3
Q ss_pred HHHHHHhcCCceEEEEeC-CCCchhhhhHHHHHHhCCCcEEEecC
Q 033750 33 TVLRSLRSSKGKLILLSN-NCPPLRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~-D~s~~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
++...+.++++.-+|+.. +.+. .....+...+||++. .+
T Consensus 51 ~~~~~~~~~~~dgiii~~~~~~~----~~~~~~~~~~ipvV~-~~ 90 (270)
T cd06294 51 EVKKMIQQKRVDGFILLYSREDD----PIIDYLKEEKFPFVV-IG 90 (270)
T ss_pred HHHHHHHHcCcCEEEEecCcCCc----HHHHHHHhcCCCEEE-EC
Confidence 444556667666666643 3322 234445678899884 44
No 334
>PRK12290 thiE thiamine-phosphate pyrophosphorylase; Reviewed
Probab=29.25 E-value=1.9e+02 Score=24.13 Aligned_cols=62 Identities=13% Similarity=-0.023 Sum_probs=44.2
Q ss_pred HHHHHHHhcCCceEEEEeCCCCch----hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPL----RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~----~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
+.+.++++.|-..+-+=..|.++. ..+++..+|+.+++|++ ..+..+|...+|-. .++ ++=.
T Consensus 221 ~~ve~aL~aGv~~VQLReK~ls~~el~~la~~l~~l~~~~gv~Li--IND~~dlAl~~gAd-GVH-LGQe 286 (437)
T PRK12290 221 EWIERLLPLGINTVQLRIKDPQQADLEQQIIRAIALGREYNAQVF--INDYWQLAIKHQAY-GVH-LGQE 286 (437)
T ss_pred HHHHHHHhCCCCEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCEEE--EECHHHHHHHcCCC-EEE-cChH
Confidence 457777777765555667777753 33677889999999998 57889999888754 453 5543
No 335
>PLN02884 6-phosphofructokinase
Probab=29.08 E-value=86 Score=25.73 Aligned_cols=52 Identities=15% Similarity=0.091 Sum_probs=40.4
Q ss_pred CceecHHHHHHHHhcCC-ceEEEEeCCCCchhhhhHHHHHHhCC--CcEEEecCC
Q 033750 26 KYTLGYKTVLRSLRSSK-GKLILLSNNCPPLRKSEIEYYAMLAK--VGVHHYNGN 77 (112)
Q Consensus 26 klv~G~~~v~kai~~gk-a~lVilA~D~s~~~~~~i~~~c~~~~--Ip~i~~~~s 77 (112)
+.....+++.+.+++.. -.|+++..|-|-....+|.++|.+.+ ||++-.+.|
T Consensus 127 R~~~~~~~i~~~L~~~~Id~LivIGGdgS~~~a~~L~~~~~~~g~~i~vIGIPkT 181 (411)
T PLN02884 127 RGGAKTSDIVDSIEARGINMLFVLGGNGTHAGANAIHNECRKRKMKVSVVGVPKT 181 (411)
T ss_pred CCCccHHHHHHHHHHcCCCEEEEECCchHHHHHHHHHHHHHHcCCCceEEecccc
Confidence 33346788999997755 56889999999999999999888866 898864434
No 336
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=28.90 E-value=1.7e+02 Score=20.69 Aligned_cols=38 Identities=13% Similarity=0.061 Sum_probs=22.2
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+..+.+....+.-||+....... ..+ ..+...+||++.
T Consensus 46 ~~~~~l~~~~vdgiIi~~~~~~~--~~~-~~l~~~~ipvV~ 83 (265)
T cd06299 46 RYLDNLLSQRVDGIIVVPHEQSA--EQL-EDLLKRGIPVVF 83 (265)
T ss_pred HHHHHHHhcCCCEEEEcCCCCCh--HHH-HHHHhCCCCEEE
Confidence 34555667778777776543221 223 344567899884
No 337
>cd06380 PBP1_iGluR_AMPA N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor, a member of the glutamate-receptor ion channels (iGluRs). AMPA receptors are the major mediators of excitatory synaptic transmission in the central nervous system. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. AMPA receptors consist of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important roles in mediating the rapid excita
Probab=28.81 E-value=95 Score=23.96 Aligned_cols=46 Identities=7% Similarity=-0.082 Sum_probs=29.1
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
...+.+.+.+.+| +. .|+...+|. ...-+..+|+..+||++.+..+
T Consensus 50 ~~~~~~c~ll~~~-V~-aiiGp~~s~-~~~~~~~~~~~~~iP~i~~~~~ 95 (382)
T cd06380 50 ALTNAICSQLSRG-VF-AIFGSYDKS-SVNTLTSYSDALHVPFITPSFP 95 (382)
T ss_pred HHHHHHHHHHhcC-cE-EEEecCcHH-HHHHHHHHHhcCCCCeEecCCC
Confidence 3456677777553 43 445554444 4456788899999999963333
No 338
>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=28.80 E-value=2.2e+02 Score=20.39 Aligned_cols=64 Identities=11% Similarity=-0.008 Sum_probs=46.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
.++..+...|--.+++.+.|.+++..+.+...+...++.++....+-+|+-++.-... ..++++
T Consensus 85 ~~v~~~~~~Gad~v~l~~~~~~~~~~~~~~~~~~~~g~~~~v~v~~~~e~~~~~~~g~--~~i~~t 148 (217)
T cd00331 85 YQIYEARAAGADAVLLIVAALDDEQLKELYELARELGMEVLVEVHDEEELERALALGA--KIIGIN 148 (217)
T ss_pred HHHHHHHHcCCCEEEEeeccCCHHHHHHHHHHHHHcCCeEEEEECCHHHHHHHHHcCC--CEEEEe
Confidence 4678888888778888899988777777777788888876534568887777665432 245666
No 339
>PTZ00340 O-sialoglycoprotein endopeptidase-like protein; Provisional
Probab=28.76 E-value=1e+02 Score=24.67 Aligned_cols=44 Identities=7% Similarity=-0.033 Sum_probs=33.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCCch--hhhhHHHHHHhCCCcEEEecC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPL--RKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~--~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
+.+..+++.-..+=|+++.=.+.| .++.+..+|++++++++ |+.
T Consensus 253 ~k~~~a~~~~~~~~lvv~GGVAaN~~LR~~l~~~~~~~~~~~~-~p~ 298 (345)
T PTZ00340 253 EVTERAMSHCGSNEVLIVGGVGCNLRLQEMMQQMAKERGGKLF-AMD 298 (345)
T ss_pred HHHHHHHHHhCCCeEEEcCCHHHHHHHHHHHHHHHHHcCCEEE-eCC
Confidence 445666665556668888888775 67899999999999988 554
No 340
>PLN03028 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Provisional
Probab=28.73 E-value=57 Score=28.25 Aligned_cols=48 Identities=13% Similarity=0.052 Sum_probs=35.9
Q ss_pred cHHHHHHHHhcCC-ceEEEEeCCCCchhhhhHHHHHHhC--CCcEEEecCC
Q 033750 30 GYKTVLRSLRSSK-GKLILLSNNCPPLRKSEIEYYAMLA--KVGVHHYNGN 77 (112)
Q Consensus 30 G~~~v~kai~~gk-a~lVilA~D~s~~~~~~i~~~c~~~--~Ip~i~~~~s 77 (112)
+.+++.+.+++-. -.||++..|-|-.....|..++.+. +||++..+.|
T Consensus 161 ~~~~i~e~l~~l~Id~LvvIGGddS~~~A~~Lae~~~~~~~~i~VIGIPKT 211 (610)
T PLN03028 161 QVNAALAACEALKLDGLVIIGGVTSNTDAAQLAETFAEAKCKTKVVGVPVT 211 (610)
T ss_pred HHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHHcCCCceEEEecee
Confidence 5677777886655 6688889999888888888877765 6888863333
No 341
>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=28.66 E-value=1e+02 Score=21.19 Aligned_cols=28 Identities=11% Similarity=0.024 Sum_probs=24.2
Q ss_pred EEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 45 LILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 45 lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
+||++...++.+.+.+..-++++++|++
T Consensus 2 ~vFvS~SMP~~~Lk~l~~~a~~~g~~~V 29 (130)
T TIGR02742 2 MVFVSFSMPEPLLKQLLDQAEALGAPLV 29 (130)
T ss_pred EEEEEcCCCHHHHHHHHHHHHHhCCeEE
Confidence 6888888898888888888888999988
No 342
>PRK10342 glycerate kinase I; Provisional
Probab=28.63 E-value=1.3e+02 Score=24.52 Aligned_cols=73 Identities=12% Similarity=0.061 Sum_probs=47.2
Q ss_pred hCCceecHHHHHHHHhc----CCceEEEEeCCCCch------hhhhHHHHHHhCCCcEEEecCCH-H--HHHhhhCCccc
Q 033750 24 SGKYTLGYKTVLRSLRS----SKGKLILLSNNCPPL------RKSEIEYYAMLAKVGVHHYNGNN-V--DLGTACGKYFR 90 (112)
Q Consensus 24 agklv~G~~~v~kai~~----gka~lVilA~D~s~~------~~~~i~~~c~~~~Ip~i~~~~sk-~--eLG~a~Gk~~~ 90 (112)
.+++..|++-|.+.+.- ..+-|||-.+=.-+. +--.+-++|+.+++|++-+.++- . +--...|..
T Consensus 262 ga~l~~G~d~v~~~~~l~~~l~~ADLVITGEG~~D~QTl~GK~p~gVa~~A~~~~vPviai~G~~~~~~~~~~~~g~~-- 339 (381)
T PRK10342 262 GAELKSGIEIVTTALNLEEHIHDCTLVITGEGRIDSQSIHGKVPIGVANVAKKYHKPVIGIAGSLTDDVGVVHQHGID-- 339 (381)
T ss_pred CCEECCHHHHHHHhcCHHHHhccCCEEEECCCcCcccccCCccHHHHHHHHHHhCCCEEEEecccCCChHHHHhcCce--
Confidence 47789999999888732 447888887654332 22566779999999999766642 1 112223432
Q ss_pred EEEEEEeCc
Q 033750 91 VSCLSIIDP 99 (112)
Q Consensus 91 ~~vvaI~d~ 99 (112)
++..|.+.
T Consensus 340 -av~~i~~~ 347 (381)
T PRK10342 340 -AVFSVLTS 347 (381)
T ss_pred -EEEEcCCC
Confidence 35777664
No 343
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=28.35 E-value=1.9e+02 Score=20.34 Aligned_cols=39 Identities=26% Similarity=0.125 Sum_probs=28.4
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHH
Q 033750 25 GKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYY 63 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~ 63 (112)
-.+.-|..+.++.+++....+.|+++...+.....+..+
T Consensus 86 ~~l~~G~~~~L~~L~~~g~~~~ivT~~~~~~~~~~l~~~ 124 (220)
T TIGR03351 86 PVALPGAEEAFRSLRSSGIKVALTTGFDRDTAERLLEKL 124 (220)
T ss_pred CccCCCHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHHh
Confidence 368899999999998777777777766655555555443
No 344
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=28.24 E-value=1.6e+02 Score=21.10 Aligned_cols=42 Identities=17% Similarity=0.062 Sum_probs=22.2
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
.++.+...++--+|+....+..... ....+...+||++. +++
T Consensus 47 ~i~~l~~~~vdgiIi~~~~~~~~~~-~i~~~~~~~iPvV~-~~~ 88 (273)
T cd06309 47 AIRSFIAQGVDVIILAPVVETGWDP-VLKEAKAAGIPVIL-VDR 88 (273)
T ss_pred HHHHHHHcCCCEEEEcCCccccchH-HHHHHHHCCCCEEE-Eec
Confidence 3445555566666665432221222 33445677899884 443
No 345
>cd00617 Tnase_like Tryptophanase family (Tnase). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to tryptophanase (Tnase) and tyrosine phenol-lyase (TPL). Tnase and TPL are active as tetramers and catalyze beta-elimination reactions. Tnase catalyzes degradation of L-tryptophan to yield indole, pyruvate and ammonia and TPL catalyzes degradation of L-tyrosine to yield phenol, pyruvate and ammonia.
Probab=28.14 E-value=1.1e+02 Score=24.98 Aligned_cols=43 Identities=16% Similarity=0.083 Sum_probs=27.9
Q ss_pred HHHHHHHHhcC---CceEEEEe--CC------CCchhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSS---KGKLILLS--NN------CPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~g---ka~lVilA--~D------~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+.+.++|... +.++|++. ++ ++.+..+.+..+|++++||++.
T Consensus 138 ~e~Le~~I~~~~~~~~~~I~v~~p~N~~gG~~~s~~~l~~i~eia~~~gi~li~ 191 (431)
T cd00617 138 VAKLEKLIDEVGAENIPYIVLTITNNTAGGQPVSMANLREVRELAHKYGIPVVL 191 (431)
T ss_pred HHHHHHHhCcccCCCccEEEEECCcCCCCCccCCHHHHHHHHHHHHHcCCEEEE
Confidence 45666777533 36677764 22 1223456788999999999984
No 346
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=28.05 E-value=1.2e+02 Score=19.47 Aligned_cols=22 Identities=36% Similarity=0.225 Sum_probs=14.9
Q ss_pred hHHHHHHhCCCcEEEecCCHHHH
Q 033750 59 EIEYYAMLAKVGVHHYNGNNVDL 81 (112)
Q Consensus 59 ~i~~~c~~~~Ip~i~~~~sk~eL 81 (112)
.+..+....++|++ ++.+|.++
T Consensus 96 ~~~~~~~~~~~pii-iv~nK~D~ 117 (157)
T cd01894 96 EIAKYLRKSKKPVI-LVVNKVDN 117 (157)
T ss_pred HHHHHHHhcCCCEE-EEEECccc
Confidence 45556666789998 57777554
No 347
>COG1151 6Fe-6S prismane cluster-containing protein [Energy production and conversion]
Probab=27.99 E-value=1.8e+02 Score=25.16 Aligned_cols=59 Identities=19% Similarity=0.233 Sum_probs=38.4
Q ss_pred HHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHHh--CCCcEEE-----ecCCHHHHHhhhCCcccE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAML--AKVGVHH-----YNGNNVDLGTACGKYFRV 91 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~~--~~Ip~i~-----~~~sk~eLG~a~Gk~~~~ 91 (112)
.+.++|++|+.+=|+.=.-|+- +....+..+.+. .++-+.+ |.+.+.++|.++|.|+..
T Consensus 398 ~lielI~sGkIKgv~~v~GCd~~~~~~~yvt~~keliprD~lVLt~GCgk~~~~~~~vc~~lGIPpVL 465 (576)
T COG1151 398 PLIELIASGKIKGVVVVVGCDGLRSGRHYVTLFKELIPRDILVLTLGCGKYRFNKADVGDILGIPRVL 465 (576)
T ss_pred HHHHHHhcCCcceEEEEeeCCCCCCCcccHHHHHHhcccceEEEecccchhhhhhhccccccCCCccc
Confidence 6889999999876655554543 444444444443 3444443 456778999999999654
No 348
>PRK05600 thiamine biosynthesis protein ThiF; Validated
Probab=27.91 E-value=78 Score=25.37 Aligned_cols=31 Identities=13% Similarity=-0.025 Sum_probs=25.7
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
..-+||-+.|- ..++..+.++|..+++|++.
T Consensus 131 ~~DlVid~~Dn-~~~r~~in~~~~~~~iP~v~ 161 (370)
T PRK05600 131 GVDLVLDGSDS-FATKFLVADAAEITGTPLVW 161 (370)
T ss_pred CCCEEEECCCC-HHHHHHHHHHHHHcCCCEEE
Confidence 37788888887 45778889999999999993
No 349
>TIGR02346 chap_CCT_theta T-complex protein 1, theta 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 alpha chain (part of a paralogous family) from animals, plants, fungi, and other eukaryotes.
Probab=27.90 E-value=2.2e+02 Score=23.83 Aligned_cols=51 Identities=12% Similarity=0.124 Sum_probs=32.7
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHH---HHHhhhCCc
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNV---DLGTACGKY 88 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~---eLG~a~Gk~ 88 (112)
..++.+.+..+-+||...+.++. ..+++..++|.++. +.+.. .|..++|-.
T Consensus 270 ~~l~~i~~~g~~lvi~~~~I~d~----~~~~l~~~~I~av~-~~~~~~l~~Ia~~tGa~ 323 (531)
T TIGR02346 270 AYIKAIADSGVNVIVTGGSVGDM----ALHYCEKYNIMVLK-IPSKFELRRLCKTVGAT 323 (531)
T ss_pred HHHHHHHHcCCcEEEECCCcCHH----HHHHHHHCCcEEEe-cCCHHHHHHHHHHHCCE
Confidence 34445555567888877778773 34466688999986 55544 556666643
No 350
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=27.89 E-value=1.6e+02 Score=21.96 Aligned_cols=39 Identities=18% Similarity=0.135 Sum_probs=23.4
Q ss_pred HHHHHHhcC--CceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSS--KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~g--ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+..+.+.+. .+.-+|+....+ ....+...+...+||++.
T Consensus 47 ~~i~~~~~~~~~vdgiIi~~~~~--~~~~~~~~~~~~giPvV~ 87 (305)
T cd06324 47 QQARTILQRPDKPDALIFTNEKS--VAPELLRLAEGAGVKLFL 87 (305)
T ss_pred HHHHHHHHhccCCCEEEEcCCcc--chHHHHHHHHhCCCeEEE
Confidence 334445555 787777765432 223344556778999995
No 351
>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=27.89 E-value=1.7e+02 Score=19.97 Aligned_cols=55 Identities=13% Similarity=0.031 Sum_probs=34.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC-C--------HHHHHhhhCCccc
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG-N--------NVDLGTACGKYFR 90 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~-s--------k~eLG~a~Gk~~~ 90 (112)
+.-.+.|.+=+--+||......++ +....++.++|++.+.. + -..||+++|++.+
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 445677777778888875543332 33444677899874322 1 2378999987543
No 352
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=27.85 E-value=1.9e+02 Score=20.61 Aligned_cols=43 Identities=5% Similarity=-0.155 Sum_probs=24.7
Q ss_pred HHHHHHhcCCceEEEEeC-CCCc-hhhhhHHHHHHhCCCcEEEecC
Q 033750 33 TVLRSLRSSKGKLILLSN-NCPP-LRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~-D~s~-~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
+..+.+...++.-+|+.+ +.++ .........+...++|++. .+
T Consensus 46 ~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~i~~~~~~~ipvV~-i~ 90 (273)
T cd06292 46 DYVEDLLARGVRGVVFISSLHADTHADHSHYERLAERGLPVVL-VN 90 (273)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCcccchhHHHHHHHhCCCCEEE-Ec
Confidence 556777777888777754 2221 1122222334567899984 54
No 353
>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=27.66 E-value=3.1e+02 Score=25.15 Aligned_cols=58 Identities=17% Similarity=0.115 Sum_probs=43.0
Q ss_pred cCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchH
Q 033750 40 SSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSD 103 (112)
Q Consensus 40 ~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~a~ 103 (112)
+++..-|+++.++-|.+..-+..+++..++.++. . +-++|-..+ + ++++-+..|++.-
T Consensus 150 ~~~~~~vlv~~~~hP~~~~v~~t~a~~~g~~v~~-~-~~~~l~~~~--~--~~~v~~q~Pn~~G 207 (939)
T TIGR00461 150 KKKANKFFVAKDLHPQTKSVLHTRAKPFGIEVIV-V-DCSDIKKAV--D--VFGCLLQYPATDG 207 (939)
T ss_pred cCCCCEEEECCCCCcchHHHHHHHHHhcCcEEEE-E-cHHHHhhcC--C--EEEEEEECCCCCe
Confidence 3445679999999999999999999999999985 4 456676655 2 3356677776543
No 354
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. 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. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=27.52 E-value=1.5e+02 Score=19.91 Aligned_cols=44 Identities=11% Similarity=0.215 Sum_probs=27.7
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCchhh------hhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPLRK------SEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~~~------~~i~~~c~~~~Ip~i~ 73 (112)
-|+++.++.++.|++..|++.. .+--.+ .-+..+++.++|.++.
T Consensus 55 p~l~~ll~~~~~g~vd~vvv~~-ldRl~R~~~d~~~~~~~l~~~~gv~l~~ 104 (140)
T cd03770 55 PGFNRMIEDIEAGKIDIVIVKD-MSRLGRNYLKVGLYMEILFPKKGVRFIA 104 (140)
T ss_pred HHHHHHHHHHHcCCCCEEEEec-cchhccCHHHHHHHHHHHHhhcCcEEEE
Confidence 4677788889999888766643 433222 2233444456999984
No 355
>PF01039 Carboxyl_trans: Carboxyl transferase domain; InterPro: IPR000022 Members in this domain include biotin dependent carboxylases [, ]. The carboxyl transferase domain carries out the following reaction; transcarboxylation from biotin to an acceptor molecule. There are two recognised types of carboxyl transferase. One of them uses acyl-CoA and the other uses 2-oxo acid as the acceptor molecule of carbon dioxide. All of the members in this family utilise acyl-CoA as the acceptor molecule.; GO: 0016874 ligase activity; PDB: 2F9Y_B 1XO6_B 1XNV_B 3MFM_C 3IBB_A 1XNW_F 3IAV_B 1XNY_A 3IB9_A 3U9S_F ....
