Query 041751
Match_columns 213
No_of_seqs 203 out of 1443
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 10:14:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041751.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041751hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1687 NADH-ubiquinone oxidor 100.0 7.2E-65 1.6E-69 413.2 10.9 160 54-213 9-168 (168)
2 COG0377 NuoB NADH:ubiquinone o 100.0 4.9E-61 1.1E-65 405.0 12.2 156 57-212 16-171 (194)
3 PRK14818 NADH dehydrogenase su 100.0 2.3E-55 4.9E-60 368.1 14.9 152 55-206 9-160 (173)
4 PRK14813 NADH dehydrogenase su 100.0 1.7E-54 3.6E-59 367.5 15.0 151 60-210 11-162 (189)
5 CHL00023 ndhK NADH dehydrogena 100.0 2.6E-54 5.5E-59 373.9 15.6 151 55-205 10-161 (225)
6 PRK06411 NADH dehydrogenase su 100.0 2.2E-53 4.9E-58 359.7 14.8 152 57-208 15-166 (183)
7 PRK14817 NADH dehydrogenase su 100.0 1.1E-52 2.3E-57 354.6 15.2 150 57-207 15-165 (181)
8 PRK14816 NADH dehydrogenase su 100.0 1.1E-52 2.3E-57 354.9 14.0 148 58-205 22-170 (182)
9 TIGR01957 nuoB_fam NADH-quinon 100.0 1.3E-52 2.8E-57 344.0 13.1 144 61-204 1-145 (145)
10 PRK14814 NADH dehydrogenase su 100.0 7.7E-52 1.7E-56 350.8 14.2 157 51-208 7-164 (186)
11 PRK14815 NADH dehydrogenase su 100.0 1.7E-51 3.8E-56 347.6 14.2 149 59-208 15-164 (183)
12 PRK14820 NADH dehydrogenase su 100.0 8E-51 1.7E-55 343.2 15.0 149 56-205 12-161 (180)
13 PRK14819 NADH dehydrogenase su 100.0 2.3E-50 4.9E-55 354.9 14.3 154 58-212 12-168 (264)
14 PRK13292 trifunctional NADH de 100.0 5.2E-46 1.1E-50 368.6 14.5 147 60-207 5-152 (788)
15 COG3260 Ni,Fe-hydrogenase III 100.0 1E-44 2.2E-49 294.4 8.8 128 76-203 6-136 (148)
16 TIGR03294 FrhG coenzyme F420 h 100.0 5.4E-33 1.2E-37 241.3 9.6 124 76-199 2-142 (228)
17 PF01058 Oxidored_q6: NADH ubi 100.0 8.2E-34 1.8E-38 227.2 0.6 112 86-197 1-131 (131)
18 TIGR00391 hydA hydrogenase (Ni 100.0 1.9E-30 4.2E-35 239.0 11.1 142 72-213 47-228 (365)
19 PRK10468 hydrogenase 2 small s 100.0 3E-30 6.5E-35 238.0 11.1 142 72-213 45-226 (371)
20 COG1740 HyaA Ni,Fe-hydrogenase 99.9 1.1E-27 2.5E-32 217.7 10.6 151 62-213 35-226 (355)
21 COG1941 FrhG Coenzyme F420-red 99.9 1E-27 2.3E-32 209.9 6.1 116 82-200 10-153 (247)
22 PF00919 UPF0004: Uncharacteri 88.2 0.61 1.3E-05 35.8 3.4 70 80-153 3-77 (98)
23 cd00886 MogA_MoaB MogA_MoaB fa 84.6 3.1 6.6E-05 33.8 6.0 26 175-201 123-148 (152)
24 TIGR01125 MiaB-like tRNA modif 80.9 0.82 1.8E-05 43.0 1.5 74 79-156 2-77 (430)
25 PRK14329 (dimethylallyl)adenos 76.9 1.8 4E-05 41.4 2.5 77 77-156 24-106 (467)
26 TIGR00089 RNA modification enz 76.6 1.4 3E-05 41.3 1.6 73 79-155 2-79 (429)
27 PRK14330 (dimethylallyl)adenos 68.0 3.6 7.8E-05 38.8 2.2 75 79-156 3-82 (434)
28 PRK14334 (dimethylallyl)adenos 67.6 4.8 0.0001 38.2 2.9 74 79-155 3-81 (440)
29 PRK14862 rimO ribosomal protei 67.5 4.7 0.0001 38.4 2.9 47 78-128 9-55 (440)
30 PRK14325 (dimethylallyl)adenos 66.8 3.7 8E-05 38.8 2.0 75 79-156 6-86 (444)
31 PRK14331 (dimethylallyl)adenos 66.3 3.9 8.5E-05 38.7 2.1 74 79-155 3-82 (437)
32 PRK14336 (dimethylallyl)adenos 66.2 4.1 8.8E-05 38.5 2.2 77 78-157 3-85 (418)
33 PF13278 DUF4066: Putative ami 65.9 13 0.00028 29.7 4.8 39 114-152 59-101 (166)
34 cd03137 GATase1_AraC_1 AraC tr 64.5 10 0.00022 30.8 4.0 42 114-155 62-107 (187)
35 TIGR01579 MiaB-like-C MiaB-lik 64.1 3.9 8.4E-05 38.2 1.6 53 102-156 19-76 (414)
36 PRK14332 (dimethylallyl)adenos 63.9 5.3 0.00011 38.2 2.5 77 76-155 10-92 (449)
37 PRK14335 (dimethylallyl)adenos 63.1 6.4 0.00014 37.6 2.9 75 79-156 3-82 (455)
38 PRK14333 (dimethylallyl)adenos 62.8 6.3 0.00014 37.5 2.7 77 77-156 7-89 (448)
39 TIGR00177 molyb_syn molybdenum 61.9 12 0.00026 30.0 3.8 75 115-194 65-141 (144)
40 PRK14326 (dimethylallyl)adenos 60.4 8.2 0.00018 37.5 3.1 77 77-156 14-96 (502)
41 TIGR01578 MiaB-like-B MiaB-lik 59.0 6.3 0.00014 37.1 2.0 72 79-155 2-76 (420)
42 cd03135 GATase1_DJ-1 Type 1 gl 56.7 14 0.0003 29.0 3.4 40 114-153 58-102 (163)
43 PRK14328 (dimethylallyl)adenos 55.2 8.4 0.00018 36.5 2.2 73 79-154 4-82 (439)
44 PRK14338 (dimethylallyl)adenos 55.1 9.3 0.0002 36.5 2.5 75 79-156 23-103 (459)
45 PRK14340 (dimethylallyl)adenos 53.3 9.6 0.00021 36.4 2.3 76 78-156 8-89 (445)
46 PRK14327 (dimethylallyl)adenos 53.3 11 0.00023 37.1 2.6 80 73-155 63-148 (509)
47 TIGR01574 miaB-methiolase tRNA 53.2 11 0.00023 35.7 2.6 75 79-156 2-83 (438)
48 PRK09271 flavodoxin; Provision 53.2 30 0.00066 28.0 4.9 89 116-205 51-151 (160)
49 cd03136 GATase1_AraC_ArgR_like 51.6 25 0.00055 28.5 4.3 85 115-202 63-170 (185)
50 cd03140 GATase1_PfpI_3 Type 1 49.9 21 0.00044 28.9 3.4 39 115-153 59-100 (170)
51 TIGR01383 not_thiJ DJ-1 family 49.1 23 0.0005 28.4 3.6 40 114-153 61-105 (179)
52 cd00758 MoCF_BD MoCF_BD: molyb 46.0 26 0.00057 27.5 3.4 24 116-139 58-81 (133)
53 PF06258 Mito_fiss_Elm1: Mitoc 44.0 64 0.0014 29.5 6.0 102 95-199 87-206 (311)
54 cd03139 GATase1_PfpI_2 Type 1 43.4 44 0.00096 26.8 4.4 40 115-154 61-104 (183)
55 cd03132 GATase1_catalase Type 42.1 33 0.00072 26.6 3.4 38 115-152 61-103 (142)
56 cd03138 GATase1_AraC_2 AraC tr 41.9 30 0.00065 28.3 3.3 40 115-154 68-114 (195)
57 cd00887 MoeA MoeA family. Memb 41.1 85 0.0018 29.4 6.5 28 175-203 285-313 (394)
58 PF08759 DUF1792: Domain of un 38.9 52 0.0011 29.4 4.4 40 116-155 115-180 (225)
59 cd02068 radical_SAM_B12_BD B12 38.7 90 0.0019 23.9 5.3 58 115-182 38-97 (127)
60 PRK14337 (dimethylallyl)adenos 37.9 22 0.00047 33.9 2.1 74 78-155 5-84 (446)
61 PF04016 DUF364: Domain of unk 37.9 49 0.0011 26.9 3.9 38 115-154 61-98 (147)
62 PRK11574 oxidative-stress-resi 36.5 46 0.001 27.4 3.6 41 115-155 65-110 (196)
63 PRK09444 pntB pyridine nucleot 36.2 24 0.00051 34.6 2.0 90 64-153 293-391 (462)
64 TIGR03728 glyco_access_1 glyco 35.6 58 0.0013 29.8 4.3 40 116-155 133-198 (265)
65 PRK03604 moaC bifunctional mol 34.0 63 0.0014 29.9 4.3 23 175-198 277-299 (312)
66 PRK10680 molybdopterin biosynt 33.2 83 0.0018 30.0 5.1 28 175-203 293-321 (411)
67 cd01653 GATase1 Type 1 glutami 32.8 65 0.0014 21.7 3.4 37 114-150 44-85 (115)
68 PRK14498 putative molybdopteri 32.7 87 0.0019 31.1 5.4 29 175-204 302-331 (633)
69 cd03134 GATase1_PfpI_like A ty 32.5 58 0.0013 25.7 3.5 39 115-153 61-103 (165)
70 TIGR01721 AMN-like AMP nucleos 32.4 1.3E+02 0.0027 27.3 5.9 38 118-156 61-99 (266)
71 cd03522 MoeA_like MoeA_like. T 32.0 83 0.0018 29.1 4.8 72 116-196 219-291 (312)
72 PRK14690 molybdopterin biosynt 31.6 78 0.0017 30.3 4.7 77 115-203 258-337 (419)
73 PRK08292 AMP nucleosidase; Pro 30.9 1.3E+02 0.0028 29.8 6.1 43 114-161 273-316 (489)
74 PRK09393 ftrA transcriptional 29.8 73 0.0016 28.4 4.0 41 114-154 73-116 (322)
75 PRK14339 (dimethylallyl)adenos 29.7 49 0.0011 31.3 3.0 46 106-153 17-68 (420)
76 PRK06242 flavodoxin; Provision 28.3 80 0.0017 24.6 3.6 43 115-159 42-89 (150)
77 TIGR03271 methan_mark_5 putati 27.2 64 0.0014 26.9 2.8 28 65-92 71-101 (142)
78 smart00852 MoCF_biosynth Proba 27.1 67 0.0015 25.0 2.9 15 116-130 57-71 (135)
79 KOG3210 Imidazoleglycerol-phos 26.6 49 0.0011 29.0 2.1 39 115-154 55-99 (226)
80 TIGR01382 PfpI intracellular p 25.7 54 0.0012 25.9 2.2 39 114-152 58-100 (166)
81 PRK03619 phosphoribosylformylg 25.3 1.2E+02 0.0026 26.1 4.4 39 114-152 39-87 (219)
82 cd03169 GATase1_PfpI_1 Type 1 24.9 94 0.002 25.2 3.5 40 115-154 75-118 (180)
83 cd05402 NT_PAP_TUTase Nucleoti 24.7 2.7E+02 0.0058 20.7 5.8 45 142-199 18-64 (114)
84 KOG1111 N-acetylglucosaminyltr 23.8 84 0.0018 30.5 3.3 38 166-204 302-339 (426)
85 PF00056 Ldh_1_N: lactate/mala 23.8 1.5E+02 0.0032 23.7 4.4 35 115-149 68-117 (141)
86 cd03141 GATase1_Hsp31_like Typ 22.6 1.1E+02 0.0024 26.2 3.6 41 114-154 88-133 (221)
87 COG0621 MiaB 2-methylthioadeni 22.2 70 0.0015 31.1 2.5 71 79-154 5-81 (437)
88 cd03128 GAT_1 Type 1 glutamine 22.1 1.6E+02 0.0034 18.7 3.6 40 114-153 44-88 (92)
89 cd00069 GHB Glycoprotein hormo 22.0 55 0.0012 25.8 1.5 17 172-188 53-69 (102)
90 PF09885 DUF2112: Uncharacteri 21.8 1E+02 0.0022 25.8 3.0 45 48-92 44-102 (143)
91 PRK14497 putative molybdopteri 21.5 1.4E+02 0.0031 29.8 4.6 27 175-202 295-322 (546)
No 1
>KOG1687 consensus NADH-ubiquinone oxidoreductase, NUFS7/PSST/20 kDa subunit [Energy production and conversion]
Probab=100.00 E-value=7.2e-65 Score=413.20 Aligned_cols=160 Identities=78% Similarity=1.405 Sum_probs=157.0
Q ss_pred CcCCCCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCChHH
Q 041751 54 VGLSKASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMAPA 133 (213)
Q Consensus 54 ~~~~~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~~~ 133 (213)
..+++.++|++++||||+||+|..||||++||.+||.+|||++..++||++|||++|++||||+|++||.|++|+||+|+
T Consensus 9 ~~~s~~~e~~~a~ldDl~Nwar~~SlWPltfGlaCCavEmmh~~a~RyD~DRyGvvfRaSPRQaD~iivAGTlTnKMAPa 88 (168)
T KOG1687|consen 9 LNPSSKAEYVLARLDDLLNWARRGSLWPLTFGLACCAVEMMHLAAPRYDMDRYGVVFRASPRQADLIIVAGTLTNKMAPA 88 (168)
T ss_pred CCccchhhhhhhhHHHHhhhhhhcCccchhhhhHHHHHHHHHhccccccccccceeecCCCccccEEEEeccchhhhcHH
Confidence 45577899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcCCccccccC
Q 041751 134 LRKVYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRRDFLHWWTK 213 (213)
Q Consensus 134 l~~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~~~~~~y~~ 213 (213)
++++|||||||||||+||+||++||+|+++|++++|+|++||||||||||||++|+++++|++||+||++.+..++||||
T Consensus 89 lrkvYdQMPEpr~VisMGsCangGGyyhysYSvvRGcDriiPVDiYvPGCPPtaEAllygilqLqkKi~R~r~~q~wyr~ 168 (168)
T KOG1687|consen 89 LRKVYDQMPEPRWVISMGSCANGGGYYHYSYSVVRGCDRIIPVDIYVPGCPPTAEALLYGILQLQKKIKRIRPLQFWYRK 168 (168)
T ss_pred HHHHHhhCCCCeeEEEecccccCCceEEEEehhhccccceeeeeeecCCCCCCHHHHHHHHHHHHHHHHHhhhhhhhhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999996
No 2
>COG0377 NuoB NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]
Probab=100.00 E-value=4.9e-61 Score=405.04 Aligned_cols=156 Identities=67% Similarity=1.126 Sum_probs=150.3
Q ss_pred CCCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCChHHHHH
Q 041751 57 SKASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMAPALRK 136 (213)
Q Consensus 57 ~~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~~~l~~ 136 (213)
....++++|++|+++||+|++||||++||.+||++||+++..++||+||||+++++||||+|++||+|++++||++++++
T Consensus 16 ~~~~~~~~t~~~~l~~W~r~~SLWp~~fg~aCC~iEm~~~~~~r~D~~RfG~~~r~SPRQaDvmIvaGt~t~Kmap~lr~ 95 (194)
T COG0377 16 LLSKGVLLTKVDKLINWGRKNSLWPVTFGLACCAVEMMATFASRYDLERFGEVPRASPRQADLMIVAGTLTNKMAPALRR 95 (194)
T ss_pred hhccCeeeechHHHHhhhhhcccchhhhcchhHHHHHHhhccccccHHHhCcCCCCCcccccEEEEeccchHHHHHHHHH
Confidence 44578999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcCCcccccc
Q 041751 137 VYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRRDFLHWWT 212 (213)
Q Consensus 137 l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~~~~~~y~ 212 (213)
+|||||+||||||||+||+.||+|+++|++++|+|++||||||||||||+||+++++|++||+||++++++.-|++
T Consensus 96 ~YdQMPePK~VIsMGsCa~~GG~f~~sYsvV~g~D~~vPVDvyIPGCPPrPEAl~~gi~~Lq~KI~~~~~~~~~~~ 171 (194)
T COG0377 96 VYDQMPEPKWVISMGSCANSGGMYWNSYSVVQGVDRVVPVDVYIPGCPPRPEALLYGILLLQEKIRREGRPLRDKP 171 (194)
T ss_pred HHHhCCCCcEEEEecccccCCCcccccceeeeccceeEeeeeecCCCCCCHHHHHHHHHHHHHHHHhccCcccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999777766554
No 3
>PRK14818 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=2.3e-55 Score=368.09 Aligned_cols=152 Identities=53% Similarity=0.885 Sum_probs=146.2
Q ss_pred cCCCCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCChHHH
Q 041751 55 GLSKASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMAPAL 134 (213)
Q Consensus 55 ~~~~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~~~l 134 (213)
-..+...++.+++|+++||+|++|+|+.++|++||++||+++..++||++|||+.|++||||+||++|+|+||.+|++.+
T Consensus 9 ~~~~~~~~~~~~~~~~~~w~r~~Slw~~~~~t~cC~iEi~a~~~p~yD~eRfGi~~~aSPRhADvLlVtG~vT~km~~~l 88 (173)
T PRK14818 9 IGGDVTLLHTSQLDNLINLARASSLYYLTFGLACCGIELMQTGGPRADVMRFGAIPRASPRQADFMIVAGTLTYKMAERA 88 (173)
T ss_pred CCceEEeeehhhHHHHHHHHhhCCceeeEeCCccHHHHHHHhcCCccCHHHcCCeecCCcccccEEEEeCcCccccHHHH
Confidence 34555678899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcCC
Q 041751 135 RKVYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRRD 206 (213)
Q Consensus 135 ~~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~~ 206 (213)
+++|||||+||+|||+|+||++||+|+++|+++++++++||||+|||||||+||+|+++|++|+++|++++.
T Consensus 89 ~~~yeqmPePK~VIA~G~CA~sGGif~~sY~~~~gvd~vIpVDvyIPGCPP~PeaIl~gil~L~~~i~~~~~ 160 (173)
T PRK14818 89 RLLYDQMPEPKYVISMGSCSNCGGLFQLGYSVCKGVDKVIPVDVYVPGCPPRPEALTEGLLRLQEIVRSEPW 160 (173)
T ss_pred HHHHHhCCCCCEEEEeccccccCCcccCCcccccCCCCccCCcEEccCCCCCHHHHHHHHHHHHHHHhcccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999987753
No 4
>PRK14813 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=1.7e-54 Score=367.48 Aligned_cols=151 Identities=57% Similarity=1.027 Sum_probs=144.6
Q ss_pred cceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCChHHHHHHHH
Q 041751 60 SEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMAPALRKVYD 139 (213)
Q Consensus 60 ~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~~~l~~l~e 139 (213)
.+++++++|+++||+|++|+|+.+++++||++||+++.+++||++|||+.|+++|||+||+||+|+||++|+++++++|+
T Consensus 11 ~~~~~~~~~~~~~w~r~~Slw~~~~~t~cC~iE~~a~~~p~yD~eRfGi~~~asPR~ADvllVtG~Vt~km~~~l~~~y~ 90 (189)
T PRK14813 11 HNVLVTSVDNVLNWARLSSLWPMGFGLACCAIEMMATNASNYDLERFGIFPRSSPRQSDLMIVAGTVTMKMAERVVRLYE 90 (189)
T ss_pred CCeEeeeHHHHHHHHHhCCCceeeeCcccHHHHHHHhcccCCCHHHcCCeecCCcccceEEEEeccCchhhHHHHHHHHH
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HCCCCceEEEecCccCcCCCCC-CCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcCCcccc
Q 041751 140 QMPEPRWVISMGSRANGGGYYH-YSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRRDFLHW 210 (213)
Q Consensus 140 ~~~~pk~VIA~GsCA~~GGi~~-~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~~~~~~ 210 (213)
|||+||+|||+|+||++||+|. ++|++++|+|++||||+|||||||+||+|+++|++|+++|++++....+
T Consensus 91 qmPePK~VIA~GaCA~sGG~~~~~sY~~~~gvd~vIpVDv~IPGCPP~PeaIl~gl~~l~~~i~~~~~~~~~ 162 (189)
T PRK14813 91 QMPEPRYVLSMGSCSNCGGPYWEHGYHVLKGVDRIIPVDVYVPGCPPRPEALIGGLMKVQELIRMEQIGISR 162 (189)
T ss_pred hCCCCCEEEEecccccCCCCcccCCcccccCCCCccCCcEEccCCCCCHHHHHHHHHHHHHHHHhcccccch
Confidence 9999999999999999988886 5999999999999999999999999999999999999999988754433
No 5
>CHL00023 ndhK NADH dehydrogenase subunit K
Probab=100.00 E-value=2.6e-54 Score=373.89 Aligned_cols=151 Identities=44% Similarity=0.925 Sum_probs=145.2
Q ss_pred cCCCCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCChHHH
Q 041751 55 GLSKASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMAPAL 134 (213)
Q Consensus 55 ~~~~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~~~l 134 (213)
......++++|++|+++||+|++|+|+.++|++||++||+++..++||++|||+.|++|||||||+||+|+||++|++++
T Consensus 10 ~~~~~~~~~~~~~~~~~~w~r~~Slw~~~~g~sCC~iE~~a~~~p~yDleRfGi~~~aSPRhADvliVtG~VT~km~~~L 89 (225)
T CHL00023 10 DRTTSNSVISTTLNDLSNWSRLSSLWPLLYGTSCCFIEFASLIGSRFDFDRYGLVPRSSPRQADLILTAGTVTMKMAPSL 89 (225)
T ss_pred ccccCCCeEeeeHHHHHHHHHhCCcccccCCcchHHHHHHHhCCCccCHHHcCCeecCCcccceEEEEecCCccccHHHH
Confidence 34455789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHCCCCceEEEecCccCcCCCCC-CCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcC
Q 041751 135 RKVYDQMPEPRWVISMGSRANGGGYYH-YSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRR 205 (213)
Q Consensus 135 ~~l~e~~~~pk~VIA~GsCA~~GGi~~-~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~ 205 (213)
+++|||||+||+|||||+||++||+|+ ++|++++|++++||||+|||||||+||+|+++|+.|+++|+++.
