Query 033161
Match_columns 126
No_of_seqs 104 out of 522
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 10:34:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033161.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033161hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd05125 Mth938_2P1-like Mth938 100.0 9.2E-44 2E-48 249.4 13.5 114 10-123 1-114 (114)
2 cd00248 Mth938-like Mth938-lik 100.0 2.4E-43 5.2E-48 245.3 12.8 109 11-120 1-109 (109)
3 PF04430 DUF498: Protein of un 100.0 4.6E-43 9.9E-48 243.7 10.0 109 12-120 1-110 (110)
4 cd05560 Xcc1710_like Xcc1710_l 100.0 2.6E-42 5.6E-47 240.2 13.0 107 12-120 2-109 (109)
5 cd05126 Mth938 Mth938 domain. 100.0 5.7E-40 1.2E-44 231.1 12.4 108 11-120 1-116 (117)
6 COG3737 Uncharacterized conser 100.0 2E-39 4.4E-44 226.6 5.7 111 11-121 17-127 (127)
7 KOG3363 Uncharacterized conser 100.0 8.3E-34 1.8E-38 208.4 10.4 116 11-126 58-176 (196)
8 COG1504 Uncharacterized conser 99.9 1.1E-22 2.4E-27 140.9 9.3 109 9-120 1-118 (121)
9 PF05499 DMAP1: DNA methyltran 90.1 0.24 5.2E-06 37.3 2.3 31 81-111 109-139 (176)
10 PF15603 Imm45: Immunity prote 83.7 5.6 0.00012 26.3 5.8 61 14-95 13-81 (82)
11 COG1440 CelA Phosphotransferas 82.2 0.87 1.9E-05 31.4 1.6 36 62-99 47-82 (102)
12 COG4081 Uncharacterized protei 81.5 2.4 5.1E-05 30.8 3.6 41 66-106 6-48 (148)
13 COG4408 Uncharacterized protei 79.6 2 4.4E-05 35.8 3.2 28 80-107 185-212 (431)
14 PF10100 DUF2338: Uncharacteri 77.0 3.2 7E-05 35.2 3.6 31 77-107 180-210 (429)
15 TIGR03868 F420-O_ABCperi propo 74.6 3.8 8.2E-05 31.6 3.3 38 59-96 74-111 (287)
16 PF02780 Transketolase_C: Tran 74.6 1.6 3.4E-05 29.9 1.1 38 59-97 5-42 (124)
17 PF02441 Flavoprotein: Flavopr 73.4 6.7 0.00015 27.1 4.0 44 66-109 3-46 (129)
18 TIGR00288 conserved hypothetic 73.0 2.4 5.2E-05 31.4 1.7 46 61-110 103-157 (160)
19 PF10087 DUF2325: Uncharacteri 72.5 8.2 0.00018 25.5 4.1 47 62-108 47-93 (97)
20 cd01141 TroA_d Periplasmic bin 72.5 7.8 0.00017 27.9 4.4 35 59-97 65-99 (186)
21 PF12500 TRSP: TRSP domain C t 70.1 3.7 8.1E-05 30.2 2.2 36 62-98 56-91 (155)
22 PF09001 DUF1890: Domain of un 70.1 3.3 7.2E-05 30.1 1.9 42 66-107 1-44 (139)
23 COG2333 ComEC Predicted hydrol 69.4 8.8 0.00019 31.0 4.4 43 53-97 223-267 (293)
24 TIGR03035 trp_arylform arylfor 69.0 24 0.00053 26.6 6.5 51 47-99 86-145 (206)
25 PRK14048 ferrichrome/ferrioxam 68.7 8.7 0.00019 31.2 4.3 40 59-98 117-156 (374)
26 TIGR01276 thiB thiamine ABC tr 67.5 16 0.00036 28.4 5.5 51 63-113 1-54 (309)
27 COG0117 RibD Pyrimidine deamin 65.3 21 0.00046 26.1 5.3 49 59-107 91-139 (146)
28 COG0615 TagD Cytidylyltransfer 65.2 12 0.00026 27.2 4.0 46 61-108 84-134 (140)
29 cd01143 YvrC Periplasmic bindi 59.9 20 0.00044 25.5 4.5 35 59-98 56-90 (195)
30 PF07905 PucR: Purine cataboli 59.9 20 0.00043 24.7 4.2 38 61-98 70-107 (123)
31 PRK00994 F420-dependent methyl 59.9 29 0.00063 27.7 5.5 68 45-112 39-109 (277)
32 PF12641 Flavodoxin_3: Flavodo 59.8 57 0.0012 23.8 6.8 61 62-122 38-109 (160)
33 PRK14719 bifunctional RNAse/5- 59.8 30 0.00066 28.6 5.9 48 59-107 62-111 (360)
34 cd00860 ThrRS_anticodon ThrRS 59.0 25 0.00054 21.9 4.3 44 64-107 2-46 (91)
35 cd01148 TroA_a Metal binding p 58.9 28 0.0006 26.7 5.3 39 59-97 75-113 (284)
36 cd01321 ADGF Adenosine deamina 58.6 11 0.00024 30.8 3.1 32 70-102 227-258 (345)
37 PHA02588 cd deoxycytidylate de 57.1 39 0.00084 24.9 5.6 44 61-107 120-163 (168)
38 KOG0523 Transketolase [Carbohy 56.1 7.4 0.00016 34.6 1.8 44 61-106 503-546 (632)
39 PTZ00363 rab-GDP dissociation 54.7 12 0.00026 31.7 2.8 34 62-99 3-36 (443)
40 TIGR00421 ubiX_pad polyprenyl 54.6 9.2 0.0002 28.5 1.9 41 66-106 2-42 (181)
41 TIGR00361 ComEC_Rec2 DNA inter 53.4 21 0.00046 31.6 4.2 32 63-94 623-656 (662)
42 TIGR01431 adm_rel adenosine de 52.8 15 0.00032 31.6 3.1 27 77-103 359-385 (479)
43 TIGR00365 monothiol glutaredox 52.2 27 0.00059 23.0 3.8 46 63-108 11-59 (97)
44 PRK03379 vitamin B12-transport 52.2 40 0.00086 25.9 5.2 35 59-97 68-102 (260)
45 cd00859 HisRS_anticodon HisRS 51.9 11 0.00023 23.2 1.7 35 64-98 2-36 (91)
46 COG2247 LytB Putative cell wal 51.0 1.2E+02 0.0025 25.3 7.8 58 47-108 61-122 (337)
47 CHL00144 odpB pyruvate dehydro 50.5 9.7 0.00021 30.9 1.6 39 59-98 197-235 (327)
48 PRK11539 ComEC family competen 50.3 26 0.00055 31.7 4.3 31 63-93 681-713 (755)
49 PF02579 Nitro_FeMo-Co: Dinitr 50.3 48 0.001 20.9 4.6 38 62-105 52-92 (94)
50 COG2875 CobM Precorrin-4 methy 50.1 26 0.00057 27.8 3.8 89 18-106 16-123 (254)
51 cd01139 TroA_f Periplasmic bin 50.1 28 0.00061 27.5 4.2 40 59-98 87-126 (342)
52 PF14639 YqgF: Holliday-juncti 50.0 6.2 0.00014 28.7 0.3 41 61-101 61-109 (150)
53 COG4012 Uncharacterized protei 49.7 24 0.00052 28.8 3.6 54 48-106 35-88 (342)
54 PF00962 A_deaminase: Adenosin 49.2 15 0.00033 29.0 2.5 37 63-102 217-253 (331)
55 cd05565 PTS_IIB_lactose PTS_II 49.1 9.4 0.0002 25.9 1.1 33 67-99 5-37 (99)
56 PLN02683 pyruvate dehydrogenas 49.1 9.1 0.0002 31.5 1.2 39 59-98 224-262 (356)
57 PF02254 TrkA_N: TrkA-N domain 49.0 26 0.00056 23.0 3.3 35 66-104 1-36 (116)
58 PTZ00124 adenosine deaminase; 47.9 21 0.00046 29.5 3.2 32 69-101 250-281 (362)
59 cd04915 ACT_AK-Ectoine_2 ACT d 47.9 20 0.00044 21.9 2.4 33 66-98 5-37 (66)
60 PTZ00182 3-methyl-2-oxobutanat 47.1 12 0.00027 30.7 1.7 39 59-98 229-267 (355)
61 PF01497 Peripla_BP_2: Peripla 46.9 77 0.0017 23.1 5.9 37 59-99 56-92 (238)
62 TIGR00232 tktlase_bact transke 46.8 14 0.0003 32.9 2.0 40 61-101 538-577 (653)
63 cd06167 LabA_like LabA_like pr 46.7 32 0.00069 23.8 3.6 36 61-99 97-132 (149)
64 cd00858 GlyRS_anticodon GlyRS 46.4 36 0.00077 23.1 3.7 54 63-116 26-81 (121)
65 TIGR00090 iojap_ybeB iojap-lik 46.3 12 0.00026 25.2 1.3 31 62-92 27-60 (99)
66 cd00636 TroA-like Helical back 46.3 49 0.0011 21.5 4.4 43 46-98 49-91 (148)
67 PLN02807 diaminohydroxyphospho 46.3 54 0.0012 27.4 5.4 60 59-118 117-180 (380)
68 cd04911 ACT_AKiii-YclM-BS_1 AC 46.0 20 0.00043 23.3 2.2 20 80-99 19-38 (76)
69 COG2358 Imp TRAP-type uncharac 45.9 44 0.00096 27.4 4.7 51 62-113 23-78 (321)
70 TIGR01527 arch_NMN_Atrans nico 45.9 35 0.00077 25.1 3.8 57 59-124 87-147 (165)
71 COG1878 Kynurenine formamidase 45.8 44 0.00096 25.9 4.5 70 48-118 92-180 (218)
72 TIGR02113 coaC_strep phosphopa 45.7 14 0.0003 27.4 1.7 41 66-106 3-43 (177)
73 TIGR03855 NAD_NadX aspartate d 45.2 59 0.0013 25.1 5.1 37 59-98 33-69 (229)
74 cd04922 ACT_AKi-HSDH-ThrA_2 AC 45.1 31 0.00068 20.1 2.9 30 68-97 6-36 (66)
75 TIGR01833 HMG-CoA-S_euk 3-hydr 45.1 63 0.0014 27.7 5.7 43 63-105 71-117 (454)
76 cd04924 ACT_AK-Arch_2 ACT doma 44.9 33 0.00071 20.0 3.0 30 68-97 6-36 (66)
77 cd00562 NifX_NifB This CD repr 44.6 60 0.0013 20.7 4.5 39 61-105 59-101 (102)
78 COG1433 Uncharacterized conser 44.5 82 0.0018 22.2 5.3 41 59-105 61-104 (121)
79 PRK05899 transketolase; Review 44.1 13 0.00028 32.7 1.5 38 60-98 507-544 (624)
80 PF11823 DUF3343: Protein of u 44.0 17 0.00038 22.7 1.7 22 81-102 16-37 (73)
81 PF03345 DDOST_48kD: Oligosacc 43.6 62 0.0013 27.6 5.4 72 14-94 32-105 (423)
82 PRK10329 glutaredoxin-like pro 43.5 28 0.0006 22.3 2.6 37 77-113 12-48 (81)
83 PRK05261 putative phosphoketol 43.0 20 0.00042 33.0 2.4 36 63-98 613-650 (785)
84 COG4143 TbpA ABC-type thiamine 42.8 35 0.00077 28.2 3.7 52 65-116 26-81 (336)
85 PRK12754 transketolase; Review 42.6 12 0.00027 33.4 1.1 36 63-99 549-584 (663)
86 PF07755 DUF1611: Protein of u 42.0 11 0.00025 30.6 0.7 39 62-100 111-151 (301)
87 PRK07313 phosphopantothenoylcy 41.9 20 0.00042 26.7 2.0 42 66-107 4-45 (182)
88 cd00851 MTH1175 This uncharact 41.8 69 0.0015 20.5 4.5 39 61-105 61-102 (103)
89 PF12724 Flavodoxin_5: Flavodo 41.7 29 0.00063 24.3 2.7 27 62-88 42-68 (143)
90 PF03508 Connexin43: Gap junct 41.6 3.1 6.8E-05 20.1 -1.5 13 100-112 4-16 (20)
91 TIGR01421 gluta_reduc_1 glutat 41.4 1.4E+02 0.003 24.9 7.2 75 16-96 117-195 (450)
92 PRK10528 multifunctional acyl- 41.4 91 0.002 22.6 5.5 37 61-97 69-115 (191)
93 PF03129 HGTP_anticodon: Antic 41.1 15 0.00033 23.4 1.2 42 66-107 2-50 (94)
94 PF09383 NIL: NIL domain; Int 40.9 29 0.00062 21.6 2.4 17 80-96 60-76 (76)
95 cd01149 HutB Hemin binding pro 40.8 63 0.0014 24.0 4.6 35 59-97 54-88 (235)
96 PF01936 NYN: NYN domain; Int 40.6 27 0.00058 23.8 2.4 34 61-97 93-126 (146)
97 PRK00945 acetyl-CoA decarbonyl 40.5 49 0.0011 24.7 3.9 50 46-97 19-70 (171)
98 PRK15020 ethanolamine utilizat 40.3 39 0.00084 27.1 3.5 48 48-99 4-51 (267)
99 PRK09534 btuF corrinoid ABC tr 40.2 57 0.0012 26.6 4.6 34 59-97 115-148 (359)
100 PF00590 TP_methylase: Tetrapy 39.9 93 0.002 22.6 5.4 62 58-119 71-139 (210)
101 COG0021 TktA Transketolase [Ca 39.5 18 0.0004 32.4 1.7 36 63-99 548-583 (663)
102 TIGR03659 IsdE heme ABC transp 39.5 77 0.0017 24.5 5.1 34 59-97 87-120 (289)
103 cd04912 ACT_AKiii-LysC-EC-like 38.7 31 0.00067 21.5 2.2 32 68-99 6-38 (75)
104 PLN02577 hydroxymethylglutaryl 38.4 63 0.0014 27.7 4.7 43 63-105 74-120 (459)
105 PRK09212 pyruvate dehydrogenas 38.3 18 0.00038 29.4 1.3 38 59-97 197-234 (327)
106 cd01147 HemV-2 Metal binding p 37.8 58 0.0012 24.4 4.0 36 59-98 70-106 (262)
107 COG0680 HyaD Ni,Fe-hydrogenase 37.8 79 0.0017 23.1 4.6 50 65-114 3-58 (160)
108 cd04919 ACT_AK-Hom3_2 ACT doma 37.5 62 0.0013 18.9 3.4 30 68-97 6-36 (66)
109 PRK06116 glutathione reductase 37.4 1.6E+02 0.0034 24.4 6.8 75 16-96 119-196 (450)
110 COG3962 Acetolactate synthase 37.3 17 0.00037 31.8 1.1 70 24-95 192-262 (617)
111 PRK05920 aromatic acid decarbo 37.1 36 0.00078 26.0 2.8 43 66-108 6-48 (204)
112 cd05564 PTS_IIB_chitobiose_lic 36.7 19 0.00041 23.9 1.1 32 67-98 4-35 (96)
113 TIGR02194 GlrX_NrdH Glutaredox 36.2 48 0.001 20.1 2.8 37 77-113 10-46 (72)
114 cd05013 SIS_RpiR RpiR-like pro 35.9 1.1E+02 0.0023 20.1 4.8 46 59-105 9-54 (139)
115 PRK12753 transketolase; Review 35.9 21 0.00045 31.9 1.5 35 63-98 549-583 (663)
116 PF10865 DUF2703: Domain of un 35.9 9 0.0002 27.0 -0.6 36 70-105 20-59 (120)
117 TIGR00762 DegV EDD domain prot 35.8 61 0.0013 25.3 4.0 93 19-111 27-127 (275)
118 cd00738 HGTP_anticodon HGTP an 35.7 74 0.0016 19.7 3.8 35 64-98 2-39 (94)
119 TIGR02964 xanthine_xdhC xanthi 35.5 34 0.00073 26.7 2.4 39 59-101 96-134 (246)
120 COG4015 Predicted dinucleotide 35.4 37 0.00081 25.8 2.5 60 29-88 134-200 (217)
121 cd00165 S4 S4/Hsp/ tRNA synthe 34.9 63 0.0014 18.3 3.1 27 15-41 23-50 (70)
122 COG4821 Uncharacterized protei 34.8 61 0.0013 25.4 3.7 39 64-102 105-143 (243)
123 COG4558 ChuT ABC-type hemin tr 34.7 62 0.0013 26.4 3.8 44 46-98 87-130 (300)
124 cd02064 FAD_synthetase_N FAD s 34.3 1.1E+02 0.0023 22.3 4.9 51 47-98 83-138 (180)
125 cd04916 ACT_AKiii-YclM-BS_2 AC 34.1 55 0.0012 19.0 2.8 31 68-98 6-37 (66)
126 COG2072 TrkA Predicted flavopr 33.9 37 0.00081 28.6 2.6 35 61-99 6-41 (443)
127 PRK12571 1-deoxy-D-xylulose-5- 33.9 24 0.00051 31.4 1.5 40 59-99 500-539 (641)
128 TIGR00853 pts-lac PTS system, 33.8 20 0.00043 23.9 0.8 33 67-99 8-40 (95)
129 PF04252 RNA_Me_trans: Predict 33.4 1E+02 0.0022 23.6 4.7 64 41-111 68-138 (196)
130 PRK10310 PTS system galactitol 33.0 23 0.00049 23.5 1.0 31 67-97 7-38 (94)
131 cd04923 ACT_AK-LysC-DapG-like_ 32.9 59 0.0013 18.5 2.8 31 68-98 5-36 (63)
132 PRK11892 pyruvate dehydrogenas 32.8 23 0.00049 30.4 1.2 39 59-98 336-374 (464)
133 PRK06270 homoserine dehydrogen 32.6 1.2E+02 0.0025 24.6 5.3 50 61-110 87-138 (341)
134 PF07864 DUF1651: Protein of u 32.5 43 0.00093 21.2 2.2 20 93-112 47-66 (75)
135 PF09084 NMT1: NMT1/THI5 like; 32.4 44 0.00095 24.2 2.5 33 85-117 15-47 (216)
136 cd00443 ADA_AMPD Adenosine/AMP 32.4 48 0.001 26.3 2.9 25 78-102 202-226 (305)
137 cd04890 ACT_AK-like_1 ACT doma 32.3 55 0.0012 19.1 2.6 23 77-99 15-37 (62)
138 PLN02790 transketolase 32.2 30 0.00065 30.8 1.8 35 64-99 541-575 (654)
139 PF07652 Flavi_DEAD: Flaviviru 32.0 36 0.00077 25.0 1.9 35 70-104 14-48 (148)
140 PRK09590 celB cellobiose phosp 31.8 24 0.00052 24.1 0.9 34 67-100 6-39 (104)
141 PRK05579 bifunctional phosphop 31.8 41 0.00089 28.2 2.5 45 64-108 7-51 (399)
142 COG3414 SgaB Phosphotransferas 31.7 23 0.0005 23.8 0.9 30 68-97 7-39 (93)
143 PRK04148 hypothetical protein; 31.3 76 0.0016 22.7 3.5 34 65-103 19-53 (134)
144 PRK15364 pathogenicity island 31.3 51 0.0011 25.2 2.7 27 72-98 92-119 (196)
145 TIGR00113 queA S-adenosylmethi 31.3 1.5E+02 0.0032 24.7 5.6 43 76-118 184-254 (344)
146 TIGR00204 dxs 1-deoxy-D-xylulo 31.3 28 0.0006 30.8 1.5 39 59-98 491-529 (617)
147 PF02844 GARS_N: Phosphoribosy 31.2 19 0.00042 24.5 0.4 40 60-103 59-98 (100)
148 PRK01424 S-adenosylmethionine: 30.8 1.6E+02 0.0034 24.8 5.7 43 76-118 205-275 (366)
149 COG2517 Predicted RNA-binding 30.8 29 0.00062 26.7 1.3 15 109-123 160-174 (219)
150 PRK11205 tbpA thiamine transpo 30.6 1.5E+02 0.0033 23.2 5.5 49 65-113 23-75 (330)
151 COG3453 Uncharacterized protei 30.5 2.1E+02 0.0045 20.6 6.5 67 46-118 13-93 (130)
152 TIGR00250 RNAse_H_YqgF RNAse H 30.4 72 0.0016 22.4 3.2 47 61-107 46-104 (130)
153 PRK13304 L-aspartate dehydroge 30.0 1.6E+02 0.0035 22.8 5.5 36 62-100 60-95 (265)
154 COG0796 MurI Glutamate racemas 30.0 41 0.00089 27.0 2.1 36 62-101 176-211 (269)
155 COG1710 Uncharacterized protei 29.9 42 0.00091 24.0 1.9 40 58-97 44-84 (139)
156 cd04906 ACT_ThrD-I_1 First of 29.8 77 0.0017 20.2 3.1 27 79-105 55-81 (85)
157 TIGR03840 TMPT_Se_Te thiopurin 29.7 85 0.0018 23.7 3.8 60 39-105 12-72 (213)
158 COG0674 PorA Pyruvate:ferredox 29.6 52 0.0011 27.2 2.8 35 62-96 255-289 (365)
159 PF00996 GDI: GDP dissociation 29.3 27 0.00059 29.8 1.1 33 62-98 3-35 (438)
160 cd01144 BtuF Cobalamin binding 29.1 2.4E+02 0.0051 20.8 6.3 35 59-97 53-87 (245)
161 PF05225 HTH_psq: helix-turn-h 29.1 32 0.00069 19.7 1.0 14 96-109 17-30 (45)
162 TIGR00854 pts-sorbose PTS syst 28.7 1.3E+02 0.0028 21.7 4.4 31 87-117 50-80 (151)
163 KOG4405 GDP dissociation inhib 28.3 65 0.0014 28.0 3.1 34 59-97 4-38 (547)
164 PLN02972 Histidyl-tRNA synthet 28.2 85 0.0018 28.9 4.0 56 63-118 668-723 (763)
165 COG0007 CysG Uroporphyrinogen- 28.2 68 0.0015 25.4 3.0 45 63-107 81-129 (244)
166 cd04936 ACT_AKii-LysC-BS-like_ 28.2 1E+02 0.0022 17.4 3.2 31 68-98 5-36 (63)
167 TIGR00646 MG010 DNA primase-re 28.1 32 0.0007 26.7 1.2 19 103-121 173-191 (218)
168 cd04892 ACT_AK-like_2 ACT doma 28.0 85 0.0018 17.5 2.8 31 68-98 5-36 (65)
169 PRK13302 putative L-aspartate 27.9 1.8E+02 0.0039 22.8 5.5 36 62-100 66-101 (271)
170 PRK06029 3-octaprenyl-4-hydrox 27.8 54 0.0012 24.6 2.3 43 66-108 4-47 (185)
171 cd04336 YeaK YeaK is an unchar 27.7 1E+02 0.0023 21.5 3.8 19 80-98 2-20 (153)
172 PRK02228 V-type ATP synthase s 27.6 1.9E+02 0.0041 19.2 5.6 41 80-121 9-51 (100)
173 PRK05015 aminopeptidase B; Pro 27.3 32 0.0007 29.4 1.2 20 88-117 262-281 (424)
174 PF01262 AlaDh_PNT_C: Alanine 27.2 55 0.0012 23.5 2.2 39 63-105 20-58 (168)
175 PRK07119 2-ketoisovalerate fer 27.2 65 0.0014 26.4 2.9 35 62-97 245-279 (352)
176 COG5493 Uncharacterized conser 27.1 2.4E+02 0.0053 21.9 5.8 80 12-93 137-225 (231)
177 PF08774 VRR_NUC: VRR-NUC doma 27.0 89 0.0019 20.3 3.1 38 61-98 46-98 (100)
178 PRK06370 mercuric reductase; V 26.9 2.8E+02 0.006 23.1 6.7 76 16-97 121-201 (463)
179 PRK09982 universal stress prot 26.6 39 0.00085 23.3 1.3 21 78-98 91-111 (142)
180 COG1993 PII-like signaling pro 26.4 65 0.0014 22.5 2.3 44 68-111 46-89 (109)
181 KOG1367 3-phosphoglycerate kin 26.3 69 0.0015 26.9 2.8 60 47-107 312-383 (416)
182 PRK06242 flavodoxin; Provision 26.0 78 0.0017 21.8 2.8 58 63-120 43-110 (150)
183 PRK14994 SAM-dependent 16S rib 25.9 1.6E+02 0.0035 23.5 4.9 67 56-122 77-147 (287)
184 cd04937 ACT_AKi-DapG-BS_2 ACT 25.8 1E+02 0.0022 18.3 3.0 31 67-97 5-36 (64)
185 cd01829 SGNH_hydrolase_peri2 S 25.8 1.9E+02 0.004 20.6 4.9 15 60-74 56-70 (200)
186 PF01488 Shikimate_DH: Shikima 25.8 2E+02 0.0043 19.8 4.9 42 63-108 12-56 (135)
187 cd04795 SIS SIS domain. SIS (S 25.7 96 0.0021 18.9 3.0 34 66-100 1-35 (87)
188 PF04199 Cyclase: Putative cyc 25.6 29 0.00062 24.9 0.5 54 46-99 94-165 (171)
189 PRK13255 thiopurine S-methyltr 25.6 1.7E+02 0.0038 22.1 4.8 38 62-105 37-75 (218)
190 PRK09756 PTS system N-acetylga 25.6 1.5E+02 0.0033 21.5 4.4 28 88-116 56-83 (158)
191 PRK07846 mycothione reductase; 25.6 3.1E+02 0.0067 22.9 6.7 76 16-97 115-196 (451)
192 COG1432 Uncharacterized conser 25.5 56 0.0012 24.2 2.1 38 59-100 106-144 (181)
193 cd02067 B12-binding B12 bindin 25.5 83 0.0018 20.9 2.8 49 47-96 35-85 (119)
194 TIGR01835 HMG-CoA-S_prok 3-hyd 25.5 92 0.002 25.5 3.5 43 63-106 68-113 (379)
195 PRK00147 queA S-adenosylmethio 25.5 2.1E+02 0.0046 23.8 5.6 43 76-118 183-253 (342)
196 PLN02225 1-deoxy-D-xylulose-5- 25.3 36 0.00077 30.9 1.1 39 59-98 563-601 (701)
197 PRK12404 stage V sporulation p 25.3 52 0.0011 27.3 2.0 42 63-109 75-116 (334)
198 cd06063 H2MP_Cyano-H2up This g 25.1 1.2E+02 0.0027 21.3 3.8 37 66-102 1-42 (146)
199 PRK11425 PTS system N-acetylga 25.1 1.7E+02 0.0036 21.3 4.5 35 81-116 46-80 (157)
200 cd04868 ACT_AK-like ACT domain 25.0 95 0.0021 16.8 2.6 21 79-99 17-37 (60)
201 PRK06718 precorrin-2 dehydroge 24.9 68 0.0015 24.1 2.4 44 64-112 11-54 (202)
202 TIGR01465 cobM_cbiF precorrin- 24.9 1.8E+02 0.0039 21.6 4.8 37 61-97 69-106 (229)
203 PF05240 APOBEC_C: APOBEC-like 24.9 1.7E+02 0.0037 17.8 4.0 27 83-109 8-34 (55)
204 TIGR00130 frhD coenzyme F420-r 24.9 2.1E+02 0.0046 20.3 5.0 42 45-88 94-142 (153)
205 cd03028 GRX_PICOT_like Glutare 24.8 1.3E+02 0.0028 19.2 3.5 35 64-98 8-45 (90)
206 TIGR01457 HAD-SF-IIA-hyp2 HAD- 24.8 2.7E+02 0.0058 21.2 5.8 61 54-115 23-86 (249)
207 cd00862 ProRS_anticodon_zinc P 24.7 66 0.0014 24.1 2.4 54 63-116 10-71 (202)
208 PLN02234 1-deoxy-D-xylulose-5- 24.7 39 0.00085 30.3 1.2 40 59-99 540-579 (641)
209 PTZ00058 glutathione reductase 24.7 2.7E+02 0.0058 24.4 6.4 30 63-96 237-266 (561)
210 cd01146 FhuD Fe3+-siderophore 24.6 2.3E+02 0.0051 21.1 5.4 33 59-97 61-93 (256)
211 TIGR02699 archaeo_AfpA archaeo 24.5 60 0.0013 24.2 2.1 38 67-104 5-42 (174)
212 TIGR02032 GG-red-SF geranylger 24.5 73 0.0016 23.8 2.6 32 64-99 1-32 (295)
213 TIGR01689 EcbF-BcbF capsule bi 24.4 1.1E+02 0.0024 21.5 3.3 49 48-96 24-83 (126)
214 TIGR00347 bioD dethiobiotin sy 24.4 2.3E+02 0.0051 19.7 5.1 63 58-120 94-165 (166)
215 PF02547 Queuosine_synth: Queu 24.3 1.4E+02 0.003 24.8 4.3 43 76-118 183-253 (341)
216 TIGR01118 lacA galactose-6-pho 24.2 2.2E+02 0.0049 20.5 4.9 32 67-98 3-34 (141)
217 COG2248 Predicted hydrolase (m 24.2 2.5E+02 0.0055 22.8 5.6 52 48-113 188-239 (304)
218 PRK04940 hypothetical protein; 24.0 82 0.0018 23.7 2.7 29 46-76 108-138 (180)
219 COG1927 Mtd Coenzyme F420-depe 24.0 1.9E+02 0.0042 22.8 4.8 51 62-112 59-109 (277)
220 COG1154 Dxs Deoxyxylulose-5-ph 24.0 1.3E+02 0.0027 27.1 4.2 40 58-98 496-535 (627)
221 cd00001 PTS_IIB_man PTS_IIB, P 23.9 1.7E+02 0.0038 21.0 4.4 36 81-116 43-78 (151)
222 TIGR00521 coaBC_dfp phosphopan 23.8 64 0.0014 27.0 2.3 44 65-108 5-48 (390)
223 cd02072 Glm_B12_BD B12 binding 23.6 92 0.002 22.1 2.8 48 48-96 36-85 (128)
224 PTZ00175 diphthine synthase; P 23.4 1.8E+02 0.0039 23.0 4.7 34 64-97 77-111 (270)
225 PLN02582 1-deoxy-D-xylulose-5- 22.9 44 0.00095 30.1 1.2 40 59-99 539-578 (677)
226 PF04407 DUF531: Protein of un 22.8 2.7E+02 0.0058 20.9 5.2 50 46-98 104-159 (173)
227 PRK00048 dihydrodipicolinate r 22.7 1.2E+02 0.0025 23.6 3.4 58 63-124 60-117 (257)
228 PRK13303 L-aspartate dehydroge 22.7 1.1E+02 0.0024 23.9 3.3 37 61-100 59-95 (265)
229 COG1233 Phytoene dehydrogenase 22.6 1.1E+02 0.0023 26.0 3.5 31 63-97 3-33 (487)
230 KOG0732 AAA+-type ATPase conta 22.6 57 0.0012 31.1 1.9 57 28-84 362-425 (1080)
231 PF01993 MTD: methylene-5,6,7, 22.6 64 0.0014 25.9 1.9 67 46-112 39-108 (276)
232 PF03433 EspA: EspA-like secre 22.5 29 0.00062 26.5 0.0 26 75-100 96-121 (188)
233 PF02645 DegV: Uncharacterised 22.5 20 0.00043 28.1 -0.9 92 19-110 28-128 (280)
234 cd04921 ACT_AKi-HSDH-ThrA-like 22.4 94 0.002 18.9 2.4 30 68-97 6-36 (80)
235 cd02069 methionine_synthase_B1 22.3 87 0.0019 23.8 2.6 52 46-98 123-175 (213)
236 PRK00109 Holliday junction res 22.3 1.3E+02 0.0028 21.3 3.4 48 61-108 52-111 (138)
237 TIGR00418 thrS threonyl-tRNA s 22.2 1.5E+02 0.0033 25.5 4.4 53 63-115 470-523 (563)
238 PRK00141 murD UDP-N-acetylmura 22.2 88 0.0019 26.4 2.9 33 65-101 17-49 (473)
239 PRK06292 dihydrolipoamide dehy 22.2 3.7E+02 0.0079 22.2 6.5 74 16-96 118-198 (460)
240 PF01408 GFO_IDH_MocA: Oxidore 22.0 2.3E+02 0.0051 18.3 5.2 51 62-115 61-116 (120)
241 COG0771 MurD UDP-N-acetylmuram 21.9 82 0.0018 27.0 2.6 36 63-102 7-42 (448)
242 PRK11538 ribosome-associated p 21.9 56 0.0012 22.3 1.3 30 62-91 32-64 (105)
243 PF04123 DUF373: Domain of unk 21.9 92 0.002 25.8 2.8 23 99-121 51-73 (344)
244 PRK08727 hypothetical protein; 21.8 71 0.0015 24.2 2.1 32 77-108 56-87 (233)
245 TIGR00287 cas1 CRISPR-associat 21.6 1.8E+02 0.004 23.2 4.5 31 64-97 35-65 (323)
246 cd01025 TOPRIM_recR TOPRIM_rec 21.6 2.8E+02 0.0061 19.2 4.9 57 35-93 29-88 (112)
247 PRK08621 galactose-6-phosphate 21.6 2.8E+02 0.006 20.1 5.0 32 67-98 3-34 (142)
248 cd00518 H2MP Hydrogenase speci 21.5 2.8E+02 0.0061 19.1 5.6 44 45-88 85-134 (139)
249 PRK00481 NAD-dependent deacety 21.5 1.4E+02 0.003 22.9 3.6 34 66-100 181-214 (242)
250 TIGR03638 cas1_ECOLI CRISPR-as 21.4 1.8E+02 0.0039 22.9 4.3 33 63-98 44-76 (269)
251 PF03033 Glyco_transf_28: Glyc 21.4 49 0.0011 22.2 1.0 19 81-99 36-54 (139)
252 PRK11104 hemG protoporphyrinog 21.4 1.2E+02 0.0025 22.2 3.1 25 64-88 47-71 (177)
253 cd00852 NifB NifB belongs to a 21.3 2.4E+02 0.0051 18.4 4.4 38 62-105 64-105 (106)
254 PRK15418 transcriptional regul 21.2 1.6E+02 0.0034 23.8 4.1 36 61-96 199-244 (318)
255 cd05566 PTS_IIB_galactitol PTS 21.2 57 0.0012 20.6 1.2 31 66-96 4-35 (89)
256 PTZ00153 lipoamide dehydrogena 21.2 3.8E+02 0.0082 24.1 6.7 74 18-97 262-342 (659)
257 cd04918 ACT_AK1-AT_2 ACT domai 21.2 1.7E+02 0.0036 17.4 3.3 29 68-96 6-34 (65)
258 PF01963 TraB: TraB family; I 21.1 1.3E+02 0.0027 22.7 3.3 31 65-95 228-258 (259)
259 TIGR00522 dph5 diphthine synth 21.1 2E+02 0.0044 22.3 4.5 34 64-97 76-110 (257)
260 PF01494 FAD_binding_3: FAD bi 20.9 79 0.0017 24.1 2.2 30 64-97 2-31 (356)
261 PF14106 DUF4279: Domain of un 20.9 1.9E+02 0.0041 19.1 3.9 18 78-95 101-118 (118)
262 PRK02261 methylaspartate mutas 20.7 1.2E+02 0.0026 21.4 2.9 42 48-90 40-82 (137)
263 PF02558 ApbA: Ketopantoate re 20.6 1.2E+02 0.0026 20.7 2.9 31 66-100 1-31 (151)
264 PLN02958 diacylglycerol kinase 20.6 2.2E+02 0.0047 24.5 4.9 37 65-101 113-154 (481)
265 CHL00162 thiG thiamin biosynth 20.3 1.6E+02 0.0035 23.7 3.8 77 18-107 6-92 (267)
266 PF02593 dTMP_synthase: Thymid 20.3 1.5E+02 0.0033 22.9 3.6 35 62-96 75-109 (217)
267 TIGR03452 mycothione_red mycot 20.3 2.9E+02 0.0063 23.0 5.6 29 64-96 170-198 (452)
268 PF05690 ThiG: Thiazole biosyn 20.2 1.8E+02 0.0038 23.2 4.0 13 83-95 25-37 (247)
269 KOG3125 Thymidine kinase [Nucl 20.2 96 0.0021 24.3 2.4 66 24-96 66-137 (234)
270 PRK07204 3-oxoacyl-(acyl carri 20.1 1.8E+02 0.0039 22.9 4.1 44 63-107 73-120 (329)
271 COG0809 QueA S-adenosylmethion 20.1 3.2E+02 0.0069 22.9 5.5 43 76-118 185-255 (348)
272 PF13839 PC-Esterase: GDSL/SGN 20.0 80 0.0017 23.5 2.0 14 63-76 100-113 (263)
No 1
>cd05125 Mth938_2P1-like Mth938_2P1-like domain. This model contains sequences that are similar to 2P1, a partially characterized nuclear protein, which is homologous to E3-3 from rat and known to be alternatively spliced. Its function is unknown. This family is part of the Mth938 family, for which structures, but no functional data are available.
Probab=100.00 E-value=9.2e-44 Score=249.38 Aligned_cols=114 Identities=41% Similarity=0.749 Sum_probs=111.0
Q ss_pred CceeEEcCCcEEEcCEEEeecEEEeCCccccCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHc
Q 033161 10 SPRISFASKGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRST 89 (126)
Q Consensus 10 ~~I~~y~~g~~~I~g~~y~g~vi~~~~~v~~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~ 89 (126)
+.|++|++|+|+|||+.|.||++++|+.+++|++++++++++++|+.|..++++||+||||||+++++++|+++++|+++
T Consensus 1 ~~I~~y~~~~f~in~~~~~gs~iv~p~~~~~W~~~~~~~l~~~~l~~l~~~~~~peiliiGtG~~~~~~~~~~~~~l~~~ 80 (114)
T cd05125 1 NYIDAYSENGFRLNNNKVIGSGAILPKEVFSWNVSSFEDITEESLSLFELLEPRPEILVIGTGRKSRPLSPELRKYFKKL 80 (114)
T ss_pred CeEEeECCCeEEECCEEEEEeEEEccCceeccCCCChhhCCHHHHHHHHhccCCCCEEEEccCCCCCcCCHHHHHHHHHc
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEEEeChHHHHHHHHHhhhccceeEEEeecCc
Q 033161 90 GMKLEAIDSRNAASTYNILNEEGRIVAAALLPYG 123 (126)
Q Consensus 90 GI~vE~m~T~aAcrTyN~L~sEgR~VaaaLl~~~ 123 (126)
||++|+|+|++||||||+|++|||+|+|+|||++
T Consensus 81 gi~vevm~T~~AcrtyN~L~~EgR~VaaaLip~~ 114 (114)
T cd05125 81 GIAVEVVDTRNACATFNFLAEEGRRVAAALIPPG 114 (114)
T ss_pred CCEEEEECHHHHHHHHHHHHhCCCeEEEEEecCC
Confidence 9999999999999999999999999999999985
No 2
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=100.00 E-value=2.4e-43 Score=245.30 Aligned_cols=109 Identities=33% Similarity=0.596 Sum_probs=104.0
Q ss_pred ceeEEcCCcEEEcCEEEeecEEEeCCccccCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 033161 11 PRISFASKGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 90 (126)
Q Consensus 11 ~I~~y~~g~~~I~g~~y~g~vi~~~~~v~~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~G 90 (126)
+|++|++|+|+|||++|++|++++|+.+.+|+++++++++.+||+.+...+ +||+||||||+++++++|+++++|+++|
T Consensus 1 ~i~~y~~g~~~i~g~~y~~~viv~p~~~~~w~~~~~~~l~~~~l~~~~~~~-~peiliiGTG~~~~~~~~~~~~~l~~~g 79 (109)
T cd00248 1 PIDGYGPGGFRIAGQVYRGPLLVLPDGVVPWDGTSLSDLDPEALLPLLAED-RPDILLIGTGAEIAFLPRALRAALRAAG 79 (109)
T ss_pred CeeeecCCEEEECCEEEeeCEEEeCCceeecCCcCcccCCHHHHHHHHhhC-CCCEEEEcCCCCCCcCCHHHHHHHHHcC
Confidence 489999999999999999999999999999999999999999999755544 5999999999999999999999999999
Q ss_pred CeEEEeChHHHHHHHHHhhhccceeEEEee
Q 033161 91 MKLEAIDSRNAASTYNILNEEGRIVAAALL 120 (126)
Q Consensus 91 I~vE~m~T~aAcrTyN~L~sEgR~VaaaLl 120 (126)
|++|+|+|++||||||+|++|||+|+||||
T Consensus 80 I~vE~m~T~aAcrTyNiL~~EgR~Vaaali 109 (109)
T cd00248 80 IGVEVMSTGAACRTYNVLLSEGRRVAAALI 109 (109)
T ss_pred CeEEEeCcHHHHHHHHHHHhCCcceEEEeC
Confidence 999999999999999999999999999996
No 3
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=100.00 E-value=4.6e-43 Score=243.75 Aligned_cols=109 Identities=39% Similarity=0.677 Sum_probs=100.9
Q ss_pred eeEEcCCcEEEcCEEEeecEEEeCCcc-ccCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 033161 12 RISFASKGFTVNGVQYEGSLLCIGNLL-LSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 90 (126)
Q Consensus 12 I~~y~~g~~~I~g~~y~g~vi~~~~~v-~~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~G 90 (126)
|++|++|+|+|||++|.+|++++|+++ ++|+.+++++++.++++.+..+.|+||+||||||+++++++|+++++|+++|
T Consensus 1 I~~y~~g~~~i~g~~~~~~iii~p~~~~~~w~~~~~~~l~~~~l~~l~~~~p~pe~liiGtG~~~~~~~~~~~~~l~~~G 80 (110)
T PF04430_consen 1 ITGYGFGGFVINGKEYEGSIIIFPDGVIRDWKVKSPHDLTPEDLEELLELEPKPEVLIIGTGKRQLFLPPELREYLRKKG 80 (110)
T ss_dssp EEEEETTEEEETTEEESSEEEEETTSEEEEEHHSSTTCEETHHHHHHHCTCCS-SEEEEEETTS-SECTHHHHHHHHTTT
T ss_pred CceEeCCEEEECCEEEccCEEEECCCcccCcCCCCcccCCHHHHHHHHhccCCCcEEEEccCCccccCCHHHHHHHHHcC
Confidence 799999999999999999999999998 8998899999999999998888889999999999999999999999999999
Q ss_pred CeEEEeChHHHHHHHHHhhhccceeEEEee
Q 033161 91 MKLEAIDSRNAASTYNILNEEGRIVAAALL 120 (126)
Q Consensus 91 I~vE~m~T~aAcrTyN~L~sEgR~VaaaLl 120 (126)
|++|+|+|++||||||+|++|||+|+|||+
T Consensus 81 I~ve~m~T~~Ac~tyN~L~~EgR~V~aal~ 110 (110)
T PF04430_consen 81 IGVEVMDTPAACRTYNILASEGRRVAAALI 110 (110)
T ss_dssp -EEEEE-HHHHHHHHHHHHHTTC-EEEEEE
T ss_pred CeEEEECHHHHHHHHHHHHhCCccEEEEeC
Confidence 999999999999999999999999999996
No 4
>cd05560 Xcc1710_like Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. Their three-dimensional structures have been determined, but their functions are unknown.