Probab=27.47 E-value=43 Score=27.82 Aligned_cols=34 Identities=9% Similarity=0.003 Sum_probs=20.3
Q ss_pred ceEEEEeCCC-------Cchh---hhhHHHHHHhCCCcEEEecC
Q 033750 43 GKLILLSNNC-------PPLR---KSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 43 a~lVilA~D~-------s~~~---~~~i~~~c~~~~Ip~i~~~~ 76 (112)
--+.|+|+|. .++. ..++..+|..+++|++++.+
T Consensus 294 ~pVGiian~~~~~~G~~~~~~a~K~arfi~lcd~~~iPlv~l~d 337 (493)
T PF01039_consen 294 RPVGIIANNPRQRAGALDPDGARKAARFIRLCDAFNIPLVTLVD 337 (493)
T ss_dssp EEEEEEEE-TTCGGGEB-HHHHHHHHHHHHHHHHTT--EEEEEE
T ss_pred cceEEEEeccccccccCChHHHHHHHHHHHHHHhhCCceEEEee
Confidence 3467889984 2222 35567799999999997433
No 356
>PRK09517 multifunctional thiamine-phosphate pyrophosphorylase/synthase/phosphomethylpyrimidine kinase; Provisional
Probab=27.33 E-value=2.4e+02 Score=24.79 Aligned_cols=62 Identities=15% Similarity=0.097 Sum_probs=42.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchh----hhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLR----KSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~----~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
+.+.+++..|-..+.+=..|.+++. .+.+..+|..++++++ +.+..+|...+|-+ ++ ++-.|
T Consensus 23 ~~l~~~l~~g~~~iqlR~K~~~~~~~~~~a~~l~~l~~~~~~~li--ind~~~la~~~~~d--VH-lg~~d 88 (755)
T PRK09517 23 GIVDSAISGGVSVVQLRDKNAGVEDVRAAAKELKELCDARGVALV--VNDRLDVAVELGLH--VH-IGQGD 88 (755)
T ss_pred HHHHHHHhcCCCEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCeEE--EeChHHHHHHcCCC--ee-cCCCc
Confidence 3455667766444444456666533 4667788999999998 57889999999876 53 55433
No 357
>cd06452 SepCysS Sep-tRNA:Cys-tRNA synthase. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Cys-tRNA(Cys) is produced by O-phosphoseryl-tRNA synthetase which ligates O-phosphoserine (Sep) to tRNA(Cys), and Sep-tRNA:Cys-tRNA synthase (SepCysS) converts Sep-tRNA(Cys) to Cys-tRNA(Cys), in methanogenic archaea. SepCysS forms a dimer, each monomer is composed of a large and small domain; the larger, a typical pyridoxal 5'-phosphate (PLP)-dependent-like enzyme fold. In the active site of each monomer, PLP is covalently bound to a conserved Lys residue near the dimer interface.
Probab=27.33 E-value=1.4e+02 Score=22.94 Aligned_cols=42 Identities=12% Similarity=-0.025 Sum_probs=28.1
Q ss_pred HHHHHHHhc------CCceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRS------SKGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~------gka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.+.+++.. .+.++|++..=.++ .-.+.+.++|+.++++++.
T Consensus 123 ~~l~~~l~~~~~~~~~~~~lv~l~~p~n~tG~~~~~~~i~~~~~~~~~~viv 174 (361)
T cd06452 123 EGYAEVIEEVKDEFGKPPALALLTHVDGNYGNLHDAKKIAKVCHEYGVPLLL 174 (361)
T ss_pred HHHHHHHHHHhhccCCCceEEEEECCCCCCeeeccHHHHHHHHHHcCCeEEE
Confidence 556666652 36788888653222 2346788899999999874
No 358
>COG1671 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.32 E-value=90 Score=22.25 Aligned_cols=31 Identities=26% Similarity=0.222 Sum_probs=23.4
Q ss_pred EEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH
Q 033750 46 ILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 46 VilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
+++=.|+=| .+..+...++++++|++ |+-+.
T Consensus 4 I~VDADACP-Vk~~i~r~A~r~~~~v~-~Van~ 34 (150)
T COG1671 4 IWVDADACP-VKDEIYRVAERMGLKVT-FVANF 34 (150)
T ss_pred EEEeCCCCc-hHHHHHHHHHHhCCeEE-EEeCC
Confidence 445556666 88899999999999998 56553
No 359
>cd03418 GRX_GRXb_1_3_like Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins such as ribonucleotide reductase. It contains a redox active CXXC motif in a TRX fold and uses a similar dithiol mechanism employed by TRXs for intramolecular disulfide bond reduction of protein substrates. Unlike TRX, GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. The flow of reducing equivalents in the GRX system goes from NADPH - GSH reductase - GSH - GRX - protein substrates. By altering the redox state of target proteins, GRX is involved in many cellular functions including DNA synthesis, signal transduction and the defense against oxidative stress. Different classes are known i
Probab=27.25 E-value=1.3e+02 Score=17.26 Aligned_cols=9 Identities=11% Similarity=-0.123 Sum_probs=5.0
Q ss_pred HhCCCcEEE
Q 033750 65 MLAKVGVHH 73 (112)
Q Consensus 65 ~~~~Ip~i~ 73 (112)
++++||+..
T Consensus 21 ~~~~i~~~~ 29 (75)
T cd03418 21 DKKGVDYEE 29 (75)
T ss_pred HHCCCcEEE
Confidence 455666654
No 360
>KOG1468 consensus Predicted translation initiation factor related to eIF-2B alpha/beta/delta subunits (CIG2/IDI2) [Translation, ribosomal structure and biogenesis]
Probab=27.24 E-value=1.3e+02 Score=23.95 Aligned_cols=56 Identities=13% Similarity=0.100 Sum_probs=40.3
Q ss_pred HHHHHHhcCCceEEEEeCCCCc---hhhhhH-----HHHHHhCCCcEEEe-cCCHHHHHhhhCCc
Q 033750 33 TVLRSLRSSKGKLILLSNNCPP---LRKSEI-----EYYAMLAKVGVHHY-NGNNVDLGTACGKY 88 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~---~~~~~i-----~~~c~~~~Ip~i~~-~~sk~eLG~a~Gk~ 88 (112)
.+-.+++.+++..|++..|--. ++..++ --.|+.++||++.- ++|.-++.-+-|..
T Consensus 224 ~vA~~m~~~~vdavvvGADrVarNGDTANKIGTy~LAv~aKhhgipFyvaaP~tsid~~l~tG~e 288 (354)
T KOG1468|consen 224 MVAAAMKNHQVDAVVVGADRVARNGDTANKIGTYQLAVLAKHHGIPFYVAAPFTSIDLSLATGDE 288 (354)
T ss_pred HHHHHHhcCCCCEEEEcccceeccCcchhhhhhhHHHHHHHhcCCceEEeccccccccccCCCCe
Confidence 4556678888999998888532 455554 44899999999742 45888888887754
No 361
>PRK01889 GTPase RsgA; Reviewed
Probab=27.20 E-value=67 Score=25.50 Aligned_cols=37 Identities=19% Similarity=-0.038 Sum_probs=25.2
Q ss_pred EEEEeCC--CCchhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 45 LILLSNN--CPPLRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 45 lVilA~D--~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
+|+++.| .++...+++...|+..++|.+ .+.+|.+|.
T Consensus 117 liV~s~~p~~~~~~ldr~L~~a~~~~i~pi-IVLNK~DL~ 155 (356)
T PRK01889 117 FIVCSLNHDFNLRRIERYLALAWESGAEPV-IVLTKADLC 155 (356)
T ss_pred EEEEecCCCCChhHHHHHHHHHHHcCCCEE-EEEEChhcC
Confidence 4455544 223345667777888999998 488998884
No 362
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=27.17 E-value=2.2e+02 Score=20.21 Aligned_cols=39 Identities=13% Similarity=-0.121 Sum_probs=21.7
Q ss_pred HHHHHHhcCCceEEEEe-CCCCchhhhhHHHHHHhCCCcEEEecC
Q 033750 33 TVLRSLRSSKGKLILLS-NNCPPLRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 33 ~v~kai~~gka~lVilA-~D~s~~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
+..+.+.++++.-+|+. .+.++.. ...+...+||++. ++
T Consensus 46 ~~~~~l~~~~vdgiii~~~~~~~~~----~~~l~~~~iPvv~-~~ 85 (268)
T cd06273 46 AQARKLLERGVDGLALIGLDHSPAL----LDLLARRGVPYVA-TW 85 (268)
T ss_pred HHHHHHHhcCCCEEEEeCCCCCHHH----HHHHHhCCCCEEE-Ec
Confidence 34555666666555554 4433322 2345667899884 44
No 363
>PRK10637 cysG siroheme synthase; Provisional
Probab=27.13 E-value=1.1e+02 Score=25.06 Aligned_cols=61 Identities=5% Similarity=-0.008 Sum_probs=39.2
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh-C---CcccEEEEEEeCcC----chHHHhc
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC-G---KYFRVSCLSIIDPG----DSDIIKS 107 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~-G---k~~~~~vvaI~d~g----~a~~i~~ 107 (112)
+.+||.|+|-. ..-+.+...|+..++++-. .++. +++... . +.-.+ ++||...| +|+.|++
T Consensus 73 ~~lv~~at~d~-~~n~~i~~~a~~~~~lvN~-~d~~-~~~~f~~pa~~~~g~l-~iaisT~G~sP~~a~~lr~ 141 (457)
T PRK10637 73 CWLAIAATDDD-AVNQRVSEAAEARRIFCNV-VDAP-KAASFIMPSIIDRSPL-MVAVSSGGTSPVLARLLRE 141 (457)
T ss_pred CEEEEECCCCH-HHhHHHHHHHHHcCcEEEE-CCCc-ccCeEEEeeEEecCCE-EEEEECCCCCcHHHHHHHH
Confidence 67888887754 4667789999999999984 5554 433322 1 22235 58887555 5555554
No 364
>PLN02331 phosphoribosylglycinamide formyltransferase
Probab=27.06 E-value=1.6e+02 Score=21.68 Aligned_cols=39 Identities=15% Similarity=0.213 Sum_probs=24.1
Q ss_pred HHHHHHHhcCC--ceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSK--GKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gk--a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.+.+++++|+ +..+++-+|-+. .....+|++++||++.
T Consensus 14 ~al~~~~~~~~l~~~i~~visn~~~---~~~~~~A~~~gIp~~~ 54 (207)
T PLN02331 14 RAIHDACLDGRVNGDVVVVVTNKPG---CGGAEYARENGIPVLV 54 (207)
T ss_pred HHHHHHHHcCCCCeEEEEEEEeCCC---ChHHHHHHHhCCCEEE
Confidence 45566667775 455544444321 2235688999999985
No 365
>PRK07027 cobalamin biosynthesis protein CbiG; Provisional
Probab=26.89 E-value=68 Score=21.67 Aligned_cols=27 Identities=4% Similarity=-0.063 Sum_probs=21.5
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhh
Q 033750 56 RKSEIEYYAMLAKVGVHHYNGNNVDLGTA 84 (112)
Q Consensus 56 ~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a 84 (112)
.-.-|..+++..++|+.. ++.+||-..
T Consensus 48 ~E~~L~~~A~~lg~pl~~--~~~~eL~~~ 74 (126)
T PRK07027 48 DEAGLLALCARHGWPLRA--FSAAQLAAS 74 (126)
T ss_pred CCHHHHHHHHHhCCCeEE--eCHHHHHhc
Confidence 335678899999999983 699999764
No 366
>cd06379 PBP1_iGluR_NMDA_NR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the NR1, an essential channel-forming subunit of the NMDA receptor. The ionotropic N-methyl-d-asparate (NMDA) subtype of glutamate receptor serves critical functions in neuronal development, functioning, and degeneration in the mammalian central nervous system. The functional NMDA receptor is a heterotetramer ccomposed of two NR1 and two NR2 (A, B, C, and D) or of NR3 (A and B) subunits. The receptor controls a cation channel that is highly permeable to monovalent ions and calcium and exhibits voltage-dependent inhibition by magnesium. Dual agonists, glutamate and glycine, are required for efficient activation of the NMDA receptor. When co-expressed with NR1, the NR3 subunits form receptors that are activated by glycine alone and therefore
Probab=26.84 E-value=1.3e+02 Score=23.31 Aligned_cols=34 Identities=12% Similarity=0.126 Sum_probs=22.5
Q ss_pred CCceEEEEeCCCCch---hhhhHHHHHHhCCCcEEEe
Q 033750 41 SKGKLILLSNNCPPL---RKSEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 41 gka~lVilA~D~s~~---~~~~i~~~c~~~~Ip~i~~ 74 (112)
.++..||.+...++. ....+...|+.++||.+.+
T Consensus 79 ~~V~aii~~~~~ss~~~~~~~~v~~~~~~~~iP~Is~ 115 (377)
T cd06379 79 NQVYAVIVSHPPTSNDHLTPTSVSYTAGFYRIPVVGI 115 (377)
T ss_pred cceEEEEEeCCCCCcccccHHHHHHHhhCCCCcEEec
Confidence 456666655543432 3556677899999999963
No 367
>COG2870 RfaE ADP-heptose synthase, bifunctional sugar kinase/adenylyltransferase [Cell envelope biogenesis, outer membrane]
Probab=26.84 E-value=2.6e+02 Score=23.48 Aligned_cols=47 Identities=17% Similarity=0.063 Sum_probs=31.6
Q ss_pred CCceEEEEeCCCCchh---hhhHHHHHHhCCCcEEE---------------ecCCHHHHHhhhCCc
Q 033750 41 SKGKLILLSNNCPPLR---KSEIEYYAMLAKVGVHH---------------YNGNNVDLGTACGKY 88 (112)
Q Consensus 41 gka~lVilA~D~s~~~---~~~i~~~c~~~~Ip~i~---------------~~~sk~eLG~a~Gk~ 88 (112)
.+...||+ ||...-+ .+++.++|++.|+|+.. ..+++.|+..+.|+.
T Consensus 142 ~~~~~vVL-SDY~KG~L~~~q~~I~~ar~~~~pVLvDPKg~Df~~Y~GAtLiTPN~~E~~~~vg~~ 206 (467)
T COG2870 142 KSFDALVL-SDYAKGVLTNVQKMIDLAREAGIPVLVDPKGKDFEKYRGATLITPNLKEFEEAVGKC 206 (467)
T ss_pred hcCCEEEE-eccccccchhHHHHHHHHHHcCCcEEECCCCcchhhhCCCeecCCCHHHHHHHHccc
Confidence 44566665 5665432 47788999999999974 234566777777764
No 368
>cd06454 KBL_like KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-oxononanoate synthase (AONS), and 2-amino-3-ketobutyrate CoA ligase (KBL). SPT is responsible for the condensation of L-serine with palmitoyl-CoA to produce 3-ketodihydrospingosine, the reaction of the first step in sphingolipid biosynthesis. ALAS is involved in heme biosynthesis; it catalyzes the synthesis of 5-aminolevulinic acid from glycine and succinyl-coenzyme A. AONS catalyses the decarboxylative condensation of l-alanine and pimeloyl-CoA in the first committed step of biotin biosynthesis. KBL catalyzes the second reaction step of the metabolic degradation pathway for threonine converting 2-amino-3-ketobutyrate, to glycine and acetyl-CoA. The members of this CD are widely found in all three forms of life.
Probab=26.84 E-value=1.7e+02 Score=21.94 Aligned_cols=42 Identities=17% Similarity=0.018 Sum_probs=28.0
Q ss_pred HHHHHHHhc----CCceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRS----SKGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~----gka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~ 73 (112)
+++.+.++. .+..+|++.+=.++ .-.++|..+|++++++++.
T Consensus 118 ~~le~~i~~~~~~~~~~~v~~~~~~~~tG~~~~~~~i~~~~~~~~~~liv 167 (349)
T cd06454 118 EDLEKLLREARRPYGKKLIVTEGVYSMDGDIAPLPELVDLAKKYGAILFV 167 (349)
T ss_pred HHHHHHHHHhhccCCCeEEEEeccccCCCCccCHHHHHHHHHHcCCEEEE
Confidence 456666664 35667776543332 2357788899999999984
No 369
>PRK06702 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=26.77 E-value=1.4e+02 Score=24.44 Aligned_cols=41 Identities=17% Similarity=0.066 Sum_probs=29.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCCch----hhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPL----RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~----~~~~i~~~c~~~~Ip~i~ 73 (112)
+++.++|+. +-++|++=+=.+|- -...|..+|++++++++.
T Consensus 138 ~~l~~~I~~-~Tk~I~~e~pgnP~~~v~Di~~I~~iA~~~gi~liv 182 (432)
T PRK06702 138 DEIVALAND-KTKLVYAESLGNPAMNVLNFKEFSDAAKELEVPFIV 182 (432)
T ss_pred HHHHHhCCc-CCeEEEEEcCCCccccccCHHHHHHHHHHcCCEEEE
Confidence 566777754 56777765544554 458888999999999995
No 370
>COG0550 TopA Topoisomerase IA [DNA replication, recombination, and repair]
Probab=26.77 E-value=83 Score=26.98 Aligned_cols=76 Identities=14% Similarity=0.074 Sum_probs=52.7
Q ss_pred HHHHHHHHhc--CCceEEEEeCCCCch---hhhhHHHHHHhCC---CcEEEe-cCCHHHHHhhhCCcccEEEEEEeCcCc
Q 033750 31 YKTVLRSLRS--SKGKLILLSNNCPPL---RKSEIEYYAMLAK---VGVHHY-NGNNVDLGTACGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 31 ~~~v~kai~~--gka~lVilA~D~s~~---~~~~i~~~c~~~~---Ip~i~~-~~sk~eLG~a~Gk~~~~~vvaI~d~g~ 101 (112)
...+.+.++. .++.-|++|+|.+.. +--++.+.+...+ +.=+.| .-|+.++=.|+..++.+ =....|..+
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 5666777766 889999999999875 4467777776654 333323 34999999999888665 356666666
Q ss_pred hHHHhc
Q 033750 102 SDIIKS 107 (112)
Q Consensus 102 a~~i~~ 107 (112)
|..+..
T Consensus 142 aR~~lD 147 (570)
T COG0550 142 ARRILD 147 (570)
T ss_pred HHHHHH
Confidence 665543
No 371
>TIGR01664 DNA-3'-Pase DNA 3'-phosphatase. The central phosphatase domain is a member of the IIIA subfamily (TIGR01662) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. As is common in this superfamily, the enzyme is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is usually replaced by an arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Alternatively, there is an additional conserved aspartate downstream of the ususal site which may indicate slightly different fold in this region.
Probab=26.75 E-value=2e+02 Score=20.04 Aligned_cols=44 Identities=20% Similarity=0.195 Sum_probs=28.5
Q ss_pred eecHHHHHHHHhcCCceEEEEeCCCCc--------hhhhhHHHHHHhCCCcE
Q 033750 28 TLGYKTVLRSLRSSKGKLILLSNNCPP--------LRKSEIEYYAMLAKVGV 71 (112)
Q Consensus 28 v~G~~~v~kai~~gka~lVilA~D~s~--------~~~~~i~~~c~~~~Ip~ 71 (112)
--|..++++.+++...++.|+++.... .....+...++..+++.
T Consensus 44 ~pgv~e~L~~Lk~~G~~l~I~TN~~~~~~~~~~~~~~~~~i~~~l~~~gl~~ 95 (166)
T TIGR01664 44 YPEIPAKLQELDDEGYKIVIFTNQSGIGRGKLSAESFKNKIEAFLEKLKVPI 95 (166)
T ss_pred cCCHHHHHHHHHHCCCEEEEEeCCcccccCcccHHHHHHHHHHHHHHcCCCE
Confidence 368888888888777777776664332 12234566677777765
No 372
>PF04414 tRNA_deacylase: D-aminoacyl-tRNA deacylase; InterPro: IPR007508 D-aminoacyl-tRNA deacylases hydrolyse the ester bond between the polynucleotide and the D-amino acid, thereby preventing the accumulation of such mis-acylated and metabolically inactive tRNA molecules. Several aminoacyl-tRNA synthetases have the ability to transfer the D-isomer of their amino acid onto their cognate tRNA. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1YQE_A 2GFQ_B.
Probab=26.72 E-value=1.3e+02 Score=22.41 Aligned_cols=43 Identities=9% Similarity=0.056 Sum_probs=31.8
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEE
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i 72 (112)
+.+.+.+++.+..+..+++-.+.-. ..++.+..+.++.+||++
T Consensus 169 ~~~~l~~a~~~s~~~~a~id~K~l~~~~r~~i~~~l~~~gi~v~ 212 (213)
T PF04414_consen 169 DEDVLRQAIEKSGADVAIIDWKSLKSEDRRRIEELLEELGIEVI 212 (213)
T ss_dssp -HHHHHHHHCHCT-SEEEEETTTS-HHHHHHHHHHHHHHT-EEE
T ss_pred CHHHHHHHHHhCCCcEEEEecCCCCHHHHHHHHHHHHHcCCeee
Confidence 4677888888888777777766554 678899999999999986
No 373
>cd01825 SGNH_hydrolase_peri1 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=26.69 E-value=1.7e+02 Score=19.77 Aligned_cols=46 Identities=13% Similarity=0.263 Sum_probs=28.9
Q ss_pred eecHHHHHHHHhc--CCceEEEEeC-CC-----------Cc---hhhhhHHHHHHhCCCcEEE
Q 033750 28 TLGYKTVLRSLRS--SKGKLILLSN-NC-----------PP---LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 28 v~G~~~v~kai~~--gka~lVilA~-D~-----------s~---~~~~~i~~~c~~~~Ip~i~ 73 (112)
..+.+...+.+++ ..+++|++.- +. .+ .....+.+.|+++++|++.