T Consensus 90 ~rlyeqmPePK~VIA~GaCA~sGGif~~dsy~~v~gvd~vIPVDv~IPGCPP~PeaIi~~l~~L~~ki~~~~ 161 (225)
T CHL00023 90 VRLYEQMPEPKYVIAMGACTITGGMFSTDSYSTVRGVDKLIPVDVYLPGCPPKPEAVIDAITKLRKKISREI 161 (225)
T ss_pred HHHHHhcCCCCeEEEEccccccCCcccCCCcccccCccccceeeEEecCCCCCHHHHHHHHHHHHHHHhccc
Confidence 999999999999999999999999997 89999999999999999999999999999999999999998765
No 6
>PRK06411 NADH dehydrogenase subunit B; Validated
Probab=100.00 E-value=2.2e-53 Score=359.68 Aligned_cols=152 Identities=70% Similarity=1.262 Sum_probs=146.5
Q ss_pred CCCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCChHHHHH
Q 041751 57 SKASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMAPALRK 136 (213)
Q Consensus 57 ~~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~~~l~~ 136 (213)
....+++.+++|+++||+|++|+|+.+++++||++|++++..++||++|||+.++++|||+||+||||+||++|.+.+++
T Consensus 15 ~~~~~~~~~~~~~~~~w~r~~Slw~~~~~~~CC~iE~~~~~~~~yDieRfGi~~~~sPr~aDvllV~G~vt~~~~~~l~~ 94 (183)
T PRK06411 15 ELNKGVVLTTLDDLVNWARKNSLWPLTFGLACCAIEMMAAGTSRYDLDRFGMVFRASPRQADLMIVAGTLTNKMAPALRR 94 (183)
T ss_pred cccCCeeeeeHHHHHHHHHhCCccceeeCccHhHHHHHHccCccccHHHhCccccCCCCceeEEEEEeCCCccchHHHHH
Confidence 34567999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcCCcc
Q 041751 137 VYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRRDFL 208 (213)
Q Consensus 137 l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~~~~ 208 (213)
+||||++||+|||+|+||++||+|+++|++++|++++||||+|||||||+||+|+++|++|+++|++++...
T Consensus 95 ~~e~mp~pk~VIA~GaCA~~GGif~~sy~~~~gv~~~ipVDv~IPGCPP~Pe~il~~l~~l~~~i~~~~~~~ 166 (183)
T PRK06411 95 LYDQMPEPKWVISMGSCANSGGMYHYSYSVVQGVDRIVPVDVYVPGCPPRPEALLYGILKLQKKIRQSERER 166 (183)
T ss_pred HHHHcCcCCeEEEEecccccCCcccCCCccccCcccccccceEeCCCCCCHHHHHHHHHHHHHHHhcccccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999876654
No 7
>PRK14817 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=1.1e-52 Score=354.63 Aligned_cols=150 Identities=47% Similarity=0.905 Sum_probs=142.7
Q ss_pred CCCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhccee-cCCCCCeeEEEEecccCCCChHHHH
Q 041751 57 SKASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIF-RPSPRQSDVMIVAGTLTNKMAPALR 135 (213)
Q Consensus 57 ~~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~-~~sPr~aDIliVeG~Vt~km~~~l~ 135 (213)
....+++.+++|+++||+|++|+|+.+|+++||++||+++.+++||++|||+.+ +++|||+||+||||+||++|.+.++
T Consensus 15 ~~~~~~~~~~~~~~~~w~r~~Slw~~~~~~~CC~iE~~a~~~~~yDleRfGi~~~~~sPR~ADillVeG~VT~~m~~~l~ 94 (181)
T PRK14817 15 EEAEGFLQGLVSKSLGWARKYSLFTYPFVTACCGMEYMTMASARYDSDRFGAAMPRFSPRQADLLMVVGTVNCKQAPILQ 94 (181)
T ss_pred ccCCCeehhhHHHHHHHHhhCCccccccccchHHHHHHHhcCccccHHHhceeeccCCCcceeEEEEEecCCccchHHHH
Confidence 344578999999999999999999999999999999999999999999999977 6999999999999999999999999
Q ss_pred HHHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcCCc
Q 041751 136 KVYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRRDF 207 (213)
Q Consensus 136 ~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~~~ 207 (213)
++||||++||+|||+|+||++||++ ++|++++|++++||||+|||||||+||+|+++|++|++||++++..
T Consensus 95 ~~~e~~p~pK~VIAvGaCA~~GGi~-~~y~~~~gv~~vvpVDv~IPGCPP~Pe~il~~l~~l~~ki~~~~~~ 165 (181)
T PRK14817 95 RVYEQMADPKWVMAFGVCASSGGFY-DNYATVQGIDRIIPVDVYVPGCPPRPEQVLDGIMLLQKKIQNQSHK 165 (181)
T ss_pred HHHHHcccCCEEEEeccccccCCcC-CCcccccCccccceeeEEecCCCCCHHHHHHHHHHHHHHhhcCCcc
Confidence 9999999999999999999999988 6899999999999999999999999999999999999999876543
No 8
>PRK14816 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=1.1e-52 Score=354.87 Aligned_cols=148 Identities=49% Similarity=1.033 Sum_probs=142.9
Q ss_pred CCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhccee-cCCCCCeeEEEEecccCCCChHHHHH
Q 041751 58 KASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIF-RPSPRQSDVMIVAGTLTNKMAPALRK 136 (213)
Q Consensus 58 ~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~-~~sPr~aDIliVeG~Vt~km~~~l~~ 136 (213)
.+.+++++++|+++||+|++|+|+++++.+||++||+++.+++||++|||+.+ +++|||+||+||+|+||++|++++++
T Consensus 22 ~~~~~~~~~~~~~~~w~r~~slw~~~~~~~CC~iE~~a~~~p~yD~eRfGi~~~~~sPRhADvllVtG~VT~~m~~~l~~ 101 (182)
T PRK14816 22 GGANVFVGVLDDLINWGRSNSLWPLTFATSCCGIEFMALGAARYDMARFGFEVARASPRQADMIMVCGTITNKMAPVLKR 101 (182)
T ss_pred ccCceeeeeHHHHHhhhhcCccceeeeCcchHHHHHHHhcCccccHHHhCccccCCCCCcceEEEEecCCcchhHHHHHH
Confidence 35678999999999999999999999999999999999999999999999966 59999999999999999999999999
Q ss_pred HHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcC
Q 041751 137 VYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRR 205 (213)
Q Consensus 137 l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~ 205 (213)
+|+||++||+|||+|+||++||+|+++|+++.|++++||||+|||||||+||+|+++|++|+++|++++
T Consensus 102 ~~e~~p~pK~VIAvGsCA~~GGif~~sy~~~~gvd~vIpVDv~IPGCPP~Pe~Il~~l~~L~~ki~~~~ 170 (182)
T PRK14816 102 LYDQMADPKYVIAVGGCAVSGGPFKKSYHVLNGVDKILPVDVYIPGCPPRPEAFYYGMMQLQRKVKIEK 170 (182)
T ss_pred HHHhcCCCCEEEEeccccccCCccccCCccCCCccccccccEEeeCcCCCHHHHHHHHHHHHHHhcccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999775
No 9
>TIGR01957 nuoB_fam NADH-quinone oxidoreductase, B subunit. This model describes the B chain of complexes that resemble NADH-quinone oxidoreductases. The electron acceptor is a quinone, ubiquinone, in mitochondria and most bacteria, including Escherichia coli, where the recommended gene symbol is nuoB. The quinone is plastoquinone in Synechocystis (where the chain is designated K) and in chloroplast, where NADH may be replaced by NADPH. In the methanogenic archaeal genus Methanosarcina, NADH is replaced by F420H2.
Probab=100.00 E-value=1.3e-52 Score=343.96 Aligned_cols=144 Identities=71% Similarity=1.296 Sum_probs=140.0
Q ss_pred ceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhc-ceecCCCCCeeEEEEecccCCCChHHHHHHHH
Q 041751 61 EYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFG-IIFRPSPRQSDVMIVAGTLTNKMAPALRKVYD 139 (213)
Q Consensus 61 ~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfg-i~~~~sPr~aDIliVeG~Vt~km~~~l~~l~e 139 (213)
+++++++|+++||+|++|+|+.+++++||++|++++..++||++||| +.++++|||+||++|||+||++|.+.++++||
T Consensus 1 ~~~~~~~~~~~~~~r~~s~w~~~~~t~cC~iE~~~~~~~~~D~erfG~i~~~~sPr~aDvllVtG~vt~~~~~~l~~~~e 80 (145)
T TIGR01957 1 GVLLTTVDKLLNWGRSNSLWPLTFGLACCAIEMMATGASRYDLDRFGSEVFRASPRQADVMIVAGTVTKKMAPALRRLYD 80 (145)
T ss_pred CcccccHHHHHhhhhcCCceeeeeCccHHHHHHHHccCccccHHHhCCceecCCCCcceEEEEecCCcHHHHHHHHHHHH
Confidence 35679999999999999999999999999999999999999999999 89999999999999999999999999999999
Q ss_pred HCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhc
Q 041751 140 QMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRR 204 (213)
Q Consensus 140 ~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~ 204 (213)
||++||+|||+|+||++||+|+++|+.++|++++||||+|||||||+||+|+++|++|+++|+++
T Consensus 81 ~~p~pk~VIA~GsCA~~GGi~~~~y~~~~~v~~~ipVDi~IPGCPp~Pe~i~~~l~~l~~~~~~~ 145 (145)
T TIGR01957 81 QMPEPKWVISMGACANSGGMFHTSYSVVQGVDRIVPVDVYIPGCPPRPEALIYGLIKLQKKIKRE 145 (145)
T ss_pred hccCCceEEEecceeecCCCccCCCccccCcccccccceEeCCCCCCHHHHHHHHHHHHHHhhcC
Confidence 99999999999999999999999999999999999999999999999999999999999999864
No 10
>PRK14814 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=7.7e-52 Score=350.79 Aligned_cols=157 Identities=45% Similarity=0.873 Sum_probs=148.3
Q ss_pred CCCCcCCCCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcc-eecCCCCCeeEEEEecccCCC
Q 041751 51 FGPVGLSKASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGI-IFRPSPRQSDVMIVAGTLTNK 129 (213)
Q Consensus 51 ~~~~~~~~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi-~~~~sPr~aDIliVeG~Vt~k 129 (213)
+.......+..++++++|+++||+|++|+|+++++++||++||+++..++||++|||+ .|+++|||+||+||||+||++
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~w~r~~Slw~~~~~~~CC~iE~~~~~~~~yD~eRfGi~~~~~sPR~ADvllVtG~VT~~ 86 (186)
T PRK14814 7 SKKPGQALGDMFQLGNLESVIQWGRSFSLWPYPFATACCGIEYMSTACSDYDIARFGAERPSFSPRQADMILVLGTITYK 86 (186)
T ss_pred hhchhhhccCCeeeeeHHHHHHHHHhCCCceeeeCCccHHHHHHHhcCccccHHHhCccccCCCcccceEEEEeccCchh
Confidence 4555666778999999999999999999999999999999999999999999999999 479999999999999999999
Q ss_pred ChHHHHHHHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcCCcc
Q 041751 130 MAPALRKVYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRRDFL 208 (213)
Q Consensus 130 m~~~l~~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~~~~ 208 (213)
|.++++++||||++||+|||+|+||++||+|+ +|++.+|++++||||+|||||||+||+|+++|++|+++|++++...
T Consensus 87 m~~~l~~~yeqmp~pk~VIAvGsCA~~GGi~~-~y~~~~gv~~vvpVDv~IPGCPP~Pe~il~~l~~L~~~i~~~~~~~ 164 (186)
T PRK14814 87 MAPVLRQIYDQMAEPKFVISVGACASSGGMFH-TYGVLQGVDRILPVDVYVPGCPPRPEAILDALVKLQTKLKTQGLEA 164 (186)
T ss_pred hHHHHHHHHHhcCCCCeEEEeccccccCCccC-cCCCCcCccccccccEEecCCCCCHHHHHHHHHHHHHHHhcccccc
Confidence 99999999999999999999999999999996 6999999999999999999999999999999999999999876544
No 11
>PRK14815 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=1.7e-51 Score=347.58 Aligned_cols=149 Identities=55% Similarity=1.062 Sum_probs=142.0
Q ss_pred CcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhccee-cCCCCCeeEEEEecccCCCChHHHHHH
Q 041751 59 ASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIF-RPSPRQSDVMIVAGTLTNKMAPALRKV 137 (213)
Q Consensus 59 ~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~-~~sPr~aDIliVeG~Vt~km~~~l~~l 137 (213)
..+++++++|+++||+|++|+|+.+++++||++||+++..++||++|||+.+ +++|||+||++|||+||++|.+.++++
T Consensus 15 ~~~~~~~~~~~~~~w~r~~Slw~~~~~~sCC~iE~~a~~~~~yDieRfGi~~~~~SPR~ADillVtG~VT~~m~~~l~r~ 94 (183)
T PRK14815 15 EGNVVVTTLDAAINWIRKNSLWPMPMGLACCAIELMAVACSRFDISRFGAEVMRFSPRQADVMIVAGTVTYKMALAVRRI 94 (183)
T ss_pred ccCeehhhHHHHHHHHHhCCccceeEccchHHHHHHHhcCccccHHHhCcccCCCCCccccEEEEeCcCchhhHHHHHHH
Confidence 3568899999999999999999999999999999999999999999999865 699999999999999999999999999
Q ss_pred HHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcCCcc
Q 041751 138 YDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRRDFL 208 (213)
Q Consensus 138 ~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~~~~ 208 (213)
|||||+||+|||+|+||++||+|+ +|++.+|++++||||+|||||||+||+|+++|++|+++|++++...
T Consensus 95 ye~~p~pK~VIAvGsCA~~GGi~~-sy~~~~gv~~~ipVDv~IPGCPP~Pe~il~~l~~l~~~i~~~~~~~ 164 (183)
T PRK14815 95 YDQMPEPKWVIAMGACASSGGMYR-SYSVLQGVDRILPVDVYISGCPPRPEAILDALIKLQKKIDTERAAR 164 (183)
T ss_pred HHhCCCCCEEEEeccccccCCCcc-ccccccCccccccccEEecCCCCCHHHHHHHHHHHHHHHhhccccc
Confidence 999999999999999999999995 8999999999999999999999999999999999999999876543
No 12
>PRK14820 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=8e-51 Score=343.20 Aligned_cols=149 Identities=44% Similarity=0.909 Sum_probs=142.9
Q ss_pred CCCCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcc-eecCCCCCeeEEEEecccCCCChHHH
Q 041751 56 LSKASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGI-IFRPSPRQSDVMIVAGTLTNKMAPAL 134 (213)
Q Consensus 56 ~~~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi-~~~~sPr~aDIliVeG~Vt~km~~~l 134 (213)
.....+++.+++|+++||+|++|+|+.+++.+||++||+++..++||++|||+ .++++|||+||++|||+||++|.+.+
T Consensus 12 ~~~~~~~~~~~~~~~~~w~r~~Slw~~~~~~sCC~iE~~a~~~~~yDi~RfGi~~~~~sPR~aDillVeG~VT~~m~~~l 91 (180)
T PRK14820 12 GYEGEGFFATSLDSVIGLARKNSLWPLPFATSCCGIEFMATMASHYDLARFGSERPSFSPRQADMLMVMGTIAKKMAPVL 91 (180)
T ss_pred ccccCceEeeeHHHHHHHHhhCCCceeeecccHHHHHHHHhcCccccHHHhCccccCCCCccceEEEEEecCCcccHHHH
Confidence 35567899999999999999999999999999999999999999999999999 47899999999999999999999999
Q ss_pred HHHHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcC
Q 041751 135 RKVYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRR 205 (213)
Q Consensus 135 ~~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~ 205 (213)
+++||||++||+|||+|+||++||+| ++|++++|+++++|||+|||||||+||+|+++|++|+++|++++
T Consensus 92 ~~~~e~~p~pk~VIAvGaCA~~GGi~-~~y~~~~~v~~~ipVDv~IPGCPP~Pe~il~~l~~l~~~i~~~~ 161 (180)
T PRK14820 92 KQVYLQMAEPRWVVAVGACASSGGIF-DTYSVLQGIDRIIPVDVYVPGCPPRPEQIIDGVMRVQELVKNES 161 (180)
T ss_pred HHHHHhcCCCCeEEEEecccccCCcc-ccccccccccccccccEEecCCCCCHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999999999999 58999999999999999999999999999999999999998764
No 13
>PRK14819 NADH dehydrogenase subunit B; Provisional
Probab=100.00 E-value=2.3e-50 Score=354.92 Aligned_cols=154 Identities=54% Similarity=1.073 Sum_probs=146.0
Q ss_pred CCcceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcc-eecCCCCCeeEEEEecccCCCChHHHHH
Q 041751 58 KASEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGI-IFRPSPRQSDVMIVAGTLTNKMAPALRK 136 (213)
Q Consensus 58 ~~~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi-~~~~sPr~aDIliVeG~Vt~km~~~l~~ 136 (213)
...+++.+++|+++||+|++|+|+.++||+||++|++++..++||++|||+ .|+++|||+||+||||+||++|.+.+++
T Consensus 12 ~~~~~~~~~~~~~~~W~r~~Slw~~~~gt~CC~iEila~l~p~yDieRFGi~~~~~sPRhADIlLVtG~VT~km~~~L~r 91 (264)
T PRK14819 12 EKQGVLLTTVNRFYNWGRRSSVWPMAFGLACCAIEMMATGLSRYDLARFGAELFRASPRQADLMIVAGTVTKKMAPQVVR 91 (264)
T ss_pred ccCceeeeeHHHHHHHHHhCCcceeeeCCcccHHHHHHhccccccHHHhCcccccCCCCcceEEEEecCCchhhHHHHHH
Confidence 456799999999999999999999999999999999999999999999999 5899999999999999999999999999
Q ss_pred HHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhc--CCcccccc
Q 041751 137 VYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRR--RDFLHWWT 212 (213)
Q Consensus 137 l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~--~~~~~~y~ 212 (213)
+|+||++||+|||+|+||++||+|+++|++++|++++||||+|||||||+||+|+++|++|+++++.. +|+ .||+
T Consensus 92 lyeqmP~PK~VIAvGaCA~~GGIf~~sY~v~~gId~vIPVDv~IPGCPP~Pe~Il~gLl~L~~ki~~d~~~Rp-~~~~ 168 (264)
T PRK14819 92 LYNQMPEPRYVISMGACATSGGPFRDGYNVLRGIDLLIPVDVYIPGCPPRPEALLHALMTLQKQIDAQSLGRV-RWYG 168 (264)
T ss_pred HHHhccCCCeEEEEccccccCCccccCCCccCCccccccccEEecCCCCCHHHHHHHHHHHHhhcccccccCc-cccc
Confidence 99999999999999999999999999999999999999999999999999999999999999988643 355 6775
No 14
>PRK13292 trifunctional NADH dehydrogenase I subunit B/C/D; Provisional
Probab=100.00 E-value=5.2e-46 Score=368.63 Aligned_cols=147 Identities=52% Similarity=1.056 Sum_probs=142.6
Q ss_pred cceeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcchhhhcc-eecCCCCCeeEEEEecccCCCChHHHHHHH
Q 041751 60 SEYVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGI-IFRPSPRQSDVMIVAGTLTNKMAPALRKVY 138 (213)
Q Consensus 60 ~~~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi-~~~~sPr~aDIliVeG~Vt~km~~~l~~l~ 138 (213)
.+++++++|+++||+|++|+|+.+++|+||++||+++.+++||++|||+ .|++||||+|++||+|+||.+|+++++++|
T Consensus 5 ~~~~~~~~~~~~~~~r~~s~w~~~~~~~cc~~E~~~~~~~~~D~~r~G~~~~~~sPr~aD~llv~G~vt~~~~~~l~~~~ 84 (788)
T PRK13292 5 ENILLASLDDLINWGRANSLWPMFFGLSCCFVEMMTSFTSRYDISRFGAEVLRGTPREADLMVIAGTVFKKMAPSILRLY 84 (788)
T ss_pred CceeeeeHHHHHHHHhhCCCcceecCCccHHHHHHHhcCCcCCHHHcCCCccCCCcccceEEEEecCCcHhhHHHHHHHH
Confidence 5789999999999999999999999999999999999999999999999 589999999999999999999999999999
Q ss_pred HHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhcCCc
Q 041751 139 DQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRRRDF 207 (213)
Q Consensus 139 e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~~~~ 207 (213)
||||+||+|||+|+||++||+| ++|++++|++++||||+|||||||+||+|+++|++|++||+.+++.
