Query 032090
Match_columns 147
No_of_seqs 131 out of 524
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 09:27:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032090.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/032090hhsearch_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 1.6E-41 3.4E-46 249.7 13.4 114 31-144 1-114 (114)
2 cd00248 Mth938-like Mth938-lik 100.0 4E-41 8.6E-46 245.2 12.8 109 32-141 1-109 (109)
3 PF04430 DUF498: Protein of un 100.0 1.6E-40 3.5E-45 241.6 10.3 109 33-141 1-110 (110)
4 cd05560 Xcc1710_like Xcc1710_l 100.0 7.7E-40 1.7E-44 238.6 12.9 107 33-141 2-109 (109)
5 COG3737 Uncharacterized conser 100.0 6.2E-39 1.3E-43 236.2 6.3 118 25-142 10-127 (127)
6 cd05126 Mth938 Mth938 domain. 100.0 4.7E-37 1E-41 226.7 12.2 107 33-141 2-116 (117)
7 KOG3363 Uncharacterized conser 100.0 5.7E-35 1.2E-39 226.1 12.5 146 2-147 5-176 (196)
8 COG1504 Uncharacterized conser 99.8 4.7E-18 1E-22 124.3 9.1 104 35-141 6-118 (121)
9 PF05499 DMAP1: DNA methyltran 83.4 0.91 2E-05 36.0 2.3 31 102-132 109-139 (176)
10 COG4408 Uncharacterized protei 77.6 2.5 5.4E-05 37.2 3.2 28 101-128 185-212 (431)
11 COG4081 Uncharacterized protei 77.0 3.7 8.1E-05 31.4 3.7 42 87-128 6-49 (148)
12 PF10100 DUF2338: Uncharacteri 75.6 3.5 7.6E-05 36.8 3.7 31 98-128 180-210 (429)
13 COG1440 CelA Phosphotransferas 72.1 2.5 5.3E-05 30.8 1.6 36 83-120 47-82 (102)
14 PF02780 Transketolase_C: Tran 69.7 2.6 5.6E-05 30.2 1.3 58 80-138 5-74 (124)
15 PF02441 Flavoprotein: Flavopr 66.9 12 0.00025 27.2 4.3 44 87-130 3-46 (129)
16 COG2333 ComEC Predicted hydrol 63.4 12 0.00027 31.6 4.3 44 73-118 222-267 (293)
17 PF12641 Flavodoxin_3: Flavodo 61.6 45 0.00098 25.6 6.9 62 83-144 38-110 (160)
18 cd01321 ADGF Adenosine deamina 61.2 8.9 0.00019 32.9 3.2 33 90-123 226-258 (345)
19 TIGR03868 F420-O_ABCperi propo 61.2 9.3 0.0002 30.7 3.1 38 80-117 74-111 (287)
20 cd01141 TroA_d Periplasmic bin 59.5 18 0.00039 27.1 4.3 35 80-118 65-99 (186)
21 TIGR01431 adm_rel adenosine de 57.9 10 0.00023 34.1 3.1 33 91-124 353-385 (479)
22 PF15603 Imm45: Immunity prote 57.7 49 0.0011 23.0 5.8 60 36-116 14-81 (82)
23 PF09001 DUF1890: Domain of un 57.7 7.5 0.00016 29.7 1.9 47 87-133 1-49 (139)
24 TIGR03035 trp_arylform arylfor 55.6 51 0.0011 26.0 6.4 51 68-120 86-145 (206)
25 PF10087 DUF2325: Uncharacteri 55.3 23 0.00051 24.4 4.0 48 83-130 47-94 (97)
26 KOG3125 Thymidine kinase [Nucl 55.1 14 0.00031 30.3 3.2 89 12-116 42-136 (234)
27 TIGR01276 thiB thiamine ABC tr 54.4 33 0.00071 27.9 5.3 51 84-134 1-54 (309)
28 PF12500 TRSP: TRSP domain C t 53.7 11 0.00024 29.2 2.2 36 83-119 56-91 (155)
29 TIGR00288 conserved hypothetic 53.6 8.4 0.00018 30.0 1.6 57 70-132 93-158 (160)
30 PRK14048 ferrichrome/ferrioxam 53.1 22 0.00049 30.1 4.3 40 80-119 117-156 (374)
31 PF07905 PucR: Purine cataboli 52.2 29 0.00064 25.0 4.2 38 82-119 70-107 (123)
32 PRK14719 bifunctional RNAse/5- 51.9 42 0.00092 29.2 5.8 47 80-128 62-111 (360)
33 COG0117 RibD Pyrimidine deamin 51.9 42 0.00091 25.9 5.1 56 71-128 84-139 (146)
34 PF00962 A_deaminase: Adenosin 51.9 13 0.00027 30.9 2.5 34 89-123 220-253 (331)
35 KOG0523 Transketolase [Carbohy 51.3 9.6 0.00021 35.6 1.8 44 82-127 503-546 (632)
36 PTZ00124 adenosine deaminase; 50.4 17 0.00038 31.5 3.2 32 90-122 250-281 (362)
37 TIGR03840 TMPT_Se_Te thiopurin 49.4 36 0.00078 27.0 4.7 60 60-126 12-72 (213)
38 PTZ00363 rab-GDP dissociation 48.2 17 0.00036 32.3 2.8 34 83-120 3-36 (443)
39 TIGR00421 ubiX_pad polyprenyl 47.6 13 0.00029 29.0 1.9 41 87-127 2-42 (181)
40 COG0022 AcoB Pyruvate/2-oxoglu 47.5 6.2 0.00013 34.1 -0.0 86 31-120 145-235 (324)
41 TIGR00365 monothiol glutaredox 46.9 32 0.00069 23.9 3.6 45 85-129 12-59 (97)
42 cd01143 YvrC Periplasmic bindi 45.9 43 0.00093 24.9 4.4 35 80-119 56-90 (195)
43 cd00860 ThrRS_anticodon ThrRS 44.8 20 0.00044 23.4 2.2 33 85-117 2-34 (91)
44 PF02254 TrkA_N: TrkA-N domain 44.8 29 0.00064 23.8 3.2 31 87-121 1-31 (116)
45 PF14639 YqgF: Holliday-juncti 44.0 8.2 0.00018 29.5 0.2 41 82-122 61-109 (150)
46 PHA02588 cd deoxycytidylate de 44.0 76 0.0017 24.5 5.6 44 82-128 120-163 (168)
47 PRK00994 F420-dependent methyl 43.8 62 0.0013 27.3 5.3 68 66-133 39-109 (277)
48 COG2875 CobM Precorrin-4 methy 43.1 27 0.00059 29.2 3.1 81 38-118 15-110 (254)
49 PLN02683 pyruvate dehydrogenas 42.8 13 0.00028 32.1 1.2 39 80-119 224-262 (356)
50 TIGR01833 HMG-CoA-S_euk 3-hydr 42.7 56 0.0012 29.4 5.3 43 84-126 71-117 (454)
51 CHL00144 odpB pyruvate dehydro 42.6 16 0.00035 31.1 1.7 39 80-119 197-235 (327)
52 cd05565 PTS_IIB_lactose PTS_II 42.0 16 0.00034 26.1 1.4 32 88-119 5-36 (99)
53 cd01148 TroA_a Metal binding p 41.9 62 0.0013 25.8 5.1 39 80-118 75-113 (284)
54 PTZ00182 3-methyl-2-oxobutanat 41.5 17 0.00036 31.5 1.7 39 80-119 229-267 (355)
55 TIGR00361 ComEC_Rec2 DNA inter 40.9 41 0.00088 31.3 4.3 32 84-115 623-656 (662)
56 cd00636 TroA-like Helical back 40.7 64 0.0014 21.8 4.4 43 67-119 49-91 (148)
57 TIGR00232 tktlase_bact transke 40.7 20 0.00044 33.4 2.3 40 82-122 538-577 (653)
58 COG4525 TauB ABC-type taurine 40.5 34 0.00073 28.5 3.2 41 8-63 44-89 (259)
59 TIGR00090 iojap_ybeB iojap-lik 40.3 16 0.00035 25.8 1.2 30 84-113 28-60 (99)
60 TIGR03855 NAD_NadX aspartate d 40.2 72 0.0016 25.9 5.2 53 81-136 34-92 (229)
61 cd04922 ACT_AKi-HSDH-ThrA_2 AC 39.8 41 0.00088 20.5 3.0 31 88-118 5-36 (66)
62 PRK10329 glutaredoxin-like pro 39.1 32 0.00068 23.1 2.5 38 97-134 11-48 (81)
63 cd04924 ACT_AK-Arch_2 ACT doma 39.1 44 0.00095 20.3 3.0 30 89-118 6-36 (66)
64 PRK15020 ethanolamine utilizat 39.0 38 0.00082 28.5 3.4 48 69-120 4-51 (267)
65 PRK05899 transketolase; Review 38.8 17 0.00037 33.4 1.5 38 81-119 507-544 (624)
66 PRK11539 ComEC family competen 38.0 48 0.001 31.4 4.3 31 84-114 681-713 (755)
67 PF02579 Nitro_FeMo-Co: Dinitr 38.0 99 0.0021 20.3 4.9 39 82-126 51-92 (94)
68 COG0163 UbiX 3-polyprenyl-4-hy 37.9 42 0.00092 27.0 3.4 43 88-130 5-48 (191)
69 COG0615 TagD Cytidylyltransfer 37.7 53 0.0011 25.1 3.7 46 82-129 84-134 (140)
70 PF00996 GDI: GDP dissociation 37.5 25 0.00054 31.4 2.3 32 83-119 3-35 (438)
71 PRK05261 putative phosphoketol 36.8 27 0.00058 33.7 2.4 36 84-119 613-650 (785)
72 TIGR02113 coaC_strep phosphopa 36.6 23 0.0005 27.6 1.7 41 87-127 3-43 (177)
73 COG2358 Imp TRAP-type uncharac 36.3 69 0.0015 27.7 4.7 51 83-134 23-78 (321)
74 PRK12754 transketolase; Review 36.3 19 0.00041 33.8 1.3 36 84-120 549-584 (663)
75 cd00859 HisRS_anticodon HisRS 36.0 30 0.00064 22.0 1.9 35 85-119 2-36 (91)
76 PLN02577 hydroxymethylglutaryl 35.9 76 0.0016 28.6 5.0 43 84-126 74-120 (459)
77 PLN02807 diaminohydroxyphospho 35.6 91 0.002 27.3 5.4 59 80-138 117-179 (380)
78 cd04915 ACT_AK-Ectoine_2 ACT d 35.5 39 0.00085 21.6 2.4 33 87-119 5-37 (66)
79 PF09383 NIL: NIL domain; Int 35.2 38 0.00083 22.1 2.4 17 101-117 60-76 (76)
80 PF03345 DDOST_48kD: Oligosacc 35.2 92 0.002 27.8 5.4 71 36-115 33-105 (423)
81 PRK03379 vitamin B12-transport 35.1 90 0.002 25.0 5.0 36 80-119 68-103 (260)
82 PF02844 GARS_N: Phosphoribosy 35.1 16 0.00035 26.3 0.5 49 71-124 50-98 (100)
83 KOG4405 GDP dissociation inhib 34.8 42 0.0009 30.7 3.2 34 80-118 4-38 (547)
84 cd00858 GlyRS_anticodon GlyRS 34.7 27 0.00059 24.9 1.7 34 85-118 27-62 (121)
85 PF04252 RNA_Me_trans: Predict 34.6 1E+02 0.0022 24.9 5.0 67 59-132 65-138 (196)
86 cd01139 TroA_f Periplasmic bin 34.5 64 0.0014 26.6 4.1 40 80-119 87-126 (342)
87 PRK00945 acetyl-CoA decarbonyl 34.5 64 0.0014 25.3 3.9 52 66-118 18-70 (171)
88 COG0680 HyaD Ni,Fe-hydrogenase 34.4 84 0.0018 24.2 4.5 50 86-135 3-58 (160)
89 COG1878 Kynurenine formamidase 34.2 74 0.0016 25.9 4.3 71 69-140 92-181 (218)
90 cd05564 PTS_IIB_chitobiose_lic 33.9 24 0.00052 24.6 1.2 32 87-118 3-34 (96)
91 PRK10528 multifunctional acyl- 33.8 1.3E+02 0.0028 22.9 5.5 37 82-118 69-115 (191)
92 PF12724 Flavodoxin_5: Flavodo 33.5 44 0.00096 24.4 2.7 26 84-109 43-68 (143)
93 cd00562 NifX_NifB This CD repr 33.1 1.1E+02 0.0023 20.4 4.5 39 82-126 59-101 (102)
94 PF01408 GFO_IDH_MocA: Oxidore 32.7 1.4E+02 0.0031 20.3 5.1 53 82-137 60-117 (120)
95 PRK09212 pyruvate dehydrogenas 32.6 25 0.00053 29.9 1.4 38 80-118 197-234 (327)
96 cd00851 MTH1175 This uncharact 32.5 1.1E+02 0.0024 20.5 4.4 32 82-119 61-92 (103)
97 cd04919 ACT_AK-Hom3_2 ACT doma 32.5 79 0.0017 19.4 3.5 31 88-118 5-36 (66)
98 cd02064 FAD_synthetase_N FAD s 32.5 1.1E+02 0.0023 23.4 4.9 52 67-119 82-138 (180)
99 cd04911 ACT_AKiii-YclM-BS_1 AC 32.2 41 0.00089 23.0 2.2 20 101-120 19-38 (76)
100 PF01497 Peripla_BP_2: Peripla 32.0 1.7E+02 0.0037 22.2 6.0 36 81-120 57-92 (238)
101 TIGR01527 arch_NMN_Atrans nico 31.9 72 0.0016 24.6 3.8 53 80-144 87-146 (165)
102 TIGR01421 gluta_reduc_1 glutat 31.7 2.1E+02 0.0045 25.0 7.0 74 37-116 117-194 (450)
103 COG2072 TrkA Predicted flavopr 31.6 41 0.00089 29.7 2.6 35 82-120 6-41 (443)
104 cd06167 LabA_like LabA_like pr 31.4 79 0.0017 22.8 3.8 36 82-120 97-132 (149)
105 PRK07313 phosphopantothenoylcy 31.2 36 0.00078 26.6 2.0 42 87-128 4-45 (182)
106 PRK12753 transketolase; Review 31.0 27 0.00059 32.7 1.5 35 84-119 549-583 (663)
107 COG0021 TktA Transketolase [Ca 31.0 29 0.00063 32.8 1.6 36 84-120 548-583 (663)
108 cd05013 SIS_RpiR RpiR-like pro 30.4 1.4E+02 0.003 20.4 4.8 46 80-126 9-54 (139)
109 COG4015 Predicted dinucleotide 29.8 99 0.0021 24.9 4.2 28 82-109 170-200 (217)
110 PRK13255 thiopurine S-methyltr 29.7 1.3E+02 0.0028 24.0 5.0 38 83-126 37-75 (218)
111 TIGR02194 GlrX_NrdH Glutaredox 29.7 65 0.0014 20.5 2.8 38 97-134 9-46 (72)
112 PF10865 DUF2703: Domain of un 29.6 16 0.00035 27.1 -0.2 36 91-126 20-59 (120)
113 cd00443 ADA_AMPD Adenosine/AMP 29.5 55 0.0012 27.2 2.9 34 89-123 193-226 (305)
114 PF08774 VRR_NUC: VRR-NUC doma 29.5 72 0.0016 21.8 3.1 38 82-119 46-98 (100)
115 PRK05920 aromatic acid decarbo 29.4 55 0.0012 26.3 2.8 43 87-129 6-48 (204)
116 cd04916 ACT_AKiii-YclM-BS_2 AC 29.3 71 0.0015 19.4 2.8 31 89-119 6-37 (66)
117 COG0674 PorA Pyruvate:ferredox 29.2 51 0.0011 28.6 2.8 34 83-116 255-288 (365)
118 PRK06116 glutathione reductase 29.2 2.2E+02 0.0047 24.6 6.7 29 85-117 168-196 (450)
119 cd04923 ACT_AK-LysC-DapG-like_ 29.0 73 0.0016 19.0 2.8 31 89-119 5-36 (63)
120 PRK12571 1-deoxy-D-xylulose-5- 28.7 32 0.00069 32.1 1.5 40 80-120 500-539 (641)
121 PF04407 DUF531: Protein of un 28.6 1.2E+02 0.0027 23.9 4.5 54 67-123 104-163 (173)
122 cd04912 ACT_AKiii-LysC-EC-like 28.5 68 0.0015 20.9 2.7 31 89-119 6-37 (75)
123 TIGR00853 pts-lac PTS system, 28.5 29 0.00062 24.3 0.9 33 88-120 8-40 (95)
124 PF03129 HGTP_anticodon: Antic 28.2 30 0.00065 23.0 1.0 42 87-128 2-50 (94)
125 cd01149 HutB Hemin binding pro 27.8 1.3E+02 0.0027 23.4 4.6 35 80-118 54-88 (235)
126 PRK09590 celB cellobiose phosp 27.7 31 0.00066 24.7 0.9 35 87-121 5-39 (104)
127 TIGR03638 cas1_ECOLI CRISPR-as 27.6 1.1E+02 0.0023 25.3 4.3 34 84-120 44-77 (269)
128 TIGR00762 DegV EDD domain prot 27.4 91 0.002 25.5 3.9 93 40-132 27-127 (275)
129 PF07755 DUF1611: Protein of u 27.3 26 0.00057 29.9 0.6 39 83-121 111-151 (301)
130 PF11823 DUF3343: Protein of u 27.3 43 0.00094 21.9 1.6 21 103-123 17-37 (73)
131 cd04892 ACT_AK-like_2 ACT doma 26.7 89 0.0019 18.2 2.9 31 89-119 5-36 (65)
132 PF01936 NYN: NYN domain; Int 26.6 62 0.0013 22.9 2.4 34 82-118 93-126 (146)
133 PF09084 NMT1: NMT1/THI5 like; 26.6 56 0.0012 24.7 2.3 34 105-138 14-47 (216)
134 PLN02790 transketolase 26.4 40 0.00087 31.5 1.7 35 85-120 541-575 (654)
135 PRK11892 pyruvate dehydrogenas 25.8 37 0.00081 30.5 1.4 39 80-119 336-374 (464)
136 PRK09534 btuF corrinoid ABC tr 25.8 1.2E+02 0.0027 25.7 4.5 34 80-118 115-148 (359)
137 PF01494 FAD_binding_3: FAD bi 25.7 50 0.0011 26.3 2.0 30 85-118 2-31 (356)
138 PRK04148 hypothetical protein; 25.7 1E+02 0.0022 23.2 3.5 31 86-121 19-49 (134)
139 PF00590 TP_methylase: Tetrapy 25.6 1.5E+02 0.0033 22.4 4.6 61 79-139 71-138 (210)
140 COG1154 Dxs Deoxyxylulose-5-ph 25.5 1E+02 0.0022 29.2 4.0 40 79-119 496-535 (627)
141 cd00165 S4 S4/Hsp/ tRNA synthe 25.4 1.2E+02 0.0025 17.9 3.3 22 36-57 23-45 (70)
142 TIGR00204 dxs 1-deoxy-D-xylulo 25.4 42 0.00092 31.1 1.7 39 80-119 491-529 (617)
143 PRK10310 PTS system galactitol 25.4 37 0.00079 23.6 1.0 31 88-118 7-38 (94)
144 PRK15364 pathogenicity island 25.2 81 0.0018 25.4 3.0 25 96-120 96-120 (196)
145 cd01147 HemV-2 Metal binding p 25.2 1.2E+02 0.0025 23.7 4.0 36 80-119 70-106 (262)
146 COG1993 PII-like signaling pro 25.1 66 0.0014 23.7 2.3 44 89-132 46-89 (109)
147 cd06063 H2MP_Cyano-H2up This g 25.0 1.1E+02 0.0024 22.6 3.6 39 87-125 1-44 (146)
148 TIGR02964 xanthine_xdhC xanthi 24.8 61 0.0013 26.4 2.4 39 80-122 96-134 (246)
149 cd04936 ACT_AKii-LysC-BS-like_ 24.6 1.2E+02 0.0027 17.9 3.3 31 89-119 5-36 (63)
150 PRK15418 transcriptional regul 24.5 1.2E+02 0.0025 25.7 4.1 37 81-117 198-244 (318)
151 TIGR00287 cas1 CRISPR-associat 24.5 1.3E+02 0.0029 25.2 4.4 31 85-118 35-65 (323)
152 COG2247 LytB Putative cell wal 24.5 1.4E+02 0.0031 26.0 4.6 57 69-129 62-122 (337)
153 COG0796 MurI Glutamate racemas 24.0 60 0.0013 27.4 2.2 38 82-123 175-212 (269)
154 COG0007 CysG Uroporphyrinogen- 23.8 99 0.0021 25.7 3.4 45 84-128 81-129 (244)
155 PRK00141 murD UDP-N-acetylmura 23.7 72 0.0016 28.2 2.7 33 86-122 17-49 (473)
156 PRK05579 bifunctional phosphop 23.7 67 0.0015 28.2 2.5 46 85-130 7-52 (399)
157 TIGR03659 IsdE heme ABC transp 23.4 1.8E+02 0.0039 23.5 4.9 35 80-119 87-121 (289)
158 COG1433 Uncharacterized conser 23.4 2.7E+02 0.0058 20.6 5.4 41 80-126 61-104 (121)
159 TIGR00113 queA S-adenosylmethi 23.2 2.3E+02 0.005 24.8 5.7 43 97-139 184-254 (344)
160 PF07864 DUF1651: Protein of u 23.2 74 0.0016 21.1 2.1 21 114-134 47-67 (75)
161 COG4821 Uncharacterized protei 23.0 1.3E+02 0.0028 24.9 3.8 38 86-123 106-143 (243)
162 COG4012 Uncharacterized protei 22.9 1.1E+02 0.0025 26.3 3.6 54 69-127 35-88 (342)
163 TIGR02032 GG-red-SF geranylger 22.5 70 0.0015 25.0 2.2 33 85-121 1-33 (295)
164 cd04868 ACT_AK-like ACT domain 22.4 1.1E+02 0.0024 17.3 2.7 21 100-120 17-37 (60)
165 PF07652 Flavi_DEAD: Flaviviru 22.1 69 0.0015 24.7 2.0 39 91-129 14-53 (148)
166 TIGR03641 cas1_HMARI CRISPR-as 21.9 1.5E+02 0.0033 25.1 4.3 31 85-118 34-64 (322)
167 PF02985 HEAT: HEAT repeat; I 21.7 71 0.0015 17.2 1.5 15 2-16 15-29 (31)
168 PRK01424 S-adenosylmethionine: 21.5 82 0.0018 27.8 2.6 43 97-139 205-275 (366)
169 PRK06029 3-octaprenyl-4-hydrox 21.2 83 0.0018 24.8 2.4 43 87-129 4-47 (185)
170 PF07505 Gp37_Gp68: Phage prot 21.2 1.6E+02 0.0035 24.6 4.2 38 83-120 187-230 (261)
171 PF03508 Connexin43: Gap junct 21.1 12 0.00027 19.3 -1.5 13 121-133 4-16 (20)
172 PRK13302 putative L-aspartate 20.9 2.7E+02 0.0058 22.8 5.5 51 83-136 66-119 (271)
173 TIGR02699 archaeo_AfpA archaeo 20.8 95 0.0021 24.3 2.6 38 88-125 5-42 (174)
174 COG4558 ChuT ABC-type hemin tr 20.7 1.6E+02 0.0035 25.3 4.1 44 67-119 87-130 (300)
175 COG2428 Uncharacterized conser 20.7 1.1E+02 0.0024 24.5 2.9 62 66-135 73-141 (196)
176 PF05225 HTH_psq: helix-turn-h 20.7 56 0.0012 19.7 1.0 13 117-129 17-29 (45)
177 TIGR01835 HMG-CoA-S_prok 3-hyd 20.6 1.2E+02 0.0026 26.1 3.4 43 84-127 68-113 (379)
178 KOG1367 3-phosphoglycerate kin 20.5 97 0.0021 27.4 2.8 61 67-128 311-383 (416)