T Consensus 80 ~~~~~~li~~i~~~~~~~~iv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~v~~vd 142 (189)
T cd01825 80 RQQLREFIKRLRQILPNASILLVGPPDSLQKTGAGRWRTPPGLDAVIAAQRRVAKEEGIAFWD 142 (189)
T ss_pred HHHHHHHHHHHHHHCCCCeEEEEcCCchhccCCCCCcccCCcHHHHHHHHHHHHHHcCCeEEe
Confidence 4455566666666 6787877752 11 00 1235566799999999985
No 374
>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=26.68 E-value=1.8e+02 Score=21.75 Aligned_cols=53 Identities=15% Similarity=0.125 Sum_probs=34.0
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC-C-------HHHHHhhhCCcc
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG-N-------NVDLGTACGKYF 89 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~-s-------k~eLG~a~Gk~~ 89 (112)
.-.+.|..=+.-+||.....+++..+++. +.+||++.+.. + -+.||+++|++.
T Consensus 82 ~n~E~I~al~PDlIi~~~~~~~~~~~~l~----~~gi~v~~~~~~~~~~~~~~i~~lg~~~G~~~ 142 (289)
T TIGR03659 82 PDMEKIKSLKPTVVLSVTTLEEDLGPKFK----QLGVEATFLNLTSVDGMKKSITELGEKYGREE 142 (289)
T ss_pred CCHHHHhccCCcEEEEcCcccHHHHHHHH----HcCCcEEEEcCCCHHHHHHHHHHHHHHhCCHH
Confidence 44666777778888877665555544453 45788873221 2 357899998664
No 375
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=26.66 E-value=1.6e+02 Score=21.98 Aligned_cols=55 Identities=7% Similarity=0.025 Sum_probs=29.1
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE-----ecCCHHHHHhhhC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH-----YNGNNVDLGTACG 86 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~-----~~~sk~eLG~a~G 86 (112)
+.+...++.....-|.+..=.+-...+.+..+|...+||+.. |..|.+++..+++
T Consensus 81 ~~L~~~~~~~~~~~~~~~~P~d~~l~~~l~~~~~~~~i~~~~~~~~~Fl~s~~~f~~~~~ 140 (224)
T PF04244_consen 81 DALARALKQHGIDRLHVMEPGDYRLEQRLESLAQQLGIPLEVLEDPHFLTSREEFAEWFE 140 (224)
T ss_dssp HHHHHHHHHH----EEEE--S-HHHHHHHHH----SSS-EEEE--TTSSS-HHHHHHHHT
T ss_pred HHHHHHHHHcCCCEEEEECCCCHHHHHHHHhhhcccCCceEEeCCCCccCCHHHHHHHHc
Confidence 344455666666677777666667888888888888888875 3446778877776
No 376
>PRK08611 pyruvate oxidase; Provisional
Probab=26.63 E-value=1.5e+02 Score=24.84 Aligned_cols=41 Identities=24% Similarity=0.283 Sum_probs=30.3
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+++.+.|.+.+--++|+...+. +..+.+..+++..++|+++
T Consensus 194 ~~~~~~L~~AkrPvil~G~g~~-~a~~~l~~lae~~~~PV~t 234 (576)
T PRK08611 194 KKAAKLINKAKKPVILAGLGAK-HAKEELLAFAEKAKIPIIH 234 (576)
T ss_pred HHHHHHHHcCCCcEEEECcCcc-hHHHHHHHHHHHhCCCEEE
Confidence 3555666766666666666665 4567899999999999997
No 377
>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=26.47 E-value=1.4e+02 Score=18.80 Aligned_cols=34 Identities=21% Similarity=0.184 Sum_probs=19.8
Q ss_pred HHHHHHhcC---CceEEEEeCCCCchhhhhHHHHHHh
Q 033750 33 TVLRSLRSS---KGKLILLSNNCPPLRKSEIEYYAML 66 (112)
Q Consensus 33 ~v~kai~~g---ka~lVilA~D~s~~~~~~i~~~c~~ 66 (112)
++++++.+. ...++|+....++++...+..+...
T Consensus 14 ~~l~sl~~q~~~~~~iivvdd~s~d~t~~~~~~~~~~ 50 (180)
T cd06423 14 RTIESLLALDYPKLEVIVVDDGSTDDTLEILEELAAL 50 (180)
T ss_pred HHHHHHHhCCCCceEEEEEeCCCccchHHHHHHHhcc
Confidence 444555443 3566666555555677777666554
No 378
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=26.47 E-value=1.9e+02 Score=20.62 Aligned_cols=40 Identities=18% Similarity=0.050 Sum_probs=20.5
Q ss_pred HHHHHhcCCceEEEEeCCCCchh-hhhHHHHHHhCCCcEEEecC
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLR-KSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~-~~~i~~~c~~~~Ip~i~~~~ 76 (112)
.++.+...++--||+.. .+++. ...+. .+...++|++. ++
T Consensus 49 ~i~~l~~~~vdgvii~~-~~~~~~~~~l~-~~~~~~ipvV~-~~ 89 (273)
T cd06310 49 LLENAIARGPDAILLAP-TDAKALVPPLK-EAKDAGIPVVL-ID 89 (273)
T ss_pred HHHHHHHhCCCEEEEcC-CChhhhHHHHH-HHHHCCCCEEE-ec
Confidence 34444555666666654 22222 23333 33457888884 44
No 379
>TIGR00036 dapB dihydrodipicolinate reductase.
Probab=26.46 E-value=1.7e+02 Score=22.10 Aligned_cols=30 Identities=10% Similarity=0.044 Sum_probs=22.7
Q ss_pred CCceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 41 SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 41 gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
..+-+||.++ +|.....+-..|-++++|++
T Consensus 67 ~~~DvVIdfT--~p~~~~~~~~~al~~g~~vV 96 (266)
T TIGR00036 67 TDPDVLIDFT--TPEGVLNHLKFALEHGVRLV 96 (266)
T ss_pred CCCCEEEECC--ChHHHHHHHHHHHHCCCCEE
Confidence 4577888877 55666667778888888888
No 380
>COG1999 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]
Probab=26.42 E-value=2.6e+02 Score=20.40 Aligned_cols=45 Identities=7% Similarity=0.031 Sum_probs=33.2
Q ss_pred cCCceEEEEeCCCCchhhhhHHHHHH-hCCCcEEEecCCHHHHHhh
Q 033750 40 SSKGKLILLSNNCPPLRKSEIEYYAM-LAKVGVHHYNGNNVDLGTA 84 (112)
Q Consensus 40 ~gka~lVilA~D~s~~~~~~i~~~c~-~~~Ip~i~~~~sk~eLG~a 84 (112)
..++++|+++-|-.-++.+.+..+.. ..+-+++...++.+++-.+
T Consensus 102 ~~~v~vv~itvDPerDtp~~lk~Y~~~~~~~~~~~ltg~~~~~~~~ 147 (207)
T COG1999 102 GDDVQVVFITVDPERDTPEVLKKYAELNFDPRWIGLTGTPEQIEEV 147 (207)
T ss_pred CCCEEEEEEEECCCCCCHHHHHHHhcccCCCCeeeeeCCHHHHHHH
Confidence 45688999999999999999999998 5566666545554444433
No 381
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=26.36 E-value=1.8e+02 Score=20.72 Aligned_cols=40 Identities=10% Similarity=-0.035 Sum_probs=21.6
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+.+.++--+|+....++... .+...+...+||++.
T Consensus 47 ~~i~~l~~~~vdgiii~~~~~~~~~-~~~~~l~~~~iPvv~ 86 (272)
T cd06301 47 SQVENFIAQGVDAIIVVPVDTAATA-PIVKAANAAGIPLVY 86 (272)
T ss_pred HHHHHHHHcCCCEEEEecCchhhhH-HHHHHHHHCCCeEEE
Confidence 4444454556666665443222222 344455778899884
No 382
>TIGR00693 thiE thiamine-phosphate pyrophosphorylase. This model includes ThiE from Bacillus subtilis but excludes its paralog, the regulatory protein TenI, and neighbors of TenI.
Probab=26.34 E-value=2.3e+02 Score=19.77 Aligned_cols=54 Identities=19% Similarity=0.151 Sum_probs=36.1
Q ss_pred HHHHHHHhcCCceEEEE-eCCCCch----hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCc
Q 033750 32 KTVLRSLRSSKGKLILL-SNNCPPL----RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKY 88 (112)
Q Consensus 32 ~~v~kai~~gka~lVil-A~D~s~~----~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~ 88 (112)
+.+..++..| +.+|.+ ..|.++. ....+...|+.+++|++ ..+.-++....|-+
T Consensus 17 ~~~~~~~~~g-~~~v~lR~~~~~~~~~~~~~~~l~~~~~~~~~~l~--i~~~~~la~~~g~~ 75 (196)
T TIGR00693 17 NRVEAALKGG-VTLVQLRDKGSNTRERLALAEKLQELCRRYGVPFI--VNDRVDLALALGAD 75 (196)
T ss_pred HHHHHHHhcC-CCEEEEecCCCCHHHHHHHHHHHHHHHHHhCCeEE--EECHHHHHHHcCCC
Confidence 3455567777 555444 4454543 34667889999999998 35677888777765
No 383
>PRK07742 phosphate butyryltransferase; Validated
Probab=26.33 E-value=3e+02 Score=21.23 Aligned_cols=53 Identities=8% Similarity=-0.013 Sum_probs=28.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
++..+..+++.-+-|+++.--++.+.+-.....++..+..+ ++++.+++...+
T Consensus 4 ~~l~~~~~~~~~~ri~~~~~~d~~vl~Aa~~a~~e~~~~~i-LvG~~~~I~~~~ 56 (299)
T PRK07742 4 EHLIDQAAGQPKKTVAVAVAEDEEVIEAVAKAIELQLARFR-LYGNQEKIMGML 56 (299)
T ss_pred HHHHHHHhcCCCCeEEEeCCCCHHHHHHHHHHHHcCCceEE-EECCHHHHHHHH
Confidence 44445555333333444443455666666666666556555 467777666553
No 384
>PRK00299 sulfur transfer protein SirA; Reviewed
Probab=26.32 E-value=1.5e+02 Score=18.26 Aligned_cols=38 Identities=8% Similarity=0.285 Sum_probs=25.5
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+..|+. +.+++.|- .....+..+|+..+-+++.
T Consensus 28 k~l~~l~~G~~-l~V~~dd~--~~~~di~~~~~~~G~~~~~ 65 (81)
T PRK00299 28 KTVRNMQPGET-LLIIADDP--ATTRDIPSFCRFMDHELLA 65 (81)
T ss_pred HHHHcCCCCCE-EEEEeCCc--cHHHHHHHHHHHcCCEEEE
Confidence 34445555553 44456654 4778899999999988874
No 385
>PRK07525 sulfoacetaldehyde acetyltransferase; Validated
Probab=26.30 E-value=1.6e+02 Score=24.73 Aligned_cols=42 Identities=17% Similarity=-0.011 Sum_probs=32.2
Q ss_pred HHHHHHHhcCCceEEEEeCCCC-chhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+++.+.|.+.+--++++...+. +.....+..+++..++|+++
T Consensus 191 ~~a~~~L~~A~rPvil~G~g~~~~~a~~~l~~lae~~~~pv~t 233 (588)
T PRK07525 191 AEAAELLSEAKFPVILSGAGVVLSDAIEECKALAERLDAPVAC 233 (588)
T ss_pred HHHHHHHHhCCCCEEEECCCccccChHHHHHHHHHHhCCCeEE
Confidence 4556667777766777777774 35678899999999999996
No 386
>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=26.30 E-value=3e+02 Score=21.08 Aligned_cols=81 Identities=11% Similarity=0.100 Sum_probs=50.9
Q ss_pred hhhhHHHHHHHHHHHH-HhCC---c---------eecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 7 TKKTHESINNRLALVM-KSGK---Y---------TLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 7 ~~~~~~~i~~~Lgla~-kagk---l---------v~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
++...+++++++...+ +.-+ + ..|.++-.+.+++.-+.=||+ -|.+.+....+...|+.++++.+.
T Consensus 67 ~G~~~~~~~~~~~~ir~~~~~~pivlm~Y~N~i~~~G~e~F~~~~~~aGvdGlIi-pDLP~ee~~~~~~~~~~~gl~~I~ 145 (259)
T PF00290_consen 67 NGFTLEKIFELVKEIRKKEPDIPIVLMTYYNPIFQYGIERFFKEAKEAGVDGLII-PDLPPEESEELREAAKKHGLDLIP 145 (259)
T ss_dssp TT--HHHHHHHHHHHHHHCTSSEEEEEE-HHHHHHH-HHHHHHHHHHHTEEEEEE-TTSBGGGHHHHHHHHHHTT-EEEE
T ss_pred CCCCHHHHHHHHHHHhccCCCCCEEEEeeccHHhccchHHHHHHHHHcCCCEEEE-cCCChHHHHHHHHHHHHcCCeEEE
Confidence 3567788899998888 3322 2 246677777776655555554 599998889999999998865553
Q ss_pred e--c-CCHHHHHhhhCCc
Q 033750 74 Y--N-GNNVDLGTACGKY 88 (112)
Q Consensus 74 ~--~-~sk~eLG~a~Gk~ 88 (112)
+ + .+.+.+...+...
T Consensus 146 lv~p~t~~~Ri~~i~~~a 163 (259)
T PF00290_consen 146 LVAPTTPEERIKKIAKQA 163 (259)
T ss_dssp EEETTS-HHHHHHHHHH-
T ss_pred EECCCCCHHHHHHHHHhC
Confidence 3 3 2455666666443
No 387
>PLN03194 putative disease resistance protein; Provisional
Probab=26.25 E-value=2.4e+02 Score=20.82 Aligned_cols=56 Identities=13% Similarity=0.118 Sum_probs=39.4
Q ss_pred ceecH---HHHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHHhCC--CcEEEecCCHHHHHh
Q 033750 27 YTLGY---KTVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAMLAK--VGVHHYNGNNVDLGT 83 (112)
Q Consensus 27 lv~G~---~~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~~~~--Ip~i~~~~sk~eLG~ 83 (112)
+..|. ..+.++|+.-++.+||++.+... -....+....+... +|+. |.-+..++-.
T Consensus 64 l~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~~I~e~~~~ViPIF-Y~VdPsdVr~ 126 (187)
T PLN03194 64 MKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELALIMESKKRVIPIF-CDVKPSQLRV 126 (187)
T ss_pred ccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHHHHHHcCCEEEEEE-ecCCHHHhhc
Confidence 44454 47889999999999999999865 45666666554433 7887 6666665554
No 388
>PRK03244 argD acetylornithine aminotransferase; Provisional
Probab=26.18 E-value=1.2e+02 Score=23.64 Aligned_cols=47 Identities=4% Similarity=-0.080 Sum_probs=30.3
Q ss_pred HHHHHhcCCceEEEEeCCCCc--------hhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 34 VLRSLRSSKGKLILLSNNCPP--------LRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~--------~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
..+.+ .++..+|++-.--++ +..+.+..+|++++++++. ..-...+|
T Consensus 176 l~~~~-~~~~~aviiep~~~~~G~~~~~~~~l~~l~~l~~~~~~llI~-DEv~~g~g 230 (398)
T PRK03244 176 LAAAV-DDDTAAVFLEPIQGEAGVVPPPAGYLAAAREITDRHGALLVL-DEVQTGIG 230 (398)
T ss_pred HHHhh-cCCeEEEEEecccCCCCCcCCCHHHHHHHHHHHHHcCCEEEE-eccccCCc
Confidence 33344 356778888655322 3367899999999999984 44433343
No 389
>PF07005 DUF1537: Protein of unknown function, DUF1537; InterPro: IPR010737 This entry represents a conserved region found in a range of Proteobacteria as well as the Gram-positive Oceanobacillus iheyensis. This entry includes YgbK from Escherichia coli, which is dependent upon FlhDC, the master regulator of the flagellar genes. The ygbK gene appears to be regulated by sigmaF [].; PDB: 3DQQ_B 1YZY_B.
Probab=26.17 E-value=84 Score=22.70 Aligned_cols=34 Identities=21% Similarity=0.394 Sum_probs=23.8
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
.-.+++++.-++|-+.+++.++ +..+++.+. .+.
T Consensus 93 ~~~~Lvv~GS~s~~T~~Qi~~l-~~~~~~~i~-l~~ 126 (223)
T PF07005_consen 93 RGPVLVVVGSVSPVTRRQIAYL-EQAGVPVIE-LDP 126 (223)
T ss_dssp SSEEEEEE---SHHHHHHHHHH--CCTS-EEE---H
T ss_pred CCCeEEEEcCCCHHHHHHHHHH-HHCCCcEEE-ech
Confidence 4588999999999999999999 999999995 443
No 390
>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase. This model represents geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The active enzyme is reported to be a homopentamer in Methanobacterium thermoautotrophicum but is reported to be a homodimer in Thermoplasma acidophilum.
Probab=26.14 E-value=2.6e+02 Score=20.65 Aligned_cols=48 Identities=10% Similarity=0.072 Sum_probs=28.6
Q ss_pred HHHhcCCceEEEEe-CC-CCchhhhhHHHHHHh-CCCcEEEecCCHHHHHh
Q 033750 36 RSLRSSKGKLILLS-NN-CPPLRKSEIEYYAML-AKVGVHHYNGNNVDLGT 83 (112)
Q Consensus 36 kai~~gka~lVilA-~D-~s~~~~~~i~~~c~~-~~Ip~i~~~~sk~eLG~ 83 (112)
+.+...-+-.+++. ++ ..++...++-...++ .++|++-|+++-+.+..
T Consensus 18 ~~v~~~gtDaI~VGGS~gvt~~~~~~~v~~ik~~~~lPvilfp~~~~~i~~ 68 (205)
T TIGR01769 18 KNAKDAGTDAIMVGGSLGIVESNLDQTVKKIKKITNLPVILFPGNVNGLSR 68 (205)
T ss_pred HHHHhcCCCEEEEcCcCCCCHHHHHHHHHHHHhhcCCCEEEECCCccccCc
Confidence 34444445666775 44 555555555455555 68999976776665543
No 391
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=25.98 E-value=2e+02 Score=22.37 Aligned_cols=39 Identities=15% Similarity=0.244 Sum_probs=25.8
Q ss_pred HHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 35 LRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 35 ~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.++.++|--.+||+++..+..-.+.+...|+++++.++-
T Consensus 83 ~e~~~~gvk~avI~s~Gf~~~~~~~l~~~a~~~girvlG 121 (291)
T PRK05678 83 LEAIDAGIDLIVCITEGIPVLDMLEVKAYLERKKTRLIG 121 (291)
T ss_pred HHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHcCCEEEC
Confidence 344455655557777776654335788888888888874
No 392
>PF11116 DUF2624: Protein of unknown function (DUF2624); InterPro: IPR020277 This entry contains proteins with no known function.
Probab=25.89 E-value=43 Score=21.63 Aligned_cols=28 Identities=7% Similarity=0.150 Sum_probs=20.1
Q ss_pred hhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 56 RKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 56 ~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
+...+..+|++||||+- ...-+++-..+
T Consensus 16 T~~eLlkyskqy~i~it--~~QA~~I~~~l 43 (85)
T PF11116_consen 16 TAKELLKYSKQYNISIT--KKQAEQIANIL 43 (85)
T ss_pred CHHHHHHHHHHhCCCCC--HHHHHHHHHHH
Confidence 45778899999999996 34555555555
No 393
>PF03830 PTSIIB_sorb: PTS system sorbose subfamily IIB component; InterPro: IPR004720 Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families: It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of Escherichia coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This entry is specific for the IIB components of this family of PTS transporters [].; GO: 0008982 protein-N(PI)-phosphohistidine-sugar phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 3LFJ_B 1BLE_A 3P3V_B 1NRZ_C 3EYE_A 1VSQ_C 2JZH_A 2JZN_C 2JZO_D.
Probab=25.89 E-value=84 Score=21.95 Aligned_cols=78 Identities=14% Similarity=0.008 Sum_probs=54.6
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcc----cEEEEEEeC
Q 033750 25 GKYTLGYKTVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYF----RVSCLSIID 98 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~----~~~vvaI~d 98 (112)
.+|+.|+= +..+++.-++..++++.|.-. ...+.+..++...++.+. ..|-++....+-... ++ .+-+.+
T Consensus 9 dRLIHGQV-~~~W~~~~~~~~IiVvdD~~A~D~~~k~~l~ma~P~gvk~~--i~sv~~a~~~l~~~~~~~~~v-~ii~k~ 84 (151)
T PF03830_consen 9 DRLIHGQV-ATAWVKKLNANRIIVVDDEVANDPFQKMILKMAAPAGVKLS--IFSVEEAIEKLKKPEYSKKRV-LIIVKS 84 (151)
T ss_dssp TTCSCTTH-HHHHHHHHTTSEEEEE-HHHHHSHHHHHHHHHTSHTTSEEE--EE-HHHHHHHHCGGGGTTEEE-EEEESS
T ss_pred cceeeeee-eEEEhhhcccCEEEEECHHHhcCHHHHHHHHHhhcCCCceE--EEEHHHHHHHHHhcccCCceE-EEEECC
Confidence 45666765 778888889999999999764 577888888888899997 467787777775543 33 344456
Q ss_pred cCchHHHh
Q 033750 99 PGDSDIIK 106 (112)
Q Consensus 99 ~g~a~~i~ 106 (112)
+..+..+.
