Query 030786
Match_columns 171
No_of_seqs 152 out of 529
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 04:33:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030786.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030786hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3363 Uncharacterized conser 100.0 3.9E-48 8.4E-53 307.7 13.4 168 3-171 6-176 (196)
2 cd05125 Mth938_2P1-like Mth938 100.0 1.2E-41 2.7E-46 257.5 13.9 114 55-168 1-114 (114)
3 cd00248 Mth938-like Mth938-lik 100.0 9.8E-41 2.1E-45 250.1 13.3 109 56-165 1-109 (109)
4 PF04430 DUF498: Protein of un 100.0 1.8E-40 3.8E-45 248.3 10.9 109 57-165 1-110 (110)
5 cd05560 Xcc1710_like Xcc1710_l 100.0 5.8E-40 1.3E-44 246.2 13.6 108 56-165 1-109 (109)
6 cd05126 Mth938 Mth938 domain. 100.0 5E-37 1.1E-41 233.2 12.5 108 56-165 1-116 (117)
7 COG3737 Uncharacterized conser 100.0 5.4E-38 1.2E-42 237.8 6.1 121 46-166 7-127 (127)
8 COG1504 Uncharacterized conser 99.7 2.3E-17 4.9E-22 124.2 9.3 107 56-165 3-118 (121)
9 PF05499 DMAP1: DNA methyltran 81.4 1.2 2.6E-05 36.4 2.3 31 126-156 109-139 (176)
10 COG4408 Uncharacterized protei 72.3 3.9 8.5E-05 37.1 3.2 28 125-152 185-212 (431)
11 COG4081 Uncharacterized protei 70.0 6.6 0.00014 31.0 3.6 41 111-151 6-48 (148)
12 PF10100 DUF2338: Uncharacteri 67.8 6.3 0.00014 36.3 3.6 28 125-152 183-210 (429)
13 COG1440 CelA Phosphotransferas 64.3 4.3 9.2E-05 30.5 1.5 36 107-144 47-82 (102)
14 PF02780 Transketolase_C: Tran 64.1 3.5 7.6E-05 30.5 1.1 55 104-159 5-71 (124)
15 PF15603 Imm45: Immunity prote 60.9 49 0.0011 23.7 6.5 46 74-140 35-81 (82)
16 PF12500 TRSP: TRSP domain C t 60.8 6.8 0.00015 31.3 2.2 36 107-143 56-91 (155)
17 COG2333 ComEC Predicted hydrol 60.2 15 0.00033 32.1 4.5 45 96-142 221-267 (293)
18 TIGR03868 F420-O_ABCperi propo 58.3 12 0.00026 31.1 3.4 38 104-141 74-111 (287)
19 TIGR03035 trp_arylform arylfor 56.1 31 0.00068 28.1 5.5 51 92-144 86-145 (206)
20 PF02441 Flavoprotein: Flavopr 55.1 20 0.00044 26.7 3.9 44 111-154 3-46 (129)
21 cd01141 TroA_d Periplasmic bin 54.7 24 0.00052 27.3 4.4 35 104-142 65-99 (186)
22 TIGR00288 conserved hypothetic 53.8 14 0.0003 29.7 2.9 58 93-156 92-158 (160)
23 PF10087 DUF2325: Uncharacteri 53.0 27 0.0006 24.8 4.1 48 107-154 47-94 (97)
24 TIGR01276 thiB thiamine ABC tr 52.2 36 0.00078 28.5 5.4 51 108-158 1-54 (309)
25 cd01321 ADGF Adenosine deamina 52.1 15 0.00033 32.4 3.2 33 114-147 226-258 (345)
26 PF09001 DUF1890: Domain of un 50.7 11 0.00024 29.7 1.9 42 111-152 1-44 (139)
27 PRK14048 ferrichrome/ferrioxam 48.9 28 0.00061 30.4 4.4 40 104-143 117-156 (374)
28 PF12641 Flavodoxin_3: Flavodo 47.7 91 0.002 24.6 6.7 62 107-168 38-110 (160)
29 cd05565 PTS_IIB_lactose PTS_II 47.3 11 0.00025 27.6 1.4 33 111-143 4-36 (99)
30 TIGR01431 adm_rel adenosine de 46.2 20 0.00044 33.3 3.1 33 115-148 353-385 (479)
31 PF02254 TrkA_N: TrkA-N domain 45.3 29 0.00062 24.6 3.3 31 111-145 1-31 (116)
32 PF07905 PucR: Purine cataboli 44.1 44 0.00095 24.8 4.2 38 106-143 70-107 (123)
33 COG0117 RibD Pyrimidine deamin 43.9 66 0.0014 25.6 5.3 49 104-152 91-139 (146)
34 PRK14719 bifunctional RNAse/5- 41.8 71 0.0015 28.7 5.8 46 105-152 63-111 (360)
35 cd05565 PTS_IIB_lactose PTS_II 41.6 19 0.00041 26.5 1.8 37 106-144 45-81 (99)
36 cd01143 YvrC Periplasmic bindi 41.4 55 0.0012 25.1 4.5 34 105-143 57-90 (195)
37 PTZ00124 adenosine deaminase; 41.2 28 0.00061 31.1 3.2 32 114-146 250-281 (362)
38 COG1878 Kynurenine formamidase 40.7 51 0.0011 27.6 4.5 71 93-164 92-181 (218)
39 cd00860 ThrRS_anticodon ThrRS 40.2 61 0.0013 21.7 4.2 44 109-152 2-46 (91)
40 PF00962 A_deaminase: Adenosin 40.1 22 0.00049 30.3 2.3 33 114-147 221-253 (331)
41 TIGR00365 monothiol glutaredox 39.8 63 0.0014 23.1 4.3 46 109-154 12-60 (97)
42 CHL00144 odpB pyruvate dehydro 39.0 19 0.00041 31.6 1.7 39 104-143 197-235 (327)
43 KOG0523 Transketolase [Carbohy 38.7 19 0.00041 34.7 1.8 44 106-151 503-546 (632)
44 PF14639 YqgF: Holliday-juncti 38.6 12 0.00025 29.5 0.3 40 106-145 61-108 (150)
45 PF03345 DDOST_48kD: Oligosacc 38.0 92 0.002 28.7 6.0 78 54-140 27-106 (423)
46 PLN02683 pyruvate dehydrogenas 37.4 17 0.00037 32.4 1.2 39 104-143 224-262 (356)
47 cd01148 TroA_a Metal binding p 36.3 90 0.002 25.7 5.3 39 104-142 75-113 (284)
48 cd05564 PTS_IIB_chitobiose_lic 36.1 20 0.00044 25.7 1.2 33 111-143 3-35 (96)
49 TIGR03840 TMPT_Se_Te thiopurin 35.9 55 0.0012 26.8 3.9 39 106-150 33-72 (213)
50 PTZ00182 3-methyl-2-oxobutanat 35.7 22 0.00049 31.6 1.7 39 104-143 229-267 (355)
51 PRK03379 vitamin B12-transport 35.5 91 0.002 25.8 5.2 36 104-143 68-103 (260)
52 TIGR00421 ubiX_pad polyprenyl 35.4 25 0.00055 28.3 1.8 41 111-151 2-42 (181)
53 TIGR00232 tktlase_bact transke 35.1 27 0.00059 33.6 2.2 39 106-145 538-576 (653)
54 TIGR00361 ComEC_Rec2 DNA inter 35.0 55 0.0012 31.4 4.3 37 101-139 618-656 (662)
55 COG0615 TagD Cytidylyltransfer 34.9 71 0.0015 25.2 4.2 45 107-153 85-134 (140)
56 cd05013 SIS_RpiR RpiR-like pro 34.5 1E+02 0.0022 21.8 4.8 45 103-148 8-52 (139)
57 cd00859 HisRS_anticodon HisRS 34.0 31 0.00067 22.6 1.8 35 109-143 2-36 (91)
58 COG4015 Predicted dinucleotide 33.9 80 0.0017 26.1 4.4 61 73-133 133-200 (217)
59 COG0680 HyaD Ni,Fe-hydrogenase 33.9 84 0.0018 24.9 4.5 50 110-159 3-58 (160)
60 cd00636 TroA-like Helical back 33.4 87 0.0019 21.8 4.2 43 91-143 49-91 (148)
61 PRK00994 F420-dependent methyl 33.4 1.2E+02 0.0027 26.3 5.6 68 90-157 39-109 (277)
62 PRK05899 transketolase; Review 33.4 23 0.0005 33.6 1.4 38 105-143 507-544 (624)
63 PHA02588 cd deoxycytidylate de 33.3 1.3E+02 0.0028 23.9 5.6 43 107-152 121-163 (168)
64 cd04922 ACT_AKi-HSDH-ThrA_2 AC 33.3 58 0.0013 20.5 3.0 30 113-142 6-36 (66)
65 PRK11539 ComEC family competen 32.6 64 0.0014 31.5 4.4 31 108-138 681-713 (755)
66 TIGR01833 HMG-CoA-S_euk 3-hydr 32.4 57 0.0012 30.2 3.8 43 108-150 71-117 (454)
67 COG4012 Uncharacterized protei 32.3 59 0.0013 28.8 3.6 46 103-151 43-88 (342)
68 PF04407 DUF531: Protein of un 32.1 1.1E+02 0.0024 24.9 4.9 51 91-144 104-160 (173)
69 cd04915 ACT_AK-Ectoine_2 ACT d 31.9 48 0.001 21.9 2.4 33 111-143 5-37 (66)
70 TIGR00853 pts-lac PTS system, 31.8 23 0.00051 25.5 1.0 34 111-144 7-40 (95)
71 PRK10329 glutaredoxin-like pro 31.5 50 0.0011 22.8 2.6 38 121-158 11-48 (81)
72 PRK12754 transketolase; Review 31.5 24 0.00053 34.1 1.3 36 108-144 549-584 (663)
73 PTZ00363 rab-GDP dissociation 31.5 47 0.001 30.4 3.1 41 107-151 3-47 (443)
74 PF02579 Nitro_FeMo-Co: Dinitr 31.4 1.4E+02 0.003 20.2 4.9 38 107-150 52-92 (94)
75 PRK10310 PTS system galactitol 31.4 25 0.00053 25.2 1.0 32 111-142 6-38 (94)
76 cd04924 ACT_AK-Arch_2 ACT doma 30.9 69 0.0015 20.0 3.0 30 113-142 6-36 (66)
77 PF12724 Flavodoxin_5: Flavodo 30.9 50 0.0011 24.9 2.7 26 108-133 43-68 (143)
78 TIGR01421 gluta_reduc_1 glutat 30.8 2E+02 0.0043 25.9 7.0 75 61-141 117-195 (450)
79 TIGR01527 arch_NMN_Atrans nico 30.8 80 0.0017 25.1 4.0 54 104-169 87-147 (165)
80 PRK09590 celB cellobiose phosp 30.6 25 0.00054 26.0 0.9 34 111-144 5-38 (104)
81 PRK05261 putative phosphoketol 30.4 38 0.00083 33.7 2.4 36 108-143 613-650 (785)
82 cd01139 TroA_f Periplasmic bin 30.3 81 0.0018 26.9 4.2 39 105-143 88-126 (342)
83 TIGR00090 iojap_ybeB iojap-lik 30.2 28 0.00061 25.3 1.2 31 107-137 27-60 (99)
84 COG2358 Imp TRAP-type uncharac 29.6 99 0.0021 27.5 4.7 51 107-158 23-78 (321)
85 PLN02577 hydroxymethylglutaryl 29.4 95 0.0021 28.8 4.7 44 108-151 74-121 (459)
86 PRK00945 acetyl-CoA decarbonyl 29.2 88 0.0019 25.3 4.0 52 89-142 17-70 (171)
87 cd00858 GlyRS_anticodon GlyRS 28.6 85 0.0018 23.0 3.6 49 109-157 27-77 (121)
88 PF08459 UvrC_HhH_N: UvrC Heli 28.4 35 0.00075 27.2 1.5 81 55-142 12-110 (155)
89 TIGR02964 xanthine_xdhC xanthi 27.9 49 0.0011 27.9 2.4 39 104-146 96-134 (246)
90 PRK12753 transketolase; Review 27.9 32 0.0007 33.2 1.4 35 108-143 549-583 (663)
91 TIGR02113 coaC_strep phosphopa 27.8 37 0.00081 27.2 1.6 41 111-151 3-43 (177)
92 PRK09212 pyruvate dehydrogenas 27.6 33 0.00071 30.0 1.3 39 104-143 197-235 (327)
93 TIGR00113 queA S-adenosylmethi 27.4 1.5E+02 0.0033 26.6 5.5 43 121-163 184-254 (344)
94 PF09383 NIL: NIL domain; Int 27.4 60 0.0013 21.8 2.4 17 125-141 60-76 (76)
95 PF01497 Peripla_BP_2: Peripla 27.4 2.1E+02 0.0046 22.3 5.9 35 106-144 58-92 (238)
96 TIGR00762 DegV EDD domain prot 27.2 79 0.0017 26.7 3.6 93 64-156 27-127 (275)
97 cd04911 ACT_AKiii-YclM-BS_1 AC 27.2 56 0.0012 23.0 2.2 20 125-144 19-38 (76)
98 PRK01424 S-adenosylmethionine: 27.0 1.6E+02 0.0035 26.8 5.5 43 121-163 205-275 (366)
99 PF04252 RNA_Me_trans: Predict 26.6 1.9E+02 0.004 24.1 5.5 68 82-156 64-138 (196)
100 PLN02807 diaminohydroxyphospho 26.6 1.5E+02 0.0032 26.8 5.3 60 104-163 117-180 (380)
101 cd04919 ACT_AK-Hom3_2 ACT doma 26.4 1.1E+02 0.0024 19.2 3.5 31 112-142 5-36 (66)
102 KOG0291 WD40-repeat-containing 25.8 1.1E+02 0.0024 30.6 4.6 81 38-119 347-457 (893)
103 PF03129 HGTP_anticodon: Antic 25.6 37 0.00081 23.3 1.1 32 111-142 2-36 (94)
104 COG0796 MurI Glutamate racemas 25.6 52 0.0011 28.6 2.2 37 106-146 175-211 (269)
105 cd00443 ADA_AMPD Adenosine/AMP 25.4 69 0.0015 27.5 2.9 33 114-147 194-226 (305)
106 TIGR02194 GlrX_NrdH Glutaredox 25.3 87 0.0019 20.5 2.8 37 122-158 10-46 (72)
107 PRK00558 uvrC excinuclease ABC 25.1 2E+02 0.0043 27.6 6.1 85 53-144 382-484 (598)
108 PRK06116 glutathione reductase 24.8 3.7E+02 0.0081 23.9 7.6 76 61-142 119-197 (450)
109 TIGR03855 NAD_NadX aspartate d 24.6 1.8E+02 0.0039 24.3 5.2 53 105-160 34-92 (229)
110 COG1993 PII-like signaling pro 24.6 68 0.0015 24.4 2.3 44 113-156 46-89 (109)
111 PRK04148 hypothetical protein; 24.5 1.3E+02 0.0028 23.4 4.0 31 110-145 19-49 (134)
112 PRK00147 queA S-adenosylmethio 24.4 1.8E+02 0.004 26.1 5.5 43 121-163 183-253 (342)
113 PRK12571 1-deoxy-D-xylulose-5- 24.3 41 0.0009 32.3 1.4 40 104-144 500-539 (641)
114 cd04923 ACT_AK-LysC-DapG-like_ 24.0 99 0.0021 18.9 2.8 31 113-143 5-36 (63)
115 PLN02790 transketolase 23.4 50 0.0011 31.8 1.8 35 109-144 541-575 (654)
116 PF02547 Queuosine_synth: Queu 23.4 1.2E+02 0.0026 27.3 4.1 43 121-163 183-253 (341)
117 cd00165 S4 S4/Hsp/ tRNA synthe 23.3 1.5E+02 0.0033 18.0 3.6 27 61-87 24-51 (70)
118 COG3414 SgaB Phosphotransferas 23.3 43 0.00094 24.4 1.1 31 112-142 6-39 (93)
119 TIGR00204 dxs 1-deoxy-D-xylulo 22.9 49 0.0011 31.6 1.6 39 104-143 491-529 (617)
120 PRK09534 btuF corrinoid ABC tr 22.9 1.5E+02 0.0033 26.0 4.6 34 104-142 115-148 (359)
121 PRK07313 phosphopantothenoylcy 22.8 59 0.0013 26.2 1.9 42 111-152 4-45 (182)
122 PF04199 Cyclase: Putative cyc 22.7 56 0.0012 25.3 1.7 65 80-144 80-165 (171)
123 TIGR03659 IsdE heme ABC transp 22.7 2E+02 0.0043 24.0 5.1 35 104-143 87-121 (289)
124 PRK11892 pyruvate dehydrogenas 22.7 45 0.00097 30.9 1.3 39 104-143 336-374 (464)
125 cd04916 ACT_AKiii-YclM-BS_2 AC 22.6 1.1E+02 0.0023 19.1 2.8 31 113-143 6-37 (66)
126 cd00738 HGTP_anticodon HGTP an 22.5 1.4E+02 0.0031 19.8 3.6 35 109-143 2-39 (94)
127 PF10865 DUF2703: Domain of un 22.3 22 0.00048 27.2 -0.7 36 115-150 20-59 (120)
128 cd00562 NifX_NifB This CD repr 22.2 2.1E+02 0.0046 19.5 4.5 39 106-150 59-101 (102)
129 cd01149 HutB Hemin binding pro 22.0 1.9E+02 0.004 23.1 4.7 35 104-142 54-88 (235)
130 PLN02781 Probable caffeoyl-CoA 21.8 73 0.0016 26.4 2.3 62 107-168 143-224 (234)
131 cd01147 HemV-2 Metal binding p 21.7 1.5E+02 0.0032 23.8 4.1 36 104-143 70-106 (262)
132 cd00851 MTH1175 This uncharact 21.6 2.2E+02 0.0048 19.5 4.5 32 106-143 61-92 (103)
133 cd05005 SIS_PHI Hexulose-6-pho 21.4 88 0.0019 24.3 2.6 52 91-143 15-67 (179)
134 cd04912 ACT_AKiii-LysC-EC-like 21.1 1.1E+02 0.0024 20.5 2.7 31 113-143 6-37 (75)
135 cd02064 FAD_synthetase_N FAD s 20.7 2.4E+02 0.0052 22.2 5.0 52 91-143 82-138 (180)
136 COG0021 TktA Transketolase [Ca 20.6 59 0.0013 31.8 1.6 36 108-144 548-583 (663)
137 PRK05920 aromatic acid decarbo 20.5 95 0.0021 25.7 2.7 43 111-153 6-48 (204)
138 cd04892 ACT_AK-like_2 ACT doma 20.4 1.4E+02 0.0029 18.0 2.9 31 113-143 5-36 (65)
139 COG2875 CobM Precorrin-4 methy 20.3 1.1E+02 0.0024 26.5 3.0 88 64-151 17-123 (254)
140 cd06063 H2MP_Cyano-H2up This g 20.2 1.6E+02 0.0034 22.5 3.7 40 111-150 1-45 (146)
141 COG0674 PorA Pyruvate:ferredox 20.2 93 0.002 27.8 2.7 35 107-141 255-289 (365)
142 cd06167 LabA_like LabA_like pr 20.1 2.1E+02 0.0046 21.1 4.4 35 107-144 98-132 (149)
143 PF08774 VRR_NUC: VRR-NUC doma 20.1 2.6E+02 0.0055 19.6 4.6 38 106-143 46-98 (100)
144 COG2247 LytB Putative cell wal 20.0 2.1E+02 0.0045 25.8 4.8 58 93-154 62-123 (337)
145 PF05225 HTH_psq: helix-turn-h 20.0 58 0.0013 20.3 1.0 14 141-154 17-30 (45)
No 1
>KOG3363 consensus Uncharacterized conserved nuclear protein [Function unknown]
Probab=100.00 E-value=3.9e-48 Score=307.74 Aligned_cols=168 Identities=55% Similarity=0.916 Sum_probs=157.7
Q ss_pred chhhhhhhhHHHHHHHhcCCCCCCCCCCCCccccccccccccccccCCCCCcceEEEEcCCeE-EECCEEEeecEEEeCC
Q 030786 3 VRQRAVTTLPNLMRSLRKGSPKAAPNQPLPSLRRAFSLYDQINLIDNVPEDQLRFQGYTDTGF-TVNGVQYEGSLLCIGN 81 (171)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~I~~y~~g~f-~Ing~~y~gsvii~p~ 81 (171)
.|-...+++|+|+|++|++.+++ ...-+||++|+|++|++||++++.+++++.++||+..+| .+||+.|.|++.|+|+
T Consensus 6 lr~~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 6 LRALGMQTLPKLLQSMRAERPLH-GYPVNPSLRRDFSLYDQINLIDTEPEDQLRVQGYSCYGFRLVNGVKLEGPILCFPN 84 (196)
T ss_pred HHHHhHhhHHHHHHHHhhccccc-cccCChhhhhcccccceeeeecCCchhhheeeeecccceEeecCeEEEecceeccc
Confidence 44555689999999999998874 888999999999999999999999999999999995555 5689999999999999
Q ss_pred ceeecCCCCCCCCChhhhhhhhhhCCCCcEEEEeecCCCCC--CCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccce
Q 030786 82 LLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEP--VNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRI 159 (171)
Q Consensus 82 ~v~~W~~~~~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~--l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL~sEGR~ 159 (171)
.+++|.+.+++||+.++|++|..++|+||+||+|+|.+... +.++++++++++||++|+|||++||.|||+|++|||.
