Query 031196
Match_columns 164
No_of_seqs 161 out of 444
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 10:37:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031196.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031196hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3123 Diphthine synthase [Tr 100.0 5E-69 1.1E-73 448.2 12.9 163 1-163 61-224 (272)
2 COG1798 DPH5 Diphthamide biosy 100.0 4.8E-56 1E-60 375.3 14.8 146 1-162 61-208 (260)
3 PTZ00175 diphthine synthase; P 100.0 9.8E-55 2.1E-59 370.0 17.4 162 2-163 63-225 (270)
4 TIGR00522 dph5 diphthine synth 100.0 2.1E-34 4.6E-39 242.3 16.5 146 3-163 63-210 (257)
5 PRK04160 diphthine synthase; P 99.9 4.3E-24 9.3E-29 178.7 16.9 145 3-163 63-210 (258)
6 TIGR01469 cobA_cysG_Cterm urop 99.8 1.1E-18 2.4E-23 142.2 12.0 101 7-107 68-170 (236)
7 PRK06136 uroporphyrin-III C-me 99.8 1.5E-18 3.2E-23 143.0 12.2 101 7-107 71-174 (249)
8 COG2243 CobF Precorrin-2 methy 99.8 7.9E-19 1.7E-23 147.9 9.1 107 2-115 76-184 (234)
9 PF00590 TP_methylase: Tetrapy 99.8 3.5E-17 7.7E-22 130.0 14.4 126 5-163 63-196 (210)
10 TIGR01465 cobM_cbiF precorrin- 99.7 1.1E-16 2.4E-21 130.1 13.0 101 6-107 61-164 (229)
11 PLN02625 uroporphyrin-III C-me 99.7 2.7E-16 5.9E-21 132.2 12.9 102 6-107 82-186 (263)
12 PRK10637 cysG siroheme synthas 99.7 3.6E-16 7.7E-21 140.9 12.7 99 7-107 284-384 (457)
13 PRK05991 precorrin-3B C17-meth 99.6 5.3E-15 1.1E-19 123.6 12.3 122 12-163 69-200 (250)
14 PRK05990 precorrin-2 C(20)-met 99.6 9.2E-15 2E-19 122.0 13.7 97 3-107 85-183 (241)
15 PRK05576 cobalt-precorrin-2 C( 99.6 1.2E-14 2.7E-19 119.5 13.9 95 4-106 78-174 (229)
16 TIGR01467 cobI_cbiL precorrin- 99.6 2.1E-14 4.5E-19 117.7 14.2 94 6-106 80-175 (230)
17 PRK05787 cobalt-precorrin-6Y C 99.6 2.2E-14 4.9E-19 115.0 12.9 93 7-107 59-152 (210)
18 PRK05948 precorrin-2 methyltra 99.6 7.9E-15 1.7E-19 123.1 10.3 98 4-109 80-182 (238)
19 TIGR02434 CobF precorrin-6A sy 99.5 4E-14 8.6E-19 119.7 9.0 95 5-109 91-190 (249)
20 PRK08284 precorrin 6A synthase 99.5 8.5E-14 1.8E-18 117.9 9.8 92 7-108 94-190 (253)
21 PRK15473 cbiF cobalt-precorrin 99.5 7.5E-13 1.6E-17 111.0 13.6 100 6-107 70-173 (257)
22 PRK14994 SAM-dependent 16S rib 99.5 4.6E-13 9.9E-18 115.5 11.2 107 3-118 71-184 (287)
23 TIGR01466 cobJ_cbiH precorrin- 99.4 3.4E-12 7.3E-17 105.0 14.1 127 7-163 60-194 (239)
24 TIGR02467 CbiE precorrin-6y C5 99.4 6.9E-12 1.5E-16 101.2 12.0 62 3-66 54-116 (204)
25 PRK05765 precorrin-3B C17-meth 99.3 7.2E-11 1.6E-15 98.8 12.6 94 7-106 63-163 (246)
26 PRK07168 bifunctional uroporph 99.2 1.1E-10 2.4E-15 106.7 12.6 98 8-107 72-172 (474)
27 PRK15478 cbiH cobalt-precorrin 99.1 8.2E-10 1.8E-14 92.6 12.6 61 7-67 61-125 (241)
28 COG2241 CobL Precorrin-6B meth 98.8 8.4E-08 1.8E-12 80.1 13.0 88 6-105 59-147 (210)
29 COG2875 CobM Precorrin-4 methy 98.8 6.3E-08 1.4E-12 82.6 11.8 105 2-107 61-169 (254)
30 COG1010 CobJ Precorrin-3B meth 98.8 5.9E-08 1.3E-12 82.7 11.2 114 5-141 61-183 (249)
31 COG0007 CysG Uroporphyrinogen- 98.7 1.8E-07 4E-12 79.7 11.2 94 8-104 73-168 (244)
32 COG0313 Predicted methyltransf 97.8 5.1E-05 1.1E-09 65.9 6.3 65 4-68 65-132 (275)
33 TIGR00096 probable S-adenosylm 97.7 0.00021 4.6E-09 61.8 8.2 126 6-139 62-205 (276)
34 COG3956 Protein containing tet 97.1 0.0012 2.6E-08 59.9 6.4 66 6-71 73-140 (488)