179 PRK07045 putative monooxygenas 20.5 39 0.00085 28.3 0.4 33 84-120 5-37 (388)
180 TIGR03639 cas1_NMENI CRISPR-as 20.5 1.2E+02 0.0027 25.1 3.4 21 98-118 46-66 (278)
181 COG3414 SgaB Phosphotransferas 20.5 50 0.0011 23.3 0.9 30 89-118 7-39 (93)
182 cd01144 BtuF Cobalamin binding 20.4 4E+02 0.0087 20.5 6.2 35 80-118 53-87 (245)
183 PRK07119 2-ketoisovalerate fer 20.4 1E+02 0.0022 26.5 2.9 35 83-118 245-279 (352)
184 PF03433 EspA: EspA-like secre 20.4 34 0.00073 27.5 0.0 27 95-121 95-121 (188)
185 PHA02517 putative transposase 20.4 3.2E+02 0.007 21.8 5.8 94 37-130 116-218 (277)
186 cd03028 GRX_PICOT_like Glutare 20.4 1.7E+02 0.0037 19.6 3.6 34 86-119 9-45 (90)
187 PF14106 DUF4279: Domain of un 20.2 1.9E+02 0.004 20.1 3.9 18 99-116 101-118 (118)
188 TIGR01988 Ubi-OHases Ubiquinon 20.2 83 0.0018 25.9 2.3 15 98-112 47-61 (385)
189 COG1791 Uncharacterized conser 20.1 1.2E+02 0.0026 24.2 3.0 65 26-95 93-166 (181)
190 cd04937 ACT_AKi-DapG-BS_2 ACT 20.1 1.5E+02 0.0032 18.4 3.0 32 87-118 4-36 (64)
191 COG4143 TbpA ABC-type thiamine 20.1 1.3E+02 0.0029 26.2 3.6 51 87-137 27-81 (336)
192 cd04890 ACT_AK-like_1 ACT doma 20.1 1.5E+02 0.0033 18.0 3.0 22 99-120 16-37 (62)
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=1.6e-41 Score=249.72 Aligned_cols=114 Identities=42% Similarity=0.749 Sum_probs=110.1
Q ss_pred CCeeeEeCCcEEEcCEEEeeeEEEeCCceecCCCCCCCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHc
Q 032090 31 LPSLRYTDTGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRST 110 (147)
Q Consensus 31 ~~~~~Y~~g~f~Ing~~y~gsviv~p~~v~~W~~~~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~ 110 (147)
+.++.|++++|+|||+.|.||++++|+.+++|++++++++++++|+.|..++++||+||||||+++++++|+++++|+++
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 35677999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEEEeChHHHHHHHHhhhhccceeEEEeecCC
Q 032090 111 GMKLEAIDSRNAASTYNILNEEGRIVAAALLPYG 144 (147)
Q Consensus 111 GI~vEvM~T~aAcrTyNiL~sEGR~VaAaLlp~~ 144 (147)
||++|+|+|++||||||+|++|||+|+|+|||++
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=4e-41 Score=245.15 Aligned_cols=109 Identities=34% Similarity=0.593 Sum_probs=103.1
Q ss_pred CeeeEeCCcEEEcCEEEeeeEEEeCCceecCCCCCCCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 032090 32 PSLRYTDTGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 111 (147)
Q Consensus 32 ~~~~Y~~g~f~Ing~~y~gsviv~p~~v~~W~~~~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~G 111 (147)
++..|++|+|+|||+.|.+|++++|+.+.+|++++++++++++|+.+...+ +||+||||||+++++++|+++++|+++|
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 356799999999999999999999999999999999999999999765544 5999999999999999999999999999
Q ss_pred CeEEEeChHHHHHHHHhhhhccceeEEEee
Q 032090 112 MKLEAIDSRNAASTYNILNEEGRIVAAALL 141 (147)
Q Consensus 112 I~vEvM~T~aAcrTyNiL~sEGR~VaAaLl 141 (147)
|++|+|+|++||||||+|++|||+|+||||
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=1.6e-40 Score=241.56 Aligned_cols=109 Identities=39% Similarity=0.670 Sum_probs=99.9
Q ss_pred eeeEeCCcEEEcCEEEeeeEEEeCCce-ecCCCCCCCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 032090 33 SLRYTDTGFTVNGVQYEGSLLCIGNLL-LSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 111 (147)
Q Consensus 33 ~~~Y~~g~f~Ing~~y~gsviv~p~~v-~~W~~~~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~G 111 (147)
+.+|++|+|+|||++|.+|++++|+++ ++|+.+++++++.++|+.+..+.|+||+||||||+++++++|+++++|+++|
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 356999999999999999999999998 8998899999999999998888889999999999999999999999999999
Q ss_pred CeEEEeChHHHHHHHHhhhhccceeEEEee
Q 032090 112 MKLEAIDSRNAASTYNILNEEGRIVAAALL 141 (147)
Q Consensus 112 I~vEvM~T~aAcrTyNiL~sEGR~VaAaLl 141 (147)
|++|+|+|++||||||+|++|||+|+|||+
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=7.7e-40 Score=238.62 Aligned_cols=107 Identities=33% Similarity=0.534 Sum_probs=100.3
Q ss_pred eeeEeCCcEEEcCEEEeeeEEEeCCceec-CCCCCCCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 032090 33 SLRYTDTGFTVNGVQYEGSLLCIGNLLLS-WTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 111 (147)
Q Consensus 33 ~~~Y~~g~f~Ing~~y~gsviv~p~~v~~-W~~~~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~G 111 (147)
+..|++|+|+|||++|.||++++|+.+.. |.++++++++.+||+.+ +..+||+||||||+++.+++|+++++|+++|
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 35599999999999999999999998665 99999999999999974 4456999999999999999999999999999
Q ss_pred CeEEEeChHHHHHHHHhhhhccceeEEEee
Q 032090 112 MKLEAIDSRNAASTYNILNEEGRIVAAALL 141 (147)
Q Consensus 112 I~vEvM~T~aAcrTyNiL~sEGR~VaAaLl 141 (147)
|++|+|+|++||||||+|++|||+|+||||
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
>COG3737 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=6.2e-39 Score=236.20 Aligned_cols=118 Identities=31% Similarity=0.486 Sum_probs=111.7
Q ss_pred CCCCCCCCeeeEeCCcEEEcCEEEeeeEEEeCCceecCCCCCCCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHH
Q 032090 25 AAPNQPLPSLRYTDTGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELR 104 (147)
Q Consensus 25 ~~~~~~~~~~~Y~~g~f~Ing~~y~gsviv~p~~v~~W~~~~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~ 104 (147)
+|+|++.|...|+.|+|+++++++.+|+++.|+++..|.+.+.+++++++|+.+....+++|+||||||..+.|+|+.++
T Consensus 10 ~~~Pg~~~~~ayG~Gg~R~a~~sh~~SlL~lpdgv~~W~v~~~~~Lt~e~f~~vl~~a~~~EilliGTG~~~rf~p~~l~ 89 (127)
T COG3737 10 AHFPGRAPIDAYGAGGFRFADMSHRGSLLVLPDGVCDWEVATLSDLTPEDFERVLAEAPDVEILLIGTGARLRFPPPKLR 89 (127)
T ss_pred CCCCCcchhhhhcCCceEeccccccccEEEecCccccccccChhhCCHHHHHHHHhcCCCceEEEEecCccccCCCHHHH
Confidence 46778889888999999999999999999999999999999999999999997666667789999999999999999999
Q ss_pred HHHHHcCCeEEEeChHHHHHHHHhhhhccceeEEEeec
Q 032090 105 QFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALLP 142 (147)
Q Consensus 105 ~~l~~~GI~vEvM~T~aAcrTyNiL~sEGR~VaAaLlp 142 (147)
+.|+++||++|+|+|++||||||+|++|||+||||||+
T Consensus 90 aal~~~gIsve~Mst~AA~RTYNvL~sEgRrvAAALi~ 127 (127)
T COG3737 90 AALKAAGISVEPMSTGAAVRTYNVLLSEGRRVAAALIA 127 (127)
T ss_pred HHHHHcCCccccccchhhHHHHHHHHhccHHHHHHhcC
Confidence 99999999999999999999999999999999999985
No 6
>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=4.7e-37 Score=226.72 Aligned_cols=107 Identities=22% Similarity=0.278 Sum_probs=99.2
Q ss_pred eeeEeCCcEEEcCEEEeeeEEEeCCceecCCCC-------CCCCCChhhhhchhhhcCCCcEEEEeecCCCC-CCCHHHH
Q 032090 33 SLRYTDTGFTVNGVQYEGSLLCIGNLLLSWTPK-------KFSEITPNCLSIFQLVRPIPEILILGCGRYIE-PVNPELR 104 (147)
Q Consensus 33 ~~~Y~~g~f~Ing~~y~gsviv~p~~v~~W~~~-------~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~-~l~~~l~ 104 (147)
+..|++|+|+|||++|.+|++|+|+++..|+++ ++++++++||+. +++.+||+||||||.+++ +++|+++
T Consensus 2 i~~y~~G~i~i~g~~y~~~viv~p~~~~~w~~~~~s~~~~~~~~l~~~~l~~--ll~~~peivliGTG~~~~~~~~~~~~ 79 (117)
T cd05126 2 IESTSFGSITVGGETYEHDIVVYPDGSRARRWKELSKKTGTSHGLQPEELEE--LLEEGVEVIVIGTGQSGALKVPPETV 79 (117)
T ss_pred cceecCCEEEECCEEEcCCEEEeCCccccccccccccccCCcccCCHHHHHH--HHhcCCCEEEEcCCCCccccCCHHHH
Confidence 356999999999999999999999998888766 788999999995 567789999999999976 7899999
Q ss_pred HHHHHcCCeEEEeChHHHHHHHHhhhhccceeEEEee
Q 032090 105 QFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALL 141 (147)
Q Consensus 105 ~~l~~~GI~vEvM~T~aAcrTyNiL~sEGR~VaAaLl 141 (147)
++|+++||++|+|+|++||||||+|++|||+|+|||-
T Consensus 80 ~~l~~~Gi~ve~m~T~aAcrTYN~L~~EgRrV~Aa~H 116 (117)
T cd05126 80 EKLEKRGVEVLVLPTEEAVKRYNELAGKGRRVLAVIH 116 (117)
T ss_pred HHHHhcCCEEEEcChHHHHHHHHHHHhCCCeEEEEEe
Confidence 9999999999999999999999999999999999984
No 7
>KOG3363 consensus Uncharacterized conserved nuclear protein [Function unknown]
Probab=100.00 E-value=5.7e-35 Score=226.05 Aligned_cols=146 Identities=47% Similarity=0.780 Sum_probs=129.2
Q ss_pred hhhhhhhhhhHHHHHHhhCCCCCCCC-----------------------CCCCCeeeEe-CCcEEEcCEEEeeeEEEeCC
Q 032090 2 AVRQRAVTTLPNLMRSLRKGSPKAAP-----------------------NQPLPSLRYT-DTGFTVNGVQYEGSLLCIGN 57 (147)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------------~~~~~~~~Y~-~g~f~Ing~~y~gsviv~p~ 57 (147)
+.|--...|.+-|++|.++++|+++- .+++....|+ .|++.+||+.|.|++.|+|+
T Consensus 5 slr~~g~qt~~~ll~s~~a~r~lh~~~vnps~~~d~s~~~qI~l~~te~~~ql~v~gys~ygfrl~ng~~l~Gpi~~fp~ 84 (196)
T KOG3363|consen 5 SLRALGMQTLPKLLQSMRAERPLHGYPVNPSLRRDFSLYDQINLIDTEPEDQLRVQGYSCYGFRLVNGVKLEGPILCFPN 84 (196)
T ss_pred HHHHHhHhhHHHHHHHHhhccccccccCChhhhhcccccceeeeecCCchhhheeeeecccceEeecCeEEEecceeccc
Confidence 45566678999999999999996542 2344445566 45555789999999999999
Q ss_pred ceecCCCCCCCCCChhhhhchhhhcCCCcEEEEeecCCCCC--CCHHHHHHHHHcCCeEEEeChHHHHHHHHhhhhccce
Q 032090 58 LLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEP--VNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRI 135 (147)
Q Consensus 58 ~v~~W~~~~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~--l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~sEGR~ 135 (147)
.+++|.+..++||+.++|+.|..++|+||+||+|+|..... +.++++++++++||++|+|||++||.|||+|++|||.
T Consensus 85 ~~lSW~v~~fedIt~dSLslF~tlePkidlLIvG~Gd~~~p~~v~~~V~~F~k~~ki~lEi~dte~A~aTfNfLNaEgR~ 164 (196)
T KOG3363|consen 85 LLLSWSVRTFEDITTDSLSLFQTLEPKIDLLIVGCGDKKHPDKVRPSVRQFVKSHKIKLEIVDTENAAATFNFLNAEGRY 164 (196)
T ss_pred ceeeccCCChhhcCcchHhHhhhcCCCccEEEEecCCcCCchhcCHHHHHHHHHhCcceEEecchhhhhHhhhccccccE
Confidence 99999999999999999999999999999999999999665 9999999999999999999999999999999999999
Q ss_pred eEEEeecCCcCC
Q 032090 136 VAAALLPYGVSS 147 (147)
Q Consensus 136 VaAaLlp~~~~~ 147 (147)
|+|||+|+++-|
T Consensus 165 VaaAL~Pp~v~s 176 (196)
T KOG3363|consen 165 VAAALLPPGVTS 176 (196)
T ss_pred EEEEecCCcccc
Confidence 999999998643
No 8
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=99.75 E-value=4.7e-18 Score=124.30 Aligned_cols=104 Identities=21% Similarity=0.315 Sum_probs=92.5
Q ss_pred eEeCCcEEEcCEEEeeeEEEeCCc-e-----ecCCCC--CCCCCChhhhhchhhhcCCCcEEEEeecCC-CCCCCHHHHH
Q 032090 35 RYTDTGFTVNGVQYEGSLLCIGNL-L-----LSWTPK--KFSEITPNCLSIFQLVRPIPEILILGCGRY-IEPVNPELRQ 105 (147)
Q Consensus 35 ~Y~~g~f~Ing~~y~gsviv~p~~-v-----~~W~~~--~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~-~~~l~~~l~~ 105 (147)
.|++|.++|.|+.|+++++|.|++ + ..|+.+ ++|.+.+|+++. +++.+||+||+|||+. ...++++.++
T Consensus 6 ~~~FG~v~i~Gk~f~~DIvi~~dG~v~rr~K~lskrK~GTSHkl~~eEle~--~lee~~E~ivvGTG~~G~l~l~~ea~e 83 (121)
T COG1504 6 STSFGSVTIGGKDFEHDIVIRPDGKVERREKELSKRKYGTSHKLALEELEE--LLEEGPEVIVVGTGQSGMLELSEEARE 83 (121)
T ss_pred ccceeeEEECCEeccccEEEecCCceehhhhhhhhhhcCcccccCHHHHHH--HHhcCCcEEEEecCceeEEEeCHHHHH
Confidence 388899999999999999999876 3 245554 469999999994 6778899999999999 6799999999
Q ss_pred HHHHcCCeEEEeChHHHHHHHHhhhhccceeEEEee
Q 032090 106 FIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALL 141 (147)
Q Consensus 106 ~l~~~GI~vEvM~T~aAcrTyNiL~sEGR~VaAaLl 141 (147)
+|+++|++|.+.+|+.|...||.|.+. |+|+|++-
T Consensus 84 ~~r~k~~~vi~~pT~EAikr~nel~~~-krV~aiiH 118 (121)
T COG1504 84 FFRKKGCEVIELPTPEAIKRYNELRGK-KRVAAIIH 118 (121)
T ss_pred HHHhcCCeEEEeCCHHHHHHHHHHhcc-ceEEEEEE
Confidence 999999999999999999999999998 99998764
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=83.41 E-value=0.91 Score=35.99 Aligned_cols=31 Identities=19% Similarity=0.515 Sum_probs=27.4
Q ss_pred HHHHHHHHcCCeEEEeChHHHHHHHHhhhhc
Q 032090 102 ELRQFIRSTGMKLEAIDSRNAASTYNILNEE 132 (147)
Q Consensus 102 ~l~~~l~~~GI~vEvM~T~aAcrTyNiL~sE 132 (147)
.+-..|.+.||.+.-|+|..-|..||.|.++
T Consensus 109 ~iEq~L~elgv~~~PmPTe~Ic~~fneLRsd 139 (176)
T PF05499_consen 109 AIEQFLQELGVDLNPMPTEEICQEFNELRSD 139 (176)
T ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHHHHHH
Confidence 3555899999999999999999999999775
No 10
>COG4408 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=77.60 E-value=2.5 Score=37.20 Aligned_cols=28 Identities=32% Similarity=0.382 Sum_probs=24.6
Q ss_pred HHHHHHHHHcCCeEEEeChHHHHHHHHh
Q 032090 101 PELRQFIRSTGMKLEAIDSRNAASTYNI 128 (147)
Q Consensus 101 ~~l~~~l~~~GI~vEvM~T~aAcrTyNi 128 (147)
..+.+.|+++||.+|+|.++-|++|+|+
T Consensus 185 e~l~~v~aq~~I~v~~~esp~~AEtrni 212 (431)
T COG4408 185 EMLTAVLAQHGIDVEPCESPLAAETRNI 212 (431)
T ss_pred HHHHHHHHhcCCceEEcCChhhhhhccc
Confidence 3477789999999999999999998886
No 11
>COG4081 Uncharacterized protein conserved in archaea [Function unknown]
Probab=77.03 E-value=3.7 Score=31.40 Aligned_cols=42 Identities=12% Similarity=0.326 Sum_probs=33.8
Q ss_pred EEEEeecCCCCCCCHHHHH--HHHHcCCeEEEeChHHHHHHHHh
Q 032090 87 ILILGCGRYIEPVNPELRQ--FIRSTGMKLEAIDSRNAASTYNI 128 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~--~l~~~GI~vEvM~T~aAcrTyNi 128 (147)
+|++||-+...+.|..+.- .|+++|..+-+..|++|||..-+
T Consensus 6 lv~lGCPeiP~qissaiYls~klkkkgf~v~VaateAa~kLlev 49 (148)
T COG4081 6 LVSLGCPEIPPQISSAIYLSHKLKKKGFDVTVAATEAALKLLEV 49 (148)
T ss_pred EEEecCCCCCccchHHHHHHHHhhccCccEEEecCHhhheeeee
Confidence 6788998877677766543 68999999999999999986543
No 12
>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=75.58 E-value=3.5 Score=36.81 Aligned_cols=31 Identities=29% Similarity=0.455 Sum_probs=25.5
Q ss_pred CCCHHHHHHHHHcCCeEEEeChHHHHHHHHh
Q 032090 98 PVNPELRQFIRSTGMKLEAIDSRNAASTYNI 128 (147)
Q Consensus 98 ~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNi 128 (147)
..-..+.+.|++.||.+++|+++-++++.|+
T Consensus 180 ~~~~~l~~~~~~~gI~~~~~~~pl~AE~rNi 210 (429)
T PF10100_consen 180 PELDKLCRLLAQLGIQLEVMDNPLEAESRNI 210 (429)
T ss_pred hHHHHHHHHHHHcCCeEEEeCChHhhhhccc
Confidence 3345677899999999999999988877775
No 13
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=72.10 E-value=2.5 Score=30.79 Aligned_cols=36 Identities=19% Similarity=0.355 Sum_probs=31.4
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 83 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
.+.|+++||- +..+.-+++.+.+..+||.|++.|+.
T Consensus 47 ~~~DvvLlGP--Qv~y~~~~~~~~~~~~giPV~vI~~~ 82 (102)
T COG1440 47 DNADVVLLGP--QVRYMLKQLKEAAEEKGIPVEVIDML 82 (102)
T ss_pred hcCCEEEECh--HHHHHHHHHHHHhcccCCCeEEeCHH
Confidence 3799999974 56788899999999999999999975
No 14
>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=69.68 E-value=2.6 Score=30.24 Aligned_cols=58 Identities=21% Similarity=0.257 Sum_probs=38.8
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH-----------H-HHHHHHhhhhccceeEE
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR-----------N-AASTYNILNEEGRIVAA 138 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~-----------a-AcrTyNiL~sEGR~VaA 138 (147)
.+.++.|++||++|... ..--+..+.|++.||.+++.+.. + +-++..++.-|.....+
T Consensus 5 ~~~~g~di~iia~G~~~-~~al~A~~~L~~~Gi~~~vi~~~~i~P~d~~~l~~~~~~~~~vvvvee~~~~g 74 (124)
T PF02780_consen 5 VLREGADITIIAYGSMV-EEALEAAEELEEEGIKAGVIDLRTIKPFDEEALLESLKKTGRVVVVEEHYKIG 74 (124)
T ss_dssp EEESSSSEEEEEETTHH-HHHHHHHHHHHHTTCEEEEEEEEEEESSBHHHHHHHSHHHHHHHHSETCESEE
T ss_pred EEeCCCCEEEEeehHHH-HHHHHHHHHHHHcCCceeEEeeEEEecccccchHHHHHHhccccccccccccc
Confidence 34678899999999864 23346778899999998884421 2 34566666655544333
No 15
>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=66.90 E-value=12 Score=27.17 Aligned_cols=44 Identities=18% Similarity=0.180 Sum_probs=36.4
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhhh
Q 032090 87 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILN 130 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~ 130 (147)
+++.=||.....-.+++.+.|++.|..|.+.=|++|.+..+...