T Consensus 85 ~~~p~pk~via~G~Ca~~GG~~-~~y~~~~g~~~~ipVDv~iPGCPP~Pe~i~~~i~~l~~~~~~~~~~ 152 (788)
T PRK13292 85 EQMAEPKWVISMGSCANSGGMY-DVYSVVQGVNQILPVDVYIPGCPPRPEAFLQGLMLLQEKIRREERP 152 (788)
T ss_pred HhCCCCCEEEEecccccCCCCc-CccccccCcCCcccccEEccCCCCCHHHHHHHHHHHHHHhhcCccc
Confidence 9999999999999999999999 7999999999999999999999999999999999999999987754
No 15
>COG3260 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]
Probab=100.00 E-value=1e-44 Score=294.37 Aligned_cols=128 Identities=39% Similarity=0.756 Sum_probs=122.4
Q ss_pred cCCcceec---ccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCChHHHHHHHHHCCCCceEEEecC
Q 041751 76 RGSLWPMT---FGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMAPALRKVYDQMPEPRWVISMGS 152 (213)
Q Consensus 76 ~~siW~~~---~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~~~l~~l~e~~~~pk~VIA~Gs 152 (213)
++|+|..+ .||+||++|++++..|+||.|||||.++++|||||+|+|+|.+|.+|++.++++||+||+||+|||+|+
T Consensus 6 ~rS~~v~~VdsG~CNgCdIEi~a~~sP~YDaErfgI~~v~sPRhADiLlVTG~vT~~~~e~lkk~Yea~PePKiViA~Ga 85 (148)
T COG3260 6 KRSLHVYHVDSGGCNGCDIEILAALSPRYDAERFGIKVVNSPRHADILLVTGAVTRQMREPLKKAYEAMPEPKIVIAVGA 85 (148)
T ss_pred ccceEEEEeccCCcCceeEEEeeccCcccchHHheeEEeCCCccccEEEEeccccHHHHHHHHHHHHhCCCCcEEEEEcc
Confidence 67888765 589999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCcCCCCCCCCccccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhh
Q 041751 153 RANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINR 203 (213)
Q Consensus 153 CA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~ 203 (213)
||++||||+++|.+..|+|++||||++||||||+|++|+++|.++++++.+
T Consensus 86 Ca~~GGIf~~~~~v~gpvd~viPVDv~IPGCPP~P~~il~g~~~al~~~~k 136 (148)
T COG3260 86 CALSGGIFKDSYSVWGPVDKVIPVDVEIPGCPPRPEAILAGLVAALGKLEK 136 (148)
T ss_pred cccCCceecccccccccccceeEeeeEcCCCCCCHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999998876644
No 16
>TIGR03294 FrhG coenzyme F420 hydrogenase, subunit gamma. This model represents that clade of F420-dependent hydrogenases (FRH) beta subunits found exclusively and universally in methanogenic archaea. This protein contains two 4Fe-4S cluster binding domains (pfam00037) and scores above the trusted cutoff to model pfam01058 for the "NADH ubiquinone oxidoreductase, 20 Kd subunit" family.
Probab=99.98 E-value=5.4e-33 Score=241.34 Aligned_cols=124 Identities=21% Similarity=0.385 Sum_probs=111.0
Q ss_pred cCCcceecccCCccHHHHHhcCCCCcch-hhh-cceecCC------CCCeeEEEEecccCCCChHHHHHHHHHCCCCceE
Q 041751 76 RGSLWPMTFGLACCAVEMMHTGAAGYDL-DRF-GIIFRPS------PRQSDVMIVAGTLTNKMAPALRKVYDQMPEPRWV 147 (213)
Q Consensus 76 ~~siW~~~~gc~GC~iE~l~~~~~~~Dl-~rf-gi~~~~s------Pr~aDIliVeG~Vt~km~~~l~~l~e~~~~pk~V 147 (213)
.+.+|++..+|+||+++|+++.++.+|+ +.+ ++.|+++ ..++||++|||+|++++.+.++++++++++||+|
T Consensus 2 ~~v~~~~~~~C~GC~~s~l~~~~~~~~ll~~~i~~~y~~~~~~~~~~~~~dil~VeG~i~~~~~~~~~~~~~~~~~ak~v 81 (228)
T TIGR03294 2 ITVGYVHLSGCTGCLVSLTDNYEGLLDILDNIADLVYCQTLADAREIPEMDVALVEGSVCLQDEHSLEEIKELREKAKVV 81 (228)
T ss_pred ceEEEEECCCCCChHHHHHccCCcHHHHHHHhhHheecHhhhhhccCCCccEEEEeCCCCCCccHHHHHHHHHhccCCEE
Confidence 5679999999999999999999888887 455 7888762 2458999999999999999999999999999999
Q ss_pred EEecCccCcCCCCCCCCc---------cccCCCccccceEEccCCCCCHHHHHHHHHHHHH
Q 041751 148 ISMGSRANGGGYYHYSYS---------VVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQK 199 (213)
Q Consensus 148 IA~GsCA~~GGi~~~sy~---------~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ 199 (213)
||+|+||++||+++.+++ .++|++++|+||||||||||+|++|+++|.+|+.
T Consensus 82 VA~GtCA~~GGi~~~~~~~~~~~~~~~~~~~~~~~V~vdi~IpGCPp~p~~i~~~l~~ll~ 142 (228)
T TIGR03294 82 VALGACAATGNFTRYSRGGQQAQPQHESFVPITDVIDVDLAIPGCPPSPEAIRNVCVALLN 142 (228)
T ss_pred EEeecccccCCcccccCCcccCCCCCCCCcCHHHcccCCEEeeCCCCCHHHHHHHHHHHHc
Confidence 999999999999876543 4788899999999999999999999999999875
No 17
>PF01058 Oxidored_q6: NADH ubiquinone oxidoreductase, 20 Kd subunit; InterPro: IPR006137 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 []. Among the many polypeptide subunits that make up complex I, there is one with a molecular weight of 20 kDa (in mammals) [], which is a component of the iron-sulphur (IP) fragment of the enzyme. It seems to bind a 4Fe-4S iron-sulphur cluster. The 20 kDa subunit has been found to be nuclear encoded, as a precursor form with a transit peptide in mammals, and in Neurospora crassa. It is and chloroplast encoded in various higher plants (gene ndhK or psbG).; GO: 0008137 NADH dehydrogenase (ubiquinone) activity, 0048038 quinone binding, 0051539 4 iron, 4 sulfur cluster binding, 0055114 oxidation-reduction process; PDB: 3MYR_E 3RGW_S 2FUG_F 3IAS_6 3I9V_F 3IAM_F 2YBB_6 3M9S_F 2FRV_G 1YQ9_B ....
Probab=99.97 E-value=8.2e-34 Score=227.22 Aligned_cols=112 Identities=33% Similarity=0.573 Sum_probs=92.9
Q ss_pred CCccHHHHHhcCCCCcch-hhhcceecC----CCC---------CeeEEEEecccCCCChHHHHHHHHHCCCCceEEEec
Q 041751 86 LACCAVEMMHTGAAGYDL-DRFGIIFRP----SPR---------QSDVMIVAGTLTNKMAPALRKVYDQMPEPRWVISMG 151 (213)
Q Consensus 86 c~GC~iE~l~~~~~~~Dl-~rfgi~~~~----sPr---------~aDIliVeG~Vt~km~~~l~~l~e~~~~pk~VIA~G 151 (213)
|+||++||++...+.+|+ +.+++.|++ +++ ++||+||||+|++++.+.+++++++|+++|+|||+|
T Consensus 1 C~GC~~s~~~~~~~~~dll~~i~~~~~~~l~~~~~~~~~~~~~~~~diliVeG~v~~~~~~~~e~~~~~~~~a~~vIAvG 80 (131)
T PF01058_consen 1 CTGCTISFLALEPSLLDLLELIEIRYHPSLMASPGEQDEENGEEEADILIVEGSVPRNMEEALEWLKELRPKAKAVIAVG 80 (131)
T ss_dssp -SHHHHHHTTTTTTHHHHHHTEEEEEETTT-SS-HHHHHHHHTTTTEEEEEESBEETGGEEHHHHHHHHHGCSSEEEEEH
T ss_pred CCCcHHHHhhCCCCHHHHHhhhHHHhCCEehhhcCCccccccccCceEEEEEeeccCCchHHHHHHHHHccCCceeEcCC
Confidence 999999998888899997 556666643 444 999999999999999999999999999999999999
Q ss_pred CccCcCCCCC--CCCcc---ccCCCccccceEEccCCCCCHHHHHHHHHHH
Q 041751 152 SRANGGGYYH--YSYSV---VRGCDRIVPVDIYVPGCPPTAEALLYGILQL 197 (213)
Q Consensus 152 sCA~~GGi~~--~sy~~---~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~L 197 (213)
+||++|||++ .+++. ++++++++|||||||||||+||+|+++|.+|
T Consensus 81 tCA~~GGi~~~~~~~~~~~~~~~~~~~~~VDi~IpGCPp~pd~i~~~l~~L 131 (131)
T PF01058_consen 81 TCASFGGIPAARNNPSVGDSVGPLLEVVPVDINIPGCPPHPDWILETLLAL 131 (131)
T ss_dssp HHHHH-TGGGSTTSTTEEE-HHHHHGCS-ECEEE-SSS--HHHHHHHHHHH
T ss_pred CccccCCcccccccccccccccCcCCCccEEEEeeCCCCCHHHHHHHHhhC
Confidence 9999999994 44543 4678889999999999999999999999986
No 18
>TIGR00391 hydA hydrogenase (NiFe) small subunit (hydA). Called (hupA/hydA/hupS/hoxK/vhtG) Involved in hydrogenase reactions performing different specific functions in different species eg (EC 1.12.2.1) in Desulfovibrio gigas,(EC 1.12.99.3) in Wolinella succinogenes and (EC 1.18.99.1) in E.coli and a number of other species and (EC 1.12.99.-) in the archea.
Probab=99.97 E-value=1.9e-30 Score=239.04 Aligned_cols=142 Identities=14% Similarity=0.297 Sum_probs=122.6
Q ss_pred hhhhcCCcceecccCCccHHHHHhcCCCCcc--hhh-hcceecCC-------------------CCCeeEEEEecccCCC
Q 041751 72 NWVRRGSLWPMTFGLACCAVEMMHTGAAGYD--LDR-FGIIFRPS-------------------PRQSDVMIVAGTLTNK 129 (213)
Q Consensus 72 ~w~R~~siW~~~~gc~GC~iE~l~~~~~~~D--l~r-fgi~~~~s-------------------Pr~aDIliVeG~Vt~k 129 (213)
+-.|.+.+|++..+|+||+++|+++..|.+| +.. ..++|+++ ....||++|||+|+++
T Consensus 47 ~~~~~~viWL~~~~CtGCs~SlL~s~~P~~~~~ll~~isl~yhptlmaa~G~~ae~~l~~~~~~~~g~~ILvVEGaIp~~ 126 (365)
T TIGR00391 47 NPQRPPVIWIHAQECTGCTESLLRSAHPTVENLILETISLEYHETLMAAFGHQAEENKHDAIEKYKGQYILVVEGSIPLG 126 (365)
T ss_pred cCCCCCEEEEeCCCCCCcHHHHhccCCCCHHHHHhcCceEEechHhHHhhHHHHHHHHHHHHhccCCCeEEEEeCCCCCC
Confidence 3477899999999999999999999999888 433 47788763 1236999999999998
Q ss_pred C---------hHHHHHHHHHCCCCceEEEecCccCcCCCCCCCCcc--ccCCCccc--cceEEccCCCCCHHHHHHHHHH
Q 041751 130 M---------APALRKVYDQMPEPRWVISMGSRANGGGYYHYSYSV--VRGCDRIV--PVDIYVPGCPPTAEALLYGILQ 196 (213)
Q Consensus 130 m---------~~~l~~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~--~~gv~~vV--pVDi~IPGCPP~Pe~il~~L~~ 196 (213)
+ .+.++.++++++++|+|||+|+||++|||++..++. ..||++++ ..+||||||||+||+|+++|++
T Consensus 127 ~~G~y~~~~g~~~~e~l~~~a~~A~aVIAvGtCAs~GGI~aa~pnptga~~v~~vi~~~pvinIPGCPp~Pe~i~~tl~~ 206 (365)
T TIGR00391 127 DNGIYCMVAGEPIVEHIRKAAEGAAAIIAIGTCSSWGGVQAAGPNPTGAVPLQKVIPDKPVINVPGCPPNPHNFLATVAY 206 (365)
T ss_pred CCceeeeeCCcHHHHHHHHHhhcCCEEEEEeccccccCccCCCCCCCCCcchhHhcCCCCeEEeCCCCCCHHHHHHHHHH
Confidence 7 468999999999999999999999999999876654 56899998 3459999999999999999999
Q ss_pred HH-----HHHhhcCCccccccC
Q 041751 197 LQ-----KKINRRRDFLHWWTK 213 (213)
Q Consensus 197 Ll-----~ki~~~~~~~~~y~~ 213 (213)
++ .++++.+||++||++
T Consensus 207 ~ll~G~lP~LD~~~RP~~fyg~ 228 (365)
T TIGR00391 207 IITFGKLPKLDDKNRPTFAYGR 228 (365)
T ss_pred HHHcCCCCCCCCCCCchhhhcC
Confidence 75 268999999999974
No 19
>PRK10468 hydrogenase 2 small subunit; Provisional
Probab=99.96 E-value=3e-30 Score=237.98 Aligned_cols=142 Identities=16% Similarity=0.311 Sum_probs=121.8
Q ss_pred hhhhcCCcceecccCCccHHHHHhcCCCCcc--hhh-hcceecCC-------------------CCCeeEEEEecccCCC
Q 041751 72 NWVRRGSLWPMTFGLACCAVEMMHTGAAGYD--LDR-FGIIFRPS-------------------PRQSDVMIVAGTLTNK 129 (213)
Q Consensus 72 ~w~R~~siW~~~~gc~GC~iE~l~~~~~~~D--l~r-fgi~~~~s-------------------Pr~aDIliVeG~Vt~k 129 (213)
.-.|.+.||++..+|+||+++|+++..|.++ +.. ..+.||++ ...-|||+|||+|+.+
T Consensus 45 ~~~r~~viWLq~~~CtGcs~SlL~a~~P~~~~ll~~~i~l~yH~tl~aa~G~~a~~~l~~~~~~~~~~~ILvVEGaIp~~ 124 (371)
T PRK10468 45 NPQRPPVIWIGAQECTGCTESLLRATHPTVENLVLETISLEYHEVLSAAFGHQVEENKHNALEKYKGQYVLVVDGSIPLK 124 (371)
T ss_pred cCCCCcEEEEeCCCCCCcHHHHhccCCCCHHHHHhcCceeeeccHHHHHhHHHHHHHHHHHHhcCCCCeEEEEeCCCCCC
Confidence 3467899999999999999999999998776 233 36788773 1346999999999998
Q ss_pred C---------hHHHHHHHHHCCCCceEEEecCccCcCCCCCCCCcc--ccCCCccccce--EEccCCCCCHHHHHHHHHH
Q 041751 130 M---------APALRKVYDQMPEPRWVISMGSRANGGGYYHYSYSV--VRGCDRIVPVD--IYVPGCPPTAEALLYGILQ 196 (213)
Q Consensus 130 m---------~~~l~~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~--~~gv~~vVpVD--i~IPGCPP~Pe~il~~L~~ 196 (213)
+ .+.++.+++++++||+|||+|+||++|||++..++. ..|++++++.+ ||||||||+||+|+++|++
T Consensus 125 ~~G~y~~~gg~~~~e~l~~~a~~A~aVVAvGtCAs~GGI~aa~pnptga~gv~~~l~~~PVINIPGCPp~P~~i~~tL~~ 204 (371)
T PRK10468 125 DNGIYCMVAGEPIVDHIRKAAEGAAAIIAIGSCSAWGGVAAAGVNPTGAVSLQEVLPGKTVINIPGCPPNPHNFLATVAH 204 (371)
T ss_pred CCcceeeECCchHHHHHHHHhccCCEEEEEecccccCCcccCCCCCCCCccHHHhcCCCCeEEcCCCCCCHHHHHHHHHH
Confidence 5 478999999999999999999999999999987765 55888887433 9999999999999999999
Q ss_pred HH-H----HHhhcCCccccccC
Q 041751 197 LQ-K----KINRRRDFLHWWTK 213 (213)
Q Consensus 197 Ll-~----ki~~~~~~~~~y~~ 213 (213)
|+ . ++|+.+||++||.+
T Consensus 205 l~~~g~lp~LD~~gRPk~fyg~ 226 (371)
T PRK10468 205 IITYGKPPKLDDKNRPTFAYGR 226 (371)
T ss_pred HHhcCCCccccccCCcHHHhcC
Confidence 98 2 59999999999974
No 20
>COG1740 HyaA Ni,Fe-hydrogenase I small subunit [Energy production and conversion]
Probab=99.95 E-value=1.1e-27 Score=217.68 Aligned_cols=151 Identities=15% Similarity=0.292 Sum_probs=124.4
Q ss_pred eeehhhHHHHhhhhcCCcceecccCCccHHHHHhcCCCCcch--hhh-cceecCC-------------------CCCeeE
Q 041751 62 YVISKVDNLLNWVRRGSLWPMTFGLACCAVEMMHTGAAGYDL--DRF-GIIFRPS-------------------PRQSDV 119 (213)
Q Consensus 62 ~~~~~~d~~~~w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl--~rf-gi~~~~s-------------------Pr~aDI 119 (213)
|.......+=+--|.+.||++...|+||+++|++...|..+. ..| .+.|+++ -+.-||
T Consensus 35 ~~~~~~~a~e~~~~~~viWLhg~eCTGcteSfLrs~~P~~~~li~~~IsL~Yhetlmaa~G~~aee~l~~~i~~~kg~yI 114 (355)
T COG1740 35 YAPEIAKALENKPRTPVIWLHGLECTGCTESFLRSEHPTANDLILELISLEYHETLMAASGTQAEELLEDAILKYKGKYI 114 (355)
T ss_pred chHHHHHHHhcCCCCceEEEecccccCchHHHhccCCCCHHHHHHHHHhhhhhhhhhhhcchhHHHHHHHHHHhcCCceE
Confidence 333344444445555899999999999999999999998874 233 4567652 234689
Q ss_pred EEEecccCCCC---------hHHHHHHHHHCCCCceEEEecCccCcCCCCCCC--CccccCCCccc---cceEEccCCCC
Q 041751 120 MIVAGTLTNKM---------APALRKVYDQMPEPRWVISMGSRANGGGYYHYS--YSVVRGCDRIV---PVDIYVPGCPP 185 (213)
Q Consensus 120 liVeG~Vt~km---------~~~l~~l~e~~~~pk~VIA~GsCA~~GGi~~~s--y~~~~gv~~vV---pVDi~IPGCPP 185 (213)
|+|||+|++.+ .+..+.++++.+.+++|||+|+||++|||++.. ++...++++++ || ||||||||
T Consensus 115 LvVEG~v~~~~~G~y~~vgg~~~~e~l~~aA~~A~aIiAvGtCAs~GgI~AA~pnps~a~~i~ev~~~kpV-INiPGCPp 193 (355)
T COG1740 115 LVVEGAVPLGENGMYCIVGGEPFKEILRKAAEGASAIIAVGTCASWGGIQAAKPNPTGAGPLSEVIKDKPV-INIPGCPP 193 (355)
T ss_pred EEEeCCccCCCCceEEEEcChhHHHHHHHHhhcCceEEEEecccccCCeeccCCCCCCcccceecccCCce-eeCCCCCC
Confidence 99999999994 578889999999999999999999999999874 56778999988 56 99999999
Q ss_pred CHHHHHHHHHHHHH-----HHhhcCCccccccC
Q 041751 186 TAEALLYGILQLQK-----KINRRRDFLHWWTK 213 (213)
Q Consensus 186 ~Pe~il~~L~~Ll~-----ki~~~~~~~~~y~~ 213 (213)
+||+|+.+|.+++- +||+.+||++||.+
T Consensus 194 ~pd~iv~tl~~~~~~gk~P~LD~~~RPk~fyg~ 226 (355)
T COG1740 194 NPDWIVATLLHIVTFGKLPDLDELGRPKMFYGN 226 (355)
T ss_pred CchhHHHHHHHHHHcCCCcchhhcCCchhhhcc
Confidence 99999999998764 59999999999973
No 21
>COG1941 FrhG Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]
Probab=99.94 E-value=1e-27 Score=209.92 Aligned_cols=116 Identities=26% Similarity=0.470 Sum_probs=101.2
Q ss_pred ecccCCccHHHHHhcCCCCcch-hhhcceecC-------CCCCeeEEEEecccCCCChHHHHHHHHHCCCCceEEEecCc
Q 041751 82 MTFGLACCAVEMMHTGAAGYDL-DRFGIIFRP-------SPRQSDVMIVAGTLTNKMAPALRKVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 82 ~~~gc~GC~iE~l~~~~~~~Dl-~rfgi~~~~-------sPr~aDIliVeG~Vt~km~~~l~~l~e~~~~pk~VIA~GsC 153 (213)
+..||+||.++|+++....+|+ ++.+++|.+ .|+ .||++|||+|.+++. ++.++|+|+++|+|||+|+|
T Consensus 10 ~L~gC~GC~~slldl~E~L~dll~~~div~~~~l~D~keiPE-vDValVEGsV~~ee~--lE~v~ElRekakivVA~GsC 86 (247)
T COG1941 10 WLTGCSGCHMSLLDLYEKLLDLLEDADIVYCPTLVDEKEIPE-VDVALVEGSVCDEEE--LELVKELREKAKIVVALGSC 86 (247)
T ss_pred EeccccchHHHHHhHHHHHHHhhhhhcEEEeecccccccCCc-ccEEEEecccCcHHH--HHHHHHHHHhCcEEEEEecc
Confidence 4469999999999999999997 557888765 355 999999999995544 99999999999999999999
Q ss_pred cCcCCCCCC-----------CC---------ccccCCCccccceEEccCCCCCHHHHHHHHHHHHHH
Q 041751 154 ANGGGYYHY-----------SY---------SVVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKK 200 (213)
Q Consensus 154 A~~GGi~~~-----------sy---------~~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~k 200 (213)
|++||+++. .| ..++|+.++|+||++||||||+||.|.++|..|+++
T Consensus 87 A~~Ggv~~~~~~s~~e~l~~~y~~~~~~~~~~~v~Pl~evI~VD~~IpGCPP~~e~I~~al~all~g 153 (247)
T COG1941 87 AVTGGVQGLRNKSGEELLRPVYGDAKSTFNEESVVPLGEVIDVDYAIPGCPPSPEEIARALTALLEG 153 (247)
T ss_pred hhcCCchhhhhccccccchhhhhcccCCCCccceEEchheeeeeeecCCCCcCHHHHHHHHHHHHcC
Confidence 999999842 23 357899999999999999999999999999999763
No 22
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=88.17 E-value=0.61 Score=35.85 Aligned_cols=70 Identities=19% Similarity=0.245 Sum_probs=40.4
Q ss_pred ceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCCh-H---HHHHHHHHCCCCceEEEecCc
Q 041751 80 WPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMA-P---ALRKVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 80 W~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~-~---~l~~l~e~~~~pk~VIA~GsC 153 (213)
+..++|| .++..++..-.-.+.+.|......+.+||++||.- +|+.+-. + .++++.+.- +++..|.+.-|
T Consensus 3 ~i~T~GC---~~N~~Dse~i~~~l~~~G~~~~~~~e~AD~iiiNTC~V~~~Ae~k~~~~i~~l~~~~-~~~~~ivv~GC 77 (98)
T PF00919_consen 3 YIETLGC---QMNQYDSERIASILQAAGYEIVDDPEEADVIIINTCTVRESAEQKSRNRIRKLKKLK-KPGAKIVVTGC 77 (98)
T ss_pred EEEECCC---cccHHHHHHHHHHHHhcCCeeecccccCCEEEEEcCCCCcHHHHHHHHHHHHHHHhc-CCCCEEEEEeC
Confidence 4556654 45544444333445677888888899999888754 4444332 2 344444443 45566666556
No 23
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=84.60 E-value=3.1 Score=33.76 Aligned_cols=26 Identities=23% Similarity=0.355 Sum_probs=19.0
Q ss_pred cceEEccCCCCCHHHHHHHHHHHHHHH
Q 041751 175 PVDIYVPGCPPTAEALLYGILQLQKKI 201 (213)
Q Consensus 175 pVDi~IPGCPP~Pe~il~~L~~Ll~ki 201 (213)
+| +.+||||......++.++-+++++
T Consensus 123 ~v-~~LPG~P~aa~~~~~~v~P~l~~~ 148 (152)
T cd00886 123 LI-FNLPGSPKAVREALEVILPELPHL 148 (152)
T ss_pred EE-EECCCCHHHHHHHHHHHHHHHHHH
Confidence 45 899999997777776666566554
No 24
>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125. This clade spans alpha and gamma proteobacteria, cyano bacteria, deinococcus, porphyromonas, aquifex, helicobacter, campylobacter, thermotoga, chlamydia, streptococcus coelicolor and clostridium, but does not include most other gram positive bacteria, archaea or eukaryotes.