Probab=100.00 E-value=2.6e-42 Score=240.23 Aligned_cols=107 Identities=31% Similarity=0.523 Sum_probs=101.3
Q ss_pred eeEEcCCcEEEcCEEEeecEEEeCCcccc-CCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 033161 12 RISFASKGFTVNGVQYEGSLLCIGNLLLS-WTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 90 (126)
Q Consensus 12 I~~y~~g~~~I~g~~y~g~vi~~~~~v~~-W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~G 90 (126)
|++|++|+|+|||++|+||++++|+.+.. |.+++.++++.+||+.+ +..+||+||||||+++.+++|+++++|+++|
T Consensus 2 I~~y~~g~~~i~g~~y~~sviv~p~~~~~~w~~~~~~~l~~e~l~~l--~~~~peiliiGTG~~~~~~~~~~~~~l~~~g 79 (109)
T cd05560 2 ITAYGDGYVEINDQRYEHSLIVTPDELITDWPVARFEDLTAAHFEAL--LALQPEVILLGTGERQRFPPPALLAPLLARG 79 (109)
T ss_pred eEeecCCEEEECCEEEecCEEEECCceeeccccCCcccCCHHHHHHH--HhcCCCEEEEecCCCCCcCCHHHHHHHHHcC
Confidence 89999999999999999999999998665 99999999999999964 4456999999999999999999999999999
Q ss_pred CeEEEeChHHHHHHHHHhhhccceeEEEee
Q 033161 91 MKLEAIDSRNAASTYNILNEEGRIVAAALL 120 (126)
Q Consensus 91 I~vE~m~T~aAcrTyN~L~sEgR~VaaaLl 120 (126)
|++|+|+|++||||||+|++|||+|+||||
T Consensus 80 i~vE~m~T~~AcrTyN~L~~EgR~V~Aali 109 (109)
T cd05560 80 IGVEVMDTQAACRTYNILMGEGRRVVAALL 109 (109)
T ss_pred CeEEEECHHHHHHHHHHHHhCCCcEEEEeC
Confidence 999999999999999999999999999996
No 5
>cd05126 Mth938 Mth938 domain. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. The function of the protein has not been determined.
Probab=100.00 E-value=5.7e-40 Score=231.08 Aligned_cols=108 Identities=23% Similarity=0.296 Sum_probs=101.0
Q ss_pred ceeEEcCCcEEEcCEEEeecEEEeCCccccCCCC-------CCCCCChhhhhchhhhCCCCcEEEEeecCCCC-CCCHHH
Q 033161 11 PRISFASKGFTVNGVQYEGSLLCIGNLLLSWTPK-------KFSEITPNCLSIFQLVRPIPEILILGCGRYIE-PVNPEL 82 (126)
Q Consensus 11 ~I~~y~~g~~~I~g~~y~g~vi~~~~~v~~W~~~-------~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~-~~~~~~ 82 (126)
.|++|++|+|+|||++|++|++++|+++.+|+++ ++++++++|++ ++++.+||+||||||.+++ +++|++
T Consensus 1 ~i~~y~~G~i~i~g~~y~~~viv~p~~~~~w~~~~~s~~~~~~~~l~~~~l~--~ll~~~peivliGTG~~~~~~~~~~~ 78 (117)
T cd05126 1 EIESTSFGSITVGGETYEHDIVVYPDGSRARRWKELSKKTGTSHGLQPEELE--ELLEEGVEVIVIGTGQSGALKVPPET 78 (117)
T ss_pred CcceecCCEEEECCEEEcCCEEEeCCccccccccccccccCCcccCCHHHHH--HHHhcCCCEEEEcCCCCccccCCHHH
Confidence 3799999999999999999999999998888876 78899999999 4677789999999999976 789999
Q ss_pred HHHHHHcCCeEEEeChHHHHHHHHHhhhccceeEEEee
Q 033161 83 RQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALL 120 (126)
Q Consensus 83 ~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR~VaaaLl 120 (126)
+++|+++||++|+|+|++||||||+|++|||+|+|||.
T Consensus 79 ~~~l~~~Gi~ve~m~T~aAcrTYN~L~~EgRrV~Aa~H 116 (117)
T cd05126 79 VEKLEKRGVEVLVLPTEEAVKRYNELAGKGRRVLAVIH 116 (117)
T ss_pred HHHHHhcCCEEEEcChHHHHHHHHHHHhCCCeEEEEEe
Confidence 99999999999999999999999999999999999984
No 6
>COG3737 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=2e-39 Score=226.58 Aligned_cols=111 Identities=32% Similarity=0.540 Sum_probs=105.8
Q ss_pred ceeEEcCCcEEEcCEEEeecEEEeCCccccCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 033161 11 PRISFASKGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 90 (126)
Q Consensus 11 ~I~~y~~g~~~I~g~~y~g~vi~~~~~v~~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~G 90 (126)
++++|+.|+|+++|+++++|++++|+++.+|.+.+.+++++++|+.+....+.+|+||+|||..++|+|+.+++.|++.|
T Consensus 17 ~~~ayG~Gg~R~a~~sh~~SlL~lpdgv~~W~v~~~~~Lt~e~f~~vl~~a~~~EilliGTG~~~rf~p~~l~aal~~~g 96 (127)
T COG3737 17 PIDAYGAGGFRFADMSHRGSLLVLPDGVCDWEVATLSDLTPEDFERVLAEAPDVEILLIGTGARLRFPPPKLRAALKAAG 96 (127)
T ss_pred hhhhhcCCceEeccccccccEEEecCccccccccChhhCCHHHHHHHHhcCCCceEEEEecCccccCCCHHHHHHHHHcC
Confidence 49999999999999999999999999999999999999999999965555667799999999999999999999999999
Q ss_pred CeEEEeChHHHHHHHHHhhhccceeEEEeec
Q 033161 91 MKLEAIDSRNAASTYNILNEEGRIVAAALLP 121 (126)
Q Consensus 91 I~vE~m~T~aAcrTyN~L~sEgR~VaaaLl~ 121 (126)
|++|+|+|++||||||+|++|||+|||||++
T Consensus 97 Isve~Mst~AA~RTYNvL~sEgRrvAAALi~ 127 (127)
T COG3737 97 ISVEPMSTGAAVRTYNVLLSEGRRVAAALIA 127 (127)
T ss_pred CccccccchhhHHHHHHHHhccHHHHHHhcC
Confidence 9999999999999999999999999999985
No 7
>KOG3363 consensus Uncharacterized conserved nuclear protein [Function unknown]
Probab=100.00 E-value=8.3e-34 Score=208.39 Aligned_cols=116 Identities=50% Similarity=0.842 Sum_probs=109.4
Q ss_pred ceeEEc-CCcEEEcCEEEeecEEEeCCccccCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCC--CCHHHHHHHH
Q 033161 11 PRISFA-SKGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEP--VNPELRQFIR 87 (126)
Q Consensus 11 ~I~~y~-~g~~~I~g~~y~g~vi~~~~~v~~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~--~~~~~~~~l~ 87 (126)
.+++|+ .|++.+||..|.|++.|+|+.+.+|.+..++||+.++|..|..++|+||+||+|+|.+... +.++++++++
T Consensus 58 ~v~gys~ygfrl~ng~~l~Gpi~~fp~~~lSW~v~~fedIt~dSLslF~tlePkidlLIvG~Gd~~~p~~v~~~V~~F~k 137 (196)
T KOG3363|consen 58 RVQGYSCYGFRLVNGVKLEGPILCFPNLLLSWSVRTFEDITTDSLSLFQTLEPKIDLLIVGCGDKKHPDKVRPSVRQFVK 137 (196)
T ss_pred eeeeecccceEeecCeEEEecceecccceeeccCCChhhcCcchHhHhhhcCCCccEEEEecCCcCCchhcCHHHHHHHH
Confidence 589999 5556689999999999999999999999999999999999999999999999999999665 9999999999
Q ss_pred HcCCeEEEeChHHHHHHHHHhhhccceeEEEeecCccCC
Q 033161 88 STGMKLEAIDSRNAASTYNILNEEGRIVAAALLPYGVSS 126 (126)
Q Consensus 88 ~~GI~vE~m~T~aAcrTyN~L~sEgR~VaaaLl~~~~~~ 126 (126)
++||++|+|+|++||.|||+|++|||-|||||+|+.+-|
T Consensus 138 ~~ki~lEi~dte~A~aTfNfLNaEgR~VaaAL~Pp~v~s 176 (196)
T KOG3363|consen 138 SHKIKLEIVDTENAAATFNFLNAEGRYVAAALLPPGVTS 176 (196)
T ss_pred HhCcceEEecchhhhhHhhhccccccEEEEEecCCcccc
Confidence 999999999999999999999999999999999998743
No 8
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=99.89 E-value=1.1e-22 Score=140.90 Aligned_cols=109 Identities=22% Similarity=0.314 Sum_probs=97.5
Q ss_pred CCceeEEcCCcEEEcCEEEeecEEEeCCc-c-----ccCCCCC--CCCCChhhhhchhhhCCCCcEEEEeecCC-CCCCC
Q 033161 9 MSPRISFASKGFTVNGVQYEGSLLCIGNL-L-----LSWTPKK--FSEITPNCLSIFQLVRPIPEILILGCGRY-IEPVN 79 (126)
Q Consensus 9 ~~~I~~y~~g~~~I~g~~y~g~vi~~~~~-v-----~~W~~~~--~~~i~~~~l~~l~~l~~~pevliiGTG~~-~~~~~ 79 (126)
|..|++|+||+++|.|+.|++|+++.|++ + ..|+.+. +|.+++++++ ++++.+||+||+|||+. ...++
T Consensus 1 mk~ie~~~FG~v~i~Gk~f~~DIvi~~dG~v~rr~K~lskrK~GTSHkl~~eEle--~~lee~~E~ivvGTG~~G~l~l~ 78 (121)
T COG1504 1 MKEIESTSFGSVTIGGKDFEHDIVIRPDGKVERREKELSKRKYGTSHKLALEELE--ELLEEGPEVIVVGTGQSGMLELS 78 (121)
T ss_pred CccccccceeeEEECCEeccccEEEecCCceehhhhhhhhhhcCcccccCHHHHH--HHHhcCCcEEEEecCceeEEEeC
Confidence 34789999999999999999999999886 3 2455554 6999999999 57788999999999999 67999
Q ss_pred HHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccceeEEEee
Q 033161 80 PELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALL 120 (126)
Q Consensus 80 ~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR~VaaaLl 120 (126)
++.+++|+++||+|...+|+.|...||.|.+. |+|+|++.
T Consensus 79 ~ea~e~~r~k~~~vi~~pT~EAikr~nel~~~-krV~aiiH 118 (121)
T COG1504 79 EEAREFFRKKGCEVIELPTPEAIKRYNELRGK-KRVAAIIH 118 (121)
T ss_pred HHHHHHHHhcCCeEEEeCCHHHHHHHHHHhcc-ceEEEEEE
Confidence 99999999999999999999999999999988 99998864
No 9
>PF05499 DMAP1: DNA methyltransferase 1-associated protein 1 (DMAP1); InterPro: IPR008468 DNA methylation can contribute to transcriptional silencing through several transcriptionally repressive complexes, which include methyl-CpG binding domain proteins (MBDs) and histone deacetylases (HDACs). The chief enzyme that maintains mammalian DNA methylation, DNMT1, can also establish a repressive transcription complex. The non-catalytic N terminus of DNMT1 binds to HDAC2 and DMAP1 (for DNMT1 associated protein), and can mediate transcriptional repression. DMAP1 has intrinsic transcription repressive activity, and binds to the transcriptional co-repressor TSG101. DMAP1 is targeted to replication foci through interaction with the far N terminus of DNMT1 throughout S phase, whereas HDAC2 joins DNMT1 and DMAP1 only during late S phase, providing a platform for how histones may become deacetylated in heterochromatin following replication [].; GO: 0045892 negative regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=90.13 E-value=0.24 Score=37.29 Aligned_cols=31 Identities=19% Similarity=0.515 Sum_probs=27.1
Q ss_pred HHHHHHHHcCCeEEEeChHHHHHHHHHhhhc
Q 033161 81 ELRQFIRSTGMKLEAIDSRNAASTYNILNEE 111 (126)
Q Consensus 81 ~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sE 111 (126)
.+...|.+.|+.+.-|+|.+=|..||.|.++
T Consensus 109 ~iEq~L~elgv~~~PmPTe~Ic~~fneLRsd 139 (176)
T PF05499_consen 109 AIEQFLQELGVDLNPMPTEEICQEFNELRSD 139 (176)
T ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHHHHHH
Confidence 3445889999999999999999999999765
No 10
>PF15603 Imm45: Immunity protein 45
Probab=83.67 E-value=5.6 Score=26.30 Aligned_cols=61 Identities=13% Similarity=0.316 Sum_probs=43.4
Q ss_pred EEcCCcEEE-cCEEEe------ecEEEeCCccccCCCCCCC-CCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHH
Q 033161 14 SFASKGFTV-NGVQYE------GSLLCIGNLLLSWTPKKFS-EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQF 85 (126)
Q Consensus 14 ~y~~g~~~I-~g~~y~------g~vi~~~~~v~~W~~~~~~-~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~ 85 (126)
.+.+|..+. .|..+. ++.+++.+....|.+++-+ .++.++.+ .+++ ++.++
T Consensus 13 el~~G~~~~~~GE~l~~~~~~~~~Fvvy~~si~~We~P~e~~~it~~e~q--~II~-------------------aI~~~ 71 (82)
T PF15603_consen 13 ELEEGARRKAQGEMLLTGNDNDGDFVVYKDSIKNWEPPHENEPITIAERQ--KIIE-------------------AIEKY 71 (82)
T ss_pred EecCCEEEEEeeeEEEeccCCCcCEEEEccccccccCCCCCcccCHHHHH--HHHH-------------------HHHHH
Confidence 455565554 566654 4688999999999887644 68888887 3554 67778
Q ss_pred HHHcCCeEEE
Q 033161 86 IRSTGMKLEA 95 (126)
Q Consensus 86 l~~~GI~vE~ 95 (126)
|.++|+.|++
T Consensus 72 ~~~~~~~v~f 81 (82)
T PF15603_consen 72 FSERGMTVDF 81 (82)
T ss_pred HhcCceEEEe
Confidence 8888877764
No 11
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=82.23 E-value=0.87 Score=31.43 Aligned_cols=36 Identities=19% Similarity=0.375 Sum_probs=31.9
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
.++|++++| .+.++.-+++.+.+..+||.|++.|+.
T Consensus 47 ~~~DvvLlG--PQv~y~~~~~~~~~~~~giPV~vI~~~ 82 (102)
T COG1440 47 DNADVVLLG--PQVRYMLKQLKEAAEEKGIPVEVIDML 82 (102)
T ss_pred hcCCEEEEC--hHHHHHHHHHHHHhcccCCCeEEeCHH
Confidence 379999997 567788899999999999999999985
No 12
>COG4081 Uncharacterized protein conserved in archaea [Function unknown]
Probab=81.54 E-value=2.4 Score=30.78 Aligned_cols=41 Identities=12% Similarity=0.309 Sum_probs=32.7
Q ss_pred EEEEeecCCCCCCCHHHHH--HHHHcCCeEEEeChHHHHHHHH
Q 033161 66 ILILGCGRYIEPVNPELRQ--FIRSTGMKLEAIDSRNAASTYN 106 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~--~l~~~GI~vE~m~T~aAcrTyN 106 (126)
+|++|+-+-..+.|-.+.. .+.++|..|-+..|++|||..-
T Consensus 6 lv~lGCPeiP~qissaiYls~klkkkgf~v~VaateAa~kLle 48 (148)
T COG4081 6 LVSLGCPEIPPQISSAIYLSHKLKKKGFDVTVAATEAALKLLE 48 (148)
T ss_pred EEEecCCCCCccchHHHHHHHHhhccCccEEEecCHhhheeee
Confidence 5778887777677776643 6789999999999999998543
No 13
>COG4408 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.64 E-value=2 Score=35.82 Aligned_cols=28 Identities=32% Similarity=0.382 Sum_probs=24.4
Q ss_pred HHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 033161 80 PELRQFIRSTGMKLEAIDSRNAASTYNI 107 (126)
Q Consensus 80 ~~~~~~l~~~GI~vE~m~T~aAcrTyN~ 107 (126)
..+.+-|++.||.+|+|.++-|++|+|+
T Consensus 185 e~l~~v~aq~~I~v~~~esp~~AEtrni 212 (431)
T COG4408 185 EMLTAVLAQHGIDVEPCESPLAAETRNI 212 (431)
T ss_pred HHHHHHHHhcCCceEEcCChhhhhhccc
Confidence 4567788999999999999999988886
No 14
>PF10100 DUF2338: Uncharacterized protein conserved in bacteria (DUF2338); InterPro: IPR016935 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=76.97 E-value=3.2 Score=35.23 Aligned_cols=31 Identities=29% Similarity=0.455 Sum_probs=25.4
Q ss_pred CCCHHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 033161 77 PVNPELRQFIRSTGMKLEAIDSRNAASTYNI 107 (126)
Q Consensus 77 ~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~ 107 (126)
..-..+.+.+++.||.+++|+++-++++.|+
T Consensus 180 ~~~~~l~~~~~~~gI~~~~~~~pl~AE~rNi 210 (429)
T PF10100_consen 180 PELDKLCRLLAQLGIQLEVMDNPLEAESRNI 210 (429)
T ss_pred hHHHHHHHHHHHcCCeEEEeCChHhhhhccc
Confidence 3445667899999999999999988877775
No 15
>TIGR03868 F420-O_ABCperi proposed F420-0 ABC transporter, periplasmic F420-0 binding protein. This small clade of ABC-type transporter periplasmic binding protein components is found as a three gene cassette along with a permease (TIGR03869) and an ATPase (TIGR03873). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this periplasmic binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.
Probab=74.62 E-value=3.8 Score=31.61 Aligned_cols=38 Identities=13% Similarity=0.205 Sum_probs=27.3
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 96 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m 96 (126)
++.-+||+||.+.+.....-.++..+.|++.||.|.+.
T Consensus 74 i~~l~PDlvi~~~~~~~~~~~~~~~~~l~~~gipv~~~ 111 (287)
T TIGR03868 74 VLETEPDLVYAGWESNLTAEGAGERADLASLGVNTYVA 111 (287)
T ss_pred hhcCCCCEEEeccccccCCCCCCCHHHHHHCCCeEEEC
Confidence 55667999998665443223356678899999999875
No 16
>PF02780 Transketolase_C: Transketolase, C-terminal domain; InterPro: IPR005476 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 2E6K_A 3JU3_A 2R8P_B ....
Probab=74.56 E-value=1.6 Score=29.95 Aligned_cols=38 Identities=24% Similarity=0.371 Sum_probs=30.2
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
.+.++.|++||++|... ..--+..+.|++.||.+++.+
T Consensus 5 ~~~~g~di~iia~G~~~-~~al~A~~~L~~~Gi~~~vi~ 42 (124)
T PF02780_consen 5 VLREGADITIIAYGSMV-EEALEAAEELEEEGIKAGVID 42 (124)
T ss_dssp EEESSSSEEEEEETTHH-HHHHHHHHHHHHTTCEEEEEE
T ss_pred EEeCCCCEEEEeehHHH-HHHHHHHHHHHHcCCceeEEe
Confidence 44678999999999975 334567888999999998864
No 17
>PF02441 Flavoprotein: Flavoprotein; InterPro: IPR003382 This entry contains a diverse range of flavoprotein enzymes, including epidermin biosynthesis protein, EpiD, which has been shown to be a flavoprotein that binds FMN []. This enzyme catalyzes the removal of two reducing equivalents from the cysteine residue of the C-terminal meso-lanthionine of epidermin to form a --C==C-- double bond. This family also includes the B chain of dipicolinate synthase a small polar molecule that accumulates to high concentrations in bacterial endospores, and is thought to play a role in spore heat resistance, or the maintenance of heat resistance []. Dipicolinate synthase catalyses the formation of dipicolinic acid from dihydroxydipicolinic acid. This family also includes phenylacrylic acid decarboxylase 4.1.1 from EC [].; GO: 0003824 catalytic activity; PDB: 3QJG_L 1G63_G 1G5Q_L 1P3Y_1 1QZU_A 1E20_A 1MVN_A 1MVL_A 3ZQU_A 2EJB_A ....
Probab=73.39 E-value=6.7 Score=27.15 Aligned_cols=44 Identities=18% Similarity=0.180 Sum_probs=36.6
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhh
Q 033161 66 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILN 109 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~ 109 (126)
+++.-||.......+++.+.|++.|..|.+.-|++|.+..+...
T Consensus 3 i~l~vtGs~~~~~~~~~l~~L~~~g~~v~vv~S~~A~~~~~~~~ 46 (129)
T PF02441_consen 3 ILLGVTGSIAAYKAPDLLRRLKRAGWEVRVVLSPSAERFVTPEG 46 (129)
T ss_dssp EEEEE-SSGGGGGHHHHHHHHHTTTSEEEEEESHHHHHHSHHHG
T ss_pred EEEEEECHHHHHHHHHHHHHHhhCCCEEEEEECCcHHHHhhhhc
Confidence 56777888755558999999999999999999999999888765
No 18
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=72.96 E-value=2.4 Score=31.40 Aligned_cols=46 Identities=20% Similarity=0.158 Sum_probs=35.0
Q ss_pred CCCCcEEEEeecCC-CCCCCHHHHHHHHHcCCeEEEeChH--------HHHHHHHHhhh
Q 033161 61 RPIPEILILGCGRY-IEPVNPELRQFIRSTGMKLEAIDSR--------NAASTYNILNE 110 (126)
Q Consensus 61 ~~~pevliiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~T~--------aAcrTyN~L~s 110 (126)
.++.|.++|-||.. .. .+...++++|..|+++.++ +||..|=.|.+
T Consensus 103 ~~~iD~~vLvSgD~DF~----~Lv~~lre~G~~V~v~g~~~~ts~~L~~acd~FI~L~~ 157 (160)
T TIGR00288 103 NPNIDAVALVTRDADFL----PVINKAKENGKETIVIGAEPGFSTALQNSADIAIILGE 157 (160)
T ss_pred cCCCCEEEEEeccHhHH----HHHHHHHHCCCEEEEEeCCCCChHHHHHhcCeEEeCCC
Confidence 67899999999998 43 5677889999999999633 46666655543
No 19
>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=72.48 E-value=8.2 Score=25.47 Aligned_cols=47 Identities=13% Similarity=0.089 Sum_probs=41.3
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHh
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNIL 108 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L 108 (126)
.++|+||+=|+.--......+++..++.|+.+-...+...+.-.+.|
T Consensus 47 ~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~~~~~l~~~l 93 (97)
T PF10087_consen 47 KKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSRGVSSLERAL 93 (97)
T ss_pred CCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCCCHHHHHHHH
Confidence 46899999999988889999999999999999999988777766655
No 20
>cd01141 TroA_d Periplasmic binding protein TroA_d. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=72.47 E-value=7.8 Score=27.88 Aligned_cols=35 Identities=17% Similarity=0.284 Sum_probs=25.7
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++.-+||++|...+ +.++++.+.|++.||.+-+++
T Consensus 65 ll~l~PDlii~~~~----~~~~~~~~~l~~~gIpvv~i~ 99 (186)
T cd01141 65 IVALKPDLVILYGG----FQAQTILDKLEQLGIPVLYVN 99 (186)
T ss_pred HhccCCCEEEEecC----CCchhHHHHHHHcCCCEEEeC
Confidence 55667999887433 222368999999999887775
No 21
>PF12500 TRSP: TRSP domain C terminus to PRTase_2 ; InterPro: IPR022537 This domain is found in bacteria, and is typically between 174 and 217 amino acids in length. There is a conserved TRSP sequence motif.
Probab=70.10 E-value=3.7 Score=30.23 Aligned_cols=36 Identities=19% Similarity=0.351 Sum_probs=29.4
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
+.-.+|+||||+- +.+|--+.+.|.+.|..|-+-+|
T Consensus 56 ~~~~vLVLGTgEf-My~Pl~lA~~Le~~g~~V~~qST 91 (155)
T PF12500_consen 56 PGERVLVLGTGEF-MYLPLLLAEELEQAGADVRYQST 91 (155)
T ss_pred CCCcEEEEccchH-HHHHHHHHHHHHhcCCceEEeCC
Confidence 4468999999874 46788889999999988887755
No 22
>PF09001 DUF1890: Domain of unknown function (DUF1890); InterPro: IPR012033 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. The structure of the Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) protein has been determined but no evidence as to the function is available yet.; PDB: 1KJN_B.
Probab=70.07 E-value=3.3 Score=30.07 Aligned_cols=42 Identities=14% Similarity=0.318 Sum_probs=28.8
Q ss_pred EEEEeecCCCCCCCHHH--HHHHHHcCCeEEEeChHHHHHHHHH
Q 033161 66 ILILGCGRYIEPVNPEL--RQFIRSTGMKLEAIDSRNAASTYNI 107 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~--~~~l~~~GI~vE~m~T~aAcrTyN~ 107 (126)
++++|+-+...+.|-.+ ...|+++|+.+-+-.|++|++.--.
T Consensus 1 lilLGCPe~Pvq~p~alYl~~~Lk~~G~~v~Va~npAA~kLl~v 44 (139)
T PF09001_consen 1 LILLGCPEVPVQTPSALYLSYKLKKKGFEVVVAGNPAALKLLEV 44 (139)
T ss_dssp EEE---S-STTHHHHHHHHHHHHHCTTEEEEEEE-HHHHHHHHH
T ss_pred CccccCCCCcchhHHHHHHHHHHHhcCCeEEEecCHHHHhHhhh
Confidence 57899988766666555 5578899999999999999986544
No 23
>COG2333 ComEC Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=69.38 E-value=8.8 Score=31.00 Aligned_cols=43 Identities=21% Similarity=0.420 Sum_probs=32.8
Q ss_pred hhhchhhhCCCCcEEEEeecCC--CCCCCHHHHHHHHHcCCeEEEeC
Q 033161 53 CLSIFQLVRPIPEILILGCGRY--IEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 53 ~l~~l~~l~~~pevliiGTG~~--~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
+.+.|+.+ +|++.|++.|.. ...|++++.+.++++++.+--=+
T Consensus 223 s~~Fl~~v--~Pk~AliS~G~~N~yghPh~~Vl~rl~~~~~~v~rTd 267 (293)
T COG2333 223 SLAFLEAV--KPKVALISSGRNNRYGHPHQEVLERLQKRGIKVYRTD 267 (293)
T ss_pred cHHHHHhc--CCcEEEEEeeccCCCCCCcHHHHHHHHhcCCeEEecC
Confidence 33344444 599999999996 44799999999999998876433
No 24
>TIGR03035 trp_arylform arylformamidase. One of several pathways of tryptophan degradation is as follows: tryptophan 2,3-dioxygenase (1.13.11.11) uses 02 to convert Trp to L-formylkynurenine. Arylformamidase (3.5.1.9) hydrolyzes the product to L-kynurenine and formate. Kynureninase (3.7.1.3) hydrolyzes L-kynurenine to anthranilate plus alanine. Members of the seed alignment for this model are bacterial predicted metal-dependent hydrolases. All are supported as arylformamidase (3.5.1.9) by an operon structure in which kynureninase and/or tryptophan 2,3-dioxygenase genes are adjacent. The members from Bacillus cereus, Pseudomonas aeruginosa and Ralstonia metallidurans were characterized. An example from Pseudomonas fluorescens is given the gene symbol qbsH instead of kynB because of its role in quinolobactin biosynthesis, which begins with tryptophan. All members of this family should be arylformamidase (3.5.1.9).
Probab=69.02 E-value=24 Score=26.55 Aligned_cols=51 Identities=22% Similarity=0.337 Sum_probs=38.3
Q ss_pred CCCChhhhhchhhhCCCCcEEEEeecCC---------CCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 47 SEITPNCLSIFQLVRPIPEILILGCGRY---------IEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 47 ~~i~~~~l~~l~~l~~~pevliiGTG~~---------~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
..++.++++.. .....|+|++=||.. .--++++..++|.++||.+--.||.
T Consensus 86 ~~it~edl~~~--~~~~~d~vl~~Tg~~~~~~~y~~~~Pgls~eaa~~L~e~~i~~iG~D~~ 145 (206)
T TIGR03035 86 ELIDPEHLRSA--LLELPPRVLLRTYLPAPANAWPDDFPAVAPDTIELLAEKGVRLIGIDTP 145 (206)
T ss_pred CccCHHHHHhh--hhcCCCEEEEECCCCCCccccCCCCCeeCHHHHHHHHHCCCeEEEECCC
Confidence 46888888853 334579999999942 2247899999999998887777665
No 25
>PRK14048 ferrichrome/ferrioxamine B periplasmic transporter; Provisional
Probab=68.73 E-value=8.7 Score=31.18 Aligned_cols=40 Identities=13% Similarity=0.191 Sum_probs=28.0
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++.-+||+||...+.....-.++..+.|++.||.+-++++
T Consensus 117 Ilal~PDLVi~~~~~~~~~~~~~~~~~L~~~Gipvv~~~~ 156 (374)
T PRK14048 117 ILTLKADLAILANWQADTEAGQRAIEYLESIGVPVIVVDF 156 (374)
T ss_pred HhhcCCCEEEecCcccccccchhHHHHHHHCCCCEEEEeC
Confidence 4456799988654322222336788999999999998864
No 26
>TIGR01276 thiB thiamine ABC transporter, periplasmic binding protein. This model finds the thiamine (and thiamine pyrophosphate) ABC transporter periplasmic binding protein ThiB in proteobacteria. Completed genomes having this protein (E. coli, Vibrio cholera, Haemophilus influenzae) also have the permease ThiP, described by TIGRFAMs equivalog model TIGR01253.
Probab=67.47 E-value=16 Score=28.39 Aligned_cols=51 Identities=16% Similarity=0.285 Sum_probs=35.3
Q ss_pred CCcEEEEeecCCCCC-C-CHHHHHHHH-HcCCeEEEeChHHHHHHHHHhhhccc
Q 033161 63 IPEILILGCGRYIEP-V-NPELRQFIR-STGMKLEAIDSRNAASTYNILNEEGR 113 (126)
Q Consensus 63 ~pevliiGTG~~~~~-~-~~~~~~~l~-~~GI~vE~m~T~aAcrTyN~L~sEgR 113 (126)
+++++|...+..... . ++.+.+.|. +.||.|++.....+-..++.|.+|+.
T Consensus 1 ~~~l~vy~~~~~~~~~~~~~~~~~~Fe~~~gi~V~~~~~~s~~~l~~kl~~e~~ 54 (309)
T TIGR01276 1 KPVLTVYTYDSFAADWGPGPVVKKAFEADCNCELKLVALEDGVSLLNRLRLEGK 54 (309)
T ss_pred CCeEEEEEccccccCCCCchHHHHHHHHHHCCEEEEEecCcHHHHHHHHHHcCC
Confidence 367777766555432 2 367777765 56999999876666678889888763
No 27
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=65.31 E-value=21 Score=26.11 Aligned_cols=49 Identities=14% Similarity=0.034 Sum_probs=41.6
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 107 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~ 107 (126)
+++.++--|++|+-+.--++.-.=.+.|+++||.|++--..+.++.+|.
T Consensus 91 li~agi~rVvva~~DPnp~Vag~G~~~L~~aGi~V~~gil~~e~~~l~~ 139 (146)
T COG0117 91 LIKAGVARVVVAMLDPNPLVAGGGLARLRAAGIEVEVGILEEEAEKLNE 139 (146)
T ss_pred HHHhCCCEEEEEecCCCccccCchHHHHHHcCCeEEEehhHHHHHHHHH
Confidence 5566788999999887767787888999999999999988888888774
No 28
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=65.16 E-value=12 Score=27.16 Aligned_cols=46 Identities=22% Similarity=0.299 Sum_probs=35.5
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH-----HHHHHHHHh
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR-----NAASTYNIL 108 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~-----aAcrTyN~L 108 (126)
+-+||++++|--+. +=...+...+.++|..+|+-.|. .=|+||.+.
T Consensus 84 ~~k~Div~lG~D~~--~d~~~l~~~~~k~G~~~~v~R~~g~~~~~~~st~~i~ 134 (140)
T COG0615 84 EYKPDIVVLGDDQK--FDEDDLKYELVKRGLFVEVKRTEGVSTCELISTSDII 134 (140)
T ss_pred HhCCCEEEECCCCc--CChHHHHHHHHHcCCeeEEEeccCcccCcccchHHHH
Confidence 35699999987655 67788888999999999998776 446666553
No 29
>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=59.95 E-value=20 Score=25.54 Aligned_cols=35 Identities=17% Similarity=0.401 Sum_probs=24.8
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
+++-+||++|...+. ..+..+.|++.||.+-.+++
T Consensus 56 l~~l~PDlii~~~~~-----~~~~~~~l~~~gi~v~~~~~ 90 (195)
T cd01143 56 IVALKPDLVIVSSSS-----LAELLEKLKDAGIPVVVLPA 90 (195)
T ss_pred HhccCCCEEEEcCCc-----CHHHHHHHHHcCCcEEEeCC
Confidence 445679998774432 24578899999998877653
No 30
>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=59.90 E-value=20 Score=24.68 Aligned_cols=38 Identities=21% Similarity=0.293 Sum_probs=34.2
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
+.+.-=|++++|.....+|+++.++..++++.+-.++.
T Consensus 70 ~~~~agL~i~~~~~~~~iP~~~i~~A~~~~lPli~ip~ 107 (123)
T PF07905_consen 70 EKGAAGLGIKTGRYLDEIPEEIIELADELGLPLIEIPW 107 (123)
T ss_pred HCCCeEEEEeccCccccCCHHHHHHHHHcCCCEEEeCC
Confidence 45788999999999889999999999999999998865
No 31
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=59.87 E-value=29 Score=27.74 Aligned_cols=68 Identities=13% Similarity=0.269 Sum_probs=46.6
Q ss_pred CCCCCChhhhh--chhhh-CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhcc
Q 033161 45 KFSEITPNCLS--IFQLV-RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEG 112 (126)
Q Consensus 45 ~~~~i~~~~l~--~l~~l-~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEg 112 (126)
+...+++++.+ .-..+ +-+||++|+..-....+=|...++.|++.||..-+..-...-+.=.-|-++|
T Consensus 39 sGaKm~pe~~~~~~~~~~~~~~pDf~i~isPN~a~PGP~~ARE~l~~~~iP~IvI~D~p~~K~~d~l~~~g 109 (277)
T PRK00994 39 SGAKMGPEEVEEVVKKMLEEWKPDFVIVISPNPAAPGPKKAREILKAAGIPCIVIGDAPGKKVKDAMEEQG 109 (277)
T ss_pred cCCCCCHHHHHHHHHHHHHhhCCCEEEEECCCCCCCCchHHHHHHHhcCCCEEEEcCCCccchHHHHHhcC
Confidence 35677888777 11222 3479999998777677778888999999999988885444444335554444
No 32
>PF12641 Flavodoxin_3: Flavodoxin domain
Probab=59.81 E-value=57 Score=23.79 Aligned_cols=61 Identities=13% Similarity=0.232 Sum_probs=42.5
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHH-cCCeEEEeCh-------HHHHHH---HHHhhhccceeEEEeecC
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRS-TGMKLEAIDS-------RNAAST---YNILNEEGRIVAAALLPY 122 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~-~GI~vE~m~T-------~aAcrT---yN~L~sEgR~VaaaLl~~ 122 (126)
...|+|++|.+-..-.++++++++|++ +|-.|=+-.| ..+.+. ...++.++-.+.+-++.+
T Consensus 38 ~~yD~i~lG~w~d~G~~d~~~~~fl~~l~~KkV~lF~T~G~~~~s~~~~~~~~~~~~~~~~~~~~lg~f~Cq 109 (160)
T PF12641_consen 38 EDYDLIFLGFWIDKGTPDKDMKEFLKKLKGKKVALFGTAGAGPDSEYAKKILKNVEALLPKGNEILGTFMCQ 109 (160)
T ss_pred CCCCEEEEEcCccCCCCCHHHHHHHHHccCCeEEEEEecCCCCchHHHHHHHHHHHHhhccCCeecceEEeC
Confidence 458999999999988999999999998 5666655544 333343 345666775666655544
No 33
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=59.76 E-value=30 Score=28.64 Aligned_cols=48 Identities=17% Similarity=0.072 Sum_probs=36.8
Q ss_pred hhCCCCcEEEEeecCCC--CCCCHHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 033161 59 LVRPIPEILILGCGRYI--EPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 107 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~--~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~ 107 (126)
+++.+..=||++|-... .-+..+..++|+++||.| .+...+.|+.+|.
T Consensus 62 ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~V-~~~l~~e~~~l~~ 111 (360)
T PRK14719 62 LIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIKV-NNLIRKEIIKYSR 111 (360)
T ss_pred HHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCEE-EeehHHHHHHHhH
Confidence 44567788999992222 234557799999999999 6789999999987
No 34
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=59.05 E-value=25 Score=21.91 Aligned_cols=44 Identities=7% Similarity=0.093 Sum_probs=29.5
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC-hHHHHHHHHH
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAID-SRNAASTYNI 107 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~-T~aAcrTyN~ 107 (126)
.+++|+..+........++.+.|++.|+.+++-. ....-..|..
T Consensus 2 ~~v~ii~~~~~~~~~a~~~~~~Lr~~g~~v~~d~~~~~~~~~~~~ 46 (91)
T cd00860 2 VQVVVIPVTDEHLDYAKEVAKKLSDAGIRVEVDLRNEKLGKKIRE 46 (91)
T ss_pred eEEEEEeeCchHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHH
Confidence 4677777776655566778889999999999842 3333344443
No 35
>cd01148 TroA_a Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. 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.
Probab=58.88 E-value=28 Score=26.72 Aligned_cols=39 Identities=10% Similarity=0.141 Sum_probs=27.9
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++.-+||+||...+......+.+..+.|++.|+.+-+++
T Consensus 75 I~~l~PDlIi~~~~~~~~~~~~~~~~~L~~~gipv~~~~ 113 (284)
T cd01148 75 VLAARPDLVFGGWSYGFDKGGLGTPDSLAELGIKTYILP 113 (284)
T ss_pred HhcCCCCEEEEecccccCCCCCCCHHHHHHCCCeEEECc
Confidence 556779999986543322334566788999999998885
No 36
>cd01321 ADGF Adenosine deaminase-related growth factors (ADGF), a novel family of secreted growth-factors with sequence similarty to adenosine deaminase.
Probab=58.58 E-value=11 Score=30.81 Aligned_cols=32 Identities=22% Similarity=0.431 Sum_probs=24.8
Q ss_pred eecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 033161 70 GCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 102 (126)
Q Consensus 70 GTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAc 102 (126)
|-|-.. .-+|++.++++++||.+|+.+|.+=.
T Consensus 227 GHG~~~-~~dp~ll~~l~~~~I~lEvCPtSN~~ 258 (345)
T cd01321 227 GHGFAL-PKHPLLMDLVKKKNIAIEVCPISNQV 258 (345)
T ss_pred cccccc-CcCHHHHHHHHHcCCeEEECcchhhh
Confidence 444443 24699999999999999999997653
No 37
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=57.10 E-value=39 Score=24.91 Aligned_cols=44 Identities=14% Similarity=0.196 Sum_probs=31.4
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 107 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~ 107 (126)
..++.-|++|... .+.+..-.+.|++.||.|+.++... |.++|.
T Consensus 120 ~~gI~rVvy~~~~--~~~~~~~~~~L~~~Gi~v~~~~~~~-~~~~~~ 163 (168)
T PHA02588 120 QSGIKKLVYCEKY--DRNGPGWDDILRKSGIEVIQIPKEE-LNKLNW 163 (168)
T ss_pred HhCCCEEEEeecc--CCCcHHHHHHHHHCCCEEEEeCHHH-HHhhhh
Confidence 3467788888652 2234567889999999999998766 666554
No 38
>KOG0523 consensus Transketolase [Carbohydrate transport and metabolism]
Probab=56.06 E-value=7.4 Score=34.58 Aligned_cols=44 Identities=16% Similarity=0.407 Sum_probs=33.4
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 106 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN 106 (126)
+..||+++||||...+ ..-+..+.|++.||.+-+.|-. -|+.|.
T Consensus 503 ~~~~dV~LiG~Gs~v~-~cl~AA~~L~~~gi~vrVvd~~-~~kplD 546 (632)
T KOG0523|consen 503 EVEPDVILIGTGSEVQ-ECLEAAELLSEDGIKVRVVDPF-TWKPLD 546 (632)
T ss_pred cCCCCEEEEeccHHHH-HHHHHHHHHHhcCceEEEeccc-ceeecc
Confidence 4459999999999753 4456678899999999998754 355555
No 39
>PTZ00363 rab-GDP dissociation inhibitor; Provisional
Probab=54.66 E-value=12 Score=31.71 Aligned_cols=34 Identities=18% Similarity=0.264 Sum_probs=26.6
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
...|++|+|||-... -+..+|.+.|..|-+++..
T Consensus 3 ~~~DViViGtGL~e~----ilAa~Ls~~GkkVLhlD~n 36 (443)
T PTZ00363 3 ETYDVIVCGTGLKEC----ILSGLLSVNGKKVLHMDRN 36 (443)
T ss_pred CcceEEEECCChHHH----HHHhhhhhCCCEEEEecCC
Confidence 458999999997532 3466889999999999654
No 40
>TIGR00421 ubiX_pad polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases. In E.coli, the protein UbiX (3-octaprenyl-4-hydroxybenzoate carboxy-lyase) has been shown to be involved in the third step of ubiquinone biosynthesis. It catalyzes the reaction [3-octaprenyl-4-hydroxybenzoate = 2-octaprenylphenol + CO2]. The knockout of the homologous protein in yeast confers sensitivity to phenylacrylic acid. Members are not restricted to ubiquinone-synthesizing species. This family represents a distinct clade within the flavoprotein family of Pfam model pfam02441.
Probab=54.64 E-value=9.2 Score=28.52 Aligned_cols=41 Identities=17% Similarity=0.153 Sum_probs=33.3
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 033161 66 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 106 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN 106 (126)
+++-=||.--..-.+++.+.|++.|..|++.-|++|.+..+
T Consensus 2 illgvtGsiaa~ka~~lir~L~~~g~~V~vv~T~~A~~fv~ 42 (181)
T TIGR00421 2 IVVAMTGASGVIYGIRLLEVLKEAGVEVHLVISDWAKETIK 42 (181)
T ss_pred EEEEEECHHHHHHHHHHHHHHHHCCCEEEEEECccHHHHHH
Confidence 34555666555667899999999999999999999999864
No 41
>TIGR00361 ComEC_Rec2 DNA internalization-related competence protein ComEC/Rec2. The role for this protein in species that are not naturally transformable is unknown.