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 56777887755558899999999999999999999999888765
No 16
>COG2333 ComEC Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=63.42 E-value=12 Score=31.64 Aligned_cols=44 Identities=20% Similarity=0.418 Sum_probs=33.2
Q ss_pred hhhhchhhhcCCCcEEEEeecCC--CCCCCHHHHHHHHHcCCeEEEeC
Q 032090 73 NCLSIFQLVRPIPEILILGCGRY--IEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 73 e~l~~l~~l~~~pEvlIIGTG~~--~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
.+...++.+ +|++.||..|.. ...|+.++.+.+++++|.+--=|
T Consensus 222 ss~~Fl~~v--~Pk~AliS~G~~N~yghPh~~Vl~rl~~~~~~v~rTd 267 (293)
T COG2333 222 SSLAFLEAV--KPKVALISSGRNNRYGHPHQEVLERLQKRGIKVYRTD 267 (293)
T ss_pred CcHHHHHhc--CCcEEEEEeeccCCCCCCcHHHHHHHHhcCCeEEecC
Confidence 334444444 489999999996 45799999999999999876433
No 17
>PF12641 Flavodoxin_3: Flavodoxin domain
Probab=61.57 E-value=45 Score=25.56 Aligned_cols=62 Identities=15% Similarity=0.263 Sum_probs=43.3
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHH-cCCeEEEeCh-------HHHHHH---HHhhhhccceeEEEeecCC
Q 032090 83 PIPEILILGCGRYIEPVNPELRQFIRS-TGMKLEAIDS-------RNAAST---YNILNEEGRIVAAALLPYG 144 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~l~~~l~~-~GI~vEvM~T-------~aAcrT---yNiL~sEGR~VaAaLlp~~ 144 (147)
...|+|+||.+-..-.++++++++|++ +|-.|-+..| .-+++. ...|+.++-.+.+-++.+|
T Consensus 38 ~~yD~i~lG~w~d~G~~d~~~~~fl~~l~~KkV~lF~T~G~~~~s~~~~~~~~~~~~~~~~~~~~lg~f~CqG 110 (160)
T PF12641_consen 38 EDYDLIFLGFWIDKGTPDKDMKEFLKKLKGKKVALFGTAGAGPDSEYAKKILKNVEALLPKGNEILGTFMCQG 110 (160)
T ss_pred CCCCEEEEEcCccCCCCCHHHHHHHHHccCCeEEEEEecCCCCchHHHHHHHHHHHHhhccCCeecceEEeCC
Confidence 347999999998888999999999988 5555555444 333444 4466677767777666554
No 18
>cd01321 ADGF Adenosine deaminase-related growth factors (ADGF), a novel family of secreted growth-factors with sequence similarty to adenosine deaminase.
Probab=61.24 E-value=8.9 Score=32.86 Aligned_cols=33 Identities=21% Similarity=0.447 Sum_probs=26.0
Q ss_pred EeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 032090 90 LGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 123 (147)
Q Consensus 90 IGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAc 123 (147)
||-|-.. .-+|++.++++++||.+|+.+|.+=.
T Consensus 226 IGHG~~~-~~dp~ll~~l~~~~I~lEvCPtSN~~ 258 (345)
T cd01321 226 IGHGFAL-PKHPLLMDLVKKKNIAIEVCPISNQV 258 (345)
T ss_pred Ccccccc-CcCHHHHHHHHHcCCeEEECcchhhh
Confidence 4555543 24699999999999999999997653
No 19
>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=61.17 E-value=9.3 Score=30.73 Aligned_cols=38 Identities=13% Similarity=0.205 Sum_probs=26.7
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 117 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM 117 (147)
++.-+||+||.+.+.....-.++..+.|++.||.|.+.
T Consensus 74 i~~l~PDlvi~~~~~~~~~~~~~~~~~l~~~gipv~~~ 111 (287)
T TIGR03868 74 VLETEPDLVYAGWESNLTAEGAGERADLASLGVNTYVA 111 (287)
T ss_pred hhcCCCCEEEeccccccCCCCCCCHHHHHHCCCeEEEC
Confidence 44567999998655433222346678899999999875
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=59.47 E-value=18 Score=27.12 Aligned_cols=35 Identities=17% Similarity=0.284 Sum_probs=25.4
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
++.-+||++|...+ +.+.++.+.|.+.||.+-+++
T Consensus 65 ll~l~PDlii~~~~----~~~~~~~~~l~~~gIpvv~i~ 99 (186)
T cd01141 65 IVALKPDLVILYGG----FQAQTILDKLEQLGIPVLYVN 99 (186)
T ss_pred HhccCCCEEEEecC----CCchhHHHHHHHcCCCEEEeC
Confidence 44567999887533 223368999999999987776
No 21
>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=57.95 E-value=10 Score=34.13 Aligned_cols=33 Identities=18% Similarity=0.257 Sum_probs=25.7
Q ss_pred eecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHH
Q 032090 91 GCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAS 124 (147)
Q Consensus 91 GTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcr 124 (147)
|-|-.. .-+|++.+.+++++|.+|+.+|.+-+-
T Consensus 353 GHG~~l-~~~P~l~~~vke~~I~lEvCP~SN~~l 385 (479)
T TIGR01431 353 GHGFAL-VKHPLVLQMLKERNIAVEVNPISNQVL 385 (479)
T ss_pred cCcccc-cCCHHHHHHHHHhCCeEEECccchhhh
Confidence 444432 347999999999999999999987643
No 22
>PF15603 Imm45: Immunity protein 45
Probab=57.71 E-value=49 Score=22.99 Aligned_cols=60 Identities=12% Similarity=0.260 Sum_probs=41.2
Q ss_pred EeCCcEEE-cCEEEee------eEEEeCCceecCCCCC-CCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHH
Q 032090 36 YTDTGFTV-NGVQYEG------SLLCIGNLLLSWTPKK-FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFI 107 (147)
Q Consensus 36 Y~~g~f~I-ng~~y~g------sviv~p~~v~~W~~~~-~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l 107 (147)
|.+|.... .|..+.. +.+++.+..-.|.+.. ...++.++.+. +++ ++.++|
T Consensus 14 l~~G~~~~~~GE~l~~~~~~~~~Fvvy~~si~~We~P~e~~~it~~e~q~--II~-------------------aI~~~~ 72 (82)
T PF15603_consen 14 LEEGARRKAQGEMLLTGNDNDGDFVVYKDSIKNWEPPHENEPITIAERQK--IIE-------------------AIEKYF 72 (82)
T ss_pred ecCCEEEEEeeeEEEeccCCCcCEEEEccccccccCCCCCcccCHHHHHH--HHH-------------------HHHHHH
Confidence 56665554 5666644 5888888899998765 33588887773 333 677778
Q ss_pred HHcCCeEEE
Q 032090 108 RSTGMKLEA 116 (147)
Q Consensus 108 ~~~GI~vEv 116 (147)
.++|+.|++
T Consensus 73 ~~~~~~v~f 81 (82)
T PF15603_consen 73 SERGMTVDF 81 (82)
T ss_pred hcCceEEEe
Confidence 888777764
No 23
>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=57.66 E-value=7.5 Score=29.75 Aligned_cols=47 Identities=15% Similarity=0.306 Sum_probs=30.2
Q ss_pred EEEEeecCCCCCCCHH--HHHHHHHcCCeEEEeChHHHHHHHHhhhhcc
Q 032090 87 ILILGCGRYIEPVNPE--LRQFIRSTGMKLEAIDSRNAASTYNILNEEG 133 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~--l~~~l~~~GI~vEvM~T~aAcrTyNiL~sEG 133 (147)
+|++||-+...+.|-. +...|+++|+.+-+-.|++|++.--+==-|+
T Consensus 1 lilLGCPe~Pvq~p~alYl~~~Lk~~G~~v~Va~npAA~kLl~vaDPe~ 49 (139)
T PF09001_consen 1 LILLGCPEVPVQTPSALYLSYKLKKKGFEVVVAGNPAALKLLEVADPEK 49 (139)
T ss_dssp EEE---S-STTHHHHHHHHHHHHHCTTEEEEEEE-HHHHHHHHHHSTT-
T ss_pred CccccCCCCcchhHHHHHHHHHHHhcCCeEEEecCHHHHhHhhhcCCcc
Confidence 5889998776555544 4557999999999999999998755433333
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=55.55 E-value=51 Score=26.00 Aligned_cols=51 Identities=22% Similarity=0.337 Sum_probs=37.6
Q ss_pred CCCChhhhhchhhhcCCCcEEEEeecCC---------CCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 68 SEITPNCLSIFQLVRPIPEILILGCGRY---------IEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 68 ~~l~~e~l~~l~~l~~~pEvlIIGTG~~---------~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
..++.++++.. .....|+|+|=||.. .--++++..++|.++||.+--+|+.
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 46888888864 234469999999942 1247889999999998877666664
No 25
>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=55.34 E-value=23 Score=24.37 Aligned_cols=48 Identities=13% Similarity=0.094 Sum_probs=41.1
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhhh
Q 032090 83 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILN 130 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~ 130 (147)
.++|+||+=|+.--.-....+++..++.||.+....+...+.-.+.|.
T Consensus 47 ~~aD~VIv~t~~vsH~~~~~vk~~akk~~ip~~~~~~~~~~~l~~~l~ 94 (97)
T PF10087_consen 47 KKADLVIVFTDYVSHNAMWKVKKAAKKYGIPIIYSRSRGVSSLERALE 94 (97)
T ss_pred CCCCEEEEEeCCcChHHHHHHHHHHHHcCCcEEEECCCCHHHHHHHHH
Confidence 468999999998877888899999999999999999888877666653
No 26
>KOG3125 consensus Thymidine kinase [Nucleotide transport and metabolism]
Probab=55.11 E-value=14 Score=30.30 Aligned_cols=89 Identities=15% Similarity=0.271 Sum_probs=49.9
Q ss_pred HHHHHHhhCCCCCCCCCCCCCeeeEeCCcEEEcCEEEeeeEEEeCCce--ecCCCCCCCCCChhhhhchhhhcCCCcEEE
Q 032090 12 PNLMRSLRKGSPKAAPNQPLPSLRYTDTGFTVNGVQYEGSLLCIGNLL--LSWTPKKFSEITPNCLSIFQLVRPIPEILI 89 (147)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~Y~~g~f~Ing~~y~gsviv~p~~v--~~W~~~~~~~l~~e~l~~l~~l~~~pEvlI 89 (147)
||||++++.+.--+ -..-.++|. .+.+|..+.+++.++. ..|..++.+.+. ++.. +.+..+.|||-
T Consensus 42 t~LLrr~r~~~~~g---rrv~liK~~------kDTRy~~~si~Thdg~~~~c~~lp~a~~~s--~f~~-d~~~~~vdVig 109 (234)
T KOG3125|consen 42 TELLRRIRREIIAG---RRVLLIKYA------KDTRYESSSIVTHDGIEMPCWALPDASFLS--EFGK-DALNGDVDVIG 109 (234)
T ss_pred HHHHHHHHHHHhcC---ceEEEEEec------CCcccchheeEeccCCcccccccCCchhHH--HHHH-HHhcCcceEEE
Confidence 78999988764410 011111221 3789999999987765 688766533222 2221 34555566665
Q ss_pred EeecCCCCCCCHHHHHHHHH----cCCeEEE
Q 032090 90 LGCGRYIEPVNPELRQFIRS----TGMKLEA 116 (147)
Q Consensus 90 IGTG~~~~~l~~~l~~~l~~----~GI~vEv 116 (147)
|--| +|++ .+.+++++ +|+.|-|
T Consensus 110 IDEa---QFf~-dl~efc~evAd~~Gk~Viv 136 (234)
T KOG3125|consen 110 IDEA---QFFG-DLYEFCREVADVHGKTVIV 136 (234)
T ss_pred ecHH---HHhH-HHHHHHHHHHhccCCEEEE
Confidence 5443 4555 55555443 7777665
No 27
>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=54.42 E-value=33 Score=27.91 Aligned_cols=51 Identities=16% Similarity=0.285 Sum_probs=33.6
Q ss_pred CCcEEEEeecCCCCC-C-CHHHHHHHH-HcCCeEEEeChHHHHHHHHhhhhccc
Q 032090 84 IPEILILGCGRYIEP-V-NPELRQFIR-STGMKLEAIDSRNAASTYNILNEEGR 134 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~-l-~~~l~~~l~-~~GI~vEvM~T~aAcrTyNiL~sEGR 134 (147)
+++++|...+..... . ++.+.+.|. +.||.|++..-..+-..++.|.+|+.
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 367777766554322 2 356766664 56999998766666668888888753
No 28
>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=53.68 E-value=11 Score=29.22 Aligned_cols=36 Identities=19% Similarity=0.351 Sum_probs=29.2
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 83 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
+.-.+||||||+- +.++--+.+.|.+.|..|-+-+|
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 3458999999864 56788899999999988887665
No 29
>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=53.65 E-value=8.4 Score=30.01 Aligned_cols=57 Identities=18% Similarity=0.208 Sum_probs=39.4
Q ss_pred CChhhhhchhhhcCCCcEEEEeecCC-CCCCCHHHHHHHHHcCCeEEEeChH--------HHHHHHHhhhhc
Q 032090 70 ITPNCLSIFQLVRPIPEILILGCGRY-IEPVNPELRQFIRSTGMKLEAIDSR--------NAASTYNILNEE 132 (147)
Q Consensus 70 l~~e~l~~l~~l~~~pEvlIIGTG~~-~~~l~~~l~~~l~~~GI~vEvM~T~--------aAcrTyNiL~sE 132 (147)
+..|-++. +..++.|.++|-||.. .. .+.+.++++|..|+++.++ +||..|=.|.+|
T Consensus 93 laIDame~--~~~~~iD~~vLvSgD~DF~----~Lv~~lre~G~~V~v~g~~~~ts~~L~~acd~FI~L~~~ 158 (160)
T TIGR00288 93 MAVEAMEL--IYNPNIDAVALVTRDADFL----PVINKAKENGKETIVIGAEPGFSTALQNSADIAIILGEE 158 (160)
T ss_pred HHHHHHHH--hccCCCCEEEEEeccHhHH----HHHHHHHHCCCEEEEEeCCCCChHHHHHhcCeEEeCCCC
Confidence 34444443 2267899999999987 32 4677889999999998743 467666555443
No 30
>PRK14048 ferrichrome/ferrioxamine B periplasmic transporter; Provisional
Probab=53.08 E-value=22 Score=30.10 Aligned_cols=40 Identities=13% Similarity=0.191 Sum_probs=27.5
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++.-+||+||...+.....-..+..+.|.+.||.+-++++
T Consensus 117 Ilal~PDLVi~~~~~~~~~~~~~~~~~L~~~Gipvv~~~~ 156 (374)
T PRK14048 117 ILTLKADLAILANWQADTEAGQRAIEYLESIGVPVIVVDF 156 (374)
T ss_pred HhhcCCCEEEecCcccccccchhHHHHHHHCCCCEEEEeC
Confidence 4455799988654322222336788999999999998864
No 31
>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=52.17 E-value=29 Score=24.98 Aligned_cols=38 Identities=21% Similarity=0.293 Sum_probs=34.0
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
+.+.-=|+|++|.....+|+++.++..++++.+-.|+.
T Consensus 70 ~~~~agL~i~~~~~~~~iP~~~i~~A~~~~lPli~ip~ 107 (123)
T PF07905_consen 70 EKGAAGLGIKTGRYLDEIPEEIIELADELGLPLIEIPW 107 (123)
T ss_pred HCCCeEEEEeccCccccCCHHHHHHHHHcCCCEEEeCC
Confidence 45678899999988889999999999999999998875
No 32
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=51.95 E-value=42 Score=29.16 Aligned_cols=47 Identities=17% Similarity=0.150 Sum_probs=36.3
Q ss_pred hhcCCCcEEEEeecCC-C--CCCCHHHHHHHHHcCCeEEEeChHHHHHHHHh
Q 032090 80 LVRPIPEILILGCGRY-I--EPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 128 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~-~--~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNi 128 (147)
+++.++.=||||| .. . .-+...+.++|++.||.| .+...+.|+.+|.
T Consensus 62 ii~~gi~rVVi~~-D~d~~G~~~~~~~~~~L~~aGi~V-~~~l~~e~~~l~~ 111 (360)
T PRK14719 62 LIAENISEVILLT-DFDRAGRVYAKNIMEEFQSRGIKV-NNLIRKEIIKYSR 111 (360)
T ss_pred HHHcCCCEEEEEE-CCCCCCCccchHHHHHHHHCCCEE-EeehHHHHHHHhH
Confidence 3455677899999 43 2 234556799999999999 6789999999987
No 33
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=51.91 E-value=42 Score=25.91 Aligned_cols=56 Identities=18% Similarity=0.144 Sum_probs=43.4
Q ss_pred ChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHh
Q 032090 71 TPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 128 (147)
Q Consensus 71 ~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNi 128 (147)
|+--... +++.++--|++|+-+.--++.-.=...|++.||.|++---...++.+|.
T Consensus 84 TPPC~~a--li~agi~rVvva~~DPnp~Vag~G~~~L~~aGi~V~~gil~~e~~~l~~ 139 (146)
T COG0117 84 TPPCADA--LIKAGVARVVVAMLDPNPLVAGGGLARLRAAGIEVEVGILEEEAEKLNE 139 (146)
T ss_pred CcchHHH--HHHhCCCEEEEEecCCCccccCchHHHHHHcCCeEEEehhHHHHHHHHH
Confidence 4444443 4566789999999877666777778899999999999888888888764
No 34
>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=51.87 E-value=13 Score=30.87 Aligned_cols=34 Identities=21% Similarity=0.381 Sum_probs=24.2
Q ss_pred EEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 032090 89 ILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 123 (147)
Q Consensus 89 IIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAc 123 (147)
=||-|-.. .-+|++.+.+++++|.+|+.+|.+-.
T Consensus 220 RIgHG~~~-~~~p~l~~~~~~~~I~iEvcptSN~~ 253 (331)
T PF00962_consen 220 RIGHGVRL-IKDPELLELLAERQIPIEVCPTSNVQ 253 (331)
T ss_dssp EEEE-GGG-GGSHHHHHHHHHTT-EEEE-HHHHHH
T ss_pred eecchhhh-hhhhHHHHHHHHhCCCeeeCCCcCcc
Confidence 36777653 33689999999999999999998643
No 35
>KOG0523 consensus Transketolase [Carbohydrate transport and metabolism]
Probab=51.25 E-value=9.6 Score=35.62 Aligned_cols=44 Identities=16% Similarity=0.393 Sum_probs=32.8
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 127 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyN 127 (147)
+..|||++||||... ...-+..+.|++.||.+-|.|-. -|..|.
T Consensus 503 ~~~~dV~LiG~Gs~v-~~cl~AA~~L~~~gi~vrVvd~~-~~kplD 546 (632)
T KOG0523|consen 503 EVEPDVILIGTGSEV-QECLEAAELLSEDGIKVRVVDPF-TWKPLD 546 (632)
T ss_pred cCCCCEEEEeccHHH-HHHHHHHHHHHhcCceEEEeccc-ceeecc
Confidence 445899999999873 34456777899999999998754 255555
No 36
>PTZ00124 adenosine deaminase; Provisional
Probab=50.35 E-value=17 Score=31.48 Aligned_cols=32 Identities=22% Similarity=0.364 Sum_probs=26.1
Q ss_pred EeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 032090 90 LGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 122 (147)
Q Consensus 90 IGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aA 122 (147)
||-|-.. .-+|++.++++++||.+|+.+|.+-
T Consensus 250 IGHG~~~-~~d~~l~~~l~~~~I~lEvCPtSN~ 281 (362)
T PTZ00124 250 IGHGIRV-AESQELIDMVKEKDILLEVCPISNV 281 (362)
T ss_pred ccccccc-CCCHHHHHHHHHcCCeEEECCcchh
Confidence 4666553 2479999999999999999999984
No 37
>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=49.44 E-value=36 Score=27.04 Aligned_cols=60 Identities=8% Similarity=0.251 Sum_probs=37.9
Q ss_pred ecCCCCCCCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC-hHHHHHHH
Q 032090 60 LSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID-SRNAASTY 126 (147)
Q Consensus 60 ~~W~~~~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~-T~aAcrTy 126 (147)
..|....++..-.+.+..+ ...+...+|++|+|... -..+|.++|..|.-+| ++.||+.+
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 4565444433333333321 11345689999999873 3457889999999988 46778864
No 38
>PTZ00363 rab-GDP dissociation inhibitor; Provisional
Probab=48.17 E-value=17 Score=32.34 Aligned_cols=34 Identities=18% Similarity=0.264 Sum_probs=26.2
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 83 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
...|+||||||-... -+...|.+.|-.|-+++..
T Consensus 3 ~~~DViViGtGL~e~----ilAa~Ls~~GkkVLhlD~n 36 (443)
T PTZ00363 3 ETYDVIVCGTGLKEC----ILSGLLSVNGKKVLHMDRN 36 (443)
T ss_pred CcceEEEECCChHHH----HHHhhhhhCCCEEEEecCC
Confidence 358999999995422 3455789999999999764
No 39
>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=47.57 E-value=13 Score=29.03 Aligned_cols=41 Identities=17% Similarity=0.153 Sum_probs=33.2
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 032090 87 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 127 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyN 127 (147)
+++-=||..-..-.+++.+.|++.|..|.+.-|++|.+...
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 34455666555667899999999999999999999999864
No 40
>COG0022 AcoB Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]
Probab=47.46 E-value=6.2 Score=34.07 Aligned_cols=86 Identities=19% Similarity=0.282 Sum_probs=45.7
Q ss_pred CCeeeEeCCcEEEcCEEEeeeEEEeCCc-eecCCCCCCCCCChhhh----hchhhhcCCCcEEEEeecCCCCCCCHHHHH
Q 032090 31 LPSLRYTDTGFTVNGVQYEGSLLCIGNL-LLSWTPKKFSEITPNCL----SIFQLVRPIPEILILGCGRYIEPVNPELRQ 105 (147)
Q Consensus 31 ~~~~~Y~~g~f~Ing~~y~gsviv~p~~-v~~W~~~~~~~l~~e~l----~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~ 105 (147)
+||+-||-.|..+.-.+=..+|+.+.+. .+.- .-.++.+++. ..-.+..+.=|+-||..|... ...-+..+
T Consensus 145 ~PStpyDAKGLL~aAIrd~dPViflE~k~lY~~---~~~eVP~~~Y~iPlGkA~i~reG~DvTivtyg~mv-~~al~AAe 220 (324)
T COG0022 145 MPSTPYDAKGLLKAAIRDPDPVIFLEHKRLYRS---FKGEVPEEDYTIPLGKAKIVREGSDVTIVTYGAMV-HTALEAAE 220 (324)
T ss_pred ecCChHHHHHHHHHHhcCCCCEEEEecHHHhcc---cccCCCCCCccccccceeeEecCCceEEEEechHH-HHHHHHHH
Confidence 4555555555554444444556655332 2111 0112222221 112345667799999999653 22334444
Q ss_pred HHHHcCCeEEEeChH
Q 032090 106 FIRSTGMKLEAIDSR 120 (147)
Q Consensus 106 ~l~~~GI~vEvM~T~ 120 (147)
.+.+.||.+|+.|..
T Consensus 221 ~l~~~Gis~EVIDLR 235 (324)
T COG0022 221 ELEKEGISAEVIDLR 235 (324)
T ss_pred HHhhcCCCeEEEecc
Confidence 588889999997753
No 41
>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=46.94 E-value=32 Score=23.85 Aligned_cols=45 Identities=7% Similarity=0.093 Sum_probs=31.7
Q ss_pred CcEEEEeecCC---CCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhh
Q 032090 85 PEILILGCGRY---IEPVNPELRQFIRSTGMKLEAIDSRNAASTYNIL 129 (147)
Q Consensus 85 pEvlIIGTG~~---~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL 129 (147)
-.|+|+..|.. ..+-...++++|.++||.++..|...--..++.|
T Consensus 12 ~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l 59 (97)
T TIGR00365 12 NPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGI 59 (97)
T ss_pred CCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHH
Confidence 47888876653 3456679999999999999987753223344444
No 42
>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=45.89 E-value=43 Score=24.86 Aligned_cols=35 Identities=17% Similarity=0.401 Sum_probs=24.4
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++.-+||+||...+. ..+..+.|++.||.+-+++.