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 99999999999999999999999999999999999999776 9999999999999999999999999999999999999
Q ss_pred eEEEeccCccCC
Q 030786 160 VAAALLPYGVSS 171 (171)
Q Consensus 160 VaAALip~~~~~ 171 (171)
|||||+|++|.|
T Consensus 165 VaaAL~Pp~v~s 176 (196)
T KOG3363|consen 165 VAAALLPPGVTS 176 (196)
T ss_pred EEEEecCCcccc
Confidence 999999999875
No 2
>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=1.2e-41 Score=257.50 Aligned_cols=114 Identities=42% Similarity=0.779 Sum_probs=111.1
Q ss_pred ceEEEEcCCeEEECCEEEeecEEEeCCceeecCCCCCCCCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHc
Q 030786 55 LRFQGYTDTGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRST 134 (171)
Q Consensus 55 ~~I~~y~~g~f~Ing~~y~gsvii~p~~v~~W~~~~~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~ 134 (171)
+.|++|++++|+|||+.|.||++++|+.+++|+++++++++.+||+.|..++|+||+||||||+++++++|+++++|+++
T Consensus 1 ~~I~~y~~~~f~in~~~~~gs~iv~p~~~~~W~~~~~~~l~~~~l~~l~~~~~~peiliiGtG~~~~~~~~~~~~~l~~~ 80 (114)
T cd05125 1 NYIDAYSENGFRLNNNKVIGSGAILPKEVFSWNVSSFEDITEESLSLFELLEPRPEILVIGTGRKSRPLSPELRKYFKKL 80 (114)
T ss_pred CeEEeECCCeEEECCEEEEEeEEEccCceeccCCCChhhCCHHHHHHHHhccCCCCEEEEccCCCCCcCCHHHHHHHHHc
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCeEEEeChHHHHHHHHHhhhccceeEEEeccCc
Q 030786 135 GMKLEAIDSRNAASTYNILNEEGRIVAAALLPYG 168 (171)
Q Consensus 135 GI~vEvMdT~aAcrTyNiL~sEGR~VaAALip~~ 168 (171)
||++|+|+|++||||||+|++|||+|+|||||++
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 3
>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=9.8e-41 Score=250.14 Aligned_cols=109 Identities=34% Similarity=0.614 Sum_probs=104.0
Q ss_pred eEEEEcCCeEEECCEEEeecEEEeCCceeecCCCCCCCCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 030786 56 RFQGYTDTGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 135 (171)
Q Consensus 56 ~I~~y~~g~f~Ing~~y~gsvii~p~~v~~W~~~~~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~G 135 (171)
.|++|++|+|+|||++|.||++++|+.+++|+++++++++.+||+.+...+ +||+||||||+++++++|+++++|+++|
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 489999999999999999999999999999999999999999999655544 5999999999999999999999999999
Q ss_pred CeEEEeChHHHHHHHHHhhhccceeEEEec
Q 030786 136 MKLEAIDSRNAASTYNILNEEGRIVAAALL 165 (171)
Q Consensus 136 I~vEvMdT~aAcrTyNiL~sEGR~VaAALi 165 (171)
|++|+|||++||||||+|++|||+|+||||
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 4
>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=1.8e-40 Score=248.31 Aligned_cols=109 Identities=40% Similarity=0.706 Sum_probs=101.0
Q ss_pred EEEEcCCeEEECCEEEeecEEEeCCce-eecCCCCCCCCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcC
Q 030786 57 FQGYTDTGFTVNGVQYEGSLLCIGNLL-LSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTG 135 (171)
Q Consensus 57 I~~y~~g~f~Ing~~y~gsvii~p~~v-~~W~~~~~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~G 135 (171)
|++|++|+|+|||++|.||++++|+.+ ++|+.+++++++.++|+.+..+.|+||+||||||+++++++|+++++|+++|
T Consensus 1 I~~y~~g~~~i~g~~~~~~iii~p~~~~~~w~~~~~~~l~~~~l~~l~~~~p~pe~liiGtG~~~~~~~~~~~~~l~~~G 80 (110)
T PF04430_consen 1 ITGYGFGGFVINGKEYEGSIIIFPDGVIRDWKVKSPHDLTPEDLEELLELEPKPEVLIIGTGKRQLFLPPELREYLRKKG 80 (110)
T ss_dssp EEEEETTEEEETTEEESSEEEEETTSEEEEEHHSSTTCEETHHHHHHHCTCCS-SEEEEEETTS-SECTHHHHHHHHTTT
T ss_pred CceEeCCEEEECCEEEccCEEEECCCcccCcCCCCcccCCHHHHHHHHhccCCCcEEEEccCCccccCCHHHHHHHHHcC
Confidence 799999999999999999999999998 8998899999999999988888899999999999999999999999999999
Q ss_pred CeEEEeChHHHHHHHHHhhhccceeEEEec
Q 030786 136 MKLEAIDSRNAASTYNILNEEGRIVAAALL 165 (171)
Q Consensus 136 I~vEvMdT~aAcrTyNiL~sEGR~VaAALi 165 (171)
|++|+|+|++||||||+|++|||+|+|||+
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 5
>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=5.8e-40 Score=246.19 Aligned_cols=108 Identities=32% Similarity=0.534 Sum_probs=102.0
Q ss_pred eEEEEcCCeEEECCEEEeecEEEeCCceee-cCCCCCCCCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHc
Q 030786 56 RFQGYTDTGFTVNGVQYEGSLLCIGNLLLS-WTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRST 134 (171)
Q Consensus 56 ~I~~y~~g~f~Ing~~y~gsvii~p~~v~~-W~~~~~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~ 134 (171)
.|++|++|+|+|||++|.||++++|+.+.. |.++++++++.+||+.+. ..+||+||||||+++.+++|+++++|+++
T Consensus 1 ~I~~y~~g~~~i~g~~y~~sviv~p~~~~~~w~~~~~~~l~~e~l~~l~--~~~peiliiGTG~~~~~~~~~~~~~l~~~ 78 (109)
T cd05560 1 TITAYGDGYVEINDQRYEHSLIVTPDELITDWPVARFEDLTAAHFEALL--ALQPEVILLGTGERQRFPPPALLAPLLAR 78 (109)
T ss_pred CeEeecCCEEEECCEEEecCEEEECCceeeccccCCcccCCHHHHHHHH--hcCCCEEEEecCCCCCcCCHHHHHHHHHc
Confidence 489999999999999999999999998766 999999999999999544 45699999999999999999999999999
Q ss_pred CCeEEEeChHHHHHHHHHhhhccceeEEEec
Q 030786 135 GMKLEAIDSRNAASTYNILNEEGRIVAAALL 165 (171)
Q Consensus 135 GI~vEvMdT~aAcrTyNiL~sEGR~VaAALi 165 (171)
||++|+|+|++||||||+|++|||+|+||||
T Consensus 79 gi~vE~m~T~~AcrTyN~L~~EgR~V~Aali 109 (109)
T cd05560 79 GIGVEVMDTQAACRTYNILMGEGRRVVAALL 109 (109)
T ss_pred CCeEEEECHHHHHHHHHHHHhCCCcEEEEeC
Confidence 9999999999999999999999999999996
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=5e-37 Score=233.18 Aligned_cols=108 Identities=22% Similarity=0.314 Sum_probs=100.6
Q ss_pred eEEEEcCCeEEECCEEEeecEEEeCCceeecCCC-------CCCCCChhhhhhhhhhCCCCcEEEEeecCCCC-CCCHHH
Q 030786 56 RFQGYTDTGFTVNGVQYEGSLLCIGNLLLSWTPK-------KFSEITPNCLSIFQLVRPIPEILILGCGRYIE-PVNPEL 127 (171)
Q Consensus 56 ~I~~y~~g~f~Ing~~y~gsvii~p~~v~~W~~~-------~~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~-~l~p~l 127 (171)
.|++|++|+|+|||++|++|++|.|+++..|+++ ++++++.+||+ ++++.+||+||||||.+++ +++|++
T Consensus 1 ~i~~y~~G~i~i~g~~y~~~viv~p~~~~~w~~~~~s~~~~~~~~l~~~~l~--~ll~~~peivliGTG~~~~~~~~~~~ 78 (117)
T cd05126 1 EIESTSFGSITVGGETYEHDIVVYPDGSRARRWKELSKKTGTSHGLQPEELE--ELLEEGVEVIVIGTGQSGALKVPPET 78 (117)
T ss_pred CcceecCCEEEECCEEEcCCEEEeCCccccccccccccccCCcccCCHHHHH--HHHhcCCCEEEEcCCCCccccCCHHH
Confidence 4899999999999999999999999998888876 88899999998 4566789999999999976 789999
Q ss_pred HHHHHHcCCeEEEeChHHHHHHHHHhhhccceeEEEec
Q 030786 128 RQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALL 165 (171)
Q Consensus 128 ~~~l~~~GI~vEvMdT~aAcrTyNiL~sEGR~VaAALi 165 (171)
+++|+++||++|+|+|++||||||+|++|||+|+|||-
T Consensus 79 ~~~l~~~Gi~ve~m~T~aAcrTYN~L~~EgRrV~Aa~H 116 (117)
T cd05126 79 VEKLEKRGVEVLVLPTEEAVKRYNELAGKGRRVLAVIH 116 (117)
T ss_pred HHHHHhcCCEEEEcChHHHHHHHHHHHhCCCeEEEEEe
Confidence 99999999999999999999999999999999999983
No 7
>COG3737 Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=5.4e-38 Score=237.83 Aligned_cols=121 Identities=29% Similarity=0.481 Sum_probs=112.4
Q ss_pred cccCCCCCcceEEEEcCCeEEECCEEEeecEEEeCCceeecCCCCCCCCChhhhhhhhhhCCCCcEEEEeecCCCCCCCH
Q 030786 46 LIDNVPEDQLRFQGYTDTGFTVNGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNP 125 (171)
Q Consensus 46 ~~~~~~~~~~~I~~y~~g~f~Ing~~y~gsvii~p~~v~~W~~~~~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p 125 (171)
+-++..+++..|++|+.|||++||+.++||++|.|+++..|.+.+.+++++++|+.+....+++|+||||||..++|+|+
T Consensus 7 ~~e~~~Pg~~~~~ayG~Gg~R~a~~sh~~SlL~lpdgv~~W~v~~~~~Lt~e~f~~vl~~a~~~EilliGTG~~~rf~p~ 86 (127)
T COG3737 7 FREAHFPGRAPIDAYGAGGFRFADMSHRGSLLVLPDGVCDWEVATLSDLTPEDFERVLAEAPDVEILLIGTGARLRFPPP 86 (127)
T ss_pred eecCCCCCcchhhhhcCCceEeccccccccEEEecCccccccccChhhCCHHHHHHHHhcCCCceEEEEecCccccCCCH
Confidence 33555577777999999999999999999999999999999999999999999985555567789999999999999999
Q ss_pred HHHHHHHHcCCeEEEeChHHHHHHHHHhhhccceeEEEecc
Q 030786 126 ELRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALLP 166 (171)
Q Consensus 126 ~l~~~l~~~GI~vEvMdT~aAcrTyNiL~sEGR~VaAALip 166 (171)
++++.|+..||++|+|+|++||||||+|++|||+||||||+
T Consensus 87 ~l~aal~~~gIsve~Mst~AA~RTYNvL~sEgRrvAAALi~ 127 (127)
T COG3737 87 KLRAALKAAGISVEPMSTGAAVRTYNVLLSEGRRVAAALIA 127 (127)
T ss_pred HHHHHHHHcCCccccccchhhHHHHHHHHhccHHHHHHhcC
Confidence 99999999999999999999999999999999999999986
No 8
>COG1504 Uncharacterized conserved protein [Function unknown]
Probab=99.73 E-value=2.3e-17 Score=124.16 Aligned_cols=107 Identities=21% Similarity=0.320 Sum_probs=95.0
Q ss_pred eEEEEcCCeEEECCEEEeecEEEeCCce------eecCCC--CCCCCChhhhhhhhhhCCCCcEEEEeecCC-CCCCCHH
Q 030786 56 RFQGYTDTGFTVNGVQYEGSLLCIGNLL------LSWTPK--KFSEITPNCLSIFQLVRPIPEILILGCGRY-IEPVNPE 126 (171)
Q Consensus 56 ~I~~y~~g~f~Ing~~y~gsvii~p~~v------~~W~~~--~~~~l~~e~L~~l~~l~p~PEvLIIGTG~~-~~~l~p~ 126 (171)
.|++|++|+++|.|+.|+.+|+|.|++- ..|+.+ +++.+.+|+++ ++++.+||+||+|||.. ...++++
T Consensus 3 ~ie~~~FG~v~i~Gk~f~~DIvi~~dG~v~rr~K~lskrK~GTSHkl~~eEle--~~lee~~E~ivvGTG~~G~l~l~~e 80 (121)
T COG1504 3 EIESTSFGSVTIGGKDFEHDIVIRPDGKVERREKELSKRKYGTSHKLALEELE--ELLEEGPEVIVVGTGQSGMLELSEE 80 (121)
T ss_pred cccccceeeEEECCEeccccEEEecCCceehhhhhhhhhhcCcccccCHHHHH--HHHhcCCcEEEEecCceeEEEeCHH
Confidence 4889999999999999999999998763 225554 46999999998 46667899999999999 6799999
Q ss_pred HHHHHHHcCCeEEEeChHHHHHHHHHhhhccceeEEEec
Q 030786 127 LRQFIRSTGMKLEAIDSRNAASTYNILNEEGRIVAAALL 165 (171)
Q Consensus 127 l~~~l~~~GI~vEvMdT~aAcrTyNiL~sEGR~VaAALi 165 (171)
.+++|+++|++|...+|+.|...||.|.+. |+|+|++-
T Consensus 81 a~e~~r~k~~~vi~~pT~EAikr~nel~~~-krV~aiiH 118 (121)
T COG1504 81 AREFFRKKGCEVIELPTPEAIKRYNELRGK-KRVAAIIH 118 (121)
T ss_pred HHHHHHhcCCeEEEeCCHHHHHHHHHHhcc-ceEEEEEE
Confidence 999999999999999999999999999999 89988763
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=81.43 E-value=1.2 Score=36.44 Aligned_cols=31 Identities=19% Similarity=0.515 Sum_probs=27.4
Q ss_pred HHHHHHHHcCCeEEEeChHHHHHHHHHhhhc
Q 030786 126 ELRQFIRSTGMKLEAIDSRNAASTYNILNEE 156 (171)
Q Consensus 126 ~l~~~l~~~GI~vEvMdT~aAcrTyNiL~sE 156 (171)
.+-..|.+.||.+..|+|..=|..||-|.++
T Consensus 109 ~iEq~L~elgv~~~PmPTe~Ic~~fneLRsd 139 (176)
T PF05499_consen 109 AIEQFLQELGVDLNPMPTEEICQEFNELRSD 139 (176)
T ss_pred HHHHHHHHcCCCCCCCChHHHHHHHHHHHHH
Confidence 3455789999999999999999999999875
No 10
>COG4408 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.25 E-value=3.9 Score=37.07 Aligned_cols=28 Identities=32% Similarity=0.382 Sum_probs=24.2
Q ss_pred HHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 030786 125 PELRQFIRSTGMKLEAIDSRNAASTYNI 152 (171)
Q Consensus 125 p~l~~~l~~~GI~vEvMdT~aAcrTyNi 152 (171)
..+.+-|+++||.+|+|.|.-|+.|+|+
T Consensus 185 e~l~~v~aq~~I~v~~~esp~~AEtrni 212 (431)
T COG4408 185 EMLTAVLAQHGIDVEPCESPLAAETRNI 212 (431)
T ss_pred HHHHHHHHhcCCceEEcCChhhhhhccc
Confidence 3467778999999999999999988886
No 11
>COG4081 Uncharacterized protein conserved in archaea [Function unknown]
Probab=70.01 E-value=6.6 Score=30.99 Aligned_cols=41 Identities=12% Similarity=0.331 Sum_probs=33.6
Q ss_pred EEEEeecCCCCCCCHHHH--HHHHHcCCeEEEeChHHHHHHHH
Q 030786 111 ILILGCGRYIEPVNPELR--QFIRSTGMKLEAIDSRNAASTYN 151 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~--~~l~~~GI~vEvMdT~aAcrTyN 151 (171)
+|++||-+-..+.|..+. -.++++|..+-+..|++|||..-
T Consensus 6 lv~lGCPeiP~qissaiYls~klkkkgf~v~VaateAa~kLle 48 (148)
T COG4081 6 LVSLGCPEIPPQISSAIYLSHKLKKKGFDVTVAATEAALKLLE 48 (148)
T ss_pred EEEecCCCCCccchHHHHHHHHhhccCccEEEecCHhhheeee
Confidence 678899888777777754 46899999999999999998543
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=67.81 E-value=6.3 Score=36.30 Aligned_cols=28 Identities=29% Similarity=0.471 Sum_probs=23.7
Q ss_pred HHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 030786 125 PELRQFIRSTGMKLEAIDSRNAASTYNI 152 (171)
Q Consensus 125 p~l~~~l~~~GI~vEvMdT~aAcrTyNi 152 (171)
..+.+.+++.||.+++|+++-++++.|+
T Consensus 183 ~~l~~~~~~~gI~~~~~~~pl~AE~rNi 210 (429)
T PF10100_consen 183 DKLCRLLAQLGIQLEVMDNPLEAESRNI 210 (429)
T ss_pred HHHHHHHHHcCCeEEEeCChHhhhhccc
Confidence 4566789999999999999988777775
No 13
>COG1440 CelA Phosphotransferase system cellobiose-specific component IIB [Carbohydrate transport and metabolism]
Probab=64.33 E-value=4.3 Score=30.46 Aligned_cols=36 Identities=19% Similarity=0.355 Sum_probs=31.3
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
.+.|+++||- +..+.-+++.+.+..+||.|++.|+.