Probab=80.88 E-value=0.82 Score=43.00 Aligned_cols=74 Identities=11% Similarity=0.023 Sum_probs=44.0
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCChH-HHHHHHHHCCCCceEEEecCccCc
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMAP-ALRKVYDQMPEPRWVISMGSRANG 156 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~~-~l~~l~e~~~~pk~VIA~GsCA~~ 156 (213)
++..++||.=...|--.+ .-.+...|......+.+|||++|.- +|+.+-.. +.+.+.+.+.. +..|.+|-|...
T Consensus 2 ~~i~t~GC~~N~~ds~~~---~~~l~~~g~~~~~~~~~aD~viinTC~v~~~a~~~~~~~i~~~~~~-~~~vvvgGc~a~ 77 (430)
T TIGR01125 2 IGFISLGCPKNLVDSEVM---LGILREAGYEVTPNYEDADYVIVNTCGFIEDARQESIDTIGELADA-GKKVIVTGCLVQ 77 (430)
T ss_pred EEEEECCCCCcHHHHHHH---HHHHHHCcCEECCCcccCCEEEEeCCCccchHHHHHHHHHHHHHhc-CCCEEEECCccc
Confidence 567777775444332222 2234556766667778999999997 67766543 45555554422 234677777544
No 25
>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=76.90 E-value=1.8 Score=41.43 Aligned_cols=77 Identities=13% Similarity=0.115 Sum_probs=44.8
Q ss_pred CCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCChH-----HHHHHHHHC-CCCceEEEe
Q 041751 77 GSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMAP-----ALRKVYDQM-PEPRWVISM 150 (213)
Q Consensus 77 ~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~~-----~l~~l~e~~-~~pk~VIA~ 150 (213)
..++..++||.=...+--.+ .-.+...|......+.+||+++|..---++.+. .++.+..+. .+|+..|.+
T Consensus 24 ~~~~i~t~GC~~N~~dse~~---~~~l~~~G~~~~~~~~~ADiviiNTC~v~~~a~~k~~~~i~~~~~~k~~~p~~~ivv 100 (467)
T PRK14329 24 KKLFIESYGCQMNFADSEIV---ASILQMAGYNTTENLEEADLVLVNTCSIRDNAEQKVRKRLEKFNALKKKNPKLIVGV 100 (467)
T ss_pred CEEEEEecCCCCcHHHHHHH---HHHHHHCcCEECCCcccCCEEEEeCcceechHHHHHHHHHHHHHHHHhhCCCcEEEE
Confidence 34788999886444332222 123455677777788899999998755554431 221112222 346667777
Q ss_pred cCccCc
Q 041751 151 GSRANG 156 (213)
Q Consensus 151 GsCA~~ 156 (213)
|-|-+.
T Consensus 101 gGc~a~ 106 (467)
T PRK14329 101 LGCMAE 106 (467)
T ss_pred ECChhc
Confidence 777544
No 26
>TIGR00089 RNA modification enzyme, MiaB family. This subfamily is aparrently a part of a larger superfamily of enzymes utilizing both a 4Fe4S cluster and S-adenosyl methionine (SAM) to initiate radical reactions. MiaB acts on a particular isoprenylated Adenine base of certain tRNAs causing thiolation at an aromatic carbon, and probably also transferring a methyl grouyp from SAM to the thiol. The particular substrate of the three other clades is unknown but may be very closely related.
Probab=76.63 E-value=1.4 Score=41.35 Aligned_cols=73 Identities=12% Similarity=0.125 Sum_probs=40.9
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEe--cccCCCChHHHHHHHHH---CCCCceEEEecCc
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVA--GTLTNKMAPALRKVYDQ---MPEPRWVISMGSR 153 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVe--G~Vt~km~~~l~~l~e~---~~~pk~VIA~GsC 153 (213)
++..++||.=...+--.+ .-.+.+.|....+.+.++||++|. +.......++.+.+.+. .++++ .|.+|-|
T Consensus 2 ~~~~t~GC~~N~~ds~~~---~~~l~~~g~~~~~~~~~aD~v~intC~v~~~a~~~~~~~i~~~~~~~~~~~-~vvvgGc 77 (429)
T TIGR00089 2 VYIETYGCQMNEADSEIM---AGLLKEAGYEVTDDPEEADVIIINTCAVREKAEQKVRSRLGELAKLKKKNA-KIVVAGC 77 (429)
T ss_pred EEEEEcCCCCcHHHHHHH---HHHHHHCcCEECCCcccCCEEEEecceeechHHHHHHHHHHHHHHhCcCCC-EEEEECc
Confidence 456777776444443322 233455677777788899999997 44443343444444443 33332 3556666
Q ss_pred cC
Q 041751 154 AN 155 (213)
Q Consensus 154 A~ 155 (213)
-+
T Consensus 78 ~a 79 (429)
T TIGR00089 78 LA 79 (429)
T ss_pred cc
Confidence 43
No 27
>PRK14330 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=67.96 E-value=3.6 Score=38.83 Aligned_cols=75 Identities=16% Similarity=0.192 Sum_probs=40.9
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCCh-HHHHHHHHH---CCCCceEEEecCc
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMA-PALRKVYDQ---MPEPRWVISMGSR 153 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~-~~l~~l~e~---~~~pk~VIA~GsC 153 (213)
++..++||.=...+--.+ .-.+...|+...+.+.+||+++|.- +++.+-+ +..+.+.+. .++....|.+|-|
T Consensus 3 ~~i~t~GC~~N~~ds~~~---~~~l~~~g~~~~~~~~~aDlvvinTC~v~~~a~~~~~~~i~~~~~~~r~~~~~vvv~Gc 79 (434)
T PRK14330 3 FYIKTFGCQMNENDSETM---AGLLKKEGFEPASNPEEADVVIINTCAVRRKSEEKAYSELGQLLKLKRKKNLIIGVAGC 79 (434)
T ss_pred EEEEEcCCCCcHHHHHHH---HHHHHHCcCEECCCcccCCEEEEEccceeehHHHHHHHHHHHHHHhcccCCCEEEEECc
Confidence 567777775433332222 2234455666667788999999952 2333322 333333333 2334666888888
Q ss_pred cCc
Q 041751 154 ANG 156 (213)
Q Consensus 154 A~~ 156 (213)
.+.
T Consensus 80 ~a~ 82 (434)
T PRK14330 80 VAE 82 (434)
T ss_pred ccc
Confidence 544
No 28
>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=67.56 E-value=4.8 Score=38.19 Aligned_cols=74 Identities=16% Similarity=0.175 Sum_probs=42.9
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEe-cccCCCCh----HHHHHHHHHCCCCceEEEecCc
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVA-GTLTNKMA----PALRKVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVe-G~Vt~km~----~~l~~l~e~~~~pk~VIA~GsC 153 (213)
++..++||.=...+ +..-.-.+.+.|....+.+.+|||+||. =+|+.+-. ..++++.+..++.+.+|.+.-|
T Consensus 3 ~~i~t~GC~~N~~d---s~~~~~~l~~~G~~~~~~~~~ADi~iiNTC~v~~~a~~~~~~~i~~~~~~~~~~~~~v~v~GC 79 (440)
T PRK14334 3 AHIITYGCQMNEYD---THLVESELVSLGAEIVDSVDEADFVLVNTCAVRGKPVEKVRSLLGELRKEKAQRPLVVGMMGC 79 (440)
T ss_pred EEEEecCCCCcHHH---HHHHHHHHHHCcCEECCCcccCCEEEEeccceeehHHHHHHHHHHHHHhhCcCCCcEEEEEcc
Confidence 56778877533333 2221224566788788888999988874 34444432 2344444444444566767677
Q ss_pred cC
Q 041751 154 AN 155 (213)
Q Consensus 154 A~ 155 (213)
-.
T Consensus 80 ~a 81 (440)
T PRK14334 80 LA 81 (440)
T ss_pred hh
Confidence 54
No 29
>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional
Probab=67.53 E-value=4.7 Score=38.36 Aligned_cols=47 Identities=21% Similarity=0.152 Sum_probs=29.9
Q ss_pred CcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCC
Q 041751 78 SLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTN 128 (213)
Q Consensus 78 siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~ 128 (213)
.++..++||.=...+--.+ .-.+...|....+.+.+||+++|. +.+-
T Consensus 9 ~~~i~t~GC~~N~~dse~~---~~~l~~~G~~~~~~~~~aD~ivin-TC~v 55 (440)
T PRK14862 9 KIGFVSLGCPKALVDSERI---LTQLRAEGYEISPSYDGADLVIVN-TCGF 55 (440)
T ss_pred EEEEEEcCCCCcHHHHHHH---HHHHHHCcCEECCCcccCCEEEEe-cccc
Confidence 3777888775443332222 223456677777888999999997 4443
No 30
>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=66.79 E-value=3.7 Score=38.81 Aligned_cols=75 Identities=16% Similarity=0.228 Sum_probs=43.3
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCCh--HH---HHHHHHHC-CCCceEEEecC
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMA--PA---LRKVYDQM-PEPRWVISMGS 152 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~--~~---l~~l~e~~-~~pk~VIA~Gs 152 (213)
+...++||.=...+--.+ .-.+...|....+.+.+|||++|.----++.+ +. ++++.+.. .+|+..|.+|-
T Consensus 6 ~~i~t~GC~~N~~ds~~~---~~~l~~~g~~~~~~~~~aDvviinTC~v~~~a~~~~~~~i~~~~~~k~~~p~~~vvvgG 82 (444)
T PRK14325 6 LYIKTYGCQMNEYDSSKM---ADLLGAEGYELTDDPEEADLILLNTCSIREKAQEKVFSELGRWRKLKEKNPDLIIGVGG 82 (444)
T ss_pred EEEEEcCCCCcHHHHHHH---HHHHHHCcCEECCCcCCCCEEEEEcceeeehHHHHHHHHHHHHHHHHHhCCCCEEEEEC
Confidence 667788776444443332 22345567777788889999999764444433 22 22232222 23566677777
Q ss_pred ccCc
Q 041751 153 RANG 156 (213)
Q Consensus 153 CA~~ 156 (213)
|...
T Consensus 83 c~as 86 (444)
T PRK14325 83 CVAQ 86 (444)
T ss_pred chhc
Confidence 7544
No 31
>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=66.25 E-value=3.9 Score=38.67 Aligned_cols=74 Identities=16% Similarity=0.134 Sum_probs=41.0
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCCh-HHHHHH---HHHC-CCCceEEEecC
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMA-PALRKV---YDQM-PEPRWVISMGS 152 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~-~~l~~l---~e~~-~~pk~VIA~Gs 152 (213)
++..++||.=...+--.+ .--+.+.|....+.+.+|||+||.- +|+.+-. +..+.+ .++. .+|+..|.+|-
T Consensus 3 ~~i~t~GC~~N~~ds~~~---~~~l~~~G~~~~~~~~~aDviiiNTC~v~~~a~~k~~~~i~~~~~~k~~~p~~~ivv~G 79 (437)
T PRK14331 3 YYIKTFGCQMNFNDSEKI---KGILQTLGYEPADDWEEADLILVNTCTIREKPDQKVLSHLGEYKKIKEKNPNALIGVCG 79 (437)
T ss_pred EEEEecCCCCcHHHHHHH---HHHHHHCcCEECCCcccCCEEEEeCcceecHHHHHHHHHHHHHHHHHHhCCCCEEEEEc
Confidence 567778775444332222 2234566777778888999888854 4444432 222222 2221 34667777777
Q ss_pred ccC
Q 041751 153 RAN 155 (213)
Q Consensus 153 CA~ 155 (213)
|-.
T Consensus 80 c~a 82 (437)
T PRK14331 80 CLA 82 (437)
T ss_pred chh
Confidence 843
No 32
>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=66.17 E-value=4.1 Score=38.49 Aligned_cols=77 Identities=13% Similarity=0.235 Sum_probs=44.1
Q ss_pred CcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCCh--HHH---HHHHHHC-CCCceEEEec
Q 041751 78 SLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMA--PAL---RKVYDQM-PEPRWVISMG 151 (213)
Q Consensus 78 siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~--~~l---~~l~e~~-~~pk~VIA~G 151 (213)
.++..++||.=...+ +..-.-.+.+.|....+.+.+||++||..=.-++.+ +.. ..+.++. .+|+..|.++
T Consensus 3 ~~~i~t~GC~~N~~d---se~~~~~l~~~G~~~~~~~~~AD~viiNTC~v~~~a~~~~~~~i~~~~~~~~~~~~~~ivv~ 79 (418)
T PRK14336 3 GYYLWTIGCQMNQAE---SERLGRLFELWGYSLADKAEDAELVLVNSCVVREHAENKVINRLHLLRKLKNKNPKLKIALT 79 (418)
T ss_pred eEEEEecCCCCcHHH---HHHHHHHHHHCcCEECCCcccCCEEEEecccEecHHHHHHHHHHHHHHHHHhhCCCCEEEEE
Confidence 477788877544443 322233566778877888889999998764333332 222 2333222 2355566666
Q ss_pred CccCcC
Q 041751 152 SRANGG 157 (213)
Q Consensus 152 sCA~~G 157 (213)
-|.+..
T Consensus 80 GC~~~~ 85 (418)
T PRK14336 80 GCLVGQ 85 (418)
T ss_pred CChhcC
Confidence 775543
No 33
>PF13278 DUF4066: Putative amidotransferase; PDB: 3BHN_A 3MGK_B 3NOV_A 3NON_B 3NOO_B 3NOQ_A 3NOR_A 3GRA_A 3EWN_A 3ER6_C ....
Probab=65.93 E-value=13 Score=29.67 Aligned_cols=39 Identities=15% Similarity=0.245 Sum_probs=30.0
Q ss_pred CCCeeEEEEecccC----CCChHHHHHHHHHCCCCceEEEecC
Q 041751 114 PRQSDVMIVAGTLT----NKMAPALRKVYDQMPEPRWVISMGS 152 (213)
Q Consensus 114 Pr~aDIliVeG~Vt----~km~~~l~~l~e~~~~pk~VIA~Gs 152 (213)
..+.|+++|-|... .+....++.+.++.++.++|+++++
T Consensus 59 ~~~~D~lvvpg~~~~~~~~~~~~l~~~l~~~~~~~~~i~aic~ 101 (166)
T PF13278_consen 59 APDFDILVVPGGPGFDAAAKDPALLDWLRQQHAQGTYIAAICT 101 (166)
T ss_dssp CSCCSEEEEE-STTHHHHTT-HHHHHHHHHHHCCTSEEEEETT
T ss_pred cccCCEEEeCCCCCchhcccCHHHHHHhhhhhccceEEeeeeh
Confidence 56789999999988 4455667778888889999999875
No 34
>cd03137 GATase1_AraC_1 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain. A subgroup of AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain. AraC regulators are defined by a AraC-type helix-turn-helix DNA binding domain at their C-terminal. AraC family transcriptional regulators are widespread among bacteria and are involved in regulating diverse and important biological functions, including carbon metabolism, stress responses and virulence in different microorganisms. The catalytic triad typical of GATase1 domains is not conserved in this GATase1-like domain. However, in common with typical GATase1domains a reactive cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow.
Probab=64.51 E-value=10 Score=30.80 Aligned_cols=42 Identities=19% Similarity=0.109 Sum_probs=31.0
Q ss_pred CCCeeEEEEecccCCC----ChHHHHHHHHHCCCCceEEEecCccC
Q 041751 114 PRQSDVMIVAGTLTNK----MAPALRKVYDQMPEPRWVISMGSRAN 155 (213)
Q Consensus 114 Pr~aDIliVeG~Vt~k----m~~~l~~l~e~~~~pk~VIA~GsCA~ 155 (213)
..+.|+++|-|....+ ....++.++++.++.|+|.|+|+=+.
T Consensus 62 ~~~~D~liipGg~~~~~~~~~~~l~~~l~~~~~~~~~i~aic~g~~ 107 (187)
T cd03137 62 LAAADTVIVPGGPDVDGRPPPPALLAALRRAAARGARVASVCTGAF 107 (187)
T ss_pred cCCCCEEEECCCcccccccCCHHHHHHHHHHHhcCCEEEEECHHHH
Confidence 3578999998864432 34567778888999999998876543
No 35
>TIGR01579 MiaB-like-C MiaB-like tRNA modifying enzyme. This clade is a member of a subfamily (TIGR00089) and spans low GC Gram positive bacteria, alpha and epsilon proteobacteria, Campylobacter, Porphyromonas, Aquifex, Thermotoga, Chlamydia, Treponema and Fusobacterium.