T Consensus 56 l~~l~PDlii~~~~~-----~~~~~~~l~~~gi~v~~~~~ 90 (195)
T cd01143 56 IVALKPDLVIVSSSS-----LAELLEKLKDAGIPVVVLPA 90 (195)
T ss_pred HhccCCCEEEEcCCc-----CHHHHHHHHHcCCcEEEeCC
Confidence 345569998774432 24578899999998877654
No 43
>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=44.79 E-value=20 Score=23.36 Aligned_cols=33 Identities=9% Similarity=0.179 Sum_probs=23.7
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 032090 85 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 117 (147)
Q Consensus 85 pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM 117 (147)
.+++|++.+......--++.+.|++.|+.+++-
T Consensus 2 ~~v~ii~~~~~~~~~a~~~~~~Lr~~g~~v~~d 34 (91)
T cd00860 2 VQVVVIPVTDEHLDYAKEVAKKLSDAGIRVEVD 34 (91)
T ss_pred eEEEEEeeCchHHHHHHHHHHHHHHCCCEEEEE
Confidence 467777776554444556778889999999883
No 44
>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=44.78 E-value=29 Score=23.81 Aligned_cols=31 Identities=26% Similarity=0.625 Sum_probs=22.4
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 032090 87 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 121 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~a 121 (147)
+||+|.|. +...+.+.|++.++.+-+++...
T Consensus 1 vvI~G~g~----~~~~i~~~L~~~~~~vvvid~d~ 31 (116)
T PF02254_consen 1 VVIIGYGR----IGREIAEQLKEGGIDVVVIDRDP 31 (116)
T ss_dssp EEEES-SH----HHHHHHHHHHHTTSEEEEEESSH
T ss_pred eEEEcCCH----HHHHHHHHHHhCCCEEEEEECCc
Confidence 57888884 45678888888887777777664
No 45
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=43.98 E-value=8.2 Score=29.46 Aligned_cols=41 Identities=15% Similarity=0.368 Sum_probs=24.2
Q ss_pred cCCCcEEEE-eecCCCCCCCHHHHHHHHHcC-------CeEEEeChHHH
Q 032090 82 RPIPEILIL-GCGRYIEPVNPELRQFIRSTG-------MKLEAIDSRNA 122 (147)
Q Consensus 82 ~~~pEvlII-GTG~~~~~l~~~l~~~l~~~G-------I~vEvM~T~aA 122 (147)
..+|++|.| |.+...+.+-..+++.+.++. |.|++++..-|
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 568999999 555556678888888888764 77777665433
No 46
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=43.96 E-value=76 Score=24.53 Aligned_cols=44 Identities=14% Similarity=0.154 Sum_probs=31.2
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHh
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 128 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNi 128 (147)
.-++.-|++|.... +.+....+.|++.||.|+.++... |..+|.
T Consensus 120 ~~gI~rVvy~~~~~--~~~~~~~~~L~~~Gi~v~~~~~~~-~~~~~~ 163 (168)
T PHA02588 120 QSGIKKLVYCEKYD--RNGPGWDDILRKSGIEVIQIPKEE-LNKLNW 163 (168)
T ss_pred HhCCCEEEEeeccC--CCcHHHHHHHHHCCCEEEEeCHHH-HHhhhh
Confidence 34677888887522 234567889999999999998766 555543
No 47
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=43.78 E-value=62 Score=27.30 Aligned_cols=68 Identities=13% Similarity=0.258 Sum_probs=44.1
Q ss_pred CCCCCChhhhhch--hhh-cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhhhhcc
Q 032090 66 KFSEITPNCLSIF--QLV-RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEG 133 (147)
Q Consensus 66 ~~~~l~~e~l~~l--~~l-~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~sEG 133 (147)
+...+++++.+.. ..+ +-+||++|+..-....+=|...++.|++.||...+..-...-+.=.-|-++|
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 3556777776611 122 3468999888777666777788899999999888865444443334444443
No 48
>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]
Probab=43.07 E-value=27 Score=29.20 Aligned_cols=81 Identities=17% Similarity=0.172 Sum_probs=52.5
Q ss_pred CCcEEEcCEEEe--eeEEEeC-----CceecCCCCC-----CCCCChhhhhch--hhhcCCCcEEEEeecCC-CCCCCHH
Q 032090 38 DTGFTVNGVQYE--GSLLCIG-----NLLLSWTPKK-----FSEITPNCLSIF--QLVRPIPEILILGCGRY-IEPVNPE 102 (147)
Q Consensus 38 ~g~f~Ing~~y~--gsviv~p-----~~v~~W~~~~-----~~~l~~e~l~~l--~~l~~~pEvlIIGTG~~-~~~l~~~ 102 (147)
++=++|.|+++- -+++++. ..+++|..++ .+.++.|++..+ ...+..=+++=+=+|.. +----.|
T Consensus 15 pdLiTvkg~~ll~~advviYAGSLV~~elL~~~~~~aei~nSa~~tLeeIi~~m~~a~~~Gk~VvRLhSGDpsiYgA~~E 94 (254)
T COG2875 15 PDLITVKGQRLLEKADVVIYAGSLVPPELLEYCRPDAEIVNSASLTLEEIIDLMVDAVREGKDVVRLHSGDPSIYGALAE 94 (254)
T ss_pred cceeeehHHHHHhhCCEEEECCCcCCHHHHhhcCCCCEEEecCcCCHHHHHHHHHHHHHcCCeEEEeecCChhHHHHHHH
Confidence 345677776542 3455553 3345665543 566777765532 23345668999999987 3344467
Q ss_pred HHHHHHHcCCeEEEeC
Q 032090 103 LRQFIRSTGMKLEAID 118 (147)
Q Consensus 103 l~~~l~~~GI~vEvM~ 118 (147)
..+.|.+.||.+|+.+
T Consensus 95 Qm~~L~~~gI~yevvP 110 (254)
T COG2875 95 QMRELEALGIPYEVVP 110 (254)
T ss_pred HHHHHHHcCCCeEEeC
Confidence 7889999999999976
No 49
>PLN02683 pyruvate dehydrogenase E1 component subunit beta
Probab=42.76 E-value=13 Score=32.12 Aligned_cols=39 Identities=13% Similarity=0.265 Sum_probs=28.2
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++.+.-|+.||++|... ..--+..+.|+++||.+++.|-
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 44566799999999643 2233455678899999999664
No 50
>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=42.67 E-value=56 Score=29.38 Aligned_cols=43 Identities=26% Similarity=0.250 Sum_probs=31.2
Q ss_pred CCcEEEEeecCCCCC-CCH--HHHHHHHHcCC-eEEEeChHHHHHHH
Q 032090 84 IPEILILGCGRYIEP-VNP--ELRQFIRSTGM-KLEAIDSRNAASTY 126 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~-l~~--~l~~~l~~~GI-~vEvM~T~aAcrTy 126 (147)
.+|.||+||-..... ++. -+.+.|...|. ..+++++.+||.-|
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 478999999877433 222 34556666665 67899999999988
No 51
>CHL00144 odpB pyruvate dehydrogenase E1 component beta subunit; Validated
Probab=42.55 E-value=16 Score=31.13 Aligned_cols=39 Identities=28% Similarity=0.292 Sum_probs=28.3
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
.+.+.-|+.||++|... ..--+..+.|+++||.+|+.|-
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 45567799999999643 2234455678899999999653
No 52
>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=42.01 E-value=16 Score=26.07 Aligned_cols=32 Identities=19% Similarity=0.214 Sum_probs=25.9
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 88 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 88 lIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
|+=|.|.+...+-.+++++++++|+.+|+-..
T Consensus 5 l~C~~GaSSs~la~km~~~a~~~gi~~~i~a~ 36 (99)
T cd05565 5 VLCAGGGTSGLLANALNKGAKERGVPLEAAAG 36 (99)
T ss_pred EECCCCCCHHHHHHHHHHHHHHCCCcEEEEEe
Confidence 45577777778889999999999999987543
No 53
>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=41.93 E-value=62 Score=25.84 Aligned_cols=39 Identities=10% Similarity=0.141 Sum_probs=27.3
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
++.-+||+||...+.....-+.+..+.|++.||.+-+++
T Consensus 75 I~~l~PDlIi~~~~~~~~~~~~~~~~~L~~~gipv~~~~ 113 (284)
T cd01148 75 VLAARPDLVFGGWSYGFDKGGLGTPDSLAELGIKTYILP 113 (284)
T ss_pred HhcCCCCEEEEecccccCCCCCCCHHHHHHCCCeEEECc
Confidence 456679999986543322224566788999999998885
No 54
>PTZ00182 3-methyl-2-oxobutanate dehydrogenase; Provisional
Probab=41.54 E-value=17 Score=31.46 Aligned_cols=39 Identities=26% Similarity=0.404 Sum_probs=28.9
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++.+..|++||++|.... .--+..+.|++.||.+++++-
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 455678999999997643 334566778889999998653
No 55
>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=40.92 E-value=41 Score=31.28 Aligned_cols=32 Identities=16% Similarity=0.333 Sum_probs=27.5
Q ss_pred CCcEEEEeecCC--CCCCCHHHHHHHHHcCCeEE
Q 032090 84 IPEILILGCGRY--IEPVNPELRQFIRSTGMKLE 115 (147)
Q Consensus 84 ~pEvlIIGTG~~--~~~l~~~l~~~l~~~GI~vE 115 (147)
+|++.||-+|.. -.+|++++.+.+++.|+.+-
T Consensus 623 ~P~~aiiS~g~~N~yghP~~~vl~rl~~~g~~~~ 656 (662)
T TIGR00361 623 QPKVAIISAGRNNRWHHPHQKVLQRLQRHSIRVL 656 (662)
T ss_pred CCCEEEEECCCCCCCCCChHHHHHHHHHCCCeEE
Confidence 589999999975 45899999999999998753
No 56
>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=40.72 E-value=64 Score=21.80 Aligned_cols=43 Identities=9% Similarity=0.128 Sum_probs=28.7
Q ss_pred CCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 67 FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 67 ~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
..+.+.|.+.. + +||++|.+.+.. ....+.+.+.||.+-..+.
T Consensus 49 ~~~~~~E~l~~---l--~pDlvi~~~~~~-----~~~~~~l~~~~i~~~~~~~ 91 (148)
T cd00636 49 GYEPNLEKIAA---L--KPDLIIANGSGL-----EAWLDKLSKIAIPVVVVDE 91 (148)
T ss_pred CCCCCHHHHhc---c--CCCEEEEecccc-----hhHHHHHHHhCCCEEEECC
Confidence 44677776553 2 699998876532 2267788899988776553
No 57
>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=40.71 E-value=20 Score=33.39 Aligned_cols=40 Identities=13% Similarity=0.298 Sum_probs=29.9
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 122 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aA 122 (147)
...+|+.||+||.... .--+..+.|+++||.+++.+....
T Consensus 538 ~~g~dv~iia~G~~v~-~al~Aa~~L~~~Gi~~~VI~~~~i 577 (653)
T TIGR00232 538 SKGPDIILIATGSEVS-LAVEAAKKLAAENIKVRVVSMPSF 577 (653)
T ss_pred cCCCCEEEEEeChHHH-HHHHHHHHHHhcCCcEEEEecccC
Confidence 4568999999997533 234667788999999999776443
No 58
>COG4525 TauB ABC-type taurine transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=40.45 E-value=34 Score=28.46 Aligned_cols=41 Identities=29% Similarity=0.468 Sum_probs=30.5
Q ss_pred hhhhHHHHHHhhCCCCCCCCCCCCCeeeEeCCcEEEcCEEEeee-----EEEeCCceecCC
Q 032090 8 VTTLPNLMRSLRKGSPKAAPNQPLPSLRYTDTGFTVNGVQYEGS-----LLCIGNLLLSWT 63 (147)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~~g~f~Ing~~y~gs-----viv~p~~v~~W~ 63 (147)
-||+-||++-.-. ++.|.+++||+.++|+ ++.-++..++|.
T Consensus 44 KTTLLnl~AGf~~---------------P~~G~i~l~~r~i~gPgaergvVFQ~~~LlPWl 89 (259)
T COG4525 44 KTTLLNLIAGFVT---------------PSRGSIQLNGRRIEGPGAERGVVFQNEALLPWL 89 (259)
T ss_pred HHHHHHHHhcCcC---------------cccceEEECCEeccCCCccceeEeccCccchhh
Confidence 4888899875432 4779999999998866 444466788994
No 59
>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=40.35 E-value=16 Score=25.83 Aligned_cols=30 Identities=13% Similarity=0.447 Sum_probs=24.0
Q ss_pred CCcEEEEeecCCCC---CCCHHHHHHHHHcCCe
Q 032090 84 IPEILILGCGRYIE---PVNPELRQFIRSTGMK 113 (147)
Q Consensus 84 ~pEvlIIGTG~~~~---~l~~~l~~~l~~~GI~ 113 (147)
-.|++||+||.+.. -+..++.+.++++|+.
T Consensus 28 ~~dy~VI~Tg~S~rh~~aia~~v~~~~k~~~~~ 60 (99)
T TIGR00090 28 IADYFVIASGTSSRHVKAIADNVEEELKEAGLK 60 (99)
T ss_pred ccCEEEEEEeCCHHHHHHHHHHHHHHHHHcCCC
Confidence 35999999999843 4677899999988864
No 60
>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=40.20 E-value=72 Score=25.87 Aligned_cols=53 Identities=15% Similarity=0.135 Sum_probs=36.9
Q ss_pred hcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH------HHHHHHHhhhhcccee
Q 032090 81 VRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR------NAASTYNILNEEGRIV 136 (147)
Q Consensus 81 l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~------aAcrTyNiL~sEGR~V 136 (147)
+.+++|+|++-|+.. .+.++....-++|+.+-||+.. .+-+.......-|+++
T Consensus 34 l~~~vDaVviatp~~---~H~e~a~~aL~aGkhVl~~s~gAlad~e~~~~l~~aA~~~g~~l 92 (229)
T TIGR03855 34 LPEDVDIVVEAASQE---AVKEYAEKILKNGKDLLIMSVGALADRELRERLREVARSSGRKV 92 (229)
T ss_pred hcCCCCEEEECCChH---HHHHHHHHHHHCCCCEEEECCcccCCHHHHHHHHHHHHhcCCEE
Confidence 456799999999854 4577888888899999998762 3344444444445554
No 61
>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=39.77 E-value=41 Score=20.54 Aligned_cols=31 Identities=16% Similarity=0.236 Sum_probs=22.6
Q ss_pred EEEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 032090 88 LILGCGRY-IEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 88 lIIGTG~~-~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
=++|.|-. ...+-.++.+.|.+.||.+..+.
T Consensus 5 svvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~ 36 (66)
T cd04922 5 ALVGDGMAGTPGVAATFFSALAKANVNIRAIA 36 (66)
T ss_pred EEECCCCCCCccHHHHHHHHHHHCCCCEEEEE
Confidence 36677765 33456678888999999998764
No 62
>PRK10329 glutaredoxin-like protein; Provisional
Probab=39.09 E-value=32 Score=23.12 Aligned_cols=38 Identities=16% Similarity=0.211 Sum_probs=26.5
Q ss_pred CCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhhhhccc
Q 032090 97 EPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGR 134 (147)
Q Consensus 97 ~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~sEGR 134 (147)
-.....++++|.++||.++..+...--..++.+...|+
T Consensus 11 Cp~C~~ak~~L~~~gI~~~~idi~~~~~~~~~~~~~g~ 48 (81)
T PRK10329 11 CVQCHATKRAMESRGFDFEMINVDRVPEAAETLRAQGF 48 (81)
T ss_pred CHhHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHcCC
Confidence 45667899999999999988777643334444544454
No 63
>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=39.06 E-value=44 Score=20.34 Aligned_cols=30 Identities=17% Similarity=0.231 Sum_probs=21.3
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeC
Q 032090 89 ILGCGRYI-EPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 89 IIGTG~~~-~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
++|.|-.. ..+..++.+.|.+.||.++.+.
T Consensus 6 ivg~~~~~~~~~~~~i~~~L~~~~I~v~~i~ 36 (66)
T cd04924 6 VVGSGMRGTPGVAGRVFGALGKAGINVIMIS 36 (66)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEE
Confidence 56777652 3445668888889999887765
No 64
>PRK15020 ethanolamine utilization cobalamin adenosyltransferase; Provisional
Probab=39.04 E-value=38 Score=28.52 Aligned_cols=48 Identities=19% Similarity=0.234 Sum_probs=35.9
Q ss_pred CCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 69 EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 69 ~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
-||+++|..... ...++...|-.| ..+.|..+++|+++||.+..-+..
T Consensus 4 ~iTE~~LR~~~~-~~~~~~~~~~~g---~~lTPsAr~~L~~k~I~l~~~~~~ 51 (267)
T PRK15020 4 FITEAWLRANHT-LSEGAEIHLPAD---SRLTPSARELLESRHLRIKFIDEQ 51 (267)
T ss_pred cccHHHHHHHhc-cCCCceEEeCCC---CEeChhHHHHHHhcCceEEecCcc
Confidence 378888886433 233778888877 468899999999999999874443
No 65
>PRK05899 transketolase; Reviewed
Probab=38.81 E-value=17 Score=33.43 Aligned_cols=38 Identities=16% Similarity=0.427 Sum_probs=27.7
Q ss_pred hcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 81 VRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 81 l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
+....|+.||++|... ..--+..+.|+++||.+++.+.
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 4456899999999753 2333455678899999999664
No 66
>PRK11539 ComEC family competence protein; Provisional
Probab=37.97 E-value=48 Score=31.36 Aligned_cols=31 Identities=13% Similarity=0.218 Sum_probs=27.1
Q ss_pred CCcEEEEeecCCC--CCCCHHHHHHHHHcCCeE
Q 032090 84 IPEILILGCGRYI--EPVNPELRQFIRSTGMKL 114 (147)
Q Consensus 84 ~pEvlIIGTG~~~--~~l~~~l~~~l~~~GI~v 114 (147)
+|++.|+-+|... .+|++++.+.+++.||.+
T Consensus 681 ~P~~aiiS~g~~NryghP~~~v~~rl~~~g~~~ 713 (755)
T PRK11539 681 NGKVALASASRYNAWRLPSVKVKQRYQQQGYQW 713 (755)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHcCCeE
Confidence 5999999999764 589999999999999874
No 67
>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=37.95 E-value=99 Score=20.32 Aligned_cols=39 Identities=21% Similarity=0.296 Sum_probs=31.0
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEE---eChHHHHHHH
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEA---IDSRNAASTY 126 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEv---M~T~aAcrTy 126 (147)
..+.++||.|- +.+.....|+++||.+-. .+...|...|
T Consensus 51 ~~~v~~li~~~------iG~~~~~~L~~~gI~v~~~~~~~i~~~l~~~ 92 (94)
T PF02579_consen 51 EEGVDVLICGG------IGEGAFRALKEAGIKVYQGAGGDIEEALEAY 92 (94)
T ss_dssp HTTESEEEESC------SCHHHHHHHHHTTSEEEESTSSBHHHHHHHH
T ss_pred HcCCCEEEEeC------CCHHHHHHHHHCCCEEEEcCCCCHHHHHHHH
Confidence 36789999875 578999999999999988 5666666554
No 68
>COG0163 UbiX 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]
Probab=37.92 E-value=42 Score=26.98 Aligned_cols=43 Identities=21% Similarity=0.264 Sum_probs=36.4
Q ss_pred EEEe-ecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhhh
Q 032090 88 LILG-CGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILN 130 (147)
Q Consensus 88 lIIG-TG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~ 130 (147)
+||| ||++-...--.+.+.|++.|++++..=|++|-.|...-.
T Consensus 5 iivgisGASG~iygvrlLe~L~~~~~e~hlviS~~a~~~~~~E~ 48 (191)
T COG0163 5 IIVGISGASGAIYGVRLLEVLRELGVETHLVISKAAKKTLKYET 48 (191)
T ss_pred EEEEEeccccHHHHHHHHHHHHhcCceEEEEEcHHHHHHHHHHh
Confidence 4555 788877888899999999999999999999999877544
No 69
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=37.68 E-value=53 Score=25.10 Aligned_cols=46 Identities=22% Similarity=0.299 Sum_probs=34.7
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH-----HHHHHHHhh
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR-----NAASTYNIL 129 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~-----aAcrTyNiL 129 (147)
+-+||++++|--.. +=...+...+.++|..+|+-.|. .=|+||.+.
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 34699999987655 66677888899999999998776 346666553
No 70
>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=37.51 E-value=25 Score=31.44 Aligned_cols=32 Identities=28% Similarity=0.402 Sum_probs=19.8
Q ss_pred CCCcEEEEeecCCCCCCCHH-HHHHHHHcCCeEEEeCh
Q 032090 83 PIPEILILGCGRYIEPVNPE-LRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~-l~~~l~~~GI~vEvM~T 119 (147)
...|+||+|||-. .. +..+|...|-.|-.||.
T Consensus 3 ~~yDviI~GTGl~-----esila~als~~GkkVLhiD~ 35 (438)
T PF00996_consen 3 EEYDVIILGTGLT-----ESILAAALSRSGKKVLHIDR 35 (438)
T ss_dssp SBESEEEE--SHH-----HHHHHHHHHHTT--EEEE-S
T ss_pred ccceEEEECCCcH-----HHHHHHHHHhcCCEEEecCC
Confidence 4579999999943 33 34468889999999875
No 71
>PRK05261 putative phosphoketolase; Provisional
Probab=36.79 E-value=27 Score=33.68 Aligned_cols=36 Identities=11% Similarity=0.291 Sum_probs=28.3
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHc--CCeEEEeCh
Q 032090 84 IPEILILGCGRYIEPVNPELRQFIRST--GMKLEAIDS 119 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~l~~~l~~~l~~~--GI~vEvM~T 119 (147)
+||++|++||.....---+..+.|+++ ||.+-|.+.
T Consensus 613 ~pDvvL~atGsev~leAlaAa~~L~~~~pgikvRVVSv 650 (785)
T PRK05261 613 EPDVVLACAGDVPTLETLAAADLLREHFPDLKIRVVNV 650 (785)
T ss_pred CCCEEEEEeCcHhhHHHHHHHHHHHhhCCCCCEEEEEe
Confidence 589999999988654344667788998 998887665
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=36.57 E-value=23 Score=27.56 Aligned_cols=41 Identities=15% Similarity=0.192 Sum_probs=33.7
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 032090 87 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 127 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyN 127 (147)
+++.-||.....-.+++.+.|++.|..|.+.=|++|.+...