T Consensus 85 ~~d~~~l~ 92 (151)
T PF03830_consen 85 PEDALRLV 92 (151)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 65555553
No 394
>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as 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. 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.
Probab=25.87 E-value=1.7e+02 Score=18.87 Aligned_cols=41 Identities=20% Similarity=0.107 Sum_probs=24.7
Q ss_pred CCceEEEEeCCCCch-hhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 41 SKGKLILLSNNCPPL-RKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 41 gka~lVilA~D~s~~-~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
..+.++|+--|++.. ....+...+...++|++ .+.+|-++-
T Consensus 73 ~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~~~i-iv~NK~Dl~ 114 (158)
T cd01879 73 EKPDLIVNVVDATNLERNLYLTLQLLELGLPVV-VALNMIDEA 114 (158)
T ss_pred CCCcEEEEEeeCCcchhHHHHHHHHHHcCCCEE-EEEehhhhc
Confidence 445666666666542 22233334556789999 588887773
No 395
>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=25.83 E-value=1.1e+02 Score=25.53 Aligned_cols=39 Identities=13% Similarity=0.129 Sum_probs=32.3
Q ss_pred HHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEE
Q 033750 35 LRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 35 ~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~ 73 (112)
-..+++..-+..++|.|.=. --.+++..++++.+||++.
T Consensus 121 A~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~ 160 (451)
T COG0541 121 AKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFG 160 (451)
T ss_pred HHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceec
Confidence 45567777888999999854 5789999999999999985
No 396
>PRK11172 dkgB 2,5-diketo-D-gluconate reductase B; Provisional
Probab=25.77 E-value=2.8e+02 Score=20.61 Aligned_cols=63 Identities=16% Similarity=0.221 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHhCCce-ec-----HHHHHHHHhcCCc-eEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEe
Q 033750 12 ESINNRLALVMKSGKYT-LG-----YKTVLRSLRSSKG-KLILLSNNCPP-LRKSEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 12 ~~i~~~Lgla~kagklv-~G-----~~~v~kai~~gka-~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~ 74 (112)
...+..|..++++|++. .| ..++.+++..... .+.++-...++ +....+..+|++++|+++.|
T Consensus 108 ~~~~~~l~~l~~~Gkir~iGvSn~~~~~l~~~~~~~~~~~~~~~Q~~~~~~~~~~~ll~~~~~~gi~v~a~ 178 (267)
T PRK11172 108 EEFMQALLEAKKQGLTREIGISNFTIALMKQAIAAVGAENIATNQIELSPYLQNRKVVAFAKEHGIHVTSY 178 (267)
T ss_pred HHHHHHHHHHHHCCCCCEEEEccCCHHHHHHHHHhcCCCCCeEEeeecCCCCCcHHHHHHHHHCCCEEEEE
Confidence 45678888888888863 33 3455556553322 23333333333 22356888999999988864
No 397
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=25.66 E-value=58 Score=22.89 Aligned_cols=34 Identities=15% Similarity=0.214 Sum_probs=23.6
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHH
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAM 65 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~ 65 (112)
..++.+.|. ..-+=||+|+|.+| .+.++|...+.
T Consensus 65 ~~evi~~I~-~~G~PviVAtDV~p~P~~V~Kia~~f~ 100 (138)
T PF04312_consen 65 RSEVIEWIS-EYGKPVIVATDVSPPPETVKKIARSFN 100 (138)
T ss_pred HHHHHHHHH-HcCCEEEEEecCCCCcHHHHHHHHHhC
Confidence 345666664 33567899999987 68888876543
No 398
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=25.60 E-value=1.8e+02 Score=19.44 Aligned_cols=45 Identities=20% Similarity=0.222 Sum_probs=27.6
Q ss_pred ecHHHHHHHHhc--CCceEEEEeC-CC-------Cc---hhhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRS--SKGKLILLSN-NC-------PP---LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~--gka~lVilA~-D~-------s~---~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+.++.++.+++ ..++++++.- .. .+ ...+.+..+|++++++++.
T Consensus 72 ~~l~~li~~~~~~~~~~~vi~~~~~p~~~~~~~~~~~~~~~n~~l~~~a~~~~~~~id 129 (169)
T cd01828 72 ANYRTILEKLRKHFPNIKIVVQSILPVGELKSIPNEQIEELNRQLAQLAQQEGVTFLD 129 (169)
T ss_pred HHHHHHHHHHHHHCCCCeEEEEecCCcCccCcCCHHHHHHHHHHHHHHHHHCCCEEEe
Confidence 344555666665 6677777643 11 11 1235567899999999985
No 399
>PRK00304 hypothetical protein; Provisional
Probab=25.59 E-value=75 Score=20.03 Aligned_cols=16 Identities=13% Similarity=0.287 Sum_probs=13.3
Q ss_pred HHHHHHHhcCCceEEE
Q 033750 32 KTVLRSLRSSKGKLIL 47 (112)
Q Consensus 32 ~~v~kai~~gka~lVi 47 (112)
.+|..++++|++.+|+
T Consensus 39 ~qv~~qL~~G~~vIvf 54 (75)
T PRK00304 39 LRVRQALTKGQAVILF 54 (75)
T ss_pred HHHHHHHHcCCEEEEE
Confidence 5788999999887776
No 400
>TIGR02739 TraF type-F conjugative transfer system pilin assembly protein TraF. This protein is part of a large group of proteins involved in conjugative transfer of plasmid DNA, specifically the F-type system. This protein has been predicted to contain a thioredoxin fold and has been shown to be localized to the periplasm. Unlike the related protein TrbB (TIGR02738), TraF does not contain a conserved pair of cysteines and has been shown not to function as a thiol disulfide isomerase by complementation of an Ecoli DsbA defect. The protein is believed to be involved in pilin assembly. Even more closely related than TrbB is a clade of genes (TIGR02740) which do contain the CXXC motif, but it is unclear whether these genes are involved in type-F conjugation systems per se.
Probab=25.50 E-value=1.7e+02 Score=22.46 Aligned_cols=43 Identities=16% Similarity=0.195 Sum_probs=33.7
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCch--hhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPL--RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~--~~~~i~~~c~~~~Ip~i~ 73 (112)
.+++++.+.+.-.-++|..+||+-. ..-.|..+++.||++++-
T Consensus 141 ~~~~i~~la~~~gL~fFy~~~C~~C~~~apil~~fa~~ygi~v~~ 185 (256)
T TIGR02739 141 KEKAIQQLSQSYGLFFFYRGKSPISQKMAPVIQAFAKEYGISVIP 185 (256)
T ss_pred HHHHHHHHHhceeEEEEECCCCchhHHHHHHHHHHHHHhCCeEEE
Confidence 4667888887778888889999863 345567899999999985
No 401
>PLN02735 carbamoyl-phosphate synthase
Probab=25.45 E-value=1.1e+02 Score=28.26 Aligned_cols=57 Identities=14% Similarity=0.145 Sum_probs=40.0
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCch-h--hhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPL-R--KSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~-~--~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
.|...+.+.|++|++.+||-..+.... . --.++..|-+++||+++-..+-..+-.++
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 455679999999999999976553221 1 24678899999999997333444554454
No 402
>PLN02522 ATP citrate (pro-S)-lyase
Probab=25.41 E-value=1.8e+02 Score=25.19 Aligned_cols=61 Identities=10% Similarity=0.148 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHhC-Cce---------ecHHHHHHHHhc-CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 13 SINNRLALVMKSG-KYT---------LGYKTVLRSLRS-SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 13 ~i~~~Lgla~kag-klv---------~G~~~v~kai~~-gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+++.+..|.+.. ..- .=.+.+++++.. |--.+||+++-.++....++..+|+++++.++-
T Consensus 64 PVf~tv~eA~~~~~~~~~~vifvp~~~a~da~lEa~~a~GIk~~VIiteGfpe~d~~~l~~~Ar~~g~rlIG 135 (608)
T PLN02522 64 PVHGSIEAACKAHPTADVFINFASFRSAAASSMEALKQPTIRVVAIIAEGVPESDTKQLIAYARANNKVVIG 135 (608)
T ss_pred cccchHHHHHHhCCCCcEEEEeCChHHhHHHHHHHHhhCCCCEEEEECCCCChhhHHHHHHHHHHcCCEEEC
Confidence 4567777777654 311 236888888875 656678888888887788899999999887764
No 403
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=25.35 E-value=2.1e+02 Score=20.66 Aligned_cols=36 Identities=14% Similarity=0.038 Sum_probs=18.9
Q ss_pred HHHhcCCceEEEEe-CCCCchhhhhHHHHHHhCCCcEEE
Q 033750 36 RSLRSSKGKLILLS-NNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 36 kai~~gka~lVilA-~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.+...++.-+|+. .|. + ....+...+..++||++.
T Consensus 48 ~~~~~~~~dgiii~~~~~-~-~~~~~~~~~~~~~iPvV~ 84 (289)
T cd01540 48 DNLGAQGAKGFVICVPDV-K-LGPAIVAKAKAYNMKVVA 84 (289)
T ss_pred HHHHHcCCCEEEEccCch-h-hhHHHHHHHHhCCCeEEE
Confidence 33445566555554 442 2 223344455677888874
No 404
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=25.34 E-value=2e+02 Score=20.38 Aligned_cols=37 Identities=5% Similarity=-0.046 Sum_probs=21.8
Q ss_pred HHHHHHhcCCceEEEEe-CCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLS-NNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA-~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+..+++..+|+. .|.++. ....+...+||++.
T Consensus 46 ~~i~~l~~~~~dgiii~~~~~~~~----~~~~~~~~~ipvV~ 83 (270)
T cd06296 46 QWVERLSARRTDGVILVTPELTSA----QRAALRRTGIPFVV 83 (270)
T ss_pred HHHHHHHHcCCCEEEEecCCCChH----HHHHHhcCCCCEEE
Confidence 45566667777766554 444332 23344667888884
No 405
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=25.34 E-value=1.4e+02 Score=22.54 Aligned_cols=40 Identities=8% Similarity=-0.085 Sum_probs=23.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
..+.+.+...++..|| ..-.+. ....+...|++.+||++.
T Consensus 57 ~~a~~li~~~~v~aii-g~~~s~-~~~~~~~~~~~~~ip~i~ 96 (346)
T cd06330 57 REARELVENEGVDMLI-GLISSG-VALAVAPVAEELKVFFIA 96 (346)
T ss_pred HHHHHHHhccCCcEEE-cccchH-HHHHHHHHHHHcCCeEEE
Confidence 3455555554666555 333333 334566688888999985
No 406
>PLN02898 HMP-P kinase/thiamin-monophosphate pyrophosphorylase
Probab=25.30 E-value=3.3e+02 Score=22.47 Aligned_cols=61 Identities=16% Similarity=0.171 Sum_probs=42.6
Q ss_pred HHHHHHhcCCceEEEE-eCCCCch----hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 33 TVLRSLRSSKGKLILL-SNNCPPL----RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 33 ~v~kai~~gka~lVil-A~D~s~~----~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
.+.+++..| +.+|.+ -.+.+++ ..+.+..+|+.++++++ ..+.-+|...+|-+ .+| ++-.|
T Consensus 312 ~l~~~l~~G-v~~vqlR~k~~~~~~~~~~a~~l~~~~~~~~~~li--ind~~~lA~~~~ad-GvH-l~~~d 377 (502)
T PLN02898 312 AVRAAIEGG-ATIVQLREKEAETREFIEEAKACLAICRSYGVPLL--INDRVDVALACDAD-GVH-LGQSD 377 (502)
T ss_pred HHHHHHHcC-CCEEEEccCCCCHHHHHHHHHHHHHHHHHhCCEEE--EcChHHHHHhcCCC-EEE-eChHh
Confidence 466777777 555555 5666653 33566778999999998 57889999999876 564 55433
No 407
>TIGR03274 methan_mark_7 putative methanogenesis marker protein 7. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=25.27 E-value=20 Score=28.14 Aligned_cols=63 Identities=16% Similarity=0.091 Sum_probs=48.0
Q ss_pred HHHHHHHHHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHH
Q 033750 15 NNRLALVMKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNV 79 (112)
Q Consensus 15 ~~~Lgla~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~ 79 (112)
.++|+|++-+|+-.+|.++-...+-+..--.||+-.+...-...+. .+...-+||++. .+..+
T Consensus 102 tn~l~L~~G~G~~~fgl~~~E~~~I~eHdlAV~h~Gn~k~hI~~K~-rl~l~i~iP~VV-~~~P~ 164 (302)
T TIGR03274 102 TNMIGLARGAGRRIAQLSDEERRLIEEHDLAIFVFGNFEDCIKKKM-PLFRDIDIPVVV-TGGPE 164 (302)
T ss_pred cceEEEeccCccccccCCHHHHHHHhhcCEEEEEeCCHHHHHHHHH-HHHhcCCCCEEE-eCCCc
Confidence 5778899999999999999998888777777888887777666666 344447899974 55543
No 408
>PRK04966 hypothetical protein; Provisional
Probab=25.23 E-value=78 Score=19.79 Aligned_cols=17 Identities=29% Similarity=0.378 Sum_probs=13.9
Q ss_pred HHHHHHHHhcCCceEEE
Q 033750 31 YKTVLRSLRSSKGKLIL 47 (112)
Q Consensus 31 ~~~v~kai~~gka~lVi 47 (112)
..+|...+++|++.+|+
T Consensus 39 v~qv~~qL~~G~~viv~ 55 (72)
T PRK04966 39 VADVKRQLQSGEAVLVW 55 (72)
T ss_pred HHHHHHHHHcCCEEEEE
Confidence 46788999999887776
No 409
>PF00988 CPSase_sm_chain: Carbamoyl-phosphate synthase small chain, CPSase domain; InterPro: IPR002474 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the small subunit of carbamoyl phosphate synthase. The small subunit has a 3-layer beta/beta/alpha structure, and is thought to be mobile in most proteins that carry it. The C-terminal domain of the small subunit of CPSase has glutamine amidotransferase activity.; GO: 0006807 nitrogen compound metabolic process; PDB: 1CE8_B 1KEE_B 1CS0_D 1T36_D 1M6V_H 1A9X_F 1JDB_I 1BXR_F 1C3O_B 1C30_F ....
Probab=25.17 E-value=1.3e+02 Score=20.94 Aligned_cols=43 Identities=5% Similarity=-0.092 Sum_probs=25.2
Q ss_pred ceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 033750 43 GKLILLSNNCPP----LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 86 (112)
Q Consensus 43 a~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G 86 (112)
++-+|+..-+.. +....|.+++++++||.+. .-|-..|=+.+-
T Consensus 75 ~~g~iv~e~~~~~s~~~~~~sL~~~L~~~~ipgi~-gvDTRaLt~~lR 121 (131)
T PF00988_consen 75 VKGLIVRELSDIPSHWRSEMSLDEWLKEHGIPGIS-GVDTRALTRKLR 121 (131)
T ss_dssp BSEEE-SB--SS---TT-SB-HHHHHHHTT-EEEE-SS-HHHHHHHHH
T ss_pred eeeeeeccccCCCccccccCCHHHHHHHCCCeeee-CCcHHHHHHHHH
Confidence 444555443332 4568899999999999995 667777766653
No 410
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=25.14 E-value=2.1e+02 Score=20.23 Aligned_cols=38 Identities=18% Similarity=0.041 Sum_probs=21.3
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
..+.+...++.-+|+.....+ . ..+...+...+||++.
T Consensus 48 ~~~~l~~~~vdgiii~~~~~~-~-~~~~~~~~~~~ipvv~ 85 (270)
T cd01545 48 VRALLQRSRVDGVILTPPLSD-N-PELLDLLDEAGVPYVR 85 (270)
T ss_pred HHHHHHHCCCCEEEEeCCCCC-c-cHHHHHHHhcCCCEEE
Confidence 455565677776666532222 2 2333445678899884
No 411
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=25.11 E-value=2.2e+02 Score=20.42 Aligned_cols=38 Identities=13% Similarity=-0.053 Sum_probs=20.0
Q ss_pred HHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 35 LRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 35 ~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+.+...++.-+|+....++.....+ ..+.+++||++.
T Consensus 50 i~~l~~~~vdgiIi~~~~~~~~~~~~-~~~~~~~iPvV~ 87 (275)
T cd06320 50 AENMINKGYKGLLFSPISDVNLVPAV-ERAKKKGIPVVN 87 (275)
T ss_pred HHHHHHhCCCEEEECCCChHHhHHHH-HHHHHCCCeEEE
Confidence 44444556666665442222222333 345678999985
No 412
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=24.99 E-value=1.5e+02 Score=20.86 Aligned_cols=43 Identities=7% Similarity=0.141 Sum_probs=23.5
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCc----h----hhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPP----L----RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~----~----~~~~i~~~c~~~~Ip~i~ 73 (112)
.++..+.++...+..+++..-.++ . ..+.+..+|+++++|++.
T Consensus 97 l~~li~~~~~~~~~~ill~~~~P~~~~~~~~~~~~~~~~~~a~~~~v~~id 147 (191)
T PRK10528 97 LRQIIQDVKAANAQPLLMQIRLPANYGRRYNEAFSAIYPKLAKEFDIPLLP 147 (191)
T ss_pred HHHHHHHHHHcCCCEEEEEeecCCcccHHHHHHHHHHHHHHHHHhCCCccH
Confidence 344455555444445554322222 1 223366789999999985
No 413
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=24.99 E-value=2.2e+02 Score=20.34 Aligned_cols=40 Identities=15% Similarity=0.051 Sum_probs=22.1
Q ss_pred HHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC
Q 033750 35 LRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 35 ~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
++.+...++..+|+...........+ ..+...+||++. .+
T Consensus 49 i~~~~~~~vdgiii~~~~~~~~~~~~-~~~~~~~ipvV~-~~ 88 (270)
T cd06308 49 IENFIRQGVDLLIISPNEAAPLTPVV-EEAYRAGIPVIL-LD 88 (270)
T ss_pred HHHHHHhCCCEEEEecCchhhchHHH-HHHHHCCCCEEE-eC
Confidence 44444566777777653322222333 344568999985 44
No 414
>PF03693 RHH_2: Uncharacterised protein family (UPF0156); InterPro: IPR022789 This family of proteins are about 80 amino acids in length and their function is unknown. The proteins contain a conserved GRY motif. This family appears to be related to ribbon-helix-helix DNA-binding proteins. ; PDB: 3KXE_C.
Probab=24.96 E-value=85 Score=19.67 Aligned_cols=38 Identities=16% Similarity=0.275 Sum_probs=26.8
Q ss_pred ccchhhhhhHHHHHHHHHHHHHhCCceecHHHHHHHHh
Q 033750 2 VTSKKTKKTHESINNRLALVMKSGKYTLGYKTVLRSLR 39 (112)
Q Consensus 2 ~~~~~~~~~~~~i~~~Lgla~kagklv~G~~~v~kai~ 39 (112)
|++..+-++.+.+-.++.-...+|.+.+-.+-|..+|+
T Consensus 1 m~~~~sisL~~~~~~~i~~~V~sG~Y~s~SEvvR~aLR 38 (80)
T PF03693_consen 1 MSRNTSISLTPELEAFIEEQVASGRYSSASEVVREALR 38 (80)
T ss_dssp ----EEE---HHHHHHHHHHHCTTS-SSHHHHHHHHHH
T ss_pred CCceeeEecCHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 56666677889999999999999999999999988886
No 415
>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=24.92 E-value=2.4e+02 Score=19.57 Aligned_cols=50 Identities=10% Similarity=0.104 Sum_probs=38.3
Q ss_pred HHHhcCCceEEEEeCCCCc--hhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 36 RSLRSSKGKLILLSNNCPP--LRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 36 kai~~gka~lVilA~D~s~--~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
+..-.+--++++|.+.+.+ +..+.+..+|+..++|+....++-.-|-+++
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 3445566788999977766 4589999999999999998777777666554
No 416
>PRK06965 acetolactate synthase 3 catalytic subunit; Validated
Probab=24.92 E-value=1.7e+02 Score=24.61 Aligned_cols=43 Identities=19% Similarity=0.111 Sum_probs=32.5
Q ss_pred HHHHHHHHhcCCceEEEEeCCCC-chhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+++.+.|++.+--++++...+. ......+..+++..++|+++
T Consensus 211 i~~~~~~L~~AkrPvil~G~g~~~~~a~~~l~~lae~~g~pv~t 254 (587)
T PRK06965 211 IRKAVSLLLSAKRPYIYTGGGVILANASRELRQLADLLGYPVTN 254 (587)
T ss_pred HHHHHHHHHhcCCCEEEECCCccccchHHHHHHHHHHhCCCEEE
Confidence 34556667777777777777775 35678899999999999996
No 417
>PRK08223 hypothetical protein; Validated
Probab=24.92 E-value=1e+02 Score=24.10 Aligned_cols=32 Identities=0% Similarity=-0.291 Sum_probs=24.0
Q ss_pred CceEEEEeCCCC-chhhhhHHHHHHhCCCcEEE
Q 033750 42 KGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 42 ka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~ 73 (112)
..-+||=+.|-. ..++..+.+.|..++||++.