35 KOG1527 Uroporphyrin III methy 95.0 0.041 9E-07 50.3 5.2 69 11-79 328-398 (506)
36 PRK15062 hydrogenase isoenzyme 87.4 4 8.6E-05 37.2 8.6 122 4-156 70-196 (364)
37 PF01924 HypD: Hydrogenase for 86.9 0.99 2.2E-05 40.8 4.5 110 4-144 65-179 (355)
38 TIGR00075 hypD hydrogenase exp 86.8 3.9 8.5E-05 37.3 8.2 122 4-156 76-202 (369)
39 COG0409 HypD Hydrogenase matur 79.1 8.8 0.00019 34.9 7.2 96 4-107 72-170 (364)
40 TIGR02495 NrdG2 anaerobic ribo 78.9 6.4 0.00014 30.8 5.7 37 18-54 65-101 (191)
41 COG4521 TauA ABC-type taurine 68.7 3.8 8.2E-05 36.3 2.3 33 12-49 127-162 (334)
42 smart00481 POLIIIAc DNA polyme 67.9 8.9 0.00019 25.2 3.5 47 6-54 17-63 (67)
43 PF11823 DUF3343: Protein of u 67.1 4.1 8.8E-05 27.9 1.8 35 28-64 8-44 (73)
44 PF01936 NYN: NYN domain; Int 66.9 13 0.00028 27.2 4.6 38 9-50 87-126 (146)
45 TIGR03365 Bsubt_queE 7-cyano-7 66.8 15 0.00033 30.6 5.5 41 17-57 74-114 (238)
46 TIGR01917 gly_red_sel_B glycin 65.9 16 0.00035 34.0 5.8 72 4-80 323-397 (431)
47 TIGR01918 various_sel_PB selen 64.7 17 0.00038 33.8 5.8 72 4-80 323-397 (431)
48 PRK05301 pyrroloquinoline quin 64.2 11 0.00024 32.9 4.4 50 7-56 52-103 (378)
49 PF13394 Fer4_14: 4Fe-4S singl 63.4 5.7 0.00012 28.6 2.0 50 6-55 34-92 (119)
50 TIGR02109 PQQ_syn_pqqE coenzym 62.4 13 0.00028 32.2 4.4 50 7-56 43-94 (358)
51 PF04055 Radical_SAM: Radical 61.6 10 0.00022 27.4 3.1 40 16-55 46-88 (166)
52 PF13353 Fer4_12: 4Fe-4S singl 60.4 27 0.00058 25.5 5.3 54 4-57 39-98 (139)
53 PF08902 DUF1848: Domain of un 56.9 43 0.00094 29.2 6.7 67 69-148 46-112 (266)
54 PRK13762 tRNA-modifying enzyme 56.6 23 0.00049 31.1 4.9 46 16-61 131-176 (322)
55 PRK11263 cardiolipin synthase 55.9 45 0.00099 30.3 6.9 56 9-68 214-283 (411)
56 PRK10076 pyruvate formate lyas 49.9 29 0.00063 28.7 4.3 36 18-53 41-77 (213)
57 COG0079 HisC Histidinol-phosph 48.4 25 0.00054 31.2 4.0 84 19-106 94-184 (356)
58 PF03401 TctC: Tripartite tric 47.3 46 0.001 28.1 5.3 51 5-57 92-144 (274)
59 PF02844 GARS_N: Phosphoribosy 46.4 13 0.00028 27.9 1.5 38 17-55 26-73 (100)
60 TIGR03822 AblA_like_2 lysine-2 45.5 2.1E+02 0.0045 25.0 9.7 37 7-43 125-166 (321)
61 COG0159 TrpA Tryptophan syntha 44.4 37 0.00081 29.6 4.3 100 15-118 17-144 (265)
62 TIGR02493 PFLA pyruvate format 43.6 46 0.00099 26.8 4.5 36 17-53 68-104 (235)
63 PF00466 Ribosomal_L10: Riboso 43.4 80 0.0017 22.3 5.3 85 6-93 10-98 (100)
64 cd07227 Pat_Fungal_NTE1 Fungal 42.8 34 0.00075 29.4 3.8 53 11-63 4-59 (269)
65 PF03575 Peptidase_S51: Peptid 42.1 87 0.0019 23.9 5.7 51 5-58 25-81 (154)
66 COG0206 FtsZ Cell division GTP 41.9 1.7E+02 0.0038 26.3 8.3 44 3-46 83-128 (338)
67 TIGR03006 pepcterm_polyde poly 41.7 30 0.00066 29.6 3.3 49 2-53 26-76 (265)
68 cd06167 LabA_like LabA_like pr 41.6 74 0.0016 23.6 5.1 40 9-52 91-132 (149)
69 COG0602 NrdG Organic radical a 41.1 75 0.0016 26.3 5.5 50 6-55 58-111 (212)
70 PRK11145 pflA pyruvate formate 40.0 44 0.00096 27.3 3.9 36 17-53 73-109 (246)
71 cd01407 SIR2-fam SIR2 family o 39.6 82 0.0018 25.7 5.5 41 9-50 161-201 (218)
72 PF13192 Thioredoxin_3: Thiore 37.5 85 0.0019 21.1 4.5 48 18-66 3-53 (76)
73 TIGR00288 conserved hypothetic 36.8 86 0.0019 25.4 5.0 33 14-50 104-136 (160)
74 PRK06683 hypothetical protein; 36.1 1.6E+02 0.0034 20.9 5.8 56 6-65 16-73 (82)