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 56667777655566789999999999999999999998766
No 73
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=36.31 E-value=69 Score=27.66 Aligned_cols=51 Identities=18% Similarity=0.388 Sum_probs=42.0
Q ss_pred CCCcEEEEeecCCC---CCCCHHHHHHHHH--cCCeEEEeChHHHHHHHHhhhhccc
Q 032090 83 PIPEILILGCGRYI---EPVNPELRQFIRS--TGMKLEAIDSRNAASTYNILNEEGR 134 (147)
Q Consensus 83 ~~pEvlIIGTG~~~---~~l~~~l~~~l~~--~GI~vEvM~T~aAcrTyNiL~sEGR 134 (147)
..|-.+.||||... -.+--.+.+.+.+ .||.+++.+|......-| ++.+|+
T Consensus 23 ~~~~~itigTG~~~G~YY~ig~~ia~~~~~~~~~i~~~v~~tggSv~Nl~-~i~~Ge 78 (321)
T COG2358 23 AEPKFITIGTGSTGGVYYPIGGGLAQLLNKDEKGIECSVVPTGGSVENLK-LLASGE 78 (321)
T ss_pred cCceEEEEeecCCCceeeehHHHHHHHHhccCCCeEEEEeeccchHHHHH-hHhcCc
Confidence 45789999999983 3677889999988 899999999999999888 445554
No 74
>PRK12754 transketolase; Reviewed
Probab=36.26 E-value=19 Score=33.83 Aligned_cols=36 Identities=14% Similarity=0.332 Sum_probs=25.7
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 84 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
++|++||+||... ..--+..+.|+++||.+.|.+..
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 3799999999642 23334566788999988886643
No 75
>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=35.96 E-value=30 Score=22.04 Aligned_cols=35 Identities=20% Similarity=0.226 Sum_probs=23.0
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 85 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 85 pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++++|+..+......--++.+.|++.|+.+++...
T Consensus 2 ~~v~i~~~~~~~~~~a~~i~~~Lr~~g~~v~~~~~ 36 (91)
T cd00859 2 VDVYVVPLGEGALSEALELAEQLRDAGIKAEIDYG 36 (91)
T ss_pred CcEEEEEcChHHHHHHHHHHHHHHHCCCEEEEecC
Confidence 36777776654333344567788888998888543
No 76
>PLN02577 hydroxymethylglutaryl-CoA synthase
Probab=35.88 E-value=76 Score=28.57 Aligned_cols=43 Identities=26% Similarity=0.283 Sum_probs=30.3
Q ss_pred CCcEEEEeecCCCC-CCCHH--HHHHHHHcCC-eEEEeChHHHHHHH
Q 032090 84 IPEILILGCGRYIE-PVNPE--LRQFIRSTGM-KLEAIDSRNAASTY 126 (147)
Q Consensus 84 ~pEvlIIGTG~~~~-~l~~~--l~~~l~~~GI-~vEvM~T~aAcrTy 126 (147)
.+|.||+||..... .++-. +...+...|. .+.++|..+||.-|
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 57999999988843 33322 3444566565 46899999999866
No 77
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase
Probab=35.57 E-value=91 Score=27.31 Aligned_cols=59 Identities=10% Similarity=0.090 Sum_probs=41.7
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHH----HHhhhhccceeEE
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAST----YNILNEEGRIVAA 138 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrT----yNiL~sEGR~VaA 138 (147)
++..++.-|++|+-.........-.++|++.||.|+.---.++|+. |..=..++|.-+.
T Consensus 117 ii~agI~rVv~g~~dp~~~~~g~g~~~l~~~gi~V~~g~~~~e~~~l~~~f~~~~~~~rP~V~ 179 (380)
T PLN02807 117 LIKAKVKRVVVGMVDPNPIVASKGIERLRDAGIEVTVGVEEELCRKLNEAFIHRMLTGKPFVT 179 (380)
T ss_pred HHHhCCCEEEEEecCCCccccchHHHHHHhCCCEEEeCcCHHHHHHHHHHHHHHHhhccccEE
Confidence 4456789999999766544555677889999999987445777776 4444556775443
No 78
>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=35.49 E-value=39 Score=21.63 Aligned_cols=33 Identities=12% Similarity=0.074 Sum_probs=20.8
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 87 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
+-++|.|-...-+..++.+.|.+.||.++-..+
T Consensus 5 VsvVG~gm~~~gv~~ki~~~L~~~~I~v~~i~~ 37 (66)
T cd04915 5 VSVIGRDLSTPGVLARGLAALAEAGIEPIAAHQ 37 (66)
T ss_pred EEEECCCCCcchHHHHHHHHHHHCCCCEEEEEe
Confidence 346777775333455677778888888754443
No 79
>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=35.18 E-value=38 Score=22.08 Aligned_cols=17 Identities=18% Similarity=0.538 Sum_probs=14.5
Q ss_pred HHHHHHHHHcCCeEEEe
Q 032090 101 PELRQFIRSTGMKLEAI 117 (147)
Q Consensus 101 ~~l~~~l~~~GI~vEvM 117 (147)
.+..++|+++|+.+|+.
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 46888999999999974
No 80
>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=35.16 E-value=92 Score=27.85 Aligned_cols=71 Identities=17% Similarity=0.346 Sum_probs=46.8
Q ss_pred EeCCcEEE--cCEEEeeeEEEeCCceecCCCCCCCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCe
Q 032090 36 YTDTGFTV--NGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMK 113 (147)
Q Consensus 36 Y~~g~f~I--ng~~y~gsviv~p~~v~~W~~~~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~ 113 (147)
+++..+.+ .|...-..+|+++-..... ...++...|- +.++.+=++|+.+... .++..+++++.+.||.
T Consensus 33 ~~d~~l~L~~~ge~~YD~LIif~~~~k~~----g~~ls~~~ll--~Fvd~GgNilv~~s~~---~~~~~ir~~~~E~gi~ 103 (423)
T PF03345_consen 33 ADDESLSLFKYGERLYDHLIIFPPSVKEF----GGSLSPKTLL--DFVDNGGNILVAGSSD---AIPDSIREFANELGIE 103 (423)
T ss_pred CCCCCcchhhCChhhcceEEEeCCccccc----CCCCCHHHHH--HHHhCCCcEEEEeCCC---cCcHHHHHHHHHCCeE
Confidence 44444444 2444334566665433222 2358888755 4667778999998776 5899999999999988
Q ss_pred EE
Q 032090 114 LE 115 (147)
Q Consensus 114 vE 115 (147)
++
T Consensus 104 ~~ 105 (423)
T PF03345_consen 104 FD 105 (423)
T ss_pred EC
Confidence 74
No 81
>PRK03379 vitamin B12-transporter protein BtuF; Provisional
Probab=35.09 E-value=90 Score=25.01 Aligned_cols=36 Identities=19% Similarity=0.284 Sum_probs=25.8
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++.-+||+||..+|.. +++..+.|++.||.+-+.+.
T Consensus 68 il~l~PDlVi~~~~~~----~~~~~~~L~~~gi~v~~~~~ 103 (260)
T PRK03379 68 IVALKPDLVLAWRGGN----AERQVDQLASLGIKVMWVDA 103 (260)
T ss_pred HHhcCCCEEEEecCCC----cHHHHHHHHHCCCCEEEeCC
Confidence 3455699987544422 35788999999999988853
No 82
>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=35.09 E-value=16 Score=26.26 Aligned_cols=49 Identities=20% Similarity=0.276 Sum_probs=30.8
Q ss_pred ChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHH
Q 032090 71 TPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAS 124 (147)
Q Consensus 71 ~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcr 124 (147)
+.+.+..+ ..+.++|++|||.-.. |-.-+.+.|++.||.+ +=+|.+|.+
T Consensus 50 d~~~l~~~-a~~~~idlvvvGPE~p---L~~Gl~D~l~~~gi~v-fGP~k~aA~ 98 (100)
T PF02844_consen 50 DPEELADF-AKENKIDLVVVGPEAP---LVAGLADALRAAGIPV-FGPSKEAAR 98 (100)
T ss_dssp -HHHHHHH-HHHTTESEEEESSHHH---HHTTHHHHHHHTT-CE-ES--HHHHH
T ss_pred CHHHHHHH-HHHcCCCEEEECChHH---HHHHHHHHHHHCCCcE-ECcCHHHHh
Confidence 34444443 3467899999998643 3446888999999887 456665554
No 83
>KOG4405 consensus GDP dissociation inhibitor [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=34.79 E-value=42 Score=30.65 Aligned_cols=34 Identities=12% Similarity=0.337 Sum_probs=22.8
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHH-HHHHHHcCCeEEEeC
Q 032090 80 LVRPIPEILILGCGRYIEPVNPEL-RQFIRSTGMKLEAID 118 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l-~~~l~~~GI~vEvM~ 118 (147)
.+....|+|||||| ++..+ .++..+.|-.|-..|
T Consensus 4 ~lP~~fDvVViGTG-----lpESilAAAcSrsG~sVLHlD 38 (547)
T KOG4405|consen 4 ILPEEFDVVVIGTG-----LPESILAAACSRSGSSVLHLD 38 (547)
T ss_pred CCchhccEEEEcCC-----CcHHHHHHHhhhcCCceEecc
Confidence 34556899999999 44444 445666777765544
No 84
>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=34.71 E-value=27 Score=24.88 Aligned_cols=34 Identities=15% Similarity=0.210 Sum_probs=24.9
Q ss_pred CcEEEEeec--CCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 85 PEILILGCG--RYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 85 pEvlIIGTG--~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
++++|+..+ .......-++.+.|++.|+.+++-.
T Consensus 27 ~~v~Ii~~~~~~~~~~~a~~la~~LR~~gi~v~~d~ 62 (121)
T cd00858 27 IKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDD 62 (121)
T ss_pred cEEEEEecCCcHHHHHHHHHHHHHHHHCCCEEEEeC
Confidence 578888887 4433344567888999999999844
No 85
>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=34.57 E-value=1e+02 Score=24.93 Aligned_cols=67 Identities=15% Similarity=0.206 Sum_probs=44.7
Q ss_pred eecCCCCCCCCCChhhhhchhhhcCCCcEEEEe--ecCC-CCCCCHHHHH----HHHHcCCeEEEeChHHHHHHHHhhhh
Q 032090 59 LLSWTPKKFSEITPNCLSIFQLVRPIPEILILG--CGRY-IEPVNPELRQ----FIRSTGMKLEAIDSRNAASTYNILNE 131 (147)
Q Consensus 59 v~~W~~~~~~~l~~e~l~~l~~l~~~pEvlIIG--TG~~-~~~l~~~l~~----~l~~~GI~vEvM~T~aAcrTyNiL~s 131 (147)
+..-+++...+|++++.+ +.|++|+| -|.. .+-=..+++. -+..+.+|=..|+|.-|+++-.+...
T Consensus 65 VcLLDP~A~~~L~PeD~~-------~fd~fvfGGILGD~PPrdRT~eLr~~~~~g~~~R~LG~~QmTtDtAV~vt~~i~e 137 (196)
T PF04252_consen 65 VCLLDPAAEKELSPEDGE-------KFDYFVFGGILGDHPPRDRTSELRTKKPKGFEGRRLGPKQMTTDTAVRVTKLIVE 137 (196)
T ss_pred EEEeCCCCCCCCCccccC-------cccEEEECcccCCCCCCCchHHHHhhhccCccccccCCccccccHHHHHHHHHHc
Confidence 444556667788888755 37999999 3433 1111123333 34568889999999999999988765
Q ss_pred c
Q 032090 132 E 132 (147)
Q Consensus 132 E 132 (147)
.
T Consensus 138 ~ 138 (196)
T PF04252_consen 138 D 138 (196)
T ss_pred C
Confidence 4
No 86
>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=34.51 E-value=64 Score=26.65 Aligned_cols=40 Identities=13% Similarity=0.225 Sum_probs=26.9
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++.-+||+||...+.....-+.+..+.|++.||.+-.+++
T Consensus 87 l~~l~PDLIi~~~~~~~~~~~~~~~~~l~~~gipvv~~~~ 126 (342)
T cd01139 87 VLTLKPDLVILNIWAKTTAEESGILEKLEQAGIPVVFVDF 126 (342)
T ss_pred HhhcCCCEEEEeccccccchhhHHHHHHHHcCCcEEEEeC
Confidence 3455699987754432111245788999999999888763
No 87
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=34.46 E-value=64 Score=25.29 Aligned_cols=52 Identities=10% Similarity=0.160 Sum_probs=32.7
Q ss_pred CCCCCChhhhhchhhhcCCCcEEEEeecCCC-CCCCHHHHHHHHHcCCeEEEeC
Q 032090 66 KFSEITPNCLSIFQLVRPIPEILILGCGRYI-EPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 66 ~~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~-~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
...-++++.+..+.. ..+-=++++|.|... .....++.+..++.||.+-...
T Consensus 18 ~a~~~~p~~aa~lI~-~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~ 70 (171)
T PRK00945 18 HAKIVSPKIAAMMIK-KAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATG 70 (171)
T ss_pred cccccCHHHHHHHHH-hCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcc
Confidence 344556666553222 223349999999875 3444568888888888876543
No 88
>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]
Probab=34.36 E-value=84 Score=24.15 Aligned_cols=50 Identities=22% Similarity=0.212 Sum_probs=36.2
Q ss_pred cEEEEeecCCCC---CCCHHHHHHHHHcCC---eEEEeChHHHHHHHHhhhhccce
Q 032090 86 EILILGCGRYIE---PVNPELRQFIRSTGM---KLEAIDSRNAASTYNILNEEGRI 135 (147)
Q Consensus 86 EvlIIGTG~~~~---~l~~~l~~~l~~~GI---~vEvM~T~aAcrTyNiL~sEGR~ 135 (147)
.++|+|.|..++ -+-..+.+.|++++- .+++++.+++---|=..+....+
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 589999999865 366778888888765 57788888876666555544444
No 89
>COG1878 Kynurenine formamidase [Amino acid transport and metabolism]
Probab=34.20 E-value=74 Score=25.86 Aligned_cols=71 Identities=15% Similarity=0.278 Sum_probs=48.9
Q ss_pred CCChhhhhchhhhcCCCcEEEEeecCCC------------CCCCHHHHHHHHHcCCe---EEEeChHHHHH----HHHhh
Q 032090 69 EITPNCLSIFQLVRPIPEILILGCGRYI------------EPVNPELRQFIRSTGMK---LEAIDSRNAAS----TYNIL 129 (147)
Q Consensus 69 ~l~~e~l~~l~~l~~~pEvlIIGTG~~~------------~~l~~~l~~~l~~~GI~---vEvM~T~aAcr----TyNiL 129 (147)
.++.++++.+.... ..++|++=||-.. --++.+..++|.++|+. ++.++++..-+ +...|
T Consensus 92 ~~~~~~~~a~~~~~-~g~~v~i~Tgw~~~~~~~~~f~~~~Pg~~~eaa~~L~e~~VkaVGiDt~s~d~~~~~~~~~H~~l 170 (218)
T COG1878 92 VITEDDIEAWDAEH-PGDIVLIRTGWSKRWGDEPAFQYHFPGISIEAAEYLIERGVKAVGIDTPSTDPGLSEDFPAHRLL 170 (218)
T ss_pred ccCHHHhhhhcccC-CccEEEEEccchhhcCCcchhhccCcccCHHHHHHHHHcCCeEEEecCCccCcccccchHHHHHH
Confidence 46677666544322 4699999999831 12567899999997754 77777777754 77788
Q ss_pred hhccceeEEEe
Q 032090 130 NEEGRIVAAAL 140 (147)
Q Consensus 130 ~sEGR~VaAaL 140 (147)
++.|+...--|
T Consensus 171 L~~~~~i~E~l 181 (218)
T COG1878 171 LSAGILIVENL 181 (218)
T ss_pred HhCCCEEEEee
Confidence 88877555443
No 90
>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=33.85 E-value=24 Score=24.56 Aligned_cols=32 Identities=13% Similarity=0.230 Sum_probs=23.6
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 87 ILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
+++=|+|-....+-..++++++++|+.+++-.
T Consensus 3 l~~Cg~G~sTS~~~~ki~~~~~~~~~~~~v~~ 34 (96)
T cd05564 3 LLVCSAGMSTSILVKKMKKAAEKRGIDAEIEA 34 (96)
T ss_pred EEEcCCCchHHHHHHHHHHHHHHCCCceEEEE
Confidence 35557777655566799999999999776643
No 91
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=33.82 E-value=1.3e+02 Score=22.86 Aligned_cols=37 Identities=11% Similarity=0.249 Sum_probs=25.1
Q ss_pred cCCCcEEEEeecCC--CCCCCH--------HHHHHHHHcCCeEEEeC
Q 032090 82 RPIPEILILGCGRY--IEPVNP--------ELRQFIRSTGMKLEAID 118 (147)
Q Consensus 82 ~~~pEvlIIGTG~~--~~~l~~--------~l~~~l~~~GI~vEvM~ 118 (147)
..+||+|||.-|.+ ....++ .+.+.++++|+.+-+|.
T Consensus 69 ~~~pd~Vii~~GtND~~~~~~~~~~~~~l~~li~~~~~~~~~~ill~ 115 (191)
T PRK10528 69 QHQPRWVLVELGGNDGLRGFPPQQTEQTLRQIIQDVKAANAQPLLMQ 115 (191)
T ss_pred hcCCCEEEEEeccCcCccCCCHHHHHHHHHHHHHHHHHcCCCEEEEE
Confidence 34789999888887 334454 35556677788877764
No 92
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=33.55 E-value=44 Score=24.40 Aligned_cols=26 Identities=27% Similarity=0.488 Sum_probs=22.8
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHH
Q 032090 84 IPEILILGCGRYIEPVNPELRQFIRS 109 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~l~~~l~~~l~~ 109 (147)
..|.||+|++-..-.+++.+.+++++
T Consensus 43 ~yD~vi~gspiy~g~~~~~~~~fi~~ 68 (143)
T PF12724_consen 43 DYDAVIFGSPIYAGRIPGEMREFIKK 68 (143)
T ss_pred cCCEEEEEEEEECCcCCHHHHHHHHH
Confidence 47999999999988999988888875
No 93
>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=33.08 E-value=1.1e+02 Score=20.40 Aligned_cols=39 Identities=10% Similarity=0.095 Sum_probs=29.2
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC----hHHHHHHH
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID----SRNAASTY 126 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~----T~aAcrTy 126 (147)
..+.|+||.|. +.+.....|+++||.+-... ...|...|
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 45799999874 66788899999999987544 36665554
No 94
>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=32.71 E-value=1.4e+02 Score=20.28 Aligned_cols=53 Identities=13% Similarity=0.135 Sum_probs=40.1
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEE-----eChHHHHHHHHhhhhccceeE
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEA-----IDSRNAASTYNILNEEGRIVA 137 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEv-----M~T~aAcrTyNiL~sEGR~Va 137 (147)
.+++|+++|-|.. ..+.++...+.++|+.+-+ ++...+-+........|+.|.
T Consensus 60 ~~~~D~V~I~tp~---~~h~~~~~~~l~~g~~v~~EKP~~~~~~~~~~l~~~a~~~~~~~~ 117 (120)
T PF01408_consen 60 DEDVDAVIIATPP---SSHAEIAKKALEAGKHVLVEKPLALTLEEAEELVEAAKEKGVKVM 117 (120)
T ss_dssp HTTESEEEEESSG---GGHHHHHHHHHHTTSEEEEESSSSSSHHHHHHHHHHHHHHTSCEE
T ss_pred hhcCCEEEEecCC---cchHHHHHHHHHcCCEEEEEcCCcCCHHHHHHHHHHHHHhCCEEE
Confidence 3579999999986 4578899999999998776 466677676666655566553
No 95
>PRK09212 pyruvate dehydrogenase subunit beta; Validated
Probab=32.55 E-value=25 Score=29.90 Aligned_cols=38 Identities=18% Similarity=0.396 Sum_probs=27.5
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
.+...-|++||++|.... .--+..+.|++.||.+++++
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 445667999999997642 23345566888999999865
No 96
>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=32.54 E-value=1.1e+02 Score=20.47 Aligned_cols=32 Identities=19% Similarity=0.333 Sum_probs=25.7
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
..+.|+||.|. +.+.....|+++||.+-..+.
T Consensus 61 ~~~v~~vi~~~------iG~~~~~~l~~~gI~v~~~~~ 92 (103)
T cd00851 61 DEGVDVVIVGG------IGPRALNKLRNAGIKVYKGAE 92 (103)
T ss_pred HcCCCEEEeCC------CCcCHHHHHHHCCCEEEEcCC
Confidence 46799999873 567888999999999987654
No 97
>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=32.54 E-value=79 Score=19.35 Aligned_cols=31 Identities=10% Similarity=0.087 Sum_probs=21.5
Q ss_pred EEEeecCCC-CCCCHHHHHHHHHcCCeEEEeC
Q 032090 88 LILGCGRYI-EPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 88 lIIGTG~~~-~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
=++|+|... ...-.++.+.|.+.||.++.+.
T Consensus 5 svvg~~~~~~~~~~~~if~~L~~~~I~v~~i~ 36 (66)
T cd04919 5 SLVGKHMKNMIGIAGRMFTTLADHRINIEMIS 36 (66)
T ss_pred EEECCCCCCCcCHHHHHHHHHHHCCCCEEEEE
Confidence 356777753 3445678888889999887664
No 98
>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=32.52 E-value=1.1e+02 Score=23.41 Aligned_cols=52 Identities=10% Similarity=0.248 Sum_probs=33.8
Q ss_pred CCCCChhhhhchhhh-cCCCcEEEEeecCCC---CCCC-HHHHHHHHHcCCeEEEeCh
Q 032090 67 FSEITPNCLSIFQLV-RPIPEILILGCGRYI---EPVN-PELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 67 ~~~l~~e~l~~l~~l-~~~pEvlIIGTG~~~---~~l~-~~l~~~l~~~GI~vEvM~T 119 (147)
+..+++++|-. .++ ..+|+.+++|.--+. ..=+ ..+++++.+.|+.+++.+-
T Consensus 82 ~~~~s~~~Fi~-~il~~~~~~~ivvG~Df~FG~~~~g~~~~L~~~~~~~g~~v~~v~~ 138 (180)
T cd02064 82 FASLSAEEFVE-DLLVKLNAKHVVVGFDFRFGKGRSGDAELLKELGKKYGFEVTVVPP 138 (180)
T ss_pred HHcCCHHHHHH-HHHhhcCCeEEEEccCCCCCCCCCCCHHHHHHhhhhcCcEEEEeCc
Confidence 34577777542 122 226999999985542 2223 4477888999999988663
No 99
>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=32.17 E-value=41 Score=22.96 Aligned_cols=20 Identities=20% Similarity=0.376 Sum_probs=17.0
Q ss_pred HHHHHHHHHcCCeEEEeChH
Q 032090 101 PELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 101 ~~l~~~l~~~GI~vEvM~T~ 120 (147)
..+.+.|.+.||.+|-|+|+
T Consensus 19 rk~L~I~E~~~is~Eh~PSG 38 (76)
T cd04911 19 RKLLSILEDNGISYEHMPSG 38 (76)
T ss_pred HHHHHHHHHcCCCEeeecCC
Confidence 35667899999999999985
No 100
>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=32.00 E-value=1.7e+02 Score=22.18 Aligned_cols=36 Identities=17% Similarity=0.169 Sum_probs=26.6
Q ss_pred hcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 81 VRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 81 l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
+.-+||+||...+. -..+....+.+.||.+-+.+..