Probab=64.09 E-value=3.9 Score=38.19 Aligned_cols=53 Identities=23% Similarity=0.231 Sum_probs=31.5
Q ss_pred chhhhcceecCCCCCeeEEEEecccCCCCh--H---HHHHHHHHCCCCceEEEecCccCc
Q 041751 102 DLDRFGIIFRPSPRQSDVMIVAGTLTNKMA--P---ALRKVYDQMPEPRWVISMGSRANG 156 (213)
Q Consensus 102 Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~--~---~l~~l~e~~~~pk~VIA~GsCA~~ 156 (213)
.+...|+...+.+.++|+++|..--.+..+ + .++++++. +|+..|.+|-|-+.
T Consensus 19 ~l~~~g~~~~~~~~~aD~v~intctv~~~a~~~~~~~i~~~k~~--~p~~~vvvgGc~a~ 76 (414)
T TIGR01579 19 QLIQKGYEVVPDEDKADVYIINTCTVTAKADSKARRAIRRARRQ--NPTAKIIVTGCYAQ 76 (414)
T ss_pred HHHHCcCEECCCcccCCEEEEeccccchHHHHHHHHHHHHHHhh--CCCcEEEEECCccc
Confidence 344556666677788999999874333322 2 33444433 34456777778654
No 36
>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=63.89 E-value=5.3 Score=38.24 Aligned_cols=77 Identities=13% Similarity=0.095 Sum_probs=42.2
Q ss_pred cCCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCChH--HH---HHHHHH-CCCCceEEE
Q 041751 76 RGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMAP--AL---RKVYDQ-MPEPRWVIS 149 (213)
Q Consensus 76 ~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~~--~l---~~l~e~-~~~pk~VIA 149 (213)
...++..++||.=...+--.+ .-.+...|......+.+||+++|.==--++.++ .. ..+..+ ..+|+..|.
T Consensus 10 ~~~~~i~t~GC~~N~~dse~~---~~~l~~~G~~~~~~~~~ADvviiNTC~v~~~a~~~~~~~i~~~~~~k~~~p~~~iv 86 (449)
T PRK14332 10 LGKVYIETYGCQMNEYDSGIV---SSLMRDAEYSTSNDPENSDIIFLNTCAIRENAHAKIYNRLQSLGYLKKRNPNLVIG 86 (449)
T ss_pred CCEEEEEecCCCCCHHHHHHH---HHHHHHCcCEECCCcccCCEEEEEccCeechHHHHHHHHHHHHHHHHHhCCCCEEE
Confidence 345888899885333321111 123455677777788999999886433333321 22 222211 134666777
Q ss_pred ecCccC
Q 041751 150 MGSRAN 155 (213)
Q Consensus 150 ~GsCA~ 155 (213)
+|-|-+
T Consensus 87 v~GC~a 92 (449)
T PRK14332 87 VLGCMA 92 (449)
T ss_pred EECccc
Confidence 777743
No 37
>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=63.12 E-value=6.4 Score=37.62 Aligned_cols=75 Identities=12% Similarity=0.065 Sum_probs=43.7
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCCh-HHHH---HHHHHCCCCceEEEecCc
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMA-PALR---KVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~-~~l~---~l~e~~~~pk~VIA~GsC 153 (213)
++..++||.=...+ +..-.-.+.+.|....+.+.+|||+||.- +|+.+-. +.+. .+.....+++..|.+|-|
T Consensus 3 ~~i~t~GC~~N~~d---se~~~~~l~~~G~~~~~~~~~ADv~iiNTC~v~~~A~~k~~~~~~~~~~~k~~~~~~ivv~GC 79 (455)
T PRK14335 3 YFFETYGCQMNVAE---SASMEQLLLARGWTKAVDAETCDVLIINTCSVRITAETRVFGRLGLFSSLKKKRAFFIILMGC 79 (455)
T ss_pred EEEEEcCCCCcHHH---HHHHHHHHHHCcCEECCCcccCCEEEEeccceechHHHHHHHHHHHHHHhhhCCCcEEEEecc
Confidence 56777766533333 22222234566777778888999988853 4444432 2222 333345567777888888
Q ss_pred cCc
Q 041751 154 ANG 156 (213)
Q Consensus 154 A~~ 156 (213)
-+.
T Consensus 80 ~a~ 82 (455)
T PRK14335 80 MAE 82 (455)
T ss_pred ccc
Confidence 644
No 38
>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=62.77 E-value=6.3 Score=37.47 Aligned_cols=77 Identities=16% Similarity=0.224 Sum_probs=45.6
Q ss_pred CCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCCh-HHHHHHHHH----CCCCceEEEe
Q 041751 77 GSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMA-PALRKVYDQ----MPEPRWVISM 150 (213)
Q Consensus 77 ~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~-~~l~~l~e~----~~~pk~VIA~ 150 (213)
..++..++||.=...+--.+ .-.+.+.|......+.+|||+||.- +|+.+-. +.+..+.++ ..+|+..|-+
T Consensus 7 ~~~~i~t~GC~~N~~ds~~~---~~~l~~~G~~~~~~~~~ADiiiiNTC~v~~~a~~~~~~~i~~~~~~k~~~p~~~vvv 83 (448)
T PRK14333 7 RSYWITTFGCQMNKADSERM---AGILEDMGYQWAEDELQADLVLYNTCTIRDNAEQKVYSYLGRQAKRKHKNPDLTLVV 83 (448)
T ss_pred cEEEEEEcCCCCcHHHHHHH---HHHHHHCcCEECCCcccCCEEEEEeeeeeehHHHHHHHHHHHHHHHHhcCCCCEEEE
Confidence 46888888875433332222 2345667777778888999988853 4444432 222333222 3346777888
Q ss_pred cCccCc
Q 041751 151 GSRANG 156 (213)
Q Consensus 151 GsCA~~ 156 (213)
|-|.+.
T Consensus 84 ~Gc~a~ 89 (448)
T PRK14333 84 AGCVAQ 89 (448)
T ss_pred ECccCc
Confidence 888654
No 39
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=61.95 E-value=12 Score=30.05 Aligned_cols=75 Identities=12% Similarity=0.130 Sum_probs=37.2
Q ss_pred CCeeEEEEecccCCCChHHHHHHHHHCCCCceEEEecCccCcCCCCCCCCc--cccCCCccccceEEccCCCCCHHHHHH
Q 041751 115 RQSDVMIVAGTLTNKMAPALRKVYDQMPEPRWVISMGSRANGGGYYHYSYS--VVRGCDRIVPVDIYVPGCPPTAEALLY 192 (213)
Q Consensus 115 r~aDIliVeG~Vt~km~~~l~~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~--~~~gv~~vVpVDi~IPGCPP~Pe~il~ 192 (213)
+++|++|++|.+..........+.+..- -.++-.+|.= ...+.. .+. ...+..+-.+| +.+||||-.....++
T Consensus 65 ~~~DliIttGG~g~g~~D~t~~ai~~~g-~~~~~gv~~~--~~~~~~-~PG~~~~~~~~~~~~v-~~LPG~P~aa~~~~~ 139 (144)
T TIGR00177 65 DEADVVLTTGGTGVGPRDVTPEALEELG-EKEIPGFGEY--FTAVLS-RPGKPATAGVRGGTLI-FGLPGNPVSALVTFE 139 (144)
T ss_pred hCCCEEEECCCCCCCCCccHHHHHHHhC-cEEEeeeccc--cchhhC-CCCCceEEEEECCEEE-EECCCCHHHHHHHHH
Confidence 3689999999988876644444444332 2222222200 011111 010 00111111345 999999987766555
Q ss_pred HH
Q 041751 193 GI 194 (213)
Q Consensus 193 ~L 194 (213)
.+
T Consensus 140 ~~ 141 (144)
T TIGR00177 140 VL 141 (144)
T ss_pred HH
Confidence 43
No 40
>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=60.43 E-value=8.2 Score=37.52 Aligned_cols=77 Identities=13% Similarity=0.136 Sum_probs=43.8
Q ss_pred CCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEe-cccCCCChH----HHHHHHHHC-CCCceEEEe
Q 041751 77 GSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVA-GTLTNKMAP----ALRKVYDQM-PEPRWVISM 150 (213)
Q Consensus 77 ~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVe-G~Vt~km~~----~l~~l~e~~-~~pk~VIA~ 150 (213)
..++..++||.=...+--.+ .-.|...|......+.+|||+||. =+|+.+-.. .++.+.++. .+++..|.+
T Consensus 14 ~~~~i~T~GC~~N~~dse~~---~~~L~~~G~~~~~~~e~ADvvviNTCtv~~~A~~k~~~~i~~~~~~k~~~p~~~Vvv 90 (502)
T PRK14326 14 RTYQVRTYGCQMNVHDSERL---AGLLEAAGYVRAAEGQDADVVVFNTCAVRENADNRLYGNLGHLAPVKRANPGMQIAV 90 (502)
T ss_pred CEEEEEecCCCCcHHHHHHH---HHHHHHCCCEECCCcCCCCEEEEECCCeeehHHHHHHHHHHHHHHHHHhCCCCEEEE
Confidence 35888898876444332222 223455577777788899988884 455554322 123333222 235667777
Q ss_pred cCccCc
Q 041751 151 GSRANG 156 (213)
Q Consensus 151 GsCA~~ 156 (213)
|-|-+.
T Consensus 91 gGc~a~ 96 (502)
T PRK14326 91 GGCLAQ 96 (502)
T ss_pred ECcccc
Confidence 777544
No 41
>TIGR01578 MiaB-like-B MiaB-like tRNA modifying enzyme, archaeal-type. This clade is a member of a subfamily (TIGR00089) and spans the archaea and eukaryotes. The only archaeal miaB-like genes are in this clade, while eukaryotes have sequences described by this model as well as ones falling within the scope of the MiaB equivalog model.
Probab=58.99 E-value=6.3 Score=37.13 Aligned_cols=72 Identities=11% Similarity=0.185 Sum_probs=38.8
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEecccCCCCh--HHHHHHHHHC-CCCceEEEecCccC
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAGTLTNKMA--PALRKVYDQM-PEPRWVISMGSRAN 155 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG~Vt~km~--~~l~~l~e~~-~~pk~VIA~GsCA~ 155 (213)
++..++||. ++..++..-.-.+.+.|......+.+||+++|.----++.+ +.++.+.++. .+++ |.+|-|-+
T Consensus 2 ~~~~t~GC~---~N~~ds~~~~~~l~~~G~~~~~~~~~ADviiinTC~v~~~a~~~~~~~i~~~~~~~~~--vvv~GC~a 76 (420)
T TIGR01578 2 VYVETYGCT---LNNGDSEIMKNSLAAYGHELVNNAEEADLAILNTCTVKNKTEDTMLYRIESLMRNGKH--VVVAGCMP 76 (420)
T ss_pred EEEEecCCC---CcHHHHHHHHHHHHHCCCEECCCcccCCEEEEEeeeeeehHHHHHHHHHHHHHhcCCC--EEEECCcC
Confidence 345666664 33333322223456677777778889999998764444433 2334444442 2333 55666644
No 42
>cd03135 GATase1_DJ-1 Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1. Type 1 glutamine amidotransferase (GATase1)-like domain found in Human DJ-1. DJ-1 is involved in multiple physiological processes including cancer, Parkinson's disease and male fertility. It is unclear how DJ-1 functions in these. DJ-1 has been shown to possess chaperone activity. DJ-1 is preferentially expressed in the testis and moderately in other tissues; it is induced together with genes involved in oxidative stress response. The Drosophila homologue (DJ-1A) plays an essential role in oxidative stress response and neuronal maintenance. Inhibition of DJ-1A function through RNAi, results in the cellular accumulation of reactive oxygen species, organismal hypersensitivity to oxidative stress, and dysfunction and degeneration of dopaminergic and photoreceptor neurons. DJ-1 has lacks enzymatic activity and the catalytic triad of typical GATase1 domains, however it does contain the highly
Probab=56.73 E-value=14 Score=28.97 Aligned_cols=40 Identities=8% Similarity=0.186 Sum_probs=28.7
Q ss_pred CCCeeEEEEeccc-CC----CChHHHHHHHHHCCCCceEEEecCc
Q 041751 114 PRQSDVMIVAGTL-TN----KMAPALRKVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 114 Pr~aDIliVeG~V-t~----km~~~l~~l~e~~~~pk~VIA~GsC 153 (213)
+.++|+++|-|.. .. +....++.++++.++-|+|.++++=
T Consensus 58 ~~~~D~liipGg~~~~~~~~~~~~l~~~l~~~~~~~~~i~~ic~g 102 (163)
T cd03135 58 LDDYDAIVIPGGLPGAQNLADNEKLIKLLKEFNAKGKLIAAICAA 102 (163)
T ss_pred CCCCCEEEECCCCchHHHHHhCHHHHHHHHHHHHcCCEEEEEchh
Confidence 3578999998875 21 2345566777888899999988754
No 43
>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=55.23 E-value=8.4 Score=36.48 Aligned_cols=73 Identities=12% Similarity=0.164 Sum_probs=41.8
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCCh-HH---HHHHHHHC-CCCceEEEecC
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMA-PA---LRKVYDQM-PEPRWVISMGS 152 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~-~~---l~~l~e~~-~~pk~VIA~Gs 152 (213)
++..++||.=...+--.+ .-.+...|......+.+||++||.= +|+.+-. +. ++.+.++. .+++..|.+|-
T Consensus 4 ~~~~t~GC~~N~~ds~~~---~~~l~~~G~~~~~~~~~ADv~iiNTC~v~~~a~~k~~~~i~~~~~~~~~~~~~~vvv~G 80 (439)
T PRK14328 4 YFIETYGCQMNEEDSEKL---AGMLKSMGYERTENREEADIIIFNTCCVRENAENKVFGNLGELKKLKEKNPNLIIGVCG 80 (439)
T ss_pred EEEEEeCCCCCHHHHHHH---HHHHHHCcCEECCCcCcCCEEEEecccEechHHHHHHHHHHHHHHHHhhCCCCEEEEEC
Confidence 677888776554443332 2344566777778888999988854 3443322 22 23343332 34566666666
Q ss_pred cc
Q 041751 153 RA 154 (213)
Q Consensus 153 CA 154 (213)
|.
T Consensus 81 C~ 82 (439)
T PRK14328 81 CM 82 (439)
T ss_pred ch
Confidence 64
No 44
>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=55.05 E-value=9.3 Score=36.54 Aligned_cols=75 Identities=13% Similarity=0.152 Sum_probs=40.4
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCChH----HHHHHHHHC-CCCceEEEecC
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMAP----ALRKVYDQM-PEPRWVISMGS 152 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~~----~l~~l~e~~-~~pk~VIA~Gs 152 (213)
++..++||.=...+--.+ .-.+...|......+.+||++||.- +|+.+-.. .+..+.... .+|...|.++-
T Consensus 23 ~~i~t~GC~~N~~dse~~---~~~l~~~G~~~~~~~~~AD~~iiNTC~v~~~a~~~~~~~i~~~~~~k~~~p~~~ivv~G 99 (459)
T PRK14338 23 YYVWTVGCQMNVSDSERL---EAALQGVGYSPAERPEDADFIVLNSCSVRASAEERILGKLGELQRLKRQRPDTRIVLWG 99 (459)
T ss_pred EEEEecCCCCCHHHHHHH---HHHHHHCcCEECCCcccCCEEEEeccceeeHHHHHHHHHHHHHHHHHhhCCCCEEEEeC
Confidence 778888875433332222 2234556777777888999888753 44443322 112232221 23444566666
Q ss_pred ccCc
Q 041751 153 RANG 156 (213)
Q Consensus 153 CA~~ 156 (213)
|-+.
T Consensus 100 C~a~ 103 (459)
T PRK14338 100 CMVG 103 (459)
T ss_pred Cccc
Confidence 7443
No 45
>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=53.33 E-value=9.6 Score=36.40 Aligned_cols=76 Identities=11% Similarity=0.124 Sum_probs=44.8
Q ss_pred CcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCChHH----HHHHHHH-CCCCceEEEec
Q 041751 78 SLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMAPA----LRKVYDQ-MPEPRWVISMG 151 (213)
Q Consensus 78 siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~~~----l~~l~e~-~~~pk~VIA~G 151 (213)
.++..++||.=...+--.+ .-.+.+.|......+.+|||+||.- +|+.+-... ++.++++ ..+++..|.++
T Consensus 8 ~~~i~tlGC~~N~~dse~~---~~~l~~~G~~~~~~~~~ADviiiNTC~v~~~A~~k~~~~i~~~~~~k~~~~~~~ivv~ 84 (445)
T PRK14340 8 KFYIHTFGCQMNQADSEII---TALLQDEGYVPAASEEDADIVLLNTCAVRENAVERIGHYLQHLKGAKRRRKGLLVGVL 84 (445)
T ss_pred EEEEEecCCCCcHHHHHHH---HHHHHHCcCEECCCcccCCEEEEEeeeeeccHHHHHHHHHHHHHHHhhcCCCCEEEEe
Confidence 3777888775444332222 2235567777788889999998853 444443322 2223332 24677788888
Q ss_pred CccCc
Q 041751 152 SRANG 156 (213)
Q Consensus 152 sCA~~ 156 (213)
-|-+.
T Consensus 85 GC~a~ 89 (445)
T PRK14340 85 GCVPQ 89 (445)
T ss_pred Ccccc
Confidence 88653
No 46
>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=53.30 E-value=11 Score=37.08 Aligned_cols=80 Identities=9% Similarity=0.129 Sum_probs=46.4
Q ss_pred hhhcCCcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCCh-HHHHHH---HHH-CCCCce
Q 041751 73 WVRRGSLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMA-PALRKV---YDQ-MPEPRW 146 (213)
Q Consensus 73 w~R~~siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~-~~l~~l---~e~-~~~pk~ 146 (213)
-++...++..++||.=...+--.+ .--|.+.|......+.+||++||.- +|+.+-. +....+ .++ ..+|+.
T Consensus 63 ~~~~~~~~i~T~GC~~N~~Dse~~---~~~L~~~Gy~~~~~~~~ADviiiNTC~V~~~Ae~k~~~~i~~l~~~k~~~p~~ 139 (509)
T PRK14327 63 MGNGRKFYIRTYGCQMNEHDTEVM---AGIFEALGYEPTDDTEDADVILLNTCAIRENAENKVFGEIGHLKHLKRENPDL 139 (509)
T ss_pred ccCCCEEEEEeCCCCccHHHHHHH---HHHHHHCcCEECCCcCCCCEEEEECCCCccHHHHHHHHHHHHHHHHHhhCCCC
Confidence 445567899999875433332222 2234667877778888999888753 4444432 222222 322 245677
Q ss_pred EEEecCccC
Q 041751 147 VISMGSRAN 155 (213)
Q Consensus 147 VIA~GsCA~ 155 (213)
+|.+.-|-.
T Consensus 140 ~i~v~GCma 148 (509)
T PRK14327 140 LIGVCGCMS 148 (509)
T ss_pred EEEEEcchh
Confidence 777777754
No 47
>TIGR01574 miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB. Hits to this model span all major groups of bacteria and eukaryotes, but not archaea, which are known to lack this particular tRNA modification. The enzyme from Thermotoga maritima has been cloned, expressed, spectroscopically characterized and shown to complement the E. coli MiaB enzyme.
Probab=53.24 E-value=11 Score=35.73 Aligned_cols=75 Identities=13% Similarity=0.239 Sum_probs=42.3
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhh-cceecCCCCCeeEEEEec-ccCCCCh-HHHHHH---HHHC-CCCceEEEec
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRF-GIIFRPSPRQSDVMIVAG-TLTNKMA-PALRKV---YDQM-PEPRWVISMG 151 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rf-gi~~~~sPr~aDIliVeG-~Vt~km~-~~l~~l---~e~~-~~pk~VIA~G 151 (213)
++..++||.=...+ +..-.-.+.+. |....+.+.+||++||.= +|+.+-. +..+.+ .++. .+++..|.+|
T Consensus 2 ~~i~t~GC~~N~~d---se~~~~~l~~~~G~~~~~~~~~aDv~iiNTC~v~~~a~~k~~~~i~~~~~~k~~~~~~~ivv~ 78 (438)
T TIGR01574 2 LFIQTYGCQMNVRD---SEHMAALLTAKEGYALTEDAKEADVLLINTCSVREKAEHKVFGELGGFKKLKKKNPDLIIGVC 78 (438)
T ss_pred eEEEeCCCCCcHHH---HHHHHHHHHhcCCcEECCCcccCCEEEEeccCeechHHHHHHHHHHHHHHHHhhCCCcEEEEe
Confidence 56677776544333 33223345566 877777788999988854 3443322 222222 3332 3466677777
Q ss_pred CccCc
Q 041751 152 SRANG 156 (213)
Q Consensus 152 sCA~~ 156 (213)
-|-+.