T Consensus 47 ~~~DvvLlGP--Qv~y~~~~~~~~~~~~giPV~vI~~~ 82 (102)
T COG1440 47 DNADVVLLGP--QVRYMLKQLKEAAEEKGIPVEVIDML 82 (102)
T ss_pred hcCCEEEECh--HHHHHHHHHHHHhcccCCCeEEeCHH
Confidence 3799999974 56678899999999999999999985
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=64.13 E-value=3.5 Score=30.46 Aligned_cols=55 Identities=22% Similarity=0.266 Sum_probs=38.6
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh-----------HH-HHHHHHHhhhccce
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS-----------RN-AASTYNILNEEGRI 159 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT-----------~a-AcrTyNiL~sEGR~ 159 (171)
.+.+..|++||++|.... .--+..+.|++.||.+++.+. .. +-++..++.-|...
T Consensus 5 ~~~~g~di~iia~G~~~~-~al~A~~~L~~~Gi~~~vi~~~~i~P~d~~~l~~~~~~~~~vvvvee~~ 71 (124)
T PF02780_consen 5 VLREGADITIIAYGSMVE-EALEAAEELEEEGIKAGVIDLRTIKPFDEEALLESLKKTGRVVVVEEHY 71 (124)
T ss_dssp EEESSSSEEEEEETTHHH-HHHHHHHHHHHTTCEEEEEEEEEEESSBHHHHHHHSHHHHHHHHSETCE
T ss_pred EEeCCCCEEEEeehHHHH-HHHHHHHHHHHcCCceeEEeeEEEecccccchHHHHHHhcccccccccc
Confidence 346789999999999753 335677889999999998754 12 34566666555443
No 15
>PF15603 Imm45: Immunity protein 45
Probab=60.92 E-value=49 Score=23.68 Aligned_cols=46 Identities=15% Similarity=0.418 Sum_probs=34.8
Q ss_pred ecEEEeCCceeecCCCCC-CCCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEE
Q 030786 74 GSLLCIGNLLLSWTPKKF-SEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEA 140 (171)
Q Consensus 74 gsvii~p~~v~~W~~~~~-~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEv 140 (171)
++.+++.+.+-.|.+.+- ..|+.++.+ .++ .++.+++.++|+.+++
T Consensus 35 ~~Fvvy~~si~~We~P~e~~~it~~e~q--~II-------------------~aI~~~~~~~~~~v~f 81 (82)
T PF15603_consen 35 GDFVVYKDSIKNWEPPHENEPITIAERQ--KII-------------------EAIEKYFSERGMTVDF 81 (82)
T ss_pred cCEEEEccccccccCCCCCcccCHHHHH--HHH-------------------HHHHHHHhcCceEEEe
Confidence 468888999999998754 468888887 233 3677888888888765
No 16
>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=60.75 E-value=6.8 Score=31.29 Aligned_cols=36 Identities=19% Similarity=0.351 Sum_probs=29.2
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
+.-.+|+||||+- +.++--+.+.|.+.|..|-+.+|
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 4468999999975 45667789999999988888765
No 17
>COG2333 ComEC Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=60.23 E-value=15 Score=32.09 Aligned_cols=45 Identities=20% Similarity=0.411 Sum_probs=34.7
Q ss_pred hhhhhhhhhhCCCCcEEEEeecCC--CCCCCHHHHHHHHHcCCeEEEeC
Q 030786 96 PNCLSIFQLVRPIPEILILGCGRY--IEPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 96 ~e~L~~l~~l~p~PEvLIIGTG~~--~~~l~p~l~~~l~~~GI~vEvMd 142 (171)
..+.+.++.+ +|++.||..|.. ...|+.++.+.+++.+|.+--=|
T Consensus 221 Sss~~Fl~~v--~Pk~AliS~G~~N~yghPh~~Vl~rl~~~~~~v~rTd 267 (293)
T COG2333 221 SSSLAFLEAV--KPKVALISSGRNNRYGHPHQEVLERLQKRGIKVYRTD 267 (293)
T ss_pred cCcHHHHHhc--CCcEEEEEeeccCCCCCCcHHHHHHHHhcCCeEEecC
Confidence 3344555555 489999999996 45899999999999999876543
No 18
>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=58.29 E-value=12 Score=31.06 Aligned_cols=38 Identities=13% Similarity=0.205 Sum_probs=26.8
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 141 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvM 141 (171)
++.-+||+||.+.+.....-.++..+.|++.||.|.+.
T Consensus 74 i~~l~PDlvi~~~~~~~~~~~~~~~~~l~~~gipv~~~ 111 (287)
T TIGR03868 74 VLETEPDLVYAGWESNLTAEGAGERADLASLGVNTYVA 111 (287)
T ss_pred hhcCCCCEEEeccccccCCCCCCCHHHHHHCCCeEEEC
Confidence 34557999998665543333356678899999999875
No 19
>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=56.06 E-value=31 Score=28.06 Aligned_cols=51 Identities=22% Similarity=0.337 Sum_probs=38.7
Q ss_pred CCCChhhhhhhhhhCCCCcEEEEeecCC---------CCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 92 SEITPNCLSIFQLVRPIPEILILGCGRY---------IEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 92 ~~l~~e~L~~l~~l~p~PEvLIIGTG~~---------~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
..++.++++.. .....|+|+|=||.. .--++++..++|.++||.+--+|+.
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 46889998853 234579999999942 2358899999999999887777664
No 20
>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=55.06 E-value=20 Score=26.71 Aligned_cols=44 Identities=18% Similarity=0.180 Sum_probs=36.1
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhh
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILN 154 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL~ 154 (171)
+++.=||.....-.+++.+.|++.|..|.+.=|++|.+..+.-.
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 56677777755558899999999999999999999998887665
No 21
>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=54.68 E-value=24 Score=27.25 Aligned_cols=35 Identities=17% Similarity=0.284 Sum_probs=25.2
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMd 142 (171)
++.-+||++|...+ +.+.++.+.|++.||.+-+++
T Consensus 65 ll~l~PDlii~~~~----~~~~~~~~~l~~~gIpvv~i~ 99 (186)
T cd01141 65 IVALKPDLVILYGG----FQAQTILDKLEQLGIPVLYVN 99 (186)
T ss_pred HhccCCCEEEEecC----CCchhHHHHHHHcCCCEEEeC
Confidence 34567999887433 222368999999999987776
No 22
>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=53.75 E-value=14 Score=29.67 Aligned_cols=58 Identities=17% Similarity=0.203 Sum_probs=41.2
Q ss_pred CCChhhhhhhhhhCCCCcEEEEeecCC-CCCCCHHHHHHHHHcCCeEEEeCh--------HHHHHHHHHhhhc
Q 030786 93 EITPNCLSIFQLVRPIPEILILGCGRY-IEPVNPELRQFIRSTGMKLEAIDS--------RNAASTYNILNEE 156 (171)
Q Consensus 93 ~l~~e~L~~l~~l~p~PEvLIIGTG~~-~~~l~p~l~~~l~~~GI~vEvMdT--------~aAcrTyNiL~sE 156 (171)
++..|-++++ ..++.|.++|-||.. .. .+...++++|..|+++.+ .+||..|=.|.+|
T Consensus 92 ~laIDame~~--~~~~iD~~vLvSgD~DF~----~Lv~~lre~G~~V~v~g~~~~ts~~L~~acd~FI~L~~~ 158 (160)
T TIGR00288 92 RMAVEAMELI--YNPNIDAVALVTRDADFL----PVINKAKENGKETIVIGAEPGFSTALQNSADIAIILGEE 158 (160)
T ss_pred HHHHHHHHHh--ccCCCCEEEEEeccHhHH----HHHHHHHHCCCEEEEEeCCCCChHHHHHhcCeEEeCCCC
Confidence 3455555532 267899999999997 42 477788999999999974 3577776555544
No 23
>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=52.96 E-value=27 Score=24.77 Aligned_cols=48 Identities=13% Similarity=0.094 Sum_probs=41.8
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhh
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILN 154 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL~ 154 (171)
.++|+||+=|+.-.+-....+++..++.||.+-...+...+.-.+.|.
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 468999999999999999999999999999999999887776666553
No 24
>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=52.15 E-value=36 Score=28.52 Aligned_cols=51 Identities=16% Similarity=0.278 Sum_probs=34.4
Q ss_pred CCcEEEEeecCCCCC-C-CHHHHHHH-HHcCCeEEEeChHHHHHHHHHhhhccc
Q 030786 108 IPEILILGCGRYIEP-V-NPELRQFI-RSTGMKLEAIDSRNAASTYNILNEEGR 158 (171)
Q Consensus 108 ~PEvLIIGTG~~~~~-l-~p~l~~~l-~~~GI~vEvMdT~aAcrTyNiL~sEGR 158 (171)
+++++|...+..... . ++.+.+.| ++.||.|+...-..+-..++.|.+|+.
T Consensus 1 ~~~l~vy~~~~~~~~~~~~~~~~~~Fe~~~gi~V~~~~~~s~~~l~~kl~~e~~ 54 (309)
T TIGR01276 1 KPVLTVYTYDSFAADWGPGPVVKKAFEADCNCELKLVALEDGVSLLNRLRLEGK 54 (309)
T ss_pred CCeEEEEEccccccCCCCchHHHHHHHHHHCCEEEEEecCcHHHHHHHHHHcCC
Confidence 367777766555432 2 35676666 456999999876666678888888853
No 25
>cd01321 ADGF Adenosine deaminase-related growth factors (ADGF), a novel family of secreted growth-factors with sequence similarty to adenosine deaminase.
Probab=52.08 E-value=15 Score=32.44 Aligned_cols=33 Identities=18% Similarity=0.365 Sum_probs=26.1
Q ss_pred EeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 030786 114 LGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 147 (171)
Q Consensus 114 IGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAc 147 (171)
||-|-... -+|++.++++++||.+|+.+|.|=.
T Consensus 226 IGHG~~~~-~dp~ll~~l~~~~I~lEvCPtSN~~ 258 (345)
T cd01321 226 IGHGFALP-KHPLLMDLVKKKNIAIEVCPISNQV 258 (345)
T ss_pred CccccccC-cCHHHHHHHHHcCCeEEECcchhhh
Confidence 35555543 3799999999999999999997653
No 26
>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=50.69 E-value=11 Score=29.72 Aligned_cols=42 Identities=14% Similarity=0.318 Sum_probs=28.6
Q ss_pred EEEEeecCCCCCCCHH--HHHHHHHcCCeEEEeChHHHHHHHHH
Q 030786 111 ILILGCGRYIEPVNPE--LRQFIRSTGMKLEAIDSRNAASTYNI 152 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~--l~~~l~~~GI~vEvMdT~aAcrTyNi 152 (171)
++++||-+...+.|-. +...|+++|+.+-+-.|++|++.--+
T Consensus 1 lilLGCPe~Pvq~p~alYl~~~Lk~~G~~v~Va~npAA~kLl~v 44 (139)
T PF09001_consen 1 LILLGCPEVPVQTPSALYLSYKLKKKGFEVVVAGNPAALKLLEV 44 (139)
T ss_dssp EEE---S-STTHHHHHHHHHHHHHCTTEEEEEEE-HHHHHHHHH
T ss_pred CccccCCCCcchhHHHHHHHHHHHhcCCeEEEecCHHHHhHhhh
Confidence 5789998876555555 45579999999999999999986544
No 27
>PRK14048 ferrichrome/ferrioxamine B periplasmic transporter; Provisional
Probab=48.92 E-value=28 Score=30.42 Aligned_cols=40 Identities=13% Similarity=0.191 Sum_probs=27.3
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
++.-+||+||...+.....-..+..+.|++.||.+-++++
T Consensus 117 Ilal~PDLVi~~~~~~~~~~~~~~~~~L~~~Gipvv~~~~ 156 (374)
T PRK14048 117 ILTLKADLAILANWQADTEAGQRAIEYLESIGVPVIVVDF 156 (374)
T ss_pred HhhcCCCEEEecCcccccccchhHHHHHHHCCCCEEEEeC
Confidence 3345799988653322222335788999999999998864
No 28
>PF12641 Flavodoxin_3: Flavodoxin domain
Probab=47.66 E-value=91 Score=24.63 Aligned_cols=62 Identities=15% Similarity=0.263 Sum_probs=41.9
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHH-cCCeEEEeCh-------HHHHHH---HHHhhhccceeEEEeccCc
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRS-TGMKLEAIDS-------RNAAST---YNILNEEGRIVAAALLPYG 168 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~-~GI~vEvMdT-------~aAcrT---yNiL~sEGR~VaAALip~~ 168 (171)
...|+|+||.+-.--.++++++++|++ +|-.|=+-.| .-+.+. ...++.++-.+.+-++.+|
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 357999999998888899999999887 5555554444 333333 3456677766666665544
No 29
>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=47.28 E-value=11 Score=27.63 Aligned_cols=33 Identities=18% Similarity=0.236 Sum_probs=27.2
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
+|+-|.|.....+-.+++++++++|+.+|+-..
T Consensus 4 ll~C~~GaSSs~la~km~~~a~~~gi~~~i~a~ 36 (99)
T cd05565 4 LVLCAGGGTSGLLANALNKGAKERGVPLEAAAG 36 (99)
T ss_pred EEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEe
Confidence 366688877778899999999999999987633
No 30
>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=46.24 E-value=20 Score=33.32 Aligned_cols=33 Identities=18% Similarity=0.257 Sum_probs=25.8
Q ss_pred eecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHH
Q 030786 115 GCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAS 148 (171)
Q Consensus 115 GTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcr 148 (171)
|-|-.. .-+|++.+.+++++|.+|+.+|.|-+-
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 444443 347999999999999999999977643
No 31
>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=45.33 E-value=29 Score=24.63 Aligned_cols=31 Identities=26% Similarity=0.625 Sum_probs=23.0
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 145 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~a 145 (171)
++|+|.|. +...+.+.|++.++.+-+++...
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 57888885 45678888888888888887653
No 32
>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=44.13 E-value=44 Score=24.82 Aligned_cols=38 Identities=21% Similarity=0.293 Sum_probs=34.2
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 106 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 106 ~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
+.+.--|+|++|.....+|+++.++..++++.+-.|+.
T Consensus 70 ~~~~agL~i~~~~~~~~iP~~~i~~A~~~~lPli~ip~ 107 (123)
T PF07905_consen 70 EKGAAGLGIKTGRYLDEIPEEIIELADELGLPLIEIPW 107 (123)
T ss_pred HCCCeEEEEeccCccccCCHHHHHHHHHcCCCEEEeCC
Confidence 44678899999999889999999999999999998875
No 33
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=43.93 E-value=66 Score=25.59 Aligned_cols=49 Identities=14% Similarity=0.034 Sum_probs=41.2
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 152 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNi 152 (171)
+++.++--|++|+-+.--++.-.=.+.|++.||.|++---.+.|+..|.
T Consensus 91 li~agi~rVvva~~DPnp~Vag~G~~~L~~aGi~V~~gil~~e~~~l~~ 139 (146)
T COG0117 91 LIKAGVARVVVAMLDPNPLVAGGGLARLRAAGIEVEVGILEEEAEKLNE 139 (146)
T ss_pred HHHhCCCEEEEEecCCCccccCchHHHHHHcCCeEEEehhHHHHHHHHH
Confidence 4456789999999887777778888999999999999988888888763
No 34
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=41.85 E-value=71 Score=28.66 Aligned_cols=46 Identities=15% Similarity=0.124 Sum_probs=35.1
Q ss_pred hCCCCcEEEEeecCC-C--CCCCHHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 030786 105 VRPIPEILILGCGRY-I--EPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 152 (171)
Q Consensus 105 l~p~PEvLIIGTG~~-~--~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNi 152 (171)
++.+..=||+|| .. . .-+..++.++|++.||.| .+...+.|+.+|.
T Consensus 63 i~~gi~rVVi~~-D~d~~G~~~~~~~~~~L~~aGi~V-~~~l~~e~~~l~~ 111 (360)
T PRK14719 63 IAENISEVILLT-DFDRAGRVYAKNIMEEFQSRGIKV-NNLIRKEIIKYSR 111 (360)
T ss_pred HHcCCCEEEEEE-CCCCCCCccchHHHHHHHHCCCEE-EeehHHHHHHHhH
Confidence 345677888898 33 2 234556799999999999 6789999999987
No 35
>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=41.61 E-value=19 Score=26.48 Aligned_cols=37 Identities=22% Similarity=0.284 Sum_probs=29.7
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 106 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 106 ~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
..+.|++++|. +..+.-.++.+.+...||.|+++|..
T Consensus 45 ~~~~Dvill~P--Qv~~~~~~i~~~~~~~~ipv~~I~~~ 81 (99)
T cd05565 45 IPDYDLVILAP--QMASYYDELKKDTDRLGIKLVTTTGK 81 (99)
T ss_pred ccCCCEEEEcC--hHHHHHHHHHHHhhhcCCCEEEeCHH
Confidence 44689888876 55566688999999999999999964
No 36
>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=41.40 E-value=55 Score=25.06 Aligned_cols=34 Identities=18% Similarity=0.385 Sum_probs=23.9
Q ss_pred hCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 105 VRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 105 l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
+.-+||++|...+. ..+..+.|++.||.+-++++
T Consensus 57 ~~l~PDlii~~~~~-----~~~~~~~l~~~gi~v~~~~~ 90 (195)
T cd01143 57 VALKPDLVIVSSSS-----LAELLEKLKDAGIPVVVLPA 90 (195)
T ss_pred hccCCCEEEEcCCc-----CHHHHHHHHHcCCcEEEeCC
Confidence 34579998764432 24578899999998877754
No 37
>PTZ00124 adenosine deaminase; Provisional
Probab=41.15 E-value=28 Score=31.11 Aligned_cols=32 Identities=22% Similarity=0.361 Sum_probs=25.8
Q ss_pred EeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 030786 114 LGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 146 (171)
Q Consensus 114 IGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aA 146 (171)
||-|-... -+|++.+.++++||.+|+.+|.|-
T Consensus 250 IGHG~~~~-~d~~l~~~l~~~~I~lEvCPtSN~ 281 (362)
T PTZ00124 250 IGHGIRVA-ESQELIDMVKEKDILLEVCPISNV 281 (362)
T ss_pred cccccccC-CCHHHHHHHHHcCCeEEECCcchh
Confidence 35555533 379999999999999999999884
No 38
>COG1878 Kynurenine formamidase [Amino acid transport and metabolism]
Probab=40.66 E-value=51 Score=27.64 Aligned_cols=71 Identities=14% Similarity=0.258 Sum_probs=49.0
Q ss_pred CCChhhhhhhhhhCCCCcEEEEeecCCC------------CCCCHHHHHHHHHcCC---eEEEeChHHHHH----HHHHh
Q 030786 93 EITPNCLSIFQLVRPIPEILILGCGRYI------------EPVNPELRQFIRSTGM---KLEAIDSRNAAS----TYNIL 153 (171)
Q Consensus 93 ~l~~e~L~~l~~l~p~PEvLIIGTG~~~------------~~l~p~l~~~l~~~GI---~vEvMdT~aAcr----TyNiL 153 (171)
.++.++++.+.... ..++|++=||-.. --++++..++|.++|+ |++.+++....+ +...|
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 46777777554433 5799999999831 1367889999999765 567776666653 67778
Q ss_pred hhccceeEEEe
Q 030786 154 NEEGRIVAAAL 164 (171)
Q Consensus 154 ~sEGR~VaAAL 164 (171)
++.|+...--|
T Consensus 171 L~~~~~i~E~l 181 (218)
T COG1878 171 LSAGILIVENL 181 (218)
T ss_pred HhCCCEEEEee
Confidence 88877655433
No 39
>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=40.21 E-value=61 Score=21.67 Aligned_cols=44 Identities=7% Similarity=0.093 Sum_probs=28.9
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC-hHHHHHHHHH
Q 030786 109 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAID-SRNAASTYNI 152 (171)
Q Consensus 109 PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMd-T~aAcrTyNi 152 (171)
.+++|++.+.......-++.+.|++.|+.+|+-. ..+.-..|..