T Consensus 57 ~~l~PDlIi~~~~~----~~~~~~~~~~~~~ip~~~~~~~ 92 (238)
T PF01497_consen 57 LALKPDLIIGSSFY----GQSEEIEKLLEAGIPVVVFDSS 92 (238)
T ss_dssp HHT--SEEEEETTS----SCHHHHHHHHHTTSEEEEESST
T ss_pred HhCCCCEEEEeccc----cchHHHHHHhcccceEEEeecc
Confidence 34569998887765 4567777888999999998874
No 101
>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=31.89 E-value=72 Score=24.59 Aligned_cols=53 Identities=15% Similarity=0.206 Sum_probs=37.6
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC-------hHHHHHHHHhhhhccceeEEEeecCC
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID-------SRNAASTYNILNEEGRIVAAALLPYG 144 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~-------T~aAcrTyNiL~sEGR~VaAaLlp~~ 144 (147)
...|++|+++-|+ +...+.|++.|+.|+..+ ++...| .++.+|.. |--|.|+.
T Consensus 87 ~~~p~~D~vf~~~--------~~~~~~f~e~g~~v~~~p~~~r~~~S~T~IR---~~i~~~~~-W~~lVP~~ 146 (165)
T TIGR01527 87 SMTPPFDVVYSNN--------PLVRRLFKEAGYEVKRPPMFNRKEYSGTEIR---RRMLNGED-WEHLVPKA 146 (165)
T ss_pred HhCCCCCEEEECC--------HHHHHHHHHcCCEEEECCCcCCCcccHHHHH---HHHHcCCC-hhhhCCHH
Confidence 3456899999983 777999999999999887 233333 34455655 77777764
No 102
>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=31.70 E-value=2.1e+02 Score=25.01 Aligned_cols=74 Identities=18% Similarity=0.206 Sum_probs=35.4
Q ss_pred eCCcEEEcCEEEeeeEEEeCCceecCCC---CCCC-CCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCC
Q 032090 37 TDTGFTVNGVQYEGSLLCIGNLLLSWTP---KKFS-EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGM 112 (147)
Q Consensus 37 ~~g~f~Ing~~y~gsviv~p~~v~~W~~---~~~~-~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI 112 (147)
+++.+.++|..+..+-+|.-.+..++.+ ...+ .++.+++-.++ ...-.++|||.|.. --|+...|.+.|.
T Consensus 117 ~~~~v~v~~~~~~~d~vIiAtGs~p~~p~~i~g~~~~~~~~~~~~~~--~~~~~vvIIGgG~i----G~E~A~~l~~~g~ 190 (450)
T TIGR01421 117 KDGTVEVNGRDYTAPHILIATGGKPSFPENIPGAELGTDSDGFFALE--ELPKRVVIVGAGYI----AVELAGVLHGLGS 190 (450)
T ss_pred cCCEEEECCEEEEeCEEEEecCCCCCCCCCCCCCceeEcHHHhhCcc--ccCCeEEEECCCHH----HHHHHHHHHHcCC
Confidence 4455667777776664443322222211 1111 12333332222 12247899998843 3345555566665
Q ss_pred eEEE
Q 032090 113 KLEA 116 (147)
Q Consensus 113 ~vEv 116 (147)
.|.+
T Consensus 191 ~Vtl 194 (450)
T TIGR01421 191 ETHL 194 (450)
T ss_pred cEEE
Confidence 5544
No 103
>COG2072 TrkA Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]
Probab=31.63 E-value=41 Score=29.66 Aligned_cols=35 Identities=14% Similarity=0.294 Sum_probs=27.1
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCe-EEEeChH
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMK-LEAIDSR 120 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~-vEvM~T~ 120 (147)
...+|++|||.|..-. .....|++.|+. +.+..-.
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 3468999999998732 677789999999 7776543
No 104
>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=31.43 E-value=79 Score=22.76 Aligned_cols=36 Identities=14% Similarity=0.140 Sum_probs=28.0
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
..++|.++|-||..- | -.+.+.++++|+.|++...+
T Consensus 97 ~~~~d~ivLvSgD~D-f--~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 97 KRRIDTIVLVSGDSD-F--VPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred hcCCCEEEEEECCcc-H--HHHHHHHHHcCCEEEEEccC
Confidence 347999999999871 1 24567888899999998776
No 105
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=31.16 E-value=36 Score=26.56 Aligned_cols=42 Identities=14% Similarity=0.197 Sum_probs=33.9
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHh
Q 032090 87 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 128 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNi 128 (147)
+++.-||..-..-.+++.+.|++.|..|.+.=|++|.+...-
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 667778876544568888999999999999999999887663
No 106
>PRK12753 transketolase; Reviewed
Probab=31.05 E-value=27 Score=32.68 Aligned_cols=35 Identities=9% Similarity=0.374 Sum_probs=25.2
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 84 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++|++||+||... ..--+..+.|+++||.+.|.+.
T Consensus 549 ~~dv~iia~Gs~v-~~al~Aa~~L~~~gi~~~Vv~~ 583 (663)
T PRK12753 549 KPDLILIATGSEV-EITLQAAEKLTAEGRNVRVVSM 583 (663)
T ss_pred CCCEEEEEeCHHH-HHHHHHHHHHHhcCCCcEEEEC
Confidence 4799999999653 2223566788999998887543
No 107
>COG0021 TktA Transketolase [Carbohydrate transport and metabolism]
Probab=31.04 E-value=29 Score=32.80 Aligned_cols=36 Identities=14% Similarity=0.404 Sum_probs=28.1
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 84 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
.||++||+||... .+--+..+.|.+.||.+-|.+.+
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 6999999999874 35557778899888887776544
No 108
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=30.44 E-value=1.4e+02 Score=20.43 Aligned_cols=46 Identities=17% Similarity=0.121 Sum_probs=33.2
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHH
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTY 126 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTy 126 (147)
.+.....++++|+|... .+-.++...|...|..++..+.......+
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 46667788899999999988665544433
No 109
>COG4015 Predicted dinucleotide-utilizing enzyme of the ThiF/HesA family [General function prediction only]
Probab=29.83 E-value=99 Score=24.88 Aligned_cols=28 Identities=21% Similarity=0.604 Sum_probs=20.3
Q ss_pred cCCCcEEEEeecCCCC---CCCHHHHHHHHH
Q 032090 82 RPIPEILILGCGRYIE---PVNPELRQFIRS 109 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~---~l~~~l~~~l~~ 109 (147)
+..||-+++|||+-++ +++|-+.+...+
T Consensus 170 eg~~dHilVgTgk~IRD~ePitPyvLdrva~ 200 (217)
T COG4015 170 EGGPDHILVGTGKFIRDFEPITPYVLDRVAK 200 (217)
T ss_pred cCCCceEEEecCccccCCCCCChhHHHHHHH
Confidence 4578999999999865 566666655443
No 110
>PRK13255 thiopurine S-methyltransferase; Reviewed
Probab=29.69 E-value=1.3e+02 Score=23.96 Aligned_cols=38 Identities=16% Similarity=0.350 Sum_probs=28.5
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC-hHHHHHHH
Q 032090 83 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID-SRNAASTY 126 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~-T~aAcrTy 126 (147)
++..+|++|+|... -..+|.++|..|.-.| ++.|++.+
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 45689999999873 3447788999888777 45777765
No 111
>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=29.69 E-value=65 Score=20.51 Aligned_cols=38 Identities=11% Similarity=0.192 Sum_probs=25.4
Q ss_pred CCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhhhhccc
Q 032090 97 EPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGR 134 (147)
Q Consensus 97 ~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~sEGR 134 (147)
-.....++++|.++||.++..+...--..+..+..-|+
T Consensus 9 Cp~C~~ak~~L~~~~i~~~~~di~~~~~~~~~~~~~g~ 46 (72)
T TIGR02194 9 CVQCKMTKKALEEHGIAFEEINIDEQPEAIDYVKAQGF 46 (72)
T ss_pred CHHHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHcCC
Confidence 34557889999999999999775543344444443353
No 112
>PF10865 DUF2703: Domain of unknown function (DUF2703); InterPro: IPR021219 This family of protein has no known function.
Probab=29.60 E-value=16 Score=27.10 Aligned_cols=36 Identities=17% Similarity=0.279 Sum_probs=29.4
Q ss_pred eecCCCCCCCHHHHHHHHHcCCeEEE----eChHHHHHHH
Q 032090 91 GCGRYIEPVNPELRQFIRSTGMKLEA----IDSRNAASTY 126 (147)
Q Consensus 91 GTG~~~~~l~~~l~~~l~~~GI~vEv----M~T~aAcrTy 126 (147)
+||+.+...-.+++..|+..||.+++ |++.+-.+.|
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 57777777778899999999999876 7777777666
No 113
>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=29.52 E-value=55 Score=27.22 Aligned_cols=34 Identities=21% Similarity=0.431 Sum_probs=25.9
Q ss_pred EEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 032090 89 ILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 123 (147)
Q Consensus 89 IIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAc 123 (147)
-||-|-.. .-+|++.+.++++||.+|+.+|.+-.
T Consensus 193 RIgHg~~~-~~~p~~~~~l~~~~i~ie~CP~SN~~ 226 (305)
T cd00443 193 RIGHGIFL-LKHPELIYLVKLRNIPIEVCPTSNVV 226 (305)
T ss_pred eeeceEec-CCCHHHHHHHHHcCCEEEECcchhhh
Confidence 34555432 35579999999999999999998764
No 114
>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=29.45 E-value=72 Score=21.79 Aligned_cols=38 Identities=13% Similarity=0.299 Sum_probs=25.8
Q ss_pred cCCCcEEEEeecCC------------CCCCCHH---HHHHHHHcCCeEEEeCh
Q 032090 82 RPIPEILILGCGRY------------IEPVNPE---LRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 82 ~~~pEvlIIGTG~~------------~~~l~~~---l~~~l~~~GI~vEvM~T 119 (147)
..-||++++..+.. .-.++++ ..+.|++.|+.++++.+
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 45688888874332 1345554 56678899999999875
No 115
>PRK05920 aromatic acid decarboxylase; Validated
Probab=29.37 E-value=55 Score=26.26 Aligned_cols=43 Identities=12% Similarity=0.056 Sum_probs=33.8
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhh
Q 032090 87 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNIL 129 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL 129 (147)
+++-=||..-..-..++.+.|.+.|..|.+.-|++|++.+..+
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 4444466554566778889999999999999999999977754
No 116
>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=29.29 E-value=71 Score=19.40 Aligned_cols=31 Identities=16% Similarity=0.300 Sum_probs=21.1
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeCh
Q 032090 89 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 89 IIGTG~~~-~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++|.|-.. ..+...+.+.|.+.||.++.+..
T Consensus 6 ivg~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 37 (66)
T cd04916 6 VVGEGMKNTVGVSARATAALAKAGINIRMINQ 37 (66)
T ss_pred EEcCCCCCCccHHHHHHHHHHHCCCCEEEEEe
Confidence 56776642 33445677888888988887754
No 117
>COG0674 PorA Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]
Probab=29.23 E-value=51 Score=28.60 Aligned_cols=34 Identities=21% Similarity=0.300 Sum_probs=27.1
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEE
Q 032090 83 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEA 116 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEv 116 (147)
++.|++||+.|......-.++.+++++.|+++=.
T Consensus 255 ~DAe~viV~~Gss~~~~~~a~~~~~~~~g~kvg~ 288 (365)
T COG0674 255 EDAEIVIVAMGSSKGSTAEAVVDLLRDKGEKVGL 288 (365)
T ss_pred CCcCEEEEEeccchHhHHHHHHHHHHhcCceEEE
Confidence 6789999999987777778888888888855433
No 118
>PRK06116 glutathione reductase; Validated
Probab=29.22 E-value=2.2e+02 Score=24.60 Aligned_cols=29 Identities=14% Similarity=0.315 Sum_probs=18.6
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 032090 85 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 117 (147)
Q Consensus 85 pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM 117 (147)
-.++|||.|.. .-++...|.+.|..|.+.
T Consensus 168 ~~vvViGgG~~----g~E~A~~l~~~g~~Vtlv 196 (450)
T PRK06116 168 KRVAVVGAGYI----AVEFAGVLNGLGSETHLF 196 (450)
T ss_pred CeEEEECCCHH----HHHHHHHHHHcCCeEEEE
Confidence 37899998853 335556666666666553
No 119
>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=28.99 E-value=73 Score=18.96 Aligned_cols=31 Identities=23% Similarity=0.432 Sum_probs=21.2
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeCh
Q 032090 89 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 89 IIGTG~~~-~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++|.|-.. .....++.+.|.+.||.+..+.+
T Consensus 5 v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 36 (63)
T cd04923 5 IVGAGMRSHPGVAAKMFKALAEAGINIEMIST 36 (63)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEEc
Confidence 45665542 23445678888889999888864
No 120
>PRK12571 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
Probab=28.67 E-value=32 Score=32.05 Aligned_cols=40 Identities=20% Similarity=0.412 Sum_probs=29.7
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
++.+..|+.||++|.... .--+..+.|++.||.+++.|..
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 445578999999997542 3445666788999999997653
No 121
>PF04407 DUF531: Protein of unknown function (DUF531); InterPro: IPR007501 This is a family of hypothetical archaeal proteins.
Probab=28.56 E-value=1.2e+02 Score=23.93 Aligned_cols=54 Identities=24% Similarity=0.341 Sum_probs=37.3
Q ss_pred CCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHH------HHHcCCeEEEeChHHHH
Q 032090 67 FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQF------IRSTGMKLEAIDSRNAA 123 (147)
Q Consensus 67 ~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~------l~~~GI~vEvM~T~aAc 123 (147)
-..++++++.. ..+..++=.++||-|.+- +|.++.+. +..+||.+|...--.|+
T Consensus 104 ~K~i~p~e~a~-~~l~~~s~~~liGLGR~G--LPkei~k~a~yHLDITgkgiSLETCTAiG~I 163 (173)
T PF04407_consen 104 KKAISPEEVAE-MALRGKSFLLLIGLGRHG--LPKEIFKMAKYHLDITGKGISLETCTAIGAI 163 (173)
T ss_pred CCCCCHHHHHH-HHhcCCceEEEEecCCCC--CcHHHHHhchhceeecCCceeeehhhHHhhH
Confidence 34567777654 357788999999999864 67776663 34688988876544443
No 122
>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=28.51 E-value=68 Score=20.85 Aligned_cols=31 Identities=10% Similarity=0.120 Sum_probs=20.0
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeCh
Q 032090 89 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 89 IIGTG~~~-~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
|+|.|... .-+-.++.+.|.++||.++.+.+
T Consensus 6 i~g~~l~~~~g~~~~if~~L~~~~I~v~~i~~ 37 (75)
T cd04912 6 IKSNRMLGAHGFLAKVFEIFAKHGLSVDLIST 37 (75)
T ss_pred EEcCCCCCCccHHHHHHHHHHHcCCeEEEEEc
Confidence 44555442 23446677778888888888765
No 123
>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=28.47 E-value=29 Score=24.25 Aligned_cols=33 Identities=9% Similarity=0.160 Sum_probs=24.3
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 88 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 88 lIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
|+=|+|.....+-..++++++++|+.+++-.+.
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 555777664456689999999999988765443
No 124
>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=28.21 E-value=30 Score=23.04 Aligned_cols=42 Identities=19% Similarity=0.271 Sum_probs=28.1
Q ss_pred EEEEeecC---CCCCCCHHHHHHHHHcCCeEEEe----ChHHHHHHHHh
Q 032090 87 ILILGCGR---YIEPVNPELRQFIRSTGMKLEAI----DSRNAASTYNI 128 (147)
Q Consensus 87 vlIIGTG~---~~~~l~~~l~~~l~~~GI~vEvM----~T~aAcrTyNi 128 (147)
+.|+-.|. .......++.+.|++.||.+++- +.+...+.++.
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 45555555 34455667889999999999985 44555555543
No 125
>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=27.81 E-value=1.3e+02 Score=23.37 Aligned_cols=35 Identities=17% Similarity=0.324 Sum_probs=24.7
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
++.-+||+|+. ++.. .+....+.|++.||.+-+++
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 34556999864 4432 34578899999999987765
No 126
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=27.66 E-value=31 Score=24.74 Aligned_cols=35 Identities=11% Similarity=0.257 Sum_probs=26.2
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 032090 87 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 121 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~a 121 (147)
+++=|+|.....+-..+++.++++|+.+++-..+.
T Consensus 5 LlvCg~G~STSlla~k~k~~~~e~gi~~~i~a~~~ 39 (104)
T PRK09590 5 LIICAAGMSSSMMAKKTTEYLKEQGKDIEVDAITA 39 (104)
T ss_pred EEECCCchHHHHHHHHHHHHHHHCCCceEEEEecH
Confidence 35567777656778889999999999888744433
No 127
>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=27.59 E-value=1.1e+02 Score=25.33 Aligned_cols=34 Identities=18% Similarity=0.230 Sum_probs=26.3
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 84 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
+.+.|+|+.| ..++.++...|.++||.|-+++..
T Consensus 44 ~i~~Ivl~g~---~siT~~al~~l~~~gI~v~~~~~~ 77 (269)
T TIGR03638 44 SLSCLLLGPG---TSVTHAAVKLLARHGCLVVWVGEG 77 (269)
T ss_pred HccEEEEeCC---CccCHHHHHHHHHCCCEEEEECCC
Confidence 3678888844 347888899999999999888743
No 128
>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=27.44 E-value=91 Score=25.47 Aligned_cols=93 Identities=17% Similarity=0.158 Sum_probs=54.9
Q ss_pred cEEEcCEEEeeeEEEeCCceecCC-----CCCCCCCChhhhhc-hhh-hcCCCcEEEEeecCCCCCCCHHHHHHHHHc-C
Q 032090 40 GFTVNGVQYEGSLLCIGNLLLSWT-----PKKFSEITPNCLSI-FQL-VRPIPEILILGCGRYIEPVNPELRQFIRST-G 111 (147)
Q Consensus 40 ~f~Ing~~y~gsviv~p~~v~~W~-----~~~~~~l~~e~l~~-l~~-l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~-G 111 (147)
.+.++|+.|....=+.++..+.+- ...-+..+.+++.. ++- .+..-++|+|.-...+.---.....+-++. +
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 578889999765444444433221 11334566666552 222 223347888888776543333333333333 5
Q ss_pred CeEEEeChHHHHHHHHhhhhc
Q 032090 112 MKLEAIDSRNAASTYNILNEE 132 (147)
Q Consensus 112 I~vEvM~T~aAcrTyNiL~sE 132 (147)
+.+.++||..++--.-.++-+
T Consensus 107 ~~i~ViDS~~~s~~~g~~v~~ 127 (275)
T TIGR00762 107 AKVTVIDSKSASMGLGLLVLE 127 (275)
T ss_pred CCEEEECChHHHHHHHHHHHH
Confidence 789999999999887776654
No 129
>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=27.32 E-value=26 Score=29.91 Aligned_cols=39 Identities=18% Similarity=0.307 Sum_probs=30.3
Q ss_pred CCCcEEEEeecCCC--CCCCHHHHHHHHHcCCeEEEeChHH
Q 032090 83 PIPEILILGCGRYI--EPVNPELRQFIRSTGMKLEAIDSRN 121 (147)
Q Consensus 83 ~~pEvlIIGTG~~~--~~l~~~l~~~l~~~GI~vEvM~T~a 121 (147)
..+-++++||.... +...-++.+.++++|+...+..|++
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 45779999999883 4567789999999999999998876
No 130
>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=27.26 E-value=43 Score=21.91 Aligned_cols=21 Identities=10% Similarity=0.346 Sum_probs=16.1
Q ss_pred HHHHHHHcCCeEEEeChHHHH
Q 032090 103 LRQFIRSTGMKLEAIDSRNAA 123 (147)
Q Consensus 103 l~~~l~~~GI~vEvM~T~aAc 123 (147)
..+.|+++||.+.+++|+...
T Consensus 17 ~ek~lk~~gi~~~liP~P~~i 37 (73)
T PF11823_consen 17 AEKLLKKNGIPVRLIPTPREI 37 (73)
T ss_pred HHHHHHHCCCcEEEeCCChhc
Confidence 456788888888888887654
No 131
>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=26.71 E-value=89 Score=18.25 Aligned_cols=31 Identities=16% Similarity=0.331 Sum_probs=19.8
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 89 ILGCGRY-IEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 89 IIGTG~~-~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
|+|.|.. ......++.+.|.+.||.+..+.+
T Consensus 5 i~g~~~~~~~~~~~~i~~~l~~~~i~v~~i~~ 36 (65)
T cd04892 5 VVGAGMRGTPGVAARIFSALAEAGINIIMISQ 36 (65)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCcEEEEEc
Confidence 4565553 233555677778888888877754
No 132
>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=26.62 E-value=62 Score=22.89 Aligned_cols=34 Identities=18% Similarity=0.313 Sum_probs=20.2
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
.+++|.++|-||..- . -.+.+.++++|+.|.++-
T Consensus 93 ~~~~d~ivLvSgD~D--f-~~~v~~l~~~g~~V~v~~ 126 (146)
T PF01936_consen 93 ENPPDTIVLVSGDSD--F-APLVRKLRERGKRVIVVG 126 (146)
T ss_dssp -GG-SEEEEE---GG--G-HHHHHHHHHH--EEEEEE
T ss_pred ccCCCEEEEEECcHH--H-HHHHHHHHHcCCEEEEEE
Confidence 455799999999962 1 246677889999999886
No 133
>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=26.60 E-value=56 Score=24.66 Aligned_cols=34 Identities=12% Similarity=0.221 Sum_probs=27.2
Q ss_pred HHHHHcCCeEEEeChHHHHHHHHhhhhccceeEE
Q 032090 105 QFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAA 138 (147)
Q Consensus 105 ~~l~~~GI~vEvM~T~aAcrTyNiL~sEGR~VaA 138 (147)
-+|++.|+.||.+.......+.+.|.+..=.++.
T Consensus 14 G~f~~~gl~ve~~~~~~~~~~~~~l~~G~~D~~~ 47 (216)
T PF09084_consen 14 GYFKEEGLDVEIVFFGGGGDVLEALASGKADIAV 47 (216)
T ss_dssp THHHHTTEEEEEEEESSHHHHHHHHHTTSHSEEE
T ss_pred CCCccCeEEEEEEEecChhHHHHHHhcCCceEEe
Confidence 3789999999999998888999888776555543
No 134
>PLN02790 transketolase
Probab=26.39 E-value=40 Score=31.45 Aligned_cols=35 Identities=17% Similarity=0.497 Sum_probs=26.5
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 85 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 85 pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
+|++||+||... ..--+..+.|+++||.+.+.+..