75 cd06305 PBP1_methylthioribose_ 36.1 2.1E+02 0.0046 22.4 8.1 37 17-53 1-39 (273)
76 COG1432 Uncharacterized conser 35.7 72 0.0016 25.6 4.5 44 9-56 102-147 (181)
77 TIGR02666 moaA molybdenum cofa 34.9 90 0.0019 26.8 5.2 50 7-56 49-102 (334)
78 cd07225 Pat_PNPLA6_PNPLA7 Pata 33.7 85 0.0018 27.3 4.9 57 6-62 4-63 (306)
79 PF00290 Trp_syntA: Tryptophan 33.6 34 0.00074 29.5 2.4 33 16-49 11-43 (259)
80 PRK09330 cell division protein 33.5 2.4E+02 0.0053 25.7 7.9 82 3-107 85-169 (384)
81 PLN02591 tryptophan synthase 33.2 47 0.001 28.4 3.2 31 17-48 4-34 (250)
82 CHL00200 trpA tryptophan synth 32.8 49 0.0011 28.4 3.2 32 16-48 16-47 (263)
83 cd00886 MogA_MoaB MogA_MoaB fa 32.0 85 0.0018 24.1 4.2 33 17-49 2-39 (152)
84 TIGR02668 moaA_archaeal probab 31.9 1.4E+02 0.003 25.1 5.8 49 7-56 46-98 (302)
85 TIGR01766 tspaseT_teng_C trans 31.9 92 0.002 21.1 4.0 23 4-27 11-33 (82)
86 CHL00144 odpB pyruvate dehydro 31.2 1.3E+02 0.0028 26.5 5.6 72 15-94 201-276 (327)
87 TIGR03470 HpnH hopanoid biosyn 30.8 1.2E+02 0.0026 26.2 5.4 42 16-57 73-114 (318)
88 TIGR00262 trpA tryptophan synt 30.3 57 0.0012 27.7 3.2 33 16-49 11-43 (256)
89 cd07399 MPP_YvnB Bacillus subt 29.6 1.1E+02 0.0024 24.7 4.6 51 4-54 22-80 (214)
90 KOG0840 ATP-dependent Clp prot 29.0 45 0.00097 29.4 2.3 13 125-137 236-248 (275)
91 TIGR02494 PFLE_PFLC glycyl-rad 28.6 1E+02 0.0022 25.8 4.4 37 19-55 129-166 (295)
92 TIGR01764 excise DNA binding d 28.5 43 0.00094 19.7 1.6 11 128-138 1-11 (49)
93 cd00885 cinA Competence-damage 28.3 1.1E+02 0.0024 24.3 4.4 33 17-49 1-38 (170)
94 PF14488 DUF4434: Domain of un 27.8 1.3E+02 0.0027 24.0 4.6 65 79-148 15-80 (166)
95 PRK13361 molybdenum cofactor b 27.3 1.5E+02 0.0032 25.6 5.3 50 7-56 51-104 (329)
96 TIGR02826 RNR_activ_nrdG3 anae 27.2 1.6E+02 0.0034 22.9 5.0 36 17-53 63-98 (147)
97 PF04430 DUF498: Protein of un 26.7 1.8E+02 0.0038 21.3 4.9 36 15-51 53-88 (110)
98 PRK13111 trpA tryptophan synth 26.6 1.1E+02 0.0023 26.2 4.2 33 16-49 13-45 (258)
99 COG0420 SbcD DNA repair exonuc 26.3 86 0.0019 27.5 3.7 48 5-52 28-84 (390)
100 PF03033 Glyco_transf_28: Glyc 25.7 1.7E+02 0.0036 21.0 4.6 39 33-71 16-54 (139)
101 PF08401 DUF1738: Domain of un 25.7 37 0.00079 25.7 1.1 41 85-136 36-76 (125)
102 cd01412 SIRT5_Af1_CobB SIRT5_A 25.0 1.8E+02 0.004 23.6 5.2 33 17-49 165-197 (224)
103 COG0244 RplJ Ribosomal protein 24.9 3.7E+02 0.008 21.6 9.5 100 7-110 13-115 (175)
104 PLN02335 anthranilate synthase 24.7 96 0.0021 25.6 3.5 38 10-51 12-50 (222)
105 COG2518 Pcm Protein-L-isoaspar 24.7 1.1E+02 0.0025 25.7 4.0 78 8-91 63-143 (209)
106 cd06295 PBP1_CelR Ligand bindi 24.6 1E+02 0.0023 24.4 3.6 38 34-71 55-96 (275)
107 TIGR03679 arCOG00187 arCOG0018 24.5 4E+02 0.0086 21.9 8.0 18 33-50 46-63 (218)
108 PF13458 Peripla_BP_6: Peripla 24.5 1.8E+02 0.0039 23.9 5.1 44 15-58 135-182 (343)
109 PF12728 HTH_17: Helix-turn-he 24.3 56 0.0012 20.2 1.6 11 128-138 1-11 (51)
110 PRK00481 NAD-dependent deacety 24.1 1.9E+02 0.0041 23.9 5.2 35 16-50 177-211 (242)
111 TIGR01380 glut_syn glutathione 23.8 1.1E+02 0.0023 26.5 3.7 31 17-49 2-37 (312)
112 COG1433 Uncharacterized conser 23.7 55 0.0012 25.2 1.8 45 95-142 63-108 (121)
113 cd01335 Radical_SAM Radical SA 23.6 2.5E+02 0.0055 20.4 5.3 39 16-54 45-85 (204)
114 PF11495 Regulator_TrmB: Archa 23.6 1.5E+02 0.0033 24.3 4.5 43 4-49 13-55 (233)