Probab=53.35 E-value=21 Score=31.62 Aligned_cols=32 Identities=16% Similarity=0.333 Sum_probs=27.6
Q ss_pred CCcEEEEeecCC--CCCCCHHHHHHHHHcCCeEE
Q 033161 63 IPEILILGCGRY--IEPVNPELRQFIRSTGMKLE 94 (126)
Q Consensus 63 ~pevliiGTG~~--~~~~~~~~~~~l~~~GI~vE 94 (126)
+|++.|+.+|.. ..+|++++.+.+++.|+.+-
T Consensus 623 ~P~~aiiS~g~~N~yghP~~~vl~rl~~~g~~~~ 656 (662)
T TIGR00361 623 QPKVAIISAGRNNRWHHPHQKVLQRLQRHSIRVL 656 (662)
T ss_pred CCCEEEEECCCCCCCCCChHHHHHHHHHCCCeEE
Confidence 599999999975 45899999999999998753
No 42
>TIGR01431 adm_rel adenosine deaminase-related growth factor. Members of this family have been described as secreted proteins with growth factor activity and regions of adenosine deaminase homology in insects, mollusks, and vertebrates.
Probab=52.84 E-value=15 Score=31.60 Aligned_cols=27 Identities=15% Similarity=0.199 Sum_probs=23.2
Q ss_pred CCCHHHHHHHHHcCCeEEEeChHHHHH
Q 033161 77 PVNPELRQFIRSTGMKLEAIDSRNAAS 103 (126)
Q Consensus 77 ~~~~~~~~~l~~~GI~vE~m~T~aAcr 103 (126)
.-+|++.+.+++++|.+|+.+|.+-+-
T Consensus 359 ~~~P~l~~~vke~~I~lEvCP~SN~~l 385 (479)
T TIGR01431 359 VKHPLVLQMLKERNIAVEVNPISNQVL 385 (479)
T ss_pred cCCHHHHHHHHHhCCeEEECccchhhh
Confidence 346999999999999999999987643
No 43
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=52.22 E-value=27 Score=23.05 Aligned_cols=46 Identities=7% Similarity=0.072 Sum_probs=32.1
Q ss_pred CCcEEEEeecCC---CCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHh
Q 033161 63 IPEILILGCGRY---IEPVNPELRQFIRSTGMKLEAIDSRNAASTYNIL 108 (126)
Q Consensus 63 ~pevliiGTG~~---~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L 108 (126)
.-.++|+..|.. .-.....++++|.++|+.++..+..+--..++.|
T Consensus 11 ~~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l 59 (97)
T TIGR00365 11 ENPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGI 59 (97)
T ss_pred cCCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHH
Confidence 357888877653 3456679999999999999998753223334444
No 44
>PRK03379 vitamin B12-transporter protein BtuF; Provisional
Probab=52.22 E-value=40 Score=25.89 Aligned_cols=35 Identities=20% Similarity=0.282 Sum_probs=25.9
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++.-+||+|+..++.. +++..+.|++.||.+-..+
T Consensus 68 il~l~PDlVi~~~~~~----~~~~~~~L~~~gi~v~~~~ 102 (260)
T PRK03379 68 IVALKPDLVLAWRGGN----AERQVDQLASLGIKVMWVD 102 (260)
T ss_pred HHhcCCCEEEEecCCC----cHHHHHHHHHCCCCEEEeC
Confidence 4456799987544422 3578899999999998885
No 45
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS 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=51.90 E-value=11 Score=23.17 Aligned_cols=35 Identities=20% Similarity=0.226 Sum_probs=24.8
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++++|+..+.......-++.+.|++.|+.+++...
T Consensus 2 ~~v~i~~~~~~~~~~a~~i~~~Lr~~g~~v~~~~~ 36 (91)
T cd00859 2 VDVYVVPLGEGALSEALELAEQLRDAGIKAEIDYG 36 (91)
T ss_pred CcEEEEEcChHHHHHHHHHHHHHHHCCCEEEEecC
Confidence 46777777665444455677889999999988543
No 46
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=50.98 E-value=1.2e+02 Score=25.26 Aligned_cols=58 Identities=16% Similarity=0.352 Sum_probs=44.0
Q ss_pred CCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe----ChHHHHHHHHHh
Q 033161 47 SEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI----DSRNAASTYNIL 108 (126)
Q Consensus 47 ~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m----~T~aAcrTyN~L 108 (126)
...++..+. ++++-+||.|+|=-|.. -++|...+.|+..||.|+-. ..+-|.+-.|.+
T Consensus 61 g~ynes~~~--eI~~lnpd~VLIIGGp~--AVs~~yE~~Lks~GitV~RigG~nR~ETa~~v~~~~ 122 (337)
T COG2247 61 GIYNESVLD--EIIELNPDLVLIIGGPI--AVSPNYENALKSLGITVKRIGGANRYETAEKVAKFF 122 (337)
T ss_pred ccccHHHHH--HHHhhCCceEEEECCCC--cCChhHHHHHHhCCcEEEEecCcchHHHHHHHHHHH
Confidence 446666666 57778899766654554 47899999999999999987 566677777777
No 47
>CHL00144 odpB pyruvate dehydrogenase E1 component beta subunit; Validated
Probab=50.50 E-value=9.7 Score=30.94 Aligned_cols=39 Identities=28% Similarity=0.292 Sum_probs=29.3
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++.++-|+.|+++|... ...-+..+.|++.||.+|+.|.
T Consensus 197 v~~~G~ditiia~G~~v-~~al~Aa~~L~~~Gi~~~VId~ 235 (327)
T CHL00144 197 VVRPGNDITILTYSRMR-HHVLQAVKVLVEKGYDPEIIDL 235 (327)
T ss_pred EEEcCCCEEEEEccHHH-HHHHHHHHHHHhcCCCEEEEec
Confidence 45667899999999753 2344556678899999999754
No 48
>PRK11539 ComEC family competence protein; Provisional
Probab=50.33 E-value=26 Score=31.69 Aligned_cols=31 Identities=13% Similarity=0.229 Sum_probs=27.2
Q ss_pred CCcEEEEeecCC--CCCCCHHHHHHHHHcCCeE
Q 033161 63 IPEILILGCGRY--IEPVNPELRQFIRSTGMKL 93 (126)
Q Consensus 63 ~pevliiGTG~~--~~~~~~~~~~~l~~~GI~v 93 (126)
+|++.|+.+|.. ..+|++++.+.+++.|+.+
T Consensus 681 ~P~~aiiS~g~~NryghP~~~v~~rl~~~g~~~ 713 (755)
T PRK11539 681 NGKVALASASRYNAWRLPSVKVKQRYQQQGYQW 713 (755)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHcCCeE
Confidence 599999999976 4489999999999999864
No 49
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=50.28 E-value=48 Score=20.89 Aligned_cols=38 Identities=21% Similarity=0.301 Sum_probs=31.1
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEE---eChHHHHHHH
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEA---IDSRNAASTY 105 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~---m~T~aAcrTy 105 (126)
.+.++||.|- ..+.....|+++||.+-. .+...|++.|
T Consensus 52 ~~v~~li~~~------iG~~~~~~L~~~gI~v~~~~~~~i~~~l~~~ 92 (94)
T PF02579_consen 52 EGVDVLICGG------IGEGAFRALKEAGIKVYQGAGGDIEEALEAY 92 (94)
T ss_dssp TTESEEEESC------SCHHHHHHHHHTTSEEEESTSSBHHHHHHHH
T ss_pred cCCCEEEEeC------CCHHHHHHHHHCCCEEEEcCCCCHHHHHHHH
Confidence 6799999875 688999999999999988 5666666655
No 50
>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]
Probab=50.12 E-value=26 Score=27.81 Aligned_cols=89 Identities=18% Similarity=0.181 Sum_probs=59.0
Q ss_pred CcEEEcCEEEe--ecEEEeCCc-----cccCCCCC-----CCCCChhhhhch--hhhCCCCcEEEEeecCC-CCCCCHHH
Q 033161 18 KGFTVNGVQYE--GSLLCIGNL-----LLSWTPKK-----FSEITPNCLSIF--QLVRPIPEILILGCGRY-IEPVNPEL 82 (126)
Q Consensus 18 g~~~I~g~~y~--g~vi~~~~~-----v~~W~~~~-----~~~i~~~~l~~l--~~l~~~pevliiGTG~~-~~~~~~~~ 82 (126)
+=++|.|+++- -+++++.+. +.+|..++ .+.++.|++..+ .....+=+++=+=+|.. ..---.|.
T Consensus 16 dLiTvkg~~ll~~advviYAGSLV~~elL~~~~~~aei~nSa~~tLeeIi~~m~~a~~~Gk~VvRLhSGDpsiYgA~~EQ 95 (254)
T COG2875 16 DLITVKGQRLLEKADVVIYAGSLVPPELLEYCRPDAEIVNSASLTLEEIIDLMVDAVREGKDVVRLHSGDPSIYGALAEQ 95 (254)
T ss_pred ceeeehHHHHHhhCCEEEECCCcCCHHHHhhcCCCCEEEecCcCCHHHHHHHHHHHHHcCCeEEEeecCChhHHHHHHHH
Confidence 34677777653 345555433 45665543 567777776632 33356778999999998 44556778
Q ss_pred HHHHHHcCCeEEEeC----hHHHHHHHH
Q 033161 83 RQFIRSTGMKLEAID----SRNAASTYN 106 (126)
Q Consensus 83 ~~~l~~~GI~vE~m~----T~aAcrTyN 106 (126)
...|+++||.+|+.+ ..+|+.+.+
T Consensus 96 m~~L~~~gI~yevvPGVss~~AAAA~L~ 123 (254)
T COG2875 96 MRELEALGIPYEVVPGVSSFAAAAAALG 123 (254)
T ss_pred HHHHHHcCCCeEEeCCchHHHHHHHHhC
Confidence 889999999999985 344444444
No 51
>cd01139 TroA_f Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=50.09 E-value=28 Score=27.54 Aligned_cols=40 Identities=13% Similarity=0.225 Sum_probs=27.7
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++.-+||+||...+.....-+.+..+.|++.||.+-.+++
T Consensus 87 l~~l~PDLIi~~~~~~~~~~~~~~~~~l~~~gipvv~~~~ 126 (342)
T cd01139 87 VLTLKPDLVILNIWAKTTAEESGILEKLEQAGIPVVFVDF 126 (342)
T ss_pred HhhcCCCEEEEeccccccchhhHHHHHHHHcCCcEEEEeC
Confidence 4456799987754432222346788999999999988763
No 52
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=50.00 E-value=6.2 Score=28.67 Aligned_cols=41 Identities=15% Similarity=0.368 Sum_probs=24.3
Q ss_pred CCCCcEEEE-eecCCCCCCCHHHHHHHHHcC-------CeEEEeChHHH
Q 033161 61 RPIPEILIL-GCGRYIEPVNPELRQFIRSTG-------MKLEAIDSRNA 101 (126)
Q Consensus 61 ~~~pevlii-GTG~~~~~~~~~~~~~l~~~G-------I~vE~m~T~aA 101 (126)
..+|++|.| |.+...+.+-..+++.++++. |.|++++..-|
T Consensus 61 ~~kP~vI~v~g~~~~s~~l~~~v~~~v~~~~~~~~~~~i~V~~v~~~~A 109 (150)
T PF14639_consen 61 KHKPDVIAVGGNSRESRKLYDDVRDIVEELDEDEQMPPIPVVIVDDEVA 109 (150)
T ss_dssp HH--SEEEE--SSTHHHHHHHHHHHHHHHTTB-TTS-B--EEE---TTH
T ss_pred HcCCeEEEEcCCChhHHHHHHHHHHHHHHhhhcccCCCceEEEECcHHH
Confidence 468999999 555556678888888888764 77777754433
No 53
>COG4012 Uncharacterized protein conserved in archaea [Function unknown]
Probab=49.65 E-value=24 Score=28.78 Aligned_cols=54 Identities=17% Similarity=0.230 Sum_probs=38.1
Q ss_pred CCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 033161 48 EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 106 (126)
Q Consensus 48 ~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN 106 (126)
.+..+-+. .++...|.+.++|+-..--....++++.+++ +.++--|..|+.|+-
T Consensus 35 ~~~A~R~R--~~~~~g~~l~l~G~~MGGGp~travrrhlk~---G~rVyatedAAlT~h 88 (342)
T COG4012 35 STLAQRLR--FMLREGPYLALIGVPMGGGPTTRAVRRHLKK---GTRVYATEDAALTLH 88 (342)
T ss_pred HHHHHHHH--HHhccCCcEEEEeeecCCChhhHHHHHHHhc---CCeeEechhhhhhhh
Confidence 34445444 4666678999999877655556666666554 788899999999974
No 54
>PF00962 A_deaminase: Adenosine/AMP deaminase immunodeficiency disease (SCID); InterPro: IPR001365 Adenosine deaminase (3.5.4.4 from EC) catalyzes the hydrolytic deamination of adenosine into inosine and AMP deaminase (3.5.4.6 from EC) catalyzes the hydrolytic deamination of AMP into IMP. It has been shown [] that these two enzymes share three regions of sequence similarities; these regions are centred on residues which are proposed to play an important role in the catalytic mechanism of these two enzymes.; GO: 0019239 deaminase activity, 0009168 purine ribonucleoside monophosphate biosynthetic process; PDB: 3LGG_B 3LGD_B 2AMX_B 3EWD_A 2QVN_A 2PGF_A 2PGR_A 3EWC_A 1W1I_G 1O5R_A ....
Probab=49.18 E-value=15 Score=29.03 Aligned_cols=37 Identities=19% Similarity=0.336 Sum_probs=24.7
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 102 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAc 102 (126)
++| =||-|-... -+|++.+.+.+++|.+|+.+|.+-.
T Consensus 217 ~~~--RIgHG~~~~-~~p~l~~~~~~~~I~iEvcptSN~~ 253 (331)
T PF00962_consen 217 GAD--RIGHGVRLI-KDPELLELLAERQIPIEVCPTSNVQ 253 (331)
T ss_dssp T-S--EEEE-GGGG-GSHHHHHHHHHTT-EEEE-HHHHHH
T ss_pred cce--eecchhhhh-hhhHHHHHHHHhCCCeeeCCCcCcc
Confidence 455 356665542 3689999999999999999998543
No 55
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=49.13 E-value=9.4 Score=25.90 Aligned_cols=33 Identities=18% Similarity=0.202 Sum_probs=26.1
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 67 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 67 liiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
|+=|.|.+...+-.+++++++++|+.+++-..+
T Consensus 5 l~C~~GaSSs~la~km~~~a~~~gi~~~i~a~~ 37 (99)
T cd05565 5 VLCAGGGTSGLLANALNKGAKERGVPLEAAAGA 37 (99)
T ss_pred EECCCCCCHHHHHHHHHHHHHHCCCcEEEEEee
Confidence 444677666788999999999999999877443
No 56
>PLN02683 pyruvate dehydrogenase E1 component subunit beta
Probab=49.11 E-value=9.1 Score=31.53 Aligned_cols=39 Identities=13% Similarity=0.265 Sum_probs=28.8
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++.++-|+.||++|... ...-+..+.|++.||.+++.+.
T Consensus 224 v~r~G~dvtIia~G~~v-~~Al~Aa~~L~~~GI~v~VId~ 262 (356)
T PLN02683 224 IEREGKDVTIVAFSKMV-GYALKAAEILAKEGISAEVINL 262 (356)
T ss_pred EEEcCCCEEEEEccHHH-HHHHHHHHHHHhcCCCEEEEEC
Confidence 44567899999999753 2334555678899999999854
No 57
>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....
Probab=48.96 E-value=26 Score=23.05 Aligned_cols=35 Identities=23% Similarity=0.567 Sum_probs=23.2
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH-HHHHH
Q 033161 66 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR-NAAST 104 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~-aAcrT 104 (126)
++|+|.|. ....+.+.|++.++.+-+++.. +.|++
T Consensus 1 vvI~G~g~----~~~~i~~~L~~~~~~vvvid~d~~~~~~ 36 (116)
T PF02254_consen 1 VVIIGYGR----IGREIAEQLKEGGIDVVVIDRDPERVEE 36 (116)
T ss_dssp EEEES-SH----HHHHHHHHHHHTTSEEEEEESSHHHHHH
T ss_pred eEEEcCCH----HHHHHHHHHHhCCCEEEEEECCcHHHHH
Confidence 57888875 4557788888877777777554 44443
No 58
>PTZ00124 adenosine deaminase; Provisional
Probab=47.87 E-value=21 Score=29.52 Aligned_cols=32 Identities=22% Similarity=0.361 Sum_probs=25.3
Q ss_pred EeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 033161 69 LGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 101 (126)
Q Consensus 69 iGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aA 101 (126)
||-|-... -+|++.+.++++||.+|+.+|.+-
T Consensus 250 IGHG~~~~-~d~~l~~~l~~~~I~lEvCPtSN~ 281 (362)
T PTZ00124 250 IGHGIRVA-ESQELIDMVKEKDILLEVCPISNV 281 (362)
T ss_pred cccccccC-CCHHHHHHHHHcCCeEEECCcchh
Confidence 34444432 479999999999999999999984
No 59
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=47.86 E-value=20 Score=21.90 Aligned_cols=33 Identities=12% Similarity=0.074 Sum_probs=21.6
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 66 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
+-++|.|....-+..++.+.|.+.||.+....+
T Consensus 5 VsvVG~gm~~~gv~~ki~~~L~~~~I~v~~i~~ 37 (66)
T cd04915 5 VSVIGRDLSTPGVLARGLAALAEAGIEPIAAHQ 37 (66)
T ss_pred EEEECCCCCcchHHHHHHHHHHHCCCCEEEEEe
Confidence 346777775334556777778888888855544
No 60
>PTZ00182 3-methyl-2-oxobutanate dehydrogenase; Provisional
Probab=47.09 E-value=12 Score=30.71 Aligned_cols=39 Identities=26% Similarity=0.404 Sum_probs=29.4
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++.++.|++||++|.... ...+..+.|++.||.+++++.
T Consensus 229 vl~~G~di~Iia~Gs~~~-~aleAa~~L~~~Gi~v~vI~~ 267 (355)
T PTZ00182 229 VVREGKDVTIVGYGSQVH-VALKAAEELAKEGISCEVIDL 267 (355)
T ss_pred EecCCCCEEEEEeCHHHH-HHHHHHHHHHhCCCcEEEEEE
Confidence 455678999999998653 335566778889999998853
No 61
>PF01497 Peripla_BP_2: Periplasmic binding protein; InterPro: IPR002491 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). Most bacterial importers employ a periplasmic substrate-binding protein (PBP) that delivers the ligand to the extracellular gate of the TM domains. These proteins bind their substrates selectively and with high affinity, which is thought to ensure the specificity of the transport reaction. Binding proteins in Gram-negative bacteria are present within the periplasm, whereas those in Gram-positive bacteria are tethered to the cell membrane via the acylation of a cysteine residue that is an integral component of a lipoprotein signal sequence. In planta expression of a high-affinity iron-uptake system involving the siderophore chrysobactin in Erwinia chrysanthemi 3937 contributes greatly to invasive growth of this pathogen on its natural host, African violets []. The cobalamin (vitamin B12) and the iron transport systems share many common attributes and probably evolved from the same origin [, ]. The periplasmic-binding domain is composed of two subdomains, each consisting of a central beta-sheet and surrounding alpha-helices, linked by a rigid alpha-helix. The substrate binding site is located in a cleft between the two alpha/beta subdomains [].; GO: 0005488 binding; PDB: 2X4L_A 1N4A_B 1N2Z_B 1N4D_B 4DBL_J 2QI9_F 3EIW_A 3EIX_A 3MWG_A 3MWF_A ....
Probab=46.90 E-value=77 Score=23.15 Aligned_cols=37 Identities=16% Similarity=0.189 Sum_probs=27.2
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
++..+||+||...+. -..+....+.+.||.+-+.++.
T Consensus 56 i~~l~PDlIi~~~~~----~~~~~~~~~~~~~ip~~~~~~~ 92 (238)
T PF01497_consen 56 ILALKPDLIIGSSFY----GQSEEIEKLLEAGIPVVVFDSS 92 (238)
T ss_dssp HHHT--SEEEEETTS----SCHHHHHHHHHTTSEEEEESST
T ss_pred HHhCCCCEEEEeccc----cchHHHHHHhcccceEEEeecc
Confidence 445569999887766 5567778888899999999774
No 62
>TIGR00232 tktlase_bact transketolase, bacterial and yeast. This model is designed to capture orthologs of bacterial transketolases. The group includes two from the yeast Saccharomyces cerevisiae but excludes dihydroxyactetone synthases (formaldehyde transketolases) from various yeasts and the even more distant mammalian transketolases. Among the family of thiamine diphosphate-dependent enzymes that includes transketolases, dihydroxyacetone synthases, pyruvate dehydrogenase E1-beta subunits, and deoxyxylulose-5-phosphate synthases, mammalian and bacterial transketolases seem not to be orthologous.
Probab=46.81 E-value=14 Score=32.94 Aligned_cols=40 Identities=13% Similarity=0.264 Sum_probs=30.8
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 101 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aA 101 (126)
..++|+.|++||..... .-+..+.|++.||.+++.+....
T Consensus 538 ~~g~dv~iia~G~~v~~-al~Aa~~L~~~Gi~~~VI~~~~i 577 (653)
T TIGR00232 538 SKGPDIILIATGSEVSL-AVEAAKKLAAENIKVRVVSMPSF 577 (653)
T ss_pred cCCCCEEEEEeChHHHH-HHHHHHHHHhcCCcEEEEecccC
Confidence 45799999999976432 35667788999999999876543
No 63
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=46.75 E-value=32 Score=23.76 Aligned_cols=36 Identities=14% Similarity=0.139 Sum_probs=28.1
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
..++|.++|-||..-. -.+.+.++++|+.|++...+
T Consensus 97 ~~~~d~ivLvSgD~Df---~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 97 KRRIDTIVLVSGDSDF---VPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred hcCCCEEEEEECCccH---HHHHHHHHHcCCEEEEEccC
Confidence 3479999999998821 24567888889999999766
No 64
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS 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=46.37 E-value=36 Score=23.14 Aligned_cols=54 Identities=17% Similarity=0.193 Sum_probs=33.1
Q ss_pred CCcEEEEeec--CCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccceeE
Q 033161 63 IPEILILGCG--RYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVA 116 (126)
Q Consensus 63 ~pevliiGTG--~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR~Va 116 (126)
+++++|+..+ ........++.+.|++.|+.+++-....--..+..-..+|=+.+
T Consensus 26 p~~v~Ii~~~~~~~~~~~a~~la~~LR~~gi~v~~d~~~sl~kqlk~A~k~g~~~~ 81 (121)
T cd00858 26 PIKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDDSGSIGRRYARQDEIGTPFC 81 (121)
T ss_pred CcEEEEEecCCcHHHHHHHHHHHHHHHHCCCEEEEeCCCCHHHHHHHhHhcCCCEE
Confidence 3678888887 44444556778899999999998542333333333333443333
No 65
>TIGR00090 iojap_ybeB iojap-like ribosome-associated protein. This model describes a widely distributed family of bacterial proteins related to iojap from plants. It includes YbeB from E. coli. The gene iojap is a pattern-striping gene in maize, reflecting a chloroplast development defect in some cells. More recent work in bacteria suggests that the bacterial iojap-related protein physically associates with ribosomes. The function remains unknown.
Probab=46.34 E-value=12 Score=25.15 Aligned_cols=31 Identities=13% Similarity=0.437 Sum_probs=24.6
Q ss_pred CCCcEEEEeecCCCC---CCCHHHHHHHHHcCCe
Q 033161 62 PIPEILILGCGRYIE---PVNPELRQFIRSTGMK 92 (126)
Q Consensus 62 ~~pevliiGTG~~~~---~~~~~~~~~l~~~GI~ 92 (126)
+-.|++||+||.+.+ -+..++.+.++++|+.
T Consensus 27 ~~~dy~VI~Tg~S~rh~~aia~~v~~~~k~~~~~ 60 (99)
T TIGR00090 27 SIADYFVIASGTSSRHVKAIADNVEEELKEAGLK 60 (99)
T ss_pred cccCEEEEEEeCCHHHHHHHHHHHHHHHHHcCCC
Confidence 346999999999933 4778899999988763
No 66
>cd00636 TroA-like Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between two globular domains linked by a single helix. Many of these proteins also possess a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence). The TroA-like proteins differ in their fold and ligand-binding mechanism from the PBPI and PBPII proteins, but are structurally similar, however, to the beta-subunit of the nitrogenase molybdenum-iron protein MoFe. Most TroA-like proteins are encoded by ABC-type operons and appear to function as periplasmic components of ABC transporters in metal ion uptake.
Probab=46.33 E-value=49 Score=21.48 Aligned_cols=43 Identities=9% Similarity=0.098 Sum_probs=28.7
Q ss_pred CCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 46 FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 46 ~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
..+.+.|.+. .-+||+++.+.+.. ....+.+++.|+.+-..+.
T Consensus 49 ~~~~~~E~l~-----~l~pDlvi~~~~~~-----~~~~~~l~~~~i~~~~~~~ 91 (148)
T cd00636 49 GYEPNLEKIA-----ALKPDLIIANGSGL-----EAWLDKLSKIAIPVVVVDE 91 (148)
T ss_pred CCCCCHHHHh-----ccCCCEEEEecccc-----hhHHHHHHHhCCCEEEECC
Confidence 4556666554 23699998876543 2267788899988777644
No 67
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase
Probab=46.32 E-value=54 Score=27.36 Aligned_cols=60 Identities=10% Similarity=0.082 Sum_probs=42.3
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHH----HHHhhhccceeEEE
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAST----YNILNEEGRIVAAA 118 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrT----yN~L~sEgR~Vaaa 118 (126)
++..++.-|++|+-.........-.+.|++.||.|+.---.++|+. |..-..++|.-+.+
T Consensus 117 ii~agI~rVv~g~~dp~~~~~g~g~~~l~~~gi~V~~g~~~~e~~~l~~~f~~~~~~~rP~V~l 180 (380)
T PLN02807 117 LIKAKVKRVVVGMVDPNPIVASKGIERLRDAGIEVTVGVEEELCRKLNEAFIHRMLTGKPFVTL 180 (380)
T ss_pred HHHhCCCEEEEEecCCCccccchHHHHHHhCCCEEEeCcCHHHHHHHHHHHHHHHhhccccEEE
Confidence 4455688999999766555556677899999999987445777876 55445567754443
No 68
>cd04911 ACT_AKiii-YclM-BS_1 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Bacillus subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from Bacillus subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=45.99 E-value=20 Score=23.27 Aligned_cols=20 Identities=20% Similarity=0.376 Sum_probs=17.1
Q ss_pred HHHHHHHHHcCCeEEEeChH
Q 033161 80 PELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 80 ~~~~~~l~~~GI~vE~m~T~ 99 (126)
..+.+-|++.||.+|.|+|+
T Consensus 19 rk~L~I~E~~~is~Eh~PSG 38 (76)
T cd04911 19 RKLLSILEDNGISYEHMPSG 38 (76)
T ss_pred HHHHHHHHHcCCCEeeecCC
Confidence 45667999999999999985
No 69
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=45.94 E-value=44 Score=27.44 Aligned_cols=51 Identities=18% Similarity=0.426 Sum_probs=42.4
Q ss_pred CCCcEEEEeecCCC---CCCCHHHHHHHHH--cCCeEEEeChHHHHHHHHHhhhccc
Q 033161 62 PIPEILILGCGRYI---EPVNPELRQFIRS--TGMKLEAIDSRNAASTYNILNEEGR 113 (126)
Q Consensus 62 ~~pevliiGTG~~~---~~~~~~~~~~l~~--~GI~vE~m~T~aAcrTyN~L~sEgR 113 (126)
..|-.+-+|||... ..+--.+.+.+.+ .|+.+++-+|......-|.+ .+|+
T Consensus 23 ~~~~~itigTG~~~G~YY~ig~~ia~~~~~~~~~i~~~v~~tggSv~Nl~~i-~~Ge 78 (321)
T COG2358 23 AEPKFITIGTGSTGGVYYPIGGGLAQLLNKDEKGIECSVVPTGGSVENLKLL-ASGE 78 (321)
T ss_pred cCceEEEEeecCCCceeeehHHHHHHHHhccCCCeEEEEeeccchHHHHHhH-hcCc
Confidence 46889999999983 4778899999998 89999999999999998844 4554
No 70
>TIGR01527 arch_NMN_Atrans nicotinamide-nucleotide adenylyltransferase. In some archaeal species, a lower-scoring paralog, uncharacterized with respect to activity, is also present. These score between trusted and noise cutoffs.
Probab=45.92 E-value=35 Score=25.07 Aligned_cols=57 Identities=14% Similarity=0.188 Sum_probs=38.0
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH----HHHHHHHHhhhccceeEEEeecCcc
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR----NAASTYNILNEEGRIVAAALLPYGV 124 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~----aAcrTyN~L~sEgR~VaaaLl~~~~ 124 (126)
..-|++|+++-|+ +...+.|++.|+.|+..+.. -.-..--.++.+|.. +.-|+|+.+
T Consensus 87 ~~~p~~D~vf~~~--------~~~~~~f~e~g~~v~~~p~~~r~~~S~T~IR~~i~~~~~-W~~lVP~~v 147 (165)
T TIGR01527 87 SMTPPFDVVYSNN--------PLVRRLFKEAGYEVKRPPMFNRKEYSGTEIRRRMLNGED-WEHLVPKAV 147 (165)
T ss_pred HhCCCCCEEEECC--------HHHHHHHHHcCCEEEECCCcCCCcccHHHHHHHHHcCCC-hhhhCCHHH
Confidence 3456899999883 77799999999999988721 111122334556666 777777654
No 71
>COG1878 Kynurenine formamidase [Amino acid transport and metabolism]
Probab=45.79 E-value=44 Score=25.85 Aligned_cols=70 Identities=13% Similarity=0.234 Sum_probs=47.4
Q ss_pred CCChhhhhchhhhCCCCcEEEEeecCCC------------CCCCHHHHHHHHHcCC---eEEEeChHHHHH----HHHHh
Q 033161 48 EITPNCLSIFQLVRPIPEILILGCGRYI------------EPVNPELRQFIRSTGM---KLEAIDSRNAAS----TYNIL 108 (126)
Q Consensus 48 ~i~~~~l~~l~~l~~~pevliiGTG~~~------------~~~~~~~~~~l~~~GI---~vE~m~T~aAcr----TyN~L 108 (126)
.++.++++.+... ...++|++=||-.. --++++..++|.++|+ +++.+++...-+ +...|
T Consensus 92 ~~~~~~~~a~~~~-~~g~~v~i~Tgw~~~~~~~~~f~~~~Pg~~~eaa~~L~e~~VkaVGiDt~s~d~~~~~~~~~H~~l 170 (218)
T COG1878 92 VITEDDIEAWDAE-HPGDIVLIRTGWSKRWGDEPAFQYHFPGISIEAAEYLIERGVKAVGIDTPSTDPGLSEDFPAHRLL 170 (218)
T ss_pred ccCHHHhhhhccc-CCccEEEEEccchhhcCCcchhhccCcccCHHHHHHHHHcCCeEEEecCCccCcccccchHHHHHH
Confidence 4666766653332 25799999999831 1267889999998765 567777776653 77788
Q ss_pred hhccceeEEE
Q 033161 109 NEEGRIVAAA 118 (126)
Q Consensus 109 ~sEgR~Vaaa 118 (126)
++.|+...--
T Consensus 171 L~~~~~i~E~ 180 (218)
T COG1878 171 LSAGILIVEN 180 (218)
T ss_pred HhCCCEEEEe
Confidence 8887655433
No 72
>TIGR02113 coaC_strep phosphopantothenoylcysteine decarboxylase, streptococcal. In most bacteria, a single bifunctional protein catalyses phosphopantothenoylcysteine decarboxylase and phosphopantothenate--cysteine ligase activities, sequential steps in coenzyme A biosynthesis (see TIGR00521). These activities reside in separate proteins encoded by tandem genes in some bacterial lineages. This model describes proteins from the genera Streptococcus and Enterococcus homologous to the N-terminal region of TIGR00521, corresponding to phosphopantothenoylcysteine decarboxylase activity.
Probab=45.73 E-value=14 Score=27.44 Aligned_cols=41 Identities=15% Similarity=0.192 Sum_probs=33.8
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 033161 66 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 106 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN 106 (126)
+++.-||.......+++.+.|++.|..|.+.-|++|.+...
T Consensus 3 I~lgvtGs~~a~~~~~ll~~L~~~g~~V~vi~T~~A~~fi~ 43 (177)
T TIGR02113 3 ILLAVTGSIAAYKAADLTSQLTKLGYDVTVLMTQAATQFIT 43 (177)
T ss_pred EEEEEcCHHHHHHHHHHHHHHHHCCCEEEEEEChHHHhhcc
Confidence 56667787755566788999999999999999999998766
No 73
>TIGR03855 NAD_NadX aspartate dehydrogenase. Members of this protein family are L-aspartate dehydrogenase, as shown for the NADP-dependent enzyme TM_1643 of Thermotoga maritima. Members lack homology to NadB, the aspartate oxidase (EC 1.4.3.16) of most mesophilic bacteria (described by TIGR00551), which this enzyme replaces in the generation of oxaloacetate from aspartate for the NAD biosynthetic pathway. All members of the seed alignment are found adjacent to other genes of NAD biosynthesis, although other uses of L-aspartate dehydrogenase may occur.
Probab=45.18 E-value=59 Score=25.12 Aligned_cols=37 Identities=14% Similarity=0.129 Sum_probs=28.9
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++.+++|.+++.|+... +.+....+-++|+.+-+|..
T Consensus 33 Ll~~~vDaVviatp~~~---H~e~a~~aL~aGkhVl~~s~ 69 (229)
T TIGR03855 33 FLPEDVDIVVEAASQEA---VKEYAEKILKNGKDLLIMSV 69 (229)
T ss_pred HhcCCCCEEEECCChHH---HHHHHHHHHHCCCCEEEECC
Confidence 34567999999998863 35777777788999999876
No 74
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=45.11 E-value=31 Score=20.10 Aligned_cols=30 Identities=17% Similarity=0.257 Sum_probs=22.5
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 033161 68 ILGCGRY-IEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 68 iiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++|.|.. ...+..++.+.|.+.||.+..+.
T Consensus 6 vvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~ 36 (66)
T cd04922 6 LVGDGMAGTPGVAATFFSALAKANVNIRAIA 36 (66)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEE
Confidence 5677765 34566778888999999998774
No 75
>TIGR01833 HMG-CoA-S_euk 3-hydroxy-3-methylglutaryl-CoA-synthase, eukaryotic clade. Hydroxymethylglutaryl(HMG)-CoA synthase is the first step of isopentenyl pyrophosphate (IPP) biosynthesis via the mevalonate pathway. This pathway is found mainly in eukaryotes, but also in archaea and some bacteria. This model is specific for eukaryotes.
Probab=45.05 E-value=63 Score=27.67 Aligned_cols=43 Identities=26% Similarity=0.250 Sum_probs=30.4
Q ss_pred CCcEEEEeecCCCCC-CCH--HHHHHHHHcCC-eEEEeChHHHHHHH
Q 033161 63 IPEILILGCGRYIEP-VNP--ELRQFIRSTGM-KLEAIDSRNAASTY 105 (126)
Q Consensus 63 ~pevliiGTG~~~~~-~~~--~~~~~l~~~GI-~vE~m~T~aAcrTy 105 (126)
.+|.||+||-..... ++. -+.+.|...|. ..+.+++.+||.-|
T Consensus 71 ~Id~Liv~TeS~~d~sps~a~~v~~lL~~lG~~~~~~fDi~~AC~G~ 117 (454)
T TIGR01833 71 QIGRLEVGTETIIDKSKSVKTVLMQLFEESGNTDVEGIDTTNACYGG 117 (454)
T ss_pred HCCEEEEECCCCCCCCCchHHHHHHHHHhcCCCCceEEeccccchhH
Confidence 578999999777432 222 23455555564 67899999999988
No 76
>cd04924 ACT_AK-Arch_2 ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). Included in this CD is the second of two ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). The first or N-terminal ACT domain of these proteins cluster with the ThrA-like ACT 1 domains (ACT_AKi-HSDH-ThrA-like_1) which includes the threonine-sensitive archaeal Methanococcus jannaschii aspartokinase ACT 1 domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=44.89 E-value=33 Score=19.97 Aligned_cols=30 Identities=17% Similarity=0.274 Sum_probs=21.7
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 033161 68 ILGCGRY-IEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 68 iiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++|.|.. ...+..++.+.|.+.||.++.+.
T Consensus 6 ivg~~~~~~~~~~~~i~~~L~~~~I~v~~i~ 36 (66)
T cd04924 6 VVGSGMRGTPGVAGRVFGALGKAGINVIMIS 36 (66)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEE
Confidence 5677765 33455678888889999988774
No 77
>cd00562 NifX_NifB This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=44.57 E-value=60 Score=20.71 Aligned_cols=39 Identities=10% Similarity=0.095 Sum_probs=29.7
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC----hHHHHHHH
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID----SRNAASTY 105 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~----T~aAcrTy 105 (126)
..++|+||.|. ..+.....|+++||.+-... ..+|.+.|
T Consensus 59 ~~~v~~vi~~~------iG~~a~~~l~~~gI~v~~~~~~~~v~eal~~~ 101 (102)
T cd00562 59 LEGCDAVLVGG------IGGPAAAKLEAAGIKPIKAAEGGTIEEALEAL 101 (102)
T ss_pred HCCCcEEEEcc------cCccHHHHHHHcCCEEEEcCCCCcHHHHHHhh
Confidence 46799999884 66788999999999987554 36666554
No 78
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=44.53 E-value=82 Score=22.18 Aligned_cols=41 Identities=17% Similarity=0.345 Sum_probs=32.5
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe---ChHHHHHHH
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI---DSRNAASTY 105 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m---~T~aAcrTy 105 (126)
+.+.++|+||.+- +.|...+.|+++||.+-.. +.+.|...|
T Consensus 61 l~~~gvdvvi~~~------iG~~a~~~l~~~GIkv~~~~~~~V~e~i~~~ 104 (121)
T COG1433 61 LVDEGVDVVIASN------IGPNAYNALKAAGIKVYVAPGGTVEEAIKAF 104 (121)
T ss_pred HHHcCCCEEEECc------cCHHHHHHHHHcCcEEEecCCCCHHHHHHHH
Confidence 4467899999864 7789999999999999876 556666655
No 79
>PRK05899 transketolase; Reviewed
Probab=44.10 E-value=13 Score=32.66 Aligned_cols=38 Identities=16% Similarity=0.427 Sum_probs=28.6
Q ss_pred hCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 60 VRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 60 l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
+...+|+.||++|... ...-+..+.|++.||.+++.+.
T Consensus 507 l~~G~dvtiia~G~~v-~~al~Aa~~L~~~gi~~~VId~ 544 (624)
T PRK05899 507 LRDDPDVILIATGSEV-HLALEAADELEAEGIKVRVVSM 544 (624)
T ss_pred EecCCCEEEEEeCHHH-HHHHHHHHHHHhcCCcEEEEEC
Confidence 4456899999999754 3344556678889999999854
No 80
>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=44.00 E-value=17 Score=22.71 Aligned_cols=22 Identities=9% Similarity=0.348 Sum_probs=16.8
Q ss_pred HHHHHHHHcCCeEEEeChHHHH
Q 033161 81 ELRQFIRSTGMKLEAIDSRNAA 102 (126)
Q Consensus 81 ~~~~~l~~~GI~vE~m~T~aAc 102 (126)
...+.|+++|+.+.+++|+...
T Consensus 16 ~~ek~lk~~gi~~~liP~P~~i 37 (73)
T PF11823_consen 16 KAEKLLKKNGIPVRLIPTPREI 37 (73)
T ss_pred HHHHHHHHCCCcEEEeCCChhc
Confidence 3456788888888888888664
No 81
>PF03345 DDOST_48kD: Oligosaccharyltransferase 48 kDa subunit beta; InterPro: IPR005013 During N-linked glycosylation of proteins, oligosaccharide chains are assembled on the carrier molecule dolichyl pyrophosphate in the following order: 2 molecules of N-acetylglucosamine (GlcNAc), 9 molecules of mannose, and 3 molecules of glucose. These 14-residue oligosaccharide cores are then transferred to asparagine residues on nascent polypeptide chains in the endoplasmic reticulum (ER). As proteins progress through the Golgi apparatus, the oligosaccharide cores are modified by trimming and extension to generate a diverse array of glycosylated proteins [, ]. The oligosaccharyl transferase complex (OST complex) 2.4.1.119 from EC transfers 14-sugar branched oligosaccharides from dolichyl pyrophosphate to asparagine residues []. The complex contains nine protein subunits: Ost1p, Ost2p, Ost3p, Ost4p, Ost5p, Ost6p, Stt3p, Swp1p, and Wbp1p, all of which are integral membrane proteins of the ER. The OST complex interacts with the Sec61p pore complex [] involved in protein import into the ER. This entry represents subunits OST3 and OST6. OST3 is homologous to OST6 [], and several lines of evidence indicate that they are alternative members of the OST complex. Disruption of both OST3 and OST6 causes severe underglycosylation of soluble and membrane-bound glycoproteins and a defect in the assembly of the complex. Hence, the function of these genes seems to be essential for recruiting a fully active complex necessary for efficient N-glycosylation []. This entry also includes the magnesium transporter protein 1, also known as OST3 homologue B, which might be involved in N-glycosylation through its association with the oligosaccharyl transferase (OST) complex. Wbp1p is the beta subunit of the OST complex, one of the original six subunits purified []. Wbp1 is essential [, ], but conditional mutants have decreased transferase activity [, ]. Wbp1p is homologous to mammalian OST48 [].; GO: 0004579 dolichyl-diphosphooligosaccharide-protein glycotransferase activity, 0018279 protein N-linked glycosylation via asparagine, 0005789 endoplasmic reticulum membrane
Probab=43.62 E-value=62 Score=27.56 Aligned_cols=72 Identities=17% Similarity=0.336 Sum_probs=46.9
Q ss_pred EEcCCcEEE--cCEEEeecEEEeCCccccCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCC
Q 033161 14 SFASKGFTV--NGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGM 91 (126)
Q Consensus 14 ~y~~g~~~I--~g~~y~g~vi~~~~~v~~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI 91 (126)
.+++..+.+ .|...-..+|++|-..... ...++...|- +.++.+=++++.+... .++..+++.+++.||
T Consensus 32 ~~~d~~l~L~~~ge~~YD~LIif~~~~k~~----g~~ls~~~ll--~Fvd~GgNilv~~s~~---~~~~~ir~~~~E~gi 102 (423)
T PF03345_consen 32 SADDESLSLFKYGERLYDHLIIFPPSVKEF----GGSLSPKTLL--DFVDNGGNILVAGSSD---AIPDSIREFANELGI 102 (423)
T ss_pred cCCCCCcchhhCChhhcceEEEeCCccccc----CCCCCHHHHH--HHHhCCCcEEEEeCCC---cCcHHHHHHHHHCCe
Confidence 344444443 2444444455554433222 2358888755 6778888999988766 589999999999988
Q ss_pred eEE
Q 033161 92 KLE 94 (126)
Q Consensus 92 ~vE 94 (126)
.++
T Consensus 103 ~~~ 105 (423)
T PF03345_consen 103 EFD 105 (423)
T ss_pred EEC
Confidence 774
No 82
>PRK10329 glutaredoxin-like protein; Provisional
Probab=43.48 E-value=28 Score=22.25 Aligned_cols=37 Identities=16% Similarity=0.243 Sum_probs=25.5
Q ss_pred CCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccc
Q 033161 77 PVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGR 113 (126)
Q Consensus 77 ~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR 113 (126)
.....++++|.++||.++..+..+-=..++.+...|+
T Consensus 12 p~C~~ak~~L~~~gI~~~~idi~~~~~~~~~~~~~g~ 48 (81)
T PRK10329 12 VQCHATKRAMESRGFDFEMINVDRVPEAAETLRAQGF 48 (81)
T ss_pred HhHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHcCC
Confidence 5667899999999999998866543333444444454
No 83
>PRK05261 putative phosphoketolase; Provisional
Probab=43.02 E-value=20 Score=32.95 Aligned_cols=36 Identities=11% Similarity=0.291 Sum_probs=29.1
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHc--CCeEEEeCh
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRST--GMKLEAIDS 98 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~--GI~vE~m~T 98 (126)
+||+++++||..+..-.-+..+.|+++ |+++-+.+.