T Consensus 541 ~dv~iia~G~~v-~~Al~Aa~~L~~~gi~~~VV~~~ 575 (654)
T PLN02790 541 PDLILIGTGSEL-EIAAKAAKELRKEGKKVRVVSMV 575 (654)
T ss_pred CCEEEEEcCHHH-HHHHHHHHHHHhcCCceEEEecC
Confidence 899999999653 22345667899999998887644
No 135
>PRK11892 pyruvate dehydrogenase subunit beta; Provisional
Probab=25.85 E-value=37 Score=30.52 Aligned_cols=39 Identities=15% Similarity=0.180 Sum_probs=28.5
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++...-|+.||++|... ..--+..+.|++.||.+++.|-
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 45567799999999642 2334556678999999999653
No 136
>PRK09534 btuF corrinoid ABC transporter substrate-binding protein; Reviewed
Probab=25.80 E-value=1.2e+02 Score=25.75 Aligned_cols=34 Identities=15% Similarity=0.240 Sum_probs=25.2
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
++.-+||+||...+ .+.+..+.|++.||.+-+.+
T Consensus 115 Il~l~PDLVi~~~~-----~~~~~~~~L~~~gi~V~~~~ 148 (359)
T PRK09534 115 VVGLDPDLVLAPNA-----VAGDTVTRLREAGITVFHFP 148 (359)
T ss_pred HhcCCCCEEEEcCC-----CchHHHHHHHHCCCeEEEeC
Confidence 44567999887532 23568899999999997764
No 137
>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=25.74 E-value=50 Score=26.34 Aligned_cols=30 Identities=17% Similarity=0.336 Sum_probs=20.2
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 85 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 85 pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
.||+|||-|-. --.+...|+++|+.|.+..
T Consensus 2 ~dV~IvGaG~a----Gl~~A~~L~~~G~~v~i~E 31 (356)
T PF01494_consen 2 YDVAIVGAGPA----GLAAALALARAGIDVTIIE 31 (356)
T ss_dssp EEEEEE--SHH----HHHHHHHHHHTTCEEEEEE
T ss_pred ceEEEECCCHH----HHHHHHHHHhcccccccch
Confidence 47899999843 1256668888999887754
No 138
>PRK04148 hypothetical protein; Provisional
Probab=25.70 E-value=1e+02 Score=23.21 Aligned_cols=31 Identities=26% Similarity=0.485 Sum_probs=23.6
Q ss_pred cEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 032090 86 EILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 121 (147)
Q Consensus 86 EvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~a 121 (147)
.++.||+|.. .++...|.+.|..|-..|...
T Consensus 19 kileIG~GfG-----~~vA~~L~~~G~~ViaIDi~~ 49 (134)
T PRK04148 19 KIVELGIGFY-----FKVAKKLKESGFDVIVIDINE 49 (134)
T ss_pred EEEEEEecCC-----HHHHHHHHHCCCEEEEEECCH
Confidence 4999999943 356778889998888877543
No 139
>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=25.61 E-value=1.5e+02 Score=22.38 Aligned_cols=61 Identities=18% Similarity=0.281 Sum_probs=40.7
Q ss_pred hhhcCCCcEEEEeecCCCCC-CCHHHHHHHHH--cCCeEEEeCh----HHHHHHHHhhhhccceeEEE
Q 032090 79 QLVRPIPEILILGCGRYIEP-VNPELRQFIRS--TGMKLEAIDS----RNAASTYNILNEEGRIVAAA 139 (147)
Q Consensus 79 ~~l~~~pEvlIIGTG~~~~~-l~~~l~~~l~~--~GI~vEvM~T----~aAcrTyNiL~sEGR~VaAa 139 (147)
+.+...-+++++-+|....+ ....+.+.+.+ .||.+|+.+- .+||...++=...+..+...
T Consensus 71 ~~~~~g~~V~~l~~GDP~~~~~~~~l~~~l~~~~~gi~v~iiPGiSs~~~a~a~~g~~~~~~~~~~~~ 138 (210)
T PF00590_consen 71 EAAKEGKDVVVLVSGDPLFFSTGSYLVRALRAEERGIEVEIIPGISSFQAAAARLGIPLTDGGFISLH 138 (210)
T ss_dssp HHHHTTSEEEEEESBSTTSSSSHHHHHHHHHHHHTTCEEEEE--TTHHHHHHHHCTSTSSBTTTBEEE
T ss_pred HHHhccCCEEEeCCCCCCcccHHHHHHHHHHhhcCCCceEEEecCcHHHHHHHHHcCCcccCcEEEEE
Confidence 34455557999999999654 55788888999 9999999653 44555555555555444433
No 140
>COG1154 Dxs Deoxyxylulose-5-phosphate synthase [Coenzyme metabolism / Lipid metabolism]
Probab=25.45 E-value=1e+02 Score=29.15 Aligned_cols=40 Identities=18% Similarity=0.417 Sum_probs=29.5
Q ss_pred hhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 79 QLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 79 ~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
+++.+..|++||+.|... ..--.+.+.|.++||.+-+.|.
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 456778899999999642 3344567778888888887664
No 141
>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=25.44 E-value=1.2e+02 Score=17.95 Aligned_cols=22 Identities=18% Similarity=0.033 Sum_probs=14.2
Q ss_pred EeCCcEEEcCEEE-eeeEEEeCC
Q 032090 36 YTDTGFTVNGVQY-EGSLLCIGN 57 (147)
Q Consensus 36 Y~~g~f~Ing~~y-~gsviv~p~ 57 (147)
-..|++.|||+.. ..+-.+.++
T Consensus 23 i~~g~V~vn~~~~~~~~~~v~~~ 45 (70)
T cd00165 23 IKHGHVLVNGKVVTKPSYKVKPG 45 (70)
T ss_pred HHcCCEEECCEEccCCccCcCCC
Confidence 3578999999877 333444433
No 142
>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=25.39 E-value=42 Score=31.08 Aligned_cols=39 Identities=26% Similarity=0.474 Sum_probs=28.0
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++.+..|+.||++|.... .--+..+.|+++||.+++.|.
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 455678999999997532 223445678899999999654
No 143
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=25.37 E-value=37 Score=23.58 Aligned_cols=31 Identities=16% Similarity=0.253 Sum_probs=23.0
Q ss_pred EEEeecCCCC-CCCHHHHHHHHHcCCeEEEeC
Q 032090 88 LILGCGRYIE-PVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 88 lIIGTG~~~~-~l~~~l~~~l~~~GI~vEvM~ 118 (147)
++=|+|-... .+-..+++.|.++|+.+|+..
T Consensus 7 vvCgsG~~TS~m~~~ki~~~l~~~gi~~~v~~ 38 (94)
T PRK10310 7 VACGGAVATSTMAAEEIKELCQSHNIPVELIQ 38 (94)
T ss_pred EECCCchhHHHHHHHHHHHHHHHCCCeEEEEE
Confidence 4556666533 447889999999999888765
No 144
>PRK15364 pathogenicity island 2 effector protein SseB; Provisional
Probab=25.22 E-value=81 Score=25.39 Aligned_cols=25 Identities=16% Similarity=0.445 Sum_probs=22.1
Q ss_pred CCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 96 IEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 96 ~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
...+|+++.+|++++||.|.=|+.+
T Consensus 96 k~~LPddVI~YmrdNgI~VdG~sid 120 (196)
T PRK15364 96 KEEVPEDVIKYMRDNGILIDGMTID 120 (196)
T ss_pred cccCCHHHHHHHHHcCceecccchH
Confidence 5799999999999999999888743
No 145
>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=25.20 E-value=1.2e+02 Score=23.70 Aligned_cols=36 Identities=14% Similarity=0.230 Sum_probs=23.4
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHH-cCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRS-TGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~-~GI~vEvM~T 119 (147)
++.-+||+||...+... .+..+.|.+ .||.+-++++
T Consensus 70 i~~l~PDLIi~~~~~~~----~~~~~~l~~~~gipvv~~~~ 106 (262)
T cd01147 70 IAALKPDVVIDVGSDDP----TSIADDLQKKTGIPVVVLDG 106 (262)
T ss_pred HHhcCCCEEEEecCCcc----chhHHHHHHhhCCCEEEEec
Confidence 44556999887644321 145666665 8999877764
No 146
>COG1993 PII-like signaling protein [Signal transduction mechanisms]
Probab=25.13 E-value=66 Score=23.67 Aligned_cols=44 Identities=14% Similarity=0.164 Sum_probs=34.0
Q ss_pred EEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhhhhc
Q 032090 89 ILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEE 132 (147)
Q Consensus 89 IIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~sE 132 (147)
|-|-|.....-..++.+.-...=|.+|+.|++++.+.|=-.+.|
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 56888877666777777777788899999999999887544444
No 147
>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=25.01 E-value=1.1e+02 Score=22.62 Aligned_cols=39 Identities=23% Similarity=0.430 Sum_probs=26.9
Q ss_pred EEEEeecCCCC---CCCHHHHHHHHHcCC--eEEEeChHHHHHH
Q 032090 87 ILILGCGRYIE---PVNPELRQFIRSTGM--KLEAIDSRNAAST 125 (147)
Q Consensus 87 vlIIGTG~~~~---~l~~~l~~~l~~~GI--~vEvM~T~aAcrT 125 (147)
++|+|.|+..+ -+-+.+.+.|++... ++++++-+.....
T Consensus 1 ~lVlGiGN~L~~DDG~G~~v~~~L~~~~~~~~v~~id~gt~~~~ 44 (146)
T cd06063 1 LTIIGCGNLNRGDDGVGPILIRRLQAYLLPPHVRLVDCGTAGME 44 (146)
T ss_pred CEEEEECCcccccCcHHHHHHHHHhhcCCCCCeEEEECCCCHHH
Confidence 57899999865 366788888887643 3777765544433
No 148
>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=24.80 E-value=61 Score=26.45 Aligned_cols=39 Identities=26% Similarity=0.487 Sum_probs=32.7
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 122 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aA 122 (147)
.+.|+|.++|+|-|. ....+.+..+..|..|.++|.+..
T Consensus 96 ~~~p~~~L~IfGaG~----va~~la~la~~lGf~V~v~D~R~~ 134 (246)
T TIGR02964 96 EAPPAPHVVLFGAGH----VGRALVRALAPLPCRVTWVDSREA 134 (246)
T ss_pred ccCCCCEEEEECCcH----HHHHHHHHHhcCCCEEEEEeCCcc
Confidence 356889999999995 445788899999999999998866
No 149
>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=24.62 E-value=1.2e+02 Score=17.89 Aligned_cols=31 Identities=23% Similarity=0.434 Sum_probs=20.8
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeCh
Q 032090 89 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 89 IIGTG~~~-~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++|.|-.. ..+-.++.+.|.++||.++.+.+
T Consensus 5 v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 36 (63)
T cd04936 5 IVGAGMRSHPGVAAKMFEALAEAGINIEMIST 36 (63)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCcEEEEEc
Confidence 55665542 23445677888889988888764
No 150
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=24.53 E-value=1.2e+02 Score=25.74 Aligned_cols=37 Identities=14% Similarity=0.223 Sum_probs=29.9
Q ss_pred hcCCCcEEEEeecCCCC----------CCCHHHHHHHHHcCCeEEEe
Q 032090 81 VRPIPEILILGCGRYIE----------PVNPELRQFIRSTGMKLEAI 117 (147)
Q Consensus 81 l~~~pEvlIIGTG~~~~----------~l~~~l~~~l~~~GI~vEvM 117 (147)
+..+.|+.|+|.|.-.. .++++..+.|+++|..=|++
T Consensus 198 ~~~~~Dial~GIG~~~~~~~s~~~~~g~l~~~~~~~L~~~gAVGdi~ 244 (318)
T PRK15418 198 AAQAADVAIVGIGAVNQKDDATILRSGYISQGEQLMIGRKGAVGDIL 244 (318)
T ss_pred HHHhCCEEEEEecCCCCCCCCceeecCCCCHHHHHHHHHCCceEEEe
Confidence 44578999999999532 58888999999999887775
No 151
>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=24.50 E-value=1.3e+02 Score=25.19 Aligned_cols=31 Identities=10% Similarity=0.219 Sum_probs=24.6
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 85 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 85 pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
.|.|+|+ |. ..++..+...|.++||.|-+++
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 5777777 33 4588889999999999998876
No 152
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=24.45 E-value=1.4e+02 Score=26.00 Aligned_cols=57 Identities=16% Similarity=0.344 Sum_probs=40.6
Q ss_pred CCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe----ChHHHHHHHHhh
Q 032090 69 EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI----DSRNAASTYNIL 129 (147)
Q Consensus 69 ~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM----~T~aAcrTyNiL 129 (147)
..+++.+. ++++-+||.|+|==|. .-++|...+.|++.||.|+-. ..+-|.+..+.+
T Consensus 62 ~ynes~~~--eI~~lnpd~VLIIGGp--~AVs~~yE~~Lks~GitV~RigG~nR~ETa~~v~~~~ 122 (337)
T COG2247 62 IYNESVLD--EIIELNPDLVLIIGGP--IAVSPNYENALKSLGITVKRIGGANRYETAEKVAKFF 122 (337)
T ss_pred cccHHHHH--HHHhhCCceEEEECCC--CcCChhHHHHHHhCCcEEEEecCcchHHHHHHHHHHH
Confidence 56777666 4666678866554454 458899999999999998874 345566667776
No 153
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=23.96 E-value=60 Score=27.36 Aligned_cols=38 Identities=32% Similarity=0.605 Sum_probs=25.0
Q ss_pred cCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 032090 82 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 123 (147)
Q Consensus 82 ~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAc 123 (147)
..++|.||+|| .+.-++-+++++.+ |-.+.++|+++++
T Consensus 175 ~~~~DtlVLGC-THyPll~~~i~~~~---~~~v~lids~~~~ 212 (269)
T COG0796 175 EAGPDTLVLGC-THYPLLKPEIQQVL---GEHVALIDSGAET 212 (269)
T ss_pred ccCCCEEEEeC-cCcHHHHHHHHHHh---CCCceEeCCHHHH
Confidence 34599999999 33334555555554 4478889888443
No 154
>COG0007 CysG Uroporphyrinogen-III methylase [Coenzyme metabolism]
Probab=23.84 E-value=99 Score=25.72 Aligned_cols=45 Identities=22% Similarity=0.149 Sum_probs=33.1
Q ss_pred CCcEEEEeecCCCCC-CCHHHHHHHHHcCCeEEE---eChHHHHHHHHh
Q 032090 84 IPEILILGCGRYIEP-VNPELRQFIRSTGMKLEA---IDSRNAASTYNI 128 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~-l~~~l~~~l~~~GI~vEv---M~T~aAcrTyNi 128 (147)
.=.++=+=.|+...| ---|-.++|.++||.+|+ +.+..||.+|=-
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 345666666666554 335778899999999999 678888888853
No 155
>PRK00141 murD UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional
Probab=23.72 E-value=72 Score=28.21 Aligned_cols=33 Identities=15% Similarity=0.323 Sum_probs=27.7
Q ss_pred cEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 032090 86 EILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 122 (147)
Q Consensus 86 EvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aA 122 (147)
-++|+|.|..-+ .+..+|.++|..|-+.|....
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 499999998753 788899999999999997544
No 156
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=23.68 E-value=67 Score=28.24 Aligned_cols=46 Identities=17% Similarity=0.156 Sum_probs=37.6
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhhh
Q 032090 85 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILN 130 (147)
Q Consensus 85 pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~ 130 (147)
--+++.-||.....-.+++.+.|++.|..|.++=|++|++...-+.
T Consensus 7 k~IllgvTGsiaa~k~~~lv~~L~~~g~~V~vv~T~~A~~fi~~~~ 52 (399)
T PRK05579 7 KRIVLGVSGGIAAYKALELVRRLRKAGADVRVVMTEAAKKFVTPLT 52 (399)
T ss_pred CeEEEEEeCHHHHHHHHHHHHHHHhCCCEEEEEECHhHHHHHhHHH
Confidence 3588888888755556788899999999999999999998777543
No 157
>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=23.44 E-value=1.8e+02 Score=23.49 Aligned_cols=35 Identities=9% Similarity=0.196 Sum_probs=25.0
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
++.-+||+||...+ .+++..+.|++.||.+-+.++
T Consensus 87 I~al~PDlIi~~~~-----~~~~~~~~l~~~gi~v~~~~~ 121 (289)
T TIGR03659 87 IKSLKPTVVLSVTT-----LEEDLGPKFKQLGVEATFLNL 121 (289)
T ss_pred HhccCCcEEEEcCc-----ccHHHHHHHHHcCCcEEEEcC
Confidence 44556999986422 346778999999999876643
No 158
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=23.41 E-value=2.7e+02 Score=20.59 Aligned_cols=41 Identities=17% Similarity=0.353 Sum_probs=31.2
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe---ChHHHHHHH
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI---DSRNAASTY 126 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM---~T~aAcrTy 126 (147)
+.+..+|+||.+ .+.|.-.+.|+++||.+-.. +.+.|...|
T Consensus 61 l~~~gvdvvi~~------~iG~~a~~~l~~~GIkv~~~~~~~V~e~i~~~ 104 (121)
T COG1433 61 LVDEGVDVVIAS------NIGPNAYNALKAAGIKVYVAPGGTVEEAIKAF 104 (121)
T ss_pred HHHcCCCEEEEC------ccCHHHHHHHHHcCcEEEecCCCCHHHHHHHH
Confidence 346789999986 47788999999999998774 555555544
No 159
>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=23.24 E-value=2.3e+02 Score=24.76 Aligned_cols=43 Identities=19% Similarity=0.281 Sum_probs=34.1
Q ss_pred CCCCHHHHHHHHHcCCeEEEeC----------------------------hHHHHHHHHhhhhccceeEEE
Q 032090 97 EPVNPELRQFIRSTGMKLEAID----------------------------SRNAASTYNILNEEGRIVAAA 139 (147)
Q Consensus 97 ~~l~~~l~~~l~~~GI~vEvM~----------------------------T~aAcrTyNiL~sEGR~VaAa 139 (147)
...++++.+.|+++||.+.... ++++|+.-|.-.++|++|+|.
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 5678999999999998865421 467888889888899998873
No 160
>PF07864 DUF1651: Protein of unknown function (DUF1651); InterPro: IPR012447 The proteins in this entry have not been characterised.
Probab=23.22 E-value=74 Score=21.14 Aligned_cols=21 Identities=14% Similarity=0.243 Sum_probs=18.5
Q ss_pred EEEeChHHHHHHHHhhhhccc
Q 032090 114 LEAIDSRNAASTYNILNEEGR 134 (147)
Q Consensus 114 vEvM~T~aAcrTyNiL~sEGR 134 (147)
=..|...+|..+|+.|+++|=
T Consensus 47 rr~l~~~~A~e~W~~L~~~GW 67 (75)
T PF07864_consen 47 RRRLTREEARELWKELQKTGW 67 (75)
T ss_pred EEEEEHHHHHHHHHHHHHcCC
Confidence 357899999999999999983
No 161
>COG4821 Uncharacterized protein containing SIS (Sugar ISomerase) phosphosugar binding domain [General function prediction only]
Probab=23.00 E-value=1.3e+02 Score=24.90 Aligned_cols=38 Identities=26% Similarity=0.387 Sum_probs=30.0
Q ss_pred cEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 032090 86 EILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 123 (147)
Q Consensus 86 EvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAc 123 (147)
|++++=.-...-.+|-++.++-+++|..|.+|.+-+.-
T Consensus 106 DVliviSnSGrNpvpie~A~~~rekGa~vI~vTSl~yS 143 (243)
T COG4821 106 DVLIVISNSGRNPVPIEVAEYAREKGAKVIAVTSLDYS 143 (243)
T ss_pred CEEEEEeCCCCCCcchHHHHHHHhcCCeEEEEehhhhh
Confidence 66666554555678889999999999999999876654
No 162
>COG4012 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.90 E-value=1.1e+02 Score=26.28 Aligned_cols=54 Identities=17% Similarity=0.230 Sum_probs=38.1
Q ss_pred CCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 032090 69 EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 127 (147)
Q Consensus 69 ~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyN 127 (147)
.+..+-+. ..+...|++.++|+=..--....++++.|++ +.++--|..|+.|+-
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 34455555 3566678999999976655666677766653 577888999988873
No 163
>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=22.52 E-value=70 Score=24.98 Aligned_cols=33 Identities=9% Similarity=0.314 Sum_probs=22.1
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 032090 85 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 121 (147)
Q Consensus 85 pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~a 121 (147)
.|++|||.|-.-. .+...|+++|+.|-+.+-..
T Consensus 1 ~dv~IiGaG~aGl----~~A~~l~~~g~~v~vie~~~ 33 (295)
T TIGR02032 1 YDVVVVGAGPAGA----SAAYRLADKGLRVLLLEKKS 33 (295)
T ss_pred CCEEEECCCHHHH----HHHHHHHHCCCeEEEEeccC
Confidence 3788888886532 23445677888888776553
No 164
>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=22.42 E-value=1.1e+02 Score=17.34 Aligned_cols=21 Identities=10% Similarity=0.317 Sum_probs=13.6
Q ss_pred CHHHHHHHHHcCCeEEEeChH
Q 032090 100 NPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 100 ~~~l~~~l~~~GI~vEvM~T~ 120 (147)
..++.+.|.+.||.++.+.+.
T Consensus 17 ~~~i~~~l~~~~i~i~~i~~~ 37 (60)
T cd04868 17 AAKIFSALAEAGINVDMISQS 37 (60)
T ss_pred HHHHHHHHHHCCCcEEEEEcC
Confidence 345666777777777766554
No 165
>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=22.07 E-value=69 Score=24.72 Aligned_cols=39 Identities=23% Similarity=0.260 Sum_probs=27.5
Q ss_pred eecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHH-HHHhh
Q 032090 91 GCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAS-TYNIL 129 (147)
Q Consensus 91 GTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcr-TyNiL 129 (147)
|.|+..+.++..+++.+++++=.+-.-+|...++ -+.-|
T Consensus 14 GaGKTr~vlp~~~~~~i~~~~rvLvL~PTRvva~em~~aL 53 (148)
T PF07652_consen 14 GAGKTRRVLPEIVREAIKRRLRVLVLAPTRVVAEEMYEAL 53 (148)
T ss_dssp TSSTTTTHHHHHHHHHHHTT--EEEEESSHHHHHHHHHHT
T ss_pred CCCCcccccHHHHHHHHHccCeEEEecccHHHHHHHHHHH
Confidence 7788777788888888888887788888877654 34444
No 166
>TIGR03641 cas1_HMARI CRISPR-associated endonuclease Cas1, HMARI/TNEAP subtype. It describes Cas1 subgroup that includes Cas1 proteins of the related HMARI and TNEAP subtypes of CRISPR/Cas system.