115 PF02401 LYTB: LytB protein; 23.5 2E+02 0.0044 25.1 5.4 61 7-75 201-261 (281)
116 PF03192 DUF257: Pyrococcus pr 23.2 84 0.0018 26.2 2.9 42 65-107 7-48 (210)
117 cd06271 PBP1_AglR_RafR_like Li 23.0 1.3E+02 0.0028 23.5 3.8 31 41-71 57-91 (268)
118 PF03465 eRF1_3: eRF1 domain 3 22.9 98 0.0021 23.0 3.0 63 6-74 26-108 (113)
119 PRK13789 phosphoribosylamine-- 22.7 92 0.002 28.2 3.3 37 5-45 56-94 (426)
120 TIGR02009 PGMB-YQAB-SF beta-ph 22.1 3.4E+02 0.0073 20.3 5.9 69 33-103 94-164 (185)
121 COG1752 RssA Predicted esteras 22.0 1.6E+02 0.0034 25.2 4.4 49 15-63 9-60 (306)
122 COG5379 BtaA S-adenosylmethion 21.6 1.8E+02 0.0039 26.7 4.8 62 74-144 282-355 (414)
123 PRK10892 D-arabinose 5-phospha 21.4 2.9E+02 0.0064 23.4 6.0 121 14-140 93-232 (326)
124 PRK05282 (alpha)-aspartyl dipe 21.4 1.4E+02 0.0031 25.1 4.0 89 6-97 21-113 (233)
125 PF07521 RMMBL: RNA-metabolisi 21.1 68 0.0015 19.9 1.5 19 7-26 24-42 (43)
126 cd00758 MoCF_BD MoCF_BD: molyb 20.8 2.1E+02 0.0045 21.3 4.4 33 17-49 1-38 (133)
127 cd07198 Patatin Patatin-like p 20.6 1.2E+02 0.0025 23.4 3.1 36 31-66 12-50 (172)
128 PRK03670 competence damage-ind 20.6 1.7E+02 0.0037 25.0 4.3 33 17-49 2-39 (252)
129 cd04724 Tryptophan_synthase_al 20.4 1.3E+02 0.0028 25.1 3.5 39 18-57 3-50 (242)
130 COG1509 KamA Lysine 2,3-aminom 20.4 53 0.0012 30.1 1.3 26 17-42 160-187 (369)
131 cd00248 Mth938-like Mth938-lik 20.4 2.9E+02 0.0063 20.3 5.1 47 16-66 53-99 (109)
132 PF02780 Transketolase_C: Tran 20.2 1.4E+02 0.003 21.7 3.3 36 14-51 8-43 (124)
No 1
>KOG3123 consensus Diphthine synthase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5e-69 Score=448.15 Aligned_cols=163 Identities=66% Similarity=1.087 Sum_probs=158.7
Q ss_pred ChhchHHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHHHhhCCcceecCceEEEecCCCC
Q 031196 1 MVEEKADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAVGICGLQLYRFGETVSIPFFTET 80 (164)
Q Consensus 1 ~vE~~~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~ly~fg~~vtIpf~~~~ 80 (164)
|||+.++.|++.|.+.|||||++||||.||||++|+.||++.||+|++|||+|+|||+|+||||+|+||++||||||+++
T Consensus 61 mvEq~sd~il~~ad~~dVa~LVVGdPfgATTHsDlvlRAk~~~ipv~vIHNASimNavG~CGLqlY~fGetVSiv~ftd~ 140 (272)
T KOG3123|consen 61 MVEQESDKILDEADKEDVAFLVVGDPFGATTHSDLVLRAKELGIPVEVIHNASIMNAVGCCGLQLYNFGETVSIVFFTDN 140 (272)
T ss_pred HHHhhHHHHhhhhhhcceEEEEecCcccccchhhhheehhhcCCCeEEEechHHHhhhccceeeeeccCcEEEEEEEccC
Confidence 68999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCchHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCCCcceeee-e
Q 031196 81 WRPGSFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKAHELKIIL-K 159 (164)
Q Consensus 81 ~~P~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~~~~~~v~-~ 159 (164)
|+|+||||+|++|+++|||||||||||+|||++|||+||||+||||||||+|||++||||+|+++++.++++||.||. +
T Consensus 141 wrP~SfydkI~~Nr~~glHTLcLLDIkvkEqs~enl~rgrkiyeppRymsvn~a~~QlLei~e~~~~~~~~edT~~v~~~ 220 (272)
T KOG3123|consen 141 WRPESFYDKIKENRQLGLHTLCLLDIKVKEQSVENLARGRKIYEPPRYMSVNEAAEQLLEIEEKRGEPAYTEDTLCVAVA 220 (272)
T ss_pred cCchhHHHHHHHhhhcCceeEEEEEEeeccHHHHHHhccccccCCchhhhHHHHHHHHHHHHHhhCCCCcCCCceEEEEE
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999874 5
Q ss_pred cccc
Q 031196 160 QLQT 163 (164)
Q Consensus 160 ~~~~ 163 (164)
|+|.