T Consensus 613 ~pDvvL~atGsev~leAlaAa~~L~~~~pgikvRVVSv 650 (785)
T PRK05261 613 EPDVVLACAGDVPTLETLAAADLLREHFPDLKIRVVNV 650 (785)
T ss_pred CCCEEEEEeCcHhhHHHHHHHHHHHhhCCCCCEEEEEe
Confidence 599999999998755455667788888 998887765
No 84
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]
Probab=42.83 E-value=35 Score=28.24 Aligned_cols=52 Identities=15% Similarity=0.121 Sum_probs=40.5
Q ss_pred cEEEEeecCCC---CCCCHHHHHHHHH-cCCeEEEeChHHHHHHHHHhhhccceeE
Q 033161 65 EILILGCGRYI---EPVNPELRQFIRS-TGMKLEAIDSRNAASTYNILNEEGRIVA 116 (126)
Q Consensus 65 evliiGTG~~~---~~~~~~~~~~l~~-~GI~vE~m~T~aAcrTyN~L~sEgR~Va 116 (126)
+-|-++|=... --+-|++++.|++ .|+.|++..-+.+.+-+|.|.-||++--
T Consensus 26 ~~LtVytydSF~~ewg~Gp~vk~~FE~~~~~~v~fV~~~d~v~llnRl~leg~~~~ 81 (336)
T COG4143 26 PTLTVYTYDSFASEWGPGPKVKKAFEAEYGCKVNFVALGDGVELLNRLILEGKNPK 81 (336)
T ss_pred ceEEEEEEeeeecccCCcHHHHHHHHHHhCceEEEEEcCcHHHHHHHHHHcCCCCC
Confidence 34455554442 2466899888884 9999999999999999999999998543
No 85
>PRK12754 transketolase; Reviewed
Probab=42.64 E-value=12 Score=33.41 Aligned_cols=36 Identities=14% Similarity=0.332 Sum_probs=26.3
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
++|++||+||... ...-+..+.|++.||.+.+.+.+
T Consensus 549 ~~dv~iiatGs~v-~~Al~Aa~~L~~~Gi~~~Vvs~~ 584 (663)
T PRK12754 549 QPELIFIATGSEV-ELAVAAYEKLTAEGVKARVVSMP 584 (663)
T ss_pred CCCEEEEEECHHH-HHHHHHHHHHHhhCCCcEEEEcC
Confidence 3799999999743 23345566788899988887654
No 86
>PF07755 DUF1611: Protein of unknown function (DUF1611); InterPro: IPR011669 This entry contains a number of hypothetical bacterial and archaeal proteins. The region is approximately 350 residues long. A member of this family (Q6M063 from SWISSPROT) is thought to associate with another subunit to form an H+-transporting ATPase, but no evidence has been found to support this.; PDB: 2G0T_A 2OBN_A.
Probab=42.00 E-value=11 Score=30.56 Aligned_cols=39 Identities=18% Similarity=0.307 Sum_probs=31.0
Q ss_pred CCCcEEEEeecCCC--CCCCHHHHHHHHHcCCeEEEeChHH
Q 033161 62 PIPEILILGCGRYI--EPVNPELRQFIRSTGMKLEAIDSRN 100 (126)
Q Consensus 62 ~~pevliiGTG~~~--~~~~~~~~~~l~~~GI~vE~m~T~a 100 (126)
..+-++++||.... +...-++.+.++++|+...+..|++
T Consensus 111 ~~~rv~~vGTDcavGK~tTal~L~~~l~~~G~~a~fvaTGQ 151 (301)
T PF07755_consen 111 KAKRVLTVGTDCAVGKMTTALELRRALRERGINAGFVATGQ 151 (301)
T ss_dssp SSEEEEEEESSSSSSHHHHHHHHHHHHHHTT--EEEEE-SH
T ss_pred CCCEEEEEccCccccHHHHHHHHHHHHHHcCCCceEEecCC
Confidence 45789999999883 5677899999999999999998876
No 87
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=41.94 E-value=20 Score=26.74 Aligned_cols=42 Identities=14% Similarity=0.197 Sum_probs=34.1
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 033161 66 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 107 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~ 107 (126)
+++.-||.....-.+++.+.|++.|..|.+.-|++|.+-..-
T Consensus 4 Ill~vtGsiaa~~~~~li~~L~~~g~~V~vv~T~~A~~fi~~ 45 (182)
T PRK07313 4 ILLAVSGSIAAYKAADLTSQLTKRGYQVTVLMTKAATKFITP 45 (182)
T ss_pred EEEEEeChHHHHHHHHHHHHHHHCCCEEEEEEChhHHHHcCH
Confidence 667778877555578888999999999999999999887663
No 88
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=41.84 E-value=69 Score=20.50 Aligned_cols=39 Identities=18% Similarity=0.305 Sum_probs=29.1
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh---HHHHHHH
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS---RNAASTY 105 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T---~aAcrTy 105 (126)
..++++||.|. ..+...+.|+++||.+-..+. .+|...|
T Consensus 61 ~~~v~~vi~~~------iG~~~~~~l~~~gI~v~~~~~~~i~~vl~~~ 102 (103)
T cd00851 61 DEGVDVVIVGG------IGPRALNKLRNAGIKVYKGAEGTVEEAIEAL 102 (103)
T ss_pred HcCCCEEEeCC------CCcCHHHHHHHCCCEEEEcCCCCHHHHHHhh
Confidence 36799999873 667889999999999987654 4554443
No 89
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=41.75 E-value=29 Score=24.25 Aligned_cols=27 Identities=26% Similarity=0.475 Sum_probs=23.6
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHH
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRS 88 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~ 88 (126)
...|.||+|++-..-.+++.+++++++
T Consensus 42 ~~yD~vi~gspiy~g~~~~~~~~fi~~ 68 (143)
T PF12724_consen 42 SDYDAVIFGSPIYAGRIPGEMREFIKK 68 (143)
T ss_pred ccCCEEEEEEEEECCcCCHHHHHHHHH
Confidence 358999999999998999988888875
No 90
>PF03508 Connexin43: Gap junction alpha-1 protein (Cx43); InterPro: IPR013124 The connexins are a family of integral membrane proteins that oligomerise to form intercellular channels that are clustered at gap junctions. These channels are specialised sites of cell-cell contact that allow the passage of ions, intracellular metabolites and messenger molecules (with molecular weight less than 1-2kDa) from the cytoplasm of one cell to its opposing neighbours. They are found in almost all vertebrate cell types, and somewhat similar proteins have been cloned from plant species. Invertebrates utilise a different family of molecules, innexins, that share a similar predicted secondary structure to the vertebrate connexins, but have no sequence identity to them []. Vertebrate gap junction channels are thought to participate in diverse biological functions. For instance, in the heart they permit the rapid cell-cell transfer of action potentials, ensuring coordinated contraction of the cardiomyocytes. They are also responsible for neurotransmission at specialised 'electrical' synapses. In non-excitable tissues, such as the liver, they may allow metabolic cooperation between cells. In the brain, glial cells are extensively-coupled by gap junctions; this allows waves of intracellular Ca2+ to propagate through nervous tissue, and may contribute to their ability to spatially-buffer local changes in extracellular K+ concentration []. The connexin protein family is encoded by at least 13 genes in rodents, with many homologues cloned from other species. They show overlapping tissue expression patterns, most tissues expressing more than one connexin type. Their conductances, permeability to different molecules, phosphorylation and voltage-dependence of their gating, have been found to vary. Possible communication diversity is increased further by the fact that gap junctions may be formed by the association of different connexin isoforms from apposing cells. However, in vitro studies have shown that not all possible combinations of connexins produce active channels [, ]. Hydropathy analysis predicts that all cloned connexins share a common transmembrane (TM) topology. Each connexin is thought to contain 4 TM domains, with two extracellular and three cytoplasmic regions. This model has been validated for several of the family members by in vitro biochemical analysis. Both N- and C-termini are thought to face the cytoplasm, and the third TM domain has an amphipathic character, suggesting that it contributes to the lining of the formed-channel. Amino acid sequence identity between the isoforms is ~50-80%, with the TM domains being well conserved. Both extracellular loops contain characteristically conserved cysteine residues, which likely form intramolecular disulphide bonds. By contrast, the single putative intracellular loop (between TM domains 2 and 3) and the cytoplasmic C terminus are highly variable among the family members. Six connexins are thought to associate to form a hemi-channel, or connexon. Two connexons then interact (likely via the extracellular loops of their connexins) to form the complete gap junction channel. NH2-*** *** *************-COOH ** ** ** ** ** ** ** ** Cytoplasmic ---**----**-----**----**---------------- ** ** ** ** Membrane ** ** ** ** ---**----**-----**----**---------------- ** ** ** ** Extracellular ** ** ** ** ** ** Two sets of nomenclature have been used to identify the connexins. The first, and most commonly used, classifies the connexin molecules according to molecular weight, such as connexin43 (abbreviated to Cx43), indicating a connexin of molecular weight close to 43kDa. However, studies have revealed cases where clear functional homologues exist across species that have quite different molecular masses; therefore, an alternative nomenclature was proposed based on evolutionary considerations, which divides the family into two major subclasses, alpha and beta, each with a number of members []. Due to their ubiquity and overlapping tissue distributions, it has proved difficult to elucidate the functions of individual connexin isoforms. To circumvent this problem, particular connexin-encoding genes have been subjected to targeted-disruption in mice, and the phenotype of the resulting animals investigated. Around half the connexin isoforms have been investigated in this manner []. Further insight into the functional roles of connexins has come from the discovery that a number of human diseases are caused by mutations in connexin genes. For instance, mutations in Cx32 give rise to a form of inherited peripheral neuropathy called X-linked dominant Charcot-Marie-Tooth disease []. Similarly, mutations in Cx26 are responsible for both autosomal recessive and dominant forms of nonsyndromic deafness, a disorder characterised by hearing loss, with no apparent effects on other organ systems. Gap junction alpha-1 protein (also called connexin43, or Cx43) is a connexin of 381 amino acid residues (human isoform) that is widely expressed in several organs and cell types, and is the principal gap junction protein of the heart. Characterisation of genetically-engineered mice that lack Cx43, and also of human patients that have spontaneously-occurring mutations in the gene encoding it (GJA1), suggest Cx43 is essential for the development of normal cardiac architecture and ventricular conduction. Mice lacking Cx43 survive to term but die shortly after birth. They have cardiac malformations that lead to the obstruction of the pulmonary artery, leading to neonatal cyanosis, and subsequent death. This phenotype is reminiscent of some forms of stenosis of the pulmonary artery. Human subjects with visceroatrial heterotaxia (a heart disorder characterised by arterial defects), have been found to have points mutations in the Cx43-encoding gene, as a result of which a potential phosphorylation site within the C terminus is disrupted. Consequently, although these mutant Cx43 molecules still form functional gap junction channels, their response to protein kinase activation is impaired. This domain is found in the C-terminal region of these proteins.; PDB: 1R5S_A.
Probab=41.64 E-value=3.1 Score=20.14 Aligned_cols=13 Identities=31% Similarity=0.414 Sum_probs=5.0
Q ss_pred HHHHHHHHhhhcc
Q 033161 100 NAASTYNILNEEG 112 (126)
Q Consensus 100 aAcrTyN~L~sEg 112 (126)
..||.||.-++|.
T Consensus 4 ~scrnynkqa~eq 16 (20)
T PF03508_consen 4 NSCRNYNKQASEQ 16 (20)
T ss_dssp -SSSS----S-S-
T ss_pred chhhhhhhhhhhh
Confidence 4699999988875
No 91
>TIGR01421 gluta_reduc_1 glutathione-disulfide reductase, animal/bacterial. The tripeptide glutathione is an important reductant, e.g., for maintaining the cellular thiol/disulfide status and for protecting against reactive oxygen species such as hydrogen peroxide. Glutathione-disulfide reductase regenerates reduced glutathione from oxidized glutathione (glutathione disulfide) + NADPH. This model represents one of two closely related subfamilies of glutathione-disulfide reductase. Both are closely related to trypanothione reductase, and separate models are built so each of the three can describe proteins with conserved function. This model describes glutathione-disulfide reductases of animals, yeast, and a number of animal-resident bacteria.
Probab=41.42 E-value=1.4e+02 Score=24.94 Aligned_cols=75 Identities=19% Similarity=0.241 Sum_probs=38.3
Q ss_pred cCCcEEEcCEEEeecEEEeCCccccCCCCCCC--C--CChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCC
Q 033161 16 ASKGFTVNGVQYEGSLLCIGNLLLSWTPKKFS--E--ITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGM 91 (126)
Q Consensus 16 ~~g~~~I~g~~y~g~vi~~~~~v~~W~~~~~~--~--i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI 91 (126)
+++.+.++|+.+..+-++.-.+..++.+.... + ++.+++-. .-..+-.++|||.|.. .-++...|.+.|.
T Consensus 117 ~~~~v~v~~~~~~~d~vIiAtGs~p~~p~~i~g~~~~~~~~~~~~--~~~~~~~vvIIGgG~i----G~E~A~~l~~~g~ 190 (450)
T TIGR01421 117 KDGTVEVNGRDYTAPHILIATGGKPSFPENIPGAELGTDSDGFFA--LEELPKRVVIVGAGYI----AVELAGVLHGLGS 190 (450)
T ss_pred cCCEEEECCEEEEeCEEEEecCCCCCCCCCCCCCceeEcHHHhhC--ccccCCeEEEECCCHH----HHHHHHHHHHcCC
Confidence 45556778877877755443332222221111 1 23333322 1122347888888853 3355666666666
Q ss_pred eEEEe
Q 033161 92 KLEAI 96 (126)
Q Consensus 92 ~vE~m 96 (126)
.|.+.
T Consensus 191 ~Vtli 195 (450)
T TIGR01421 191 ETHLV 195 (450)
T ss_pred cEEEE
Confidence 66554
No 92
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=41.39 E-value=91 Score=22.62 Aligned_cols=37 Identities=11% Similarity=0.184 Sum_probs=24.7
Q ss_pred CCCCcEEEEeecCC-C-CCCCH--------HHHHHHHHcCCeEEEeC
Q 033161 61 RPIPEILILGCGRY-I-EPVNP--------ELRQFIRSTGMKLEAID 97 (126)
Q Consensus 61 ~~~pevliiGTG~~-~-~~~~~--------~~~~~l~~~GI~vE~m~ 97 (126)
..+||+|+|.-|.+ . ...++ .+.+.++++|..+-++.
T Consensus 69 ~~~pd~Vii~~GtND~~~~~~~~~~~~~l~~li~~~~~~~~~~ill~ 115 (191)
T PRK10528 69 QHQPRWVLVELGGNDGLRGFPPQQTEQTLRQIIQDVKAANAQPLLMQ 115 (191)
T ss_pred hcCCCEEEEEeccCcCccCCCHHHHHHHHHHHHHHHHHcCCCEEEEE
Confidence 35799999988888 3 33444 34555666687777763
No 93
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=41.13 E-value=15 Score=23.38 Aligned_cols=42 Identities=19% Similarity=0.271 Sum_probs=29.0
Q ss_pred EEEEeecC---CCCCCCHHHHHHHHHcCCeEEEe----ChHHHHHHHHH
Q 033161 66 ILILGCGR---YIEPVNPELRQFIRSTGMKLEAI----DSRNAASTYNI 107 (126)
Q Consensus 66 vliiGTG~---~~~~~~~~~~~~l~~~GI~vE~m----~T~aAcrTyN~ 107 (126)
+.|+-.|. .......++.+.|+++||.+++- +.+...+.++.
T Consensus 2 v~Ii~~~~~~~~~~~~a~~l~~~L~~~gi~v~~d~~~~~~~k~~~~a~~ 50 (94)
T PF03129_consen 2 VVIIPVGKKDEEIIEYAQELANKLRKAGIRVELDDSDKSLGKQIKYADK 50 (94)
T ss_dssp EEEEESSCSHHHHHHHHHHHHHHHHHTTSEEEEESSSSTHHHHHHHHHH
T ss_pred EEEEEeCCCcHHHHHHHHHHHHHHHHCCCEEEEECCCCchhHHHHHHhh
Confidence 45666666 45566788899999999999988 34444444443
No 94
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=40.89 E-value=29 Score=21.61 Aligned_cols=17 Identities=18% Similarity=0.538 Sum_probs=14.6
Q ss_pred HHHHHHHHHcCCeEEEe
Q 033161 80 PELRQFIRSTGMKLEAI 96 (126)
Q Consensus 80 ~~~~~~l~~~GI~vE~m 96 (126)
.+..++|+++|+.+|+.
T Consensus 60 ~~a~~~L~~~~v~vEvl 76 (76)
T PF09383_consen 60 EKAIAYLREQGVEVEVL 76 (76)
T ss_dssp HHHHHHHHHTTEEEEEE
T ss_pred HHHHHHHHHCCCeEEEC
Confidence 47788999999999974
No 95
>cd01149 HutB Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains.
Probab=40.77 E-value=63 Score=23.97 Aligned_cols=35 Identities=17% Similarity=0.324 Sum_probs=25.1
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++.-+||+|+. ++.. .+....+.|++.||.+-+++
T Consensus 54 i~~l~PDlIi~-~~~~---~~~~~~~~l~~~gipvv~~~ 88 (235)
T cd01149 54 VLSLKPTLVIA-SDEA---GPPEALDQLRAAGVPVVTVP 88 (235)
T ss_pred hhccCCCEEEE-cCCC---CCHHHHHHHHHcCCeEEEec
Confidence 44567999864 4432 34578899999999987764
No 96
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=40.57 E-value=27 Score=23.76 Aligned_cols=34 Identities=18% Similarity=0.282 Sum_probs=20.5
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
.+++|.++|-||..- --.+.+.++++|..|.++-
T Consensus 93 ~~~~d~ivLvSgD~D---f~~~v~~l~~~g~~V~v~~ 126 (146)
T PF01936_consen 93 ENPPDTIVLVSGDSD---FAPLVRKLRERGKRVIVVG 126 (146)
T ss_dssp -GG-SEEEEE---GG---GHHHHHHHHHH--EEEEEE
T ss_pred ccCCCEEEEEECcHH---HHHHHHHHHHcCCEEEEEE
Confidence 456799999999962 1256677889999999886
No 97
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=40.52 E-value=49 Score=24.67 Aligned_cols=50 Identities=10% Similarity=0.217 Sum_probs=32.5
Q ss_pred CCCCChhhhhchhhh-CCCCcEEEEeecCCC-CCCCHHHHHHHHHcCCeEEEeC
Q 033161 46 FSEITPNCLSIFQLV-RPIPEILILGCGRYI-EPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 46 ~~~i~~~~l~~l~~l-~~~pevliiGTG~~~-~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
..-++++.+.. .+ ..+-=++++|.|... ....+++++..++.||.+-...
T Consensus 19 a~~~~p~~aa~--lI~~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~ 70 (171)
T PRK00945 19 AKIVSPKIAAM--MIKKAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATG 70 (171)
T ss_pred ccccCHHHHHH--HHHhCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcc
Confidence 34456666553 33 223339999999876 4455668888888888776443
No 98
>PRK15020 ethanolamine utilization cobalamin adenosyltransferase; Provisional
Probab=40.34 E-value=39 Score=27.08 Aligned_cols=48 Identities=19% Similarity=0.231 Sum_probs=34.6
Q ss_pred CCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 48 EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 48 ~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
-||+++|..+.. ...++...|-.|. .+.|..+++|+++||.+..-+..
T Consensus 4 ~iTE~~LR~~~~-~~~~~~~~~~~g~---~lTPsAr~~L~~k~I~l~~~~~~ 51 (267)
T PRK15020 4 FITEAWLRANHT-LSEGAEIHLPADS---RLTPSARELLESRHLRIKFIDEQ 51 (267)
T ss_pred cccHHHHHHHhc-cCCCceEEeCCCC---EeChhHHHHHHhcCceEEecCcc
Confidence 367888775322 2336777776665 67899999999999999875443
No 99
>PRK09534 btuF corrinoid ABC transporter substrate-binding protein; Reviewed
Probab=40.21 E-value=57 Score=26.57 Aligned_cols=34 Identities=15% Similarity=0.240 Sum_probs=25.5
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++.-+||+||...+ .+.+..+.|++.||.|-..+
T Consensus 115 Il~l~PDLVi~~~~-----~~~~~~~~L~~~gi~V~~~~ 148 (359)
T PRK09534 115 VVGLDPDLVLAPNA-----VAGDTVTRLREAGITVFHFP 148 (359)
T ss_pred HhcCCCCEEEEcCC-----CchHHHHHHHHCCCeEEEeC
Confidence 55667999887532 23567899999999997764
No 100
>PF00590 TP_methylase: Tetrapyrrole (Corrin/Porphyrin) Methylases Note this Prosite entry does not include all members of this family.; InterPro: IPR000878 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including cobalamin (vitamin B12), haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. This entry represents several tetrapyrrole methylases, which consist of two non-similar domains. These enzymes catalyse the methylation of their substrates using S-adenosyl-L-methionine as a methyl source. Enzymes in this family include: Uroporphyrinogen III methyltransferase (2.1.1.107 from EC) (SUMT), which catalyses the conversion of uroporphyrinogen III to precorrin-2 at the first branch-point of the tetrapyrrole synthesis pathway, directing the pathway towards cobalamin or sirohaem synthesis []. Precorrin-2 C20-methyltransferase CobI/CbiL (2.1.1.130 from EC), which introduces a methyl group at C-20 on precorrin-2 to produce precorrin-3A during cobalamin biosynthesis. This reaction is key to the conversion of a porphyrin-type tetrapyrrole ring to a corrin ring []. In some species, this enzyme is part of a bifunctional protein. Precorrin-4 C11-methyltransferase CobM/CbiF (2.1.1.133 from EC), which introduces a methyl group at C-11 on precorrin-4 to produce precorrin-5 during cobalamin biosynthesis []. Sirohaem synthase CysG (2.1.1.107 from EC), domains 4 and 5, which synthesizes sirohaem from uroporphyrinogen III, at the first branch-point in the tetrapyrrole biosynthetic pathway, directing the pathway towards sirohaem synthesis []. Diphthine synthase (2.1.1.98 from EC), which carries out the methylation step during the modification of a specific histidine residue of elongation factor 2 (EF-2) during diphthine synthesis. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 2ZVC_A 2ZVB_A 1WDE_A 3ND1_A 2E0K_A 2E0N_B 1VA0_B 1V9A_A 3I4T_A 3NDC_B ....
Probab=39.90 E-value=93 Score=22.56 Aligned_cols=62 Identities=18% Similarity=0.236 Sum_probs=42.5
Q ss_pred hhhCCCCcEEEEeecCCCCC-CCHHHHHHHHH--cCCeEEEeC----hHHHHHHHHHhhhccceeEEEe
Q 033161 58 QLVRPIPEILILGCGRYIEP-VNPELRQFIRS--TGMKLEAID----SRNAASTYNILNEEGRIVAAAL 119 (126)
Q Consensus 58 ~~l~~~pevliiGTG~~~~~-~~~~~~~~l~~--~GI~vE~m~----T~aAcrTyN~L~sEgR~VaaaL 119 (126)
+.+...-+++++-+|....+ ....+.+.+++ .|+.+|+.+ -.+||...++-...+..+....
T Consensus 71 ~~~~~g~~V~~l~~GDP~~~~~~~~l~~~l~~~~~gi~v~iiPGiSs~~~a~a~~g~~~~~~~~~~~~~ 139 (210)
T PF00590_consen 71 EAAKEGKDVVVLVSGDPLFFSTGSYLVRALRAEERGIEVEIIPGISSFQAAAARLGIPLTDGGFISLHG 139 (210)
T ss_dssp HHHHTTSEEEEEESBSTTSSSSHHHHHHHHHHHHTTCEEEEE--TTHHHHHHHHCTSTSSBTTTBEEEE
T ss_pred HHHhccCCEEEeCCCCCCcccHHHHHHHHHHhhcCCCceEEEecCcHHHHHHHHHcCCcccCcEEEEEE
Confidence 34445567999999999654 55788888998 999999984 3455566666555555444433
No 101
>COG0021 TktA Transketolase [Carbohydrate transport and metabolism]
Probab=39.46 E-value=18 Score=32.44 Aligned_cols=36 Identities=14% Similarity=0.404 Sum_probs=28.2
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
+||++||+||... .+.-+..+.|.+.|+.+-+.+.+
T Consensus 548 ~pd~iliAtGSEV-~lAv~Aa~~L~~~~~~vrVVS~P 583 (663)
T COG0021 548 DPDVILIATGSEV-ELAVEAAKELEAEGIKVRVVSMP 583 (663)
T ss_pred CCCEEEEecccHH-HHHHHHHHHHHhcCCceEEEecc
Confidence 6999999999985 35556778888888887777654
No 102
>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=39.46 E-value=77 Score=24.55 Aligned_cols=34 Identities=9% Similarity=0.222 Sum_probs=25.0
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++.-+||+||...+ .+++..+.|++.||.|-+.+
T Consensus 87 I~al~PDlIi~~~~-----~~~~~~~~l~~~gi~v~~~~ 120 (289)
T TIGR03659 87 IKSLKPTVVLSVTT-----LEEDLGPKFKQLGVEATFLN 120 (289)
T ss_pred HhccCCcEEEEcCc-----ccHHHHHHHHHcCCcEEEEc
Confidence 45567999986422 34677899999999987664
No 103
>cd04912 ACT_AKiii-LysC-EC-like_1 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII. This CD includes the first of two ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in bacteria (Escherichia coli (EC) LysC) and plants, (Zea mays Ask1, Ask2, and Arabidopsis thaliana AK1). Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Like the A. thaliana AK1 (AK1-AT), the E. coli AKIII (LysC) has two bound feedback allosteric inhibitor lysine molecules at the dimer interface located between the ACT1 domain of two subunits. The lysine-sensitive plant isoenzyme is synergistically inhibited by S-adenosylmethionine. A homolog of this group appears to be the Saccharomyces cerevisiae AK (Hom3) which clusters with this group as well. Members of this CD
Probab=38.73 E-value=31 Score=21.45 Aligned_cols=32 Identities=9% Similarity=0.115 Sum_probs=21.0
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeChH
Q 033161 68 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 68 iiGTG~~~-~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
+.|.|... ..+-.++.+.|.++||.++.+.+.
T Consensus 6 i~g~~l~~~~g~~~~if~~L~~~~I~v~~i~~s 38 (75)
T cd04912 6 IKSNRMLGAHGFLAKVFEIFAKHGLSVDLISTS 38 (75)
T ss_pred EEcCCCCCCccHHHHHHHHHHHcCCeEEEEEcC
Confidence 44555542 345567777888888888888653
No 104
>PLN02577 hydroxymethylglutaryl-CoA synthase
Probab=38.43 E-value=63 Score=27.74 Aligned_cols=43 Identities=26% Similarity=0.283 Sum_probs=29.6
Q ss_pred CCcEEEEeecCCCC-CCCHH--HHHHHHHcCC-eEEEeChHHHHHHH
Q 033161 63 IPEILILGCGRYIE-PVNPE--LRQFIRSTGM-KLEAIDSRNAASTY 105 (126)
Q Consensus 63 ~pevliiGTG~~~~-~~~~~--~~~~l~~~GI-~vE~m~T~aAcrTy 105 (126)
.+|.||+||..... .++.. +...+...|. .+..++..+||.-|
T Consensus 74 ~IdllivaTeT~~d~~ps~A~~v~~ll~~LG~~~~~afDi~~AC~G~ 120 (459)
T PLN02577 74 QIGRLEVGSETVIDKSKSIKTFLMQLFEESGNTDIEGVDSTNACYGG 120 (459)
T ss_pred HCCEEEEEcCCCCCCCCchHHHHHHHHHHhCCCCcEEeehhhhhHHH
Confidence 58899999988844 33322 2334456554 46889999999866
No 105
>PRK09212 pyruvate dehydrogenase subunit beta; Validated
Probab=38.27 E-value=18 Score=29.36 Aligned_cols=38 Identities=18% Similarity=0.396 Sum_probs=28.1
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++....|++||++|.... ...+..+.|++.||.+++++
T Consensus 197 vl~~G~di~iva~G~~~~-~a~eAa~~L~~~Gi~v~vi~ 234 (327)
T PRK09212 197 ILREGSDVTIVTFSIQVK-LALEAAELLEKEGISVEVID 234 (327)
T ss_pred EEEeCCCEEEEEccHHHH-HHHHHHHHHHhcCCcEEEEE
Confidence 445678999999998753 23445566788999999874
No 106
>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=37.85 E-value=58 Score=24.38 Aligned_cols=36 Identities=14% Similarity=0.230 Sum_probs=23.8
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHH-cCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRS-TGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~-~GI~vE~m~T 98 (126)
++.-+||+||...+... .+..+.+++ .|+.+-.+++
T Consensus 70 i~~l~PDLIi~~~~~~~----~~~~~~l~~~~gipvv~~~~ 106 (262)
T cd01147 70 IAALKPDVVIDVGSDDP----TSIADDLQKKTGIPVVVLDG 106 (262)
T ss_pred HHhcCCCEEEEecCCcc----chhHHHHHHhhCCCEEEEec
Confidence 45667999987654321 146666665 8999877764
No 107
>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]
Probab=37.84 E-value=79 Score=23.12 Aligned_cols=50 Identities=22% Similarity=0.212 Sum_probs=36.7
Q ss_pred cEEEEeecCCCC---CCCHHHHHHHHHcCC---eEEEeChHHHHHHHHHhhhccce
Q 033161 65 EILILGCGRYIE---PVNPELRQFIRSTGM---KLEAIDSRNAASTYNILNEEGRI 114 (126)
Q Consensus 65 evliiGTG~~~~---~~~~~~~~~l~~~GI---~vE~m~T~aAcrTyN~L~sEgR~ 114 (126)
.++|+|.|+..+ -+-..+.+.|++++- .|++++..++---+=..+....+
T Consensus 3 ~ilIlG~GN~L~~DDG~Gv~vae~L~~~~~~~~~v~vid~Gt~~~~l~~~l~~~d~ 58 (160)
T COG0680 3 RILILGVGNILMGDDGFGVRVAEKLKKRYKPPENVEVIDGGTAGPNLLGLLAGYDP 58 (160)
T ss_pred eEEEEeeCCcccccCcccHHHHHHHHHhcCCCCCeEEEEcCCCcHHHHHHhcCCCc
Confidence 579999999975 477888888888765 57788888776666555544343
No 108
>cd04919 ACT_AK-Hom3_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydrodynamic size. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=37.55 E-value=62 Score=18.91 Aligned_cols=30 Identities=10% Similarity=0.113 Sum_probs=21.4
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeC
Q 033161 68 ILGCGRYI-EPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 68 iiGTG~~~-~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++|+|... ...-.++.+.|.+.||.++.+.
T Consensus 6 vvg~~~~~~~~~~~~if~~L~~~~I~v~~i~ 36 (66)
T cd04919 6 LVGKHMKNMIGIAGRMFTTLADHRINIEMIS 36 (66)
T ss_pred EECCCCCCCcCHHHHHHHHHHHCCCCEEEEE
Confidence 56777763 3455678888888999887664
No 109
>PRK06116 glutathione reductase; Validated
Probab=37.38 E-value=1.6e+02 Score=24.38 Aligned_cols=75 Identities=19% Similarity=0.232 Sum_probs=38.1
Q ss_pred cCCcEEEcCEEEeecEEEeCCccc-cCCC-CCCC-CCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCe
Q 033161 16 ASKGFTVNGVQYEGSLLCIGNLLL-SWTP-KKFS-EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMK 92 (126)
Q Consensus 16 ~~g~~~I~g~~y~g~vi~~~~~v~-~W~~-~~~~-~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~ 92 (126)
+...+.++|+.+..+-++.-.+.. .++. +..+ -++.+++ +..-..+-.++|+|.|.. .-++...|.+.|..
T Consensus 119 ~~~~v~~~g~~~~~d~lViATGs~p~~p~i~g~~~~~~~~~~--~~~~~~~~~vvViGgG~~----g~E~A~~l~~~g~~ 192 (450)
T PRK06116 119 DAHTVEVNGERYTADHILIATGGRPSIPDIPGAEYGITSDGF--FALEELPKRVAVVGAGYI----AVEFAGVLNGLGSE 192 (450)
T ss_pred cCCEEEECCEEEEeCEEEEecCCCCCCCCCCCcceeEchhHh--hCccccCCeEEEECCCHH----HHHHHHHHHHcCCe
Confidence 445667778778777555433322 2221 1111 1122221 112122346889998854 33556667777777
Q ss_pred EEEe
Q 033161 93 LEAI 96 (126)
Q Consensus 93 vE~m 96 (126)
|.+.
T Consensus 193 Vtlv 196 (450)
T PRK06116 193 THLF 196 (450)
T ss_pred EEEE
Confidence 6654
No 110
>COG3962 Acetolactate synthase [Amino acid transport and metabolism]
Probab=37.29 E-value=17 Score=31.84 Aligned_cols=70 Identities=13% Similarity=0.159 Sum_probs=42.0
Q ss_pred CEEEeecEEEeCCccccCCCCCCCCCChhhhhchhhhC-CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEE
Q 033161 24 GVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVR-PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEA 95 (126)
Q Consensus 24 g~~y~g~vi~~~~~v~~W~~~~~~~i~~~~l~~l~~l~-~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~ 95 (126)
+.-|..+.-.|...++-|.++.++.-..++.. ++++ .+=-+||.|-|.....-..+++++.+.+||.|-.
T Consensus 192 ~eA~Dyp~~FF~~rv~~~rR~~Pd~~eL~~A~--~lik~ak~PlIvaGGGv~YS~A~~~L~af~E~~~iPv~E 262 (617)
T COG3962 192 AEAYDYPESFFEKRVWRIRRPPPDERELADAA--ALIKSAKKPLIVAGGGVLYSGAREALRAFAETHGIPVVE 262 (617)
T ss_pred hhhcCCcHHhhhhhhhhccCCCCCHHHHHHHH--HHHHhcCCCEEEecCceeechHHHHHHHHHHhcCCceEe
Confidence 33444444444444544444444333222222 3332 2344888898888888999999999999998754
No 111
>PRK05920 aromatic acid decarboxylase; Validated
Probab=37.05 E-value=36 Score=26.00 Aligned_cols=43 Identities=12% Similarity=0.056 Sum_probs=34.2
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHh
Q 033161 66 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNIL 108 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L 108 (126)
+++-=||.--..-..++.+.|.+.|..|.+.-|++|++.+..+
T Consensus 6 IllgITGsiaa~ka~~lvr~L~~~g~~V~vi~T~~A~~fv~~~ 48 (204)
T PRK05920 6 IVLAITGASGAIYGVRLLECLLAADYEVHLVISKAAQKVLATE 48 (204)
T ss_pred EEEEEeCHHHHHHHHHHHHHHHHCCCEEEEEEChhHHHHHHHH
Confidence 4555566665567788888999999999999999999977654
No 112
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=36.73 E-value=19 Score=23.86 Aligned_cols=32 Identities=13% Similarity=0.190 Sum_probs=23.6
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 67 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 67 liiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++=|+|.....+-.++++.++++|+.+++-.+
T Consensus 4 ~~Cg~G~sTS~~~~ki~~~~~~~~~~~~v~~~ 35 (96)
T cd05564 4 LVCSAGMSTSILVKKMKKAAEKRGIDAEIEAV 35 (96)
T ss_pred EEcCCCchHHHHHHHHHHHHHHCCCceEEEEe
Confidence 45567776445677999999999997766533
No 113
>TIGR02194 GlrX_NrdH Glutaredoxin-like protein NrdH. NrdH-redoxin is a representative of a class of small redox proteins that contain a conserved CXXC motif and are characterized by a glutaredoxin-like amino acid sequence and thioredoxin-like activity profile. Unlike other the glutaredoxins to which it is most closely related, NrdH aparrently does not interact with glutathione/glutathione reductase, but rather with thioredoxin reductase to catalyze the reduction of ribonucleotide reductase.
Probab=36.23 E-value=48 Score=20.13 Aligned_cols=37 Identities=11% Similarity=0.224 Sum_probs=24.6
Q ss_pred CCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccc
Q 033161 77 PVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGR 113 (126)
Q Consensus 77 ~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR 113 (126)
.....++++|.++|+.++..+...--..+..+..-|+
T Consensus 10 p~C~~ak~~L~~~~i~~~~~di~~~~~~~~~~~~~g~ 46 (72)
T TIGR02194 10 VQCKMTKKALEEHGIAFEEINIDEQPEAIDYVKAQGF 46 (72)
T ss_pred HHHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHcCC
Confidence 4567889999999999999865433333444433353
No 114
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=35.92 E-value=1.1e+02 Score=20.13 Aligned_cols=46 Identities=17% Similarity=0.121 Sum_probs=33.5
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHH
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTY 105 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTy 105 (126)
.+.....++++|+|... .....+...|+..|..++..+.......+
T Consensus 9 ~i~~~~~i~i~g~g~s~-~~a~~~~~~l~~~~~~~~~~~~~~~~~~~ 54 (139)
T cd05013 9 LLAKARRIYIFGVGSSG-LVAEYLAYKLLRLGKPVVLLSDPHLQLMS 54 (139)
T ss_pred HHHhCCEEEEEEcCchH-HHHHHHHHHHHHcCCceEEecCHHHHHHH
Confidence 44455789999999753 46677788889999999988665544433
No 115
>PRK12753 transketolase; Reviewed
Probab=35.87 E-value=21 Score=31.89 Aligned_cols=35 Identities=11% Similarity=0.413 Sum_probs=25.8
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++|++|++||.... ..-+..+.|++.||.+.+.+.
T Consensus 549 ~~dv~iia~Gs~v~-~al~Aa~~L~~~gi~~~Vv~~ 583 (663)
T PRK12753 549 KPDLILIATGSEVE-ITLQAAEKLTAEGRNVRVVSM 583 (663)
T ss_pred CCCEEEEEeCHHHH-HHHHHHHHHHhcCCCcEEEEC
Confidence 47999999997542 233566788889998887743
No 116
>PF10865 DUF2703: Domain of unknown function (DUF2703); InterPro: IPR021219 This family of protein has no known function.
Probab=35.86 E-value=9 Score=27.04 Aligned_cols=36 Identities=17% Similarity=0.279 Sum_probs=28.7
Q ss_pred eecCCCCCCCHHHHHHHHHcCCeEEE----eChHHHHHHH
Q 033161 70 GCGRYIEPVNPELRQFIRSTGMKLEA----IDSRNAASTY 105 (126)
Q Consensus 70 GTG~~~~~~~~~~~~~l~~~GI~vE~----m~T~aAcrTy 105 (126)
+||..+...-.+++..|+..||.+++ |++.+-.+.|
T Consensus 20 ~Tg~~L~~av~~l~~~L~~~Giev~l~~~~l~~~~~~~~~ 59 (120)
T PF10865_consen 20 DTGETLREAVKELAPVLAPLGIEVRLEEIELDEEEFARQP 59 (120)
T ss_pred hHHHHHHHHHHHHHHHHHhCCcEEEEEEEECChHHHhhcc
Confidence 57787778888999999999999976 5666666666
No 117
>TIGR00762 DegV EDD domain protein, DegV family. This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each than to most homologs from other species. This suggests both recent paralogy and diversity of function. DegV itself is encoded immediately downstream of DegU, a transcriptional regulator of degradation, but is itself uncharacterized. Crystallography suggested a lipid-binding site, while comparison of the crystal structure to dihydroxyacetone kinase and to a mannose transporter EIIA domain suggests a conserved domain, EDD, with phosphotransferase activity.
Probab=35.83 E-value=61 Score=25.32 Aligned_cols=93 Identities=17% Similarity=0.158 Sum_probs=55.8
Q ss_pred cEEEcCEEEeecEEEeCCccccCC-----CCCCCCCChhhhhc-hhh-hCCCCcEEEEeecCCCCCCCHHHHHHHHHc-C
Q 033161 19 GFTVNGVQYEGSLLCIGNLLLSWT-----PKKFSEITPNCLSI-FQL-VRPIPEILILGCGRYIEPVNPELRQFIRST-G 90 (126)
Q Consensus 19 ~~~I~g~~y~g~vi~~~~~v~~W~-----~~~~~~i~~~~l~~-l~~-l~~~pevliiGTG~~~~~~~~~~~~~l~~~-G 90 (126)
.+.++|+.|....=+.++..+.+- ....+..+.+++.. ++- .+..-+++.+.-....--.-...+.+-+.. +
T Consensus 27 ~I~~~~~~y~D~~~i~~~~~y~~~~~~~~~p~TS~ps~~~~~~~~~~l~~~~~~vi~i~iSs~lSgty~~a~~aa~~~~~ 106 (275)
T TIGR00762 27 TVIIDGKTYRDGVDITPEEFYEKLKESKELPKTSQPSPGEFLELYEKLLEEGDEVLSIHLSSGLSGTYQSARQAAEMVDE 106 (275)
T ss_pred EEEECCEEeecCCCCCHHHHHHHHHhcCCCCCcCCCCHHHHHHHHHHHHhCCCeEEEEEcCCchhHHHHHHHHHHhhCCC
Confidence 466789999876545555444322 11344566666662 222 223347888887776543334444444443 5
Q ss_pred CeEEEeChHHHHHHHHHhhhc
Q 033161 91 MKLEAIDSRNAASTYNILNEE 111 (126)
Q Consensus 91 I~vE~m~T~aAcrTyN~L~sE 111 (126)
+.+.++||..++--.-.++-+
T Consensus 107 ~~i~ViDS~~~s~~~g~~v~~ 127 (275)
T TIGR00762 107 AKVTVIDSKSASMGLGLLVLE 127 (275)
T ss_pred CCEEEECChHHHHHHHHHHHH
Confidence 789999999999877766544
No 118
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain 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. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=35.69 E-value=74 Score=19.71 Aligned_cols=35 Identities=11% Similarity=0.107 Sum_probs=22.9
Q ss_pred CcEEEEeecC---CCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 64 PEILILGCGR---YIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 64 pevliiGTG~---~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
.+++|+..+. .......++.+.|++.|+.+++-..