Probab=21.91 E-value=1.5e+02 Score=25.06 Aligned_cols=31 Identities=10% Similarity=0.198 Sum_probs=23.9
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 85 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 85 pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
.|.|+|+.| ..++.++...|.++||.+-+++
T Consensus 34 i~~ivi~g~---~~ist~al~~l~~~gI~v~f~~ 64 (322)
T TIGR03641 34 IDEIYVFGE---VSLNSKALSFLSKKGIPIHFFN 64 (322)
T ss_pred cCeEEEEcC---CccCHHHHHHHHHCCCeEEEEC
Confidence 566666543 4588888899999999998876
No 167
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=21.71 E-value=71 Score=17.24 Aligned_cols=15 Identities=33% Similarity=0.372 Sum_probs=12.9
Q ss_pred hhhhhhhhhhHHHHH
Q 032090 2 AVRQRAVTTLPNLMR 16 (147)
Q Consensus 2 ~~~~~~~~~~~~~~~ 16 (147)
.||+-|+.+|.+|.+
T Consensus 15 ~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 15 EVRQAAAECLGAIAE 29 (31)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh
Confidence 389999999999876
No 168
>PRK01424 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=21.53 E-value=82 Score=27.78 Aligned_cols=43 Identities=16% Similarity=0.290 Sum_probs=33.6
Q ss_pred CCCCHHHHHHHHHcCCeEEEeC----------------------------hHHHHHHHHhhhhccceeEEE
Q 032090 97 EPVNPELRQFIRSTGMKLEAID----------------------------SRNAASTYNILNEEGRIVAAA 139 (147)
Q Consensus 97 ~~l~~~l~~~l~~~GI~vEvM~----------------------------T~aAcrTyNiL~sEGR~VaAa 139 (147)
...++++.+.|+++||.+-... +++.++.-|.-.++||+|.|.
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 5678899999999998865421 457788888888999999873
No 169
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=21.23 E-value=83 Score=24.79 Aligned_cols=43 Identities=16% Similarity=0.072 Sum_probs=33.8
Q ss_pred EEEEeecCCCCCCCHHHHHHHHH-cCCeEEEeChHHHHHHHHhh
Q 032090 87 ILILGCGRYIEPVNPELRQFIRS-TGMKLEAIDSRNAASTYNIL 129 (147)
Q Consensus 87 vlIIGTG~~~~~l~~~l~~~l~~-~GI~vEvM~T~aAcrTyNiL 129 (147)
+++-=||..-..-.+++.+.|.+ .|..|.+.-|++|.+..+-.
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 44444665555667889999999 59999999999999987765
No 170
>PF07505 Gp37_Gp68: Phage protein Gp37/Gp68; InterPro: IPR011101 This entry is represented by Burkholderia phage phiE125, Gp37. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=21.16 E-value=1.6e+02 Score=24.56 Aligned_cols=38 Identities=18% Similarity=0.294 Sum_probs=32.5
Q ss_pred CCCcEEEEe--ecCCCCCCCHH----HHHHHHHcCCeEEEeChH
Q 032090 83 PIPEILILG--CGRYIEPVNPE----LRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 83 ~~pEvlIIG--TG~~~~~l~~~----l~~~l~~~GI~vEvM~T~ 120 (147)
..+|-||+| +|...+..+++ +++...+.||.+-+-.++
T Consensus 187 ~~IdWVIvGGESG~~ARp~~~~Wvr~irdqC~~~gvpFffKQwG 230 (261)
T PF07505_consen 187 EGIDWVIVGGESGPGARPMHPDWVRSIRDQCAAAGVPFFFKQWG 230 (261)
T ss_pred CCCCEEEECCCcCCCCCcCCHHHHHHHHHHHHHcCCcEEEEeCC
Confidence 468999999 88888888875 778888999999998888
No 171
>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=21.12 E-value=12 Score=19.25 Aligned_cols=13 Identities=31% Similarity=0.414 Sum_probs=4.9
Q ss_pred HHHHHHHhhhhcc
Q 032090 121 NAASTYNILNEEG 133 (147)
Q Consensus 121 aAcrTyNiL~sEG 133 (147)
..||.||.-.+|.
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 3589999988874
No 172
>PRK13302 putative L-aspartate dehydrogenase; Provisional
Probab=20.94 E-value=2.7e+02 Score=22.83 Aligned_cols=51 Identities=10% Similarity=0.146 Sum_probs=33.6
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH---HHHHHHhhhhcccee
Q 032090 83 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN---AASTYNILNEEGRIV 136 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~a---AcrTyNiL~sEGR~V 136 (147)
.++|+|++-|+.. .+.++...+-++|..+-++++.+ +-+.......-|.++
T Consensus 66 ~~~D~Vvi~tp~~---~h~e~~~~aL~aGk~Vi~~s~gal~~~~~L~~~A~~~g~~l 119 (271)
T PRK13302 66 THADIVVEAAPAS---VLRAIVEPVLAAGKKAIVLSVGALLRNEDLIDLARQNGGQI 119 (271)
T ss_pred cCCCEEEECCCcH---HHHHHHHHHHHcCCcEEEecchhHHhHHHHHHHHHHcCCEE
Confidence 3589999999865 34676666678899998888774 333333333335544
No 173
>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=20.77 E-value=95 Score=24.29 Aligned_cols=38 Identities=13% Similarity=0.200 Sum_probs=24.7
Q ss_pred EEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHH
Q 032090 88 LILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAST 125 (147)
Q Consensus 88 lIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~aAcrT 125 (147)
-|.|+|........-+.+..++.|..|.+.=|++|++.
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 45666655443333333333467999999999999943
No 174
>COG4558 ChuT ABC-type hemin transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=20.75 E-value=1.6e+02 Score=25.29 Aligned_cols=44 Identities=11% Similarity=0.285 Sum_probs=31.8
Q ss_pred CCCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 67 FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 67 ~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
.+.|+.|= ++.-+||+||.--|. =|+++.+.|++.||.+.+|+.
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 445579988765552 345899999999999999984
No 175
>COG2428 Uncharacterized conserved protein [Function unknown]
Probab=20.69 E-value=1.1e+02 Score=24.54 Aligned_cols=62 Identities=16% Similarity=0.150 Sum_probs=40.3
Q ss_pred CCCCCChhhhhchhhhcCCCcEEEEee--cCCC-----CCCCHHHHHHHHHcCCeEEEeChHHHHHHHHhhhhccce
Q 032090 66 KFSEITPNCLSIFQLVRPIPEILILGC--GRYI-----EPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRI 135 (147)
Q Consensus 66 ~~~~l~~e~l~~l~~l~~~pEvlIIGT--G~~~-----~~l~~~l~~~l~~~GI~vEvM~T~aAcrTyNiL~sEGR~ 135 (147)
...++++|+.+. -+++|+|- |... ..+.-.....++.+.+|=+.|+++-|.||= .|.+||.+
T Consensus 73 a~~~L~PEdas~-------~~~ivvGGIlGD~pprgRT~~l~T~~~~~~~~R~lG~~q~SiDgA~rta-~li~eg~r 141 (196)
T COG2428 73 AEEELKPEDASE-------DTYIVVGGILGDHPPRGRTKELITSKMEGVKVRHLGPKQFSIDGASRTA-KLIAEGKR 141 (196)
T ss_pred CCCCCCcccCCc-------ccEEEECccccCCCCCCcchhhhccccccccccccCccceeccHHHHHH-HHHHcccc
Confidence 455677775441 35888883 4432 122333445677889999999999999996 45666654
No 176
>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=20.67 E-value=56 Score=19.73 Aligned_cols=13 Identities=31% Similarity=0.531 Sum_probs=9.6
Q ss_pred eChHHHHHHHHhh
Q 032090 117 IDSRNAASTYNIL 129 (147)
Q Consensus 117 M~T~aAcrTyNiL 129 (147)
|+...|++.||+=
T Consensus 17 ~S~r~AA~~ygVp 29 (45)
T PF05225_consen 17 MSIRKAAKKYGVP 29 (45)
T ss_dssp S-HHHHHHHHT--
T ss_pred CCHHHHHHHHCcC
Confidence 8999999999974
No 177
>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=20.61 E-value=1.2e+02 Score=26.08 Aligned_cols=43 Identities=12% Similarity=0.253 Sum_probs=28.0
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHH-HcCCe--EEEeChHHHHHHHH
Q 032090 84 IPEILILGCGRYIEPVNPELRQFIR-STGMK--LEAIDSRNAASTYN 127 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~l~~~l~~~l~-~~GI~--vEvM~T~aAcrTyN 127 (147)
.+|.|++||-..... .+....++. ..|+. +..++..+||..+-
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 679999999765432 223333333 34764 67888999998764
No 178
>KOG1367 consensus 3-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=20.54 E-value=97 Score=27.38 Aligned_cols=61 Identities=15% Similarity=0.077 Sum_probs=33.0
Q ss_pred CCCCChhhhhchhhhcCCCcEEEEeecCCCCCCC-------HHHHH---HHHHcCCeEEE--eChHHHHHHHHh
Q 032090 67 FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVN-------PELRQ---FIRSTGMKLEA--IDSRNAASTYNI 128 (147)
Q Consensus 67 ~~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~-------~~l~~---~l~~~GI~vEv--M~T~aAcrTyNi 128 (147)
.-|+.+++.+.|...-.+ --.|+=.|..-.|-- .++.+ .+..+|....+ -||..||+.||.
T Consensus 311 gLD~GPes~k~fa~~v~~-aKtIvWNGP~GvfE~~~Fa~GTeal~d~~v~~t~~G~~tiiGGGDTata~~k~g~ 383 (416)
T KOG1367|consen 311 GLDIGPESIKMFAEAVAT-AKTIVWNGPPGVFEFEKFAAGTEALMDALVKLTGKGVTTIIGGGDTATACKKFGT 383 (416)
T ss_pred ccccChHHHHHHHHHHhh-hhEEEecCCCcccchhhhhhhHHHHHHHHHHHhcCCcEEEEcCCcHHHHHHHhCc
Confidence 446777777655322111 223444444432211 12332 34557766666 589999999995
No 179
>PRK07045 putative monooxygenase; Reviewed
Probab=20.50 E-value=39 Score=28.33 Aligned_cols=33 Identities=18% Similarity=0.308 Sum_probs=20.2
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 032090 84 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 84 ~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
+.+|+|||-|-.- ......|+++|+.+.+....
T Consensus 5 ~~~V~IiGgGpaG----l~~A~~L~~~G~~v~v~E~~ 37 (388)
T PRK07045 5 PVDVLINGSGIAG----VALAHLLGARGHSVTVVERA 37 (388)
T ss_pred eeEEEEECCcHHH----HHHHHHHHhcCCcEEEEeCC
Confidence 4578888887542 23444667777777666533
No 180
>TIGR03639 cas1_NMENI CRISPR-associated endonuclease Cas1, NMENI subtype. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is a 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 variant of the NMENI subtype of CRISPR/Cas system.
Probab=20.50 E-value=1.2e+02 Score=25.10 Aligned_cols=21 Identities=14% Similarity=0.195 Sum_probs=13.1
Q ss_pred CCCHHHHHHHHHcCCeEEEeC
Q 032090 98 PVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 98 ~l~~~l~~~l~~~GI~vEvM~ 118 (147)
.++.++...|.++||.|-+++
T Consensus 46 ~lst~~l~~l~~~~I~v~f~~ 66 (278)
T TIGR03639 46 TISSALLSALAENNIALIFCD 66 (278)
T ss_pred EEcHHHHHHHHHCCCeEEEEC
Confidence 355666666666666666654
No 181
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=20.47 E-value=50 Score=23.31 Aligned_cols=30 Identities=13% Similarity=0.261 Sum_probs=21.0
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCC--eEEEeC
Q 032090 89 ILGCGRY-IEPVNPELRQFIRSTGM--KLEAID 118 (147)
Q Consensus 89 IIGTG~~-~~~l~~~l~~~l~~~GI--~vEvM~ 118 (147)
+-|+|.. -..+-..+.++|+++|| .++.+.
T Consensus 7 aCG~GvgSS~~ik~kve~~l~~~gi~~~~~~~~ 39 (93)
T COG3414 7 ACGNGVGSSTMIKMKVEEVLKELGIDVDVEQCA 39 (93)
T ss_pred ECCCCccHHHHHHHHHHHHHHHcCCCceeeeEE
Confidence 3455555 35677899999999999 455444
No 182
>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=20.44 E-value=4e+02 Score=20.46 Aligned_cols=35 Identities=11% Similarity=0.148 Sum_probs=23.2
Q ss_pred hhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 80 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 80 ~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
++.-+||+||...+. -+....+.|++.||.+-+.+
T Consensus 53 i~~l~PDlIi~~~~~----~~~~~~~~l~~~gi~v~~~~ 87 (245)
T cd01144 53 VLALKPDLVIAWDDC----NVCAVVDQLRAAGIPVLVSE 87 (245)
T ss_pred HHhCCCCEEEEecCC----CHHHHHHHHHHcCCcEEEeC
Confidence 334569998753321 22344888999999987764
No 183
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=20.42 E-value=1e+02 Score=26.55 Aligned_cols=35 Identities=14% Similarity=0.301 Sum_probs=25.7
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 032090 83 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 83 ~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
++-|++||++|.... .-.+..+.|+++||++.+.+
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 356899999997642 33456677788899888866
No 184
>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=20.41 E-value=34 Score=27.48 Aligned_cols=27 Identities=15% Similarity=0.441 Sum_probs=0.0
Q ss_pred CCCCCCHHHHHHHHHcCCeEEEeChHH
Q 032090 95 YIEPVNPELRQFIRSTGMKLEAIDSRN 121 (147)
Q Consensus 95 ~~~~l~~~l~~~l~~~GI~vEvM~T~a 121 (147)
....+|+++.+|++++||.|.=|+...
T Consensus 95 ~k~~lp~dVi~Ym~~ngI~VdG~si~~ 121 (188)
T PF03433_consen 95 AKAPLPDDVIDYMRDNGIKVDGKSIDD 121 (188)
T ss_dssp ---------------------------
T ss_pred ccccCCHHHHHHHHHcCCeecCeeccc
Confidence 356899999999999999997766544
No 185
>PHA02517 putative transposase OrfB; Reviewed
Probab=20.40 E-value=3.2e+02 Score=21.79 Aligned_cols=94 Identities=16% Similarity=0.162 Sum_probs=52.1
Q ss_pred eCCcEEEc-CEEEeeeEE-EeCCceecCCCCCC--CCCChhhhhchhhhcCCCcEEEEeecCCCCCCCHHHHHHHHHcCC
Q 032090 37 TDTGFTVN-GVQYEGSLL-CIGNLLLSWTPKKF--SEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGM 112 (147)
Q Consensus 37 ~~g~f~In-g~~y~gsvi-v~p~~v~~W~~~~~--~~l~~e~l~~l~~l~~~pEvlIIGTG~~~~~l~~~l~~~l~~~GI 112 (147)
|.-.|... |..|-..++ ++...+..|..... .++..+.|.....-.+.|..+++=|-....+.+....+++.+.||
T Consensus 116 D~t~~~~~~g~~yl~~iiD~~sr~i~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~i~~sD~G~~y~s~~~~~~~~~~gi 195 (277)
T PHA02517 116 DFTYVSTWQGWVYVAFIIDVFARRIVGWRVSSSMDTDFVLDALEQALWARGRPGGLIHHSDKGSQYVSLAYTQRLKEAGI 195 (277)
T ss_pred ceeEEEeCCCCEEEEEecccCCCeeeecccCCCCChHHHHHHHHHHHHhcCCCcCcEeecccccccchHHHHHHHHHcCc
Confidence 33444443 555543333 33566778876432 222233333211112356656665766678899999999999999
Q ss_pred eEEEeCh-----HHHHHHHHhhh
Q 032090 113 KLEAIDS-----RNAASTYNILN 130 (147)
Q Consensus 113 ~vEvM~T-----~aAcrTyNiL~ 130 (147)
....... -+.++.||-.+
T Consensus 196 ~~~~~~~~~P~~N~~iEr~~~tl 218 (277)
T PHA02517 196 RASTGSRGDSYDNAPAESINGLY 218 (277)
T ss_pred ccccCCCCCCCCccccchhHhhh
Confidence 8775322 23455555443
No 186
>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=20.38 E-value=1.7e+02 Score=19.61 Aligned_cols=34 Identities=12% Similarity=0.202 Sum_probs=26.0
Q ss_pred cEEEEeecC---CCCCCCHHHHHHHHHcCCeEEEeCh
Q 032090 86 EILILGCGR---YIEPVNPELRQFIRSTGMKLEAIDS 119 (147)
Q Consensus 86 EvlIIGTG~---~~~~l~~~l~~~l~~~GI~vEvM~T 119 (147)
.++|+..|. ........++++|.++||.++..+.
T Consensus 9 ~vvvf~k~~~~~~~Cp~C~~ak~~L~~~~i~y~~idv 45 (90)
T cd03028 9 PVVLFMKGTPEEPRCGFSRKVVQILNQLGVDFGTFDI 45 (90)
T ss_pred CEEEEEcCCCCCCCCcHHHHHHHHHHHcCCCeEEEEc
Confidence 678886653 2456677999999999999888653
No 187
>PF14106 DUF4279: Domain of unknown function (DUF4279)
Probab=20.23 E-value=1.9e+02 Score=20.08 Aligned_cols=18 Identities=22% Similarity=0.678 Sum_probs=16.6
Q ss_pred CCHHHHHHHHHcCCeEEE
Q 032090 99 VNPELRQFIRSTGMKLEA 116 (147)
Q Consensus 99 l~~~l~~~l~~~GI~vEv 116 (147)
+++++.++|.+.|+.+++
T Consensus 101 l~~~~i~~l~~lg~eidi 118 (118)
T PF14106_consen 101 LSPEIIKFLAALGAEIDI 118 (118)
T ss_pred cCHHHHHHHHhhCCEEeC
Confidence 999999999999999874
No 188
>TIGR01988 Ubi-OHases Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family. This model represents a family of FAD-dependent hydroxylases (monooxygenases) which are all believed to act in the aerobic ubiquinone biosynthesis pathway. A separate set of hydroxylases, as yet undiscovered, are believed to be active under anaerobic conditions. In E. coli three enzyme activities have been described, UbiB (which acts first at position 6, see TIGR01982), UbiH (which acts at position 4, ) and UbiF (which acts at position 5). UbiH and UbiF are similar to one another and form the basis of this subfamily. Interestingly, E. coli contains another hydroxylase gene, called visC, that is highly similar to UbiF, adjacent to UbiH and, when mutated, results in a phenotype similar to that of UbiH (which has also been named visB). Several other species appear to have three homologs in this family, although they assort themselves differently on phylogenetic trees (e.g. Xylella and Mesorhizobium) maki
Probab=20.23 E-value=83 Score=25.87 Aligned_cols=15 Identities=7% Similarity=0.279 Sum_probs=8.0
Q ss_pred CCCHHHHHHHHHcCC
Q 032090 98 PVNPELRQFIRSTGM 112 (147)
Q Consensus 98 ~l~~~l~~~l~~~GI 112 (147)
.+++...+.|++.|+
T Consensus 47 ~l~~~~~~~l~~lGl 61 (385)
T TIGR01988 47 ALSAASIRLLEKLGV 61 (385)
T ss_pred ecCHHHHHHHHHCCc
Confidence 345555555555554
No 189
>COG1791 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=20.15 E-value=1.2e+02 Score=24.20 Aligned_cols=65 Identities=15% Similarity=0.253 Sum_probs=41.5
Q ss_pred CCCCCCCeeeEeCCcEEEc---CEEE-----eeeEEEeCCceecCCCCCCCCCCh-hhhhchhhhcCCCcEEEEeecCC
Q 032090 26 APNQPLPSLRYTDTGFTVN---GVQY-----EGSLLCIGNLLLSWTPKKFSEITP-NCLSIFQLVRPIPEILILGCGRY 95 (147)
Q Consensus 26 ~~~~~~~~~~Y~~g~f~In---g~~y-----~gsviv~p~~v~~W~~~~~~~l~~-e~l~~l~~l~~~pEvlIIGTG~~ 95 (147)
|.++++.-.-+|.|.|.+. |..| .|++|..|.++..|-- ++. ..+..+.+....+-=+-+=||..
T Consensus 93 H~d~EvRy~vaG~GiF~v~~~d~~~~~i~c~~gDLI~vP~gi~HwFt-----lt~~~~f~AvRlF~~~~gWVa~ytg~d 166 (181)
T COG1791 93 HTDDEVRYFVAGEGIFDVHSPDGKVYQIRCEKGDLISVPPGIYHWFT-----LTESPNFKAVRLFTEPEGWVAIYTGDD 166 (181)
T ss_pred cCCceEEEEEecceEEEEECCCCcEEEEEEccCCEEecCCCceEEEE-----ccCCCcEEEEEEeeCCCCceeeecCch
Confidence 6677777777999999984 4544 3889988999988842 222 22333333344455666667764
No 190
>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=20.15 E-value=1.5e+02 Score=18.44 Aligned_cols=32 Identities=13% Similarity=0.242 Sum_probs=21.7
Q ss_pred EEEEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 032090 87 ILILGCGRY-IEPVNPELRQFIRSTGMKLEAID 118 (147)
Q Consensus 87 vlIIGTG~~-~~~l~~~l~~~l~~~GI~vEvM~ 118 (147)
+=++|.|-. ..-+..++.+.|.+.||.+....
T Consensus 4 isvvG~~~~~~~gi~~~if~aL~~~~I~v~~~~ 36 (64)
T cd04937 4 VTIIGSRIRGVPGVMAKIVGALSKEGIEILQTA 36 (64)
T ss_pred EEEECCCccCCcCHHHHHHHHHHHCCCCEEEEE
Confidence 346777765 33455677788888888886544
No 191
>COG4143 TbpA ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]
Probab=20.11 E-value=1.3e+02 Score=26.18 Aligned_cols=51 Identities=16% Similarity=0.127 Sum_probs=39.4
Q ss_pred EEEEeecCCC---CCCCHHHHHHHHH-cCCeEEEeChHHHHHHHHhhhhccceeE
Q 032090 87 ILILGCGRYI---EPVNPELRQFIRS-TGMKLEAIDSRNAASTYNILNEEGRIVA 137 (147)
Q Consensus 87 vlIIGTG~~~---~~l~~~l~~~l~~-~GI~vEvM~T~aAcrTyNiL~sEGR~Va 137 (147)
-|-++|=.+. .-+-|++++.|.+ .++.|++..-+.+.+.+|.|.-||..--
T Consensus 27 ~LtVytydSF~~ewg~Gp~vk~~FE~~~~~~v~fV~~~d~v~llnRl~leg~~~~ 81 (336)
T COG4143 27 TLTVYTYDSFASEWGPGPKVKKAFEAEYGCKVNFVALGDGVELLNRLILEGKNPK 81 (336)
T ss_pred eEEEEEEeeeecccCCcHHHHHHHHHHhCceEEEEEcCcHHHHHHHHHHcCCCCC
Confidence 4455554441 3466788887765 8999999999999999999999998543
No 192
>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=20.09 E-value=1.5e+02 Score=17.97 Aligned_cols=22 Identities=9% Similarity=0.302 Sum_probs=17.3
Q ss_pred CCHHHHHHHHHcCCeEEEeChH
Q 032090 99 VNPELRQFIRSTGMKLEAIDSR 120 (147)
Q Consensus 99 l~~~l~~~l~~~GI~vEvM~T~ 120 (147)
...++.+.|.+.||.++.+.|.
T Consensus 16 ~~~~if~~l~~~~i~v~~i~t~ 37 (62)
T cd04890 16 FLRKIFEILEKHGISVDLIPTS 37 (62)
T ss_pred HHHHHHHHHHHcCCeEEEEecC
Confidence 4467788888999999988763
Done!