T Consensus 221 R~Gs 224 (272)
T KOG3123|consen 221 RVGS 224 (272)
T ss_pred ecCC
Confidence 6653
No 2
>COG1798 DPH5 Diphthamide biosynthesis methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.8e-56 Score=375.29 Aligned_cols=146 Identities=46% Similarity=0.723 Sum_probs=138.9
Q ss_pred ChhchHHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCC
Q 031196 1 MVEEKADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTE 79 (164)
Q Consensus 1 ~vE~~~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~ 79 (164)
+||++.+.|++.|+++||||||+||||+||||++|+.+|+++||+|++|||+|++||+ |++|||+||||+++|||||++
T Consensus 61 dlE~~~~~il~~a~~~~Vall~~GDpmvATTH~~L~~~A~~~Gi~v~vIh~~Si~~Aa~g~tGL~~YkFG~~vTip~~~~ 140 (260)
T COG1798 61 DLEENSRSILDRAKDKDVALLVAGDPMVATTHVDLRIEAKRRGIEVRVIHGASIINAAIGLTGLQNYKFGKTVTLPFPSE 140 (260)
T ss_pred HHhhcchhHHHHHhcCCEEEEecCCcceehhHHHHHHHHHHcCCcEEEEcccHHHHHHhhhhhhheeccCCceEeccccc
Confidence 4788888899999999999999999999999999999999999999999999999999 999999999999999999999
Q ss_pred CcccCchHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCCCcce-eee
Q 031196 80 TWRPGSFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKAHELK-IIL 158 (164)
Q Consensus 80 ~~~P~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~~~~~-~v~ 158 (164)
+|+|.||||+|++|+++||||||||||+.++ ||||++||++||||+|+++++|++++++. ||+
T Consensus 141 ~~~p~s~yd~Ik~N~~~GLHTl~lLDi~~~~----------------r~Mt~~ea~~~LLe~e~~~~~~~~~~d~~~vvv 204 (260)
T COG1798 141 NFFPTSPYDVIKENLERGLHTLVLLDIKEDE----------------RYMTANEALELLLEAEERRGRGVLTEDTLAVVV 204 (260)
T ss_pred CcCCCcHHHHHHHhhhcCccceEEEEecccc----------------cccCHHHHHHHHHHHHHHhcCCCcCCCceEEEE
Confidence 9999999999999999999999999999764 89999999999999999999999998777 566
Q ss_pred eccc
Q 031196 159 KQLQ 162 (164)
Q Consensus 159 ~~~~ 162 (164)
+|+|
T Consensus 205 aR~G 208 (260)
T COG1798 205 ARAG 208 (260)
T ss_pred EecC
Confidence 6765
No 3
>PTZ00175 diphthine synthase; Provisional
Probab=100.00 E-value=9.8e-55 Score=370.01 Aligned_cols=162 Identities=67% Similarity=1.040 Sum_probs=154.4
Q ss_pred hhchHHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHHHhhCCcceecCceEEEecCCCCc
Q 031196 2 VEEKADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAVGICGLQLYRFGETVSIPFFTETW 81 (164)
Q Consensus 2 vE~~~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~ly~fg~~vtIpf~~~~~ 81 (164)
+|+.+++|++.|++++||||+.|||++||||.+++.+|+++||++++|||+|++||+|++|+|+|+||+++|||||+++|
T Consensus 63 ~e~~~~~ii~~a~~~~Vv~L~~GDP~i~~t~~~l~~~~~~~gi~vevIPGvSi~sA~~~~Gl~~~~fg~~~sv~~~t~~~ 142 (270)
T PTZ00175 63 VEEGCDEILEEAKEKNVAFLVVGDPFCATTHTDLYLRAKKKGIEVEVIHNASIMNAIGCTGLQLYRFGETVSIPFFTETW 142 (270)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCCCCccCCHHHHHHHHHHCCCcEEEECCcCHHHHHhhcCCCcCCCCceEEEEEEeCCC
Confidence 56667789999988999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCchHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCCCcceeeee-c
Q 031196 82 RPGSFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKAHELKIILK-Q 160 (164)
Q Consensus 82 ~P~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~~~~~~v~~-~ 160 (164)
+|.||||+|++|+++||||||||||+++|+++||||||+++|||||||+++||++||+++|++++++++++++.+++. |
T Consensus 143 ~~~s~~~~i~~n~~~glhTl~lldi~~~~~~~~~~~~~~~~~~~~~~M~~~~a~~~l~~i~~~~~~~~~~~~t~~v~v~r 222 (270)
T PTZ00175 143 KPDSFYDKIKANRDNGLHTLCLLDIKVKERSVENLMKGRKIYEPPRYMTINQAIEQLLEVEEKKGGGVIAEDTLVVGVAR 222 (270)
T ss_pred CCCChhHHHHHHHHcCCceEEEEeeeccccchhhhhccccccCCCcCCCHHHHHHHHHHHHHHHhcCCCCCCCeEEEEEE
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999986554 7
Q ss_pred ccc
Q 031196 161 LQT 163 (164)
Q Consensus 161 ~~~ 163 (164)
+|+
T Consensus 223 ~g~ 225 (270)
T PTZ00175 223 VGS 225 (270)
T ss_pred CCC
Confidence 764
No 4
>TIGR00522 dph5 diphthine synthase. This protein participates in the modification of a specific His of elongation factor 2 of eukarotes and Archaea to diphthamide. The protein was characterized in Saccharomyces cerevisiae and designated DPH5.