T Consensus 117 ~~DlVvD~~D~~~~~~r~~ln~~c~~~~iP~V~ 149 (287)
T PRK08223 117 GVDVYVDGLDFFEFDARRLVFAACQQRGIPALT 149 (287)
T ss_pred CCCEEEECCCCCcHHHHHHHHHHHHHcCCCEEE
Confidence 366777555543 25788899999999999994
No 418
>PF06794 UPF0270: Uncharacterised protein family (UPF0270); InterPro: IPR010648 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.; PDB: 1Y0N_A.
Probab=24.91 E-value=84 Score=19.48 Aligned_cols=19 Identities=16% Similarity=0.301 Sum_probs=14.5
Q ss_pred cHHHHHHHHhcCCceEEEE
Q 033750 30 GYKTVLRSLRSSKGKLILL 48 (112)
Q Consensus 30 G~~~v~kai~~gka~lVil 48 (112)
-..+|.+++++|++.+|+=
T Consensus 38 kv~qv~~qL~~G~avI~~s 56 (70)
T PF06794_consen 38 KVEQVKQQLKSGEAVIVFS 56 (70)
T ss_dssp HHHHHHHHHHTTSEEEEE-
T ss_pred HHHHHHHHHHcCCEEEEEC
Confidence 3567899999998877763
No 419
>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional
Probab=24.91 E-value=3.3e+02 Score=22.79 Aligned_cols=45 Identities=9% Similarity=0.062 Sum_probs=35.6
Q ss_pred CCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 033750 41 SKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 86 (112)
Q Consensus 41 gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G 86 (112)
...++.+++.|.-. .....+..+++..++|++. ..+..+|..++.
T Consensus 268 ~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v-~~d~~~L~~aL~ 313 (436)
T PRK11889 268 KKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIA-VRDEAAMTRALT 313 (436)
T ss_pred cCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEe-cCCHHHHHHHHH
Confidence 34567788888764 4677888899999999995 788889988874
No 420
>PRK08999 hypothetical protein; Provisional
Probab=24.89 E-value=3.1e+02 Score=20.76 Aligned_cols=61 Identities=20% Similarity=0.171 Sum_probs=39.4
Q ss_pred HHHHHHhcCCceEEEE-eCCCCch----hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 33 TVLRSLRSSKGKLILL-SNNCPPL----RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 33 ~v~kai~~gka~lVil-A~D~s~~----~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
.+.+++..| +.+|.+ -.+.+++ ..+.+...|..+++|++ ..+.-+|...+|-+ .++ ++=.|
T Consensus 149 ~~~~~l~~g-~~~vqlR~k~~~~~~~~~~~~~l~~~~~~~~~~li--ind~~~la~~~~~~-GvH-l~~~d 214 (312)
T PRK08999 149 RLERALAAG-IRLIQLRAPQLPPAAYRALARAALGLCRRAGAQLL--LNGDPELAEDLGAD-GVH-LTSAQ 214 (312)
T ss_pred HHHHHHHCC-CcEEEEeCCCCCHHHHHHHHHHHHHHHHHhCCEEE--EECcHHHHHhcCCC-EEE-cChhh
Confidence 445666555 555555 3455542 34677789999999998 46778888888755 453 54433
No 421
>cd03421 SirA_like_N SirA_like_N, a protein of unknown function with an N-terminal SirA-like domain. The SirA, YedF, YeeD protein family is present in bacteria as well as archaea. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is suggested to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=24.89 E-value=1.5e+02 Score=17.18 Aligned_cols=32 Identities=19% Similarity=0.251 Sum_probs=21.0
Q ss_pred HhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 38 LRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 38 i~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
+..|. .+.|++.|. .....+..+|+..+-.+.
T Consensus 22 ~~~g~-~l~v~~d~~--~s~~~i~~~~~~~G~~~~ 53 (67)
T cd03421 22 LEAGG-EIEVLVDNE--VAKENVSRFAESRGYEVS 53 (67)
T ss_pred cCCCC-EEEEEEcCh--hHHHHHHHHHHHcCCEEE
Confidence 33444 356666653 456689999998887764
No 422
>PRK07878 molybdopterin biosynthesis-like protein MoeZ; Validated
Probab=24.88 E-value=96 Score=24.92 Aligned_cols=40 Identities=18% Similarity=0.003 Sum_probs=29.5
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHh
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGT 83 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~ 83 (112)
..-+||-+.|- ..++..+.++|..+++|++ +.....--|+
T Consensus 132 ~~D~Vvd~~d~-~~~r~~ln~~~~~~~~p~v-~~~~~g~~G~ 171 (392)
T PRK07878 132 QYDLILDGTDN-FATRYLVNDAAVLAGKPYV-WGSIYRFEGQ 171 (392)
T ss_pred cCCEEEECCCC-HHHHHHHHHHHHHcCCCEE-EEEeccCEEE
Confidence 36788888774 5678889999999999999 4554444443
No 423
>CHL00099 ilvB acetohydroxyacid synthase large subunit
Probab=24.88 E-value=1.7e+02 Score=24.57 Aligned_cols=42 Identities=19% Similarity=0.169 Sum_probs=30.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCC-chhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+++.+.|.+.+--++++...+. ......+..+++..++|+++
T Consensus 208 ~~a~~~L~~AkrPvil~G~g~~~~~a~~~l~~lae~lg~PV~t 250 (585)
T CHL00099 208 EQAAKLILQSSQPLLYVGGGAIISDAHQEITELAELYKIPVTT 250 (585)
T ss_pred HHHHHHHHcCCCcEEEECCCCchhchHHHHHHHHHHHCCCEEE
Confidence 4455666666666666666664 35678899999999999996
No 424
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=24.82 E-value=56 Score=26.88 Aligned_cols=40 Identities=20% Similarity=0.181 Sum_probs=32.0
Q ss_pred CCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCccc
Q 033750 51 NCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFR 90 (112)
Q Consensus 51 D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~ 90 (112)
|-+.-..++|+++|+.+.+--|.+.+|..+.|-|+|+-+.
T Consensus 199 ~ed~~~leELEqFAK~FKqRRIkLGfTQaDVGlALG~lyG 238 (398)
T KOG3802|consen 199 DEDTPDLEELEQFAKTFKQRRIKLGFTQADVGLALGALYG 238 (398)
T ss_pred cccccCHHHHHHHHHHHHhheeccccchhHHHHHHHhhhC
Confidence 4344467899999999988888778899999999986544
No 425
>PF13611 Peptidase_S76: Serine peptidase of plant viral polyprotein, P1
Probab=24.75 E-value=70 Score=22.00 Aligned_cols=29 Identities=7% Similarity=-0.007 Sum_probs=22.0
Q ss_pred EeC-CCCchhhhhHHHHHHhCCCcEEEecCCH
Q 033750 48 LSN-NCPPLRKSEIEYYAMLAKVGVHHYNGNN 78 (112)
Q Consensus 48 lA~-D~s~~~~~~i~~~c~~~~Ip~i~~~~sk 78 (112)
+|+ |.+ +..+.+.+.|-+.|||+. +.+..
T Consensus 30 v~~~~i~-dL~~~~~~ic~ergiPIe-~I~~~ 59 (121)
T PF13611_consen 30 VANNEID-DLVREVTEICCERGIPIE-IIDKK 59 (121)
T ss_pred EecCcHH-HHHHHHHHHHHHcCCCEE-EecCc
Confidence 665 332 577889999999999999 57653
No 426
>PRK00005 fmt methionyl-tRNA formyltransferase; Reviewed
Probab=24.72 E-value=1.9e+02 Score=22.31 Aligned_cols=41 Identities=17% Similarity=0.233 Sum_probs=23.9
Q ss_pred HHHHHHhcCCceE--EEEeCCCCc-h----hhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKL--ILLSNNCPP-L----RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~l--VilA~D~s~-~----~~~~i~~~c~~~~Ip~i~ 73 (112)
.++++|.+....+ |+...|... + ....+..+|+++|||++.
T Consensus 14 ~~L~~L~~~~~~i~~Vvt~~~~~~~r~~~~~~~~v~~~a~~~~Ip~~~ 61 (309)
T PRK00005 14 PSLKALLESGHEVVAVVTQPDRPAGRGKKLTPSPVKQLALEHGIPVLQ 61 (309)
T ss_pred HHHHHHHHCCCcEEEEECCCCCCCCCCCCCCCCHHHHHHHHcCCCEEC
Confidence 5667775433333 333344321 1 123578999999999984
No 427
>PRK11565 dkgA 2,5-diketo-D-gluconate reductase A; Provisional
Probab=24.67 E-value=3.1e+02 Score=20.61 Aligned_cols=63 Identities=8% Similarity=0.145 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHhCCce------ecHHHHHHHHhcCCceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEe
Q 033750 12 ESINNRLALVMKSGKYT------LGYKTVLRSLRSSKGKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 12 ~~i~~~Lgla~kagklv------~G~~~v~kai~~gka~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~ 74 (112)
...+..|..+++.|++. .+.+++.+.+.......++.-...++ .....+..+|++++|++..|
T Consensus 117 ~~~~~~l~~l~~~G~ir~iGvSn~~~~~l~~~~~~~~v~~~~~Q~~~~~~~~~~~~~~~~~~~~i~~~a~ 186 (275)
T PRK11565 117 VEAWKGMIELQKEGLIKSIGVCNFQIHHLQRLIDETGVTPVINQIELHPLMQQRQLHAWNATHKIQTESW 186 (275)
T ss_pred HHHHHHHHHHHHcCCeeEEeeccCCHHHHHHHHHhCCCCceeeeeecCCccchHHHHHHHHHCCCEEEEE
Confidence 45567777788888773 34455566655444333333333333 11345778888888887643
No 428
>COG0761 lytB 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]
Probab=24.62 E-value=3.2e+02 Score=21.60 Aligned_cols=60 Identities=8% Similarity=0.060 Sum_probs=40.5
Q ss_pred HHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeC
Q 033750 35 LRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIID 98 (112)
Q Consensus 35 ~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d 98 (112)
.+.+. .++-++|+=.+....-..+|...|++.+.|-+ ...+-+||....=.. +..+||+.
T Consensus 206 vk~la-~~~Dl~iVVG~~nSSNs~rL~eiA~~~g~~ay-lId~~~ei~~~w~~~--~~~VGvTA 265 (294)
T COG0761 206 VKELA-PEVDLVIVVGSKNSSNSNRLAEIAKRHGKPAY-LIDDAEEIDPEWLKG--VKTVGVTA 265 (294)
T ss_pred HHHHh-hcCCEEEEECCCCCccHHHHHHHHHHhCCCeE-EeCChHhCCHHHhcC--ccEEEEec
Confidence 33443 33677666666655555668889999999998 589999997654333 23577774
No 429
>PTZ00159 60S ribosomal protein L32; Provisional
Probab=24.61 E-value=2e+02 Score=20.12 Aligned_cols=45 Identities=16% Similarity=0.051 Sum_probs=36.3
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.-.++....+-.++...+-||...+..-+..|...|.+.+|.+..
T Consensus 78 ~N~keLe~L~m~~~~~aa~Ia~~Vg~rKR~~I~~rA~eL~ikV~N 122 (133)
T PTZ00159 78 RNVKDLEMLLMHNRKYAAEIAHNVSARKRKAIVERAKELNVRVLN 122 (133)
T ss_pred cCHHHHHHHhcCCcceEEEEecccccchHHHHHHHHHHhCCcccC
Confidence 334445555567788899999999999999999999999998874
No 430
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=24.48 E-value=1.9e+02 Score=19.77 Aligned_cols=36 Identities=8% Similarity=0.250 Sum_probs=23.5
Q ss_pred hcCCceEEEEeCCCCchhh---hhHHHHHHhCCCcEEEe
Q 033750 39 RSSKGKLILLSNNCPPLRK---SEIEYYAMLAKVGVHHY 74 (112)
Q Consensus 39 ~~gka~lVilA~D~s~~~~---~~i~~~c~~~~Ip~i~~ 74 (112)
++-.+..|+...|..+..+ +.+...|.+++|++..+
T Consensus 85 ~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~ 123 (165)
T PF00875_consen 85 KEYGATAVYFNEEYTPYERRRDERVRKALKKHGIKVHTF 123 (165)
T ss_dssp HHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSEEEEE
T ss_pred HhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceEEEEE
Confidence 4455888888888887544 55667777888888764
No 431
>TIGR00639 PurN phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent. In phylogenetic analyses, the member from Saccharomyces cerevisiae shows a long branch length but membership in the family, while the formyltetrahydrofolate deformylases form a closely related outgroup.
Probab=24.47 E-value=2.2e+02 Score=20.53 Aligned_cols=39 Identities=15% Similarity=0.169 Sum_probs=24.5
Q ss_pred HHHHHHHhcCC--ceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSK--GKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gk--a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
..+++++.++. +.++++-+|-++ .....+|++++||++.
T Consensus 15 ~~ll~~~~~~~l~~~I~~vi~~~~~---~~~~~~A~~~gip~~~ 55 (190)
T TIGR00639 15 QAIIDACKEGKIPASVVLVISNKPD---AYGLERAAQAGIPTFV 55 (190)
T ss_pred HHHHHHHHcCCCCceEEEEEECCcc---chHHHHHHHcCCCEEE
Confidence 45566666665 355554455432 2446789999999984
No 432
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=24.46 E-value=1.5e+02 Score=18.84 Aligned_cols=39 Identities=10% Similarity=0.066 Sum_probs=21.3
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
...+.+...+.++.. ++|...|- ..++++. ...+||++.
T Consensus 52 ~addci~~~~~~~~~-~~VaT~D~--~Lr~~lr---~~~GvPvi~ 90 (101)
T PF04900_consen 52 SADDCILDLAGKNNK-YIVATQDK--ELRRRLR---KIPGVPVIY 90 (101)
T ss_pred CHHHHHHHHhccCCe-EEEEecCH--HHHHHHh---cCCCCCEEE
Confidence 345555555544444 44444443 3444443 378999994
No 433
>cd07395 MPP_CSTP1 Homo sapiens CSTP1 and related proteins, metallophosphatase domain. CSTP1 (complete S-transactivated protein 1) is an uncharacterized Homo sapiens protein with a metallophosphatase domain, that is transactivated by the complete S protein of hepatitis B virus. CSTP1 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 th
Probab=24.45 E-value=2.7e+02 Score=20.39 Aligned_cols=46 Identities=11% Similarity=0.195 Sum_probs=28.8
Q ss_pred HHHHHHHhcC--CceEEEEeCCCCchhhh---------hHHHHHHhC--CCcEEEecCC
Q 033750 32 KTVLRSLRSS--KGKLILLSNNCPPLRKS---------EIEYYAMLA--KVGVHHYNGN 77 (112)
Q Consensus 32 ~~v~kai~~g--ka~lVilA~D~s~~~~~---------~i~~~c~~~--~Ip~i~~~~s 77 (112)
+.+...+.+. +..+||++.|...+... .+...-... ++|++...|+
T Consensus 37 ~~~~~~i~~~~~~pd~ii~~GDl~~~~~~~~~~~~~~~~~~~~~~~~~~~vp~~~i~GN 95 (262)
T cd07395 37 EQAVQAINKLNPKPKFVVVCGDLVNAMPGDELRERQVSDLKDVLSLLDPDIPLVCVCGN 95 (262)
T ss_pred HHHHHHHHhcCCCCCEEEEeCCcCCCCcchhhHHHHHHHHHHHHhhccCCCcEEEeCCC
Confidence 5566777665 89999999999875321 222222222 6899853444
No 434
>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=24.37 E-value=2.4e+02 Score=19.33 Aligned_cols=64 Identities=6% Similarity=-0.073 Sum_probs=47.6
Q ss_pred CCceEEEEeCCCCch--------hhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEeCcCchHHHhc
Q 033750 41 SKGKLILLSNNCPPL--------RKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSIIDPGDSDIIKS 107 (112)
Q Consensus 41 gka~lVilA~D~s~~--------~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~d~g~a~~i~~ 107 (112)
.+..+.|+-.|-++. .+.-+..+-....+.+.. .+.+|.-.++-... +..+.+..++|++.+..
T Consensus 42 ~~lpvaVVd~D~s~~~~~~~~~~s~~l~~~l~~~~~~~~~~--~~~~ea~~~l~~g~-~~~~ivIP~~Fs~~l~~ 113 (164)
T TIGR03061 42 DNLPVAVVNEDKGATYDGKTLNAGDDLVKELKKNDDLDWHF--VSAKEAEKGLADGK-YYMVITIPEDFSENATS 113 (164)
T ss_pred CCCeEEEEECCCCCCcCCcccchHHHHHHHHhcCCCcceEE--cCHHHHHHHhHcCc-EEEEEEECcchhHHHHh
Confidence 468999999999986 555556665555677663 38889999887664 44577789999998865
No 435
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=24.25 E-value=1.8e+02 Score=21.49 Aligned_cols=41 Identities=17% Similarity=-0.013 Sum_probs=23.9
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
...+.+.+...++.+| +.. .+......+..+++..+||++.
T Consensus 56 ~~~~~~li~~~~v~ai-iG~-~~s~~~~~v~~~~~~~~ip~i~ 96 (334)
T cd06347 56 ANAATRLIDQDKVVAI-IGP-VTSGATLAAGPIAEDAKVPMIT 96 (334)
T ss_pred HHHHHHHhcccCeEEE-EcC-CccHhHHHhHHHHHHCCCeEEc
Confidence 3444455544456665 333 3333444556678889999985
No 436
>PLN02820 3-methylcrotonyl-CoA carboxylase, beta chain
Probab=24.24 E-value=1e+02 Score=26.45 Aligned_cols=33 Identities=6% Similarity=-0.016 Sum_probs=22.4
Q ss_pred eEEEEeCCCCc--h---hhhhHHHHHHhCCCcEEEecC
Q 033750 44 KLILLSNNCPP--L---RKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 44 ~lVilA~D~s~--~---~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
-+.|+|+|-.- + -..++.++|..++||++++.+
T Consensus 372 ~VgvvAn~g~l~~~~a~Kaarfi~lc~~~~iPlv~l~D 409 (569)
T PLN02820 372 PVGIIGNNGILFTESALKGAHFIELCAQRGIPLLFLQN 409 (569)
T ss_pred EEEEEEECCccCHHHHHHHHHHHHHHHhcCCCEEEEEE
Confidence 34677776532 2 225667899999999987443
No 437
>PRK13599 putative peroxiredoxin; Provisional
Probab=24.23 E-value=2.9e+02 Score=20.22 Aligned_cols=56 Identities=13% Similarity=0.026 Sum_probs=32.9
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHH--hCC--CcEEEecCCHHHHHhhhCC
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAM--LAK--VGVHHYNGNNVDLGTACGK 87 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~--~~~--Ip~i~~~~sk~eLG~a~Gk 87 (112)
.+.+..+.+++..+.++-++.|..+....-....-+ .++ .|++ .+...++++++|.
T Consensus 50 ~l~~~~~~f~~~gv~vigIS~D~~~~~~~w~~~i~~~~~~~i~fPil--~D~~~~va~~yg~ 109 (215)
T PRK13599 50 EFARKANDFKELNTELIGLSVDQVFSHIKWVEWIKDNTNIAIPFPVI--ADDLGKVSNQLGM 109 (215)
T ss_pred HHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHhHHHhcCCCCceeEE--ECCCchHHHHcCC
Confidence 344566667666788888888865543332222211 223 4555 3555688899885
No 438
>cd01490 Ube1_repeat2 Ubiquitin activating enzyme (E1), repeat 2. 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 second repeat of Ub-E1.
Probab=24.23 E-value=99 Score=25.62 Aligned_cols=34 Identities=6% Similarity=-0.053 Sum_probs=27.2
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
+.-+||-|.|-- ..+..+..+|..+++|++. .++
T Consensus 98 ~~DvVi~alDn~-~aR~~vn~~C~~~~iPli~-~gt 131 (435)
T cd01490 98 KLDGVANALDNV-DARMYVDRRCVYYRKPLLE-SGT 131 (435)
T ss_pred CCCEEEECCCCH-HHHHHHHHHHHHhCCCEEE-Eec
Confidence 366777777754 5778999999999999996 765
No 439
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS 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=24.22 E-value=1.7e+02 Score=17.58 Aligned_cols=25 Identities=12% Similarity=-0.077 Sum_probs=15.3
Q ss_pred hhhhhHHHHHHhCCCcEEEecCCHHHH
Q 033750 55 LRKSEIEYYAMLAKVGVHHYNGNNVDL 81 (112)
Q Consensus 55 ~~~~~i~~~c~~~~Ip~i~~~~sk~eL 81 (112)
...+++ ..|...++|++.+.+ .+|+
T Consensus 42 ~l~k~i-~~a~~~g~~~~iiiG-~~e~ 66 (94)
T cd00861 42 RPGVKF-ADADLIGIPYRIVVG-KKSA 66 (94)
T ss_pred Ccccch-hHHHhcCCCEEEEEC-Cchh
Confidence 344444 456788999886444 4444
No 440
>PRK01278 argD acetylornithine transaminase protein; Provisional
Probab=24.21 E-value=1.6e+02 Score=22.93 Aligned_cols=49 Identities=6% Similarity=-0.011 Sum_probs=31.9
Q ss_pred HHHHHHHhcCCceEEEEeCCCC--------chhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 32 KTVLRSLRSSKGKLILLSNNCP--------PLRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s--------~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
+.+.+.+. .+.++||+-..-+ +...+.|.++|+++++.++. ..-...+|
T Consensus 166 ~~l~~~l~-~~~~avivep~~~~~G~~~~~~~~l~~l~~l~~~~g~~lI~-DEv~~g~g 222 (389)
T PRK01278 166 EALKAAIT-PNTAAILIEPIQGEGGIRPAPDEFLKGLRQLCDENGLLLIF-DEVQCGMG 222 (389)
T ss_pred HHHHHhhC-CCeEEEEEecccCCCCCcCCCHHHHHHHHHHHHHcCCEEEE-eccccCCC
Confidence 34445554 4677777775432 34668899999999999994 44333344
No 441
>PRK12726 flagellar biosynthesis regulator FlhF; Provisional
Probab=24.12 E-value=2.6e+02 Score=23.17 Aligned_cols=43 Identities=12% Similarity=0.038 Sum_probs=33.9
Q ss_pred ceEEEEeCCCCc-hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhC
Q 033750 43 GKLILLSNNCPP-LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACG 86 (112)
Q Consensus 43 a~lVilA~D~s~-~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~G 86 (112)
.+..+++.|.-. .....+..+++..++|++. ..+..+|..++.