T Consensus 2 ~~v~ii~~~~~~~~~a~~~~~~Lr~~g~~v~~d~~~~~~~~~~~~ 46 (91)
T cd00860 2 VQVVVIPVTDEHLDYAKEVAKKLSDAGIRVEVDLRNEKLGKKIRE 46 (91)
T ss_pred eEEEEEeeCchHHHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHH
Confidence 4677777766554555667888999999999843 3333344443
No 40
>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=40.09 E-value=22 Score=30.28 Aligned_cols=33 Identities=21% Similarity=0.415 Sum_probs=23.6
Q ss_pred EeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 030786 114 LGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 147 (171)
Q Consensus 114 IGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAc 147 (171)
||-|-... -+|++.+.+++++|.+|+.+|.|-.
T Consensus 221 IgHG~~~~-~~p~l~~~~~~~~I~iEvcptSN~~ 253 (331)
T PF00962_consen 221 IGHGVRLI-KDPELLELLAERQIPIEVCPTSNVQ 253 (331)
T ss_dssp EEE-GGGG-GSHHHHHHHHHTT-EEEE-HHHHHH
T ss_pred ecchhhhh-hhhHHHHHHHHhCCCeeeCCCcCcc
Confidence 46666543 3689999999999999999998653
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=39.80 E-value=63 Score=23.06 Aligned_cols=46 Identities=7% Similarity=0.097 Sum_probs=32.7
Q ss_pred CcEEEEeecCC---CCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhh
Q 030786 109 PEILILGCGRY---IEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILN 154 (171)
Q Consensus 109 PEvLIIGTG~~---~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL~ 154 (171)
-.|+|+..|.. .-+....++++|.++||..+..|...--..++.|.
T Consensus 12 ~~Vvvf~kg~~~~~~Cp~C~~ak~lL~~~~i~~~~~di~~~~~~~~~l~ 60 (97)
T TIGR00365 12 NPVVLYMKGTPQFPQCGFSARAVQILKACGVPFAYVNVLEDPEIRQGIK 60 (97)
T ss_pred CCEEEEEccCCCCCCCchHHHHHHHHHHcCCCEEEEECCCCHHHHHHHH
Confidence 57888876653 44566689999999999999987633234444443
No 42
>CHL00144 odpB pyruvate dehydrogenase E1 component beta subunit; Validated
Probab=38.98 E-value=19 Score=31.64 Aligned_cols=39 Identities=28% Similarity=0.305 Sum_probs=29.2
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
.+.+.-|+.||++|.-.. ..-+..+.|++.||.+|+.|.
T Consensus 197 v~~~G~ditiia~G~~v~-~al~Aa~~L~~~Gi~~~VId~ 235 (327)
T CHL00144 197 VVRPGNDITILTYSRMRH-HVLQAVKVLVEKGYDPEIIDL 235 (327)
T ss_pred EEEcCCCEEEEEccHHHH-HHHHHHHHHHhcCCCEEEEec
Confidence 455678999999997533 334556678899999999864
No 43
>KOG0523 consensus Transketolase [Carbohydrate transport and metabolism]
Probab=38.69 E-value=19 Score=34.73 Aligned_cols=44 Identities=16% Similarity=0.407 Sum_probs=33.3
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 030786 106 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 151 (171)
Q Consensus 106 ~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyN 151 (171)
+..|||++||||.... ..-+..+.|.+.||.+-|.|-. -|..|.
T Consensus 503 ~~~~dV~LiG~Gs~v~-~cl~AA~~L~~~gi~vrVvd~~-~~kplD 546 (632)
T KOG0523|consen 503 EVEPDVILIGTGSEVQ-ECLEAAELLSEDGIKVRVVDPF-TWKPLD 546 (632)
T ss_pred cCCCCEEEEeccHHHH-HHHHHHHHHHhcCceEEEeccc-ceeecc
Confidence 3459999999998743 3445677899999999999854 355665
No 44
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=38.59 E-value=12 Score=29.52 Aligned_cols=40 Identities=13% Similarity=0.357 Sum_probs=24.1
Q ss_pred CCCCcEEEE-eecCCCCCCCHHHHHHHHHcC-------CeEEEeChHH
Q 030786 106 RPIPEILIL-GCGRYIEPVNPELRQFIRSTG-------MKLEAIDSRN 145 (171)
Q Consensus 106 ~p~PEvLII-GTG~~~~~l~p~l~~~l~~~G-------I~vEvMdT~a 145 (171)
.-+|++|.| |.+...+.+-..+++.++++. |.|+.++..-
T Consensus 61 ~~kP~vI~v~g~~~~s~~l~~~v~~~v~~~~~~~~~~~i~V~~v~~~~ 108 (150)
T PF14639_consen 61 KHKPDVIAVGGNSRESRKLYDDVRDIVEELDEDEQMPPIPVVIVDDEV 108 (150)
T ss_dssp HH--SEEEE--SSTHHHHHHHHHHHHHHHTTB-TTS-B--EEE---TT
T ss_pred HcCCeEEEEcCCChhHHHHHHHHHHHHHHhhhcccCCCceEEEECcHH
Confidence 458999999 666556778888888888764 7887776543
No 45
>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=37.99 E-value=92 Score=28.72 Aligned_cols=78 Identities=18% Similarity=0.395 Sum_probs=50.1
Q ss_pred cceEEEEcCCeEEE--CCEEEeecEEEeCCceeecCCCCCCCCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHH
Q 030786 54 QLRFQGYTDTGFTV--NGVQYEGSLLCIGNLLLSWTPKKFSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFI 131 (171)
Q Consensus 54 ~~~I~~y~~g~f~I--ng~~y~gsvii~p~~v~~W~~~~~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l 131 (171)
.+.+..+++..+.+ .|...-..+|++|-..-... ..+++..|- +.++..=.+|+.|... .++..+++++
T Consensus 27 ~l~~~~~~d~~l~L~~~ge~~YD~LIif~~~~k~~g----~~ls~~~ll--~Fvd~GgNilv~~s~~---~~~~~ir~~~ 97 (423)
T PF03345_consen 27 ELTFKSADDESLSLFKYGERLYDHLIIFPPSVKEFG----GSLSPKTLL--DFVDNGGNILVAGSSD---AIPDSIREFA 97 (423)
T ss_pred EEEEecCCCCCcchhhCChhhcceEEEeCCcccccC----CCCCHHHHH--HHHhCCCcEEEEeCCC---cCcHHHHHHH
Confidence 34455555555554 24443344566654332222 357777754 5667778899988776 5889999999
Q ss_pred HHcCCeEEE
Q 030786 132 RSTGMKLEA 140 (171)
Q Consensus 132 ~~~GI~vEv 140 (171)
.+.||.++-
T Consensus 98 ~E~gi~~~~ 106 (423)
T PF03345_consen 98 NELGIEFDP 106 (423)
T ss_pred HHCCeEECC
Confidence 999988743
No 46
>PLN02683 pyruvate dehydrogenase E1 component subunit beta
Probab=37.37 E-value=17 Score=32.38 Aligned_cols=39 Identities=13% Similarity=0.272 Sum_probs=28.8
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
.+.+.-|+.||++|.-.. .--+..+.|++.||.++++|-
T Consensus 224 v~r~G~dvtIia~G~~v~-~Al~Aa~~L~~~GI~v~VId~ 262 (356)
T PLN02683 224 IEREGKDVTIVAFSKMVG-YALKAAEILAKEGISAEVINL 262 (356)
T ss_pred EEEcCCCEEEEEccHHHH-HHHHHHHHHHhcCCCEEEEEC
Confidence 445667999999997533 233455678899999999865
No 47
>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=36.29 E-value=90 Score=25.69 Aligned_cols=39 Identities=10% Similarity=0.141 Sum_probs=27.1
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMd 142 (171)
++.-+||++|...+.....-+.+..+.|++.||.+-+++
T Consensus 75 I~~l~PDlIi~~~~~~~~~~~~~~~~~L~~~gipv~~~~ 113 (284)
T cd01148 75 VLAARPDLVFGGWSYGFDKGGLGTPDSLAELGIKTYILP 113 (284)
T ss_pred HhcCCCCEEEEecccccCCCCCCCHHHHHHCCCeEEECc
Confidence 445679999986543322224566788999999998885
No 48
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=36.08 E-value=20 Score=25.71 Aligned_cols=33 Identities=12% Similarity=0.213 Sum_probs=24.8
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
+++-|+|-....+-.++.+.++++|+.+++-.+
T Consensus 3 l~~Cg~G~sTS~~~~ki~~~~~~~~~~~~v~~~ 35 (96)
T cd05564 3 LLVCSAGMSTSILVKKMKKAAEKRGIDAEIEAV 35 (96)
T ss_pred EEEcCCCchHHHHHHHHHHHHHHCCCceEEEEe
Confidence 466678877556677999999999997766533
No 49
>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=35.93 E-value=55 Score=26.80 Aligned_cols=39 Identities=10% Similarity=0.301 Sum_probs=30.5
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh-HHHHHHH
Q 030786 106 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS-RNAASTY 150 (171)
Q Consensus 106 ~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT-~aAcrTy 150 (171)
.+...+|++|||... -..+|.++|..|.-+|. +.||+.+
T Consensus 33 ~~~~rvLd~GCG~G~------da~~LA~~G~~V~gvD~S~~Ai~~~ 72 (213)
T TIGR03840 33 PAGARVFVPLCGKSL------DLAWLAEQGHRVLGVELSEIAVEQF 72 (213)
T ss_pred CCCCeEEEeCCCchh------HHHHHHhCCCeEEEEeCCHHHHHHH
Confidence 355689999999973 34578899999999974 7777764
No 50
>PTZ00182 3-methyl-2-oxobutanate dehydrogenase; Provisional
Probab=35.72 E-value=22 Score=31.60 Aligned_cols=39 Identities=23% Similarity=0.359 Sum_probs=29.4
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
.+.+..|++||++|..... --+..+.|++.||.+++++-
T Consensus 229 vl~~G~di~Iia~Gs~~~~-aleAa~~L~~~Gi~v~vI~~ 267 (355)
T PTZ00182 229 VVREGKDVTIVGYGSQVHV-ALKAAEELAKEGISCEVIDL 267 (355)
T ss_pred EecCCCCEEEEEeCHHHHH-HHHHHHHHHhCCCcEEEEEE
Confidence 4556789999999976543 34566778889999998854
No 51
>PRK03379 vitamin B12-transporter protein BtuF; Provisional
Probab=35.47 E-value=91 Score=25.77 Aligned_cols=36 Identities=19% Similarity=0.284 Sum_probs=25.8
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
++.-+||+||..+|.. +++..+.|++.||.+-+.+.
T Consensus 68 il~l~PDlVi~~~~~~----~~~~~~~L~~~gi~v~~~~~ 103 (260)
T PRK03379 68 IVALKPDLVLAWRGGN----AERQVDQLASLGIKVMWVDA 103 (260)
T ss_pred HHhcCCCEEEEecCCC----cHHHHHHHHHCCCCEEEeCC
Confidence 3345699987544422 35788999999999988863
No 52
>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=35.40 E-value=25 Score=28.30 Aligned_cols=41 Identities=17% Similarity=0.153 Sum_probs=32.5
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 151 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyN 151 (171)
+++-=||.--..-.+++.+.|++.|..|+++-|++|.+...
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 34444665555566889999999999999999999999864
No 53
>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=35.10 E-value=27 Score=33.58 Aligned_cols=39 Identities=13% Similarity=0.290 Sum_probs=30.2
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 030786 106 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 145 (171)
Q Consensus 106 ~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~a 145 (171)
...+|+.||+||..... .-+..+.|++.||.+++.+...
T Consensus 538 ~~g~dv~iia~G~~v~~-al~Aa~~L~~~Gi~~~VI~~~~ 576 (653)
T TIGR00232 538 SKGPDIILIATGSEVSL-AVEAAKKLAAENIKVRVVSMPS 576 (653)
T ss_pred cCCCCEEEEEeChHHHH-HHHHHHHHHhcCCcEEEEeccc
Confidence 45689999999976443 3567778899999999997643
No 54
>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=35.04 E-value=55 Score=31.38 Aligned_cols=37 Identities=19% Similarity=0.363 Sum_probs=30.0
Q ss_pred hhhhhCCCCcEEEEeecCC--CCCCCHHHHHHHHHcCCeEE
Q 030786 101 IFQLVRPIPEILILGCGRY--IEPVNPELRQFIRSTGMKLE 139 (171)
Q Consensus 101 ~l~~l~p~PEvLIIGTG~~--~~~l~p~l~~~l~~~GI~vE 139 (171)
.++.+ +|++.|+-+|.+ ..++++++.+.+++.|+.+-
T Consensus 618 fl~~v--~P~~aiiS~g~~N~yghP~~~vl~rl~~~g~~~~ 656 (662)
T TIGR00361 618 LIQQV--QPKVAIISAGRNNRWHHPHQKVLQRLQRHSIRVL 656 (662)
T ss_pred HHHhc--CCCEEEEECCCCCCCCCChHHHHHHHHHCCCeEE
Confidence 44444 599999999975 56899999999999998753
No 55
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=34.85 E-value=71 Score=25.17 Aligned_cols=45 Identities=22% Similarity=0.303 Sum_probs=34.1
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH-----HHHHHHHHh
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR-----NAASTYNIL 153 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~-----aAcrTyNiL 153 (171)
-+||++++|--.. +=...+...+.++|..+|+-.|. .=|+||.+.
T Consensus 85 ~k~Div~lG~D~~--~d~~~l~~~~~k~G~~~~v~R~~g~~~~~~~st~~i~ 134 (140)
T COG0615 85 YKPDIVVLGDDQK--FDEDDLKYELVKRGLFVEVKRTEGVSTCELISTSDII 134 (140)
T ss_pred hCCCEEEECCCCc--CChHHHHHHHHHcCCeeEEEeccCcccCcccchHHHH
Confidence 4699999986555 66677888898899999998776 346666553
No 56
>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=34.49 E-value=1e+02 Score=21.80 Aligned_cols=45 Identities=18% Similarity=0.176 Sum_probs=33.0
Q ss_pred hhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHH
Q 030786 103 QLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAS 148 (171)
Q Consensus 103 ~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcr 148 (171)
+.+.....++++|+|.. ..+-..+...|...|..++..+......
T Consensus 8 ~~i~~~~~i~i~g~g~s-~~~a~~~~~~l~~~~~~~~~~~~~~~~~ 52 (139)
T cd05013 8 DLLAKARRIYIFGVGSS-GLVAEYLAYKLLRLGKPVVLLSDPHLQL 52 (139)
T ss_pred HHHHhCCEEEEEEcCch-HHHHHHHHHHHHHcCCceEEecCHHHHH
Confidence 34445578999999974 3466678888999999999886554443
No 57
>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=34.01 E-value=31 Score=22.63 Aligned_cols=35 Identities=20% Similarity=0.226 Sum_probs=23.5
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 109 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 109 PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
++++|+..+......--++.+.|++.|+.+|+...
T Consensus 2 ~~v~i~~~~~~~~~~a~~i~~~Lr~~g~~v~~~~~ 36 (91)
T cd00859 2 VDVYVVPLGEGALSEALELAEQLRDAGIKAEIDYG 36 (91)
T ss_pred CcEEEEEcChHHHHHHHHHHHHHHHCCCEEEEecC
Confidence 46677776664333344577788889999988543
No 58
>COG4015 Predicted dinucleotide-utilizing enzyme of the ThiF/HesA family [General function prediction only]
Probab=33.94 E-value=80 Score=26.15 Aligned_cols=61 Identities=16% Similarity=0.299 Sum_probs=34.9
Q ss_pred eecEEEeCCceeecCCCCCCCCChhhhh---hhhhh-CCCCcEEEEeecCCCC---CCCHHHHHHHHH
Q 030786 73 EGSLLCIGNLLLSWTPKKFSEITPNCLS---IFQLV-RPIPEILILGCGRYIE---PVNPELRQFIRS 133 (171)
Q Consensus 73 ~gsvii~p~~v~~W~~~~~~~l~~e~L~---~l~~l-~p~PEvLIIGTG~~~~---~l~p~l~~~l~~ 133 (171)
.|+.-+..+++|........-++.+.-+ .+..+ +..||-+++|||+-++ +++|-+.+...+
T Consensus 133 rG~~TisT~GVFGigeEev~v~~~eeA~gP~~~~lldeg~~dHilVgTgk~IRD~ePitPyvLdrva~ 200 (217)
T COG4015 133 RGIKTISTNGVFGIGEEEVKVCDAEEAKGPAKFLLLDEGGPDHILVGTGKFIRDFEPITPYVLDRVAK 200 (217)
T ss_pred cCceEeecCceeecchhheEEeehhhcCccHHHHHHhcCCCceEEEecCccccCCCCCChhHHHHHHH
Confidence 3555566666766644332222222211 11222 5678999999999865 667766665543
No 59
>COG0680 HyaD Ni,Fe-hydrogenase maturation factor [Energy production and conversion]
Probab=33.91 E-value=84 Score=24.93 Aligned_cols=50 Identities=22% Similarity=0.212 Sum_probs=37.1
Q ss_pred cEEEEeecCCCC---CCCHHHHHHHHHcCC---eEEEeChHHHHHHHHHhhhccce
Q 030786 110 EILILGCGRYIE---PVNPELRQFIRSTGM---KLEAIDSRNAASTYNILNEEGRI 159 (171)
Q Consensus 110 EvLIIGTG~~~~---~l~p~l~~~l~~~GI---~vEvMdT~aAcrTyNiL~sEGR~ 159 (171)
.++|+|+|..++ -+-+.+.+.|++++- .|+++|.+++---+=.......+
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 589999999975 477788888888665 67899988877666555554443
No 60
>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=33.41 E-value=87 Score=21.79 Aligned_cols=43 Identities=9% Similarity=0.096 Sum_probs=28.8
Q ss_pred CCCCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 91 FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 91 ~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
..+.+.|.+.. -+||+++.+.+.. ....+.+.+.||.+-..+.
T Consensus 49 ~~~~~~E~l~~-----l~pDlvi~~~~~~-----~~~~~~l~~~~i~~~~~~~ 91 (148)
T cd00636 49 GYEPNLEKIAA-----LKPDLIIANGSGL-----EAWLDKLSKIAIPVVVVDE 91 (148)
T ss_pred CCCCCHHHHhc-----cCCCEEEEecccc-----hhHHHHHHHhCCCEEEECC
Confidence 44667776542 2699998876533 2267788889988877654
No 61
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=33.39 E-value=1.2e+02 Score=26.35 Aligned_cols=68 Identities=13% Similarity=0.269 Sum_probs=45.5
Q ss_pred CCCCCChhhhh--hhhhh-CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhcc
Q 030786 90 KFSEITPNCLS--IFQLV-RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEG 157 (171)
Q Consensus 90 ~~~~l~~e~L~--~l~~l-~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL~sEG 157 (171)
+...+++++.+ .-..+ +-+||++|+..-....+=|...++.|++.||..-+.+-+..-+.=.-|-++|
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 45667777766 11121 3479999887766667777779999999999988886554444445555554
No 62
>PRK05899 transketolase; Reviewed
Probab=33.35 E-value=23 Score=33.65 Aligned_cols=38 Identities=16% Similarity=0.427 Sum_probs=28.5
Q ss_pred hCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 105 VRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 105 l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
+....|+.||++|... ...-+..+.|+++||.+++.|.