T Consensus 79 GC~a~ 83 (438)
T TIGR01574 79 GCMAS 83 (438)
T ss_pred Ccccc
Confidence 78654
No 48
>PRK09271 flavodoxin; Provisional
Probab=53.17 E-value=30 Score=27.98 Aligned_cols=89 Identities=16% Similarity=0.160 Sum_probs=43.8
Q ss_pred CeeEEEEec-cc-----CCCChHHHHHHHHHCCCCceEEEecCc-cCcCC-CCCCCCcc-ccCCCccccceEEccCCCC-
Q 041751 116 QSDVMIVAG-TL-----TNKMAPALRKVYDQMPEPRWVISMGSR-ANGGG-YYHYSYSV-VRGCDRIVPVDIYVPGCPP- 185 (213)
Q Consensus 116 ~aDIliVeG-~V-----t~km~~~l~~l~e~~~~pk~VIA~GsC-A~~GG-i~~~sy~~-~~gv~~vVpVDi~IPGCPP- 185 (213)
++|++++-- +. +..+...++.+.+...+.|.+..+|++ ..+|| .|...-.. ..-++...+. +.+-.+|-
T Consensus 51 ~~d~vilgt~T~~~G~~p~~~~~f~~~l~~~~~~~k~~avfgsgd~~~~~~~f~~a~~~~~~~l~~~~~~-l~~~~~p~~ 129 (160)
T PRK09271 51 DYDLYLLGTWTDNAGRTPPEMKRFIAELAETIGKPPNVAVFGTGETQWGEEYYCGAVHRMARFFGSSYPR-LKIEQMPHG 129 (160)
T ss_pred cCCEEEEECcccCCCcCCHHHHHHHHHHHHHhccCCeEEEEecCCCCcCccHHHHHHHHHHHHHhccCCc-eeeecCCcc
Confidence 456655543 22 223445566666655567788888887 34444 11110000 0001111222 34444554
Q ss_pred --CHHHHHHHHHHHHHHHhhcC
Q 041751 186 --TAEALLYGILQLQKKINRRR 205 (213)
Q Consensus 186 --~Pe~il~~L~~Ll~ki~~~~ 205 (213)
..+.+.+-+..++..++...
T Consensus 130 ~~d~~~~~~~~~~~~~~~~~~~ 151 (160)
T PRK09271 130 ERDAAAIDNWTDKVLALCKNDP 151 (160)
T ss_pred chhHHHHHHHHHHHHHHhhcCC
Confidence 45677777778887774443
No 49
>cd03136 GATase1_AraC_ArgR_like AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain. A subgroup of AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain. This group contains proteins similar to the Pseudomonas aeruginosa ArgR regulator. ArgR functions in the control of expression of certain genes of arginine biosynthesis and catabolism. AraC regulators are defined by a AraC-type helix-turn-helix DNA binding domain at their C-terminal. AraC family transcriptional regulators are widespread among bacteria and are involved in regulating diverse and important biological functions, including carbon metabolism, stress responses and virulence in different microorganisms. The catalytic triad typical of GATase1 domains is not conserved in this GATase1-like domain. However, in common with typical GATase1domains a reactive cys residue is found in some sequences in the sharp turn betwee
Probab=51.64 E-value=25 Score=28.50 Aligned_cols=85 Identities=15% Similarity=0.078 Sum_probs=49.5
Q ss_pred CCeeEEEEecccCC---CChHHHHHHHHHCCCCceEEEecCccCc---CCCCCCC---------------CccccCCCcc
Q 041751 115 RQSDVMIVAGTLTN---KMAPALRKVYDQMPEPRWVISMGSRANG---GGYYHYS---------------YSVVRGCDRI 173 (213)
Q Consensus 115 r~aDIliVeG~Vt~---km~~~l~~l~e~~~~pk~VIA~GsCA~~---GGi~~~s---------------y~~~~gv~~v 173 (213)
.+.|+++|-|.... +....++.++++.++.|+|+++|+=+.. .|+.... |......++.
T Consensus 63 ~~~D~liipgg~~~~~~~~~~~~~~l~~~~~~~~~i~aic~g~~~La~aGll~g~~~t~~~~~~~~~~~~~p~~~~~~~~ 142 (185)
T cd03136 63 PPLDYLFVVGGLGARRAVTPALLAWLRRAARRGVALGGIDTGAFLLARAGLLDGRRATVHWEHLEAFAEAFPRVQVTRDL 142 (185)
T ss_pred CCCCEEEEeCCCCccccCCHHHHHHHHHHHhcCCEEEEEcHHHHHHHHccccCCCeeEECcccHHHHHHHCCCCccccCe
Confidence 46899999776432 2345677788888899999998875543 4443210 1111112222
Q ss_pred ccce--EEccCCCCCHHHHHHHHHHHHHHHh
Q 041751 174 VPVD--IYVPGCPPTAEALLYGILQLQKKIN 202 (213)
Q Consensus 174 VpVD--i~IPGCPP~Pe~il~~L~~Ll~ki~ 202 (213)
+-+| ++-.| .+...++..+++++++-
T Consensus 143 ~v~dg~i~Ta~---g~~~~~d~~l~ii~~~~ 170 (185)
T cd03136 143 FEIDGDRLTCA---GGTAALDLMLELIARDH 170 (185)
T ss_pred EEEcCCEEEec---cHHHHHHHHHHHHHHHh
Confidence 2122 33333 66666787888877653
No 50
>cd03140 GATase1_PfpI_3 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. PfpI is an ATP-independent intracellular proteases which may hydrolyze small peptides to provide a nutritional source. Only Cys of the catalytic triad typical of GATase1 domains is conserved in this group. This Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow.
Probab=49.90 E-value=21 Score=28.91 Aligned_cols=39 Identities=13% Similarity=0.125 Sum_probs=27.2
Q ss_pred CCeeEEEEecccCCC---ChHHHHHHHHHCCCCceEEEecCc
Q 041751 115 RQSDVMIVAGTLTNK---MAPALRKVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 115 r~aDIliVeG~Vt~k---m~~~l~~l~e~~~~pk~VIA~GsC 153 (213)
+++|+++|-|.-... ....++.++++..+.++|.|+++=
T Consensus 59 ~~~D~l~I~Gg~~~~~~~~~~l~~~l~~~~~~~~~i~aic~G 100 (170)
T cd03140 59 EDYDLLILPGGDSWDNPEAPDLAGLVRQALKQGKPVAAICGA 100 (170)
T ss_pred hHccEEEEcCCcccccCCcHHHHHHHHHHHHcCCEEEEEChH
Confidence 578999998874322 234566677777888998887653
No 51
>TIGR01383 not_thiJ DJ-1 family protein. This model represents the DJ-1 clade of the so-called ThiJ/PfpI family of proteins. PfpI, represented by a distinct model, is a putative intracellular cysteine protease. DJ-1 is described as an oncogene that acts cooperatively with H-Ras. Many members of the DJ-1 clade are annotated (apparently incorrectly) as ThiJ, a protein of thiamine biosynthesis. However, published reports of ThiJ activity and identification of a ThiJ/ThiD bifunctional protein describe an unrelated locus mapping near ThiM, rather than the DJ-1 homolog of E. coli. The ThiJ designation for this family may be spurious; the cited paper PubMed:8885414 refers to a locus near thiD and thiM in E. coli, unlike the gene represented here. Current public annotation reflects ThiJ/ThiD bifunctional activity, apparently a property of ThiD and not of this locus.
Probab=49.08 E-value=23 Score=28.42 Aligned_cols=40 Identities=13% Similarity=0.198 Sum_probs=28.0
Q ss_pred CCCeeEEEEecccC-----CCChHHHHHHHHHCCCCceEEEecCc
Q 041751 114 PRQSDVMIVAGTLT-----NKMAPALRKVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 114 Pr~aDIliVeG~Vt-----~km~~~l~~l~e~~~~pk~VIA~GsC 153 (213)
..++|+++|-|... .+....++.+.++.++.|+|.++++=
T Consensus 61 ~~~~D~l~v~Gg~~~~~~~~~~~~l~~~l~~~~~~~~~i~~ic~G 105 (179)
T TIGR01383 61 LEEFDAIVLPGGMPGAENLRNSKLLLNILKKQESKGKLVAAICAA 105 (179)
T ss_pred cccCCEEEECCCchHHHHHhhCHHHHHHHHHHHHCCCEEEEEChh
Confidence 34689999988742 12334566777888899999987643
No 52
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=46.01 E-value=26 Score=27.51 Aligned_cols=24 Identities=8% Similarity=0.141 Sum_probs=16.7
Q ss_pred CeeEEEEecccCCCChHHHHHHHH
Q 041751 116 QSDVMIVAGTLTNKMAPALRKVYD 139 (213)
Q Consensus 116 ~aDIliVeG~Vt~km~~~l~~l~e 139 (213)
++|++|++|.+..........+.+
T Consensus 58 ~~DlvittGG~g~g~~D~t~~ai~ 81 (133)
T cd00758 58 EADLVLTTGGTGVGRRDVTPEALA 81 (133)
T ss_pred cCCEEEECCCCCCCCCcchHHHHH
Confidence 489999999988776544444443
No 53
>PF06258 Mito_fiss_Elm1: Mitochondrial fission ELM1; InterPro: IPR009367 This family consists of several hypothetical eukaryotic and prokaryotic proteins. The function of this family is unknown.
Probab=44.03 E-value=64 Score=29.54 Aligned_cols=102 Identities=16% Similarity=0.239 Sum_probs=69.3
Q ss_pred hcCCCCcchhhhcceecCC----CCCeeEEEEecccCCCChHHHHHHHH-------HCCCCceEEEecCccCcCCCCCCC
Q 041751 95 HTGAAGYDLDRFGIIFRPS----PRQSDVMIVAGTLTNKMAPALRKVYD-------QMPEPRWVISMGSRANGGGYYHYS 163 (213)
Q Consensus 95 ~~~~~~~Dl~rfgi~~~~s----Pr~aDIliVeG~Vt~km~~~l~~l~e-------~~~~pk~VIA~GsCA~~GGi~~~s 163 (213)
.+..|....+.|++++.|. ++..+|+...|+...-..+.+....+ ..+++++.|-+|. .++.... +
T Consensus 87 ~i~~P~~~~~~FDlvi~p~HD~~~~~~Nvl~t~ga~~~i~~~~l~~a~~~~~~~~~~l~~p~~avLIGG--~s~~~~~-~ 163 (311)
T PF06258_consen 87 QIMDPRLPPRPFDLVIVPEHDRLPRGPNVLPTLGAPNRITPERLAEAAAAWAPRLAALPRPRVAVLIGG--DSKHYRW-D 163 (311)
T ss_pred EEcCCCCCccccCEEEECcccCcCCCCceEecccCCCcCCHHHHHHHHHhhhhhhccCCCCeEEEEECc--CCCCccc-C
Confidence 3446777788899887664 47788999999999887765555332 3468999999886 3333221 1
Q ss_pred C----ccccCCCccc---cceEEccCCCCCHHHHHHHHHHHHH
Q 041751 164 Y----SVVRGCDRIV---PVDIYVPGCPPTAEALLYGILQLQK 199 (213)
Q Consensus 164 y----~~~~gv~~vV---pVDi~IPGCPP~Pe~il~~L~~Ll~ 199 (213)
. ..+..+.+++ .+.++|-.-+=+|+++.+.|.++++
T Consensus 164 ~~~~~~l~~~l~~~~~~~~~~~~vttSRRTp~~~~~~L~~~~~ 206 (311)
T PF06258_consen 164 EEDAERLLDQLAALAAAYGGSLLVTTSRRTPPEAEAALRELLK 206 (311)
T ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEcCCCCcHHHHHHHHHhhc
Confidence 1 1222333333 4678999999999999888888774
No 54
>cd03139 GATase1_PfpI_2 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. PfpI is an ATP-independent intracellular proteases which may hydrolyze small peptides to provide a nutritional source. Only Cys of the catalytic triad typical of GATase1 domains is conserved in this group. This Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow.
Probab=43.38 E-value=44 Score=26.77 Aligned_cols=40 Identities=23% Similarity=0.266 Sum_probs=29.2
Q ss_pred CCeeEEEEecccCC----CChHHHHHHHHHCCCCceEEEecCcc
Q 041751 115 RQSDVMIVAGTLTN----KMAPALRKVYDQMPEPRWVISMGSRA 154 (213)
Q Consensus 115 r~aDIliVeG~Vt~----km~~~l~~l~e~~~~pk~VIA~GsCA 154 (213)
.++|+++|-|.-.. +....++.++++..+.|+|.++++=+
T Consensus 61 ~~~D~lvipgg~~~~~~~~~~~~~~~l~~~~~~~k~i~aic~g~ 104 (183)
T cd03139 61 PDLDVLLVPGGGGTRALVNDPALLDFIRRQAARAKYVTSVCTGA 104 (183)
T ss_pred CCCCEEEECCCcchhhhccCHHHHHHHHHhcccCCEEEEEchHH
Confidence 46889888887322 23456777889999999999887643
No 55
>cd03132 GATase1_catalase Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases. Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases. Catalase catalyzes the dismutation of hydrogen peroxide (H2O2) to water and oxygen. This group includes the large catalases: Neurospora crassa Catalase-1 and Catalase-3 and, Escherichia coli HP-II. This GATase1-like domain has an essential role in HP-II catalase activity. However, it lacks enzymatic activity and the catalytic triad typical of GATase1 domains. Catalase-1 and -3 are homotetrameric, HP-II is homohexameric. It has been proposed that this domain may facilitate the folding and oligomerization process. The interface between this GATase1-like domain of HP-II and the core of the subunit forms part of a channel which provides access to the deeply buried catalase active sites of HPII. Catalase-1 is associated with non-growing cells; C
Probab=42.14 E-value=33 Score=26.63 Aligned_cols=38 Identities=18% Similarity=0.191 Sum_probs=26.3
Q ss_pred CCeeEEEEecccCC-----CChHHHHHHHHHCCCCceEEEecC
Q 041751 115 RQSDVMIVAGTLTN-----KMAPALRKVYDQMPEPRWVISMGS 152 (213)
Q Consensus 115 r~aDIliVeG~Vt~-----km~~~l~~l~e~~~~pk~VIA~Gs 152 (213)
.++|+++|-|.-.. .....++.+.++.++-|+|.++++
T Consensus 61 ~~~D~liVpGg~~~~~~~~~~~~l~~~l~~~~~~~~~I~aic~ 103 (142)
T cd03132 61 VLFDAVVVPGGAEAAFALAPSGRALHFVTEAFKHGKPIGAVGE 103 (142)
T ss_pred hhcCEEEECCCccCHHHHccChHHHHHHHHHHhcCCeEEEcCc
Confidence 35789998886432 233456667777888899888764
No 56
>cd03138 GATase1_AraC_2 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain. A subgroup of AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain. AraC regulators are defined by a AraC-type helix-turn-helix DNA binding domain at their C-terminal. AraC family transcriptional regulators are widespread among bacteria and are involved in regulating diverse and important biological functions, including carbon metabolism, stress responses and virulence in different microorganisms. The catalytic triad typical of GATase1 domains is not conserved in this GATase1-like domain. However, in common with typical GATase1domains a reactive cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow.
Probab=41.95 E-value=30 Score=28.26 Aligned_cols=40 Identities=15% Similarity=0.100 Sum_probs=28.4
Q ss_pred CCeeEEEEecccCC-------CChHHHHHHHHHCCCCceEEEecCcc
Q 041751 115 RQSDVMIVAGTLTN-------KMAPALRKVYDQMPEPRWVISMGSRA 154 (213)
Q Consensus 115 r~aDIliVeG~Vt~-------km~~~l~~l~e~~~~pk~VIA~GsCA 154 (213)
.++|+++|-|.... +....++.+.++.++.++|.++++=+
T Consensus 68 ~~~D~liIpgg~~~~~~~~~~~~~~l~~~l~~~~~~~~~i~aic~G~ 114 (195)
T cd03138 68 PAPDLVIVPGLGGDPDELLLADNPALIAWLRRQHANGATVAAACTGV 114 (195)
T ss_pred CCCCEEEECCCcCCchhhhhhccHHHHHHHHHHHHcCCEEEEecHHH
Confidence 57899999775322 23345667778888999999887654
No 57
>cd00887 MoeA MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MoeA, together with MoaB, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes.
Probab=41.05 E-value=85 Score=29.42 Aligned_cols=28 Identities=25% Similarity=0.323 Sum_probs=19.4
Q ss_pred cceEEccCCCCCHHHHHHHH-HHHHHHHhh
Q 041751 175 PVDIYVPGCPPTAEALLYGI-LQLQKKINR 203 (213)
Q Consensus 175 pVDi~IPGCPP~Pe~il~~L-~~Ll~ki~~ 203 (213)
+| +.+||+|......++.+ .-+++++..
T Consensus 285 ~v-~~LPG~P~sa~~~~~~~v~p~l~~l~g 313 (394)
T cd00887 285 PV-FGLPGNPVSALVTFELFVRPALRKLQG 313 (394)
T ss_pred EE-EECCCCHHHHHHHHHHHHHHHHHHHcC
Confidence 45 89999999886666544 446666644
No 58
>PF08759 DUF1792: Domain of unknown function (DUF1792); InterPro: IPR014869 This domain is found at the C terminus of proteins such as Q97P75 from SWISSPROT that also contain the glycosyl transferase domain at the N terminus. Sometimes it is found independently.
Probab=38.93 E-value=52 Score=29.41 Aligned_cols=40 Identities=20% Similarity=0.334 Sum_probs=28.3
Q ss_pred CeeEEEEecccCCCC--------------------------hHHHHHHHHHCCCCceEEEecCccC
Q 041751 116 QSDVMIVAGTLTNKM--------------------------APALRKVYDQMPEPRWVISMGSRAN 155 (213)
Q Consensus 116 ~aDIliVeG~Vt~km--------------------------~~~l~~l~e~~~~pk~VIA~GsCA~ 155 (213)
.-||+||||.-|+-- +..++.+.+..++-=++||+|=.|.
T Consensus 115 ~rdilIVEG~~sR~GvgnDLFdnaksI~rIicPsknAf~~~d~I~~~i~~~~~~~LiLiaLGPTAt 180 (225)
T PF08759_consen 115 DRDILIVEGEKSRSGVGNDLFDNAKSIKRIICPSKNAFSKYDEILEAIKKYAKDKLILIALGPTAT 180 (225)
T ss_pred CCcEEEEecCCeecCCCchhhhCccceEEEECCchhhHHHHHHHHHHHHHhCCCcEEEEecCCcch
Confidence 348999999988753 1235555556666778999997764
No 59
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=38.68 E-value=90 Score=23.92 Aligned_cols=58 Identities=17% Similarity=0.084 Sum_probs=31.2
Q ss_pred CCeeEEEEecccCCCC--hHHHHHHHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccC
Q 041751 115 RQSDVMIVAGTLTNKM--APALRKVYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPG 182 (213)
Q Consensus 115 r~aDIliVeG~Vt~km--~~~l~~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPG 182 (213)
++.|++.++....+.. ....+.+++..|+.++| . ||...... ...+-..-.+|+.+.|
T Consensus 38 ~~pdiv~~S~~~~~~~~~~~~~~~ik~~~p~~~iv-~-------GG~~~t~~--p~~~~~~~~~D~vv~G 97 (127)
T cd02068 38 LKPDVVGISLMTSAIYEALELAKIAKEVLPNVIVV-V-------GGPHATFF--PEEILEEPGVDFVVIG 97 (127)
T ss_pred cCCCEEEEeeccccHHHHHHHHHHHHHHCCCCEEE-E-------CCcchhhC--HHHHhcCCCCCEEEEC
Confidence 5779999997555432 23466677777754443 3 34332111 0111122357888888
No 60
>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=37.94 E-value=22 Score=33.85 Aligned_cols=74 Identities=18% Similarity=0.249 Sum_probs=39.2
Q ss_pred CcceecccCCccHHHHHhcCCCCcchhhhcceecCCCCCeeEEEEec-ccCCCCh----HHHHHHHHHC-CCCceEEEec
Q 041751 78 SLWPMTFGLACCAVEMMHTGAAGYDLDRFGIIFRPSPRQSDVMIVAG-TLTNKMA----PALRKVYDQM-PEPRWVISMG 151 (213)
Q Consensus 78 siW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi~~~~sPr~aDIliVeG-~Vt~km~----~~l~~l~e~~-~~pk~VIA~G 151 (213)
.++..++||.=...+--.+. -.+...|..... +.+||++||.= +|+.+-. ..++.+.++. .+|+..|.+|
T Consensus 5 ~~~i~tlGC~~N~~dse~~~---~~l~~~G~~~~~-~~~ADiiiiNTC~v~~~A~~~~~~~i~~~~~~k~~~p~~~ivv~ 80 (446)
T PRK14337 5 TFHIITFGCQMNVNDSDWLA---RALVARGFTEAP-EEEARVFIVNTCSVRDKPEQKVYSLLGRIRHATKKNPDVFVAVG 80 (446)
T ss_pred EEEEEeeCCCCcHHHHHHHH---HHHHHCCCEECC-cCCCCEEEEeccCeecHHHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence 36778888765544433322 234455665555 36799988853 3443322 2233333222 3356666677
Q ss_pred CccC
Q 041751 152 SRAN 155 (213)
Q Consensus 152 sCA~ 155 (213)
-|.+
T Consensus 81 GC~a 84 (446)
T PRK14337 81 GCVA 84 (446)
T ss_pred CCcc
Confidence 7754
No 61
>PF04016 DUF364: Domain of unknown function (DUF364); InterPro: IPR007161 This is a entry represents of bacterial and archaeal proteins of unknown function.; PDB: 3L5O_B 3NPG_A.