T Consensus 235 ~~V~lItaDtyR~gAveQLk~yae~lgvpv~~-~~dp~dL~~al~ 278 (407)
T PRK12726 235 RTVGFITTDTFRSGAVEQFQGYADKLDVELIV-ATSPAELEEAVQ 278 (407)
T ss_pred CeEEEEeCCccCccHHHHHHHHhhcCCCCEEe-cCCHHHHHHHHH
Confidence 567788888653 3467899999999999985 788889987664
No 442
>PF04705 TSNR_N: Thiostrepton-resistance methylase, N terminus; InterPro: IPR006795 This region is found in some members of the SpoU-type rRNA methylase family (IPR001537 from INTERPRO).; GO: 0008649 rRNA methyltransferase activity, 0046677 response to antibiotic; PDB: 3GYQ_B 3NK6_A 3NK7_A.
Probab=24.12 E-value=85 Score=21.19 Aligned_cols=61 Identities=11% Similarity=0.052 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHhCC--ceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 12 ESINNRLALVMKSGK--YTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 12 ~~i~~~Lgla~kagk--lv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
++|.++-.-.|.+=+ |+--.+....+|+.|-=-+=+.++|.+|- --.+..+|+..+||+-.
T Consensus 16 qRIiDvtk~sRs~ikT~LIED~EPL~~~i~AGvefieVYg~~~~p~-~~~ll~~c~~r~Ipvrl 78 (115)
T PF04705_consen 16 QRIIDVTKHSRSNIKTTLIEDPEPLTHSIRAGVEFIEVYGSDGSPV-PPELLAACRQRGIPVRL 78 (115)
T ss_dssp HHHHHHHCTSTTTTTEEEEESHHHHHHHHCTT-EEEEEEEETTS----CCCCHHHHCTT--EEE
T ss_pred HHHHhhcccchhhheeeeecCchHHHHHHhcCcEEEEEeeecCCCC-ChHHHHHHHhcCCceEE
Confidence 344444433333322 66778889999999977778889999883 23466799999999984
No 443
>cd01174 ribokinase Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides and histidine, and for entry into the pentose phosphate pathway. Ribokinase is dimeric in solution.
Probab=24.05 E-value=1.4e+02 Score=21.83 Aligned_cols=31 Identities=23% Similarity=0.050 Sum_probs=17.3
Q ss_pred CceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 42 KGKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 42 ka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
.+.+|++..+.+++....+...++++++|++
T Consensus 129 ~~~~v~~~~~~~~~~~~~~~~~a~~~g~~v~ 159 (292)
T cd01174 129 AADVLLLQLEIPLETVLAALRAARRAGVTVI 159 (292)
T ss_pred cCCEEEEeCCCCHHHHHHHHHHHHhcCCEEE
Confidence 4555556555555555555555666666654
No 444
>cd03334 Fab1_TCP TCP-1 like domain of the eukaryotic phosphatidylinositol 3-phosphate (PtdIns3P) 5-kinase Fab1. Fab1p is important for vacuole size regulation, presumably by modulating PtdIns(3,5)P2 effector activity. In the human homolog p235/PIKfyve deletion of this domain leads to loss of catalytic activity. However no exact function this domain has been defined. In general, chaperonins are involved in productive folding of proteins.
Probab=24.05 E-value=3.2e+02 Score=20.60 Aligned_cols=50 Identities=12% Similarity=0.142 Sum_probs=35.4
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
.++..+.|..-.+.+||.-..+++. ..+++.++||.++. .-++.+|-+.+
T Consensus 119 l~~~v~kI~~~g~nvIl~~k~I~~~----a~~~l~k~gI~~v~-~v~~~dl~rIa 168 (261)
T cd03334 119 LKNLVSRIVALRPDVILVEKSVSRI----AQDLLLEAGITLVL-NVKPSVLERIS 168 (261)
T ss_pred HHHHHHHHHhcCCCEEEECCccCHH----HHHHHHHCCCEEEE-ecCHHHHHHHH
Confidence 4455666666778899988877763 34567788999986 67777665554
No 445
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=24.01 E-value=2.2e+02 Score=20.30 Aligned_cols=40 Identities=8% Similarity=0.157 Sum_probs=29.3
Q ss_pred HHhCCceecHHHHHHHHhcCCceEEEEeCCCCchhhhhHH
Q 033750 22 MKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPPLRKSEIE 61 (112)
Q Consensus 22 ~kagklv~G~~~v~kai~~gka~lVilA~D~s~~~~~~i~ 61 (112)
.+.-.+.-|..++++.+++....+.|+++........-+.
T Consensus 66 ~~~~~l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~ 105 (214)
T TIGR03333 66 LETAEIREGFREFVAFINEHGIPFYVISGGMDFFVYPLLE 105 (214)
T ss_pred HhcCcccccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHH
Confidence 3456899999999999998888888877775543333333
No 446
>PF10107 Endonuc_Holl: Endonuclease related to archaeal Holliday junction resolvase; InterPro: IPR019287 This domain is found in various predicted bacterial endonucleases which are distantly related to archaeal Holliday junction resolvases.
Probab=24.00 E-value=88 Score=22.46 Aligned_cols=26 Identities=12% Similarity=0.128 Sum_probs=21.9
Q ss_pred hCCceecHHHHHHHHhcCCceEEEEe
Q 033750 24 SGKYTLGYKTVLRSLRSSKGKLILLS 49 (112)
Q Consensus 24 agklv~G~~~v~kai~~gka~lVilA 49 (112)
+++|..+.+.+.+++..|++.+..+-
T Consensus 129 ~~~Lt~rEk~ir~aVe~grV~~e~~~ 154 (156)
T PF10107_consen 129 SARLTKREKAIRDAVEAGRVRWEEIR 154 (156)
T ss_pred CcccCHHHHHHHHHHHcCceEEEEEe
Confidence 34788899999999999999987764
No 447
>cd01839 SGNH_arylesterase_like SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=23.96 E-value=1.3e+02 Score=21.02 Aligned_cols=16 Identities=6% Similarity=-0.157 Sum_probs=13.2
Q ss_pred hhHHHHHHhCCCcEEE
Q 033750 58 SEIEYYAMLAKVGVHH 73 (112)
Q Consensus 58 ~~i~~~c~~~~Ip~i~ 73 (112)
+.+..+|++++++++.
T Consensus 159 ~~~~~~a~~~~~~~iD 174 (208)
T cd01839 159 DAYRALAEELGCHFFD 174 (208)
T ss_pred HHHHHHHHHhCCCEEc
Confidence 5567789999999985
No 448
>cd02979 PHOX_C FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and simple phenol derivatives in the ortho position with the consumption of NADPH and oxygen. This is the first step in the biodegradation and detoxification of phenolic compounds. PHOX contains three domains. The substrate and FAD/NAD(P) binding sites are contained in the first two domains, which adopt a complicated folding pattern. The third or C-terminal domain contains a TRX fold and is involved in dimerization. The functional unit of PHOX is a dimer, although active tetramers of the recombinant enzyme can be isolated when overproduced in bacteria.
Probab=23.95 E-value=1e+02 Score=21.69 Aligned_cols=30 Identities=10% Similarity=0.211 Sum_probs=24.5
Q ss_pred cCCceEEEEeCCCCc-hhhhhHHHHHHhCCC
Q 033750 40 SSKGKLILLSNNCPP-LRKSEIEYYAMLAKV 69 (112)
Q Consensus 40 ~gka~lVilA~D~s~-~~~~~i~~~c~~~~I 69 (112)
.|+-++++.|+|.++ ..+..+..+|+...-
T Consensus 27 dGrfrI~vFagd~~~~~~~~~l~~~~~~L~~ 57 (167)
T cd02979 27 DGRFRIYVFAGDIAPAQQKSRLTQLCDALDS 57 (167)
T ss_pred CCCEEEEEEcCCCCchhHHHHHHHHHHHHcC
Confidence 488999999999986 677889888886533
No 449
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=23.92 E-value=1.9e+02 Score=17.87 Aligned_cols=29 Identities=7% Similarity=-0.091 Sum_probs=15.2
Q ss_pred HHHHHHhCCCcEEEecC--C---HHHHHhhhCCc
Q 033750 60 IEYYAMLAKVGVHHYNG--N---NVDLGTACGKY 88 (112)
Q Consensus 60 i~~~c~~~~Ip~i~~~~--s---k~eLG~a~Gk~ 88 (112)
+..+-+..+|||..+.- + +++|.+.-|..
T Consensus 29 ak~~L~~~~i~y~~idv~~~~~~~~~l~~~~g~~ 62 (90)
T cd03028 29 VVQILNQLGVDFGTFDILEDEEVRQGLKEYSNWP 62 (90)
T ss_pred HHHHHHHcCCCeEEEEcCCCHHHHHHHHHHhCCC
Confidence 44444567788774221 1 34555555643
No 450
>cd00609 AAT_like Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary hi
Probab=23.83 E-value=1.9e+02 Score=21.33 Aligned_cols=43 Identities=21% Similarity=0.264 Sum_probs=28.0
Q ss_pred HHHHHhcCCceEEEEeCCCCch-------hhhhHHHHHHhCCCcEEEecCC
Q 033750 34 VLRSLRSSKGKLILLSNNCPPL-------RKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~-------~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
.++.....+.++|++..-.++. ....+..+|++++++++. ...
T Consensus 124 ~~~~~~~~~~~~v~i~~~~~~tG~~~~~~~l~~l~~~~~~~~~~~iv-D~a 173 (350)
T cd00609 124 LLEAAKTPKTKLLYLNNPNNPTGAVLSEEELEELAELAKKHGILIIS-DEA 173 (350)
T ss_pred HHHhhcCccceEEEEECCCCCCCcccCHHHHHHHHHHHHhCCeEEEE-ecc
Confidence 4445556678888887643332 234555899999999984 443
No 451
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=23.66 E-value=2.2e+02 Score=20.13 Aligned_cols=40 Identities=13% Similarity=0.057 Sum_probs=21.1
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+...++.-||+.+..++.....+.. +...+||++.
T Consensus 46 ~~~~~~~~~~~dgii~~~~~~~~~~~~l~~-l~~~~ipvv~ 85 (268)
T cd06323 46 NDIEDLITRGVDAIIINPTDSDAVVPAVKA-ANEAGIPVFT 85 (268)
T ss_pred HHHHHHHHcCCCEEEEcCCChHHHHHHHHH-HHHCCCcEEE
Confidence 344444555677666654333323333333 3567888874
No 452
>PTZ00125 ornithine aminotransferase-like protein; Provisional
Probab=23.59 E-value=1.4e+02 Score=23.21 Aligned_cols=50 Identities=10% Similarity=0.027 Sum_probs=32.6
Q ss_pred HHHHHHHhcCCceEEEEeCCC-------C-chhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 32 KTVLRSLRSSKGKLILLSNNC-------P-PLRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~-------s-~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
++..+.++..+.++|++-.-- + +...+.|..+|+++++.++. ......+|
T Consensus 168 ~~le~~l~~~~~~~v~~ep~~~~~G~~~~~~~~l~~l~~l~~~~~~lli~-Dev~~g~g 225 (400)
T PTZ00125 168 EALEKLLQDPNVAAFIVEPIQGEAGVIVPDDGYLKQVYELCKKYNVLLIV-DEIQTGLG 225 (400)
T ss_pred HHHHHHhCCCCeEEEEEcCccCCCCCccCCHHHHHHHHHHHHHcCCEEEE-eccccCCC
Confidence 455666654678888874321 1 23478899999999999884 44433344
No 453
>PF02348 CTP_transf_3: Cytidylyltransferase; InterPro: IPR003329 Synonym(s): CMP-N-acetylneuraminic acid synthetase Acylneuraminate cytidylyltransferase (2.7.7.43 from EC) (CMP-NeuAc synthetase) catalyzes the reaction of CTP and NeuAc to form CMP-NeuAc, which is the nucleotide sugar donor used by sialyltransferases []. The outer membrane lipooligosaccharides of some microorganisms contain terminal sialic acid attached to N-acetyllactosamine and so this modification may be important in pathogenesis.; GO: 0009103 lipopolysaccharide biosynthetic process; PDB: 3K8D_C 1VH1_B 3K8E_C 1QWJ_A 3EWI_A 1VIC_B 3DUV_A 1VH3_C 3TQD_A 2Y6P_C ....
Probab=23.48 E-value=1.6e+02 Score=20.76 Aligned_cols=33 Identities=18% Similarity=0.037 Sum_probs=21.6
Q ss_pred HHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 36 RSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 36 kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+.+.+...-|++|+|..+ +...|+++++.++.
T Consensus 33 ~a~~s~~~d~IvVaTd~~~-----i~~~~~~~g~~v~~ 65 (217)
T PF02348_consen 33 RAKQSKLIDEIVVATDDEE-----IDDIAEEYGAKVIF 65 (217)
T ss_dssp HHHHTTTTSEEEEEESSHH-----HHHHHHHTTSEEEE
T ss_pred HHHhCCCCCeEEEeCCCHH-----HHHHHHHcCCeeEE
Confidence 3334444556888998876 66677777776663
No 454
>COG1445 FrwB Phosphotransferase system fructose-specific component IIB [Carbohydrate transport and metabolism]
Probab=23.46 E-value=1e+02 Score=21.22 Aligned_cols=35 Identities=9% Similarity=0.016 Sum_probs=24.2
Q ss_pred CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 41 SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 41 gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
..+.+||+|.|..-+..+.+ .+-|++. ..+.+-|=
T Consensus 55 ~~Ad~VI~AaD~~i~~~~ff------~gk~vi~-~~~~~aik 89 (122)
T COG1445 55 AAADVVILAADIEVDLSRFF------AGKPVIE-VSTKDAIK 89 (122)
T ss_pred HhCCEEEEEecccccHhHhh------cCCeEEE-ecHHHHHh
Confidence 45999999999977554432 1778886 66665543
No 455
>PRK08334 translation initiation factor IF-2B subunit beta; Validated
Probab=23.45 E-value=1.4e+02 Score=24.14 Aligned_cols=37 Identities=8% Similarity=0.012 Sum_probs=25.7
Q ss_pred HHhcCCceEEEEeCCCCc---hhhhh-----HHHHHHhCCCcEEE
Q 033750 37 SLRSSKGKLILLSNNCPP---LRKSE-----IEYYAMLAKVGVHH 73 (112)
Q Consensus 37 ai~~gka~lVilA~D~s~---~~~~~-----i~~~c~~~~Ip~i~ 73 (112)
.+.+|++.+||+..|.=- .+..+ +-..|+.++||++.
T Consensus 233 ~M~~~~Vd~VivGAd~I~~nG~v~NKiGTy~lA~~Ak~~~vPfyV 277 (356)
T PRK08334 233 VMQQGKVDAIIVGADRIVANGDFANKIGTYTLAVLAKEHGIPFFT 277 (356)
T ss_pred HhhhcCCCEEEECccEEecCCCEeehhhHHHHHHHHHHhCCCEEE
Confidence 445678999999888622 23333 35578899999985
No 456
>TIGR01261 hisB_Nterm histidinol-phosphatase. This model describes histidinol phosphatase. All known examples in the scope of this model are bifunctional proteins with a histidinol phosphatase domain followed by an imidazoleglycerol-phosphate dehydratase domain. These enzymatic domains catalyze the ninth and seventh steps, respectively, of histidine biosynthesis.
Probab=23.41 E-value=2.4e+02 Score=19.61 Aligned_cols=46 Identities=11% Similarity=0.058 Sum_probs=31.4
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCCc-----------hhhhhHHHHHHhCCCcE
Q 033750 26 KYTLGYKTVLRSLRSSKGKLILLSNNCPP-----------LRKSEIEYYAMLAKVGV 71 (112)
Q Consensus 26 klv~G~~~v~kai~~gka~lVilA~D~s~-----------~~~~~i~~~c~~~~Ip~ 71 (112)
++.-|..++++.+++...+++|+++..+. .....+..+++..++++
T Consensus 29 ~~~pgv~e~L~~L~~~g~~l~IvSN~~g~~~~~~~~~~~~~~~~~~~~~l~~~gl~f 85 (161)
T TIGR01261 29 RFEKGVIPALLKLKKAGYKFVMVTNQDGLGTPSFPQADFDGPHNLMLQIFRSQGIIF 85 (161)
T ss_pred eECCCHHHHHHHHHHCCCeEEEEeCCccccCCcCCHHHHHHHHHHHHHHHHHCCCce
Confidence 56678899999998877787777764311 02345666777778774
No 457
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=23.39 E-value=2.3e+02 Score=21.49 Aligned_cols=48 Identities=6% Similarity=-0.146 Sum_probs=25.7
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
.+.+.+...++..|+ ..-+|+ ....+..+|++++||++.+..+...|.
T Consensus 61 ~~~~li~~~~v~aii-G~~~s~-~~~a~~~~~~~~~ip~i~~~~~~~~l~ 108 (347)
T cd06340 61 EAERLITEEGVVALV-GAYQSA-VTLAASQVAERYGVPFVVDGAVSDSIT 108 (347)
T ss_pred HHHHHhccCCceEEe-cccchH-hHHHHHHHHHHhCCCEEeccccchHHh
Confidence 344444444554444 444443 334566688888999985323334443
No 458
>PRK13730 conjugal transfer pilus assembly protein TrbC; Provisional
Probab=23.30 E-value=1.3e+02 Score=22.74 Aligned_cols=33 Identities=12% Similarity=0.016 Sum_probs=28.3
Q ss_pred CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 41 SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 41 gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+..-++|++-..++...+.+..-++.+++|++.
T Consensus 89 ~~g~~vFVSfSMP~~sLk~Ll~qa~~~G~p~Vl 121 (212)
T PRK13730 89 RQGALYFVSFSIPEEGLKRMLGETRHYGIPATL 121 (212)
T ss_pred CCceEEEEEcCCCHHHHHHHHHHHHHhCCcEEE
Confidence 445788888899999999999999999999983
No 459
>cd01164 FruK_PfkB_like 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose 6-phosphate pathway, which responsible for breakdown of the galactose moiety during lactose metabolism by bacteria such as L. lactis.
Probab=23.30 E-value=2.2e+02 Score=20.94 Aligned_cols=42 Identities=26% Similarity=0.265 Sum_probs=23.3
Q ss_pred CceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEEecCCHHHHHhh
Q 033750 42 KGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHHYNGNNVDLGTA 84 (112)
Q Consensus 42 ka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a 84 (112)
++.++++.....+ .....+...|+..++|++ +..+...+-..
T Consensus 128 ~~~~~~i~g~~~~~~~~~~~~~~~~~~~~~~~~i~-~D~~~~~~~~~ 173 (289)
T cd01164 128 KGDIVVLSGSLPPGVPADFYAELVRLAREKGARVI-LDTSGEALLAA 173 (289)
T ss_pred CCCEEEEeCCCCCCcCHHHHHHHHHHHHHcCCeEE-EECChHHHHHH
Confidence 4666666655443 444555666666777776 44444333333
No 460
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=23.30 E-value=1e+02 Score=24.59 Aligned_cols=36 Identities=11% Similarity=0.040 Sum_probs=25.0
Q ss_pred HhcCCceEEEEeCCCCc---hhh-----hhHHHHHHhCCCcEEE
Q 033750 38 LRSSKGKLILLSNNCPP---LRK-----SEIEYYAMLAKVGVHH 73 (112)
Q Consensus 38 i~~gka~lVilA~D~s~---~~~-----~~i~~~c~~~~Ip~i~ 73 (112)
+.++++..||+..|.=- .+. -.+-..|+.++||++.
T Consensus 211 M~~~~Vd~VivGAd~I~aNG~v~NKiGT~~lAl~Ak~~~VPfyV 254 (329)
T PRK06371 211 MRKKEIDLVIVGADRIASNGDFANKIGTYEKAVLAKVNGIPFYV 254 (329)
T ss_pred hhhcCCCEEEECccEEecCCCEeehhhHHHHHHHHHHcCCCEEE
Confidence 34577889998877622 122 4455688999999985
No 461
>TIGR00854 pts-sorbose PTS system, mannose/fructose/sorbose family, IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIB components of this family of PTS transporters.