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 3446899999999754 3344456678899999999865
No 63
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=33.32 E-value=1.3e+02 Score=23.94 Aligned_cols=43 Identities=14% Similarity=0.189 Sum_probs=31.0
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 152 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNi 152 (171)
-++.-|++|... .+.+..-.+.|++.||.|+.++... +.++|.
T Consensus 121 ~gI~rVvy~~~~--~~~~~~~~~~L~~~Gi~v~~~~~~~-~~~~~~ 163 (168)
T PHA02588 121 SGIKKLVYCEKY--DRNGPGWDDILRKSGIEVIQIPKEE-LNKLNW 163 (168)
T ss_pred hCCCEEEEeecc--CCCcHHHHHHHHHCCCEEEEeCHHH-HHhhhh
Confidence 467788888752 2234557889999999999998766 555553
No 64
>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=33.31 E-value=58 Score=20.46 Aligned_cols=30 Identities=17% Similarity=0.257 Sum_probs=22.6
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 030786 113 ILGCGRY-IEPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 113 IIGTG~~-~~~l~p~l~~~l~~~GI~vEvMd 142 (171)
++|.|-. ...+-.++.+.|.+.||.+..+.
T Consensus 6 vvg~~~~~~~~~~~~i~~~l~~~~I~v~~i~ 36 (66)
T cd04922 6 LVGDGMAGTPGVAATFFSALAKANVNIRAIA 36 (66)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEE
Confidence 5677765 34566778888999999998774
No 65
>PRK11539 ComEC family competence protein; Provisional
Probab=32.61 E-value=64 Score=31.51 Aligned_cols=31 Identities=13% Similarity=0.229 Sum_probs=27.4
Q ss_pred CCcEEEEeecCC--CCCCCHHHHHHHHHcCCeE
Q 030786 108 IPEILILGCGRY--IEPVNPELRQFIRSTGMKL 138 (171)
Q Consensus 108 ~PEvLIIGTG~~--~~~l~p~l~~~l~~~GI~v 138 (171)
+|++.|+-+|.+ -.++++++.+.+++.||.+
T Consensus 681 ~P~~aiiS~g~~NryghP~~~v~~rl~~~g~~~ 713 (755)
T PRK11539 681 NGKVALASASRYNAWRLPSVKVKQRYQQQGYQW 713 (755)
T ss_pred CCCEEEEeCCCCCCCCCCCHHHHHHHHHcCCeE
Confidence 599999999987 4589999999999999874
No 66
>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=32.38 E-value=57 Score=30.24 Aligned_cols=43 Identities=26% Similarity=0.254 Sum_probs=31.7
Q ss_pred CCcEEEEeecCCCCCCC-H--HHHHHHHHcCC-eEEEeChHHHHHHH
Q 030786 108 IPEILILGCGRYIEPVN-P--ELRQFIRSTGM-KLEAIDSRNAASTY 150 (171)
Q Consensus 108 ~PEvLIIGTG~~~~~l~-p--~l~~~l~~~GI-~vEvMdT~aAcrTy 150 (171)
.+|.||+||-......+ . .+.+.|...|. ..+++|+.+||.-|
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 57899999988754322 2 34566666665 67899999999988
No 67
>COG4012 Uncharacterized protein conserved in archaea [Function unknown]
Probab=32.26 E-value=59 Score=28.84 Aligned_cols=46 Identities=17% Similarity=0.263 Sum_probs=34.8
Q ss_pred hhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 030786 103 QLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 151 (171)
Q Consensus 103 ~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyN 151 (171)
..+...|.+.++|+=..--+...++++.+++ |.++.-|..|+.|+-
T Consensus 43 ~~~~~g~~l~l~G~~MGGGp~travrrhlk~---G~rVyatedAAlT~h 88 (342)
T COG4012 43 FMLREGPYLALIGVPMGGGPTTRAVRRHLKK---GTRVYATEDAALTLH 88 (342)
T ss_pred HHhccCCcEEEEeeecCCChhhHHHHHHHhc---CCeeEechhhhhhhh
Confidence 3555678999999866655666677766664 788999999999974
No 68
>PF04407 DUF531: Protein of unknown function (DUF531); InterPro: IPR007501 This is a family of hypothetical archaeal proteins.
Probab=32.13 E-value=1.1e+02 Score=24.90 Aligned_cols=51 Identities=24% Similarity=0.348 Sum_probs=36.7
Q ss_pred CCCCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHH------HHHcCCeEEEeChH
Q 030786 91 FSEITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQF------IRSTGMKLEAIDSR 144 (171)
Q Consensus 91 ~~~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~------l~~~GI~vEvMdT~ 144 (171)
-..++++++.- ..+..++=.++||.|.+- +|.++.+. +..+||.+|...-=
T Consensus 104 ~K~i~p~e~a~-~~l~~~s~~~liGLGR~G--LPkei~k~a~yHLDITgkgiSLETCTAi 160 (173)
T PF04407_consen 104 KKAISPEEVAE-MALRGKSFLLLIGLGRHG--LPKEIFKMAKYHLDITGKGISLETCTAI 160 (173)
T ss_pred CCCCCHHHHHH-HHhcCCceEEEEecCCCC--CcHHHHHhchhceeecCCceeeehhhHH
Confidence 45677777653 356789999999999975 56666664 45789999976543
No 69
>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=31.93 E-value=48 Score=21.90 Aligned_cols=33 Identities=12% Similarity=0.074 Sum_probs=21.2
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
+-++|.|-+..-+..++.+.|.+.||.++-..+
T Consensus 5 VsvVG~gm~~~gv~~ki~~~L~~~~I~v~~i~~ 37 (66)
T cd04915 5 VSVIGRDLSTPGVLARGLAALAEAGIEPIAAHQ 37 (66)
T ss_pred EEEECCCCCcchHHHHHHHHHHHCCCCEEEEEe
Confidence 346777775334555677778888888855444
No 70
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=31.83 E-value=23 Score=25.50 Aligned_cols=34 Identities=9% Similarity=0.182 Sum_probs=25.6
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
+++-|+|.....+-.++.+.++++|+.+++-.+.
T Consensus 7 Ll~C~~G~sSS~l~~k~~~~~~~~gi~~~v~a~~ 40 (95)
T TIGR00853 7 LLLCAAGMSTSLLVNKMNKAAEEYGVPVKIAAGS 40 (95)
T ss_pred EEECCCchhHHHHHHHHHHHHHHCCCcEEEEEec
Confidence 4666777775556689999999999988766443
No 71
>PRK10329 glutaredoxin-like protein; Provisional
Probab=31.54 E-value=50 Score=22.81 Aligned_cols=38 Identities=16% Similarity=0.211 Sum_probs=26.5
Q ss_pred CCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccc
Q 030786 121 EPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGR 158 (171)
Q Consensus 121 ~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL~sEGR 158 (171)
-.....++++|.++||.+|..+...--..++.+...|+
T Consensus 11 Cp~C~~ak~~L~~~gI~~~~idi~~~~~~~~~~~~~g~ 48 (81)
T PRK10329 11 CVQCHATKRAMESRGFDFEMINVDRVPEAAETLRAQGF 48 (81)
T ss_pred CHhHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHcCC
Confidence 35667799999999999999877543333444544455
No 72
>PRK12754 transketolase; Reviewed
Probab=31.50 E-value=24 Score=34.14 Aligned_cols=36 Identities=14% Similarity=0.332 Sum_probs=25.6
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 108 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 108 ~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
++|++||+||... ...-+..+.|++.||.+.+.+..
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 3699999999643 23334566788889988887653
No 73
>PTZ00363 rab-GDP dissociation inhibitor; Provisional
Probab=31.46 E-value=47 Score=30.44 Aligned_cols=41 Identities=17% Similarity=0.284 Sum_probs=29.9
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH----HHHHHHH
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR----NAASTYN 151 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~----aAcrTyN 151 (171)
...|++|||||-... -+...|.+.|-+|-++|.. -.++|||
T Consensus 3 ~~~DViViGtGL~e~----ilAa~Ls~~GkkVLhlD~n~~yGG~~as~~ 47 (443)
T PTZ00363 3 ETYDVIVCGTGLKEC----ILSGLLSVNGKKVLHMDRNPYYGGESASLN 47 (443)
T ss_pred CcceEEEECCChHHH----HHHhhhhhCCCEEEEecCCCCcCccccccc
Confidence 358999999996532 2556789999999999764 3445553
No 74
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=31.44 E-value=1.4e+02 Score=20.24 Aligned_cols=38 Identities=21% Similarity=0.301 Sum_probs=30.4
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEE---eChHHHHHHH
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEA---IDSRNAASTY 150 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEv---MdT~aAcrTy 150 (171)
...++||.|- +.+.....|+++||.+-. .+...|...|
T Consensus 52 ~~v~~li~~~------iG~~~~~~L~~~gI~v~~~~~~~i~~~l~~~ 92 (94)
T PF02579_consen 52 EGVDVLICGG------IGEGAFRALKEAGIKVYQGAGGDIEEALEAY 92 (94)
T ss_dssp TTESEEEESC------SCHHHHHHHHHTTSEEEESTSSBHHHHHHHH
T ss_pred cCCCEEEEeC------CCHHHHHHHHHCCCEEEEcCCCCHHHHHHHH
Confidence 5799999886 678999999999999988 4555665544
No 75
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=31.40 E-value=25 Score=25.25 Aligned_cols=32 Identities=19% Similarity=0.284 Sum_probs=24.5
Q ss_pred EEEEeecCCC-CCCCHHHHHHHHHcCCeEEEeC
Q 030786 111 ILILGCGRYI-EPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 111 vLIIGTG~~~-~~l~p~l~~~l~~~GI~vEvMd 142 (171)
+++-|+|-.. ..+-..+++.|.++|+.+|+..
T Consensus 6 LvvCgsG~~TS~m~~~ki~~~l~~~gi~~~v~~ 38 (94)
T PRK10310 6 IVACGGAVATSTMAAEEIKELCQSHNIPVELIQ 38 (94)
T ss_pred EEECCCchhHHHHHHHHHHHHHHHCCCeEEEEE
Confidence 4566777753 4457889999999999888775
No 76
>cd04924 ACT_AK-Arch_2 ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). Included in this CD is the second of two ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). The first or N-terminal ACT domain of these proteins cluster with the ThrA-like ACT 1 domains (ACT_AKi-HSDH-ThrA-like_1) which includes the threonine-sensitive archaeal Methanococcus jannaschii aspartokinase ACT 1 domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=30.91 E-value=69 Score=20.04 Aligned_cols=30 Identities=17% Similarity=0.274 Sum_probs=21.5
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCCeEEEeC
Q 030786 113 ILGCGRY-IEPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 113 IIGTG~~-~~~l~p~l~~~l~~~GI~vEvMd 142 (171)
++|.|-. ...+..++.+.|.+.||.++.+.
T Consensus 6 ivg~~~~~~~~~~~~i~~~L~~~~I~v~~i~ 36 (66)
T cd04924 6 VVGSGMRGTPGVAGRVFGALGKAGINVIMIS 36 (66)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEE
Confidence 5677765 33455668888899999998775
No 77
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=30.85 E-value=50 Score=24.86 Aligned_cols=26 Identities=27% Similarity=0.488 Sum_probs=23.5
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHH
Q 030786 108 IPEILILGCGRYIEPVNPELRQFIRS 133 (171)
Q Consensus 108 ~PEvLIIGTG~~~~~l~p~l~~~l~~ 133 (171)
..|.||+|++-....+++.+.+++++
T Consensus 43 ~yD~vi~gspiy~g~~~~~~~~fi~~ 68 (143)
T PF12724_consen 43 DYDAVIFGSPIYAGRIPGEMREFIKK 68 (143)
T ss_pred cCCEEEEEEEEECCcCCHHHHHHHHH
Confidence 58999999999999999999988875
No 78
>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=30.84 E-value=2e+02 Score=25.91 Aligned_cols=75 Identities=21% Similarity=0.325 Sum_probs=37.4
Q ss_pred cCCeEEECCEEEeecEEEeCCceeecCCCCCC--C--CChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCC
Q 030786 61 TDTGFTVNGVQYEGSLLCIGNLLLSWTPKKFS--E--ITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGM 136 (171)
Q Consensus 61 ~~g~f~Ing~~y~gsvii~p~~v~~W~~~~~~--~--l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI 136 (171)
+++.+.++|..+..+-+|...+..++.+.... + ++.+++ +..-..+-.++|||.|. .--++...|.+.|.
T Consensus 117 ~~~~v~v~~~~~~~d~vIiAtGs~p~~p~~i~g~~~~~~~~~~--~~~~~~~~~vvIIGgG~----iG~E~A~~l~~~g~ 190 (450)
T TIGR01421 117 KDGTVEVNGRDYTAPHILIATGGKPSFPENIPGAELGTDSDGF--FALEELPKRVVIVGAGY----IAVELAGVLHGLGS 190 (450)
T ss_pred cCCEEEECCEEEEeCEEEEecCCCCCCCCCCCCCceeEcHHHh--hCccccCCeEEEECCCH----HHHHHHHHHHHcCC
Confidence 35556677777776644443332222221111 1 233332 22212234789999885 33455556666666
Q ss_pred eEEEe
Q 030786 137 KLEAI 141 (171)
Q Consensus 137 ~vEvM 141 (171)
.|.+.
T Consensus 191 ~Vtli 195 (450)
T TIGR01421 191 ETHLV 195 (450)
T ss_pred cEEEE
Confidence 66554
No 79
>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=30.78 E-value=80 Score=25.10 Aligned_cols=54 Identities=17% Similarity=0.223 Sum_probs=38.7
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC-------hHHHHHHHHHhhhccceeEEEeccCcc
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID-------SRNAASTYNILNEEGRIVAAALLPYGV 169 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMd-------T~aAcrTyNiL~sEGR~VaAALip~~~ 169 (171)
..-|++|++.-|+ +...+.|++.|+.|+..+ ++...| .++.+|-. |.-|.|+.|
T Consensus 87 ~~~p~~D~vf~~~--------~~~~~~f~e~g~~v~~~p~~~r~~~S~T~IR---~~i~~~~~-W~~lVP~~v 147 (165)
T TIGR01527 87 SMTPPFDVVYSNN--------PLVRRLFKEAGYEVKRPPMFNRKEYSGTEIR---RRMLNGED-WEHLVPKAV 147 (165)
T ss_pred HhCCCCCEEEECC--------HHHHHHHHHcCCEEEECCCcCCCcccHHHHH---HHHHcCCC-hhhhCCHHH
Confidence 4567899999993 778999999999999887 223333 34455655 777777654
No 80
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=30.58 E-value=25 Score=26.00 Aligned_cols=34 Identities=12% Similarity=0.267 Sum_probs=26.6
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
+|+-|+|-....+-..+.+.++++|+.+++-.++
T Consensus 5 LlvCg~G~STSlla~k~k~~~~e~gi~~~i~a~~ 38 (104)
T PRK09590 5 LIICAAGMSSSMMAKKTTEYLKEQGKDIEVDAIT 38 (104)
T ss_pred EEECCCchHHHHHHHHHHHHHHHCCCceEEEEec
Confidence 4667778776678888999999999988875433
No 81
>PRK05261 putative phosphoketolase; Provisional
Probab=30.45 E-value=38 Score=33.66 Aligned_cols=36 Identities=11% Similarity=0.291 Sum_probs=29.5
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHc--CCeEEEeCh
Q 030786 108 IPEILILGCGRYIEPVNPELRQFIRST--GMKLEAIDS 143 (171)
Q Consensus 108 ~PEvLIIGTG~~~~~l~p~l~~~l~~~--GI~vEvMdT 143 (171)
.||++|++||.....-.-+..+.|+++ ||++-+.+.
T Consensus 613 ~pDvvL~atGsev~leAlaAa~~L~~~~pgikvRVVSv 650 (785)
T PRK05261 613 EPDVVLACAGDVPTLETLAAADLLREHFPDLKIRVVNV 650 (785)
T ss_pred CCCEEEEEeCcHhhHHHHHHHHHHHhhCCCCCEEEEEe
Confidence 599999999998765455667788998 998888776
No 82
>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=30.29 E-value=81 Score=26.85 Aligned_cols=39 Identities=13% Similarity=0.215 Sum_probs=26.5
Q ss_pred hCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 105 VRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 105 l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
+.-+||++|...+.....-+.+..+.|++.||.+-.+++
T Consensus 88 ~~l~PDLIi~~~~~~~~~~~~~~~~~l~~~gipvv~~~~ 126 (342)
T cd01139 88 LTLKPDLVILNIWAKTTAEESGILEKLEQAGIPVVFVDF 126 (342)
T ss_pred hhcCCCEEEEeccccccchhhHHHHHHHHcCCcEEEEeC
Confidence 345699987654432212245688999999999988764
No 83
>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=30.23 E-value=28 Score=25.34 Aligned_cols=31 Identities=13% Similarity=0.445 Sum_probs=24.7
Q ss_pred CCCcEEEEeecCCC---CCCCHHHHHHHHHcCCe
Q 030786 107 PIPEILILGCGRYI---EPVNPELRQFIRSTGMK 137 (171)
Q Consensus 107 p~PEvLIIGTG~~~---~~l~p~l~~~l~~~GI~ 137 (171)
+-.|.+||+||... ..+..++.+.+++.|+.