Probab=37.93 E-value=49 Score=26.94 Aligned_cols=38 Identities=24% Similarity=0.331 Sum_probs=29.1
Q ss_pred CCeeEEEEecccCCCChHHHHHHHHHCCCCceEEEecCcc
Q 041751 115 RQSDVMIVAGTLTNKMAPALRKVYDQMPEPRWVISMGSRA 154 (213)
Q Consensus 115 r~aDIliVeG~Vt~km~~~l~~l~e~~~~pk~VIA~GsCA 154 (213)
.++|+++++|+-=-+.. ++.+.+..++++.+|=+|.=+
T Consensus 61 ~~aD~viiTGsTlvN~T--i~~iL~~~~~~~~vil~GpS~ 98 (147)
T PF04016_consen 61 PWADVVIITGSTLVNGT--IDDILELARNAREVILYGPSA 98 (147)
T ss_dssp GG-SEEEEECHHCCTTT--HHHHHHHTTTSSEEEEESCCG
T ss_pred ccCCEEEEEeeeeecCC--HHHHHHhCccCCeEEEEecCc
Confidence 46999999997555544 677888888899999998644
No 62
>PRK11574 oxidative-stress-resistance chaperone; Provisional
Probab=36.45 E-value=46 Score=27.37 Aligned_cols=41 Identities=15% Similarity=0.195 Sum_probs=29.4
Q ss_pred CCeeEEEEecccCC-----CChHHHHHHHHHCCCCceEEEecCccC
Q 041751 115 RQSDVMIVAGTLTN-----KMAPALRKVYDQMPEPRWVISMGSRAN 155 (213)
Q Consensus 115 r~aDIliVeG~Vt~-----km~~~l~~l~e~~~~pk~VIA~GsCA~ 155 (213)
.++|+++|-|.... +....++.++++..+-|+|.|+++=+.
T Consensus 65 ~~~D~l~ipGG~~~~~~~~~~~~l~~~L~~~~~~g~~v~aic~G~~ 110 (196)
T PRK11574 65 GDFDVIVLPGGIKGAECFRDSPLLVETVRQFHRSGRIVAAICAAPA 110 (196)
T ss_pred CCCCEEEECCCCchhhhhhhCHHHHHHHHHHHHCCCEEEEECHhHH
Confidence 46789999887421 223467777788889999999887663
No 63
>PRK09444 pntB pyridine nucleotide transhydrogenase; Provisional
Probab=36.16 E-value=24 Score=34.64 Aligned_cols=90 Identities=12% Similarity=0.242 Sum_probs=57.4
Q ss_pred ehhhHHHHhhhh--cCCcceecccC--CccHHHHHhcCCCCcc---hhhhcceecC--CCCCeeEEEEecccCCCChHHH
Q 041751 64 ISKVDNLLNWVR--RGSLWPMTFGL--ACCAVEMMHTGAAGYD---LDRFGIIFRP--SPRQSDVMIVAGTLTNKMAPAL 134 (213)
Q Consensus 64 ~~~~d~~~~w~R--~~siW~~~~gc--~GC~iE~l~~~~~~~D---l~rfgi~~~~--sPr~aDIliVeG~Vt~km~~~l 134 (213)
.+..|+...+-+ ++.+-...+|. +=|+.++-.+....-+ --+|+|..++ .|.|-+||+-|..|+.+.-..+
T Consensus 293 ~~~~~d~a~~l~~A~~ViIVPGYGmAVAqAQh~v~el~~~L~~~Gv~V~faIHPVAGRMPGHMNVLLAEA~VPYd~v~eM 372 (462)
T PRK09444 293 ETTAEEVAEMLKNSHSVIITPGYGMAVAQAQYPVAEITEKLRARGINVRFGIHPVAGRLPGHMNVLLAEAKVPYDIVLEM 372 (462)
T ss_pred ecCHHHHHHHHHhCCcEEEECChHHHHHHHHHHHHHHHHHHHHCCCeEEEEeccccccCCCcceeEEeecCCCHHHHHhH
Confidence 344555443322 23444555665 3455544433211111 0134444443 6999999999999999988788
Q ss_pred HHHHHHCCCCceEEEecCc
Q 041751 135 RKVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 135 ~~l~e~~~~pk~VIA~GsC 153 (213)
+.+-+.+++...++-+|+-
T Consensus 373 deIN~~F~~tDvalVIGAN 391 (462)
T PRK09444 373 DEINDDFADTDTVLVIGAN 391 (462)
T ss_pred HhhccccccCCEEEEecCc
Confidence 8899999999999999975
No 64
>TIGR03728 glyco_access_1 glycosyltransferase, SP_1767 family. Members of this protein family are putative glycosyltransferases. Some members are found close to genes for the accessory secretory (SecA2) system, and are suggested by Partial Phylogenetic Profiling to correlate with SecA2 systems. Glycosylation, therefore, may occur in the cytosol prior to secretion.
Probab=35.65 E-value=58 Score=29.82 Aligned_cols=40 Identities=18% Similarity=0.339 Sum_probs=28.6
Q ss_pred CeeEEEEecccCCCC--------------------------hHHHHHHHHHCCCCceEEEecCccC
Q 041751 116 QSDVMIVAGTLTNKM--------------------------APALRKVYDQMPEPRWVISMGSRAN 155 (213)
Q Consensus 116 ~aDIliVeG~Vt~km--------------------------~~~l~~l~e~~~~pk~VIA~GsCA~ 155 (213)
.-||+||||.-++-. +..++.+.+..++-=+++|+|=+|.
T Consensus 133 ~rdIliVEG~~sR~GvGndLF~naksI~rIicPsknAy~~yd~I~e~i~~~~k~~LiLlaLGPTAk 198 (265)
T TIGR03728 133 NKDILIVEGETSRSGVGNDLFDNAKSIKRIICPSKNAFSKYDEILEAIRENAKNKLILLMLGPTAK 198 (265)
T ss_pred CCcEEEEecccccccCchhhhhCcccEEEEeCCChhHHHHHHHHHHHHHHhCCCeEEEEecCCchh
Confidence 458999999988842 1235555555666779999998875
No 65
>PRK03604 moaC bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional
Probab=33.97 E-value=63 Score=29.91 Aligned_cols=23 Identities=30% Similarity=0.384 Sum_probs=15.8
Q ss_pred cceEEccCCCCCHHHHHHHHHHHH
Q 041751 175 PVDIYVPGCPPTAEALLYGILQLQ 198 (213)
Q Consensus 175 pVDi~IPGCPP~Pe~il~~L~~Ll 198 (213)
+| +.+||+|..-...++.++-.+
T Consensus 277 lI-~~LPG~P~aa~~~~~~llp~l 299 (312)
T PRK03604 277 LV-VALPGSPGGASDALAVLLPAL 299 (312)
T ss_pred EE-EECCCCHHHHHHHHHHHHHHH
Confidence 34 999999997766655555433
No 66
>PRK10680 molybdopterin biosynthesis protein MoeA; Provisional
Probab=33.25 E-value=83 Score=30.00 Aligned_cols=28 Identities=25% Similarity=0.351 Sum_probs=18.7
Q ss_pred cceEEccCCCCCHHHHHHH-HHHHHHHHhh
Q 041751 175 PVDIYVPGCPPTAEALLYG-ILQLQKKINR 203 (213)
Q Consensus 175 pVDi~IPGCPP~Pe~il~~-L~~Ll~ki~~ 203 (213)
+| +-+||||.....-++. +.-+++++..
T Consensus 293 ~v-~gLPGnP~sa~~~~~~~v~P~l~~l~g 321 (411)
T PRK10680 293 WF-CGLPGNPVSAALTFYQLVQPLLAKLSG 321 (411)
T ss_pred EE-EECCCCHHHHHHHHHHHHHHHHHHHcC
Confidence 45 8999999988655544 3445666543
No 67
>cd01653 GATase1 Type 1 glutamine amidotransferase (GATase1)-like domain. Type 1 glutamine amidotransferase (GATase1)-like domain. This group includes proteins similar to Class I glutamine amidotransferases, the intracellular PH1704 from Pyrococcus horikoshii, the C-terminal of the large catalase: Escherichia coli HP-II, Sinorhizobium meliloti Rm1021 ThuA. and, the A4 beta-galactosidase middle domain. The majority of proteins in this group have a reactive Cys found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. For Class I glutamine amidotransferases proteins which transfer ammonia from the amide side chain of glutamine to an acceptor substrate, this Cys forms a Cys-His-Glu catalytic triad in the active site. Glutamine amidotransferases activity can be found in a range of biosynthetic enzymes included in this cd: glutamine amidotransferase, formylglycinamide ribonucleotide, GMP synthetase, anthranilate synthase component II, glutamine-depende
Probab=32.85 E-value=65 Score=21.67 Aligned_cols=37 Identities=11% Similarity=0.120 Sum_probs=25.6
Q ss_pred CCCeeEEEEecccCCCC-----hHHHHHHHHHCCCCceEEEe
Q 041751 114 PRQSDVMIVAGTLTNKM-----APALRKVYDQMPEPRWVISM 150 (213)
Q Consensus 114 Pr~aDIliVeG~Vt~km-----~~~l~~l~e~~~~pk~VIA~ 150 (213)
....|++++.|.-.... ...++.+.+...+-+.++++
T Consensus 44 ~~~~d~lii~g~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~ 85 (115)
T cd01653 44 LDDYDGLILPGGPGTPDDLARDEALLALLREAAAAGKPILGI 85 (115)
T ss_pred hhccCEEEECCCCCchhhhccCHHHHHHHHHHHHcCCEEEEE
Confidence 45789999999776654 33566677777776677654
No 68
>PRK14498 putative molybdopterin biosynthesis protein MoeA/LysR substrate binding-domain-containing protein; Provisional
Probab=32.71 E-value=87 Score=31.07 Aligned_cols=29 Identities=28% Similarity=0.503 Sum_probs=20.0
Q ss_pred cceEEccCCCCCHHHHHHH-HHHHHHHHhhc
Q 041751 175 PVDIYVPGCPPTAEALLYG-ILQLQKKINRR 204 (213)
Q Consensus 175 pVDi~IPGCPP~Pe~il~~-L~~Ll~ki~~~ 204 (213)
+| +.+||||......++. +.-+++++...
T Consensus 302 ~v-~~LPG~p~aa~~~~~~~v~P~l~~l~g~ 331 (633)
T PRK14498 302 PV-VGLPGYPVSALTIFEEFVAPLLRKLAGL 331 (633)
T ss_pred EE-EECCCCHHHHHHHHHHHHHHHHHHhcCC
Confidence 45 8999999987666654 44566666543
No 69
>cd03134 GATase1_PfpI_like A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus. A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus. This group includes proteins similar to PfpI from P. furiosus. and PH1704 from Pyrococcus horikoshii. These enzymes are ATP-independent intracellular proteases and may hydrolyze small peptides to provide a nutritional source. Only Cys of the catalytic triad typical of GATase1 domains is conserved in this group. This Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. For PH1704, it is believed that this Cys together with a different His in one monomer and Glu (from an adjacent monomer) forms a different catalytic triad from the typical GATase1domain. PfpI is homooligomeric. Protease activity is only found for oligomeric forms of PH1704.
Probab=32.47 E-value=58 Score=25.72 Aligned_cols=39 Identities=13% Similarity=0.112 Sum_probs=27.5
Q ss_pred CCeeEEEEecccCC----CChHHHHHHHHHCCCCceEEEecCc
Q 041751 115 RQSDVMIVAGTLTN----KMAPALRKVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 115 r~aDIliVeG~Vt~----km~~~l~~l~e~~~~pk~VIA~GsC 153 (213)
.++|+++|-|.-.. +....++.+.++..+-|+|+++++=
T Consensus 61 ~~~D~lvvpGG~~~~~~~~~~~~~~~l~~~~~~~~~i~~ic~G 103 (165)
T cd03134 61 DDYDALVIPGGTNPDKLRRDPDAVAFVRAFAEAGKPVAAICHG 103 (165)
T ss_pred HHCCEEEECCCCChhhhccCHHHHHHHHHHHHcCCeEEEEchH
Confidence 35798888886421 1234566677888899999988763
No 70
>TIGR01721 AMN-like AMP nucleosidase, putative. The sequences in the clade represented by this model are most closely related to the AMP nucleosidase found in TIGR01717. These sequences are found only in Chlamydia and Porphyromonas and differ sufficiently from the characterized AMP nucleosidase to put some doubt on assignment of this name.
Probab=32.38 E-value=1.3e+02 Score=27.32 Aligned_cols=38 Identities=18% Similarity=0.114 Sum_probs=21.2
Q ss_pred eEEEEecccCCCCh-HHHHHHHHHCCCCceEEEecCccCc
Q 041751 118 DVMIVAGTLTNKMA-PALRKVYDQMPEPRWVISMGSRANG 156 (213)
Q Consensus 118 DIliVeG~Vt~km~-~~l~~l~e~~~~pk~VIA~GsCA~~ 156 (213)
.|.|+.=.|-...+ -.++.+.. +-.+|.+|-+|+|.+.
T Consensus 61 ~itv~~~GvG~psAai~~eeL~~-~~G~k~iIriGtcG~L 99 (266)
T TIGR01721 61 GTSIIDFKLGSPGAALIXDLCSF-LPHPKAAIMLGMCGGL 99 (266)
T ss_pred CEEEEECCCCHHHHHHHHHHHHH-hcCCCEEEEEEeccCC
Confidence 35555444433332 23443322 3389999999999443
No 71
>cd03522 MoeA_like MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is unknown.
Probab=32.05 E-value=83 Score=29.05 Aligned_cols=72 Identities=19% Similarity=0.276 Sum_probs=36.3
Q ss_pred CeeEEEEecccCCCChHHHHHHHHHCCCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCCCCHH-HHHHHH
Q 041751 116 QSDVMIVAGTLTNKMAPALRKVYDQMPEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCPPTAE-ALLYGI 194 (213)
Q Consensus 116 ~aDIliVeG~Vt~km~~~l~~l~e~~~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCPP~Pe-~il~~L 194 (213)
.+|++|++|..+.........+.+.+- . -++-.|.=--=|.++ ...-+++ .+| +.+||||-.+. ..++.+
T Consensus 219 g~DlIItTGGtsvg~~D~tp~Ai~~~G-~-ei~~~Gv~v~PG~~l-----~~g~~~~-~pV-igLPG~p~s~~~t~~d~V 289 (312)
T cd03522 219 GAELLILTGGASVDPDDVTPAAIRAAG-G-EVIRYGMPVDPGNLL-----LLGYLGG-VPV-IGLPGCARSPKLNGFDLV 289 (312)
T ss_pred CCCEEEEeCCcccCCcchHHHHHHhcC-c-eEEEeeecccCCceE-----EEEEECC-EEE-EECCCCHHHHHHHHHHHH
Confidence 389999999988877644444333221 0 122222110001110 0000121 366 99999999985 455555
Q ss_pred HH
Q 041751 195 LQ 196 (213)
Q Consensus 195 ~~ 196 (213)
+.
T Consensus 290 Lp 291 (312)
T cd03522 290 LP 291 (312)
T ss_pred HH
Confidence 43
No 72
>PRK14690 molybdopterin biosynthesis protein MoeA; Provisional
Probab=31.56 E-value=78 Score=30.30 Aligned_cols=77 Identities=13% Similarity=0.081 Sum_probs=40.4
Q ss_pred CCeeEEEEecccCCCChHHHHHHHHHCCCCceEEEecCccCcCCCCCC--CCccccCCCccccceEEccCCCCCHHHHHH
Q 041751 115 RQSDVMIVAGTLTNKMAPALRKVYDQMPEPRWVISMGSRANGGGYYHY--SYSVVRGCDRIVPVDIYVPGCPPTAEALLY 192 (213)
Q Consensus 115 r~aDIliVeG~Vt~km~~~l~~l~e~~~~pk~VIA~GsCA~~GGi~~~--sy~~~~gv~~vVpVDi~IPGCPP~Pe~il~ 192 (213)
.++|++|++|.++......+..+.+.+. +.+ +.|+.-. .+..+.-++. .+| +-+||.|...-.-++
T Consensus 258 ~~~DlIItTGG~S~G~~D~v~~~l~~~G--~~~--------~~~v~mkPGkp~~~~~~~~-~pv-~gLPGnP~aa~~~~~ 325 (419)
T PRK14690 258 AEADVILTSGGASAGDEDHVSALLREAG--AMQ--------SWRIALKPGRPLALGLWQG-VPV-FGLPGNPVAALVCTL 325 (419)
T ss_pred ccCCEEEEcCCccCCCcchHHHHHHhcC--CEE--------EcceeecCCCceEEEEECC-eEE-EECCCCHHHHHHHHH
Confidence 4577888888777776655565555332 111 1122110 0101111122 356 889999988866666
Q ss_pred HHHH-HHHHHhh
Q 041751 193 GILQ-LQKKINR 203 (213)
Q Consensus 193 ~L~~-Ll~ki~~ 203 (213)
.+.. +++++..
T Consensus 326 ~~v~P~l~~l~G 337 (419)
T PRK14690 326 VFARPAMSLLAG 337 (419)
T ss_pred HHHHHHHHHhcC
Confidence 5553 4555543
No 73
>PRK08292 AMP nucleosidase; Provisional
Probab=30.91 E-value=1.3e+02 Score=29.84 Aligned_cols=43 Identities=14% Similarity=0.136 Sum_probs=30.1
Q ss_pred CCCeeEEEEecccCCCChH-HHHHHHHHCCCCceEEEecCccCcCCCCC
Q 041751 114 PRQSDVMIVAGTLTNKMAP-ALRKVYDQMPEPRWVISMGSRANGGGYYH 161 (213)
Q Consensus 114 Pr~aDIliVeG~Vt~km~~-~l~~l~e~~~~pk~VIA~GsCA~~GGi~~ 161 (213)
....+|.++...|-...+. ..+.+.. -+++.+|-+|+| ||+..
T Consensus 273 ~~G~~VtvvssGIGpsnAA~ateeLa~--lgpd~iIriGtA---GgL~~ 316 (489)
T PRK08292 273 ADGQGITLVNIGVGPSNAKTITDHLAV--LRPHAWLMIGHC---GGLRN 316 (489)
T ss_pred cCCceEEEEEcCCCHHHHHHHHHHHHH--cCCCEEEEEEeh---hcCCC
Confidence 3456899999888844443 4555443 489999999999 55543
No 74
>PRK09393 ftrA transcriptional activator FtrA; Provisional
Probab=29.84 E-value=73 Score=28.39 Aligned_cols=41 Identities=15% Similarity=0.154 Sum_probs=28.8
Q ss_pred CCCeeEEEEecccCC---CChHHHHHHHHHCCCCceEEEecCcc
Q 041751 114 PRQSDVMIVAGTLTN---KMAPALRKVYDQMPEPRWVISMGSRA 154 (213)
Q Consensus 114 Pr~aDIliVeG~Vt~---km~~~l~~l~e~~~~pk~VIA~GsCA 154 (213)
..++|++||-|.-.. .....++.+.++.++.++|.|+++=+
T Consensus 73 ~~~~D~livpGg~~~~~~~~~~l~~~l~~~~~~~~~i~aic~g~ 116 (322)
T PRK09393 73 LDRADTIVIPGWRGPDAPVPEPLLEALRAAHARGARLCSICSGV 116 (322)
T ss_pred cCCCCEEEECCCCcccccCCHHHHHHHHHHHHcCCEEEEEcHHH
Confidence 357899999875321 23446777888888999998877653
No 75
>PRK14339 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=29.72 E-value=49 Score=31.28 Aligned_cols=46 Identities=7% Similarity=0.152 Sum_probs=25.4
Q ss_pred hcceecCCCCCeeEEEEe-cccCCCCh-H---HHHHHHH-HCCCCceEEEecCc
Q 041751 106 FGIIFRPSPRQSDVMIVA-GTLTNKMA-P---ALRKVYD-QMPEPRWVISMGSR 153 (213)
Q Consensus 106 fgi~~~~sPr~aDIliVe-G~Vt~km~-~---~l~~l~e-~~~~pk~VIA~GsC 153 (213)
.|......+.+|||+||. =+|+.+-. + .++++.+ ..++++ ||..| |
T Consensus 17 ~G~~~~~~~~~ADv~iiNTC~v~~~a~~k~~~~i~~~~~~~~~~~~-ivv~G-C 68 (420)
T PRK14339 17 EDYKLTQDIKEADLILINTCSVREKPVHKLFSEIGQFNKIKKEGAK-IGVCG-C 68 (420)
T ss_pred CCcEECCCcccCCEEEEeccCccchHHHHHHHHHHHHHHhhCCCCe-EEEEC-C
Confidence 466666778899998864 34444332 2 2333333 223344 66666 8
No 76
>PRK06242 flavodoxin; Provisional
Probab=28.28 E-value=80 Score=24.55 Aligned_cols=43 Identities=5% Similarity=-0.041 Sum_probs=26.6
Q ss_pred CCeeEEEEeccc-----CCCChHHHHHHHHHCCCCceEEEecCccCcCCC
Q 041751 115 RQSDVMIVAGTL-----TNKMAPALRKVYDQMPEPRWVISMGSRANGGGY 159 (213)
Q Consensus 115 r~aDIliVeG~V-----t~km~~~l~~l~e~~~~pk~VIA~GsCA~~GGi 159 (213)
.++|.+++-.++ +..+...++++.. .+-|.++.+|+|...+|-
T Consensus 42 ~~~d~ii~g~pvy~~~~~~~~~~fl~~~~~--~~~k~~~~f~t~g~~~~~ 89 (150)
T PRK06242 42 SEYDLIGFGSGIYFGKFHKSLLKLIEKLPP--VSGKKAFIFSTSGLPFLK 89 (150)
T ss_pred hHCCEEEEeCchhcCCcCHHHHHHHHhhhh--hcCCeEEEEECCCCCcch
Confidence 567777776543 3333344444332 146999999999887654
No 77
>TIGR03271 methan_mark_5 putative methanogenesis marker protein 5. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=27.24 E-value=64 Score=26.89 Aligned_cols=28 Identities=25% Similarity=0.389 Sum_probs=21.6
Q ss_pred hhhHHHHhhhhcCCcc---eecccCCccHHH
Q 041751 65 SKVDNLLNWVRRGSLW---PMTFGLACCAVE 92 (213)
Q Consensus 65 ~~~d~~~~w~R~~siW---~~~~gc~GC~iE 92 (213)
+.+..++.-+....|- +..|||-||+-.