T Consensus 2 ~~v~ii~~~~~~~~~~~~a~~~~~~Lr~~g~~v~~~~~ 39 (94)
T cd00738 2 IDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDDR 39 (94)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHHHHHCCCEEEecCC
Confidence 4567776665 3333444567788889999987543
No 119
>TIGR02964 xanthine_xdhC xanthine dehydrogenase accessory protein XdhC. Members of this protein family are the accessory protein XdhC for insertion of the molybdenum cofactor into the xanthine dehydrogenase large chain, XdhB, in bacteria. This protein is not part of the mature xanthine dehydrogenase. Xanthine dehydrogenase is an enzyme for purine catabolism, from other purines to xanthine to urate to further breakdown products.
Probab=35.46 E-value=34 Score=26.67 Aligned_cols=39 Identities=23% Similarity=0.449 Sum_probs=32.7
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 101 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aA 101 (126)
.+.|+|.++|+|-|.- ...+.+..+..|..|.+.|...+
T Consensus 96 ~~~p~~~L~IfGaG~v----a~~la~la~~lGf~V~v~D~R~~ 134 (246)
T TIGR02964 96 EAPPAPHVVLFGAGHV----GRALVRALAPLPCRVTWVDSREA 134 (246)
T ss_pred ccCCCCEEEEECCcHH----HHHHHHHHhcCCCEEEEEeCCcc
Confidence 3468899999999974 45788889999999999987765
No 120
>COG4015 Predicted dinucleotide-utilizing enzyme of the ThiF/HesA family [General function prediction only]
Probab=35.36 E-value=37 Score=25.82 Aligned_cols=60 Identities=17% Similarity=0.302 Sum_probs=32.6
Q ss_pred ecEEEeCCccccCCCCCCCCCChhhhh---chhhh-CCCCcEEEEeecCCCC---CCCHHHHHHHHH
Q 033161 29 GSLLCIGNLLLSWTPKKFSEITPNCLS---IFQLV-RPIPEILILGCGRYIE---PVNPELRQFIRS 88 (126)
Q Consensus 29 g~vi~~~~~v~~W~~~~~~~i~~~~l~---~l~~l-~~~pevliiGTG~~~~---~~~~~~~~~l~~ 88 (126)
|+.-+..+++|-.......-++.++.+ .+..+ +..||-+++|||+..+ +.+|=+.+...+
T Consensus 134 G~~TisT~GVFGigeEev~v~~~eeA~gP~~~~lldeg~~dHilVgTgk~IRD~ePitPyvLdrva~ 200 (217)
T COG4015 134 GIKTISTNGVFGIGEEEVKVCDAEEAKGPAKFLLLDEGGPDHILVGTGKFIRDFEPITPYVLDRVAK 200 (217)
T ss_pred CceEeecCceeecchhheEEeehhhcCccHHHHHHhcCCCceEEEecCccccCCCCCChhHHHHHHH
Confidence 444455555655543332223323222 11233 4578999999999965 455656555543
No 121
>cd00165 S4 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized functional similarity between these three protein classes.
Probab=34.88 E-value=63 Score=18.34 Aligned_cols=27 Identities=15% Similarity=0.012 Sum_probs=16.5
Q ss_pred EcCCcEEEcCEEE-eecEEEeCCccccC
Q 033161 15 FASKGFTVNGVQY-EGSLLCIGNLLLSW 41 (126)
Q Consensus 15 y~~g~~~I~g~~y-~g~vi~~~~~v~~W 41 (126)
...|++.|||+.. ..+..+.++....+
T Consensus 23 i~~g~V~vn~~~~~~~~~~v~~~d~i~i 50 (70)
T cd00165 23 IKHGHVLVNGKVVTKPSYKVKPGDVIEV 50 (70)
T ss_pred HHcCCEEECCEEccCCccCcCCCCEEEE
Confidence 3578999999887 43444444443333
No 122
>COG4821 Uncharacterized protein containing SIS (Sugar ISomerase) phosphosugar binding domain [General function prediction only]
Probab=34.77 E-value=61 Score=25.40 Aligned_cols=39 Identities=26% Similarity=0.370 Sum_probs=29.9
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 102 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAc 102 (126)
=|++++=.-...-.+|-++.++.+++|..|..|++-++-
T Consensus 105 ~DVliviSnSGrNpvpie~A~~~rekGa~vI~vTSl~yS 143 (243)
T COG4821 105 NDVLIVISNSGRNPVPIEVAEYAREKGAKVIAVTSLDYS 143 (243)
T ss_pred CCEEEEEeCCCCCCcchHHHHHHHhcCCeEEEEehhhhh
Confidence 466666554556678899999999999999999765443
No 123
>COG4558 ChuT ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=34.66 E-value=62 Score=26.42 Aligned_cols=44 Identities=11% Similarity=0.285 Sum_probs=32.4
Q ss_pred CCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 46 FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 46 ~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
.+.++.|= ++.-+||.||.--|. =|+++.+.|++.||.+..|+.
T Consensus 87 ~r~LaaEG-----ILslkPdlvi~~~~a----GP~~vl~qLraagV~vv~v~~ 130 (300)
T COG4558 87 MRQLAAEG-----ILSLKPDLVIGSEGA----GPATVLDQLRAAGVPVVTVPE 130 (300)
T ss_pred hhhcCccc-----ceecCCCEEEeeccc----CcHHHHHHHHHcCCcEEEcCC
Confidence 34555552 556679988866553 345899999999999999964
No 124
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=34.30 E-value=1.1e+02 Score=22.34 Aligned_cols=51 Identities=8% Similarity=0.208 Sum_probs=32.7
Q ss_pred CCCChhhhhchhhh-CCCCcEEEEeecCCC---CCCC-HHHHHHHHHcCCeEEEeCh
Q 033161 47 SEITPNCLSIFQLV-RPIPEILILGCGRYI---EPVN-PELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 47 ~~i~~~~l~~l~~l-~~~pevliiGTG~~~---~~~~-~~~~~~l~~~GI~vE~m~T 98 (126)
..++++++-. .++ ..+|+.+++|.--.. ..-. ..++++++++|+.+++.+-
T Consensus 83 ~~~s~~~Fi~-~il~~~~~~~ivvG~Df~FG~~~~g~~~~L~~~~~~~g~~v~~v~~ 138 (180)
T cd02064 83 ASLSAEEFVE-DLLVKLNAKHVVVGFDFRFGKGRSGDAELLKELGKKYGFEVTVVPP 138 (180)
T ss_pred HcCCHHHHHH-HHHhhcCCeEEEEccCCCCCCCCCCCHHHHHHhhhhcCcEEEEeCc
Confidence 4466666542 123 227999999986552 2223 4567788899999988753
No 125
>cd04916 ACT_AKiii-YclM-BS_2 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. B. subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from B. subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=34.07 E-value=55 Score=18.98 Aligned_cols=31 Identities=16% Similarity=0.324 Sum_probs=21.5
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 68 ILGCGRY-IEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 68 iiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++|.|.. ...+..++.+.|.+.||.++.+..
T Consensus 6 ivg~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 37 (66)
T cd04916 6 VVGEGMKNTVGVSARATAALAKAGINIRMINQ 37 (66)
T ss_pred EEcCCCCCCccHHHHHHHHHHHCCCCEEEEEe
Confidence 5676665 334556678888888998887753
No 126
>COG2072 TrkA Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]
Probab=33.95 E-value=37 Score=28.57 Aligned_cols=35 Identities=14% Similarity=0.294 Sum_probs=27.6
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCe-EEEeChH
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMK-LEAIDSR 99 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~-vE~m~T~ 99 (126)
...+|++|||.|..-+ .+...|++.|+. +.+..-.
T Consensus 6 ~~~~~v~IIGaG~sGl----aaa~~L~~~g~~~~~i~Ek~ 41 (443)
T COG2072 6 ATHTDVAIIGAGQSGL----AAAYALKQAGVPDFVIFEKR 41 (443)
T ss_pred CCcccEEEECCCHHHH----HHHHHHHHcCCCcEEEEEcc
Confidence 3568999999999843 678899999999 7776433
No 127
>PRK12571 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
Probab=33.95 E-value=24 Score=31.40 Aligned_cols=40 Identities=20% Similarity=0.412 Sum_probs=30.4
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
++..+.|+.|+++|.... ..-+..+.|++.||.+++.+..
T Consensus 500 vlr~G~ditIva~G~~v~-~aleAa~~L~~~Gi~v~VId~~ 539 (641)
T PRK12571 500 VPREGPDVAILSVGAHLH-ECLDAADLLEAEGISVTVADPR 539 (641)
T ss_pred EEecCCCEEEEEecHHHH-HHHHHHHHHHhcCCCEEEEEcC
Confidence 445578999999998643 4456667788999999998663
No 128
>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=33.78 E-value=20 Score=23.87 Aligned_cols=33 Identities=9% Similarity=0.160 Sum_probs=24.2
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 67 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 67 liiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
++=|+|.....+-.++++.++++|+.+++-.++
T Consensus 8 l~C~~G~sSS~l~~k~~~~~~~~gi~~~v~a~~ 40 (95)
T TIGR00853 8 LLCAAGMSTSLLVNKMNKAAEEYGVPVKIAAGS 40 (95)
T ss_pred EECCCchhHHHHHHHHHHHHHHCCCcEEEEEec
Confidence 445666664456689999999999988776444
No 129
>PF04252 RNA_Me_trans: Predicted SAM-dependent RNA methyltransferase; InterPro: IPR007364 This family of proteins are predicted to be alpha/beta-knot SAM-dependent RNA methyltransferases [].
Probab=33.37 E-value=1e+02 Score=23.62 Aligned_cols=64 Identities=16% Similarity=0.223 Sum_probs=42.5
Q ss_pred CCCCCCCCCChhhhhchhhhCCCCcEEEEee--cCC-CCCCCHHHHH----HHHHcCCeEEEeChHHHHHHHHHhhhc
Q 033161 41 WTPKKFSEITPNCLSIFQLVRPIPEILILGC--GRY-IEPVNPELRQ----FIRSTGMKLEAIDSRNAASTYNILNEE 111 (126)
Q Consensus 41 W~~~~~~~i~~~~l~~l~~l~~~pevliiGT--G~~-~~~~~~~~~~----~l~~~GI~vE~m~T~aAcrTyN~L~sE 111 (126)
.+++...+++++|.+ ++|++|+|= |.. .+-=..+++. -+..+.+|=.-|+|.-|+|+-......
T Consensus 68 LDP~A~~~L~PeD~~-------~fd~fvfGGILGD~PPrdRT~eLr~~~~~g~~~R~LG~~QmTtDtAV~vt~~i~e~ 138 (196)
T PF04252_consen 68 LDPAAEKELSPEDGE-------KFDYFVFGGILGDHPPRDRTSELRTKKPKGFEGRRLGPKQMTTDTAVRVTKLIVED 138 (196)
T ss_pred eCCCCCCCCCccccC-------cccEEEECcccCCCCCCCchHHHHhhhccCccccccCCccccccHHHHHHHHHHcC
Confidence 345556778877754 489999993 443 2222233332 344578899999999999999887643
No 130
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=32.99 E-value=23 Score=23.46 Aligned_cols=31 Identities=16% Similarity=0.237 Sum_probs=22.8
Q ss_pred EEEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 033161 67 LILGCGRY-IEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 67 liiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++=|+|.. -..+...+++.|.++|+.+|+-.
T Consensus 7 vvCgsG~~TS~m~~~ki~~~l~~~gi~~~v~~ 38 (94)
T PRK10310 7 VACGGAVATSTMAAEEIKELCQSHNIPVELIQ 38 (94)
T ss_pred EECCCchhHHHHHHHHHHHHHHHCCCeEEEEE
Confidence 44455554 33557899999999999888775
No 131
>cd04923 ACT_AK-LysC-DapG-like_2 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, as well as, the second and fourth, of four, ACT domains present in cyanobacteria AK. Also included are the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase isoenzyme AKI found in Bacilli (B. subtilis strain 168), Clostridia, and Actinobacteria bacterial species. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=32.93 E-value=59 Score=18.48 Aligned_cols=31 Identities=23% Similarity=0.432 Sum_probs=21.2
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeCh
Q 033161 68 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 68 iiGTG~~~-~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++|.|... .....++.+.|.+.||.+..+.+
T Consensus 5 v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 36 (63)
T cd04923 5 IVGAGMRSHPGVAAKMFKALAEAGINIEMIST 36 (63)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEEc
Confidence 45665542 34456678888888988888864
No 132
>PRK11892 pyruvate dehydrogenase subunit beta; Provisional
Probab=32.80 E-value=23 Score=30.38 Aligned_cols=39 Identities=15% Similarity=0.180 Sum_probs=29.4
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++..+-|+.||++|... ...-+..+.|++.||.+++.+.
T Consensus 336 v~r~G~DvtIva~G~~v-~~Al~Aa~~L~~~GI~~~VIdl 374 (464)
T PRK11892 336 IHREGKDVTIVSFSIGM-TYALKAAEELAKEGIDAEVIDL 374 (464)
T ss_pred EEEcCCCEEEEEccHHH-HHHHHHHHHHHhcCCCEEEEEC
Confidence 45567899999999753 2344556778899999999854
No 133
>PRK06270 homoserine dehydrogenase; Provisional
Probab=32.60 E-value=1.2e+02 Score=24.64 Aligned_cols=50 Identities=14% Similarity=0.083 Sum_probs=37.0
Q ss_pred CCCCcEEEEeecCCCC--CCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhh
Q 033161 61 RPIPEILILGCGRYIE--PVNPELRQFIRSTGMKLEAIDSRNAASTYNILNE 110 (126)
Q Consensus 61 ~~~pevliiGTG~~~~--~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~s 110 (126)
++.+|+++.-|+.... .+..+.....-++|+.|-+.+...-+.+|..|..
T Consensus 87 ~~~~DvVvd~T~s~~~~~~~a~~~~~~aL~~GkhVVtaNK~pla~~~~eL~~ 138 (341)
T PRK06270 87 SVDADVVVEATPTNIETGEPALSHCRKALERGKHVVTSNKGPLALAYKELKE 138 (341)
T ss_pred ccCCCEEEECCcCcccccchHHHHHHHHHHCCCEEEcCCcHHHHhhHHHHHH
Confidence 4679999999987643 4445665666678999988887777777877754
No 134
>PF07864 DUF1651: Protein of unknown function (DUF1651); InterPro: IPR012447 The proteins in this entry have not been characterised.
Probab=32.49 E-value=43 Score=21.20 Aligned_cols=20 Identities=15% Similarity=0.282 Sum_probs=18.1
Q ss_pred EEEeChHHHHHHHHHhhhcc
Q 033161 93 LEAIDSRNAASTYNILNEEG 112 (126)
Q Consensus 93 vE~m~T~aAcrTyN~L~sEg 112 (126)
=..|...+|..+|+.|+++|
T Consensus 47 rr~l~~~~A~e~W~~L~~~G 66 (75)
T PF07864_consen 47 RRRLTREEARELWKELQKTG 66 (75)
T ss_pred EEEEEHHHHHHHHHHHHHcC
Confidence 35789999999999999999
No 135
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=32.43 E-value=44 Score=24.19 Aligned_cols=33 Identities=12% Similarity=0.238 Sum_probs=26.8
Q ss_pred HHHHcCCeEEEeChHHHHHHHHHhhhccceeEE
Q 033161 85 FIRSTGMKLEAIDSRNAASTYNILNEEGRIVAA 117 (126)
Q Consensus 85 ~l~~~GI~vE~m~T~aAcrTyN~L~sEgR~Vaa 117 (126)
+|++.|+.||++.......+.+.|.+..=.++.
T Consensus 15 ~f~~~gl~ve~~~~~~~~~~~~~l~~G~~D~~~ 47 (216)
T PF09084_consen 15 YFKEEGLDVEIVFFGGGGDVLEALASGKADIAV 47 (216)
T ss_dssp HHHHTTEEEEEEEESSHHHHHHHHHTTSHSEEE
T ss_pred CCccCeEEEEEEEecChhHHHHHHhcCCceEEe
Confidence 788999999999998888999888766545443
No 136
>cd00443 ADA_AMPD Adenosine/AMP deaminase. Adenosine deaminases (ADAs) are present in pro- and eukaryotic organisms and catalyze the zinc dependent irreversible deamination of adenosine nucleosides to inosine nucleosides and ammonia. The eukaryotic AMP deaminase catalyzes a similar reaction leading to the hydrolytic removal of an amino group at the 6 position of the adenine nucleotide ring, a branch point in the adenylate catabolic pathway.
Probab=32.43 E-value=48 Score=26.34 Aligned_cols=25 Identities=20% Similarity=0.380 Sum_probs=21.9
Q ss_pred CCHHHHHHHHHcCCeEEEeChHHHH
Q 033161 78 VNPELRQFIRSTGMKLEAIDSRNAA 102 (126)
Q Consensus 78 ~~~~~~~~l~~~GI~vE~m~T~aAc 102 (126)
-+|++.+.++++||.+|+.+|.+..
T Consensus 202 ~~p~~~~~l~~~~i~ie~CP~SN~~ 226 (305)
T cd00443 202 KHPELIYLVKLRNIPIEVCPTSNVV 226 (305)
T ss_pred CCHHHHHHHHHcCCEEEECcchhhh
Confidence 4579999999999999999998754
No 137
>cd04890 ACT_AK-like_1 ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the first of two ACT domains found C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids, lysine, threonine, methionine, and isoleucine. This CD, includes the first ACT domain of the Escherichia coli (EC) isoenzyme, AKIII (LysC) and the Arabidopsis isoenzyme, asparate kinase 1, both enzymes monofunctional and involved in lysine synthesis, as well as the the first ACT domain of Bacillus subtilis (BS) isoenzyme, AKIII (YclM), and of the Saccharomyces cerevisiae AK (Hom3). Also included are the first ACT domains of the Methylomicrobium alcaliphilum AK, the first enzyme of the ectoine biosynthetic pathway. Members of this CD bel
Probab=32.31 E-value=55 Score=19.07 Aligned_cols=23 Identities=9% Similarity=0.265 Sum_probs=18.0
Q ss_pred CCCHHHHHHHHHcCCeEEEeChH
Q 033161 77 PVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 77 ~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
-...++.+.|.+.||.++.++|.
T Consensus 15 ~~~~~if~~l~~~~i~v~~i~t~ 37 (62)
T cd04890 15 GFLRKIFEILEKHGISVDLIPTS 37 (62)
T ss_pred CHHHHHHHHHHHcCCeEEEEecC
Confidence 35567788888999999998763
No 138
>PLN02790 transketolase
Probab=32.19 E-value=30 Score=30.83 Aligned_cols=35 Identities=20% Similarity=0.536 Sum_probs=27.3
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
+|++|++||.... ..-+..+.|+++||.+.+.+.+
T Consensus 541 ~dv~iia~G~~v~-~Al~Aa~~L~~~gi~~~VV~~~ 575 (654)
T PLN02790 541 PDLILIGTGSELE-IAAKAAKELRKEGKKVRVVSMV 575 (654)
T ss_pred CCEEEEEcCHHHH-HHHHHHHHHHhcCCceEEEecC
Confidence 8999999997542 3456677889999998888654
No 139
>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain. The domain is related to the DEAD/DEAH box helicase domain which is found in a large family of ATPases.; GO: 0005524 ATP binding, 0008026 ATP-dependent helicase activity, 0019079 viral genome replication; PDB: 2QEQ_A 2V6J_A 2V6I_A 8OHM_A 4A92_B 1JR6_A 1HEI_A 1ONB_A 1A1V_A 1YMF_A ....
Probab=32.02 E-value=36 Score=24.98 Aligned_cols=35 Identities=20% Similarity=0.181 Sum_probs=24.5
Q ss_pred eecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHH
Q 033161 70 GCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAST 104 (126)
Q Consensus 70 GTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrT 104 (126)
|.|++.+.++..+++++++++=.+-.-+|...++-
T Consensus 14 GaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~e 48 (148)
T PF07652_consen 14 GAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEE 48 (148)
T ss_dssp TSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHH
T ss_pred CCCCcccccHHHHHHHHHccCeEEEecccHHHHHH
Confidence 66777777788888888887766767788776654
No 140
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=31.79 E-value=24 Score=24.06 Aligned_cols=34 Identities=12% Similarity=0.237 Sum_probs=25.7
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 033161 67 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 100 (126)
Q Consensus 67 liiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~a 100 (126)
++=|+|.....+-..+++.++++|+.+++-.++.
T Consensus 6 lvCg~G~STSlla~k~k~~~~e~gi~~~i~a~~~ 39 (104)
T PRK09590 6 IICAAGMSSSMMAKKTTEYLKEQGKDIEVDAITA 39 (104)
T ss_pred EECCCchHHHHHHHHHHHHHHHCCCceEEEEecH
Confidence 4556666655788899999999999988854443
No 141
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=31.75 E-value=41 Score=28.20 Aligned_cols=45 Identities=18% Similarity=0.155 Sum_probs=37.5
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHh
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNIL 108 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L 108 (126)
--+++.-||.-...-.+++.+.|++.|..|.+.-|++|++...-+
T Consensus 7 k~IllgvTGsiaa~k~~~lv~~L~~~g~~V~vv~T~~A~~fi~~~ 51 (399)
T PRK05579 7 KRIVLGVSGGIAAYKALELVRRLRKAGADVRVVMTEAAKKFVTPL 51 (399)
T ss_pred CeEEEEEeCHHHHHHHHHHHHHHHhCCCEEEEEECHhHHHHHhHH
Confidence 457888898875556688889999999999999999999877754
No 142
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=31.74 E-value=23 Score=23.75 Aligned_cols=30 Identities=13% Similarity=0.261 Sum_probs=21.7
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCC--eEEEeC
Q 033161 68 ILGCGRY-IEPVNPELRQFIRSTGM--KLEAID 97 (126)
Q Consensus 68 iiGTG~~-~~~~~~~~~~~l~~~GI--~vE~m~ 97 (126)
+=|+|.. -..+-.++.++|+++|+ .++.+.
T Consensus 7 aCG~GvgSS~~ik~kve~~l~~~gi~~~~~~~~ 39 (93)
T COG3414 7 ACGNGVGSSTMIKMKVEEVLKELGIDVDVEQCA 39 (93)
T ss_pred ECCCCccHHHHHHHHHHHHHHHcCCCceeeeEE
Confidence 3455555 45788999999999999 555553
No 143
>PRK04148 hypothetical protein; Provisional
Probab=31.33 E-value=76 Score=22.70 Aligned_cols=34 Identities=26% Similarity=0.515 Sum_probs=24.6
Q ss_pred cEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH-HHHH
Q 033161 65 EILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR-NAAS 103 (126)
Q Consensus 65 evliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~-aAcr 103 (126)
.++.||+|... ++...|.+.|..|-..|.. .|+.
T Consensus 19 kileIG~GfG~-----~vA~~L~~~G~~ViaIDi~~~aV~ 53 (134)
T PRK04148 19 KIVELGIGFYF-----KVAKKLKESGFDVIVIDINEKAVE 53 (134)
T ss_pred EEEEEEecCCH-----HHHHHHHHCCCEEEEEECCHHHHH
Confidence 49999999433 5677888999888777643 4444
No 144
>PRK15364 pathogenicity island 2 effector protein SseB; Provisional
Probab=31.32 E-value=51 Score=25.16 Aligned_cols=27 Identities=15% Similarity=0.384 Sum_probs=22.9
Q ss_pred cCC-CCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 72 GRY-IEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 72 G~~-~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
+.+ ...+|+++.+|++++||.|.=|+-
T Consensus 92 ddK~k~~LPddVI~YmrdNgI~VdG~si 119 (196)
T PRK15364 92 DAKTKEEVPEDVIKYMRDNGILIDGMTI 119 (196)
T ss_pred CCcccccCCHHHHHHHHHcCceecccch
Confidence 344 569999999999999999988874
No 145
>TIGR00113 queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase. This model describes the enzyme for S-adenosylmethionine:tRNA ribosyltransferase-isomerase (QueA). QueA synthesizes Queuosine which is usually in the first position of the anticodon of tRNAs specific for asparagine, aspartate, histidine, and tyrosine.
Probab=31.32 E-value=1.5e+02 Score=24.68 Aligned_cols=43 Identities=19% Similarity=0.281 Sum_probs=34.4
Q ss_pred CCCCHHHHHHHHHcCCeEEEeC----------------------------hHHHHHHHHHhhhccceeEEE
Q 033161 76 EPVNPELRQFIRSTGMKLEAID----------------------------SRNAASTYNILNEEGRIVAAA 118 (126)
Q Consensus 76 ~~~~~~~~~~l~~~GI~vE~m~----------------------------T~aAcrTyN~L~sEgR~Vaaa 118 (126)
+..++++.+.|+++||.+-... ++++|+.-|.-.++|+||.|.
T Consensus 184 LHFt~~ll~~l~~kGv~~a~vTLHVG~GTF~PV~~e~i~~H~mH~E~~~v~~~ta~~i~~ak~~G~RIiAV 254 (344)
T TIGR00113 184 LHFSEELLEKLKAKGVQYAFITLHVGAGTFRPVEADNIEDHVMHAEYYEVPQETVEALNKTRENGGRIIAV 254 (344)
T ss_pred cCCCHHHHHHHHHCCCeEEEEEEeecCCCCcCccccccccCCcccEEEEECHHHHHHHHHHHHcCCeEEEE
Confidence 5678999999999998876542 457888889888899998873
No 146
>TIGR00204 dxs 1-deoxy-D-xylulose-5-phosphate synthase. DXP synthase is a thiamine diphosphate-dependent enzyme related to transketolase and the pyruvate dehydrogenase E1-beta subunit. By an acyloin condensation of pyruvate with glyceraldehyde 3-phosphate, it produces 1-deoxy-D-xylulose 5-phosphate, a precursor of thiamine diphosphate (TPP), pyridoxal phosphate, and the isoprenoid building block isopentenyl diphosphate (IPP).
Probab=31.28 E-value=28 Score=30.79 Aligned_cols=39 Identities=26% Similarity=0.474 Sum_probs=28.7
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++.++.|+.|+++|.... ..-+..+.|++.||.+++.+.
T Consensus 491 vlr~G~dvtIva~G~~v~-~al~Aa~~L~~~gi~~~VId~ 529 (617)
T TIGR00204 491 VLRKGEKILILGFGTLVP-EALEVAESLNEKGIEATVVDA 529 (617)
T ss_pred EEEcCCCEEEEEcCHHHH-HHHHHHHHHHhcCCCEEEEec
Confidence 445678999999998643 233445678889999999754
No 147
>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=31.18 E-value=19 Score=24.55 Aligned_cols=40 Identities=18% Similarity=0.233 Sum_probs=27.3
Q ss_pred hCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHH
Q 033161 60 VRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAS 103 (126)
Q Consensus 60 l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcr 103 (126)
.+.++|++|+|.-.. +..-+.+.|++.||.+ +=+|++|.+
T Consensus 59 ~~~~idlvvvGPE~p---L~~Gl~D~l~~~gi~v-fGP~k~aA~ 98 (100)
T PF02844_consen 59 KENKIDLVVVGPEAP---LVAGLADALRAAGIPV-FGPSKEAAR 98 (100)
T ss_dssp HHTTESEEEESSHHH---HHTTHHHHHHHTT-CE-ES--HHHHH
T ss_pred HHcCCCEEEECChHH---HHHHHHHHHHHCCCcE-ECcCHHHHh
Confidence 357899999998653 3346788999999876 556666654
No 148
>PRK01424 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=30.79 E-value=1.6e+02 Score=24.83 Aligned_cols=43 Identities=16% Similarity=0.290 Sum_probs=34.0
Q ss_pred CCCCHHHHHHHHHcCCeEEEeC----------------------------hHHHHHHHHHhhhccceeEEE
Q 033161 76 EPVNPELRQFIRSTGMKLEAID----------------------------SRNAASTYNILNEEGRIVAAA 118 (126)
Q Consensus 76 ~~~~~~~~~~l~~~GI~vE~m~----------------------------T~aAcrTyN~L~sEgR~Vaaa 118 (126)
+..++++.+.|+++||.+-... +++.++.-|.-.++||||.|.
T Consensus 205 LHFT~~ll~~L~~kGv~~a~vTLHVG~GTF~PV~~e~i~~H~MH~E~~~I~~eta~~In~ak~~G~RIiAV 275 (366)
T PRK01424 205 LHFTKDILDKLKAKGIQTAFLTLHVGAGTFLPVKTENIHEHKMHTEYCSITPETAEIINKAKQEGRRIIAV 275 (366)
T ss_pred CCCCHHHHHHHHHCCCeEEEEEEeecCCCCcCccccccccCCccceEEEECHHHHHHHHHHHHcCCeEEEE
Confidence 4678999999999998875442 457788888888899998874
No 149
>COG2517 Predicted RNA-binding protein containing a C-terminal EMAP domain [General function prediction only]
Probab=30.78 E-value=29 Score=26.71 Aligned_cols=15 Identities=53% Similarity=0.567 Sum_probs=13.0
Q ss_pred hhccceeEEEeecCc
Q 033161 109 NEEGRIVAAALLPYG 123 (126)
Q Consensus 109 ~sEgR~VaaaLl~~~ 123 (126)
..||.+||.||+||.
T Consensus 160 vreg~~vaVAlLPPr 174 (219)
T COG2517 160 VREGDRVAVALLPPR 174 (219)
T ss_pred cccCCEEEEEecChh
Confidence 458999999999984
No 150
>PRK11205 tbpA thiamine transporter substrate binding subunit; Provisional
Probab=30.58 E-value=1.5e+02 Score=23.24 Aligned_cols=49 Identities=18% Similarity=0.267 Sum_probs=31.9
Q ss_pred cEEEEeecCCCC-C--CCHHHHHHHH-HcCCeEEEeChHHHHHHHHHhhhccc
Q 033161 65 EILILGCGRYIE-P--VNPELRQFIR-STGMKLEAIDSRNAASTYNILNEEGR 113 (126)
Q Consensus 65 evliiGTG~~~~-~--~~~~~~~~l~-~~GI~vE~m~T~aAcrTyN~L~sEgR 113 (126)
+-|.+-|+.... . ..+.+.+.|+ +.||.|++.....+-..++.+.+|+.
T Consensus 23 ~~L~vy~~~~~~~~~~~~~~i~~~Fe~~tgikV~~~~~~s~~~~~~kl~~e~~ 75 (330)
T PRK11205 23 PVLTVYTYDSFAAEWGPGPAVKKAFEAECGCELKFVALEDGVSLLNRLRLEGK 75 (330)
T ss_pred CeEEEEEcccccccCCCchHHHHHHHHHHCCEEEEEecCcHHHHHHHHHhcCC
Confidence 334444544432 2 2457877775 47999999866665678888888764
No 151
>COG3453 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.49 E-value=2.1e+02 Score=20.57 Aligned_cols=67 Identities=15% Similarity=0.206 Sum_probs=47.4
Q ss_pred CCCCChhhhhchh------hhCCCCcEEEEeecCC-CCCCCHHHHHHHHHcCCeEEEe------ChHHHHHHHHHhhhc-
Q 033161 46 FSEITPNCLSIFQ------LVRPIPEILILGCGRY-IEPVNPELRQFIRSTGMKLEAI------DSRNAASTYNILNEE- 111 (126)
Q Consensus 46 ~~~i~~~~l~~l~------~l~~~pevliiGTG~~-~~~~~~~~~~~l~~~GI~vE~m------~T~aAcrTyN~L~sE- 111 (126)
+.+++.+++..+. ++..+|| |.. -++-..+.++..++.|+.+-.. -|++++++|-..+.|
T Consensus 13 sgQi~~~D~~~iaa~GFksiI~nRPD------gEe~~QP~~~~i~~aa~~aGl~y~~iPV~~~~iT~~dV~~f~~Al~ea 86 (130)
T COG3453 13 SGQISPADIASIAALGFKSIICNRPD------GEEPGQPGFAAIAAAAEAAGLTYTHIPVTGGGITEADVEAFQRALDEA 86 (130)
T ss_pred cCCCCHHHHHHHHHhccceecccCCC------CCCCCCCChHHHHHHHHhcCCceEEeecCCCCCCHHHHHHHHHHHHHh
Confidence 3467777777443 3344555 444 3455578889999999998776 488999999998888
Q ss_pred cceeEEE
Q 033161 112 GRIVAAA 118 (126)
Q Consensus 112 gR~Vaaa 118 (126)
++.|.|.
T Consensus 87 egPVlay 93 (130)
T COG3453 87 EGPVLAY 93 (130)
T ss_pred CCCEEee
Confidence 5777764
No 152
>TIGR00250 RNAse_H_YqgF RNAse H-fold protein YqgF. This protein family, which exhibits an RNAse H fold in crystal structure, has been proposed as a putative Holliday junction resolvase, an alternate to RuvC.
Probab=30.36 E-value=72 Score=22.37 Aligned_cols=47 Identities=13% Similarity=0.118 Sum_probs=30.9
Q ss_pred CCCCcEEEEe-----ecCCCC--CCCHHHHHHHHH-cCCeEEEe----ChHHHHHHHHH
Q 033161 61 RPIPEILILG-----CGRYIE--PVNPELRQFIRS-TGMKLEAI----DSRNAASTYNI 107 (126)
Q Consensus 61 ~~~pevliiG-----TG~~~~--~~~~~~~~~l~~-~GI~vE~m----~T~aAcrTyN~ 107 (126)
+.+|+.+||| -|.... ..-.+..+.|++ .++.|+.. +|.+|-+.|-.
T Consensus 46 ~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~~~~~~v~~~DEr~TT~~A~~~l~~ 104 (130)
T TIGR00250 46 EWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEGRFGVPVVLWDERLSTVEAESGLFA 104 (130)
T ss_pred HcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCcCHHHHHHHHHH
Confidence 4579999999 555421 222355566654 38888876 78888877643
No 153
>PRK13304 L-aspartate dehydrogenase; Reviewed
Probab=30.01 E-value=1.6e+02 Score=22.83 Aligned_cols=36 Identities=6% Similarity=-0.043 Sum_probs=25.2
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 100 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~a 100 (126)
+++|++++.++.... .+....+.++|..+-+|++.+
T Consensus 60 ~~~DvVvi~a~~~~~---~~~~~~al~~Gk~Vvv~s~gA 95 (265)
T PRK13304 60 EDVDLVVECASVNAV---EEVVPKSLENGKDVIIMSVGA 95 (265)
T ss_pred cCCCEEEEcCChHHH---HHHHHHHHHcCCCEEEEchHH
Confidence 579999999865432 444444556899998887643
No 154
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=30.01 E-value=41 Score=26.98 Aligned_cols=36 Identities=31% Similarity=0.559 Sum_probs=24.9
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 101 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aA 101 (126)
.++|.||+|| .+.-++.+.+++++- -.+-++|++++
T Consensus 176 ~~~DtlVLGC-THyPll~~~i~~~~~---~~v~lids~~~ 211 (269)
T COG0796 176 AGPDTLVLGC-THYPLLKPEIQQVLG---EHVALIDSGAE 211 (269)
T ss_pred cCCCEEEEeC-cCcHHHHHHHHHHhC---CCceEeCCHHH
Confidence 4699999999 344455566655554 47888888844
No 155
>COG1710 Uncharacterized protein conserved in archaea [Function unknown]
Probab=29.85 E-value=42 Score=24.03 Aligned_cols=40 Identities=18% Similarity=0.438 Sum_probs=32.3
Q ss_pred hhhCCCCcEEEEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 033161 58 QLVRPIPEILILGCGRY-IEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 58 ~~l~~~pevliiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
.+++..|++=+||+-.. .-.++..+..++.+.||.+--..
T Consensus 44 allens~~vK~Ig~P~s~y~k~skkvlkaleq~gI~vIPvk 84 (139)
T COG1710 44 ALLENSPNVKVIGCPPSLYPKVSKKVLKALEQMGIKVIPVK 84 (139)
T ss_pred HHHhcCCCcceecCCchhhhHHHHHHHHHHHhCCceEeeee
Confidence 35567899999999888 44799999999999988776554
No 156
>cd04906 ACT_ThrD-I_1 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase). This CD includes the first of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase) which catalyzes the committed step in branched chain amino acid biosynthesis in plants and microorganisms, the pyridoxal 5'-phosphate (PLP)-dependent dehydration/deamination of L-threonine (or L-serine) to 2-ketobutyrate (or pyruvate). ThrD-I is a cooperative, feedback-regulated (isoleucine and valine) allosteric enzyme that forms a tetramer and contains four pyridoxal phosphate moieties. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.82 E-value=77 Score=20.17 Aligned_cols=27 Identities=22% Similarity=0.266 Sum_probs=21.4
Q ss_pred CHHHHHHHHHcCCeEEEeChHHHHHHH
Q 033161 79 NPELRQFIRSTGMKLEAIDSRNAASTY 105 (126)
Q Consensus 79 ~~~~~~~l~~~GI~vE~m~T~aAcrTy 105 (126)
.+++.+.|+++|..++.++-..+.+.|
T Consensus 55 ~~~i~~~L~~~G~~~~~~~~~~~~~~~ 81 (85)
T cd04906 55 LAELLEDLKSAGYEVVDLSDDELAKTH 81 (85)
T ss_pred HHHHHHHHHHCCCCeEECCCCHHHHHH
Confidence 457889999999999998776666544
No 157
>TIGR03840 TMPT_Se_Te thiopurine S-methyltransferase, Se/Te detoxification family. Members of this family are thiopurine S-methyltransferase from a branch in which at least some member proteins can perform selenium methylation as a means to detoxify selenium, or perform a related detoxification of tellurium. Note that the EC number definition does not specify a particular thiopurine, but rather represents a class of activity.
Probab=29.70 E-value=85 Score=23.72 Aligned_cols=60 Identities=8% Similarity=0.251 Sum_probs=37.9
Q ss_pred ccCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC-hHHHHHHH
Q 033161 39 LSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID-SRNAASTY 105 (126)
Q Consensus 39 ~~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~-T~aAcrTy 105 (126)
..|....++..=.+.+..+ ...++..+|++|+|... -..+|.++|..|.-+| ++.||+.+
T Consensus 12 ~~w~~~~p~~~l~~~~~~l-~~~~~~rvLd~GCG~G~------da~~LA~~G~~V~gvD~S~~Ai~~~ 72 (213)
T TIGR03840 12 IGFHQSEVNPLLVKHWPAL-GLPAGARVFVPLCGKSL------DLAWLAEQGHRVLGVELSEIAVEQF 72 (213)
T ss_pred CCCccCCCCHHHHHHHHhh-CCCCCCeEEEeCCCchh------HHHHHHhCCCeEEEEeCCHHHHHHH
Confidence 4565544443333332211 11355689999999974 2457788999999996 57778864
No 158
>COG0674 PorA Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]
Probab=29.60 E-value=52 Score=27.20 Aligned_cols=35 Identities=20% Similarity=0.318 Sum_probs=28.1
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 96 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m 96 (126)
+..|++||+.|......-.++..++++.|+++=.+
T Consensus 255 ~DAe~viV~~Gss~~~~~~a~~~~~~~~g~kvg~l 289 (365)
T COG0674 255 EDAEIVIVAMGSSKGSTAEAVVDLLRDKGEKVGLL 289 (365)
T ss_pred CCcCEEEEEeccchHhHHHHHHHHHHhcCceEEEE
Confidence 57899999999888778888888888888554433
No 159
>PF00996 GDI: GDP dissociation inhibitor; InterPro: IPR018203 Rab proteins constitute a family of small GTPases that serve a regulatory role in vesicular membrane traffic [, ]; C-terminal geranylgeranylation is crucial for their membrane association and function. This post-translational modification is catalysed by Rab geranylgeranyl transferase (Rab-GGTase), a multi-subunit enzyme that contains a catalytic heterodimer and an accessory component, termed Rab escort protein (REP)-1 []. REP-1 presents newly- synthesised Rab proteins to the catalytic component, and forms a stable complex with the prenylated proteins following the transfer reaction. The mechanism of REP-1-mediated membrane association of Rab5 is similar to that mediated by Rab GDP dissociation inhibitor (GDI). REP-1 and Rab GDI also share other functional properties, including the ability to inhibit the release of GDP and to remove Rab proteins from membranes. The crystal structure of the bovine alpha-isoform of Rab GDI has been determined to a resolution of 1.81A []. The protein is composed of two main structural units: a large complex multi-sheet domain I, and a smaller alpha-helical domain II. The structural organisation of domain I is closely related to FAD-containing monooxygenases and oxidases []. Conserved regions common to GDI and the choroideraemia gene product, which delivers Rab to catalytic subunits of Rab geranylgeranyltransferase II, are clustered on one face of the domain []. The two most conserved regions form a compact structure at the apex of the molecule; site-directed mutagenesis has shown these regions to play a critical role in the binding of Rab proteins [].; PDB: 1VG9_C 1VG0_A 1LTX_R 3P1W_A 3CPH_H 3CPJ_G 3CPI_H 1UKV_G 2BCG_G 1GND_A ....
Probab=29.33 E-value=27 Score=29.77 Aligned_cols=33 Identities=27% Similarity=0.341 Sum_probs=20.2
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
...|+||+|||-..- =+..+|...|-.|-.||.
T Consensus 3 ~~yDviI~GTGl~es----ila~als~~GkkVLhiD~ 35 (438)
T PF00996_consen 3 EEYDVIILGTGLTES----ILAAALSRSGKKVLHIDR 35 (438)
T ss_dssp SBESEEEE--SHHHH----HHHHHHHHTT--EEEE-S
T ss_pred ccceEEEECCCcHHH----HHHHHHHhcCCEEEecCC
Confidence 457999999996521 235577889999999864
No 160
>cd01144 BtuF Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. 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=29.15 E-value=2.4e+02 Score=20.83 Aligned_cols=35 Identities=11% Similarity=0.148 Sum_probs=23.5
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++.-+||++|...+. .+....+.|++.|+.+-+.+
T Consensus 53 i~~l~PDlIi~~~~~----~~~~~~~~l~~~gi~v~~~~ 87 (245)
T cd01144 53 VLALKPDLVIAWDDC----NVCAVVDQLRAAGIPVLVSE 87 (245)
T ss_pred HHhCCCCEEEEecCC----CHHHHHHHHHHcCCcEEEeC
Confidence 445679998754322 12344888999999987764
No 161
>PF05225 HTH_psq: helix-turn-helix, Psq domain; InterPro: IPR007889 This DNA-binding motif is found in four copies in the pipsqueak protein of Drosophila melanogaster []. In pipsqueak this domain binds to GAGA sequence []. The pipsqueak family, which includes proteins from fungi, sea urchins, nematodes, insects, and vertebrates appear to be proteins essential for sequence-specific targeting of a polycomb group protein complex [].; GO: 0003677 DNA binding; PDB: 2COB_A.