T Consensus 27 ~~~dy~VI~Tg~S~rh~~aia~~v~~~~k~~~~~ 60 (99)
T TIGR00090 27 SIADYFVIASGTSSRHVKAIADNVEEELKEAGLK 60 (99)
T ss_pred cccCEEEEEEeCCHHHHHHHHHHHHHHHHHcCCC
Confidence 34699999999993 35778888999988863
No 84
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=29.57 E-value=99 Score=27.55 Aligned_cols=51 Identities=18% Similarity=0.388 Sum_probs=41.8
Q ss_pred CCCcEEEEeecCCC---CCCCHHHHHHHHH--cCCeEEEeChHHHHHHHHHhhhccc
Q 030786 107 PIPEILILGCGRYI---EPVNPELRQFIRS--TGMKLEAIDSRNAASTYNILNEEGR 158 (171)
Q Consensus 107 p~PEvLIIGTG~~~---~~l~p~l~~~l~~--~GI~vEvMdT~aAcrTyNiL~sEGR 158 (171)
..|-.+-+|||... -.+--.+.+.+.+ .||.+++.+|+.....-| ++.+|+
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 46889999999984 3677888899988 999999999999998888 444444
No 85
>PLN02577 hydroxymethylglutaryl-CoA synthase
Probab=29.38 E-value=95 Score=28.83 Aligned_cols=44 Identities=25% Similarity=0.273 Sum_probs=30.8
Q ss_pred CCcEEEEeecCCCCC-CCHH--HHHHHHHcCC-eEEEeChHHHHHHHH
Q 030786 108 IPEILILGCGRYIEP-VNPE--LRQFIRSTGM-KLEAIDSRNAASTYN 151 (171)
Q Consensus 108 ~PEvLIIGTG~~~~~-l~p~--l~~~l~~~GI-~vEvMdT~aAcrTyN 151 (171)
.+|.||+||...... ++.. +...+...|. ...++|..+||.-|-
T Consensus 74 ~IdllivaTeT~~d~~ps~A~~v~~ll~~LG~~~~~afDi~~AC~G~~ 121 (459)
T PLN02577 74 QIGRLEVGSETVIDKSKSIKTFLMQLFEESGNTDIEGVDSTNACYGGT 121 (459)
T ss_pred HCCEEEEEcCCCCCCCCchHHHHHHHHHHhCCCCcEEeehhhhhHHHH
Confidence 589999999988543 3322 3444566565 468999999998663
No 86
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=29.24 E-value=88 Score=25.28 Aligned_cols=52 Identities=12% Similarity=0.211 Sum_probs=33.9
Q ss_pred CCCCCCChhhhh-hhhhhCCCCcEEEEeecCCC-CCCCHHHHHHHHHcCCeEEEeC
Q 030786 89 KKFSEITPNCLS-IFQLVRPIPEILILGCGRYI-EPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 89 ~~~~~l~~e~L~-~l~~l~p~PEvLIIGTG~~~-~~l~p~l~~~l~~~GI~vEvMd 142 (171)
+...-++++.+. .+. ..+-=++++|.|... .....++.++.++.||.+-..-
T Consensus 17 ~~a~~~~p~~aa~lI~--~AKrPlIivG~ga~~~~ea~e~l~elaEkl~iPVvtT~ 70 (171)
T PRK00945 17 KHAKIVSPKIAAMMIK--KAKRPLLVVGSLLLDDEELLDRAVKIAKKANIPVAATG 70 (171)
T ss_pred ccccccCHHHHHHHHH--hCCCcEEEECcCccccchHHHHHHHHHHHHCCCEEEcc
Confidence 344556777654 222 333449999999986 4445568888888888765543
No 87
>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=28.57 E-value=85 Score=22.98 Aligned_cols=49 Identities=18% Similarity=0.245 Sum_probs=30.5
Q ss_pred CcEEEEeec--CCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhcc
Q 030786 109 PEILILGCG--RYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEG 157 (171)
Q Consensus 109 PEvLIIGTG--~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL~sEG 157 (171)
++++|+..+ .......-++.+.|++.|+.+|+-...+--..+..-..+|
T Consensus 27 ~~v~Ii~~~~~~~~~~~a~~la~~LR~~gi~v~~d~~~sl~kqlk~A~k~g 77 (121)
T cd00858 27 IKVAVLPLVKRDELVEIAKEISEELRELGFSVKYDDSGSIGRRYARQDEIG 77 (121)
T ss_pred cEEEEEecCCcHHHHHHHHHHHHHHHHCCCEEEEeCCCCHHHHHHHhHhcC
Confidence 677788877 4444444567888999999999854333333343333334
No 88
>PF08459 UvrC_HhH_N: UvrC Helix-hairpin-helix N-terminal; InterPro: IPR001162 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. The UvrC proteins contain 4 conserved regions: a central region which interacts with UvrB (Uvr domain), a Helix hairpin Helix (HhH) domain important for 5 prime incision of damage DNA and the homology regions 1 and 2 of unknown function. UvrC homology region 2 is specific for UvrC proteins, whereas UvrC homology region 1 is also shared by few other nucleases. Proteins that contain the UvrC homology region 1, IPR000305 from INTERPRO, are listed below: Prokaryotic UvrC proteins. Bacteriophage T4 END2 protein. Small subunit of ribonucleotide reductase enzyme. T4 TEV1 protein. Endonuclease specific to the thymidylate synthase (td) gene splice junction. Found in putative intron-homing endonucleases encoded by group I introns of fungi and phage. Mycobacterium hypothetical protein Y002. Exonuclease by similarity. Bacillus subtilis hypothetical protein YURQ. ; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3C65_A 2NRZ_A 2NRR_A 2NRX_A 2NRV_A 2NRT_A 2NRW_A.
Probab=28.44 E-value=35 Score=27.18 Aligned_cols=81 Identities=14% Similarity=0.338 Sum_probs=44.4
Q ss_pred ceEEEEcCCeEEECCEEEeecEEEeCCceee------cCCCCCCCCChhhhhhh-hhh-----------CCCCcEEEEee
Q 030786 55 LRFQGYTDTGFTVNGVQYEGSLLCIGNLLLS------WTPKKFSEITPNCLSIF-QLV-----------RPIPEILILGC 116 (171)
Q Consensus 55 ~~I~~y~~g~f~Ing~~y~gsvii~p~~v~~------W~~~~~~~l~~e~L~~l-~~l-----------~p~PEvLIIGT 116 (171)
..|++|+...+ +|....|+++++.++... ++.++... .+|.+.+ +.+ .+-||+++|==
T Consensus 12 ~rIE~fDiSh~--~G~~~Vgs~Vvf~~G~~~k~~YR~f~i~~~~~--~dDy~~M~Evl~RR~~~~~~~~~~lPDLilIDG 87 (155)
T PF08459_consen 12 RRIECFDISHI--QGSDTVGSMVVFENGKPDKSEYRRFNIKTVDG--GDDYAAMREVLTRRFKRLKEEKEPLPDLILIDG 87 (155)
T ss_dssp SEEEEEEEEEC--TTTCEEEEEEEEETTEE-GGG-EEEEEE--ST--T-HHHHHHHHHHHHHCCCHHHT----SEEEESS
T ss_pred CEEEEEECccc--CCcccEEEEEEEECCccChhhCceEecCCCCC--CcHHHHHHHHHHHHHhcccccCCCCCCEEEEcC
Confidence 45777766554 677778999998666433 44332221 2343311 111 15699999988
Q ss_pred cCCCCCCCHHHHHHHHHcCCeEEEeC
Q 030786 117 GRYIEPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 117 G~~~~~l~p~l~~~l~~~GI~vEvMd 142 (171)
|..|. ....+.|++.|+.+.++.
T Consensus 88 G~gQl---~aa~~~l~~lgl~i~vig 110 (155)
T PF08459_consen 88 GKGQL---NAAKEVLKELGLNIPVIG 110 (155)
T ss_dssp SHHHH---HHHHHHHHCTT----EEE
T ss_pred CHHHH---HHHHHHHHHcCCCeEEEE
Confidence 88765 357778889998877664
No 89
>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=27.92 E-value=49 Score=27.86 Aligned_cols=39 Identities=23% Similarity=0.449 Sum_probs=32.9
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 146 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aA 146 (171)
.+.|+|.++|+|-|.- ...+.+..+..|..|.++|.+..
T Consensus 96 ~~~p~~~L~IfGaG~v----a~~la~la~~lGf~V~v~D~R~~ 134 (246)
T TIGR02964 96 EAPPAPHVVLFGAGHV----GRALVRALAPLPCRVTWVDSREA 134 (246)
T ss_pred ccCCCCEEEEECCcHH----HHHHHHHHhcCCCEEEEEeCCcc
Confidence 3468899999999974 45688899999999999998765
No 90
>PRK12753 transketolase; Reviewed
Probab=27.92 E-value=32 Score=33.21 Aligned_cols=35 Identities=11% Similarity=0.413 Sum_probs=25.9
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 108 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 108 ~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
++|++||+||.... ..-+..+.|+++||.+.+.+.
T Consensus 549 ~~dv~iia~Gs~v~-~al~Aa~~L~~~gi~~~Vv~~ 583 (663)
T PRK12753 549 KPDLILIATGSEVE-ITLQAAEKLTAEGRNVRVVSM 583 (663)
T ss_pred CCCEEEEEeCHHHH-HHHHHHHHHHhcCCCcEEEEC
Confidence 47999999997542 223566788889998888754
No 91
>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=27.82 E-value=37 Score=27.23 Aligned_cols=41 Identities=15% Similarity=0.192 Sum_probs=33.4
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHH
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYN 151 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyN 151 (171)
+++.-||.--..-.+++.+.|++.|..|.++=|++|.+...
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 56666777655566788999999999999999999998766
No 92
>PRK09212 pyruvate dehydrogenase subunit beta; Validated
Probab=27.56 E-value=33 Score=30.05 Aligned_cols=39 Identities=18% Similarity=0.333 Sum_probs=28.4
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
.+....|++||++|..... -.+..+.|++.||.+++++-
T Consensus 197 vl~~G~di~iva~G~~~~~-a~eAa~~L~~~Gi~v~vi~~ 235 (327)
T PRK09212 197 ILREGSDVTIVTFSIQVKL-ALEAAELLEKEGISVEVIDL 235 (327)
T ss_pred EEEeCCCEEEEEccHHHHH-HHHHHHHHHhcCCcEEEEEE
Confidence 4455789999999986533 33455667889999998854
No 93
>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=27.44 E-value=1.5e+02 Score=26.65 Aligned_cols=43 Identities=19% Similarity=0.281 Sum_probs=35.1
Q ss_pred CCCCHHHHHHHHHcCCeEEEeC----------------------------hHHHHHHHHHhhhccceeEEE
Q 030786 121 EPVNPELRQFIRSTGMKLEAID----------------------------SRNAASTYNILNEEGRIVAAA 163 (171)
Q Consensus 121 ~~l~p~l~~~l~~~GI~vEvMd----------------------------T~aAcrTyNiL~sEGR~VaAA 163 (171)
...++++.+.|+++||.+.... ++++|+.-|.-.++|++|.|.
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 4678999999999999876553 367888889888899998873
No 94
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=27.39 E-value=60 Score=21.80 Aligned_cols=17 Identities=18% Similarity=0.538 Sum_probs=14.3
Q ss_pred HHHHHHHHHcCCeEEEe
Q 030786 125 PELRQFIRSTGMKLEAI 141 (171)
Q Consensus 125 p~l~~~l~~~GI~vEvM 141 (171)
.+..++|+++|+.+|+.
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 46788999999999974
No 95
>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=27.37 E-value=2.1e+02 Score=22.35 Aligned_cols=35 Identities=17% Similarity=0.156 Sum_probs=25.8
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 106 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 106 ~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
.-+||+||...+. -..+....+.+.||.+-+.++.
T Consensus 58 ~l~PDlIi~~~~~----~~~~~~~~~~~~~ip~~~~~~~ 92 (238)
T PF01497_consen 58 ALKPDLIIGSSFY----GQSEEIEKLLEAGIPVVVFDSS 92 (238)
T ss_dssp HT--SEEEEETTS----SCHHHHHHHHHTTSEEEEESST
T ss_pred hCCCCEEEEeccc----cchHHHHHHhcccceEEEeecc
Confidence 4469999887766 4566777788899999999874
No 96
>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=27.24 E-value=79 Score=26.67 Aligned_cols=93 Identities=17% Similarity=0.168 Sum_probs=56.8
Q ss_pred eEEECCEEEeecEEEeCCceeecC-----CCCCCCCChhhhh-hhhhhC-CCCcEEEEeecCCCCCCCHHHHHHHHHc-C
Q 030786 64 GFTVNGVQYEGSLLCIGNLLLSWT-----PKKFSEITPNCLS-IFQLVR-PIPEILILGCGRYIEPVNPELRQFIRST-G 135 (171)
Q Consensus 64 ~f~Ing~~y~gsvii~p~~v~~W~-----~~~~~~l~~e~L~-~l~~l~-p~PEvLIIGTG~~~~~l~p~l~~~l~~~-G 135 (171)
.+.++|+.|....=+.++..+.+- ...-+..+++++. .|+.+. ..-+++.|.-...+----.....+-+.. +
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 467788888765445444444431 1134456777764 444432 2237888888777543333343343333 5
Q ss_pred CeEEEeChHHHHHHHHHhhhc
Q 030786 136 MKLEAIDSRNAASTYNILNEE 156 (171)
Q Consensus 136 I~vEvMdT~aAcrTyNiL~sE 156 (171)
+.+.++||..+|-..-.++-+
T Consensus 107 ~~i~ViDS~~~s~~~g~~v~~ 127 (275)
T TIGR00762 107 AKVTVIDSKSASMGLGLLVLE 127 (275)
T ss_pred CCEEEECChHHHHHHHHHHHH
Confidence 789999999999888777654
No 97
>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=27.20 E-value=56 Score=22.98 Aligned_cols=20 Identities=20% Similarity=0.376 Sum_probs=17.0
Q ss_pred HHHHHHHHHcCCeEEEeChH
Q 030786 125 PELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 125 p~l~~~l~~~GI~vEvMdT~ 144 (171)
.++.+.|.+.||.+|-|+|+
T Consensus 19 rk~L~I~E~~~is~Eh~PSG 38 (76)
T cd04911 19 RKLLSILEDNGISYEHMPSG 38 (76)
T ss_pred HHHHHHHHHcCCCEeeecCC
Confidence 45667899999999999985
No 98
>PRK01424 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=26.98 E-value=1.6e+02 Score=26.82 Aligned_cols=43 Identities=16% Similarity=0.290 Sum_probs=34.7
Q ss_pred CCCCHHHHHHHHHcCCeEEEeC----------------------------hHHHHHHHHHhhhccceeEEE
Q 030786 121 EPVNPELRQFIRSTGMKLEAID----------------------------SRNAASTYNILNEEGRIVAAA 163 (171)
Q Consensus 121 ~~l~p~l~~~l~~~GI~vEvMd----------------------------T~aAcrTyNiL~sEGR~VaAA 163 (171)
...++++.+.|+++||.+-... ++..++.-|.-.++||+|.|.
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 4678999999999999876543 267888888888999998873
No 99
>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=26.60 E-value=1.9e+02 Score=24.12 Aligned_cols=68 Identities=15% Similarity=0.193 Sum_probs=46.3
Q ss_pred ceeecCCCCCCCCChhhhhhhhhhCCCCcEEEEe--ecCC-CCCCCHHHHH----HHHHcCCeEEEeChHHHHHHHHHhh
Q 030786 82 LLLSWTPKKFSEITPNCLSIFQLVRPIPEILILG--CGRY-IEPVNPELRQ----FIRSTGMKLEAIDSRNAASTYNILN 154 (171)
Q Consensus 82 ~v~~W~~~~~~~l~~e~L~~l~~l~p~PEvLIIG--TG~~-~~~l~p~l~~----~l~~~GI~vEvMdT~aAcrTyNiL~ 154 (171)
.+.--+++...+|+++|.+ +.|++|+| .|.. .+-=..+++. -+..+.+|=.-|+|.-|+++-.+..
T Consensus 64 ~VcLLDP~A~~~L~PeD~~-------~fd~fvfGGILGD~PPrdRT~eLr~~~~~g~~~R~LG~~QmTtDtAV~vt~~i~ 136 (196)
T PF04252_consen 64 RVCLLDPAAEKELSPEDGE-------KFDYFVFGGILGDHPPRDRTSELRTKKPKGFEGRRLGPKQMTTDTAVRVTKLIV 136 (196)
T ss_pred CEEEeCCCCCCCCCccccC-------cccEEEECcccCCCCCCCchHHHHhhhccCccccccCCccccccHHHHHHHHHH
Confidence 3444566677888998865 48999999 3444 1111223332 3456889999999999999998766
Q ss_pred hc
Q 030786 155 EE 156 (171)
Q Consensus 155 sE 156 (171)
..
T Consensus 137 e~ 138 (196)
T PF04252_consen 137 ED 138 (196)
T ss_pred cC
Confidence 54
No 100
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase
Probab=26.57 E-value=1.5e+02 Score=26.83 Aligned_cols=60 Identities=10% Similarity=0.082 Sum_probs=42.7
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHH----HHHhhhccceeEEE
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAAST----YNILNEEGRIVAAA 163 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrT----yNiL~sEGR~VaAA 163 (171)
++..++.-|++|+-.........-.+.|++.||.|+.---..+|+. |..=..++|.-+.+
T Consensus 117 ii~agI~rVv~g~~dp~~~~~g~g~~~l~~~gi~V~~g~~~~e~~~l~~~f~~~~~~~rP~V~l 180 (380)
T PLN02807 117 LIKAKVKRVVVGMVDPNPIVASKGIERLRDAGIEVTVGVEEELCRKLNEAFIHRMLTGKPFVTL 180 (380)
T ss_pred HHHhCCCEEEEEecCCCccccchHHHHHHhCCCEEEeCcCHHHHHHHHHHHHHHHhhccccEEE
Confidence 3455789999999776555566677899999999987445677776 55546667765443
No 101
>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=26.44 E-value=1.1e+02 Score=19.23 Aligned_cols=31 Identities=10% Similarity=0.087 Sum_probs=21.9
Q ss_pred EEEeecCCC-CCCCHHHHHHHHHcCCeEEEeC
Q 030786 112 LILGCGRYI-EPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 112 LIIGTG~~~-~~l~p~l~~~l~~~GI~vEvMd 142 (171)
=++|+|-.. ..+-.++.+.|.+.||.++.+.
T Consensus 5 svvg~~~~~~~~~~~~if~~L~~~~I~v~~i~ 36 (66)
T cd04919 5 SLVGKHMKNMIGIAGRMFTTLADHRINIEMIS 36 (66)
T ss_pred EEECCCCCCCcCHHHHHHHHHHHCCCCEEEEE
Confidence 356777753 3455678888899999887664
No 102
>KOG0291 consensus WD40-repeat-containing subunit of the 18S rRNA processing complex [RNA processing and modification]
Probab=25.83 E-value=1.1e+02 Score=30.60 Aligned_cols=81 Identities=25% Similarity=0.332 Sum_probs=51.0
Q ss_pred cccccccccccCCCCCcceEEEEcCCeEEE-CCEE--------------------EeecEEEe---CCceeecCCCC---
Q 030786 38 FSLYDQINLIDNVPEDQLRFQGYTDTGFTV-NGVQ--------------------YEGSLLCI---GNLLLSWTPKK--- 90 (171)
Q Consensus 38 ~~~~~~~~~~~~~~~~~~~I~~y~~g~f~I-ng~~--------------------y~gsvii~---p~~v~~W~~~~--- 90 (171)
+..|+.++-++=.|+++..++|.++|.+.| |-+. -.|-+++. ++.|..|+.+.
T Consensus 347 QgH~~~i~~l~YSpDgq~iaTG~eDgKVKvWn~~SgfC~vTFteHts~Vt~v~f~~~g~~llssSLDGtVRAwDlkRYrN 426 (893)
T KOG0291|consen 347 QGHSDRITSLAYSPDGQLIATGAEDGKVKVWNTQSGFCFVTFTEHTSGVTAVQFTARGNVLLSSSLDGTVRAWDLKRYRN 426 (893)
T ss_pred cccccceeeEEECCCCcEEEeccCCCcEEEEeccCceEEEEeccCCCceEEEEEEecCCEEEEeecCCeEEeeeecccce
Confidence 355777888888999999999999999998 4211 12333332 45577788653
Q ss_pred ---CCCCChhhhhhhhhhCCCCcEEEEeecCC
Q 030786 91 ---FSEITPNCLSIFQLVRPIPEILILGCGRY 119 (171)
Q Consensus 91 ---~~~l~~e~L~~l~~l~p~PEvLIIGTG~~ 119 (171)
+.-=.+-.+.-+ .++|.=|+|+.|+=..