Probab=100.00 E-value=2.1e-34 Score=242.32 Aligned_cols=146 Identities=44% Similarity=0.716 Sum_probs=134.3
Q ss_pred hchHHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCc
Q 031196 3 EEKADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETW 81 (164)
Q Consensus 3 E~~~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~ 81 (164)
|+.++++++.+++++|++|+.|||++|+||.+++.++++.|+++++||||||++|+ |++|+|+|+||.+++++|++++|
T Consensus 63 e~~~~~ii~~~~~~~Vv~l~~GDP~i~~~~~~l~~~l~~~~i~vevIPGiSs~~aaaa~~g~~lt~~g~~~~v~~~s~~~ 142 (257)
T TIGR00522 63 EENSFRLIERAKSKDVALLVAGDPMVATTHTDLKLEAKRKGIETRIIHGASISSAVCGLTGLQLYKFGKTATIVFFTDNY 142 (257)
T ss_pred HHHHHHHHHHhcCCCEEEEECCcCcccCCHHHHHHHHHHCCCeEEEECcHhHHHHHHHHcCCCcccCCCcEEEEEecCCc
Confidence 55567888888889999999999999999999999999999999999999999998 99999999999999999999999
Q ss_pred ccCchHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCCCcce-eeeec
Q 031196 82 RPGSFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKAHELK-IILKQ 160 (164)
Q Consensus 82 ~P~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~~~~~-~v~~~ 160 (164)
+|.++++.+++|+.+++||+||||++.++ .|||++++|+++|++++++..++.+++++. +|+.|
T Consensus 143 ~~~~~~~~~~~~l~~~~~Tlvll~~~~~~---------------~~~M~~~~~~~~l~~~~~~l~~~g~~~~tpv~vv~~ 207 (257)
T TIGR00522 143 RPQTPYNVIKENRKIGLHTLVLLDIHPKE---------------NRAMTIGEGLENLLEEEEKRKTGAITPDTYAVVIAR 207 (257)
T ss_pred CCCCHHHHHHHHHhcCCCcEEEEecccCc---------------ccccCHHHHHHHHHHHHHHHhhcCCCCCCeEEEEEE
Confidence 99999999999999999999999999765 599999999999999998888888888876 45557
Q ss_pred ccc
Q 031196 161 LQT 163 (164)
Q Consensus 161 ~~~ 163 (164)
++.
T Consensus 208 ~~~ 210 (257)
T TIGR00522 208 AGS 210 (257)
T ss_pred CCC
Confidence 654
No 5
>PRK04160 diphthine synthase; Provisional
Probab=99.92 E-value=4.3e-24 Score=178.72 Aligned_cols=145 Identities=46% Similarity=0.725 Sum_probs=126.8
Q ss_pred hchHHHHH-hhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCC
Q 031196 3 EEKADKIL-SESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTET 80 (164)
Q Consensus 3 E~~~~~I~-~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~ 80 (164)
++..+.++ +.+++++|++|+.|||++|+|+.+++.++++.|+++++||||||++++ |++|+++|+||.++|++|.+..
T Consensus 63 ~~~~~~~~~~~~~~~~Vv~L~sGDP~~ys~~~~l~~~l~~~~~~veviPGISS~~aaaa~~g~~~~~~g~~~s~~~~~~~ 142 (258)
T PRK04160 63 EQESEKIILEEAKEKNVAFLTAGDPMVATTHVDLRLEAKKRGIEVRVIHGVSIYSAAISLTGLQNYKFGKSVTVPFPYGN 142 (258)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCCCccccCHHHHHHHHHHCCCcEEEECChhHHHHHHHHhCCCcccCCceEEEccCcCC
Confidence 33444455 666678999999999999999999999999999999999999999998 9999999999999999998888
Q ss_pred cccCchHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCCCc-ceeeee
Q 031196 81 WRPGSFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKAHE-LKIILK 159 (164)
Q Consensus 81 ~~P~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~~~-~~~v~~ 159 (164)
|.|.++.+.|.+++..+.||++||+.+.+ ++||++..++++|++..++..+|.+.++ ..+|+.
T Consensus 143 ~~~~~~~~~i~~~~~~~~~~~vll~~~~~----------------~~~~~~~~~~~~L~~~~~~l~~g~~~~~~~v~V~e 206 (258)
T PRK04160 143 FFPESPYDVIKDNLERGLHTLVLLDIKAD----------------GRYMTANEALELLLELEEKRGEGVISEDTLAVVVA 206 (258)
T ss_pred cCCCCHHHHHHHHHhcCCCcEEEEEeccC----------------CcccCHHHHHHHHHHHHHHhcccccCCCCEEEEEE
Confidence 88888999999999999999999998754 4789999999999999888888877654 467777
Q ss_pred cccc
Q 031196 160 QLQT 163 (164)
Q Consensus 160 ~~~~ 163 (164)
||+.
T Consensus 207 ~l~~ 210 (258)
T PRK04160 207 RAGS 210 (258)
T ss_pred ecCC
Confidence 7764
No 6
>TIGR01469 cobA_cysG_Cterm uroporphyrin-III C-methyltransferase. This model represents enzymes, or enzyme domains, with uroporphyrin-III C-methyltransferase activity. This enzyme catalyzes the first step committed to the biosynthesis of either siroheme or cobalamin (vitamin B12) rather than protoheme (heme). Cobalamin contains cobalt while siroheme contains iron. Siroheme is a cofactor for nitrite and sulfite reductases and therefore plays a role in cysteine biosynthesis; many members of this family are CysG, siroheme synthase, with an additional N-terminal domain and with additional oxidation and iron insertion activities.