T Consensus 71 sl~gplIeeAeAaIIv~~ap~~FGC~GCart 101 (142)
T TIGR03271 71 SLFGPLIEEAEAAIIVREAPFAFGCMGCART 101 (142)
T ss_pred hhhhHHHhhcceeEEecCCCccccccccccH
Confidence 5578888888776665 688999999754
No 78
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=27.09 E-value=67 Score=25.02 Aligned_cols=15 Identities=20% Similarity=0.313 Sum_probs=11.8
Q ss_pred CeeEEEEecccCCCC
Q 041751 116 QSDVMIVAGTLTNKM 130 (213)
Q Consensus 116 ~aDIliVeG~Vt~km 130 (213)
++|++|.+|......
T Consensus 57 ~~dliittGG~g~g~ 71 (135)
T smart00852 57 RADLVITTGGTGPGP 71 (135)
T ss_pred CCCEEEEcCCCCCCC
Confidence 589999999877543
No 79
>KOG3210 consensus Imidazoleglycerol-phosphate synthase subunit H-like [Coenzyme transport and metabolism]
Probab=26.65 E-value=49 Score=29.00 Aligned_cols=39 Identities=23% Similarity=0.411 Sum_probs=29.4
Q ss_pred CCeeEEEEecccCCCChHH------HHHHHHHCCCCceEEEecCcc
Q 041751 115 RQSDVMIVAGTLTNKMAPA------LRKVYDQMPEPRWVISMGSRA 154 (213)
Q Consensus 115 r~aDIliVeG~Vt~km~~~------l~~l~e~~~~pk~VIA~GsCA 154 (213)
.|.|-+|+-|.=++.|... -..+|+..-++.. +-+|+||
T Consensus 55 aq~DaLIIPGGEST~mslia~~tgL~d~L~~fVhn~~k-~~WGTCA 99 (226)
T KOG3210|consen 55 AQCDALIIPGGESTAMSLIAERTGLYDDLYAFVHNPSK-VTWGTCA 99 (226)
T ss_pred hhCCEEEecCCchhHHHHHHhhhhhHHHHHHHhcCCCc-cceeech
Confidence 6899999999999988532 3456777777744 3489998
No 80
>TIGR01382 PfpI intracellular protease, PfpI family. The member of this family from Pyrococcus horikoshii has been solved to 2 Angstrom resolution. It is an ATP-independent intracellular protease that crystallizes as a hexameric ring. Cys-101 is proposed as the active site residue in a catalytic triad with the adjacent His-102 and a Glu residue from an adjacent monomer. A member of this family from Bacillus subtilis, GSP18, has been shown to be expressed in response to several forms of stress. A role in the degradation of small peptides has been suggested. A closely related family consists of the thiamine biosynthesis protein ThiJ and its homologs.
Probab=25.66 E-value=54 Score=25.95 Aligned_cols=39 Identities=18% Similarity=0.291 Sum_probs=25.7
Q ss_pred CCCeeEEEEecccCCC----ChHHHHHHHHHCCCCceEEEecC
Q 041751 114 PRQSDVMIVAGTLTNK----MAPALRKVYDQMPEPRWVISMGS 152 (213)
Q Consensus 114 Pr~aDIliVeG~Vt~k----m~~~l~~l~e~~~~pk~VIA~Gs 152 (213)
+.++|+++|-|.-... ....++.++++.++.|++.++++
T Consensus 58 ~~~~D~vvv~Gg~~~~~~~~~~~l~~~l~~~~~~~~~i~~ic~ 100 (166)
T TIGR01382 58 PEEYDALVIPGGRAPEYLRLNNKAVRLVREFVEKGKPVAAICH 100 (166)
T ss_pred HHHCcEEEECCCCCHHHhccCHHHHHHHHHHHHcCCEEEEECh
Confidence 3467899988863321 12345666677778898887765
No 81
>PRK03619 phosphoribosylformylglycinamidine synthase I; Provisional
Probab=25.29 E-value=1.2e+02 Score=26.06 Aligned_cols=39 Identities=13% Similarity=0.250 Sum_probs=25.9
Q ss_pred CCCeeEEEEecccCCCC----------hHHHHHHHHHCCCCceEEEecC
Q 041751 114 PRQSDVMIVAGTLTNKM----------APALRKVYDQMPEPRWVISMGS 152 (213)
Q Consensus 114 Pr~aDIliVeG~Vt~km----------~~~l~~l~e~~~~pk~VIA~Gs 152 (213)
..++|++++-|...... .+..+.+++...+-++|++++.
T Consensus 39 l~~~D~lvipGG~~~~d~l~~~~~~~~~~~~~~l~~~~~~g~~ilgIC~ 87 (219)
T PRK03619 39 LDGVDAVVLPGGFSYGDYLRCGAIAAFSPIMKAVKEFAEKGKPVLGICN 87 (219)
T ss_pred CCCCCEEEECCCCchhhhhccchhhhchHHHHHHHHHHHCCCEEEEECH
Confidence 46889999999764321 3344556666667788877654
No 82
>cd03169 GATase1_PfpI_1 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus. PfpI is an ATP-independent intracellular proteases which may hydrolyze small peptides to provide a nutritional source. Only Cys of the catalytic triad typical of GATase1 domains is conserved in this group. This Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow.
Probab=24.89 E-value=94 Score=25.21 Aligned_cols=40 Identities=13% Similarity=0.111 Sum_probs=27.1
Q ss_pred CCeeEEEEecccCCC----ChHHHHHHHHHCCCCceEEEecCcc
Q 041751 115 RQSDVMIVAGTLTNK----MAPALRKVYDQMPEPRWVISMGSRA 154 (213)
Q Consensus 115 r~aDIliVeG~Vt~k----m~~~l~~l~e~~~~pk~VIA~GsCA 154 (213)
.++|+++|-|.-... .....+.++++..+-|+|.++++-+
T Consensus 75 ~~~D~liv~GG~~~~~~~~~~~~~~~l~~~~~~~k~i~~ic~G~ 118 (180)
T cd03169 75 DDYDALVIPGGRAPEYLRLDEKVLAIVRHFAEANKPVAAICHGP 118 (180)
T ss_pred hHCCEEEEcCCCChhhhccCHHHHHHHHHHHHcCCEEEEECcHH
Confidence 357888888864321 2345566777778899999988743
No 83
>cd05402 NT_PAP_TUTase Nucleotidyltransferase (NT) domain of poly(A) polymerases and terminal uridylyl transferases. Poly(A) polymerases (PAPs) catalyze mRNA poly(A) tail synthesis, and terminal uridylyl transferases (TUTases) uridylate RNA. PAPs in this subgroup include human PAP alpha, mouse testis-specific cytoplasmic PAP beta, human nuclear PAP gamma, Saccharomyces cerevisiae PAP1, TRF4 and-5, Schizosaccharomyces pombe caffeine-induced death proteins -1, and -14, Caenorhabditis elegans Germ Line Development-2, and Chlamydomonas reinhardtii MUT68. This family also includes human U6 snRNA-specific TUTase1, and Trypanosoma brucei 3'-TUTase-1,-2, and 4. This family belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. For the majority of proteins in this family, these carboxyla
Probab=24.67 E-value=2.7e+02 Score=20.69 Aligned_cols=45 Identities=24% Similarity=0.350 Sum_probs=24.9
Q ss_pred CCCceEEEecCccCcCCCCCCCCccccCCCccccceEEccCCC--CCHHHHHHHHHHHHH
Q 041751 142 PEPRWVISMGSRANGGGYYHYSYSVVRGCDRIVPVDIYVPGCP--PTAEALLYGILQLQK 199 (213)
Q Consensus 142 ~~pk~VIA~GsCA~~GGi~~~sy~~~~gv~~vVpVDi~IPGCP--P~Pe~il~~L~~Ll~ 199 (213)
++++ +..+||++..=+.... ++|+.|-+=+ .....++..+...++
T Consensus 18 ~~~~-v~~fGS~~~g~~~~~S------------DiDl~i~~~~~~~~~~~~l~~l~~~l~ 64 (114)
T cd05402 18 PGAK-LYPFGSYVTGLGLPGS------------DIDLCLLGPNHRVDREDFLRKLAKLLK 64 (114)
T ss_pred CCCE-EEEecccccCCCCCCC------------CeeEEEEeCCCCccHHHHHHHHHHHHH
Confidence 4444 6899999874333221 5666655433 355555555555444
No 84
>KOG1111 consensus N-acetylglucosaminyltransferase complex, subunit PIG-A/SPT14, required for phosphatidylinositol biosynthesis/Sulfolipid synthase [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Lipid transport and metabolism]
Probab=23.84 E-value=84 Score=30.49 Aligned_cols=38 Identities=18% Similarity=0.275 Sum_probs=33.2
Q ss_pred cccCCCccccceEEccCCCCCHHHHHHHHHHHHHHHhhc
Q 041751 166 VVRGCDRIVPVDIYVPGCPPTAEALLYGILQLQKKINRR 204 (213)
Q Consensus 166 ~~~gv~~vVpVDi~IPGCPP~Pe~il~~L~~Ll~ki~~~ 204 (213)
.++|+.|++|-| .|-=|.|.|+.+.+++...+.+++..
T Consensus 302 rVGGIpeVLP~d-~i~~~~~~~~dl~~~v~~ai~~~~~~ 339 (426)
T KOG1111|consen 302 RVGGIPEVLPED-MITLGEPGPDDLVGAVEKAITKLRTL 339 (426)
T ss_pred ecCCccccCCcc-ceeccCCChHHHHHHHHHHHHHhccC
Confidence 468999999999 77789999999999999998877654
No 85
>PF00056 Ldh_1_N: lactate/malate dehydrogenase, NAD binding domain Prosite entry for lactate dehydrogenase Prosite entry for malate dehydrogenase; InterPro: IPR001236 L-lactate dehydrogenases are metabolic enzymes which catalyse the conversion of L-lactate to pyruvate, the last step in anaerobic glycolysis []. L-lactate dehydrogenase is also found as a lens crystallin in bird and crocodile eyes. L-2-hydroxyisocaproate dehydrogenases are also members of the family. Malate dehydrogenases catalyse the interconversion of malate to oxaloacetate []. The enzyme participates in the citric acid cycle. This entry represents the N-terminal, and is thought to be a Rossmann NAD-binding fold.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1IB6_B 3HHP_C 1IE3_A 2PWZ_A 1EMD_A 2CMD_A 1EZ4_D 9LDT_B 9LDB_B 2D4A_C ....
Probab=23.77 E-value=1.5e+02 Score=23.67 Aligned_cols=35 Identities=11% Similarity=0.354 Sum_probs=24.6
Q ss_pred CCeeEEEEecccCCCCh---------------HHHHHHHHHCCCCceEEE
Q 041751 115 RQSDVMIVAGTLTNKMA---------------PALRKVYDQMPEPRWVIS 149 (213)
Q Consensus 115 r~aDIliVeG~Vt~km~---------------~~l~~l~e~~~~pk~VIA 149 (213)
+++||++++...+.+.. +..+++.+..|++.++|+
T Consensus 68 ~~aDivvitag~~~~~g~sR~~ll~~N~~i~~~~~~~i~~~~p~~~vivv 117 (141)
T PF00056_consen 68 KDADIVVITAGVPRKPGMSRLDLLEANAKIVKEIAKKIAKYAPDAIVIVV 117 (141)
T ss_dssp TTESEEEETTSTSSSTTSSHHHHHHHHHHHHHHHHHHHHHHSTTSEEEE-
T ss_pred ccccEEEEeccccccccccHHHHHHHhHhHHHHHHHHHHHhCCccEEEEe
Confidence 68999999999877631 235556666778877765
No 86
>cd03141 GATase1_Hsp31_like Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein. Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein (EcHsp31). This group includes EcHsp31 and Saccharomyces cerevisiae Ydr533c protein. EcHsp31 has chaperone activity. Ydr533c is upregulated in response to various stress conditions along with the heat shock family. EcHsp31 coordinates a metal ion using a 2-His-1-carboxylate motif present in various ions that use iron as a cofactor such as Carboxypeptidase A. The catalytic triad typical of GATase1 domains is not conserved in this GATase1-like domain. However, in common with a typical GATase1 domain, a reactive Cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. For EcHsp31, this Cys together with a different His and, an Asp (rather than a Glu) residue form a different
Probab=22.65 E-value=1.1e+02 Score=26.18 Aligned_cols=41 Identities=10% Similarity=0.113 Sum_probs=29.7
Q ss_pred CCCeeEEEEecccCC-----CChHHHHHHHHHCCCCceEEEecCcc
Q 041751 114 PRQSDVMIVAGTLTN-----KMAPALRKVYDQMPEPRWVISMGSRA 154 (213)
Q Consensus 114 Pr~aDIliVeG~Vt~-----km~~~l~~l~e~~~~pk~VIA~GsCA 154 (213)
+.++|++++-|.... +....++.+.++.++.|+|.|+++-+
T Consensus 88 ~~~~dal~ipGG~~~~~~l~~~~~l~~~l~~~~~~~k~iaaIC~g~ 133 (221)
T cd03141 88 PSDYDAIFIPGGHGPMFDLPDNPDLQDLLREFYENGKVVAAVCHGP 133 (221)
T ss_pred HhHceEEEECCCcccccccccCHHHHHHHHHHHHcCCEEEEEcchH
Confidence 457899999886421 23456667777888899999988765
No 87
>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]
Probab=22.15 E-value=70 Score=31.09 Aligned_cols=71 Identities=17% Similarity=0.235 Sum_probs=35.7
Q ss_pred cceecccCCccHHHHHhcCCCCcchhhhcc-eecCCCCCeeEEEEe-cccCCCCh-H---HHHHHHHHCCCCceEEEecC
Q 041751 79 LWPMTFGLACCAVEMMHTGAAGYDLDRFGI-IFRPSPRQSDVMIVA-GTLTNKMA-P---ALRKVYDQMPEPRWVISMGS 152 (213)
Q Consensus 79 iW~~~~gc~GC~iE~l~~~~~~~Dl~rfgi-~~~~sPr~aDIliVe-G~Vt~km~-~---~l~~l~e~~~~pk~VIA~Gs 152 (213)
+...++||. ++.-++..-.--+...|. .....|.+||++||. =+|+.+-. + .+.++.++- |+..|.++-
T Consensus 5 v~i~T~GC~---~N~~DSe~m~~~L~~~G~~~~~~~~~eADvviiNTC~V~~~a~~k~~~~i~~~~~~~--p~~~iiVtG 79 (437)
T COG0621 5 VYIETLGCQ---MNLYDSERMAGLLEAAGYEELVEDPEEADVVIINTCAVREKAEQKVRSAIGELKKLK--PDAKIIVTG 79 (437)
T ss_pred EEEEecCCC---ccHHHHHHHHHHHHHcCCccccCCcccCCEEEEecCeeeehHHHHHHHHHHHHHHhC--CCCEEEEeC
Confidence 455666654 333222211111233445 456678899998884 34444322 2 344444433 666666666
Q ss_pred cc
Q 041751 153 RA 154 (213)
Q Consensus 153 CA 154 (213)
|-
T Consensus 80 C~ 81 (437)
T COG0621 80 CL 81 (437)
T ss_pred Cc
Confidence 63
No 88
>cd03128 GAT_1 Type 1 glutamine amidotransferase (GATase1)-like domain. Type 1 glutamine amidotransferase (GATase1)-like domain. This group contains proteins similar to Class I glutamine amidotransferases, the intracellular PH1704 from Pyrococcus horikoshii, the C-terminal of the large catalase: Escherichia coli HP-II, Sinorhizobium meliloti Rm1021 ThuA, the A4 beta-galactosidase middle domain and peptidase E. The majority of proteins in this group have a reactive Cys found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. For Class I glutamine amidotransferases proteins which transfer ammonia from the amide side chain of glutamine to an acceptor substrate, this Cys forms a Cys-His-Glu catalytic triad in the active site. Glutamine amidotransferases activity can be found in a range of biosynthetic enzymes included in this cd: glutamine amidotransferase, formylglycinamide ribonucleotide, GMP synthetase, anthranilate synthase component II, glutamin
Probab=22.11 E-value=1.6e+02 Score=18.67 Aligned_cols=40 Identities=13% Similarity=0.069 Sum_probs=26.0
Q ss_pred CCCeeEEEEecccCCCCh-----HHHHHHHHHCCCCceEEEecCc
Q 041751 114 PRQSDVMIVAGTLTNKMA-----PALRKVYDQMPEPRWVISMGSR 153 (213)
Q Consensus 114 Pr~aDIliVeG~Vt~km~-----~~l~~l~e~~~~pk~VIA~GsC 153 (213)
..++|.+++-|.-..... ..++.+.+...+-+.+++.++.
T Consensus 44 ~~~~~~lii~g~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g 88 (92)
T cd03128 44 LDDYDGLILPGGPGTPDDLAWDEALLALLREAAAAGKPVLGICLG 88 (92)
T ss_pred cccCCEEEECCCCcchhhhccCHHHHHHHHHHHHcCCEEEEEecc
Confidence 456788888887766643 4566666666666666655443
No 89
>cd00069 GHB Glycoprotein hormone beta chain homologues. Gonadotropins; reproductive hormones consisting of two glycosylated chains (alpha and beta) of similar topology with Cysteine-knot motifs.
Probab=21.99 E-value=55 Score=25.82 Aligned_cols=17 Identities=29% Similarity=0.841 Sum_probs=11.7
Q ss_pred ccccceEEccCCCCCHH
Q 041751 172 RIVPVDIYVPGCPPTAE 188 (213)
Q Consensus 172 ~vVpVDi~IPGCPP~Pe 188 (213)
++.=-.+.||||||+-+
T Consensus 53 ~~~Y~tv~lpgCp~gvd 69 (102)
T cd00069 53 ELSYETVRLPGCPPGVD 69 (102)
T ss_pred cEEEEEEECCCCcCCCC
Confidence 33334489999999654
No 90
>PF09885 DUF2112: Uncharacterized protein conserved in archaea (DUF2112); InterPro: IPR012356 The exact function of this protein is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=21.80 E-value=1e+02 Score=25.81 Aligned_cols=45 Identities=22% Similarity=0.384 Sum_probs=28.2
Q ss_pred CCCCCCCcCCCCccee-----------ehhhHHHHhhhhcCCcc---eecccCCccHHH
Q 041751 48 RATFGPVGLSKASEYV-----------ISKVDNLLNWVRRGSLW---PMTFGLACCAVE 92 (213)
Q Consensus 48 ~~~~~~~~~~~~~~~~-----------~~~~d~~~~w~R~~siW---~~~~gc~GC~iE 92 (213)
+-+-++..+.++..|. ++.+..++.-+....|- +..|||.||+-.
T Consensus 44 Plnit~edpkkGlkYAAvEvPSGvRGRMsl~gplIeeAeAaIIv~~~p~~FGC~GCart 102 (143)
T PF09885_consen 44 PLNITPEDPKKGLKYAAVEVPSGVRGRMSLIGPLIEEAEAAIIVEDAPIAFGCMGCART 102 (143)
T ss_pred CCcCCccchhhccceeEeecCCcccchhhhhhhhHhhhceeeEecCCCccccccccccH
Confidence 3344455555555553 24567777777765553 578999999743
No 91
>PRK14497 putative molybdopterin biosynthesis protein MoeA/unknown domain fusion protein; Provisional
Probab=21.49 E-value=1.4e+02 Score=29.80 Aligned_cols=27 Identities=26% Similarity=0.404 Sum_probs=18.1
Q ss_pred cceEEccCCCCCHHHHHHHHH-HHHHHHh
Q 041751 175 PVDIYVPGCPPTAEALLYGIL-QLQKKIN 202 (213)
Q Consensus 175 pVDi~IPGCPP~Pe~il~~L~-~Ll~ki~ 202 (213)
+| +-+||||...-..++.++ -++.++.
T Consensus 295 pV-~gLPG~P~Sa~v~f~~fV~P~L~~l~ 322 (546)
T PRK14497 295 PV-IGLPGNIVSTMVVLNMVILEYLKSLY 322 (546)
T ss_pred EE-EEcCCCHHHHHHHHHHHHHHHHHHhc
Confidence 45 899999999855554444 3555553
Done!