Probab=23.28 E-value=2.7e+02 Score=19.43 Aligned_cols=77 Identities=10% Similarity=-0.036 Sum_probs=53.7
Q ss_pred CCceecHHHHHHHHhcCCceEEEEeCCCCc--hhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCC----cccEEEEEEeC
Q 033750 25 GKYTLGYKTVLRSLRSSKGKLILLSNNCPP--LRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGK----YFRVSCLSIID 98 (112)
Q Consensus 25 gklv~G~~~v~kai~~gka~lVilA~D~s~--~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk----~~~~~vvaI~d 98 (112)
.+|+.|+= +..+++.-++.-+|++.|.-. ...+.+..+|...++++. ..|-++--..+-. ..++ .+-+.+
T Consensus 9 dRLIHGQV-~~~W~~~~~~~~IiVvdD~~A~D~~~k~~lkma~P~gvk~~--i~sve~a~~~l~~~~~~~~~v-~vl~k~ 84 (151)
T TIGR00854 9 DRLIHGQV-GTTWTKVAGANRIIVVNDDVANDEVRQTLMGIVAPTGFKVR--FVSLEKTINVIHKPAYHDQTI-FLLFRN 84 (151)
T ss_pred ccchhhHh-hhhhhcccCCCEEEEEcccccCCHHHHHHHHhhCCCCCEEE--EEEHHHHHHHHhCcCCCCceE-EEEECC
Confidence 46777765 578899999999999999876 477888888888899997 3566666555532 2234 344456
Q ss_pred cCchHHH
Q 033750 99 PGDSDII 105 (112)
Q Consensus 99 ~g~a~~i 105 (112)
+..+..+
T Consensus 85 ~~da~~l 91 (151)
T TIGR00854 85 PQDVLTL 91 (151)
T ss_pred HHHHHHH
Confidence 6555544
No 462
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=23.27 E-value=1.7e+02 Score=23.63 Aligned_cols=45 Identities=18% Similarity=0.170 Sum_probs=31.2
Q ss_pred ecHHHHHHHHhc-----CCceEEEEeCCCCchhh-hhHHHHHHh----C-CCcEEE
Q 033750 29 LGYKTVLRSLRS-----SKGKLILLSNNCPPLRK-SEIEYYAML----A-KVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~-----gka~lVilA~D~s~~~~-~~i~~~c~~----~-~Ip~i~ 73 (112)
-|.+...++|++ .+.+++++.+-|.+.+. ..+...|++ . ++|++.
T Consensus 79 Gg~~~L~~ai~ei~~~~~~P~~I~V~tTC~~e~IGDDi~~v~~e~~~~~~~~pvv~ 134 (427)
T PRK02842 79 DANEELDRVVEELIKRRPNISVLFLVGSCPSEVIKLDLEGLAERLSTEFAGVPVLN 134 (427)
T ss_pred CcHHHHHHHHHHHHhccCCCCEEEEECCChHHhhcCCHHHHHHHhhcccCCCeEEE
Confidence 345555666655 57899999999988654 666666653 3 789885
No 463
>cd01854 YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.
Probab=23.19 E-value=1.1e+02 Score=23.33 Aligned_cols=23 Identities=17% Similarity=-0.057 Sum_probs=16.0
Q ss_pred hhHHHHHHhCCCcEEEecCCHHHH
Q 033750 58 SEIEYYAMLAKVGVHHYNGNNVDL 81 (112)
Q Consensus 58 ~~i~~~c~~~~Ip~i~~~~sk~eL 81 (112)
.++...++..++|++ .+.+|.+|
T Consensus 99 dr~L~~~~~~~ip~i-IVlNK~DL 121 (287)
T cd01854 99 DRYLVAAEAAGIEPV-IVLTKADL 121 (287)
T ss_pred HHHHHHHHHcCCCEE-EEEEHHHC
Confidence 444445667788888 48888887
No 464
>COG1861 SpsF Spore coat polysaccharide biosynthesis protein F, CMP-KDO synthetase homolog [Cell envelope biogenesis, outer membrane]
Probab=23.14 E-value=2.8e+02 Score=21.28 Aligned_cols=50 Identities=18% Similarity=0.108 Sum_probs=36.0
Q ss_pred HHHHHHhcCC--ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHH-HHHhhhC
Q 033750 33 TVLRSLRSSK--GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNV-DLGTACG 86 (112)
Q Consensus 33 ~v~kai~~gk--a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~-eLG~a~G 86 (112)
-+++.+++.+ .++||.+||-.++ +.|...|..+++-++. ||-+ -|-+.++
T Consensus 33 ~~lervrks~~~d~ivvATS~~~~d--~~l~~~~~~~G~~vfr--Gs~~dVL~Rf~~ 85 (241)
T COG1861 33 YQLERVRKSKDLDKIVVATSDKEED--DALEEVCRSHGFYVFR--GSEEDVLQRFII 85 (241)
T ss_pred HHHHHHhccccccceEEEecCCcch--hHHHHHHHHcCeeEec--CCHHHHHHHHHH
Confidence 4566666666 8899999888654 4588899999999974 5554 4555553
No 465
>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=23.10 E-value=3.1e+02 Score=20.08 Aligned_cols=65 Identities=17% Similarity=0.062 Sum_probs=42.3
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecC---CHHHHHhh---hCCcccEEEEEEeCcCc
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNG---NNVDLGTA---CGKYFRVSCLSIIDPGD 101 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~---sk~eLG~a---~Gk~~~~~vvaI~d~g~ 101 (112)
.++.+++..+..|+.....++.....+...|...+++++. +. ++.||=+. .|-. +-++.+...++
T Consensus 78 ~l~~~~~~g~~~vv~G~i~sd~~~~~~e~v~~~~gl~~~~-PLw~~~~~el~~~~~~~G~~--~~i~~v~~~~l 148 (218)
T TIGR03679 78 ALKELKREGVEGIVTGAIASRYQKSRIERICEELGLKVFA-PLWGRDQEEYLRELVERGFR--FIIVSVSAYGL 148 (218)
T ss_pred HHHHHHHcCCCEEEECCcccHhHHHHHHHHHHhCCCeEEe-ehhcCCHHHHHHHHHHCCCE--EEEEEEecCCC
Confidence 3444444357778888888877888889999999988874 43 77766543 3554 32455544444
No 466
>PF01655 Ribosomal_L32e: Ribosomal protein L32; InterPro: IPR001515 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 [, ]. The L32e family consists of proteins that have 135 to 240 amino-acid residues.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3O58_b 3IZS_h 1S1I 3O5H_b 2ZKR_y 1Q7Y_Z 1VQ7_Y 3CCQ_Y 3CCV_Y 3CC7_Y ....
Probab=22.93 E-value=1.2e+02 Score=20.41 Aligned_cols=42 Identities=19% Similarity=0.079 Sum_probs=31.0
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
.++...-+...+-..+-||...+...++.|...|.+.+|.+.
T Consensus 67 ~~eLe~L~m~~~~~~~~Ia~~Vg~kkr~~I~erA~el~ikV~ 108 (110)
T PF01655_consen 67 VKELEVLLMDNKSYAAEIAHNVGSKKRKEIVERAAELGIKVL 108 (110)
T ss_dssp HHHHHHCHHHTTTEEEEE-TTS-HHHHHHHHHHHHHHT-EBS
T ss_pred cchHHHHhcCCcceEEEEecCcccccHHHHHHHHHHhCCccc
Confidence 344444556788899999999999999999999999888763
No 467
>cd00513 Ribosomal_L32_L32e Ribosomal_L32_L32e: L32 is a protein from the large subunit that contains a surface-exposed globular domain and a finger-like projection that extends into the RNA core to stabilize the tertiary structure. L32 does not appear to play a role in forming the A (aminacyl), P (peptidyl) or E (exit) sites of the ribosome, but does interact with 23S rRNA, which has a "kink-turn" secondary structure motif. L32 is overexpressed in human prostate cancer and has been identified as a stably expressed housekeeping gene in macrophages of human chronic obstructive pulmonary disease (COPD) patients. In Schizosaccharomyces pombe, L32 has also been suggested to play a role as a transcriptional regulator in the nucleus. Found in archaea and eukaryotes, this protein is known as L32 in eukaryotes and L32e in archaea.
Probab=22.91 E-value=2.2e+02 Score=19.10 Aligned_cols=41 Identities=12% Similarity=-0.026 Sum_probs=32.0
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
++....+-.++-..+-||...+..-+..|...|.+.+|.+.
T Consensus 66 ~eLe~l~~~n~~~~a~Ia~~Vg~rKR~~I~~rA~el~ikV~ 106 (107)
T cd00513 66 KELEVLDMHNRTYAARIAHTVGARKRKEIVERAKELGIKVL 106 (107)
T ss_pred HHHHHHhccCCeeEEEEecccccchHHHHHHHHHHhCCccc
Confidence 33344445567788999999999999999999999888763
No 468
>PRK13703 conjugal pilus assembly protein TraF; Provisional
Probab=22.90 E-value=2e+02 Score=21.96 Aligned_cols=44 Identities=11% Similarity=0.076 Sum_probs=34.7
Q ss_pred cHHHHHHHHhcCCceEEEEeCCCCch--hhhhHHHHHHhCCCcEEE
Q 033750 30 GYKTVLRSLRSSKGKLILLSNNCPPL--RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 30 G~~~v~kai~~gka~lVilA~D~s~~--~~~~i~~~c~~~~Ip~i~ 73 (112)
-.+++++.+.+.-.-+.|.-+||+-- ..--|..+++.++++++-
T Consensus 133 ~~~~~i~~la~~~GL~fFy~s~Cp~C~~~aPil~~fa~~yg~~v~~ 178 (248)
T PRK13703 133 QQRQAIAKLAEHYGLMFFYRGQDPIDGQLAQVINDFRDTYGLSVIP 178 (248)
T ss_pred HHHHHHHHHHhcceEEEEECCCCchhHHHHHHHHHHHHHhCCeEEE
Confidence 45677888887778888889999873 346678899999999974
No 469
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=22.88 E-value=2e+02 Score=21.55 Aligned_cols=41 Identities=12% Similarity=0.048 Sum_probs=26.7
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCC
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGN 77 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~s 77 (112)
+.++.+.++++.=+|+++-.. ....+..+.+. ++|++. .+.
T Consensus 47 ~~i~~l~~~~vDGiI~~s~~~--~~~~l~~~~~~-~iPvV~-~~~ 87 (279)
T PF00532_consen 47 EYIELLLQRRVDGIILASSEN--DDEELRRLIKS-GIPVVL-IDR 87 (279)
T ss_dssp HHHHHHHHTTSSEEEEESSSC--TCHHHHHHHHT-TSEEEE-ESS
T ss_pred HHHHHHHhcCCCEEEEecccC--ChHHHHHHHHc-CCCEEE-EEe
Confidence 456667778888788873322 25667767666 899884 443
No 470
>PHA01623 hypothetical protein
Probab=22.86 E-value=79 Score=18.50 Aligned_cols=28 Identities=7% Similarity=0.049 Sum_probs=22.3
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCc
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVG 70 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip 70 (112)
.+-|-+.--.++...++|..+|..+|++
T Consensus 11 ~k~~r~sVrldeel~~~Ld~y~~~~g~~ 38 (56)
T PHA01623 11 KQKAVFGIYMDKDLKTRLKVYCAKNNLQ 38 (56)
T ss_pred ccceeEEEEeCHHHHHHHHHHHHHcCCC
Confidence 4455566667888999999999999886
No 471
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=22.84 E-value=2.4e+02 Score=20.14 Aligned_cols=33 Identities=6% Similarity=0.205 Sum_probs=25.1
Q ss_pred HHhCCceecHHHHHHHHhcCCceEEEEeCCCCc
Q 033750 22 MKSGKYTLGYKTVLRSLRSSKGKLILLSNNCPP 54 (112)
Q Consensus 22 ~kagklv~G~~~v~kai~~gka~lVilA~D~s~ 54 (112)
+..-.+.-|..++++.+++...++.|+++-...
T Consensus 70 ~~~~~l~pG~~e~l~~l~~~g~~~~IvS~~~~~ 102 (219)
T PRK09552 70 LETAEIREGFHEFVQFVKENNIPFYVVSGGMDF 102 (219)
T ss_pred HhCCCcCcCHHHHHHHHHHcCCeEEEECCCcHH
Confidence 345678899999999999877777776665543
No 472
>TIGR03301 PhnW-AepZ 2-aminoethylphosphonate aminotransferase. This family includes a number of 2-aminoethylphosphonate aminotransferases, some of which are indicated to operate in the catabolism of 2-aminoethylphosphonate (AEP) and others which are involved in the biosynthesis of the same compound. The catabolic enzyme (PhnW, ) is known to use pyruvate:alanine as the transfer partner and is modeled by the equivalog-level alignment (TIGR02326). The PhnW family is apparently a branch of a larger tree including genes (AepZ) adjacent to others responsible for the biosynthesis of phosphonoacetaldehyde. The identity of the transfer partner is unknown for these enzymes and considering the reversed flux compared to PhnW, it may very well be different.
Probab=22.81 E-value=2.3e+02 Score=21.18 Aligned_cols=43 Identities=7% Similarity=-0.099 Sum_probs=28.0
Q ss_pred HHHHHHHHhc-CCceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRS-SKGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~-gka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+.+.++++. .+.++|++...-++ .-.++|..+|++++++++.
T Consensus 113 ~~~l~~~l~~~~~~~~v~~~~~~~~~G~~~~~~~i~~l~~~~~~~liv 160 (355)
T TIGR03301 113 LNRIEEALAADPDITHVATVHHETTTGILNPLEAIAKVARSHGAVLIV 160 (355)
T ss_pred HHHHHHHHHhCCCceEEEEEecCCcccchhHHHHHHHHHHHcCCEEEE
Confidence 4677777764 35666665433222 1246788899999999884
No 473
>TIGR00283 arch_pth2 peptidyl-tRNA hydrolase. This model describes an archaeal/eukaryotic form of peptidyl-tRNA hydrolase. Most bacterial forms are described by TIGR00447.
Probab=22.79 E-value=2.5e+02 Score=18.83 Aligned_cols=69 Identities=14% Similarity=0.075 Sum_probs=43.7
Q ss_pred HHHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH--HHHHhhhCCcccEEEEEEeCcCchHHHhcC
Q 033750 31 YKTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN--VDLGTACGKYFRVSCLSIIDPGDSDIIKSL 108 (112)
Q Consensus 31 ~~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk--~eLG~a~Gk~~~~~vvaI~d~g~a~~i~~~ 108 (112)
.+.+.++.+.|+.|+|+-..|. +....+...++..++|+.. +-|- -|+- +...+++|| -|...+.+...
T Consensus 38 ~~~~~~W~~~G~~KVvlk~~~~--~el~~l~~~a~~~~l~~~~-v~DAG~Tei~-----pgs~Tvlai-gP~~~~~id~i 108 (115)
T TIGR00283 38 PSLRRKWLDEGQKKVVLKVNSL--EELLEIYHKAESLGLVTGL-IRDAGHTQIP-----PGTITAVGI-GPDEDEKIDKI 108 (115)
T ss_pred HHHHHHHHHcCCCEEEEEeCCH--HHHHHHHHHHHHcCCCEEE-EEcCCcceeC-----CCCcEEEEE-CCCCHHHHHHH
Confidence 4446788899999999988865 4456677788899999875 4221 1111 112345675 56655555543
No 474
>COG1810 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.79 E-value=1.8e+02 Score=22.05 Aligned_cols=33 Identities=9% Similarity=0.107 Sum_probs=28.7
Q ss_pred hcCCceEEEEeCCCCchhhhhHHHHHHhCCCcE
Q 033750 39 RSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGV 71 (112)
Q Consensus 39 ~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~ 71 (112)
..+..+.||+.+-.++-.+++|...|++.++-+
T Consensus 77 ~~~~~~alIvp~~~~~g~rkqL~~~~~~~g~e~ 109 (224)
T COG1810 77 AEGGVKALIVPAEPPEGLRKQLKEFCEELGVEF 109 (224)
T ss_pred HhCCccEEEEecCCChhHHHHHHHHhhhcceee
Confidence 568899999999999999999999999877654
No 475
>cd01450 vWFA_subfamily_ECM Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of fold. The vWA domain, since its discovery, has drawn great interest because of its widespread occurrence and its involvement in a wide variety of important cellular functions. These include basal membrane formation, cell migration, cell differentiation, adhesion, haemostasis, signaling, chromosomal stability, malignant transformation and in immune defenses In integrins these domains form heterodimers while in vWF it forms multimers. There are different interaction surfaces of this domain as seen by the various molecules it complexes with. Ligand binding in most cases is mediated by the presence of a metal ion dependent adhesion site termed as the MIDAS motif that is a characteristic feature of most, if not all A
Probab=22.77 E-value=2.2e+02 Score=18.37 Aligned_cols=48 Identities=10% Similarity=-0.028 Sum_probs=31.3
Q ss_pred CCceEEEEeCCCCchh---hhhHHHHHHhCCCcEEEecC---CHHHHHhhhCCc
Q 033750 41 SKGKLILLSNNCPPLR---KSEIEYYAMLAKVGVHHYNG---NNVDLGTACGKY 88 (112)
Q Consensus 41 gka~lVilA~D~s~~~---~~~i~~~c~~~~Ip~i~~~~---sk~eLG~a~Gk~ 88 (112)
+..+.+|+=+|..++. ...+...+...+|+++.+.. +.++|...-+..
T Consensus 102 ~~~~~iiliTDG~~~~~~~~~~~~~~~~~~~v~v~~i~~g~~~~~~l~~la~~~ 155 (161)
T cd01450 102 NVPKVIIVLTDGRSDDGGDPKEAAAKLKDEGIKVFVVGVGPADEEELREIASCP 155 (161)
T ss_pred CCCeEEEEECCCCCCCCcchHHHHHHHHHCCCEEEEEeccccCHHHHHHHhCCC
Confidence 4567888888987743 45556667778898775322 556666655543
No 476
>PRK07085 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional
Probab=22.76 E-value=77 Score=27.11 Aligned_cols=46 Identities=13% Similarity=0.149 Sum_probs=34.8
Q ss_pred cHHHHHHHHhcCC-ceEEEEeCCCCchhhhhHHHHHHhC--CCcEEEec
Q 033750 30 GYKTVLRSLRSSK-GKLILLSNNCPPLRKSEIEYYAMLA--KVGVHHYN 75 (112)
Q Consensus 30 G~~~v~kai~~gk-a~lVilA~D~s~~~~~~i~~~c~~~--~Ip~i~~~ 75 (112)
+.+++.+.+++-. -.||++..|-|-.....|..++.++ +||++..+
T Consensus 152 ~~~~i~~~l~~~~Id~LviIGGd~S~~~A~~Lae~~~~~~~~i~VIGIP 200 (555)
T PRK07085 152 QKEACLETVKKLKLDGLVIIGGDDSNTNAAILAEYFAKHGCKTQVIGVP 200 (555)
T ss_pred HHHHHHHHHHHcCCCEEEEeCCchHHHHHHHHHHHHHHhCCCccEEEEe
Confidence 6678888887655 6788889998888888888777654 78887633
No 477
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=22.72 E-value=2.8e+02 Score=19.54 Aligned_cols=51 Identities=10% Similarity=0.143 Sum_probs=29.9
Q ss_pred HHHHHHHHhc---CCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHH
Q 033750 31 YKTVLRSLRS---SKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLG 82 (112)
Q Consensus 31 ~~~v~kai~~---gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG 82 (112)
...+.+.+.. +.-..+|+...+++ ....+..+|...+||++.+..+...+.
T Consensus 56 ~~~~~~~~~~~~~~~~v~aiiG~~~s~-~~~~v~~~~~~~~iP~is~~~~~~~~~ 109 (298)
T cd06269 56 FSAALDLCSLLEKSRGVVAVIGPSSSS-SAEAVASLLGALHIPQISYSATSPLLS 109 (298)
T ss_pred HHHHHHHHhcCCCCCceEEEECCCCch-HHHHHHHHhccCCCcEEecccCchhhc
Confidence 3444455544 34455555555544 334577788999999996444444444
No 478
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=22.65 E-value=2.5e+02 Score=22.01 Aligned_cols=40 Identities=8% Similarity=0.090 Sum_probs=26.5
Q ss_pred HHHHHhcCCceEEEEeCCCCch-hhhhHHHHHHhCCCcEEE
Q 033750 34 VLRSLRSSKGKLILLSNNCPPL-RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~-~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.++|--.+||+++-.++. ..+.+...|+++++.++-
T Consensus 86 l~e~~~~Gvk~~vIisaGf~e~g~~~~~~~~ar~~girviG 126 (300)
T PLN00125 86 ILEAMEAELDLVVCITEGIPQHDMVRVKAALNRQSKTRLIG 126 (300)
T ss_pred HHHHHHcCCCEEEEECCCCCcccHHHHHHHHHhhcCCEEEC
Confidence 3445566655577888877774 345556668888887764
No 479
>PRK08199 thiamine pyrophosphate protein; Validated
Probab=22.57 E-value=2.1e+02 Score=23.80 Aligned_cols=42 Identities=12% Similarity=0.095 Sum_probs=29.8
Q ss_pred HHHHHHHhcCCceEEEEeCCCC-chhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+++.+.|.+-+--++|+...+. .+....+..+|+..++|+++
T Consensus 195 ~~~~~~L~~A~rPvi~~G~g~~~~~a~~~l~~lae~~~~pV~t 237 (557)
T PRK08199 195 ARLAELLARAERPLVILGGSGWTEAAVADLRAFAERWGLPVAC 237 (557)
T ss_pred HHHHHHHHhCCCCEEEECCCcCchhHHHHHHHHHHHhCCCEEE
Confidence 4555666666655666555553 34578899999999999995
No 480
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=22.48 E-value=2.8e+02 Score=20.39 Aligned_cols=40 Identities=28% Similarity=0.151 Sum_probs=20.9
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+...++.-+|+..- ++.........+.+.+||++.