Probab=99.79 E-value=1.1e-18 Score=142.21 Aligned_cols=101 Identities=20% Similarity=0.144 Sum_probs=81.6
Q ss_pred HHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcccC
Q 031196 7 DKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRPG 84 (164)
Q Consensus 7 ~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P~ 84 (164)
+.|.+.++ +++|++|+.|||++|+||.+++.++++.|+++++|||+||++++ |++|++++.+|++-++.|.+.++++.
T Consensus 68 ~~i~~~~~~g~~V~~l~~GDP~~~~~~~~l~~~~~~~~~~v~viPGiSs~~~a~a~~g~~l~~~~~~~~~~i~~~~~~~~ 147 (236)
T TIGR01469 68 RLLVELAREGKKVVRLKGGDPFVFGRGGEEAEALAEAGIPFEVVPGVTSAIAAAAYAGIPLTHRGVASSVTFVTGHEADD 147 (236)
T ss_pred HHHHHHHHCCCeEEEEeCcCcccccCHHHHHHHHHHCCCCEEEECCccHHHHHHHHcCCCcccCCCcceEEEEEcccCCC
Confidence 33555544 68999999999999999999999999999999999999999998 99999999999765555555566666
Q ss_pred chHHHHHHHHhcCCccEEEEecc
Q 031196 85 SFYEKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 85 s~y~~I~~N~~~glHTlvLLDi~ 107 (164)
+.++...+++..+.||+|+++-.
T Consensus 148 ~~~~~~~~~~~~~~~~~vl~~~~ 170 (236)
T TIGR01469 148 KALEVDWEALAKGAGTLVIYMGV 170 (236)
T ss_pred cccccCHHHHhcCCCeEEEECCH
Confidence 54433346667777999998743
No 7
>PRK06136 uroporphyrin-III C-methyltransferase; Reviewed
Probab=99.78 E-value=1.5e-18 Score=142.97 Aligned_cols=101 Identities=21% Similarity=0.165 Sum_probs=83.7
Q ss_pred HHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcccC
Q 031196 7 DKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRPG 84 (164)
Q Consensus 7 ~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P~ 84 (164)
+.+.+.++ +++||||+.|||++|+|+.+++.++++.|+++++||||||++|+ |++|++++.+|++.++.|.+.+.++.
T Consensus 71 ~~i~~~~~~g~~V~~l~~GDP~~ys~~~~l~~~l~~~~~~veviPGISS~~aaaa~~g~~l~~~~~~~~~~~~~~~~~~~ 150 (249)
T PRK06136 71 RLLVDYARKGKVVVRLKGGDPFVFGRGGEELEALEAAGIPYEVVPGITAAIAAAAYAGIPLTHRGVARSVTFVTGHEAAG 150 (249)
T ss_pred HHHHHHHHCCCeEEEEeCCCchhhhcHHHHHHHHHHCCCCEEEEcCccHHHHHHHHcCCCcccCCcceeEEEEecccCCC
Confidence 44556554 68999999999999999999999999999999999999999998 99999999999988877766666666
Q ss_pred chH-HHHHHHHhcCCccEEEEecc
Q 031196 85 SFY-EKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 85 s~y-~~I~~N~~~glHTlvLLDi~ 107 (164)
+++ ....+++..+-+|+||++-.
T Consensus 151 ~~~~~~~~~~l~~~~~~~vl~~~~ 174 (249)
T PRK06136 151 KLEPEVNWSALADGADTLVIYMGV 174 (249)
T ss_pred ccccccCHHHHhCCCCeEEEECCH
Confidence 655 33336677777999997654
No 8
>COG2243 CobF Precorrin-2 methylase [Coenzyme metabolism]
Probab=99.78 E-value=7.9e-19 Score=147.93 Aligned_cols=107 Identities=23% Similarity=0.302 Sum_probs=87.5
Q ss_pred hhchHHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCC
Q 031196 2 VEEKADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTE 79 (164)
Q Consensus 2 vE~~~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~ 79 (164)
.++.+++|++++. ++||||+|.|||++|+|+++|+.+.+.+|+++++||||||++|+ |++|+++...+++++|
T Consensus 76 ~~e~a~~va~~l~~G~~VAf~~lGDP~~YsTf~~l~~~l~~~~~e~e~VPGVsS~~a~aa~~~~pL~~g~~~l~V----- 150 (234)
T COG2243 76 WEEAAAEVAAELEAGRDVAFLTLGDPTFYSTFMYLLERLRERGFEVEVVPGVSSFSACAARLGVPLVEGDDSLSV----- 150 (234)
T ss_pred HHHHHHHHHHHHHcCCeEEEEEccCccHHHHHHHHHHHhhccCCceEEeCCcchHHHHHHHhCCceeccCceeEE-----
Confidence 4677788887777 47999999999999999999999999999999999999999999 9999999999999998
Q ss_pred CcccCchHHHHHHHHhcCCccEEEEecccCCchhhh
Q 031196 80 TWRPGSFYEKIKRNRSLGLHTLCLLDIRVKEPSLES 115 (164)
Q Consensus 80 ~~~P~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~ 115 (164)
.|.+--+....-.-....|.|+|++....+.++.