Probab=29.11 E-value=32 Score=19.74 Aligned_cols=14 Identities=29% Similarity=0.501 Sum_probs=10.0
Q ss_pred eChHHHHHHHHHhh
Q 033161 96 IDSRNAASTYNILN 109 (126)
Q Consensus 96 m~T~aAcrTyN~L~ 109 (126)
|+...|++.||+=.
T Consensus 17 ~S~r~AA~~ygVp~ 30 (45)
T PF05225_consen 17 MSIRKAAKKYGVPR 30 (45)
T ss_dssp S-HHHHHHHHT--H
T ss_pred CCHHHHHHHHCcCH
Confidence 89999999999743
No 162
>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=28.71 E-value=1.3e+02 Score=21.74 Aligned_cols=31 Identities=10% Similarity=0.121 Sum_probs=24.8
Q ss_pred HHcCCeEEEeChHHHHHHHHHhhhccceeEE
Q 033161 87 RSTGMKLEAIDSRNAASTYNILNEEGRIVAA 117 (126)
Q Consensus 87 ~~~GI~vE~m~T~aAcrTyN~L~sEgR~Vaa 117 (126)
.-.|+.+.+++.+.|++.+|.-..++.+|-.
T Consensus 50 ~P~gvk~~i~sve~a~~~l~~~~~~~~~v~v 80 (151)
T TIGR00854 50 APTGFKVRFVSLEKTINVIHKPAYHDQTIFL 80 (151)
T ss_pred CCCCCEEEEEEHHHHHHHHhCcCCCCceEEE
Confidence 3469999999999999999986666666643
No 163
>KOG4405 consensus GDP dissociation inhibitor [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=28.35 E-value=65 Score=28.01 Aligned_cols=34 Identities=12% Similarity=0.298 Sum_probs=23.7
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHH-HHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPEL-RQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~-~~~l~~~GI~vE~m~ 97 (126)
.+....|+||||||- +.++ .++....|-.|-.+|
T Consensus 4 ~lP~~fDvVViGTGl-----pESilAAAcSrsG~sVLHlD 38 (547)
T KOG4405|consen 4 ILPEEFDVVVIGTGL-----PESILAAACSRSGSSVLHLD 38 (547)
T ss_pred CCchhccEEEEcCCC-----cHHHHHHHhhhcCCceEecc
Confidence 455679999999995 4444 556667777776554
No 164
>PLN02972 Histidyl-tRNA synthetase
Probab=28.23 E-value=85 Score=28.85 Aligned_cols=56 Identities=21% Similarity=0.118 Sum_probs=37.2
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccceeEEE
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAA 118 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR~Vaaa 118 (126)
++|++|+..|.....-.-++.+.|++.||.+|....+.--..+..-...|-+.+..
T Consensus 668 ~~dVlV~s~g~~~l~~alkia~~LR~aGI~aE~~~~~kl~kq~~~A~k~gi~~vVI 723 (763)
T PLN02972 668 ETEVLVSIIGDDKLALAAELVSELWNAGIKAEYKVSTRKAKHLKRAKESGIPWMVL 723 (763)
T ss_pred CCcEEEEEeCHHHHHHHHHHHHHHHHCCCEEEEeCCCCHHHHHHHHHHCCCCEEEE
Confidence 46888887776544445678889999999999865444444555554555444433
No 165
>COG0007 CysG Uroporphyrinogen-III methylase [Coenzyme metabolism]
Probab=28.21 E-value=68 Score=25.37 Aligned_cols=45 Identities=20% Similarity=0.143 Sum_probs=34.1
Q ss_pred CCcEEEEeecCCCCC-CCHHHHHHHHHcCCeEEEe---ChHHHHHHHHH
Q 033161 63 IPEILILGCGRYIEP-VNPELRQFIRSTGMKLEAI---DSRNAASTYNI 107 (126)
Q Consensus 63 ~pevliiGTG~~~~~-~~~~~~~~l~~~GI~vE~m---~T~aAcrTyN~ 107 (126)
.=.++=+=.|....| ---|-.++|.++||.+|+. ++..||.+|=-
T Consensus 81 G~~VVRLKgGDP~iFGRggEE~~~l~~~gI~~eVVPGiTSa~a~~a~ag 129 (244)
T COG0007 81 GKRVVRLKGGDPYIFGRGGEEIEALAEAGIEFEVVPGITSAIAAPAYAG 129 (244)
T ss_pred CCeEEEecCCCCCeecCcHHHHHHHHHcCCceEEeCccchHHHHHHHcC
Confidence 456777777777655 3367788999999999998 67888888753
No 166
>cd04936 ACT_AKii-LysC-BS-like_2 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains. This CD includes the C-terminal of the two ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168, and the lysine plus threonine-sensitive aspartokinase of Corynebacterium glutamicum, and related sequences. In B. subtilis strain 168, the regulation of the diaminopimelate (Dap)-lysine biosynthetic pathway involves dual control by Dap and lysine, effected through separate Dap- and lysine-sensitive AK isoenzymes. The B. subtilis strain 168 AKII is induced by methionine and repressed and inhibited by lysine. Although C. glutamicum is known to contain a single AK, both the succinylase and dehydrogenase variant pathways of DAP-lysine synthesis operate simultaneously in this organism. In corynebacteria and other various Gram-positive bacteria, the DAP-lysine pathway is feedback regu
Probab=28.19 E-value=1e+02 Score=17.43 Aligned_cols=31 Identities=23% Similarity=0.434 Sum_probs=20.8
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeCh
Q 033161 68 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 68 iiGTG~~~-~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++|.|... .....++.+.|.+.||.+..+.+
T Consensus 5 v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 36 (63)
T cd04936 5 IVGAGMRSHPGVAAKMFEALAEAGINIEMIST 36 (63)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCcEEEEEc
Confidence 45655542 24445677888888888888863
No 167
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=28.14 E-value=32 Score=26.74 Aligned_cols=19 Identities=21% Similarity=0.239 Sum_probs=9.4
Q ss_pred HHHHHhhhccceeEEEeec
Q 033161 103 STYNILNEEGRIVAAALLP 121 (126)
Q Consensus 103 rTyN~L~sEgR~VaaaLl~ 121 (126)
|....|..+|-.|-.+.+|
T Consensus 173 r~~~~L~~~G~~v~vv~lP 191 (218)
T TIGR00646 173 NLEEILKKAGFITKVIEIK 191 (218)
T ss_pred HHHHHHHHCCCeEEEEeCC
Confidence 3344444555555555554
No 168
>cd04892 ACT_AK-like_2 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the second of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). The exception in this group, is the inclusion of the first ACT domain of the bifunctional aspartokinase - homoserine dehydrogenase-like enzyme group (ACT_AKi-HSDH-ThrA-like_1) which includes the monofunctional, threonine-sensitive, aspartokinase found in Methanococcus jannaschii and other related archaeal species. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. AK is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of AK with different repressors an
Probab=28.01 E-value=85 Score=17.51 Aligned_cols=31 Identities=16% Similarity=0.331 Sum_probs=19.5
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 68 ILGCGRY-IEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 68 iiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++|.|.. ......++.+.|.+.|+.+..+.+
T Consensus 5 i~g~~~~~~~~~~~~i~~~l~~~~i~v~~i~~ 36 (65)
T cd04892 5 VVGAGMRGTPGVAARIFSALAEAGINIIMISQ 36 (65)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCcEEEEEc
Confidence 4455553 234556677777778887777754
No 169
>PRK13302 putative L-aspartate dehydrogenase; Provisional
Probab=27.94 E-value=1.8e+02 Score=22.76 Aligned_cols=36 Identities=8% Similarity=0.095 Sum_probs=27.2
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 100 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~a 100 (126)
..+|+|++.|+... +.++...+-++|..+-++++.+
T Consensus 66 ~~~D~Vvi~tp~~~---h~e~~~~aL~aGk~Vi~~s~ga 101 (271)
T PRK13302 66 THADIVVEAAPASV---LRAIVEPVLAAGKKAIVLSVGA 101 (271)
T ss_pred cCCCEEEECCCcHH---HHHHHHHHHHcCCcEEEecchh
Confidence 36999999998753 3666566667899998887763
No 170
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=27.76 E-value=54 Score=24.60 Aligned_cols=43 Identities=16% Similarity=0.072 Sum_probs=33.8
Q ss_pred EEEEeecCCCCCCCHHHHHHHHH-cCCeEEEeChHHHHHHHHHh
Q 033161 66 ILILGCGRYIEPVNPELRQFIRS-TGMKLEAIDSRNAASTYNIL 108 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~-~GI~vE~m~T~aAcrTyN~L 108 (126)
+++-=||.--..-.+++.+.|.+ .|..|.+.-|++|.+-.+..
T Consensus 4 IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv~T~~A~~fv~~~ 47 (185)
T PRK06029 4 LIVGISGASGAIYGVRLLQVLRDVGEIETHLVISQAARQTLAHE 47 (185)
T ss_pred EEEEEECHHHHHHHHHHHHHHHhhcCCeEEEEECHHHHHHHHHH
Confidence 44555666555667888899988 59999999999999987764
No 171
>cd04336 YeaK YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, and ProX. The primary function of INS is to hydrolyze mischarged cysteinyl-tRNA(Pro)'s, thus helping ensure the fidelity of translation. Organisms whose ProRS lacks the INS domain express a single-domain INS homolog such as YbaK, ProX, or PrdX which supplies the function of INS in trans.
Probab=27.67 E-value=1e+02 Score=21.48 Aligned_cols=19 Identities=16% Similarity=0.572 Sum_probs=15.9
Q ss_pred HHHHHHHHHcCCeEEEeCh
Q 033161 80 PELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 80 ~~~~~~l~~~GI~vE~m~T 98 (126)
.++.++|.+.||.++..++
T Consensus 2 ~~v~~~L~~~~i~y~~~~~ 20 (153)
T cd04336 2 ERLQELLNTNGARFRVLDH 20 (153)
T ss_pred HHHHHHHHHCCCCEEEEec
Confidence 3678899999999999864
No 172
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=27.57 E-value=1.9e+02 Score=19.24 Aligned_cols=41 Identities=17% Similarity=0.221 Sum_probs=26.0
Q ss_pred HHHHHHHHHcCCe-EE-EeChHHHHHHHHHhhhccceeEEEeec
Q 033161 80 PELRQFIRSTGMK-LE-AIDSRNAASTYNILNEEGRIVAAALLP 121 (126)
Q Consensus 80 ~~~~~~l~~~GI~-vE-~m~T~aAcrTyN~L~sEgR~VaaaLl~ 121 (126)
++..-.|+-.|++ +. +-+..+|-++++.|.+ ...++-.++-
T Consensus 9 ~dtv~GFrLaGi~~~~~~~~~ee~~~~l~~l~~-~~d~gII~It 51 (100)
T PRK02228 9 PEFTTGFRLAGIRKVYEVPDDEKLDEAVEEVLE-DDDVGILVMH 51 (100)
T ss_pred HHHHHHHHHcCCceEEeeCCHHHHHHHHHHHhh-CCCEEEEEEe
Confidence 5666778888886 33 3344678888888764 3345555543
No 173
>PRK05015 aminopeptidase B; Provisional
Probab=27.34 E-value=32 Score=29.35 Aligned_cols=20 Identities=35% Similarity=0.650 Sum_probs=17.2
Q ss_pred HcCCeEEEeChHHHHHHHHHhhhccceeEE
Q 033161 88 STGMKLEAIDSRNAASTYNILNEEGRIVAA 117 (126)
Q Consensus 88 ~~GI~vE~m~T~aAcrTyN~L~sEgR~Vaa 117 (126)
..|..||+++|++ |||-|.|
T Consensus 262 ~nGkTVEI~NTDA----------EGRLVLA 281 (424)
T PRK05015 262 RNGKTVEVMNTDA----------EGRLVLA 281 (424)
T ss_pred cCCcEEeeeccCc----------cceeeeh
Confidence 4899999999986 8888876
No 174
>PF01262 AlaDh_PNT_C: Alanine dehydrogenase/PNT, C-terminal domain; InterPro: IPR007698 Alanine dehydrogenases (1.4.1.1 from EC) and pyridine nucleotide transhydrogenase (1.6.1.1 from EC) have been shown to share regions of similarity []. Alanine dehydrogenase catalyzes the NAD-dependent reversible reductive amination of pyruvate into alanine. Pyridine nucleotide transhydrogenase catalyzes the reduction of NADP+ to NADPH with the concomitant oxidation of NADH to NAD+. This enzyme is located in the plasma membrane of prokaryotes and in the inner membrane of the mitochondria of eukaryotes. The transhydrogenation between NADH and NADP is coupled with the translocation of a proton across the membrane. In prokaryotes the enzyme is composed of two different subunits, an alpha chain (gene pntA) and a beta chain (gene pntB), while in eukaryotes it is a single chain protein. The sequence of alanine dehydrogenase from several bacterial species are related with those of the alpha subunit of bacterial pyridine nucleotide transhydrogenase and of the N-terminal half of the eukaryotic enzyme. The two most conserved regions correspond respectively to the N-terminal extremity of these proteins and to a central glycine-rich region which is part of the NAD(H)-binding site. This is a C-terminal domain of alanine dehydrogenases (1.4.1.1 from EC). This domain is also found in the lysine 2-oxoglutarate reductases. ; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1KOL_A 2EEZ_F 1L7E_C 1PTJ_B 1NM5_A 1HZZ_B 1U2G_B 2FSV_A 2FR8_A 1U2D_A ....
Probab=27.18 E-value=55 Score=23.50 Aligned_cols=39 Identities=18% Similarity=0.320 Sum_probs=29.2
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHH
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTY 105 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTy 105 (126)
+..++|+|.|. +.....+.+..+|..+.+.+...+..++
T Consensus 20 p~~vvv~G~G~----vg~gA~~~~~~lGa~v~~~d~~~~~~~~ 58 (168)
T PF01262_consen 20 PAKVVVTGAGR----VGQGAAEIAKGLGAEVVVPDERPERLRQ 58 (168)
T ss_dssp T-EEEEESTSH----HHHHHHHHHHHTT-EEEEEESSHHHHHH
T ss_pred CeEEEEECCCH----HHHHHHHHHhHCCCEEEeccCCHHHHHh
Confidence 47899999997 4457888999999999999877665443
No 175
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=27.17 E-value=65 Score=26.42 Aligned_cols=35 Identities=14% Similarity=0.301 Sum_probs=26.7
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++.|++||++|.... .-.+..+.|++.|+.+.+++
T Consensus 245 ~dad~~iva~Gs~~~-~a~eA~~~L~~~Gi~v~vi~ 279 (352)
T PRK07119 245 EDAELVLVAYGTSAR-IAKSAVDMAREEGIKVGLFR 279 (352)
T ss_pred CCCCEEEEEcCccHH-HHHHHHHHHHHcCCeEEEEe
Confidence 357899999998753 33466677888999988885
No 176
>COG5493 Uncharacterized conserved protein containing a coiled-coil domain [Function unknown]
Probab=27.08 E-value=2.4e+02 Score=21.94 Aligned_cols=80 Identities=9% Similarity=0.094 Sum_probs=50.0
Q ss_pred eeEEcCCcEEEc-CEEEeecEEEeCCccccCCCCCCCCCChhhhhch-------h-hhCCCCcEEEEeecCCCCCCCHHH
Q 033161 12 RISFASKGFTVN-GVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIF-------Q-LVRPIPEILILGCGRYIEPVNPEL 82 (126)
Q Consensus 12 I~~y~~g~~~I~-g~~y~g~vi~~~~~v~~W~~~~~~~i~~~~l~~l-------~-~l~~~pevliiGTG~~~~~~~~~~ 82 (126)
.-.|+..|.+.+ --.+..|+++-++.+..--.+ +.+...|+... + .-.-+|+.+++=||.-...-|..+
T Consensus 137 w~~yDkeG~VYg~PS~VE~DvvVKDg~vvlVEIt--S~ikrgDl~~i~rk~elYer~~gvki~~vivitpFihdr~p~~~ 214 (231)
T COG5493 137 WLYYDKEGHVYGHPSDVEYDVVVKDGVVVLVEIT--SAIKRGDLPVIRRKKELYERAKGVKINKVIVITPFIHDRYPDRV 214 (231)
T ss_pred EEEEcCCcceecCCcceEEEEEEecCcEEEEEeh--hhhhccchHHHHHHHHHHHHhcCCccceEEEEcccccccChHHH
Confidence 346777777665 344566777766664433332 12333444321 1 113478889999988888888889
Q ss_pred HHHHHHcCCeE
Q 033161 83 RQFIRSTGMKL 93 (126)
Q Consensus 83 ~~~l~~~GI~v 93 (126)
++....+||.+
T Consensus 215 kAmAe~mGIei 225 (231)
T COG5493 215 KAMAERMGIEI 225 (231)
T ss_pred HHHHHHcCcee
Confidence 88888888765
No 177
>PF08774 VRR_NUC: VRR-NUC domain; InterPro: IPR014883 This entry contains proteins with the VRR-NUC domain. It is associated with members of the PD-(D/E)XK nuclease superfamily, which include the type III restriction modification enzymes, for example StyLTI: (P40815 from SWISSPROT).; GO: 0016788 hydrolase activity, acting on ester bonds
Probab=27.04 E-value=89 Score=20.31 Aligned_cols=38 Identities=13% Similarity=0.291 Sum_probs=25.6
Q ss_pred CCCCcEEEEeecCC------------CCCCCHHH---HHHHHHcCCeEEEeCh
Q 033161 61 RPIPEILILGCGRY------------IEPVNPEL---RQFIRSTGMKLEAIDS 98 (126)
Q Consensus 61 ~~~pevliiGTG~~------------~~~~~~~~---~~~l~~~GI~vE~m~T 98 (126)
..-||++++..+.. .-.++++. .+.|+++|+.++++..
T Consensus 46 ~G~PDl~~~~~~~~~~~~~~iEvK~p~~~ls~~Q~~~~~~l~~~G~~v~V~~~ 98 (100)
T PF08774_consen 46 SGFPDLILWRPRGKRDIFLFIEVKGPGDRLSPNQKEWIDKLREAGFRVAVCRS 98 (100)
T ss_pred CCCCcEEEEecCCCccEEEEEEEcCCCCCcCHHHHHHHHHHHHCCCEEEEEEc
Confidence 45689888884332 13455544 5677789999999865
No 178
>PRK06370 mercuric reductase; Validated
Probab=26.94 E-value=2.8e+02 Score=23.05 Aligned_cols=76 Identities=18% Similarity=0.244 Sum_probs=39.2
Q ss_pred cCCcEEEcCEEEeecEEEeCCccccCCC--CCCC---CCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 033161 16 ASKGFTVNGVQYEGSLLCIGNLLLSWTP--KKFS---EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 90 (126)
Q Consensus 16 ~~g~~~I~g~~y~g~vi~~~~~v~~W~~--~~~~---~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~G 90 (126)
+...+.++|..+..+-++.-.+..+..+ +..+ -++.+++.. .....-.++|+|.|.. .-++...|++.|
T Consensus 121 ~~~~v~v~~~~~~~d~lViATGs~p~~p~i~G~~~~~~~~~~~~~~--~~~~~~~vvVIGgG~~----g~E~A~~l~~~G 194 (463)
T PRK06370 121 SPNTVRVGGETLRAKRIFINTGARAAIPPIPGLDEVGYLTNETIFS--LDELPEHLVIIGGGYI----GLEFAQMFRRFG 194 (463)
T ss_pred cCCEEEECcEEEEeCEEEEcCCCCCCCCCCCCCCcCceEcchHhhC--ccccCCEEEEECCCHH----HHHHHHHHHHcC
Confidence 3455667787777775554333322211 1111 122233221 1122246899998853 335666677777
Q ss_pred CeEEEeC
Q 033161 91 MKLEAID 97 (126)
Q Consensus 91 I~vE~m~ 97 (126)
..|.+..
T Consensus 195 ~~Vtli~ 201 (463)
T PRK06370 195 SEVTVIE 201 (463)
T ss_pred CeEEEEE
Confidence 7766653
No 179
>PRK09982 universal stress protein UspD; Provisional
Probab=26.59 E-value=39 Score=23.25 Aligned_cols=21 Identities=10% Similarity=0.118 Sum_probs=12.1
Q ss_pred CCHHHHHHHHHcCCeEEEeCh
Q 033161 78 VNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 78 ~~~~~~~~l~~~GI~vE~m~T 98 (126)
+.+.+.++.++.++.+-+|-+
T Consensus 91 p~~~I~~~A~~~~aDLIVmG~ 111 (142)
T PRK09982 91 MPETLLEIMQKEQCDLLVCGH 111 (142)
T ss_pred HHHHHHHHHHHcCCCEEEEeC
Confidence 445555555566666666654
No 180
>COG1993 PII-like signaling protein [Signal transduction mechanisms]
Probab=26.36 E-value=65 Score=22.49 Aligned_cols=44 Identities=14% Similarity=0.164 Sum_probs=33.3
Q ss_pred EEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhc
Q 033161 68 ILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEE 111 (126)
Q Consensus 68 iiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sE 111 (126)
|-|-|.....-..++.+.-...=+.+|+.|++++.+.|=-.+.|
T Consensus 46 I~GfG~~~~~h~~~if~Ls~~LPVviEvVD~eekI~~~l~~l~e 89 (109)
T COG1993 46 IAGFGKDGKIHGSKIFRLSTDLPVVVEVVDEEEKIERFLPELDE 89 (109)
T ss_pred eeccCCCCcccccchhhccCCCCEEEEEeCCHHHHHHHHHHHHH
Confidence 56777776666666766667788899999999999887554444
No 181
>KOG1367 consensus 3-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=26.32 E-value=69 Score=26.87 Aligned_cols=60 Identities=15% Similarity=0.111 Sum_probs=32.2
Q ss_pred CCCChhhhhchhhhCCCCcEEEEeecCCCCCCC-------HHHHH---HHHHcCCeEEEe--ChHHHHHHHHH
Q 033161 47 SEITPNCLSIFQLVRPIPEILILGCGRYIEPVN-------PELRQ---FIRSTGMKLEAI--DSRNAASTYNI 107 (126)
Q Consensus 47 ~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~-------~~~~~---~l~~~GI~vE~m--~T~aAcrTyN~ 107 (126)
-|+.+++.+.|...=. ---.|+=.|..-+|-- .++.+ .+..+|...-+= +|..||+.||.
T Consensus 312 LD~GPes~k~fa~~v~-~aKtIvWNGP~GvfE~~~Fa~GTeal~d~~v~~t~~G~~tiiGGGDTata~~k~g~ 383 (416)
T KOG1367|consen 312 LDIGPESIKMFAEAVA-TAKTIVWNGPPGVFEFEKFAAGTEALMDALVKLTGKGVTTIIGGGDTATACKKFGT 383 (416)
T ss_pred cccChHHHHHHHHHHh-hhhEEEecCCCcccchhhhhhhHHHHHHHHHHHhcCCcEEEEcCCcHHHHHHHhCc
Confidence 4677777775432211 2234444555533221 22222 334466655554 99999999995
No 182
>PRK06242 flavodoxin; Provisional
Probab=25.99 E-value=78 Score=21.78 Aligned_cols=58 Identities=14% Similarity=0.173 Sum_probs=34.7
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHc----CCeEEEeCh-----HHHHHHHHHhhh-ccceeEEEee
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRST----GMKLEAIDS-----RNAASTYNILNE-EGRIVAAALL 120 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~----GI~vE~m~T-----~aAcrTyN~L~s-EgR~VaaaLl 120 (126)
..|.||+|+--....+++.+++++.+. |-.+=+..| ..+.+.+...+. -|-++.+.+.
T Consensus 43 ~~d~ii~g~pvy~~~~~~~~~~fl~~~~~~~~k~~~~f~t~g~~~~~~~~~l~~~l~~~g~~~~~~~~ 110 (150)
T PRK06242 43 EYDLIGFGSGIYFGKFHKSLLKLIEKLPPVSGKKAFIFSTSGLPFLKYHKALKKKLKEKGFEIVGEFS 110 (150)
T ss_pred HCCEEEEeCchhcCCcCHHHHHHHHhhhhhcCCeEEEEECCCCCcchHHHHHHHHHHHCCCEEEEEEe
Confidence 478999999877677888888877542 434433311 223455544443 3556655544
No 183
>PRK14994 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional
Probab=25.91 E-value=1.6e+02 Score=23.53 Aligned_cols=67 Identities=18% Similarity=0.214 Sum_probs=46.3
Q ss_pred chhhhCCCCcEEEEe-ecCC-CCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhh--ccceeEEEeecC
Q 033161 56 IFQLVRPIPEILILG-CGRY-IEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNE--EGRIVAAALLPY 122 (126)
Q Consensus 56 ~l~~l~~~pevliiG-TG~~-~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~s--EgR~VaaaLl~~ 122 (126)
.++.+..+-++.++. -|.. .--+...+.+.++++||.+++.+=..|.-+--.+.. ..|..-..++|.
T Consensus 77 i~~~l~~G~~ValvSdaGdP~I~dpg~~Lv~~~~~~gi~v~vIPGiSA~~aA~a~sG~~~~~f~f~Gflp~ 147 (287)
T PRK14994 77 LLAKLQEGQNIALVSDAGTPLINDPGYHLVRTCREAGIRVVPLPGPCAAITALSAAGLPSDRFCYEGFLPA 147 (287)
T ss_pred HHHHHHCCCeEEEEccCCCCceeCCHHHHHHHHHHCCCCEEEeCCHHHHHHHHHHcCCCCCcceEeEECCC
Confidence 334556678888887 7877 446778899999999999999987766655443332 245555555664
No 184
>cd04937 ACT_AKi-DapG-BS_2 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI. This CD includes the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) strain 168), Clostridia, and Actinobacteria bacterial species. In B. subtilis, the regulation of the diaminopimelate-lysine biosynthetic pathway involves dual control by diaminopimelate and lysine, effected through separate diaminopimelate- and lysine-sensitive AK isoenzymes. AKI activity is invariant during the exponential and stationary phases of growth and is not altered by addition of amino acids to the growth medium. The role of this isoenzyme is most likely to provide a constant level of aspartyl-beta-phosphate for the biosynthesis of diaminopimelate for peptidoglycan synthesis and dipicolinate during sporulation. The BS AKI is tetrameric consisting of two alpha and two beta subunits; th
Probab=25.85 E-value=1e+02 Score=18.27 Aligned_cols=31 Identities=13% Similarity=0.217 Sum_probs=22.0
Q ss_pred EEEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 033161 67 LILGCGRY-IEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 67 liiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
=++|.|.. ..-+..++.+.|.+.||.+....
T Consensus 5 svvG~~~~~~~gi~~~if~aL~~~~I~v~~~~ 36 (64)
T cd04937 5 TIIGSRIRGVPGVMAKIVGALSKEGIEILQTA 36 (64)
T ss_pred EEECCCccCCcCHHHHHHHHHHHCCCCEEEEE
Confidence 46777775 34566778888888888886544
No 185
>cd01829 SGNH_hydrolase_peri2 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=25.82 E-value=1.9e+02 Score=20.55 Aligned_cols=15 Identities=13% Similarity=0.355 Sum_probs=12.4
Q ss_pred hCCCCcEEEEeecCC
Q 033161 60 VRPIPEILILGCGRY 74 (126)
Q Consensus 60 l~~~pevliiGTG~~ 74 (126)
.+.+||+++|--|.+
T Consensus 56 ~~~~pd~vii~~G~N 70 (200)
T cd01829 56 AEEKPDVVVVFLGAN 70 (200)
T ss_pred hcCCCCEEEEEecCC
Confidence 456899999988887
No 186
>PF01488 Shikimate_DH: Shikimate / quinate 5-dehydrogenase; InterPro: IPR006151 This entry represents a domain found in shikimate and quinate dehydrogenases, as well as glutamyl-tRNA reductases. Shikimate 5-dehydrogenase (1.1.1.25 from EC) catalyses the conversion of shikimate to 5-dehydroshikimate [, ]. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids []. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites, 3-dehydroquinate and dehydroshikimate. Glutamyl-tRNA reductase (1.2.1.70 from EC) catalyzes the first step of tetrapyrrole biosynthesis in plants, archaea and most bacteria. The dimeric enzyme has an unusual V-shaped architecture where each monomer consists of three domains linked by a long 'spinal' alpha-helix. The central catalytic domain specifically recognises the glutamate moiety of the substrate []. ; PDB: 2EV9_B 2CY0_B 1WXD_A 2D5C_A 1NVT_B 2EGG_A 3PWZ_A 3DOO_A 3DON_A 3FBT_C ....
Probab=25.78 E-value=2e+02 Score=19.81 Aligned_cols=42 Identities=14% Similarity=0.269 Sum_probs=30.5
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCe-EEEe--ChHHHHHHHHHh
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMK-LEAI--DSRNAASTYNIL 108 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~-vE~m--~T~aAcrTyN~L 108 (126)
+-.++|||+|.. ...+..+|.++|+. +-+. +...|-+..+.+
T Consensus 12 ~~~vlviGaGg~----ar~v~~~L~~~g~~~i~i~nRt~~ra~~l~~~~ 56 (135)
T PF01488_consen 12 GKRVLVIGAGGA----ARAVAAALAALGAKEITIVNRTPERAEALAEEF 56 (135)
T ss_dssp TSEEEEESSSHH----HHHHHHHHHHTTSSEEEEEESSHHHHHHHHHHH
T ss_pred CCEEEEECCHHH----HHHHHHHHHHcCCCEEEEEECCHHHHHHHHHHc
Confidence 578999999984 45888899999998 6666 334455555554
No 187
>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=25.68 E-value=96 Score=18.85 Aligned_cols=34 Identities=15% Similarity=0.295 Sum_probs=23.8
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHc-CCeEEEeChHH
Q 033161 66 ILILGCGRYIEPVNPELRQFIRST-GMKLEAIDSRN 100 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~-GI~vE~m~T~a 100 (126)
+.++|+|. ...+...+...|.+. |+.++.++...
T Consensus 1 i~i~g~G~-s~~~a~~~~~~l~~~~~~~~~~~~~~~ 35 (87)
T cd04795 1 IFVIGIGG-SGAIAAYFALELLELTGIEVVALIATE 35 (87)
T ss_pred CEEEEcCH-HHHHHHHHHHHHhcccCCceEEeCCcH
Confidence 35788884 334556677777777 99998887544
No 188
>PF04199 Cyclase: Putative cyclase; InterPro: IPR007325 Proteins in this family are thought to be cyclase enzymes. They are found in proteins involved in antibiotic synthesis. However they are also found in organisms that do not make antibiotics pointing to a wider role for these proteins. The proteins contain a conserved motif HXGTHXDXPXH that is likely to form a part of the active site.; PDB: 2B0A_A 3KRV_A 1R61_A.
Probab=25.63 E-value=29 Score=24.90 Aligned_cols=54 Identities=20% Similarity=0.247 Sum_probs=31.9
Q ss_pred CCCCChhhhhch-hh---hCCCCcEEEEeecC-C-C------------CCCCHHHHHHHHHcCCeEEEeChH
Q 033161 46 FSEITPNCLSIF-QL---VRPIPEILILGCGR-Y-I------------EPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 46 ~~~i~~~~l~~l-~~---l~~~pevliiGTG~-~-~------------~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
...++.++++.. +. --++.|+|+|=||- . . --++++..++|.++|+..--.||.
T Consensus 94 ~~~It~~dl~~~~~~~~~~i~~gdivlirTG~~~~~~~~~~~~y~~~~p~ls~eaa~~L~~~~v~~vG~D~~ 165 (171)
T PF04199_consen 94 GEAITAEDLEAAWEAQGVEIRPGDIVLIRTGWNDKRWEMGTEEYFNDFPGLSPEAAEWLAERGVKAVGIDTP 165 (171)
T ss_dssp -SEE-HHHHTT------S---TTSEEEEE-CG-GGGT--TSGCGGCT--EE-HCCHHHHHHCT-SEEEESSS
T ss_pred CceEcHHHHHhhhcccccccCCCcEEEEECCchhhhcccCCHhHccCCCcCCHHHHHHHHHCCCCEEEECCC
Confidence 456788888732 10 11468999999997 2 1 135678889999999887776654
No 189
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=25.62 E-value=1.7e+02 Score=22.11 Aligned_cols=38 Identities=16% Similarity=0.350 Sum_probs=28.9
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC-hHHHHHHH
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID-SRNAASTY 105 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~-T~aAcrTy 105 (126)
++..+|++|+|... -..+|.++|..|.-.| .+.|++.+
T Consensus 37 ~~~rvL~~gCG~G~------da~~LA~~G~~V~avD~s~~Ai~~~ 75 (218)
T PRK13255 37 AGSRVLVPLCGKSL------DMLWLAEQGHEVLGVELSELAVEQF 75 (218)
T ss_pred CCCeEEEeCCCChH------hHHHHHhCCCeEEEEccCHHHHHHH
Confidence 45689999999973 2346778999888885 56788875
No 190
>PRK09756 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=25.57 E-value=1.5e+02 Score=21.52 Aligned_cols=28 Identities=4% Similarity=0.054 Sum_probs=23.0
Q ss_pred HcCCeEEEeChHHHHHHHHHhhhccceeE
Q 033161 88 STGMKLEAIDSRNAASTYNILNEEGRIVA 116 (126)
Q Consensus 88 ~~GI~vE~m~T~aAcrTyN~L~sEgR~Va 116 (126)
-.|+.+.+.+...|...+|. ..++++|-
T Consensus 56 P~gvk~~i~sv~~a~~~l~~-~~~~~~vl 83 (158)
T PRK09756 56 TYGFGIRFFTIEKTINVIGK-AAPHQKIF 83 (158)
T ss_pred CCCCEEEEEEHHHHHHHHHh-ccCCceEE
Confidence 36889999999999999998 55666664
No 191
>PRK07846 mycothione reductase; Reviewed
Probab=25.56 E-value=3.1e+02 Score=22.90 Aligned_cols=76 Identities=14% Similarity=0.189 Sum_probs=39.7
Q ss_pred cCCcEEEc-CEEEeecEEEeCCccccCCC--CCCC---CCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHc
Q 033161 16 ASKGFTVN-GVQYEGSLLCIGNLLLSWTP--KKFS---EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRST 89 (126)
Q Consensus 16 ~~g~~~I~-g~~y~g~vi~~~~~v~~W~~--~~~~---~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~ 89 (126)
+...+.++ |+.+..+-++.-.+..++.+ .... -.+.+++..+.. .+-.++|+|.|.. .-++...|++.
T Consensus 115 ~~~~V~v~~g~~~~~d~lViATGs~p~~p~i~g~~~~~~~~~~~~~~l~~--~~~~vvIIGgG~i----G~E~A~~l~~~ 188 (451)
T PRK07846 115 GPKTLRTGDGEEITADQVVIAAGSRPVIPPVIADSGVRYHTSDTIMRLPE--LPESLVIVGGGFI----AAEFAHVFSAL 188 (451)
T ss_pred cCCEEEECCCCEEEeCEEEEcCCCCCCCCCCCCcCCccEEchHHHhhhhh--cCCeEEEECCCHH----HHHHHHHHHHc
Confidence 45556664 56676664444222222211 1111 124444332222 1247999999854 34667777888
Q ss_pred CCeEEEeC
Q 033161 90 GMKLEAID 97 (126)
Q Consensus 90 GI~vE~m~ 97 (126)
|..|.+..
T Consensus 189 G~~Vtli~ 196 (451)
T PRK07846 189 GVRVTVVN 196 (451)
T ss_pred CCeEEEEE
Confidence 88777663
No 192
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=25.54 E-value=56 Score=24.17 Aligned_cols=38 Identities=16% Similarity=0.148 Sum_probs=30.0
Q ss_pred hhCCCCcEEEEeecCC-CCCCCHHHHHHHHHcCCeEEEeChHH
Q 033161 59 LVRPIPEILILGCGRY-IEPVNPELRQFIRSTGMKLEAIDSRN 100 (126)
Q Consensus 59 ~l~~~pevliiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~T~a 100 (126)
...+..|.+++-||.. .. .+.+.++.+|..+++..+..
T Consensus 106 ~~~~~~D~ivl~SgD~DF~----p~v~~~~~~G~rv~v~~~~~ 144 (181)
T COG1432 106 ADKKNVDTIVLFSGDGDFI----PLVEAARDKGKRVEVAGIEP 144 (181)
T ss_pred hcccCCCEEEEEcCCccHH----HHHHHHHHcCCEEEEEecCC
Confidence 3345899999999998 32 23888999999999997765
No 193
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=25.54 E-value=83 Score=20.94 Aligned_cols=49 Identities=8% Similarity=0.108 Sum_probs=27.5
Q ss_pred CCCChhhhhchhhhCCCCcEEEEeecCCC-CCCCHHHHHHHHHcCC-eEEEe
Q 033161 47 SEITPNCLSIFQLVRPIPEILILGCGRYI-EPVNPELRQFIRSTGM-KLEAI 96 (126)
Q Consensus 47 ~~i~~~~l~~l~~l~~~pevliiGTG~~~-~~~~~~~~~~l~~~GI-~vE~m 96 (126)
.+++.+++.. .+.+.+||+|.|.+-... ...-+++.+.+++.+- .+-++
T Consensus 35 ~~~~~~~l~~-~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~ 85 (119)
T cd02067 35 VDVPPEEIVE-AAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVL 85 (119)
T ss_pred CCCCHHHHHH-HHHHcCCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEE
Confidence 4455555543 234567888887765442 2333666677777654 44444
No 194
>TIGR01835 HMG-CoA-S_prok 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade. This clade of hydroxymethylglutaryl-CoA (HMG-CoA) synthases is found in a limited spectrum of mostly gram-positive bacteria which make isopentenyl pyrophosphate (IPP) via the mevalonate pathway. This pathway is found primarily in eukaryotes and archaea, but the bacterial homologs are distinct, having aparrently diverged after being laterally transferred from an early eukaryote. HMG-CoA synthase is the first step in the pathway and joins acetyl-CoA with acetoacetyl-CoA with the release of one molecule of CoA. The Borellia sequence may have resulted from a separate lateral transfer event.
Probab=25.51 E-value=92 Score=25.54 Aligned_cols=43 Identities=12% Similarity=0.253 Sum_probs=29.0
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHH-HcCCe--EEEeChHHHHHHHH
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIR-STGMK--LEAIDSRNAASTYN 106 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~-~~GI~--vE~m~T~aAcrTyN 106 (126)
.+|.|++||-..... ++....++. ..|+. +..++..+||..+-
T Consensus 68 ~Id~li~~t~s~~~~-~~s~a~~v~~~Lgl~~~~~~~dv~~aC~gg~ 113 (379)
T TIGR01835 68 KIDMVIFGTESGIDQ-SKAAAVYVHGLLGLQPFCRSFELKQACYGAT 113 (379)
T ss_pred hCCEEEEEeCCCCCC-CCCHHHHHHHHhCCCCCceEEEeccccHHHH
Confidence 689999999666533 333444444 35764 67888999998763
No 195
>PRK00147 queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=25.49 E-value=2.1e+02 Score=23.75 Aligned_cols=43 Identities=19% Similarity=0.290 Sum_probs=33.8
Q ss_pred CCCCHHHHHHHHHcCCeEEEeC----------------------------hHHHHHHHHHhhhccceeEEE
Q 033161 76 EPVNPELRQFIRSTGMKLEAID----------------------------SRNAASTYNILNEEGRIVAAA 118 (126)
Q Consensus 76 ~~~~~~~~~~l~~~GI~vE~m~----------------------------T~aAcrTyN~L~sEgR~Vaaa 118 (126)
+..++++.+.|+++||.+.... ++++++.-|.-.++|+||.|.
T Consensus 183 LHFt~~ll~~L~~kGv~~a~vTLHVG~GTF~PV~~edi~~H~mH~E~~~I~~~ta~~i~~ak~~G~rIiAV 253 (342)
T PRK00147 183 LHFTEELLEKLKAKGVEIAFVTLHVGAGTFRPVRVEDIEEHKMHSEWYEVPQETADAINAAKARGGRVIAV 253 (342)
T ss_pred cCCCHHHHHHHHHCCCcEEEEEEeecCCCCcCcccCccccCCcccEEEEECHHHHHHHHHHHHcCCeEEEE
Confidence 4678999999999998765442 457888888888899998873
No 196
>PLN02225 1-deoxy-D-xylulose-5-phosphate synthase
Probab=25.31 E-value=36 Score=30.90 Aligned_cols=39 Identities=13% Similarity=0.315 Sum_probs=29.2
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
++....|+.||++|... ...-+..+.|++.||.+++.+.
T Consensus 563 vlreG~dvtIia~G~mv-~~Al~AA~~L~~~GI~vtVIdl 601 (701)
T PLN02225 563 VLVEGQDVALLGYGAMV-QNCLHAHSLLSKLGLNVTVADA 601 (701)
T ss_pred EEEeCCCEEEEeccHHH-HHHHHHHHHHHhcCCCEEEEec
Confidence 45567899999999753 2344556788899999999854
No 197
>PRK12404 stage V sporulation protein AD; Provisional
Probab=25.27 E-value=52 Score=27.28 Aligned_cols=42 Identities=14% Similarity=-0.098 Sum_probs=29.7
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhh
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILN 109 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~ 109 (126)
.+|+++.|+=..+..++. -..+..||. .++..+||.|+-.-+
T Consensus 75 DID~i~vGdL~nQ~ipss---fvar~LGIP--~~gV~gACSTg~eAL 116 (334)
T PRK12404 75 DIQFFLAGDLMNQITPTS---FAARTLGIP--YLGLFGACSTSMEGL 116 (334)
T ss_pred HCCEEEEEecCCCcCcHH---HHHHHhCCC--ccceeecCHHHHHHH
Confidence 489999999775544443 333566655 499999999987544
No 198
>cd06063 H2MP_Cyano-H2up This group of endopeptidases include HupW enzymes that are specific to the cyanobacterial hydrogenase and are involved in the C-terminal cleavage of the hydrogenase large subunit precursor protein. Cyanobacterial nickel-iron (NiFe)-hydrogenases are found exclusively in the N2-fixing strains and are encoded by hup (hydrogen uptake) genes. These uptake hydrogenases are heterodimers with a large (hupL) and small subunit (hupS) and catalyze the consumption of the H2 produced during N2 fixation. Sequence similarity shows that the putative metal-binding resides are well conserved in this group of hydrogen maturation proteases. This group also includes such proteins as the hydrogenase III from Aquifex aeolicus.