T Consensus 427 fRTft~P~p~Qfscv-avD~sGelV~AG~~d~ 457 (893)
T KOG0291|consen 427 FRTFTSPEPIQFSCV-AVDPSGELVCAGAQDS 457 (893)
T ss_pred eeeecCCCceeeeEE-EEcCCCCEEEeeccce
Confidence 211122233321 2366778999887554
No 103
>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=25.62 E-value=37 Score=23.29 Aligned_cols=32 Identities=28% Similarity=0.474 Sum_probs=23.2
Q ss_pred EEEEeecC---CCCCCCHHHHHHHHHcCCeEEEeC
Q 030786 111 ILILGCGR---YIEPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 111 vLIIGTG~---~~~~l~p~l~~~l~~~GI~vEvMd 142 (171)
+.|+-.|. .......++.+.|++.||.+++-+
T Consensus 2 v~Ii~~~~~~~~~~~~a~~l~~~L~~~gi~v~~d~ 36 (94)
T PF03129_consen 2 VVIIPVGKKDEEIIEYAQELANKLRKAGIRVELDD 36 (94)
T ss_dssp EEEEESSCSHHHHHHHHHHHHHHHHHTTSEEEEES
T ss_pred EEEEEeCCCcHHHHHHHHHHHHHHHHCCCEEEEEC
Confidence 45555555 344556778899999999999884
No 104
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=25.56 E-value=52 Score=28.60 Aligned_cols=37 Identities=32% Similarity=0.616 Sum_probs=24.5
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHH
Q 030786 106 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNA 146 (171)
Q Consensus 106 ~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aA 146 (171)
..++|.||+|| .+.-++-+.+++++ |-.+-++|++++
T Consensus 175 ~~~~DtlVLGC-THyPll~~~i~~~~---~~~v~lids~~~ 211 (269)
T COG0796 175 EAGPDTLVLGC-THYPLLKPEIQQVL---GEHVALIDSGAE 211 (269)
T ss_pred ccCCCEEEEeC-cCcHHHHHHHHHHh---CCCceEeCCHHH
Confidence 34699999999 33334555555554 447889998844
No 105
>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=25.36 E-value=69 Score=27.46 Aligned_cols=33 Identities=21% Similarity=0.469 Sum_probs=25.1
Q ss_pred EeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHH
Q 030786 114 LGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAA 147 (171)
Q Consensus 114 IGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAc 147 (171)
||-|-.. .-+|++.+.++++||.+|+.+|.+-.
T Consensus 194 IgHg~~~-~~~p~~~~~l~~~~i~ie~CP~SN~~ 226 (305)
T cd00443 194 IGHGIFL-LKHPELIYLVKLRNIPIEVCPTSNVV 226 (305)
T ss_pred eeceEec-CCCHHHHHHHHHcCCEEEECcchhhh
Confidence 3444433 24579999999999999999998764
No 106
>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=25.33 E-value=87 Score=20.54 Aligned_cols=37 Identities=11% Similarity=0.224 Sum_probs=25.3
Q ss_pred CCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhccc
Q 030786 122 PVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEEGR 158 (171)
Q Consensus 122 ~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL~sEGR 158 (171)
.....++++|.++||.++..+...--.++..+..-|+
T Consensus 10 p~C~~ak~~L~~~~i~~~~~di~~~~~~~~~~~~~g~ 46 (72)
T TIGR02194 10 VQCKMTKKALEEHGIAFEEINIDEQPEAIDYVKAQGF 46 (72)
T ss_pred HHHHHHHHHHHHCCCceEEEECCCCHHHHHHHHHcCC
Confidence 4567789999999999999875543334444444453
No 107
>PRK00558 uvrC excinuclease ABC subunit C; Validated
Probab=25.14 E-value=2e+02 Score=27.61 Aligned_cols=85 Identities=9% Similarity=0.266 Sum_probs=55.3
Q ss_pred CcceEEEEcCCeEEECCEEEeecEEEeCCceee------cCCCCCCCCChhhhhhh-hhh-----------CCCCcEEEE
Q 030786 53 DQLRFQGYTDTGFTVNGVQYEGSLLCIGNLLLS------WTPKKFSEITPNCLSIF-QLV-----------RPIPEILIL 114 (171)
Q Consensus 53 ~~~~I~~y~~g~f~Ing~~y~gsvii~p~~v~~------W~~~~~~~l~~e~L~~l-~~l-----------~p~PEvLII 114 (171)
.-.+|++|+... ++|....||++++.++... .+.++.. ..||.+.+ +++ .+-||++||
T Consensus 382 ~p~rIE~fDiSh--~~G~~~V~smVvf~~G~~~k~~YR~f~i~~~~--~~dDya~m~Evl~RR~~~~~~~~~~~PDLili 457 (598)
T PRK00558 382 PPYRIECFDISH--IQGTATVASMVVFEDGGPDKSEYRRYNIKGVT--GGDDYAAMREVLTRRYSRLLKEFGPLPDLILI 457 (598)
T ss_pred CCCEEEEEECCc--cCCCcceEEEEEEECCccChhhCCeeecCCCC--CCCHHHHHHHHHHHHhhccccccCCCCCEEEE
Confidence 346899998877 6788888999999766533 2333321 23444311 111 146999999
Q ss_pred eecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 115 GCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 115 GTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
==|..+.. ...+.|++.|+.+.++..+
T Consensus 458 DGGkgQl~---~a~~~l~~lg~~i~v~gla 484 (598)
T PRK00558 458 DGGKGQLN---AAKEVLEELGLDIPVVGLA 484 (598)
T ss_pred eCCHHHHH---HHHHHHHHCCCCCcEEEEE
Confidence 98888763 4566678888877766543
No 108
>PRK06116 glutathione reductase; Validated
Probab=24.81 E-value=3.7e+02 Score=23.89 Aligned_cols=76 Identities=17% Similarity=0.195 Sum_probs=37.6
Q ss_pred cCCeEEECCEEEeecEEEeCCceee-cCC-CCCC-CCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCe
Q 030786 61 TDTGFTVNGVQYEGSLLCIGNLLLS-WTP-KKFS-EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMK 137 (171)
Q Consensus 61 ~~g~f~Ing~~y~gsvii~p~~v~~-W~~-~~~~-~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~ 137 (171)
+...+.++|.++..+-+|.-.+..+ |.. ...+ -++.++ .+.....+-.++|||.|.. .-++...|.+.|..
T Consensus 119 ~~~~v~~~g~~~~~d~lViATGs~p~~p~i~g~~~~~~~~~--~~~~~~~~~~vvViGgG~~----g~E~A~~l~~~g~~ 192 (450)
T PRK06116 119 DAHTVEVNGERYTADHILIATGGRPSIPDIPGAEYGITSDG--FFALEELPKRVAVVGAGYI----AVEFAGVLNGLGSE 192 (450)
T ss_pred cCCEEEECCEEEEeCEEEEecCCCCCCCCCCCcceeEchhH--hhCccccCCeEEEECCCHH----HHHHHHHHHHcCCe
Confidence 3456667777777664444333222 221 1111 112222 2222122347899998853 34556667777777
Q ss_pred EEEeC
Q 030786 138 LEAID 142 (171)
Q Consensus 138 vEvMd 142 (171)
|.+..
T Consensus 193 Vtlv~ 197 (450)
T PRK06116 193 THLFV 197 (450)
T ss_pred EEEEe
Confidence 66553
No 109
>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=24.61 E-value=1.8e+02 Score=24.26 Aligned_cols=53 Identities=15% Similarity=0.132 Sum_probs=35.4
Q ss_pred hCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH------HHHHHHHHhhhcccee
Q 030786 105 VRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR------NAASTYNILNEEGRIV 160 (171)
Q Consensus 105 l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~------aAcrTyNiL~sEGR~V 160 (171)
+.+++|++++-|+...+ .++...+-++|+.+-||+.. .+-+......+-|+++
T Consensus 34 l~~~vDaVviatp~~~H---~e~a~~aL~aGkhVl~~s~gAlad~e~~~~l~~aA~~~g~~l 92 (229)
T TIGR03855 34 LPEDVDIVVEAASQEAV---KEYAEKILKNGKDLLIMSVGALADRELRERLREVARSSGRKV 92 (229)
T ss_pred hcCCCCEEEECCChHHH---HHHHHHHHHCCCCEEEECCcccCCHHHHHHHHHHHHhcCCEE
Confidence 35679999999987654 56666677789999998762 2333444443446554
No 110
>COG1993 PII-like signaling protein [Signal transduction mechanisms]
Probab=24.58 E-value=68 Score=24.35 Aligned_cols=44 Identities=14% Similarity=0.164 Sum_probs=33.5
Q ss_pred EEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHhhhc
Q 030786 113 ILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNILNEE 156 (171)
Q Consensus 113 IIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL~sE 156 (171)
|-|.|.....-..++.+.-...=|-+|+.|++.+.+.|=-.+.|
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 56778777666667777777788899999999999877544444
No 111
>PRK04148 hypothetical protein; Provisional
Probab=24.48 E-value=1.3e+02 Score=23.36 Aligned_cols=31 Identities=26% Similarity=0.485 Sum_probs=23.7
Q ss_pred cEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHH
Q 030786 110 EILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRN 145 (171)
Q Consensus 110 EvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~a 145 (171)
.++.||+|.. .++...|.+.|..|-..|...
T Consensus 19 kileIG~GfG-----~~vA~~L~~~G~~ViaIDi~~ 49 (134)
T PRK04148 19 KIVELGIGFY-----FKVAKKLKESGFDVIVIDINE 49 (134)
T ss_pred EEEEEEecCC-----HHHHHHHHHCCCEEEEEECCH
Confidence 4999999932 356778889998888887543
No 112
>PRK00147 queA S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional
Probab=24.37 E-value=1.8e+02 Score=26.09 Aligned_cols=43 Identities=19% Similarity=0.290 Sum_probs=34.7
Q ss_pred CCCCHHHHHHHHHcCCeEEEeC----------------------------hHHHHHHHHHhhhccceeEEE
Q 030786 121 EPVNPELRQFIRSTGMKLEAID----------------------------SRNAASTYNILNEEGRIVAAA 163 (171)
Q Consensus 121 ~~l~p~l~~~l~~~GI~vEvMd----------------------------T~aAcrTyNiL~sEGR~VaAA 163 (171)
...++++.+.|+++||.+.... ++++++.-|.-.++|++|.|.
T Consensus 183 LHFt~~ll~~L~~kGv~~a~vTLHVG~GTF~PV~~edi~~H~mH~E~~~I~~~ta~~i~~ak~~G~rIiAV 253 (342)
T PRK00147 183 LHFTEELLEKLKAKGVEIAFVTLHVGAGTFRPVRVEDIEEHKMHSEWYEVPQETADAINAAKARGGRVIAV 253 (342)
T ss_pred cCCCHHHHHHHHHCCCcEEEEEEeecCCCCcCcccCccccCCcccEEEEECHHHHHHHHHHHHcCCeEEEE
Confidence 4678999999999998876543 267888889888899998873
No 113
>PRK12571 1-deoxy-D-xylulose-5-phosphate synthase; Provisional
Probab=24.29 E-value=41 Score=32.31 Aligned_cols=40 Identities=20% Similarity=0.412 Sum_probs=30.5
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
.+....|+.||++|.... ..-+..+.|++.||.+++.|..
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 345578999999997643 3445667788999999998763
No 114
>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=24.00 E-value=99 Score=18.95 Aligned_cols=31 Identities=23% Similarity=0.432 Sum_probs=21.3
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeCh
Q 030786 113 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 113 IIGTG~~~-~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
++|.|-.. ..+..++.+.|.+.||.+..+.+
T Consensus 5 v~g~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 36 (63)
T cd04923 5 IVGAGMRSHPGVAAKMFKALAEAGINIEMIST 36 (63)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCCEEEEEc
Confidence 45655542 34455688888889999988864
No 115
>PLN02790 transketolase
Probab=23.36 E-value=50 Score=31.80 Aligned_cols=35 Identities=20% Similarity=0.536 Sum_probs=27.3
Q ss_pred CcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 109 PEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 109 PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
+|++||+||.... ..-+..+.|+++||.+.+.+..
T Consensus 541 ~dv~iia~G~~v~-~Al~Aa~~L~~~gi~~~VV~~~ 575 (654)
T PLN02790 541 PDLILIGTGSELE-IAAKAAKELRKEGKKVRVVSMV 575 (654)
T ss_pred CCEEEEEcCHHHH-HHHHHHHHHHhcCCceEEEecC
Confidence 8999999997543 2445677889999999988753
No 116
>PF02547 Queuosine_synth: Queuosine biosynthesis protein; InterPro: IPR003699 This entry represents the queuosine biosynthesis proteins QueA. Queuosine is a hypermodified nucleoside that usually occurs in the first position of the anticodon of tRNAs specifying the amino acids asparagine, aspartate, histidine, and tyrosine. The hypermodified nucleoside is found in bacteria and eukaryotes []. Queuosine is synthesized de novo exclusively in bacteria; for eukaryotes the compound is a nutrient factor. Queuosine biosynthesis protein, or S-adenosylmethionine:tRNA-ribosyltransferase-isomerase (QueA) catalyses the formation of the 2,3-epoxy-4,5-dihydroxycyclopentane ring of the Q precursor epoxyqueuosine (oQ). S-adenosyl-L-methionine (AdoMet) reacts with 7-aminomethyl-7-deazaguanine of tRNA at position 34 to yield adenine, methionine, and a modified tRNA with oQ at position 34. QueA consists of two domains: domain 1 has 3 layers alpha/beta/alpha, while domain 2 is a closed beta-barrel with Greek-key topology [].; GO: 0016740 transferase activity, 0016853 isomerase activity, 0008616 queuosine biosynthetic process; PDB: 1WDI_A 1VKY_B 1YY3_A.
Probab=23.35 E-value=1.2e+02 Score=27.26 Aligned_cols=43 Identities=21% Similarity=0.295 Sum_probs=30.1
Q ss_pred CCCCHHHHHHHHHcCCeEEEeC----------------------------hHHHHHHHHHhhhccceeEEE
Q 030786 121 EPVNPELRQFIRSTGMKLEAID----------------------------SRNAASTYNILNEEGRIVAAA 163 (171)
Q Consensus 121 ~~l~p~l~~~l~~~GI~vEvMd----------------------------T~aAcrTyNiL~sEGR~VaAA 163 (171)
...++++.+.|+++||.+.... +++.|+.-|.-.++||+|.|.
T Consensus 183 LHFt~~ll~~l~~kGv~~a~vTLHVG~GTF~pV~~e~i~~H~mh~E~~~I~~~ta~~i~~ak~~G~RViAV 253 (341)
T PF02547_consen 183 LHFTEELLERLKAKGVEIAFVTLHVGLGTFRPVRVEDIEEHKMHSEYYEIPEETAEAINKAKAEGGRVIAV 253 (341)
T ss_dssp GG--HHHHHHHHHHTEEEEEEEEEECGGGG---------------EEEEE-HHHHHHHHHHHHTT--EEEE
T ss_pred CCCCHHHHHHHHHCCCeEEEEEEEeccCcccccCcCcccCCCCcceEEEECHHHHHHHHHHHHhCCcEEEE
Confidence 4567888899999988876542 267888888888999999873
No 117
>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=23.30 E-value=1.5e+02 Score=17.98 Aligned_cols=27 Identities=15% Similarity=0.014 Sum_probs=15.4
Q ss_pred cCCeEEECCEEE-eecEEEeCCceeecC
Q 030786 61 TDTGFTVNGVQY-EGSLLCIGNLLLSWT 87 (171)
Q Consensus 61 ~~g~f~Ing~~y-~gsvii~p~~v~~W~ 87 (171)
..|++.+||+.. ..+-.+.++....+.
T Consensus 24 ~~g~V~vn~~~~~~~~~~v~~~d~i~i~ 51 (70)
T cd00165 24 KHGHVLVNGKVVTKPSYKVKPGDVIEVD 51 (70)
T ss_pred HcCCEEECCEEccCCccCcCCCCEEEEc
Confidence 567888888876 333444443333443
No 118
>COG3414 SgaB Phosphotransferase system, galactitol-specific IIB component [Carbohydrate transport and metabolism]
Probab=23.28 E-value=43 Score=24.37 Aligned_cols=31 Identities=13% Similarity=0.239 Sum_probs=22.8
Q ss_pred EEEeecCC-CCCCCHHHHHHHHHcCC--eEEEeC
Q 030786 112 LILGCGRY-IEPVNPELRQFIRSTGM--KLEAID 142 (171)
Q Consensus 112 LIIGTG~~-~~~l~p~l~~~l~~~GI--~vEvMd 142 (171)
.+-|+|-. .+.+-.++.++|+++|| .++.+.
T Consensus 6 ~aCG~GvgSS~~ik~kve~~l~~~gi~~~~~~~~ 39 (93)
T COG3414 6 AACGNGVGSSTMIKMKVEEVLKELGIDVDVEQCA 39 (93)
T ss_pred EECCCCccHHHHHHHHHHHHHHHcCCCceeeeEE
Confidence 44566666 45788889999999999 555543
No 119
>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=22.94 E-value=49 Score=31.65 Aligned_cols=39 Identities=26% Similarity=0.474 Sum_probs=28.8
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
++.+..|+.||++|.-.. ..-+..+.|++.||.+++.|.
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 445678999999997543 233445678889999999765
No 120
>PRK09534 btuF corrinoid ABC transporter substrate-binding protein; Reviewed
Probab=22.90 E-value=1.5e+02 Score=26.02 Aligned_cols=34 Identities=15% Similarity=0.240 Sum_probs=25.0
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMd 142 (171)
++.-+||+||...+ .+.+..+.|++.||.+-+.+
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 13568899999999997764
No 121
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=22.84 E-value=59 Score=26.17 Aligned_cols=42 Identities=14% Similarity=0.197 Sum_probs=33.5
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHH
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNI 152 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNi 152 (171)
++|.-||.--..-.+++.+.|++.|..|.+.=|++|.+-..-
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 566677776444568888999999999999999999887663
No 122
>PF04199 Cyclase: Putative cyclase; InterPro: IPR007325 Proteins in this family are thought to be cyclase enzymes. They are found in proteins involved in antibiotic synthesis. However they are also found in organisms that do not make antibiotics pointing to a wider role for these proteins. The proteins contain a conserved motif HXGTHXDXPXH that is likely to form a part of the active site.; PDB: 2B0A_A 3KRV_A 1R61_A.
Probab=22.71 E-value=56 Score=25.25 Aligned_cols=65 Identities=17% Similarity=0.221 Sum_probs=36.9
Q ss_pred CCceeecCC---CCCCCCChhhhhhh-hh---hCCCCcEEEEeecCC--C------------CCCCHHHHHHHHHcCCeE
Q 030786 80 GNLLLSWTP---KKFSEITPNCLSIF-QL---VRPIPEILILGCGRY--I------------EPVNPELRQFIRSTGMKL 138 (171)
Q Consensus 80 p~~v~~W~~---~~~~~l~~e~L~~l-~~---l~p~PEvLIIGTG~~--~------------~~l~p~l~~~l~~~GI~v 138 (171)
+..++++.. .....|+.++|+.. +. --++.|+|||=||-. . -.++++..++|.++||.+
T Consensus 80 ~~vviD~~~~~~~~~~~It~~dl~~~~~~~~~~i~~gdivlirTG~~~~~~~~~~~~y~~~~p~ls~eaa~~L~~~~v~~ 159 (171)
T PF04199_consen 80 PAVVIDVSHDKQPPGEAITAEDLEAAWEAQGVEIRPGDIVLIRTGWNDKRWEMGTEEYFNDFPGLSPEAAEWLAERGVKA 159 (171)
T ss_dssp EEEEEETTT------SEE-HHHHTT------S---TTSEEEEE-CG-GGGT--TSGCGGCT--EE-HCCHHHHHHCT-SE
T ss_pred cEEEEeccccccCCCceEcHHHHHhhhcccccccCCCcEEEEECCchhhhcccCCHhHccCCCcCCHHHHHHHHHCCCCE
Confidence 333445544 34567888888632 21 124689999999961 1 136778999999999988
Q ss_pred EEeChH
Q 030786 139 EAIDSR 144 (171)
Q Consensus 139 EvMdT~ 144 (171)
--.||.