T Consensus 47 ~~i~~l~~~~vdgiIi~~~-~~~~~~~~l~~~~~~giPvV~ 86 (302)
T TIGR02637 47 EVVNSLIAQKVDAIAISAN-DPDALVPALKKAMKRGIKVVT 86 (302)
T ss_pred HHHHHHHHcCCCEEEEeCC-ChHHHHHHHHHHHHCCCEEEE
Confidence 3445555556666665432 222222333445667898884
No 481
>PRK06943 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional
Probab=22.35 E-value=1.9e+02 Score=23.67 Aligned_cols=33 Identities=9% Similarity=-0.062 Sum_probs=24.0
Q ss_pred CCceEEEEeCC---------CCchhhhhHHHHHHhCCCcEEE
Q 033750 41 SKGKLILLSNN---------CPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 41 gka~lVilA~D---------~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+++..||+=.- .++...+.++.+|.+++|.+|.
T Consensus 220 ~~iAAviiEPvvqg~gG~~~~~~~yl~~lr~lc~~~gillI~ 261 (453)
T PRK06943 220 GKIAALIVEPLVQCAAGMAMHDPSYLRGLRALCDRYGVHLIA 261 (453)
T ss_pred CceEEEEEeccccccCCcccCCHHHHHHHHHHHHHcCCEEEe
Confidence 45566555432 2446789999999999999993
No 482
>TIGR01822 2am3keto_CoA 2-amino-3-ketobutyrate coenzyme A ligase. This model represents a narrowly defined clade of animal and bacterial (almost exclusively Proteobacterial) 2-amino-3-ketobutyrate--CoA ligase. This enzyme can act in threonine catabolism. The closest homolog from Bacillus subtilis, and sequences like it, may be functionally equivalent but were not included in the model because of difficulty in finding reports of function.
Probab=22.34 E-value=2.3e+02 Score=21.87 Aligned_cols=43 Identities=16% Similarity=0.009 Sum_probs=28.4
Q ss_pred HHHHHHHHhc---C--CceEEEEeCCCCc----hhhhhHHHHHHhCCCcEEE
Q 033750 31 YKTVLRSLRS---S--KGKLILLSNNCPP----LRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 31 ~~~v~kai~~---g--ka~lVilA~D~s~----~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+...+.++. . +.++|++..=.++ .-.+.|..+|++++++++.
T Consensus 154 ~~~l~~~i~~~~~~~~~~~~v~~~~v~~~tG~~~~l~~i~~la~~~~~~li~ 205 (393)
T TIGR01822 154 MADLEAQLKEARAAGARHRLIATDGVFSMDGVIAPLDEICDLADKYDALVMV 205 (393)
T ss_pred HHHHHHHHHhhhhcCCCceEEEEeCCccCCCCcCCHHHHHHHHHHcCCEEEE
Confidence 3555566653 2 5667776543344 3457888999999999984
No 483
>PRK06460 hypothetical protein; Provisional
Probab=22.34 E-value=2.1e+02 Score=22.56 Aligned_cols=42 Identities=12% Similarity=0.146 Sum_probs=29.5
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchh----hhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLR----KSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~----~~~i~~~c~~~~Ip~i~ 73 (112)
...++++...+.++|++.+=.+|.. .+.|..+|++++++++.
T Consensus 120 ~~~l~~~~~~~tklV~l~sp~NPtG~v~d~~~I~~la~~~g~~viv 165 (376)
T PRK06460 120 DNIIEKAKSKRYDVVFVENITNPLLRVVDITELSKVCKENGSILIV 165 (376)
T ss_pred HHHHHHhcCCCceEEEEECCCCCCCcccCHHHHHHHHHHcCCEEEE
Confidence 3455666566788999866555532 36788899999998874
No 484
>cd07984 LPLAT_LABLAT-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as lipid A biosynthesis lauroyl/myristoyl (LABLAT, HtrB) acyltransferases and similar proteins.
Probab=22.33 E-value=2.6e+02 Score=19.08 Aligned_cols=43 Identities=14% Similarity=0.150 Sum_probs=28.7
Q ss_pred ecHHHHHHHHhcCCceEEEEeCCCCc--h-------------hhhhHHHHHHhCCCcEEE
Q 033750 29 LGYKTVLRSLRSSKGKLILLSNNCPP--L-------------RKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 29 ~G~~~v~kai~~gka~lVilA~D~s~--~-------------~~~~i~~~c~~~~Ip~i~ 73 (112)
.+.+++.+++++|+. |++..|-.. . ...-...++...++|++-
T Consensus 78 ~~~~~~~~~l~~g~~--v~i~pD~~~~~~~~~~~~F~G~~~~~~~G~~~lA~~~~~pivp 135 (192)
T cd07984 78 GGLRELIRALKKGEI--VGILPDQDPGRKGGVFVPFFGRPAATPTGPARLALKTGAPVVP 135 (192)
T ss_pred chHHHHHHHHhCCCE--EEEEeCCCCCCCCCEEeccCCCCccchHHHHHHHHHHCCcEEE
Confidence 468889999999874 444445443 2 134445688888999984
No 485
>cd07383 MPP_Dcr2 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain. DCR2 phosphatase (Dosage-dependent Cell Cycle Regulator 2) functions together with DCR1 (Gid8) in a common pathway to accelerate initiation of DNA replication in Saccharomyces cerevisiae. Genetic analysis suggests that DCR1 functions upstream of DCR2. DCR2 interacts with and dephosphorylates Sic1, an inhibitor of mitotic cyclin/cyclin-dependent kinase complexes, which may serve to trigger the initiation of cell division. DCR2 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 (PAP
Probab=22.27 E-value=2.6e+02 Score=19.58 Aligned_cols=43 Identities=19% Similarity=0.179 Sum_probs=25.9
Q ss_pred HHHHHhcCCceEEEEeCCCCchh------hhhHHHH---HHhCCCcEEEecC
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLR------KSEIEYY---AMLAKVGVHHYNG 76 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~------~~~i~~~---c~~~~Ip~i~~~~ 76 (112)
+.+.++..+..+||++.|..... ...+..+ ....++|+....+
T Consensus 33 ~~~~~~~~~~d~vv~~GDl~~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~G 84 (199)
T cd07383 33 IERVLDAEKPDLVVLTGDLITGENTNDNSTSALDKAVSPMIDRKIPWAATFG 84 (199)
T ss_pred HHHHHhhcCCCEEEECCccccCCCCchHHHHHHHHHHHHHHHcCCCEEEECc
Confidence 44455667889999999995522 2223332 2345899884343
No 486
>TIGR01458 HAD-SF-IIA-hyp3 HAD-superfamily subfamily IIA hydrolase, TIGR01458. This hypothetical equivalog is a member of the IIA subfamily (TIGR01460) of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. One sequence (GP|10716807) has been annotated as a "phospholysine phosphohistidine inorganic pyrophosphatase," probably in reference to studies on similarly described (but unsequenced) enzymes from bovine and rat tissues. However, the supporting information for this annotation has never been published.
Probab=22.26 E-value=2.2e+02 Score=21.16 Aligned_cols=30 Identities=17% Similarity=0.222 Sum_probs=24.4
Q ss_pred CceecHHHHHHHHhcCCceEEEEeCCCCch
Q 033750 26 KYTLGYKTVLRSLRSSKGKLILLSNNCPPL 55 (112)
Q Consensus 26 klv~G~~~v~kai~~gka~lVilA~D~s~~ 55 (112)
...-|..+.++.+++.-..++|++++.+..
T Consensus 21 ~~~~~a~~al~~l~~~G~~~~~~Tn~~~~~ 50 (257)
T TIGR01458 21 VAVPGSQEAVKRLRGASVKVRFVTNTTKES 50 (257)
T ss_pred CcCCCHHHHHHHHHHCCCeEEEEECCCCCC
Confidence 377899999999998878888888777663
No 487
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=22.25 E-value=1e+02 Score=24.67 Aligned_cols=25 Identities=24% Similarity=0.127 Sum_probs=19.2
Q ss_pred hhhHHHHHHhCCCcEEEecCCHHHHHhhh
Q 033750 57 KSEIEYYAMLAKVGVHHYNGNNVDLGTAC 85 (112)
Q Consensus 57 ~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~ 85 (112)
-.+++..|+++|||+++ . --|.+++
T Consensus 291 A~~Ir~iA~e~~VPive-n---~pLARaL 315 (349)
T PRK12721 291 ALHIVKLAERNGIPVVE-N---IPLARAL 315 (349)
T ss_pred HHHHHHHHHHcCCCEEe-C---HHHHHHH
Confidence 37889999999999996 2 3456555
No 488
>cd01494 AAT_I Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary history of these enzymes. Structure and sequence analysis
Probab=22.07 E-value=1.8e+02 Score=18.78 Aligned_cols=45 Identities=13% Similarity=0.017 Sum_probs=28.5
Q ss_pred HHHHHhcCCceEEEEeCCCCchh----hhhHHHHHHhCCCcEEEecCCHH
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLR----KSEIEYYAMLAKVGVHHYNGNNV 79 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~----~~~i~~~c~~~~Ip~i~~~~sk~ 79 (112)
..+.....+..++++..-..+.. .+.+..+|.+++++++. ....-
T Consensus 84 ~~~~~~~~~~~~v~~~~~~~~~g~~~~~~~l~~~~~~~~~~li~-D~a~~ 132 (170)
T cd01494 84 LEELKAKPNVALIVITPNTTSGGVLVPLKEIRKIAKEYGILLLV-DAASA 132 (170)
T ss_pred hhhccccCceEEEEEecCcCCCCeEcCHHHHHHHHHHcCCEEEE-ecccc
Confidence 33444456677777765444321 26788899999999984 44443
No 489
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=22.06 E-value=2.8e+02 Score=19.78 Aligned_cols=36 Identities=17% Similarity=0.025 Sum_probs=19.5
Q ss_pred HHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 37 SLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 37 ai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.+...++.-+|+.+..++ ........+...++|++.
T Consensus 50 ~~~~~~~dgiii~~~~~~-~~~~~l~~~~~~~ipvV~ 85 (277)
T cd06319 50 TAIDKGVSGIIISPTNSS-AAVTLLKLAAQAKIPVVI 85 (277)
T ss_pred HHHhcCCCEEEEcCCchh-hhHHHHHHHHHCCCCEEE
Confidence 334456666666543222 222334556677888884
No 490
>TIGR01766 tspaseT_teng_C transposase, IS605 OrfB family, central region. This model represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by pfam model pfam01385, and other proteins.
Probab=22.00 E-value=94 Score=18.76 Aligned_cols=21 Identities=24% Similarity=0.071 Sum_probs=16.3
Q ss_pred hhhhhHHHHHHhCCCcEEEecC
Q 033750 55 LRKSEIEYYAMLAKVGVHHYNG 76 (112)
Q Consensus 55 ~~~~~i~~~c~~~~Ip~i~~~~ 76 (112)
.....|.+.|+.+||+++. +.
T Consensus 57 ~~~~~l~yka~~~Gi~v~~-v~ 77 (82)
T TIGR01766 57 KLISKIKYKAEEYGIEVIE-VN 77 (82)
T ss_pred HHHHHHHHHHHHcCCeEEE-eC
Confidence 3557788899999999984 53
No 491
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB 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
Probab=21.87 E-value=2.3e+02 Score=20.37 Aligned_cols=46 Identities=9% Similarity=-0.002 Sum_probs=28.8
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhh--h---hHHHHHHh---CCCcEEEecCC
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRK--S---EIEYYAML---AKVGVHHYNGN 77 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~--~---~i~~~c~~---~~Ip~i~~~~s 77 (112)
+.+.+.+.+.++.+|+++.|...+.. . .+...++. .++|+....|+
T Consensus 25 ~~i~~~~~~~~~d~iv~~GDl~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~GN 78 (214)
T cd07399 25 DWIVDNAEALNIAFVLHLGDIVDDGDNDAEWEAADKAFARLDKAGIPYSVLAGN 78 (214)
T ss_pred HHHHHHHHHcCCCEEEECCCccCCCCCHHHHHHHHHHHHHHHHcCCcEEEECCC
Confidence 45566666778999999999987543 2 22222332 46898743444
No 492
>PRK06457 pyruvate dehydrogenase; Provisional
Probab=21.84 E-value=1.9e+02 Score=24.05 Aligned_cols=41 Identities=12% Similarity=0.105 Sum_probs=27.7
Q ss_pred HHHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+++.+.|++.+--++|+...+. +..+.+..+|+..++|+++
T Consensus 186 ~~~~~~L~~AkrPvii~G~g~~-~a~~~l~~lAe~~~~PV~t 226 (549)
T PRK06457 186 SRAKELIKESEKPVLLIGGGTR-GLGKEINRFAEKIGAPIIY 226 (549)
T ss_pred HHHHHHHHcCCCcEEEECcchh-hHHHHHHHHHHHHCCCEEE
Confidence 4555666665555555444443 4557889999999999985
No 493
>cd03335 TCP1_alpha TCP-1 (CTT or eukaryotic type II) chaperonin family, alpha 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=21.82 E-value=3.3e+02 Score=22.65 Aligned_cols=49 Identities=10% Similarity=0.133 Sum_probs=31.7
Q ss_pred HHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCH---HHHHhhhCCc
Q 033750 35 LRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNN---VDLGTACGKY 88 (112)
Q Consensus 35 ~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk---~eLG~a~Gk~ 88 (112)
.+.|.+-.+.+||.+.+.++... +++..++|-++. ..++ +.|..++|-+
T Consensus 267 i~~i~~~g~~lvi~~k~I~d~al----~~L~~~~I~~v~-~v~~~~lerIa~~tGa~ 318 (527)
T cd03335 267 IKKILAAGANVVLTTGGIDDMCL----KYFVEAGAMAVR-RVKKEDLRRIAKATGAT 318 (527)
T ss_pred HHHHHHcCCCEEEeCCCCcHHHH----HHHHHCCcEEEE-eCCHHHHHHHHHHhCCE
Confidence 34454555789999999988543 344567888885 5554 4555566644
No 494
>cd06316 PBP1_ABC_sugar_binding_like_7 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=21.81 E-value=2.7e+02 Score=20.35 Aligned_cols=39 Identities=10% Similarity=0.025 Sum_probs=19.9
Q ss_pred HHHHHHhcCCceEEEE-eCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILL-SNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVil-A~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+..+++.-+|+ +.|. ..-..+...+...+||++.
T Consensus 47 ~~l~~~~~~~~dgiii~~~~~--~~~~~~i~~~~~~~iPvV~ 86 (294)
T cd06316 47 ADIETTISQKPDIIISIPVDP--VSTAAAYKKVAEAGIKLVF 86 (294)
T ss_pred HHHHHHHHhCCCEEEEcCCCc--hhhhHHHHHHHHcCCcEEE
Confidence 3344444455665555 4342 2112333445678899884
No 495
>PRK08322 acetolactate synthase; Reviewed
Probab=21.76 E-value=2.2e+02 Score=23.48 Aligned_cols=42 Identities=10% Similarity=0.195 Sum_probs=29.4
Q ss_pred HHHHHHHhcCCceEEEEeCCCC-chhhhhHHHHHHhCCCcEEE
Q 033750 32 KTVLRSLRSSKGKLILLSNNCP-PLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 32 ~~v~kai~~gka~lVilA~D~s-~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+++.+.|.+.+--++++...+. ....+.+..+|+..++|+++
T Consensus 187 ~~~~~~l~~A~rPviv~G~g~~~~~a~~~l~~lae~~~~pv~t 229 (547)
T PRK08322 187 ERAAEAIQAAKNPLILIGAGANRKTASKALTEFVDKTGIPFFT 229 (547)
T ss_pred HHHHHHHHhCCCcEEEECCCcchhcHHHHHHHHHHHhCCCEEE
Confidence 3445666666655666555553 24568899999999999996
No 496
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.74 E-value=2.6e+02 Score=19.66 Aligned_cols=39 Identities=10% Similarity=-0.017 Sum_probs=22.0
Q ss_pred HHHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 33 TVLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 33 ~v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
+.++.+...++.-+|+... +++... ....+...+||++.
T Consensus 46 ~~i~~~~~~~vdgiii~~~-~~~~~~-~~~~~~~~~ipvV~ 84 (268)
T cd06289 46 QLLSTMLEHGVAGIILCPA-AGTSPD-LLKRLAESGIPVVL 84 (268)
T ss_pred HHHHHHHHcCCCEEEEeCC-CCccHH-HHHHHHhcCCCEEE
Confidence 3455556666776666542 222222 33455677899884
No 497
>cd04185 GT_2_like_b Subfamily of Glycosyltransferase Family GT2 of unknown function. GT-2 includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=21.59 E-value=1.7e+02 Score=19.96 Aligned_cols=41 Identities=15% Similarity=0.142 Sum_probs=22.1
Q ss_pred HHHHHHHhcCC---ceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 32 KTVLRSLRSSK---GKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 32 ~~v~kai~~gk---a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
.++++++.+.. ..++|+-.+.++.+..-+..++...++.++
T Consensus 13 ~~~l~sl~~q~~~~~eiiivD~~s~d~t~~~~~~~~~~~~i~~~ 56 (202)
T cd04185 13 KECLDALLAQTRPPDHIIVIDNASTDGTAEWLTSLGDLDNIVYL 56 (202)
T ss_pred HHHHHHHHhccCCCceEEEEECCCCcchHHHHHHhcCCCceEEE
Confidence 34555554432 345555444444677767666655554555
No 498
>TIGR02152 D_ribokin_bact ribokinase. This model describes ribokinase, an enzyme catalyzing the first step in ribose catabolism. The rbsK gene encoding ribokinase typically is found with ribose transport genes. Ribokinase belongs to the carbohydrate kinase pfkB family (pfam00294). In the wide gulf between the current trusted (360 bit) and noise (100 bit) cutoffs are a number of sequences, few of which are clustered with predicted ribose transport genes but many of which are currently annotated as if having ribokinase activity. Most likely some have this function and others do not.
Probab=21.51 E-value=1.7e+02 Score=21.61 Aligned_cols=30 Identities=23% Similarity=0.122 Sum_probs=15.2
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEE
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVH 72 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i 72 (112)
+.++++..+.++.....+...|+++++|++
T Consensus 125 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 154 (293)
T TIGR02152 125 SDIVLLQLEIPLETVLEAAKIAKKHGVKVI 154 (293)
T ss_pred CCEEEEecCCCHHHHHHHHHHHHHcCCEEE
Confidence 445555555544444455555555555544
No 499
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=21.49 E-value=3e+02 Score=19.52 Aligned_cols=39 Identities=13% Similarity=-0.020 Sum_probs=21.1
Q ss_pred HHHHHhcCCceEEEEeCCCCchhhhhHHHHHHhCCCcEEE
Q 033750 34 VLRSLRSSKGKLILLSNNCPPLRKSEIEYYAMLAKVGVHH 73 (112)
Q Consensus 34 v~kai~~gka~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~ 73 (112)
.++.+...++.-+|+.... +.....+...+...+||++.
T Consensus 47 ~l~~~~~~~vdgii~~~~~-~~~~~~~i~~~~~~~ipvV~ 85 (273)
T cd06305 47 QIDQAIAQKVDAIIIQHGR-AEVLKPWVKRALDAGIPVVA 85 (273)
T ss_pred HHHHHHHcCCCEEEEecCC-hhhhHHHHHHHHHcCCCEEE
Confidence 3444444567777775422 22222333455678899885
No 500
>PRK01438 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=21.49 E-value=2.3e+02 Score=22.97 Aligned_cols=50 Identities=14% Similarity=-0.062 Sum_probs=31.6
Q ss_pred ceEEEEeCCCCchhhhhHHHHHHhCCCcEEEecCCHHHHHhhhCCcccEEEEEEe
Q 033750 43 GKLILLSNNCPPLRKSEIEYYAMLAKVGVHHYNGNNVDLGTACGKYFRVSCLSII 97 (112)
Q Consensus 43 a~lVilA~D~s~~~~~~i~~~c~~~~Ip~i~~~~sk~eLG~a~Gk~~~~~vvaI~ 97 (112)
+-+||++.-++|+. .+...|++.+||++. ..+-++..+.......++|||
T Consensus 79 ~D~Vv~s~Gi~~~~--~~~~~a~~~gi~v~~---~~e~~~~~~~~~~~~~~I~VT 128 (480)
T PRK01438 79 TDLVVTSPGWRPDA--PLLAAAADAGIPVWG---EVELAWRLRDPDRPAPWLAVT 128 (480)
T ss_pred CCEEEECCCcCCCC--HHHHHHHHCCCeecc---hHHHHHHhhhccCCCCEEEEe
Confidence 56788888887765 345567788999973 333345665432222357887
Done!