Probab=25.13 E-value=1.2e+02 Score=21.28 Aligned_cols=37 Identities=24% Similarity=0.467 Sum_probs=26.2
Q ss_pred EEEEeecCCCC---CCCHHHHHHHHHcCC--eEEEeChHHHH
Q 033161 66 ILILGCGRYIE---PVNPELRQFIRSTGM--KLEAIDSRNAA 102 (126)
Q Consensus 66 vliiGTG~~~~---~~~~~~~~~l~~~GI--~vE~m~T~aAc 102 (126)
++|+|.|+..+ -+-+.+.++|++... ++++++-....
T Consensus 1 ~lVlGiGN~L~~DDG~G~~v~~~L~~~~~~~~v~~id~gt~~ 42 (146)
T cd06063 1 LTIIGCGNLNRGDDGVGPILIRRLQAYLLPPHVRLVDCGTAG 42 (146)
T ss_pred CEEEEECCcccccCcHHHHHHHHHhhcCCCCCeEEEECCCCH
Confidence 47899999865 377888888887643 37777654443
No 199
>PRK11425 PTS system N-acetylgalactosamine-specific transporter subunit IIB; Provisional
Probab=25.07 E-value=1.7e+02 Score=21.30 Aligned_cols=35 Identities=6% Similarity=0.159 Sum_probs=25.9
Q ss_pred HHHHHHHHcCCeEEEeChHHHHHHHHHhhhccceeE
Q 033161 81 ELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVA 116 (126)
Q Consensus 81 ~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR~Va 116 (126)
.+.....-.|+.+.+++.+.|.+.+|. ..++++|-
T Consensus 46 ~~l~ma~P~gvk~~i~sv~~a~~~l~~-~~~~~~v~ 80 (157)
T PRK11425 46 NLMEMVLAEGIAVRFWTLQKVIDNIHR-AADRQKIL 80 (157)
T ss_pred HHHHhhCCCCCeEEEEEHHHHHHHHhc-cCCCceEE
Confidence 333333347999999999999999998 55666654
No 200
>cd04868 ACT_AK-like ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes each of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). Typically, AK consists of two ACT domains in a tandem repeat, but the second ACT domain is inserted within the first, resulting in, what is normally the terminal beta strand of ACT2, formed from a region N-terminal of ACT1. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Aspartokinase is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of aspartokinase with different repressors and allosteric inhibitors. Pairs of ACT domains are proposed to specifically bind am
Probab=25.01 E-value=95 Score=16.83 Aligned_cols=21 Identities=10% Similarity=0.317 Sum_probs=13.8
Q ss_pred CHHHHHHHHHcCCeEEEeChH
Q 033161 79 NPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 79 ~~~~~~~l~~~GI~vE~m~T~ 99 (126)
..++.+.|.+.||.+..+.+.
T Consensus 17 ~~~i~~~l~~~~i~i~~i~~~ 37 (60)
T cd04868 17 AAKIFSALAEAGINVDMISQS 37 (60)
T ss_pred HHHHHHHHHHCCCcEEEEEcC
Confidence 345666777777777776554
No 201
>PRK06718 precorrin-2 dehydrogenase; Reviewed
Probab=24.94 E-value=68 Score=24.07 Aligned_cols=44 Identities=20% Similarity=0.279 Sum_probs=25.9
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhcc
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEG 112 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEg 112 (126)
=-+||+|.|.-. ....+.|.+.|..+.+.+ +..|+....+..++
T Consensus 11 k~vLVIGgG~va----~~ka~~Ll~~ga~V~VIs-~~~~~~l~~l~~~~ 54 (202)
T PRK06718 11 KRVVIVGGGKVA----GRRAITLLKYGAHIVVIS-PELTENLVKLVEEG 54 (202)
T ss_pred CEEEEECCCHHH----HHHHHHHHHCCCeEEEEc-CCCCHHHHHHHhCC
Confidence 367888888642 344556777777777774 34444444444443
No 202
>TIGR01465 cobM_cbiF precorrin-4 C11-methyltransferase. This model represents precorrin-4 C11-methyltransferase, one of two methyltransferases commonly referred to as precorrin-3 methylase (the other is precorrin-3B C17-methyltransferase, EC 2.1.1.131). This enzyme participates in the pathway toward the biosynthesis of cobalamin and related products.
Probab=24.91 E-value=1.8e+02 Score=21.60 Aligned_cols=37 Identities=19% Similarity=0.152 Sum_probs=29.6
Q ss_pred CCCCcEEEEeecCCCCC-CCHHHHHHHHHcCCeEEEeC
Q 033161 61 RPIPEILILGCGRYIEP-VNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~-~~~~~~~~l~~~GI~vE~m~ 97 (126)
..+-+++++-+|....+ ....+.+.+++.|+.+|+.+
T Consensus 69 ~~g~~V~~L~~GDP~~~~~~~~l~~~~~~~g~~veviP 106 (229)
T TIGR01465 69 REGKLVVRLHTGDPSIYGAIAEQMQLLEALGIPYEVVP 106 (229)
T ss_pred HCCCeEEEEeCcCccccccHHHHHHHHHHCCCCEEEEC
Confidence 44558999999999554 55777889999999999995
No 203
>PF05240 APOBEC_C: APOBEC-like C-terminal domain; InterPro: IPR007904 This domain is found at the C terminus of the Apolipoprotein B mRNA editing enzyme. Apobec-1 catalyzes C to U editing of apolipoprotein B (apoB) mRNA in the mammalian intestine. C to U RNA editing of mammalian apolipoprotein B (apoB) RNA is a site-specific posttranscriptional modification in which a single cytidine is enzymatically deaminated to uridine, thereby generating a UAA stop codon in the edited mRNA. The function of this domain is currently unknown.; GO: 0008270 zinc ion binding, 0016814 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines; PDB: 2NYT_D.
Probab=24.89 E-value=1.7e+02 Score=17.79 Aligned_cols=27 Identities=4% Similarity=0.058 Sum_probs=17.8
Q ss_pred HHHHHHcCCeEEEeChHHHHHHHHHhh
Q 033161 83 RQFIRSTGMKLEAIDSRNAASTYNILN 109 (126)
Q Consensus 83 ~~~l~~~GI~vE~m~T~aAcrTyN~L~ 109 (126)
...|.+.|+.|.+|+-++=+--++--+
T Consensus 8 Lr~L~~aG~~v~iM~~~eF~~CW~nFV 34 (55)
T PF05240_consen 8 LRRLCQAGAQVSIMTYSEFQYCWENFV 34 (55)
T ss_dssp HHHHHHTT-EEEE--HHHHHHHHHHCB
T ss_pred HHHHHHCCCeEEecCcHHHHHHHHHHh
Confidence 456778999999999888777765443
No 204
>TIGR00130 frhD coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit). FrhD is not part of the active FRH heterotrimer, but is probably a protease required for maturation. Alternative name: 8-hydroxy-5-deazaflavin (F420) reducing hydrogenase (FRH) subunit delta.
Probab=24.85 E-value=2.1e+02 Score=20.26 Aligned_cols=42 Identities=12% Similarity=0.123 Sum_probs=28.6
Q ss_pred CCCCCChhhhhchhhhCCCCcEEEEeecCC-C------CCCCHHHHHHHHH
Q 033161 45 KFSEITPNCLSIFQLVRPIPEILILGCGRY-I------EPVNPELRQFIRS 88 (126)
Q Consensus 45 ~~~~i~~~~l~~l~~l~~~pevliiGTG~~-~------~~~~~~~~~~l~~ 88 (126)
+.|+++..++- ..+...++++++|.-.. . ..+++++++.+.+
T Consensus 94 s~H~~~l~~~l--~~l~~~~~~~iiGi~p~~~~~~~~~~~LS~~v~~a~~~ 142 (153)
T TIGR00130 94 DAHGWSLAYPL--HDLEERIDIRVVGCQPKYVSQPDVDIGLTEEVNKAIPR 142 (153)
T ss_pred CCccCCHHHHH--HHhcCCCCEEEEEEEEeEecCCCCCCCCCHHHHHHHHH
Confidence 56777777643 44555689999997332 2 3688999888764
No 205
>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=24.81 E-value=1.3e+02 Score=19.21 Aligned_cols=35 Identities=11% Similarity=0.188 Sum_probs=26.5
Q ss_pred CcEEEEeecCC---CCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 64 PEILILGCGRY---IEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 64 pevliiGTG~~---~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
=.++|+..|.. .-.....++++|.++|+.++..+.
T Consensus 8 ~~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv 45 (90)
T cd03028 8 NPVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDI 45 (90)
T ss_pred CCEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEc
Confidence 35777766532 446778999999999999998763
No 206
>TIGR01457 HAD-SF-IIA-hyp2 HAD-superfamily subfamily IIA hydrolase, TIGR01457. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram positive (low-GC) bacteria. Sequences found in this model are annotated variously as related to NagD or 4-nitrophenyl phosphatase, and this hypothetical equivalog, of all of those within the Class IIA subfamily, is most closely related to the E. coli NagD enzyme and the PGP_euk equivalog (TIGR01452). However, there is presently no evidence that this hypothetical equivalog has the same function of either those.
Probab=24.81 E-value=2.7e+02 Score=21.23 Aligned_cols=61 Identities=7% Similarity=0.009 Sum_probs=35.4
Q ss_pred hhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEE---EeChHHHHHHHHHhhhcccee
Q 033161 54 LSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLE---AIDSRNAASTYNILNEEGRIV 115 (126)
Q Consensus 54 l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE---~m~T~aAcrTyN~L~sEgR~V 115 (126)
.+.+..+..+=--+++-||...+ ....+.+.+++.|+.++ ++....|+..|=.-...+++|
T Consensus 23 ~~~l~~l~~~g~~~~~~Tnn~~r-~~~~~~~~l~~~g~~~~~~~iit~~~~~~~~l~~~~~~~~v 86 (249)
T TIGR01457 23 ETFVHELQKRDIPYLFVTNNSTR-TPESVAEMLASFDIPATLETVFTASMATADYMNDLKLEKTV 86 (249)
T ss_pred HHHHHHHHHCCCeEEEEeCCCCC-CHHHHHHHHHHcCCCCChhhEeeHHHHHHHHHHhcCCCCEE
Confidence 33443443333345555654443 33578888999999887 777777776664332234444
No 207
>cd00862 ProRS_anticodon_zinc ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. 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, and an additional C-terminal zinc-binding domain specific to this subfamily of aaRSs.
Probab=24.71 E-value=66 Score=24.12 Aligned_cols=54 Identities=15% Similarity=0.234 Sum_probs=34.9
Q ss_pred CCcEEEEeecCC------CCCCCHHHHHHHHHcCCeEEEeChH--HHHHHHHHhhhccceeE
Q 033161 63 IPEILILGCGRY------IEPVNPELRQFIRSTGMKLEAIDSR--NAASTYNILNEEGRIVA 116 (126)
Q Consensus 63 ~pevliiGTG~~------~~~~~~~~~~~l~~~GI~vE~m~T~--aAcrTyN~L~sEgR~Va 116 (126)
+.+++|+-.+.. ......++.+.|++.||.+++-+.. .-=..||.--..|=++.
T Consensus 10 P~qVvIipi~~~~~~~~~~~~~a~~i~~~Lr~~Girv~~D~r~~~s~g~K~~~ae~~GvP~~ 71 (202)
T cd00862 10 PIQVVIVPIGIKDEKREEVLEAADELAERLKAAGIRVHVDDRDNYTPGWKFNDWELKGVPLR 71 (202)
T ss_pred CceEEEEEecCCccchHHHHHHHHHHHHHHHHCCCEEEEECCCCCCHhHHHHHHHhCCCCEE
Confidence 367888877655 3455678888999999999996643 33345554433444433
No 208
>PLN02234 1-deoxy-D-xylulose-5-phosphate synthase
Probab=24.68 E-value=39 Score=30.28 Aligned_cols=40 Identities=23% Similarity=0.443 Sum_probs=29.4
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
++..+.|+.||++|.... ..-+..+.|++.||.+++.|..
T Consensus 540 vlreG~dvtIva~G~~v~-~Al~AA~~L~~~GI~v~VId~r 579 (641)
T PLN02234 540 ILRDGERVALLGYGSAVQ-RCLEAASMLSERGLKITVADAR 579 (641)
T ss_pred EEEeCCCEEEEEecHHHH-HHHHHHHHHHhcCCCEEEEecC
Confidence 445678999999998643 2345556788899999997544
No 209
>PTZ00058 glutathione reductase; Provisional
Probab=24.66 E-value=2.7e+02 Score=24.40 Aligned_cols=30 Identities=23% Similarity=0.229 Sum_probs=18.5
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 96 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m 96 (126)
+-.++|+|-|.. .-|+...|...|..|.+.
T Consensus 237 pk~VvIIGgG~i----GlE~A~~l~~~G~~Vtli 266 (561)
T PTZ00058 237 AKRIGIAGSGYI----AVELINVVNRLGAESYIF 266 (561)
T ss_pred CCEEEEECCcHH----HHHHHHHHHHcCCcEEEE
Confidence 346889988853 335555666666666554
No 210
>cd01146 FhuD Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA-like protein is comprised of two globular subdomains connected by a long alpha helix and binds its specific ligands in the cleft between these domains.
Probab=24.62 E-value=2.3e+02 Score=21.11 Aligned_cols=33 Identities=12% Similarity=0.271 Sum_probs=21.2
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
+++-+||++|...+.. +++.+.|++.+..+ +++
T Consensus 61 i~~l~PDlii~~~~~~-----~~~~~~l~~~~p~v-~~~ 93 (256)
T cd01146 61 IAALKPDLILGSASRH-----DEIYDQLSQIAPTV-LLD 93 (256)
T ss_pred HHhcCCCEEEeecccc-----hhHHHHHHhhCCEE-Eec
Confidence 4456799999765432 26777788776444 444
No 211
>TIGR02699 archaeo_AfpA archaeoflavoprotein AfpA. The prototypical member of this archaeal protein family is AF1518 from Archaeoglobus fulgidus. This homodimer with two non-covalently bound FMN cofactors can receive electrons from ferredoxin, but not from a number of other electron donors such as NADH or rubredoxin. It can then donate electrons to various reductases.
Probab=24.54 E-value=60 Score=24.18 Aligned_cols=38 Identities=13% Similarity=0.200 Sum_probs=24.3
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHH
Q 033161 67 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAST 104 (126)
Q Consensus 67 liiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrT 104 (126)
-|.|+|........-+++..++.|..|.+.-|++|.+.
T Consensus 5 gitGsg~~l~e~v~~l~~L~~~~g~eV~vv~S~~A~~v 42 (174)
T TIGR02699 5 GITGSGDKLPETYSIMKDVKNRYGDEIDVFLSKAGEQV 42 (174)
T ss_pred EEEccHHHHHHHHHHHHHHHHhcCCEEEEEECHhHHHH
Confidence 34555555443443344444467999999999999953
No 212
>TIGR02032 GG-red-SF geranylgeranyl reductase family. This model represents a subfamily which includes geranylgeranyl reductases involved in chlorophyll and bacteriochlorophyll biosynthesis as well as other related enzymes which may also act on geranylgeranyl groups or related substrates.
Probab=24.48 E-value=73 Score=23.84 Aligned_cols=32 Identities=9% Similarity=0.314 Sum_probs=20.7
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
.|++|||.|..-. .+...|+++|+.|-+.+-.
T Consensus 1 ~dv~IiGaG~aGl----~~A~~l~~~g~~v~vie~~ 32 (295)
T TIGR02032 1 YDVVVVGAGPAGA----SAAYRLADKGLRVLLLEKK 32 (295)
T ss_pred CCEEEECCCHHHH----HHHHHHHHCCCeEEEEecc
Confidence 3788888887632 3344566778887777544
No 213
>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=24.41 E-value=1.1e+02 Score=21.45 Aligned_cols=49 Identities=6% Similarity=0.188 Sum_probs=32.9
Q ss_pred CCChhhhhchhhhCCCCcEEEEeecCCCCCCC-----------HHHHHHHHHcCCeEEEe
Q 033161 48 EITPNCLSIFQLVRPIPEILILGCGRYIEPVN-----------PELRQFIRSTGMKLEAI 96 (126)
Q Consensus 48 ~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~-----------~~~~~~l~~~GI~vE~m 96 (126)
.+.++.++.|..+..+=-.+++-||....... +.+.+.|.++|+.+.-.
T Consensus 24 ~~~~~~ie~L~~l~~~G~~IiiaTGR~~~~~~~n~~~i~~~~~~~t~~wL~k~~ipYd~l 83 (126)
T TIGR01689 24 APILAVIEKLRHYKALGFEIVISSSRNMRTYEGNVGKINIHTLPIIILWLNQHNVPYDEI 83 (126)
T ss_pred ccCHHHHHHHHHHHHCCCEEEEECCCCchhhhccccccchhhHHHHHHHHHHcCCCCceE
Confidence 35556666554442222348888999866544 68899999999998544
No 214
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=24.39 E-value=2.3e+02 Score=19.66 Aligned_cols=63 Identities=10% Similarity=0.160 Sum_probs=40.4
Q ss_pred hhhCCCCcEEEEeecCCCC-CCCH--HHHHHHHHcCCeEEEe------ChHHHHHHHHHhhhccceeEEEee
Q 033161 58 QLVRPIPEILILGCGRYIE-PVNP--ELRQFIRSTGMKLEAI------DSRNAASTYNILNEEGRIVAAALL 120 (126)
Q Consensus 58 ~~l~~~pevliiGTG~~~~-~~~~--~~~~~l~~~GI~vE~m------~T~aAcrTyN~L~sEgR~VaaaLl 120 (126)
+.+..+.|++||-+..... .... ...+..++.|..+-.. .-.++.++.+.|...|.++.+.++
T Consensus 94 ~~l~~~~D~viid~~g~~~~~~~~~~~~~dl~~~~~~~vilV~~~~~~~~~~~~~~~~~l~~~~~~i~gvv~ 165 (166)
T TIGR00347 94 RTLEQKYDFVLVEGAGGLCVPITEEYTTADLIKLLQLPVILVVRVKLGTINHTLLTVEHARQTGLTLAGVIL 165 (166)
T ss_pred HHHHhcCCEEEEEcCCccccCCCCCCcHHHHHHHhCCCEEEEECCCCcHHHHHHHHHHHHHHCCCCeEEEEe
Confidence 3456779999987765422 2222 2344566667666433 345667888888888888887764
No 215
>PF02547 Queuosine_synth: Queuosine biosynthesis protein; InterPro: IPR003699 This entry represents the queuosine biosynthesis proteins QueA. Queuosine is a hypermodified nucleoside that usually occurs in the first position of the anticodon of tRNAs specifying the amino acids asparagine, aspartate, histidine, and tyrosine. The hypermodified nucleoside is found in bacteria and eukaryotes []. Queuosine is synthesized de novo exclusively in bacteria; for eukaryotes the compound is a nutrient factor. Queuosine biosynthesis protein, or S-adenosylmethionine:tRNA-ribosyltransferase-isomerase (QueA) catalyses the formation of the 2,3-epoxy-4,5-dihydroxycyclopentane ring of the Q precursor epoxyqueuosine (oQ). S-adenosyl-L-methionine (AdoMet) reacts with 7-aminomethyl-7-deazaguanine of tRNA at position 34 to yield adenine, methionine, and a modified tRNA with oQ at position 34. QueA consists of two domains: domain 1 has 3 layers alpha/beta/alpha, while domain 2 is a closed beta-barrel with Greek-key topology [].; GO: 0016740 transferase activity, 0016853 isomerase activity, 0008616 queuosine biosynthetic process; PDB: 1WDI_A 1VKY_B 1YY3_A.
Probab=24.29 E-value=1.4e+02 Score=24.82 Aligned_cols=43 Identities=21% Similarity=0.265 Sum_probs=26.6
Q ss_pred CCCCHHHHHHHHHcCCeEEEe----------------------------ChHHHHHHHHHhhhccceeEEE
Q 033161 76 EPVNPELRQFIRSTGMKLEAI----------------------------DSRNAASTYNILNEEGRIVAAA 118 (126)
Q Consensus 76 ~~~~~~~~~~l~~~GI~vE~m----------------------------~T~aAcrTyN~L~sEgR~Vaaa 118 (126)
+..++++.+.|+++|+.+... =++++|+.-|.-.++||||.|.
T Consensus 183 LHFt~~ll~~l~~kGv~~a~vTLHVG~GTF~pV~~e~i~~H~mh~E~~~I~~~ta~~i~~ak~~G~RViAV 253 (341)
T PF02547_consen 183 LHFTEELLERLKAKGVEIAFVTLHVGLGTFRPVRVEDIEEHKMHSEYYEIPEETAEAINKAKAEGGRVIAV 253 (341)
T ss_dssp GG--HHHHHHHHHHTEEEEEEEEEECGGGG---------------EEEEE-HHHHHHHHHHHHTT--EEEE
T ss_pred CCCCHHHHHHHHHCCCeEEEEEEEeccCcccccCcCcccCCCCcceEEEECHHHHHHHHHHHHhCCcEEEE
Confidence 345677777777777665433 2456778888888899999874
No 216
>TIGR01118 lacA galactose-6-phosphate isomerase, LacA subunit. This family contains members from low GC gram-positive bacteria. Galactose-6-phosphate isomerase is involved in lactose catabolism by the tagatose-6-phosphate pathway.
Probab=24.23 E-value=2.2e+02 Score=20.52 Aligned_cols=32 Identities=13% Similarity=0.359 Sum_probs=22.9
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 67 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 67 liiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
|.||+-..-..+-..++++|+++|..|+-+.+
T Consensus 3 I~IgsDh~G~~lK~~i~~~L~~~G~eV~D~G~ 34 (141)
T TIGR01118 3 IIIGSDLAGKRLKDVIKNFLVDNGFEVIDVTE 34 (141)
T ss_pred EEEEeCcchHHHHHHHHHHHHHCCCEEEEcCC
Confidence 55666555566778888888888887776554
No 217
>COG2248 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=24.21 E-value=2.5e+02 Score=22.82 Aligned_cols=52 Identities=17% Similarity=0.263 Sum_probs=33.4
Q ss_pred CCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccc
Q 033161 48 EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGR 113 (126)
Q Consensus 48 ~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR 113 (126)
-++.+.++ .+++.+|+++|+|--.+.. .|-.+---+.+.+.|..|.+.++.+
T Consensus 188 p~~~~~l~--~i~e~~P~v~ii~GPpty~------------lg~r~~~~~~E~~irNl~~ii~~~~ 239 (304)
T COG2248 188 PINDEALE--FILEKRPDVLIIGGPPTYL------------LGYRVGPKSLEKGIRNLERIIEETN 239 (304)
T ss_pred CCccHHHH--HHHhcCCCEEEecCCchhH------------hhhhcChHHHHHHHHHHHHHHHhCc
Confidence 45667777 4778899999999654411 0111112245678888888888875
No 218
>PRK04940 hypothetical protein; Provisional
Probab=24.04 E-value=82 Score=23.66 Aligned_cols=29 Identities=17% Similarity=0.449 Sum_probs=22.7
Q ss_pred CCCCChhhhhchhhhCCCCc--EEEEeecCCCC
Q 033161 46 FSEITPNCLSIFQLVRPIPE--ILILGCGRYIE 76 (126)
Q Consensus 46 ~~~i~~~~l~~l~~l~~~pe--vliiGTG~~~~ 76 (126)
-.++++++++.|.. .+|+ .+++.||....
T Consensus 108 y~~~~~~h~~eL~~--~~p~r~~vllq~gDEvL 138 (180)
T PRK04940 108 YADIATKCVTNFRE--KNRDRCLVILSRNDEVL 138 (180)
T ss_pred hhhhhHHHHHHhhh--cCcccEEEEEeCCCccc
Confidence 45889999887663 4577 99999999754
No 219
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=24.01 E-value=1.9e+02 Score=22.84 Aligned_cols=51 Identities=16% Similarity=0.190 Sum_probs=35.1
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhcc
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEG 112 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEg 112 (126)
-+||++|.+.-....+=|...++.|.+.++..-+..-..+.+.-..|-.+|
T Consensus 59 ~~pDfvi~isPNpaaPGP~kARE~l~~s~~PaiiigDaPg~~vkdeleeqG 109 (277)
T COG1927 59 FNPDFVIYISPNPAAPGPKKAREILSDSDVPAIIIGDAPGLKVKDELEEQG 109 (277)
T ss_pred cCCCEEEEeCCCCCCCCchHHHHHHhhcCCCEEEecCCccchhHHHHHhcC
Confidence 468888888766666666777788887777777775555666666654444
No 220
>COG1154 Dxs Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]
Probab=23.96 E-value=1.3e+02 Score=27.15 Aligned_cols=40 Identities=18% Similarity=0.417 Sum_probs=30.5
Q ss_pred hhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 58 QLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 58 ~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
+++.+..|++||+.|.-. .....+.+.|.+.||.+-+.|.
T Consensus 496 ~i~~~G~~vail~~G~~~-~~al~vae~L~~~Gi~~TVvd~ 535 (627)
T COG1154 496 ELLKEGEKVAILAFGTML-PEALKVAEKLNAYGISVTVVDP 535 (627)
T ss_pred EEEecCCcEEEEecchhh-HHHHHHHHHHHhcCCCcEEEcC
Confidence 355678999999999753 3455667788899998888764
No 221
>cd00001 PTS_IIB_man PTS_IIB, PTS system, Mannose/sorbose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family is one of four structurally and functionally distinct group IIB PTS system cytoplasmic enzymes, necessary for the uptake of carbohydrates across the cytoplasmic membrane and their phosphorylation. The active site histidine receives a phosphate group from the IIA subunit and transfers it to the substrate.
Probab=23.93 E-value=1.7e+02 Score=21.01 Aligned_cols=36 Identities=19% Similarity=0.204 Sum_probs=26.0
Q ss_pred HHHHHHHHcCCeEEEeChHHHHHHHHHhhhccceeE
Q 033161 81 ELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVA 116 (126)
Q Consensus 81 ~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR~Va 116 (126)
.+.+.-.-.|+.+.+++++.|...+|.-..++.+|-
T Consensus 43 ~~l~ma~P~gvk~~i~sve~a~~~l~~~~~~~~~v~ 78 (151)
T cd00001 43 TLLKLAAPPGVKLRIFTVEKAIEAINSPKYDKQRVF 78 (151)
T ss_pred HHHHhhCCCCCeEEEEEHHHHHHHHhCcCCCCceEE
Confidence 333333347899999999999999997655666654
No 222
>TIGR00521 coaBC_dfp phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic. This model represents a bifunctional enzyme that catalyzes the second and third steps (cysteine ligation, EC 6.3.2.5, and decarboxylation, EC 4.1.1.36) in the biosynthesis of coenzyme A (CoA) from pantothenate in bacteria. In early descriptions of this flavoprotein, a ts mutation in one region of the protein appeared to cause a defect in DNA metaobolism rather than an increased need for the pantothenate precursor beta-alanine. This protein was then called dfp, for DNA/pantothenate metabolism flavoprotein. The authors responsible for detecting phosphopantothenate--cysteine ligase activity suggest renaming this bifunctional protein coaBC for its role in CoA biosynthesis. This enzyme contains the FMN cofactor, but no FAD or pyruvoyl group. The amino-terminal region contains the phosphopantothenoylcysteine decarboxylase activity.
Probab=23.79 E-value=64 Score=26.99 Aligned_cols=44 Identities=20% Similarity=0.150 Sum_probs=36.1
Q ss_pred cEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHh
Q 033161 65 EILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNIL 108 (126)
Q Consensus 65 evliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L 108 (126)
-+++.-||.....-.+++.+.|++.|..|.+.-|++|.+-....
T Consensus 5 ~IllgiTGSiaa~~~~~ll~~L~~~g~~V~vv~T~~A~~fv~~~ 48 (390)
T TIGR00521 5 KILLGVTGGIAAYKTVELVRELVRQGAEVKVIMTEAAKKFITPL 48 (390)
T ss_pred EEEEEEeCHHHHHHHHHHHHHHHhCCCEEEEEECHhHHHHHHHH
Confidence 47778888875555788889999999999999999999876643
No 223
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=23.55 E-value=92 Score=22.07 Aligned_cols=48 Identities=8% Similarity=-0.047 Sum_probs=26.0
Q ss_pred CCChhhhhchhhhCCCCcEEEEeecCC-CCCCCHHHHHHHHHcCC-eEEEe
Q 033161 48 EITPNCLSIFQLVRPIPEILILGCGRY-IEPVNPELRQFIRSTGM-KLEAI 96 (126)
Q Consensus 48 ~i~~~~l~~l~~l~~~pevliiGTG~~-~~~~~~~~~~~l~~~GI-~vE~m 96 (126)
+.+++.+-. ...+.+||+|-+..=.+ .+...+++.+.|+++|+ .+-+|
T Consensus 36 ~v~~e~~v~-aa~~~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~~v~vi 85 (128)
T cd02072 36 LSPQEEFID-AAIETDADAILVSSLYGHGEIDCKGLREKCDEAGLKDILLY 85 (128)
T ss_pred CCCHHHHHH-HHHHcCCCEEEEeccccCCHHHHHHHHHHHHHCCCCCCeEE
Confidence 444454442 34456777777655333 22344667777777776 44444
No 224
>PTZ00175 diphthine synthase; Provisional
Probab=23.40 E-value=1.8e+02 Score=23.03 Aligned_cols=34 Identities=18% Similarity=0.285 Sum_probs=28.7
Q ss_pred CcEEEEeecCCCC-CCCHHHHHHHHHcCCeEEEeC
Q 033161 64 PEILILGCGRYIE-PVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 64 pevliiGTG~~~~-~~~~~~~~~l~~~GI~vE~m~ 97 (126)
=+++++-.|.... -..-++...++++||.+|+.+
T Consensus 77 ~~Vv~L~~GDP~i~~t~~~l~~~~~~~gi~vevIP 111 (270)
T PTZ00175 77 KNVAFLVVGDPFCATTHTDLYLRAKKKGIEVEVIH 111 (270)
T ss_pred CCEEEEECCCCCccCCHHHHHHHHHHCCCcEEEEC
Confidence 4688888998854 567888899999999999997
No 225
>PLN02582 1-deoxy-D-xylulose-5-phosphate synthase
Probab=22.94 E-value=44 Score=30.15 Aligned_cols=40 Identities=15% Similarity=0.311 Sum_probs=29.4
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 033161 59 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 59 ~l~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~ 99 (126)
++....|+.|+++|.... ..-+..+.|++.||.+++.+..
T Consensus 539 vlr~G~dvtIva~G~~v~-~Al~Aa~~L~~~GI~~~VId~~ 578 (677)
T PLN02582 539 ILLEGERVALLGYGTAVQ-SCLAAASLLERHGLSATVADAR 578 (677)
T ss_pred EEEeCCCEEEEeecHHHH-HHHHHHHHHHhcCCCEEEEEcC
Confidence 445568999999997542 3445567788999999998543
No 226
>PF04407 DUF531: Protein of unknown function (DUF531); InterPro: IPR007501 This is a family of hypothetical archaeal proteins.
Probab=22.84 E-value=2.7e+02 Score=20.91 Aligned_cols=50 Identities=22% Similarity=0.339 Sum_probs=35.0
Q ss_pred CCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHH------HHcCCeEEEeCh
Q 033161 46 FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFI------RSTGMKLEAIDS 98 (126)
Q Consensus 46 ~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l------~~~GI~vE~m~T 98 (126)
...++++++.. .++..++=.++||-|.+- +|.++.+.- -.+||.+|...-
T Consensus 104 ~K~i~p~e~a~-~~l~~~s~~~liGLGR~G--LPkei~k~a~yHLDITgkgiSLETCTA 159 (173)
T PF04407_consen 104 KKAISPEEVAE-MALRGKSFLLLIGLGRHG--LPKEIFKMAKYHLDITGKGISLETCTA 159 (173)
T ss_pred CCCCCHHHHHH-HHhcCCceEEEEecCCCC--CcHHHHHhchhceeecCCceeeehhhH
Confidence 34677777764 366789999999999985 566665532 257888876643
No 227
>PRK00048 dihydrodipicolinate reductase; Provisional
Probab=22.67 E-value=1.2e+02 Score=23.55 Aligned_cols=58 Identities=14% Similarity=0.061 Sum_probs=36.4
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccceeEEEeecCcc
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALLPYGV 124 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEgR~VaaaLl~~~~ 124 (126)
++|++|.-|-.. ...+......++|+.+-+-+|.-.....+.|....+++ ..++.+++
T Consensus 60 ~~DvVid~t~p~---~~~~~~~~al~~G~~vvigttG~s~~~~~~l~~aa~~~-~v~~s~n~ 117 (257)
T PRK00048 60 DADVLIDFTTPE---ATLENLEFALEHGKPLVIGTTGFTEEQLAELEEAAKKI-PVVIAPNF 117 (257)
T ss_pred CCCEEEECCCHH---HHHHHHHHHHHcCCCEEEECCCCCHHHHHHHHHHhcCC-CEEEECcc
Confidence 699999877222 22566677778999999888655555566555433443 34444443
No 228
>PRK13303 L-aspartate dehydrogenase; Provisional
Probab=22.66 E-value=1.1e+02 Score=23.86 Aligned_cols=37 Identities=16% Similarity=0.165 Sum_probs=28.7
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 033161 61 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 100 (126)
Q Consensus 61 ~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~a 100 (126)
.++||+++.-|+... +.+....+-++|+.+-++++.+
T Consensus 59 ~~~~DvVve~t~~~~---~~e~~~~aL~aGk~Vvi~s~~A 95 (265)
T PRK13303 59 PQRPDLVVECAGHAA---LKEHVVPILKAGIDCAVISVGA 95 (265)
T ss_pred ccCCCEEEECCCHHH---HHHHHHHHHHcCCCEEEeChHH
Confidence 577999999998762 2566666667899999998763
No 229
>COG1233 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.64 E-value=1.1e+02 Score=26.02 Aligned_cols=31 Identities=13% Similarity=0.412 Sum_probs=26.2
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
..|++|||-|-+-. ....+|.++|..|.+.-
T Consensus 3 ~~dvvVIGaG~~GL----~aAa~LA~~G~~V~VlE 33 (487)
T COG1233 3 MYDVVVIGAGLNGL----AAAALLARAGLKVTVLE 33 (487)
T ss_pred CccEEEECCChhHH----HHHHHHHhCCCEEEEEE
Confidence 47999999999843 67889999999998873
No 230
>KOG0732 consensus AAA+-type ATPase containing the bromodomain [Posttranslational modification, protein turnover, chaperones]
Probab=22.58 E-value=57 Score=31.12 Aligned_cols=57 Identities=12% Similarity=0.233 Sum_probs=36.7
Q ss_pred eecEEEeCCccc-------cCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHH
Q 033161 28 EGSLLCIGNLLL-------SWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQ 84 (126)
Q Consensus 28 ~g~vi~~~~~v~-------~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~ 84 (126)
+++.|++.+.+. .|..+..+.+-.-.|.++.-++.+..|++||.+.+.--++|+++.
T Consensus 362 ~qPSIIffdeIdGlapvrSskqEqih~SIvSTLLaLmdGldsRgqVvvigATnRpda~dpaLRR 425 (1080)
T KOG0732|consen 362 TQPSIIFFDEIDGLAPVRSSKQEQIHASIVSTLLALMDGLDSRGQVVVIGATNRPDAIDPALRR 425 (1080)
T ss_pred cCceEEeccccccccccccchHHHhhhhHHHHHHHhccCCCCCCceEEEcccCCccccchhhcC
Confidence 355566655443 444444445555556666677789999999999876666665543
No 231
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.
Probab=22.56 E-value=64 Score=25.87 Aligned_cols=67 Identities=16% Similarity=0.266 Sum_probs=38.5
Q ss_pred CCCCChhhhhch--hhh-CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhcc
Q 033161 46 FSEITPNCLSIF--QLV-RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEG 112 (126)
Q Consensus 46 ~~~i~~~~l~~l--~~l-~~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L~sEg 112 (126)
...+++++++.. ..+ +-+||++|+..-....+=|...++.+.++|+..-+..-..+-+.-.-|-++|
T Consensus 39 GaKm~pe~~e~~~~~~~~~~~pdf~I~isPN~~~PGP~~ARE~l~~~~iP~IvI~D~p~~k~kd~l~~~g 108 (276)
T PF01993_consen 39 GAKMGPEDVEEVVTKMLKEWDPDFVIVISPNAAAPGPTKAREMLSAKGIPCIVISDAPTKKAKDALEEEG 108 (276)
T ss_dssp ET--SHHHHHHHHHHHHHHH--SEEEEE-S-TTSHHHHHHHHHHHHSSS-EEEEEEGGGGGGHHHHHHTT
T ss_pred CCCCCHHHHHHHHHHHHHhhCCCEEEEECCCCCCCCcHHHHHHHHhCCCCEEEEcCCCchhhHHHHHhcC
Confidence 466777766521 122 3469998888766666666778899999999988885444444445555554
No 232
>PF03433 EspA: EspA-like secreted protein ; InterPro: IPR005095 EspA is the prototypical member of this family. EspA, together with EspB, EspD and Tir are exported by a type III secretion system. These proteins are essential for attaching and effacing lesion formation. EspA is a structural protein and a major component of a large, transiently expressed, filamentous surface organelle which forms a direct link between the bacterium and the host cell [, ].; PDB: 1XOU_A.
Probab=22.49 E-value=29 Score=26.47 Aligned_cols=26 Identities=15% Similarity=0.485 Sum_probs=0.0
Q ss_pred CCCCCHHHHHHHHHcCCeEEEeChHH
Q 033161 75 IEPVNPELRQFIRSTGMKLEAIDSRN 100 (126)
Q Consensus 75 ~~~~~~~~~~~l~~~GI~vE~m~T~a 100 (126)
...+|+++.+|.+++||.|.=|+-..
T Consensus 96 k~~lp~dVi~Ym~~ngI~VdG~si~~ 121 (188)
T PF03433_consen 96 KAPLPDDVIDYMRDNGIKVDGKSIDD 121 (188)
T ss_dssp --------------------------
T ss_pred cccCCHHHHHHHHHcCCeecCeeccc
Confidence 56899999999999999998776544
No 233
>PF02645 DegV: Uncharacterised protein, DegV family COG1307; InterPro: IPR003797 This family of proteins is related to DegV of Bacillus subtilis and includes paralogous sets in several species (B. subtilis, Deinococcus radiodurans, Mycoplasma pneumoniae) that are closer in percent identity to each other than to most homologs from other species. This suggests both recent paralogy and diversity of function.; PDB: 2DT8_A 3LUP_A 3NYI_B 3PL5_A 1PZX_B 1MGP_A 1VPV_B 3FYS_A 3EGL_C 3JR7_A ....
Probab=22.48 E-value=20 Score=28.12 Aligned_cols=92 Identities=14% Similarity=0.195 Sum_probs=53.2
Q ss_pred cEEEcCEEEeecEEEeCCccccCC--CC---CCCCCChhhhh-chhh-hCCCCc-EEEEeecCCCCCCCHHHHHHHHHc-
Q 033161 19 GFTVNGVQYEGSLLCIGNLLLSWT--PK---KFSEITPNCLS-IFQL-VRPIPE-ILILGCGRYIEPVNPELRQFIRST- 89 (126)
Q Consensus 19 ~~~I~g~~y~g~vi~~~~~v~~W~--~~---~~~~i~~~~l~-~l~~-l~~~pe-vliiGTG~~~~~~~~~~~~~l~~~- 89 (126)
.+.++|+.|...+=+.++..+..- .. ..+..+++++. .++- +..+.| +|.|......--.-.....+.+..
T Consensus 28 ~i~~~~~~y~D~~~i~~~efy~~l~~~~~~p~TS~ps~~~~~~~f~~~~~~gyd~ii~i~iSs~LSgty~~a~~aa~~~~ 107 (280)
T PF02645_consen 28 NIIIDGKEYRDGVDISPEEFYEKLRESGEIPKTSQPSPGEFEEAFEKLLEEGYDEIIVITISSGLSGTYNSARLAAKMLP 107 (280)
T ss_dssp EEEETTEEEETTTTSCHHHHHHHHHHTTSEEEEE---HHHHHHHHHHHHHTTTSEEEEEES-TTT-THHHHHHHHHHHHT
T ss_pred EEecCCeEEecCCCCCHHHHHHHHHhcCCCceecCCCHHHHHHHHHHHHHCCCCeEEEEeCCcchhhHHHHHHHHHhhcC
Confidence 466789999887644444433222 11 13456666666 2232 444555 999988887655555555555655
Q ss_pred CCeEEEeChHHHHHHHHHhhh
Q 033161 90 GMKLEAIDSRNAASTYNILNE 110 (126)
Q Consensus 90 GI~vE~m~T~aAcrTyN~L~s 110 (126)
+..+.+.||..++--.-.++-
T Consensus 108 ~~~i~ViDS~~~s~g~g~lv~ 128 (280)
T PF02645_consen 108 DIKIHVIDSKSVSAGQGLLVL 128 (280)
T ss_dssp TTEEEEEE-SS-HHHHHHHHH
T ss_pred cCEEEEEeCCCcchhhhHHHH
Confidence 899999999988776665543
No 234
>cd04921 ACT_AKi-HSDH-ThrA-like_1 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the first of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pat
Probab=22.42 E-value=94 Score=18.92 Aligned_cols=30 Identities=17% Similarity=0.313 Sum_probs=19.1
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 033161 68 ILGCGRY-IEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 68 iiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
++|.|.. ...+..++.+.|.+.||.+..+.
T Consensus 6 vvg~~~~~~~~~~~~i~~~L~~~~I~v~~i~ 36 (80)
T cd04921 6 IEGTGMVGVPGIAARIFSALARAGINVILIS 36 (80)
T ss_pred EEcCCCCCCccHHHHHHHHHHHCCCcEEEEE
Confidence 4455554 22455667777888888887664
No 235
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=22.32 E-value=87 Score=23.80 Aligned_cols=52 Identities=10% Similarity=-0.066 Sum_probs=33.1
Q ss_pred CCCCChhhhhchhhhCCCCcEEEEeecCC-CCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 46 FSEITPNCLSIFQLVRPIPEILILGCGRY-IEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 46 ~~~i~~~~l~~l~~l~~~pevliiGTG~~-~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
..++..+++.. .+.+.+||+|-+..=.+ .....+++.+.|++.|..+.++=-
T Consensus 123 G~~vp~e~~v~-~~~~~~~~~V~lS~~~~~~~~~~~~~i~~L~~~~~~~~i~vG 175 (213)
T cd02069 123 GVMVPIEKILE-AAKEHKADIIGLSGLLVPSLDEMVEVAEEMNRRGIKIPLLIG 175 (213)
T ss_pred CCCCCHHHHHH-HHHHcCCCEEEEccchhccHHHHHHHHHHHHhcCCCCeEEEE
Confidence 34666676653 24456788888776555 334456777777877777776633
No 236
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=22.26 E-value=1.3e+02 Score=21.26 Aligned_cols=48 Identities=13% Similarity=0.142 Sum_probs=32.3
Q ss_pred CCCCcEEEEe-----ecCCCC--CCCHHHHHHHHH-cCCeEEEe----ChHHHHHHHHHh
Q 033161 61 RPIPEILILG-----CGRYIE--PVNPELRQFIRS-TGMKLEAI----DSRNAASTYNIL 108 (126)
Q Consensus 61 ~~~pevliiG-----TG~~~~--~~~~~~~~~l~~-~GI~vE~m----~T~aAcrTyN~L 108 (126)
+.+++.+||| -|.... ..-.+..+.|++ .++.|+.. +|.+|-+.|..+
T Consensus 52 ~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DEr~TT~~A~~~l~~~ 111 (138)
T PRK00109 52 EWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDERLSTVEAERALADV 111 (138)
T ss_pred HhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCcCHHHHHHHHHHc
Confidence 4579999999 454421 222355566654 38888776 799999988654
No 237
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=22.24 E-value=1.5e+02 Score=25.47 Aligned_cols=53 Identities=6% Similarity=0.097 Sum_probs=35.4
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH-HHHHHHHHhhhcccee
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR-NAASTYNILNEEGRIV 115 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~-aAcrTyN~L~sEgR~V 115 (126)
+++++|+..+........++.+.|++.|+.|++-... .-=+.++.-...|=+.