T Consensus 160 vG~D~~ 165 (171)
T PF04199_consen 160 VGIDTP 165 (171)
T ss_dssp EEESSS
T ss_pred EEECCC
Confidence 777764
No 123
>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=22.67 E-value=2e+02 Score=24.01 Aligned_cols=35 Identities=9% Similarity=0.196 Sum_probs=24.9
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
++.-+||++|...+ .+++..+.|++.||.+-+.++
T Consensus 87 I~al~PDlIi~~~~-----~~~~~~~~l~~~gi~v~~~~~ 121 (289)
T TIGR03659 87 IKSLKPTVVLSVTT-----LEEDLGPKFKQLGVEATFLNL 121 (289)
T ss_pred HhccCCcEEEEcCc-----ccHHHHHHHHHcCCcEEEEcC
Confidence 33456999986422 346778999999999877643
No 124
>PRK11892 pyruvate dehydrogenase subunit beta; Provisional
Probab=22.67 E-value=45 Score=30.95 Aligned_cols=39 Identities=15% Similarity=0.178 Sum_probs=29.4
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
++...-|+.||++|.-.. ..-+..+.|++.||.+|+.|.
T Consensus 336 v~r~G~DvtIva~G~~v~-~Al~Aa~~L~~~GI~~~VIdl 374 (464)
T PRK11892 336 IHREGKDVTIVSFSIGMT-YALKAAEELAKEGIDAEVIDL 374 (464)
T ss_pred EEEcCCCEEEEEccHHHH-HHHHHHHHHHhcCCCEEEEEC
Confidence 455677999999997533 334566778899999999864
No 125
>cd04916 ACT_AKiii-YclM-BS_2 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. B. subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from B. subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.65 E-value=1.1e+02 Score=19.14 Aligned_cols=31 Identities=16% Similarity=0.300 Sum_probs=21.2
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeCh
Q 030786 113 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 113 IIGTG~~~-~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
++|.|-.- ..+..++.+.|.+.||.++.+..
T Consensus 6 ivg~~~~~~~~~~~~i~~~L~~~~i~v~~i~~ 37 (66)
T cd04916 6 VVGEGMKNTVGVSARATAALAKAGINIRMINQ 37 (66)
T ss_pred EEcCCCCCCccHHHHHHHHHHHCCCCEEEEEe
Confidence 56766642 34455677888889999987754
No 126
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=22.54 E-value=1.4e+02 Score=19.82 Aligned_cols=35 Identities=11% Similarity=0.107 Sum_probs=22.4
Q ss_pred CcEEEEeecC---CCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 109 PEILILGCGR---YIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 109 PEvLIIGTG~---~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
.+++|+..+. ......-++.+.|++.|+.+++-..
T Consensus 2 ~~v~ii~~~~~~~~~~~~a~~~~~~Lr~~g~~v~~~~~ 39 (94)
T cd00738 2 IDVAIVPLTDPRVEAREYAQKLLNALLANGIRVLYDDR 39 (94)
T ss_pred eEEEEEECCCCcHHHHHHHHHHHHHHHHCCCEEEecCC
Confidence 3566776665 3223334567788889999987553
No 127
>PF10865 DUF2703: Domain of unknown function (DUF2703); InterPro: IPR021219 This family of protein has no known function.
Probab=22.30 E-value=22 Score=27.21 Aligned_cols=36 Identities=17% Similarity=0.279 Sum_probs=29.0
Q ss_pred eecCCCCCCCHHHHHHHHHcCCeEEE----eChHHHHHHH
Q 030786 115 GCGRYIEPVNPELRQFIRSTGMKLEA----IDSRNAASTY 150 (171)
Q Consensus 115 GTG~~~~~l~p~l~~~l~~~GI~vEv----MdT~aAcrTy 150 (171)
+||+.+...-.+++..|+..||.+++ |++.+-.+.|
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 57777777778899999999999875 6777777777
No 128
>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=22.17 E-value=2.1e+02 Score=19.52 Aligned_cols=39 Identities=10% Similarity=0.112 Sum_probs=29.1
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh----HHHHHHH
Q 030786 106 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS----RNAASTY 150 (171)
Q Consensus 106 ~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT----~aAcrTy 150 (171)
..+.|+||.|. ..+.....|+++||.+-.... ..|...|
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 45799999884 667888999999999875543 5555544
No 129
>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=22.02 E-value=1.9e+02 Score=23.10 Aligned_cols=35 Identities=17% Similarity=0.324 Sum_probs=24.3
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeC
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAID 142 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMd 142 (171)
++.-+||+++. ++.. .+....+.|++.||.+-+++
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 33456999864 4432 24578899999999987765
No 130
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=21.82 E-value=73 Score=26.36 Aligned_cols=62 Identities=15% Similarity=0.191 Sum_probs=40.7
Q ss_pred CCCcEEEEeecCCC-CCCCHHHHHHHHHcCCeEE--------E----------e-ChHHHHHHHHHhhhccceeEEEecc
Q 030786 107 PIPEILILGCGRYI-EPVNPELRQFIRSTGMKLE--------A----------I-DSRNAASTYNILNEEGRIVAAALLP 166 (171)
Q Consensus 107 p~PEvLIIGTG~~~-~~l~p~l~~~l~~~GI~vE--------v----------M-dT~aAcrTyNiL~sEGR~VaAALip 166 (171)
..+|++++..-+.. ...-+.+.+.++.-|+-+- + + ....+.|.||..+.+..++...++|
T Consensus 143 ~~fD~VfiDa~k~~y~~~~~~~~~ll~~GG~ii~dn~l~~G~v~~~~~~~~~~~~~~~~~ir~~~~~i~~~~~~~~~~lp 222 (234)
T PLN02781 143 PEFDFAFVDADKPNYVHFHEQLLKLVKVGGIIAFDNTLWFGFVAQEEDEVPEHMRAYRKALLEFNKLLASDPRVEISQIS 222 (234)
T ss_pred CCCCEEEECCCHHHHHHHHHHHHHhcCCCeEEEEEcCCcCCeecCcccccchhhhHHHHHHHHHHHHHhhCCCeEEEEEE
Confidence 46899999765431 2223445555665554330 0 0 0247899999999999999999999
Q ss_pred Cc
Q 030786 167 YG 168 (171)
Q Consensus 167 ~~ 168 (171)
.|
T Consensus 223 ~g 224 (234)
T PLN02781 223 IG 224 (234)
T ss_pred eC
Confidence 74
No 131
>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=21.75 E-value=1.5e+02 Score=23.85 Aligned_cols=36 Identities=14% Similarity=0.230 Sum_probs=23.0
Q ss_pred hhCCCCcEEEEeecCCCCCCCHHHHHHHHH-cCCeEEEeCh
Q 030786 104 LVRPIPEILILGCGRYIEPVNPELRQFIRS-TGMKLEAIDS 143 (171)
Q Consensus 104 ~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~-~GI~vEvMdT 143 (171)
++.-+||+||...+... .+..+.+.+ .||.+-.+++
T Consensus 70 i~~l~PDLIi~~~~~~~----~~~~~~l~~~~gipvv~~~~ 106 (262)
T cd01147 70 IAALKPDVVIDVGSDDP----TSIADDLQKKTGIPVVVLDG 106 (262)
T ss_pred HHhcCCCEEEEecCCcc----chhHHHHHHhhCCCEEEEec
Confidence 33456999887644321 145666665 8999877764
No 132
>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=21.65 E-value=2.2e+02 Score=19.52 Aligned_cols=32 Identities=19% Similarity=0.333 Sum_probs=25.9
Q ss_pred CCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 106 RPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 106 ~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
..+.++||.|- ..+...+.|+++||.+-..+.
T Consensus 61 ~~~v~~vi~~~------iG~~~~~~l~~~gI~v~~~~~ 92 (103)
T cd00851 61 DEGVDVVIVGG------IGPRALNKLRNAGIKVYKGAE 92 (103)
T ss_pred HcCCCEEEeCC------CCcCHHHHHHHCCCEEEEcCC
Confidence 35799999973 667888999999999987654
No 133
>cd05005 SIS_PHI Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with formadelhyde to become hexulose-6-phosphate, which is then isomerized to fructose-6-phosphate by PHI.
Probab=21.35 E-value=88 Score=24.31 Aligned_cols=52 Identities=15% Similarity=0.245 Sum_probs=36.2
Q ss_pred CCCCChhhhh-hhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 91 FSEITPNCLS-IFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 91 ~~~l~~e~L~-~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
...++.++++ +.+.+....-|.++|+|... .+-..+...|...|+.+..++.
T Consensus 15 ~~~l~~~~l~~~~~~i~~a~~I~i~G~G~S~-~~A~~~~~~l~~~g~~~~~~~~ 67 (179)
T cd05005 15 ADKIDEEELDKLISAILNAKRIFVYGAGRSG-LVAKAFAMRLMHLGLNVYVVGE 67 (179)
T ss_pred HHhcCHHHHHHHHHHHHhCCeEEEEecChhH-HHHHHHHHHHHhCCCeEEEeCC
Confidence 3456667665 44556566789999999873 3445566667788999988753
No 134
>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=21.08 E-value=1.1e+02 Score=20.47 Aligned_cols=31 Identities=10% Similarity=0.120 Sum_probs=20.1
Q ss_pred EEeecCCC-CCCCHHHHHHHHHcCCeEEEeCh
Q 030786 113 ILGCGRYI-EPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 113 IIGTG~~~-~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
|+|.|-.. .-+-.++.+.|.+.||.++.+.+
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 34555442 23456677788888888888865
No 135
>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=20.71 E-value=2.4e+02 Score=22.17 Aligned_cols=52 Identities=10% Similarity=0.248 Sum_probs=33.1
Q ss_pred CCCCChhhhhhhhhh-CCCCcEEEEeecCCC---CCCC-HHHHHHHHHcCCeEEEeCh
Q 030786 91 FSEITPNCLSIFQLV-RPIPEILILGCGRYI---EPVN-PELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 91 ~~~l~~e~L~~l~~l-~p~PEvLIIGTG~~~---~~l~-p~l~~~l~~~GI~vEvMdT 143 (171)
+..++++++-. .++ ..+|+.+++|.--+. ..=+ ..+.+++.+.|+.+++.+-
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 34567777531 122 226999999985542 2223 3477888999999988764
No 136
>COG0021 TktA Transketolase [Carbohydrate transport and metabolism]
Probab=20.63 E-value=59 Score=31.76 Aligned_cols=36 Identities=17% Similarity=0.442 Sum_probs=28.4
Q ss_pred CCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 108 IPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 108 ~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
.||++||+||.... +.-+..+.|.+.||.+-+.+.+
T Consensus 548 ~pd~iliAtGSEV~-lAv~Aa~~L~~~~~~vrVVS~P 583 (663)
T COG0021 548 DPDVILIATGSEVE-LAVEAAKELEAEGIKVRVVSMP 583 (663)
T ss_pred CCCEEEEecccHHH-HHHHHHHHHHhcCCceEEEecc
Confidence 69999999999853 4456778898888888887654
No 137
>PRK05920 aromatic acid decarboxylase; Validated
Probab=20.46 E-value=95 Score=25.67 Aligned_cols=43 Identities=12% Similarity=0.056 Sum_probs=32.9
Q ss_pred EEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChHHHHHHHHHh
Q 030786 111 ILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSRNAASTYNIL 153 (171)
Q Consensus 111 vLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~aAcrTyNiL 153 (171)
+++-=||.--..-..++.+.|.+.|..|.+.-|++|++.+..+
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 4444455554456678888999999999999999999977654
No 138
>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=20.37 E-value=1.4e+02 Score=17.97 Aligned_cols=31 Identities=16% Similarity=0.331 Sum_probs=20.1
Q ss_pred EEeecCC-CCCCCHHHHHHHHHcCCeEEEeCh
Q 030786 113 ILGCGRY-IEPVNPELRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 113 IIGTG~~-~~~l~p~l~~~l~~~GI~vEvMdT 143 (171)
|+|.|-. ......++.+.|.+.||.+..+.+
T Consensus 5 i~g~~~~~~~~~~~~i~~~l~~~~i~v~~i~~ 36 (65)
T cd04892 5 VVGAGMRGTPGVAARIFSALAEAGINIIMISQ 36 (65)
T ss_pred EECCCCCCCccHHHHHHHHHHHCCCcEEEEEc
Confidence 4455553 234556677778888888877754
No 139
>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]
Probab=20.27 E-value=1.1e+02 Score=26.46 Aligned_cols=88 Identities=17% Similarity=0.160 Sum_probs=54.0
Q ss_pred eEEECCEEEe--ecEEEe-----CCceeecCCCC-----CCCCChhhhh--hhhhhCCCCcEEEEeecCCCC-CCCHHHH
Q 030786 64 GFTVNGVQYE--GSLLCI-----GNLLLSWTPKK-----FSEITPNCLS--IFQLVRPIPEILILGCGRYIE-PVNPELR 128 (171)
Q Consensus 64 ~f~Ing~~y~--gsvii~-----p~~v~~W~~~~-----~~~l~~e~L~--~l~~l~p~PEvLIIGTG~~~~-~l~p~l~ 128 (171)
=++|.|+++- -+++++ |..++.|..++ ...++.|.+. .....+..=+++=+=+|+... ---.|-.
T Consensus 17 LiTvkg~~ll~~advviYAGSLV~~elL~~~~~~aei~nSa~~tLeeIi~~m~~a~~~Gk~VvRLhSGDpsiYgA~~EQm 96 (254)
T COG2875 17 LITVKGQRLLEKADVVIYAGSLVPPELLEYCRPDAEIVNSASLTLEEIIDLMVDAVREGKDVVRLHSGDPSIYGALAEQM 96 (254)
T ss_pred eeeehHHHHHhhCCEEEECCCcCCHHHHhhcCCCCEEEecCcCCHHHHHHHHHHHHHcCCeEEEeecCChhHHHHHHHHH
Confidence 3566665543 245554 33345565543 5666777653 223345567888888998743 3445566
Q ss_pred HHHHHcCCeEEEeC----hHHHHHHHH
Q 030786 129 QFIRSTGMKLEAID----SRNAASTYN 151 (171)
Q Consensus 129 ~~l~~~GI~vEvMd----T~aAcrTyN 151 (171)
+.|+++||..|+.+ ..+|+.+.+
T Consensus 97 ~~L~~~gI~yevvPGVss~~AAAA~L~ 123 (254)
T COG2875 97 RELEALGIPYEVVPGVSSFAAAAAALG 123 (254)
T ss_pred HHHHHcCCCeEEeCCchHHHHHHHHhC
Confidence 78999999999985 345555544
No 140
>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=20.24 E-value=1.6e+02 Score=22.50 Aligned_cols=40 Identities=23% Similarity=0.410 Sum_probs=27.0
Q ss_pred EEEEeecCCCC---CCCHHHHHHHHHcCC--eEEEeChHHHHHHH
Q 030786 111 ILILGCGRYIE---PVNPELRQFIRSTGM--KLEAIDSRNAASTY 150 (171)
Q Consensus 111 vLIIGTG~~~~---~l~p~l~~~l~~~GI--~vEvMdT~aAcrTy 150 (171)
++|+|.|...+ -+-+.+.+.|++... +++++|-+.....+
T Consensus 1 ~lVlGiGN~L~~DDG~G~~v~~~L~~~~~~~~v~~id~gt~~~~l 45 (146)
T cd06063 1 LTIIGCGNLNRGDDGVGPILIRRLQAYLLPPHVRLVDCGTAGMEV 45 (146)
T ss_pred CEEEEECCcccccCcHHHHHHHHHhhcCCCCCeEEEECCCCHHHH
Confidence 47889988865 477888888877543 37777655444333
No 141
>COG0674 PorA Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, alpha subunit [Energy production and conversion]
Probab=20.16 E-value=93 Score=27.83 Aligned_cols=35 Identities=20% Similarity=0.318 Sum_probs=27.3
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI 141 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvM 141 (171)
++.|++||+.|......-.++..++++.|+++=.+
T Consensus 255 ~DAe~viV~~Gss~~~~~~a~~~~~~~~g~kvg~l 289 (365)
T COG0674 255 EDAEIVIVAMGSSKGSTAEAVVDLLRDKGEKVGLL 289 (365)
T ss_pred CCcCEEEEEeccchHhHHHHHHHHHHhcCceEEEE
Confidence 67899999999777777778888888888555443
No 142
>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=20.12 E-value=2.1e+02 Score=21.09 Aligned_cols=35 Identities=14% Similarity=0.117 Sum_probs=28.1
Q ss_pred CCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEeChH
Q 030786 107 PIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAIDSR 144 (171)
Q Consensus 107 p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvMdT~ 144 (171)
.++|.++|-||..-. -.+.+.++++|..|++....
T Consensus 98 ~~~d~ivLvSgD~Df---~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 98 RRIDTIVLVSGDSDF---VPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred cCCCEEEEEECCccH---HHHHHHHHHcCCEEEEEccC
Confidence 479999999998821 23667888999999999776
No 143
>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=20.09 E-value=2.6e+02 Score=19.58 Aligned_cols=38 Identities=13% Similarity=0.299 Sum_probs=25.5
Q ss_pred CCCCcEEEEeecCC------------CCCCCHH---HHHHHHHcCCeEEEeCh
Q 030786 106 RPIPEILILGCGRY------------IEPVNPE---LRQFIRSTGMKLEAIDS 143 (171)
Q Consensus 106 ~p~PEvLIIGTG~~------------~~~l~p~---l~~~l~~~GI~vEvMdT 143 (171)
..-||++++..+.. --.++++ ..+.|++.|+.++++.+
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 1345555 45568889999999865
No 144
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=20.04 E-value=2.1e+02 Score=25.80 Aligned_cols=58 Identities=16% Similarity=0.351 Sum_probs=41.1
Q ss_pred CCChhhhhhhhhhCCCCcEEEEeecCCCCCCCHHHHHHHHHcCCeEEEe----ChHHHHHHHHHhh
Q 030786 93 EITPNCLSIFQLVRPIPEILILGCGRYIEPVNPELRQFIRSTGMKLEAI----DSRNAASTYNILN 154 (171)
Q Consensus 93 ~l~~e~L~~l~~l~p~PEvLIIGTG~~~~~l~p~l~~~l~~~GI~vEvM----dT~aAcrTyNiL~ 154 (171)
..+++-+. ++++-+||.|||=-|.. -++|..-+.|++.||.|+-. ..+-|.+-.+++.
T Consensus 62 ~ynes~~~--eI~~lnpd~VLIIGGp~--AVs~~yE~~Lks~GitV~RigG~nR~ETa~~v~~~~~ 123 (337)
T COG2247 62 IYNESVLD--EIIELNPDLVLIIGGPI--AVSPNYENALKSLGITVKRIGGANRYETAEKVAKFFR 123 (337)
T ss_pred cccHHHHH--HHHhhCCceEEEECCCC--cCChhHHHHHHhCCcEEEEecCcchHHHHHHHHHHHH
Confidence 45666665 45566798666654554 47889999999999999877 3455667777763
No 145
>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=20.04 E-value=58 Score=20.28 Aligned_cols=14 Identities=29% Similarity=0.501 Sum_probs=10.0
Q ss_pred eChHHHHHHHHHhh
Q 030786 141 IDSRNAASTYNILN 154 (171)
Q Consensus 141 MdT~aAcrTyNiL~ 154 (171)
|+...|++.||+=.
T Consensus 17 ~S~r~AA~~ygVp~ 30 (45)
T PF05225_consen 17 MSIRKAAKKYGVPR 30 (45)
T ss_dssp S-HHHHHHHHT--H
T ss_pred CCHHHHHHHHCcCH
Confidence 89999999999743
Done!