T Consensus 470 p~~v~vi~~~~~~~~~a~~ia~~LR~~Gi~v~~d~~~~sl~~q~k~A~~~g~~~ 523 (563)
T TIGR00418 470 PVQVVVIPVNERHLDYAKKVAQKLKKAGIRVDVDDRNERLGKKIREAQKQKIPY 523 (563)
T ss_pred CceEEEEEccchHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHhcCCCE
Confidence 4678999888776666778899999999999985322 3334444333334333
No 238
>PRK00141 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=22.22 E-value=88 Score=26.42 Aligned_cols=33 Identities=15% Similarity=0.323 Sum_probs=27.5
Q ss_pred cEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 033161 65 EILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 101 (126)
Q Consensus 65 evliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aA 101 (126)
-++|+|.|..-+ .+..+|.++|..|-+.|....
T Consensus 17 ~v~v~G~G~sG~----a~a~~L~~~G~~V~~~D~~~~ 49 (473)
T PRK00141 17 RVLVAGAGVSGR----GIAAMLSELGCDVVVADDNET 49 (473)
T ss_pred eEEEEccCHHHH----HHHHHHHHCCCEEEEECCChH
Confidence 499999999753 888899999999999986543
No 239
>PRK06292 dihydrolipoamide dehydrogenase; Validated
Probab=22.17 E-value=3.7e+02 Score=22.17 Aligned_cols=74 Identities=20% Similarity=0.225 Sum_probs=39.8
Q ss_pred cCCcEEEcCEEEeecEEEeCCccccCCCCC-C------CCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHH
Q 033161 16 ASKGFTVNGVQYEGSLLCIGNLLLSWTPKK-F------SEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRS 88 (126)
Q Consensus 16 ~~g~~~I~g~~y~g~vi~~~~~v~~W~~~~-~------~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~ 88 (126)
+...+.+++.+|..+-++.-.+.. |+.-. . .-++.++.. ..-..+-.++|||.|.. .-++...|.+
T Consensus 118 ~~~~v~v~~~~~~~d~lIiATGs~-~p~ipg~~~~~~~~~~~~~~~~--~~~~~~k~v~VIGgG~~----g~E~A~~l~~ 190 (460)
T PRK06292 118 DPNTVEVNGERIEAKNIVIATGSR-VPPIPGVWLILGDRLLTSDDAF--ELDKLPKSLAVIGGGVI----GLELGQALSR 190 (460)
T ss_pred cCCEEEECcEEEEeCEEEEeCCCC-CCCCCCCcccCCCcEECchHHh--CccccCCeEEEECCCHH----HHHHHHHHHH
Confidence 345667788888777555433322 22211 1 112222221 11122346999999975 3356667777
Q ss_pred cCCeEEEe
Q 033161 89 TGMKLEAI 96 (126)
Q Consensus 89 ~GI~vE~m 96 (126)
.|..|.+.
T Consensus 191 ~g~~Vtli 198 (460)
T PRK06292 191 LGVKVTVF 198 (460)
T ss_pred cCCcEEEE
Confidence 88877765
No 240
>PF01408 GFO_IDH_MocA: Oxidoreductase family, NAD-binding Rossmann fold; InterPro: IPR000683 This group of enzymes utilise NADP or NAD, and is known as the GFO/IDH/MOCA family in UniProtKB/Swiss-Prot. GFO is a glucose--fructose oxidoreductase, which converts D-glucose and D-fructose into D-gluconolactone and D-glucitol in the sorbitol-gluconate pathway. MOCA is a rhizopine catabolism protein which may catalyse the NADH-dependent dehydrogenase reaction involved in rhizopine catabolism. Other proteins belonging to this family include Gal80, a negative regulator for the expression of lactose and galactose metabolic genes; and several hypothetical proteins from yeast, Escherichia coli and Bacillus subtilis. The oxidoreductase, N-terminal domain is almost always associated with the oxidoreductase, C-terminal domain (see IPR004104 from INTERPRO).; GO: 0016491 oxidoreductase activity; PDB: 1LC0_A 1LC3_A 1GCU_A 3IP3_E 3CEA_C 3EVN_A 3NTQ_A 3NTR_B 3NT5_A 3MZ0_A ....
Probab=21.97 E-value=2.3e+02 Score=18.28 Aligned_cols=51 Identities=14% Similarity=0.096 Sum_probs=36.4
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe-----ChHHHHHHHHHhhhcccee
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI-----DSRNAASTYNILNEEGRIV 115 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m-----~T~aAcrTyN~L~sEgR~V 115 (126)
+++|+++|.|... .+.+....+-++|+.|-+- +..++-+-.......|+.|
T Consensus 61 ~~~D~V~I~tp~~---~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~~~~~~~ 116 (120)
T PF01408_consen 61 EDVDAVIIATPPS---SHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAKEKGVKV 116 (120)
T ss_dssp TTESEEEEESSGG---GHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHHHHTSCE
T ss_pred hcCCEEEEecCCc---chHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHHHhCCEE
Confidence 5799999999874 4678888888899987665 5555555555554445554
No 241
>COG0771 MurD UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]
Probab=21.95 E-value=82 Score=27.04 Aligned_cols=36 Identities=25% Similarity=0.380 Sum_probs=31.5
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 102 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aAc 102 (126)
..-++|+|.|.+- ..+.++|.++|..|-+.|+..+-
T Consensus 7 ~~kv~V~GLG~sG----~a~a~~L~~~G~~v~v~D~~~~~ 42 (448)
T COG0771 7 GKKVLVLGLGKSG----LAAARFLLKLGAEVTVSDDRPAP 42 (448)
T ss_pred CCEEEEEeccccc----HHHHHHHHHCCCeEEEEcCCCCc
Confidence 4679999999986 48899999999999999987766
No 242
>PRK11538 ribosome-associated protein; Provisional
Probab=21.94 E-value=56 Score=22.31 Aligned_cols=30 Identities=20% Similarity=0.355 Sum_probs=22.8
Q ss_pred CCCcEEEEeecCCCC---CCCHHHHHHHHHcCC
Q 033161 62 PIPEILILGCGRYIE---PVNPELRQFIRSTGM 91 (126)
Q Consensus 62 ~~pevliiGTG~~~~---~~~~~~~~~l~~~GI 91 (126)
+-.|++||.||...+ -+...+.+.+++.|+
T Consensus 32 ~~~Dy~VIatg~S~rh~~aia~~v~~~~k~~~~ 64 (105)
T PRK11538 32 SITDCMIICTGTSSRHVMSIADHVVQESRAAGL 64 (105)
T ss_pred cccCEEEEEEeCCHHHHHHHHHHHHHHHHHcCC
Confidence 346999999999943 356788888887765
No 243
>PF04123 DUF373: Domain of unknown function (DUF373); InterPro: IPR007254 This archaeal family of unknown function is predicted to be an integral membrane protein with six transmembrane regions.
Probab=21.85 E-value=92 Score=25.82 Aligned_cols=23 Identities=30% Similarity=0.407 Sum_probs=19.8
Q ss_pred HHHHHHHHHhhhccceeEEEeec
Q 033161 99 RNAASTYNILNEEGRIVAAALLP 121 (126)
Q Consensus 99 ~aAcrTyN~L~sEgR~VaaaLl~ 121 (126)
-+|.++|+.|.+||+.|--|++-
T Consensus 51 f~avkiydeL~~~GedveVA~Vs 73 (344)
T PF04123_consen 51 FGAVKIYDELKAEGEDVEVAVVS 73 (344)
T ss_pred HHHHHHHHHHHhcCCCeEEEEEE
Confidence 36999999999999999777764
No 244
>PRK08727 hypothetical protein; Validated
Probab=21.82 E-value=71 Score=24.24 Aligned_cols=32 Identities=13% Similarity=0.003 Sum_probs=20.4
Q ss_pred CCCHHHHHHHHHcCCeEEEeChHHHHHHHHHh
Q 033161 77 PVNPELRQFIRSTGMKLEAIDSRNAASTYNIL 108 (126)
Q Consensus 77 ~~~~~~~~~l~~~GI~vE~m~T~aAcrTyN~L 108 (126)
.+...+...+.++|..+-+++..+..+.+...
T Consensus 56 hL~~a~~~~~~~~~~~~~y~~~~~~~~~~~~~ 87 (233)
T PRK08727 56 HLALALCAAAEQAGRSSAYLPLQAAAGRLRDA 87 (233)
T ss_pred HHHHHHHHHHHHcCCcEEEEeHHHhhhhHHHH
Confidence 34556655666777777777777766655443
No 245
>TIGR00287 cas1 CRISPR-associated endonuclease Cas1. This model identifies CRISPR-associated protein Cas1, the most universal CRISPR system protein. CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, a system for heritable host defense by prokaryotic cells against phage and other foreign DNA. Cas1 is a metal-dependent DNA-specific endonuclease.
Probab=21.62 E-value=1.8e+02 Score=23.22 Aligned_cols=31 Identities=10% Similarity=0.219 Sum_probs=22.2
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
.|.|+|+ |. ..++..+...+.++||.|-+++
T Consensus 35 i~~I~i~-g~--~~lst~~l~~l~~~~I~v~f~~ 65 (323)
T TIGR00287 35 VDCIVLF-GG--VSISSAAIRELAKRGIDIVFLG 65 (323)
T ss_pred ccEEEEE-CC--CCcCHHHHHHHHHCCCeEEEEC
Confidence 5667776 33 3467788888888888888775
No 246
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=21.58 E-value=2.8e+02 Score=19.16 Aligned_cols=57 Identities=14% Similarity=0.226 Sum_probs=35.7
Q ss_pred CCccccCCCCCCCCCChhhhhchhhh-CCCCcEEEEeecCCCC--CCCHHHHHHHHHcCCeE
Q 033161 35 GNLLLSWTPKKFSEITPNCLSIFQLV-RPIPEILILGCGRYIE--PVNPELRQFIRSTGMKL 93 (126)
Q Consensus 35 ~~~v~~W~~~~~~~i~~~~l~~l~~l-~~~pevliiGTG~~~~--~~~~~~~~~l~~~GI~v 93 (126)
.+.+.+-+-..+++++.+.|. +.+ +.+++=|||+|..+.. -...-+.+.|+..++++
T Consensus 29 ~G~ispl~gi~p~~l~i~~L~--~ri~~~~i~EVIlA~~pt~EGe~Ta~yi~~~l~~~~~kv 88 (112)
T cd01025 29 GGLISPLDGIGPDDLNIDKLL--ERIAKGQVKEVILATNPTVEGEATALYIAKLLKDFGVKV 88 (112)
T ss_pred CCCcCCCCCCCccccCHHHHH--HHHhcCCCcEEEEecCCCchHHHHHHHHHHHHhHcCCCe
Confidence 344444444456677777766 344 4578999999998853 34444566666655544
No 247
>PRK08621 galactose-6-phosphate isomerase subunit LacA; Reviewed
Probab=21.57 E-value=2.8e+02 Score=20.07 Aligned_cols=32 Identities=6% Similarity=0.273 Sum_probs=22.9
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 67 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 67 liiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
|+||.-..-..+-..++++|+++|..|+-+.+
T Consensus 3 I~igsDhaG~~lK~~l~~~L~~~G~eV~D~G~ 34 (142)
T PRK08621 3 IIIGADKAGFELKEVVKDYLEDNKYEVVDVTE 34 (142)
T ss_pred EEEEeCcchHHHHHHHHHHHHHCCCEEEECCC
Confidence 45666555556778888899998888876655
No 248
>cd00518 H2MP Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing and assembly with other subunits. Hydrogenase maturation endopeptidases are responsible for the proteolytic processing, liberating a short C-terminal peptide by cleaving after a His or an Arg residue, e.g., HycI (E. coli) is involved in processing of HypE, the large subunit of hydrogenase 3. This cleavage is nickel dependent. This CD also includes such hydrogenase-processing proteins as HydD, HupW, and HoxW, as well as, proteins of the F420-reducing hydrogenase of methanogens (e.g., FrcD). Also included, is the Pyrococcus furiosus FrxA protein, a bifunctional endopeptidase/ sulfhydrogenase found in NADP-reducing hyperthermophiles.The Pyrococcus FrxA is not related to those found in Helicobacter pylori.
Probab=21.55 E-value=2.8e+02 Score=19.07 Aligned_cols=44 Identities=18% Similarity=0.322 Sum_probs=28.9
Q ss_pred CCCCCChhhhhch-hhhC-CCCcEEEEeecCC-C---CCCCHHHHHHHHH
Q 033161 45 KFSEITPNCLSIF-QLVR-PIPEILILGCGRY-I---EPVNPELRQFIRS 88 (126)
Q Consensus 45 ~~~~i~~~~l~~l-~~l~-~~pevliiGTG~~-~---~~~~~~~~~~l~~ 88 (126)
+.|+++..++-.+ ..+. ..|++.++|.-.. . ..++|++++.+.+
T Consensus 85 s~H~~~l~~~l~~~~~~~~~~~~~~lvgi~~~~~~~g~~LS~~v~~a~~~ 134 (139)
T cd00518 85 STHQLGLAELLALLRLLGGLPPEVVLIGIQPESLELGEGLSPEVAAAVPK 134 (139)
T ss_pred CCccCCHHHHHHHHHHhCCCCCeEEEEEEEeeecCCCCCCCHHHHHHHHH
Confidence 5788877765422 2222 4689999995433 2 4689999888765
No 249
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=21.47 E-value=1.4e+02 Score=22.89 Aligned_cols=34 Identities=18% Similarity=0.209 Sum_probs=22.7
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 033161 66 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 100 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~a 100 (126)
+|+|||.-.. .+-..+....+++|..+-+++-..
T Consensus 181 ~lviGTsl~V-~p~~~l~~~~~~~~~~~i~iN~~~ 214 (242)
T PRK00481 181 FIVIGTSLVV-YPAAGLPYEAREHGAKTVEINLEP 214 (242)
T ss_pred EEEECCCceE-cCHhHHHHHHHHCCCeEEEECCCC
Confidence 6667776555 444555555677888888887654
No 250
>TIGR03638 cas1_ECOLI CRISPR-associated endonuclease Cas1, ECOLI subtype. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the ECOLI subtype of CRISPR/Cas system.
Probab=21.45 E-value=1.8e+02 Score=22.90 Aligned_cols=33 Identities=18% Similarity=0.246 Sum_probs=23.2
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 033161 63 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 98 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T 98 (126)
..+.|+++.|. .++.++...+.++||.|-+++.
T Consensus 44 ~i~~Ivl~g~~---siT~~al~~l~~~gI~v~~~~~ 76 (269)
T TIGR03638 44 SLSCLLLGPGT---SVTHAAVKLLARHGCLVVWVGE 76 (269)
T ss_pred HccEEEEeCCC---ccCHHHHHHHHHCCCEEEEECC
Confidence 36677777333 3677778888888888888764
No 251
>PF03033 Glyco_transf_28: Glycosyltransferase family 28 N-terminal domain; InterPro: IPR004276 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 28 GT28 from CAZY comprises enzymes with a number of known activities; 1,2-diacylglycerol 3-beta-galactosyltransferase (2.4.1.46 from EC); 1,2-diacylglycerol 3-beta-glucosyltransferase (2.4.1.157 from EC); beta-N-acetylglucosamine transferase (2.4.1 from EC).; GO: 0016758 transferase activity, transferring hexosyl groups, 0005975 carbohydrate metabolic process, 0030259 lipid glycosylation; PDB: 2IYF_B 2YJN_A 2P6P_A 1PNV_A 3H4T_A 3H4I_A 1PN3_B 3IA7_B 1NLM_B 1F0K_B ....
Probab=21.41 E-value=49 Score=22.18 Aligned_cols=19 Identities=16% Similarity=0.483 Sum_probs=8.9
Q ss_pred HHHHHHHHcCCeEEEeChH
Q 033161 81 ELRQFIRSTGMKLEAIDSR 99 (126)
Q Consensus 81 ~~~~~l~~~GI~vE~m~T~ 99 (126)
+.++.+.+.|+.+...+..
T Consensus 36 ~~~~~v~~~Gl~~~~~~~~ 54 (139)
T PF03033_consen 36 DFRERVEAAGLEFVPIPGD 54 (139)
T ss_dssp GGHHHHHHTT-EEEESSSC
T ss_pred cceecccccCceEEEecCC
Confidence 3344445555555555444
No 252
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=21.40 E-value=1.2e+02 Score=22.20 Aligned_cols=25 Identities=12% Similarity=0.320 Sum_probs=20.6
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHH
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRS 88 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~ 88 (126)
.|.||||++-..-.+++.+.+++.+
T Consensus 47 yD~vIlGspi~~G~~~~~~~~fl~~ 71 (177)
T PRK11104 47 YDRVVIGASIRYGHFHSALYKFVKK 71 (177)
T ss_pred CCEEEEECccccCCcCHHHHHHHHH
Confidence 7999999998866778888888755
No 253
>cd00852 NifB NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of nitrogen fixation in bacteria. This domain is sometimes found fused to a N-terminal domain (the Radical SAM domain) in nifB-like proteins.
Probab=21.26 E-value=2.4e+02 Score=18.42 Aligned_cols=38 Identities=8% Similarity=0.113 Sum_probs=26.4
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh----HHHHHHH
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS----RNAASTY 105 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T----~aAcrTy 105 (126)
.+.++||.|- .-+...+.|+++||.+-.... ++|...|
T Consensus 64 ~~~~vvi~~~------iG~~a~~~L~~~GI~v~~~~~~~~v~eal~~~ 105 (106)
T cd00852 64 SDCDAVLCAK------IGDEPKEKLEEAGIEVIEAYAGEYIEEALLEL 105 (106)
T ss_pred cCCcEEeehh------hCccHHHHHHHCCCEEEEecCcCcHHHHHHHh
Confidence 4788888764 346788999999999974433 5555443
No 254
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=21.21 E-value=1.6e+02 Score=23.78 Aligned_cols=36 Identities=14% Similarity=0.228 Sum_probs=29.4
Q ss_pred CCCCcEEEEeecCCCC----------CCCHHHHHHHHHcCCeEEEe
Q 033161 61 RPIPEILILGCGRYIE----------PVNPELRQFIRSTGMKLEAI 96 (126)
Q Consensus 61 ~~~pevliiGTG~~~~----------~~~~~~~~~l~~~GI~vE~m 96 (126)
..+.|+.|+|.|.-.. .++++..+.|+++|..=|++
T Consensus 199 ~~~~Dial~GIG~~~~~~~s~~~~~g~l~~~~~~~L~~~gAVGdi~ 244 (318)
T PRK15418 199 AQAADVAIVGIGAVNQKDDATILRSGYISQGEQLMIGRKGAVGDIL 244 (318)
T ss_pred HHhCCEEEEEecCCCCCCCCceeecCCCCHHHHHHHHHCCceEEEe
Confidence 4579999999999532 58888899999999877775
No 255
>cd05566 PTS_IIB_galactitol PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain that are expressed on three distinct polypeptide chains, in contrast to other PTS sugar transporters. The three genes encoding these subunits (gatA, gatB, and gatC) comprise the gatCBA operon. Galactitol PTS permease takes up exogenous galactitol, releasing the phosphate ester into the cytoplasm in preparation for oxidation and further metabolism via a modified glycolytic pathway called the tagatose-6-phosphate glycolytic pathway. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include galactitol, chitobiose/lichenan, ascorbate, lactose, mannitol, fructose, and
Probab=21.18 E-value=57 Score=20.64 Aligned_cols=31 Identities=13% Similarity=0.391 Sum_probs=23.8
Q ss_pred EEEEeecCC-CCCCCHHHHHHHHHcCCeEEEe
Q 033161 66 ILILGCGRY-IEPVNPELRQFIRSTGMKLEAI 96 (126)
Q Consensus 66 vliiGTG~~-~~~~~~~~~~~l~~~GI~vE~m 96 (126)
+++-|+|.. .+.+...+++.|.+.++.+++.
T Consensus 4 livC~~G~~tS~~l~~~i~~~~~~~~i~~~v~ 35 (89)
T cd05566 4 LVACGTGVATSTVVASKVKELLKENGIDVKVE 35 (89)
T ss_pred EEECCCCccHHHHHHHHHHHHHHHCCCceEEE
Confidence 355567776 4578899999999999977764
No 256
>PTZ00153 lipoamide dehydrogenase; Provisional
Probab=21.17 E-value=3.8e+02 Score=24.09 Aligned_cols=74 Identities=14% Similarity=0.131 Sum_probs=38.3
Q ss_pred CcEEE--cCEEEeecEEEeCCccccCCCC--C---CCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 033161 18 KGFTV--NGVQYEGSLLCIGNLLLSWTPK--K---FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 90 (126)
Q Consensus 18 g~~~I--~g~~y~g~vi~~~~~v~~W~~~--~---~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~~G 90 (126)
+.+.+ +|+.|..+-+|.-.+..+..+. . ..-++.+++..++. .+-.++|||-|.. .-|+.+.|.+.|
T Consensus 262 ~~v~v~~~g~~i~ad~lIIATGS~P~~P~~~~~~~~~V~ts~d~~~l~~--lpk~VvIVGgG~i----GvE~A~~l~~~G 335 (659)
T PTZ00153 262 NTIKSEKSGKEFKVKNIIIATGSTPNIPDNIEVDQKSVFTSDTAVKLEG--LQNYMGIVGMGII----GLEFMDIYTALG 335 (659)
T ss_pred CeEEEccCCEEEECCEEEEcCCCCCCCCCCCCCCCCcEEehHHhhhhhh--cCCceEEECCCHH----HHHHHHHHHhCC
Confidence 33445 4677777755543332222211 1 11223344332222 2347999999853 335667777778
Q ss_pred CeEEEeC
Q 033161 91 MKLEAID 97 (126)
Q Consensus 91 I~vE~m~ 97 (126)
..|.+..
T Consensus 336 ~eVTLIe 342 (659)
T PTZ00153 336 SEVVSFE 342 (659)
T ss_pred CeEEEEe
Confidence 7776663
No 257
>cd04918 ACT_AK1-AT_2 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the second of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine (SAM). This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. In its inactive state, Arabidopsis AK1 binds the effectors lysine and SAM (two molecules each) at the interface of two ACT1 domain subunits. The second ACT domain (ACT2), this CD, does not interact with an effector. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.16 E-value=1.7e+02 Score=17.43 Aligned_cols=29 Identities=10% Similarity=0.211 Sum_probs=15.8
Q ss_pred EEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 033161 68 ILGCGRYIEPVNPELRQFIRSTGMKLEAI 96 (126)
Q Consensus 68 iiGTG~~~~~~~~~~~~~l~~~GI~vE~m 96 (126)
++|......-+..++.+.|.+.||.+...
T Consensus 6 vVG~~~~~~~~~~~i~~aL~~~~I~v~~i 34 (65)
T cd04918 6 LIGNVQRSSLILERAFHVLYTKGVNVQMI 34 (65)
T ss_pred EECCCCCCccHHHHHHHHHHHCCCCEEEE
Confidence 45553333334456666667777776544
No 258
>PF01963 TraB: TraB family; InterPro: IPR002816 In prokaryotes, for example Enterococcus faecalis (Streptococcus faecalis), the conjugative transfer of certain plasmids is controlled by peptide pheromones []. Plasmid free recipient cells secret plasmid specific oligopeptides, termed sex pheromones. They induce bacterial clumping and specifically activate the conjugative transfer of the corresponding plasmid. Once recipient cells acquire the plasmid they start to produce a pheromone inhibitor to block the activity of the pheromone and to prevent plasmid containing cells from clumping; they also become donor cells able to transfer the plasmid to plasmid free recipient cells. Examples of such plasmid-pheromone systems are bacteriocin plasmid pPD1 [], haemolysin/bacteriocin plasmid, pAD1 [], tetracycline-resistance plasmid, pCF10 [], and the haemolysin/bacteriocin plasmid, pOB1 []. TraB in combination with another factor contributes to pheromone shutdown in cells that have acquired a plasmid. It exact function has not yet been determined [, ]. This entry also contains plant and mammalian proteins, suggesting that these Trab-related proteins may have a somewhat wider or different function in eukaryotes.
Probab=21.13 E-value=1.3e+02 Score=22.65 Aligned_cols=31 Identities=16% Similarity=0.249 Sum_probs=23.2
Q ss_pred cEEEEeecCCCCCCCHHHHHHHHHcCCeEEE
Q 033161 65 EILILGCGRYIEPVNPELRQFIRSTGMKLEA 95 (126)
Q Consensus 65 evliiGTG~~~~~~~~~~~~~l~~~GI~vE~ 95 (126)
..+++..|..+..=...+.+.|+++|..|+-
T Consensus 228 ~~~fvvVGa~HL~G~~gvl~lLr~~Gy~V~~ 258 (259)
T PF01963_consen 228 GTVFVVVGAGHLPGEDGVLDLLRKKGYTVEP 258 (259)
T ss_pred CCEEEEEcchhccchhhHHHHHHhCCceeec
Confidence 4455555566666778899999999999873
No 259
>TIGR00522 dph5 diphthine synthase. This protein participates in the modification of a specific His of elongation factor 2 of eukarotes and Archaea to diphthamide. The protein was characterized in Saccharomyces cerevisiae and designated DPH5.
Probab=21.10 E-value=2e+02 Score=22.30 Aligned_cols=34 Identities=15% Similarity=0.316 Sum_probs=28.0
Q ss_pred CcEEEEeecCCCCC-CCHHHHHHHHHcCCeEEEeC
Q 033161 64 PEILILGCGRYIEP-VNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 64 pevliiGTG~~~~~-~~~~~~~~l~~~GI~vE~m~ 97 (126)
=+++++-.|....+ ...++...++++||.+|+.+
T Consensus 76 ~~Vv~l~~GDP~i~~~~~~l~~~l~~~~i~vevIP 110 (257)
T TIGR00522 76 KDVALLVAGDPMVATTHTDLKLEAKRKGIETRIIH 110 (257)
T ss_pred CCEEEEECCcCcccCCHHHHHHHHHHCCCeEEEEC
Confidence 47999999998654 44678889999999999994
No 260
>PF01494 FAD_binding_3: FAD binding domain; InterPro: IPR002938 Monooxygenases incorporate one hydroxyl group into substrates and are found in many metabolic pathways. In this reaction, two atoms of dioxygen are reduced to one hydroxyl group and one H2O molecule by the concomitant oxidation of NAD(P)H []. P-hydroxybenzoate hydroxylase from Pseudomonas fluorescens contains this sequence motif (present in in flavoprotein hydroxylases) with a putative dual function in FAD and NADPH binding [].; PDB: 2Y6R_B 2XYO_C 2Y6Q_C 3P9U_D 2XDO_C 1FOH_D 1PN0_A 3IHG_C 2QA2_A 2VOU_C ....
Probab=20.92 E-value=79 Score=24.15 Aligned_cols=30 Identities=17% Similarity=0.282 Sum_probs=20.2
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 97 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~ 97 (126)
.||+|+|-|..- ..+...|+++|+.|.+..
T Consensus 2 ~dV~IvGaG~aG----l~~A~~L~~~G~~v~i~E 31 (356)
T PF01494_consen 2 YDVAIVGAGPAG----LAAALALARAGIDVTIIE 31 (356)
T ss_dssp EEEEEE--SHHH----HHHHHHHHHTTCEEEEEE
T ss_pred ceEEEECCCHHH----HHHHHHHHhcccccccch
Confidence 478888888652 256778888888887773
No 261
>PF14106 DUF4279: Domain of unknown function (DUF4279)
Probab=20.87 E-value=1.9e+02 Score=19.10 Aligned_cols=18 Identities=22% Similarity=0.678 Sum_probs=16.5
Q ss_pred CCHHHHHHHHHcCCeEEE
Q 033161 78 VNPELRQFIRSTGMKLEA 95 (126)
Q Consensus 78 ~~~~~~~~l~~~GI~vE~ 95 (126)
+++++.+++.+.|..+++
T Consensus 101 l~~~~i~~l~~lg~eidi 118 (118)
T PF14106_consen 101 LSPEIIKFLAALGAEIDI 118 (118)
T ss_pred cCHHHHHHHHhhCCEEeC
Confidence 999999999999998874
No 262
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=20.68 E-value=1.2e+02 Score=21.41 Aligned_cols=42 Identities=10% Similarity=-0.058 Sum_probs=18.8
Q ss_pred CCChhhhhchhhhCCCCcEEEEeecCC-CCCCCHHHHHHHHHcC
Q 033161 48 EITPNCLSIFQLVRPIPEILILGCGRY-IEPVNPELRQFIRSTG 90 (126)
Q Consensus 48 ~i~~~~l~~l~~l~~~pevliiGTG~~-~~~~~~~~~~~l~~~G 90 (126)
++..+++.. .+.+.+||+|.+..=.. ....-+++.+.|++.|
T Consensus 40 ~vp~e~i~~-~a~~~~~d~V~lS~~~~~~~~~~~~~~~~L~~~~ 82 (137)
T PRK02261 40 MTSQEEFID-AAIETDADAILVSSLYGHGEIDCRGLREKCIEAG 82 (137)
T ss_pred CCCHHHHHH-HHHHcCCCEEEEcCccccCHHHHHHHHHHHHhcC
Confidence 344444432 23344555555554333 2223345555555553
No 263
>PF02558 ApbA: Ketopantoate reductase PanE/ApbA; InterPro: IPR013332 ApbA, the ketopantoate reductase enzyme 1.1.1.169 from EC of Salmonella typhimurium is required for the synthesis of thiamine via the alternative pyrimidine biosynthetic pathway []. Precursors to the pyrimidine moiety of thiamine are synthesized de novo by the purine biosynthetic pathway or the alternative pyrimidine biosynthetic (APB) pathway. The ApbA protein catalyzes the NADPH-specific reduction of ketopantoic acid to pantoic acid. This activity had previously been associated with the pantothenate biosynthetic gene panE []. ApbA and PanE are allelic [].; GO: 0008677 2-dehydropantoate 2-reductase activity, 0055114 oxidation-reduction process; PDB: 3EGO_B 3HWR_B 2QYT_A 1YJQ_A 1KS9_A 2OFP_A 1YON_A 3G17_E 3GHY_B 3I83_B ....
Probab=20.65 E-value=1.2e+02 Score=20.73 Aligned_cols=31 Identities=19% Similarity=0.354 Sum_probs=21.0
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 033161 66 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 100 (126)
Q Consensus 66 vliiGTG~~~~~~~~~~~~~l~~~GI~vE~m~T~a 100 (126)
++|+|.|.- ---+..+|++.|..|.+.....
T Consensus 1 I~I~G~Gai----G~~~a~~L~~~g~~V~l~~r~~ 31 (151)
T PF02558_consen 1 ILIIGAGAI----GSLYAARLAQAGHDVTLVSRSP 31 (151)
T ss_dssp EEEESTSHH----HHHHHHHHHHTTCEEEEEESHH
T ss_pred CEEECcCHH----HHHHHHHHHHCCCceEEEEccc
Confidence 467777763 2245567777888888887666
No 264
>PLN02958 diacylglycerol kinase/D-erythro-sphingosine kinase
Probab=20.59 E-value=2.2e+02 Score=24.46 Aligned_cols=37 Identities=8% Similarity=0.227 Sum_probs=25.3
Q ss_pred cEEEE-----eecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 033161 65 EILIL-----GCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 101 (126)
Q Consensus 65 evlii-----GTG~~~~~~~~~~~~~l~~~GI~vE~m~T~aA 101 (126)
.++|| |.|.........+...|+++|+.+++..|..+
T Consensus 113 r~lvIvNP~SGkg~a~k~~~~~v~~~L~~~gi~~~v~~T~~~ 154 (481)
T PLN02958 113 RLLVFVNPFGGKKSASKIFFDVVKPLLEDADIQLTIQETKYQ 154 (481)
T ss_pred EEEEEEcCCCCCcchhHHHHHHHHHHHHHcCCeEEEEeccCc
Confidence 45555 44443333445677899999999999887754
No 265
>CHL00162 thiG thiamin biosynthesis protein G; Validated
Probab=20.32 E-value=1.6e+02 Score=23.65 Aligned_cols=77 Identities=9% Similarity=0.027 Sum_probs=47.0
Q ss_pred CcEEEcCEEEeecEEEeCCccccCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCC---CCCHHHHHHHHHcCCeEE
Q 033161 18 KGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIE---PVNPELRQFIRSTGMKLE 94 (126)
Q Consensus 18 g~~~I~g~~y~g~vi~~~~~v~~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~---~~~~~~~~~l~~~GI~vE 94 (126)
..+.|.|++++.-+++..+.. .. .++..+. +.....|++-+..=.... .-.+.+.+++...++ .
T Consensus 6 d~l~i~g~~f~SRL~lGTgky---~s---~~~~~~a-----i~aSg~evvTvalRR~~~~~~~~~~~~l~~i~~~~~--~ 72 (267)
T CHL00162 6 DKLKIGNKSFNSRLMLGTGKY---KS---LKDAIQS-----IEASGCEIVTVAIRRLNNNLLNDNSNLLNGLDWNKL--W 72 (267)
T ss_pred CceEECCEEeecceEEecCCC---CC---HHHHHHH-----HHHhCCcEEEEEEEEeccCcCCCcchHHHhhchhcc--E
Confidence 458899999999988854432 11 1222232 224579999998833321 123788899987765 4
Q ss_pred Ee-------ChHHHHHHHHH
Q 033161 95 AI-------DSRNAASTYNI 107 (126)
Q Consensus 95 ~m-------~T~aAcrTyN~ 107 (126)
.+ +-++|+|+-.+
T Consensus 73 ~LPNTaGc~tA~EAv~~A~l 92 (267)
T CHL00162 73 LLPNTAGCQTAEEAIRMAFL 92 (267)
T ss_pred ECCcCcCCCCHHHHHHHHHH
Confidence 44 44566666543
No 266
>PF02593 dTMP_synthase: Thymidylate synthase; InterPro: IPR003745 This entry describes proteins of unknown function.
Probab=20.30 E-value=1.5e+02 Score=22.94 Aligned_cols=35 Identities=11% Similarity=0.123 Sum_probs=29.3
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 033161 62 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 96 (126)
Q Consensus 62 ~~pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m 96 (126)
.+...||++.+....-+...+++.+.+.|+.+++=
T Consensus 75 ~g~kavIvp~~~~~~g~~~~lk~~~e~~gi~~~~P 109 (217)
T PF02593_consen 75 AGVKAVIVPSESPKPGLRRQLKKQLEEFGIEVEFP 109 (217)
T ss_pred cCCCEEEEecCCCccchHHHHHHHHHhcCceeecC
Confidence 67888999988877667788999999999998864
No 267
>TIGR03452 mycothione_red mycothione reductase. Mycothiol, a glutathione analog in Mycobacterium tuberculosis and related species, can form a disulfide-linked dimer called mycothione. This enzyme can reduce mycothione to regenerate two mycothiol molecules. The enzyme shows some sequence similarity to glutathione-disulfide reductase, trypanothione-disulfide reductase, and dihydrolipoamide dehydrogenase. The characterized protein from M. tuberculosis, a homodimer, has FAD as a cofactor, one per monomer, and uses NADPH as a substrate.
Probab=20.28 E-value=2.9e+02 Score=23.01 Aligned_cols=29 Identities=17% Similarity=0.442 Sum_probs=20.3
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 033161 64 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 96 (126)
Q Consensus 64 pevliiGTG~~~~~~~~~~~~~l~~~GI~vE~m 96 (126)
-.++|+|.|.. .-++...|++.|..|.+.
T Consensus 170 k~vvVIGgG~i----g~E~A~~l~~~G~~Vtli 198 (452)
T TIGR03452 170 ESLVIVGGGYI----AAEFAHVFSALGTRVTIV 198 (452)
T ss_pred CcEEEECCCHH----HHHHHHHHHhCCCcEEEE
Confidence 47889998853 345666777777777665
No 268
>PF05690 ThiG: Thiazole biosynthesis protein ThiG; InterPro: IPR008867 This family consists of several bacterial thiazole biosynthesis protein G sequences. ThiG, together with ThiF and ThiH, is proposed to be involved in the synthesis of 4-methyl-5-(b-hydroxyethyl)thiazole (THZ) which is an intermediate in the thiazole production pathway [].; GO: 0009228 thiamine biosynthetic process; PDB: 1WV2_B 1TYG_C 1XM3_B 2HTM_C 2YZR_C.
Probab=20.25 E-value=1.8e+02 Score=23.18 Aligned_cols=13 Identities=23% Similarity=0.480 Sum_probs=5.4
Q ss_pred HHHHHHcCCeEEE
Q 033161 83 RQFIRSTGMKLEA 95 (126)
Q Consensus 83 ~~~l~~~GI~vE~ 95 (126)
++.+...|..+-.
T Consensus 25 ~~ai~aSg~evvT 37 (247)
T PF05690_consen 25 REAIEASGAEVVT 37 (247)
T ss_dssp HHHHHHTT-SEEE
T ss_pred HHHHHHhCCcEEE
Confidence 4444444444443
No 269
>KOG3125 consensus Thymidine kinase [Nucleotide transport and metabolism]
Probab=20.17 E-value=96 Score=24.26 Aligned_cols=66 Identities=14% Similarity=0.203 Sum_probs=38.2
Q ss_pred CEEEeecEEEeCCcc--ccCCCCCCCCCChhhhhchhhhCCCCcEEEEeecCCCCCCCHHHHHHHHH----cCCeEEEe
Q 033161 24 GVQYEGSLLCIGNLL--LSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRS----TGMKLEAI 96 (126)
Q Consensus 24 g~~y~g~vi~~~~~v--~~W~~~~~~~i~~~~l~~l~~l~~~pevliiGTG~~~~~~~~~~~~~l~~----~GI~vE~m 96 (126)
+.+|..+.++..+++ ..|..++.+.++ ++. .+++..+.|+|-|--| +|++ .+.+++++ +|+.|-+-
T Consensus 66 DTRy~~~si~Thdg~~~~c~~lp~a~~~s--~f~-~d~~~~~vdVigIDEa---QFf~-dl~efc~evAd~~Gk~Viva 137 (234)
T KOG3125|consen 66 DTRYESSSIVTHDGIEMPCWALPDASFLS--EFG-KDALNGDVDVIGIDEA---QFFG-DLYEFCREVADVHGKTVIVA 137 (234)
T ss_pred CcccchheeEeccCCcccccccCCchhHH--HHH-HHHhcCcceEEEecHH---HHhH-HHHHHHHHHHhccCCEEEEE
Confidence 678998989887775 678776533332 222 1355555666555333 3444 55555443 67666553
No 270
>PRK07204 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed
Probab=20.12 E-value=1.8e+02 Score=22.86 Aligned_cols=44 Identities=11% Similarity=0.234 Sum_probs=27.0
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHH-HHcCCe---EEEeChHHHHHHHHH
Q 033161 63 IPEILILGCGRYIEPVNPELRQFI-RSTGMK---LEAIDSRNAASTYNI 107 (126)
Q Consensus 63 ~pevliiGTG~~~~~~~~~~~~~l-~~~GI~---vE~m~T~aAcrTyN~ 107 (126)
.+|.||++|+......+ ....++ ++.|+. ...++...||..+..
T Consensus 73 dId~li~~~~~~~~~~p-~~a~~v~~~lgl~~~~~~~~~v~~~C~~~~~ 120 (329)
T PRK07204 73 DIDCIICASGTIQQAIP-CTASLIQEQLGLQHSGIPCFDINSTCLSFIT 120 (329)
T ss_pred HCCEEEEECCCCCCCCc-cHHHHHHHHhCCCCCCceEEEccchhHHHHH
Confidence 47899999865433322 333333 446764 467777788887654
No 271
>COG0809 QueA S-adenosylmethionine:tRNA-ribosyltransferase-isomerase (queuine synthetase) [Translation, ribosomal structure and biogenesis]
Probab=20.09 E-value=3.2e+02 Score=22.87 Aligned_cols=43 Identities=16% Similarity=0.265 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHcCCeEEEe----------------------------ChHHHHHHHHHhhhccceeEEE
Q 033161 76 EPVNPELRQFIRSTGMKLEAI----------------------------DSRNAASTYNILNEEGRIVAAA 118 (126)
Q Consensus 76 ~~~~~~~~~~l~~~GI~vE~m----------------------------~T~aAcrTyN~L~sEgR~Vaaa 118 (126)
....+++.+.|+++|+...+. =+++.|..-|.--++|+||.|.
T Consensus 185 LHFt~~LL~kLk~kGv~~afvTLHVGaGTF~pV~~~~i~eH~MH~E~~~v~~eta~~i~~~k~~GgRIiaV 255 (348)
T COG0809 185 LHFTEELLEKLKAKGVEIAFVTLHVGAGTFRPVKVENIEEHKMHSEYYEVPQETADAINAAKARGGRIIAV 255 (348)
T ss_pred CCCCHHHHHHHHHCCceEEEEEEEecccccccceeccccccccchhheecCHHHHHHHHHHHHcCCeEEEE
Confidence 456788888888888876543 2567888889888898888773
No 272
>PF13839 PC-Esterase: GDSL/SGNH-like Acyl-Esterase family found in Pmr5 and Cas1p
Probab=20.01 E-value=80 Score=23.51 Aligned_cols=14 Identities=14% Similarity=0.577 Sum_probs=12.2
Q ss_pred CCcEEEEeecCCCC
Q 033161 63 IPEILILGCGRYIE 76 (126)
Q Consensus 63 ~pevliiGTG~~~~ 76 (126)
+||+||+++|.-..
T Consensus 100 ~pdvvV~nsG~W~~ 113 (263)
T PF13839_consen 100 RPDVVVINSGLWYL 113 (263)
T ss_pred CCCEEEEEcchhhh
Confidence 79999999998843
Done!