T Consensus 151 --lp~t~~~~~~~~~l~~~d~~VvMK~~~~~~~i~~ 184 (234)
T COG2243 151 --LPATRPDEELERALADFDTAVVMKVGRNFEKLRR 184 (234)
T ss_pred --EeccCchhhHHhHHhhCCeEEEEecCCcHHHHHH
Confidence 5655433333323333489999999865544433
No 9
>PF00590 TP_methylase: Tetrapyrrole (Corrin/Porphyrin) Methylases Note this Prosite entry does not include all members of this family.; InterPro: IPR000878 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including cobalamin (vitamin B12), haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. This entry represents several tetrapyrrole methylases, which consist of two non-similar domains. These enzymes catalyse the methylation of their substrates using S-adenosyl-L-methionine as a methyl source. Enzymes in this family include: Uroporphyrinogen III methyltransferase (2.1.1.107 from EC) (SUMT), which catalyses the conversion of uroporphyrinogen III to precorrin-2 at the first branch-point of the tetrapyrrole synthesis pathway, directing the pathway towards cobalamin or sirohaem synthesis []. Precorrin-2 C20-methyltransferase CobI/CbiL (2.1.1.130 from EC), which introduces a methyl group at C-20 on precorrin-2 to produce precorrin-3A during cobalamin biosynthesis. This reaction is key to the conversion of a porphyrin-type tetrapyrrole ring to a corrin ring []. In some species, this enzyme is part of a bifunctional protein. Precorrin-4 C11-methyltransferase CobM/CbiF (2.1.1.133 from EC), which introduces a methyl group at C-11 on precorrin-4 to produce precorrin-5 during cobalamin biosynthesis []. Sirohaem synthase CysG (2.1.1.107 from EC), domains 4 and 5, which synthesizes sirohaem from uroporphyrinogen III, at the first branch-point in the tetrapyrrole biosynthetic pathway, directing the pathway towards sirohaem synthesis []. Diphthine synthase (2.1.1.98 from EC), which carries out the methylation step during the modification of a specific histidine residue of elongation factor 2 (EF-2) during diphthine synthesis. ; GO: 0008168 methyltransferase activity, 0008152 metabolic process; PDB: 2ZVC_A 2ZVB_A 1WDE_A 3ND1_A 2E0K_A 2E0N_B 1VA0_B 1V9A_A 3I4T_A 3NDC_B ....
Probab=99.75 E-value=3.5e-17 Score=130.00 Aligned_cols=126 Identities=25% Similarity=0.206 Sum_probs=95.3
Q ss_pred hHHHH--Hhhcc-cCCeEEEecCCCCccccHHHHHHHHHh--CCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCC
Q 031196 5 KADKI--LSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKK--LGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFT 78 (164)
Q Consensus 5 ~~~~I--~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~--~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~ 78 (164)
..+.| .+.++ +++|+||+.|||++|+|+.+++.++++ .|+++++|||+||++++ |++|++++.++....+.
T Consensus 63 ~~~~i~~~~~~~~g~~V~~l~~GDP~~~~~~~~l~~~l~~~~~gi~v~iiPGiSs~~~a~a~~g~~~~~~~~~~~~~--- 139 (210)
T PF00590_consen 63 IAEIIEAIEAAKEGKDVVVLVSGDPLFFSTGSYLVRALRAEERGIEVEIIPGISSFQAAAARLGIPLTDGGFISLHG--- 139 (210)
T ss_dssp HHHHHHHHHHHHTTSEEEEEESBSTTSSSSHHHHHHHHHHHHTTCEEEEE--TTHHHHHHHHCTSTSSBTTTBEEEE---
T ss_pred HHHHHHHHHHHhccCCEEEeCCCCCCcccHHHHHHHHHHhhcCCCceEEEecCcHHHHHHHHHcCCcccCcEEEEEE---
Confidence 33445 55555 588999999999999999999988887 99999999999999998 99999999999999996
Q ss_pred CCccc-CchHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCC-Cccee
Q 031196 79 ETWRP-GSFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKA-HELKI 156 (164)
Q Consensus 79 ~~~~P-~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~-~~~~~ 156 (164)
+.+ ..+......++..+-||+|+|+-. + ++.+.++.|++. ... ....+
T Consensus 140 --~~~~~~~~~~~l~~~~~~~~~~vil~~~-------------------~--~~~~i~~~L~~~-------~~~~~~~v~ 189 (210)
T PF00590_consen 140 --LRDLDTEREKLLENLLANGDTLVILTDP-------------------R--RLAEIAELLLER-------LYPPDTPVA 189 (210)
T ss_dssp --TSSSSHHHHHHHHHHHTTTSEEEEEESG-------------------C--CHHHHHHHHHHH-------SHTTTSEEE
T ss_pred --ecccccchHHHHHHHHhCCCEEEEEccC-------------------c--hHHHHHHHHHhh-------CCCCCcEEE
Confidence 222 234555666666667999999764 1 478888888764 112 23567
Q ss_pred eeecccc
Q 031196 157 ILKQLQT 163 (164)
Q Consensus 157 v~~~~~~ 163 (164)
|+.++++
T Consensus 190 v~~~lg~ 196 (210)
T PF00590_consen 190 VGERLGY 196 (210)
T ss_dssp EEESTTS
T ss_pred HHHhcCC
Confidence 7777764
No 10
>TIGR01465 cobM_cbiF precorrin-4 C11-methyltransferase. This model represents precorrin-4 C11-methyltransferase, one of two methyltransferases commonly referred to as precorrin-3 methylase (the other is precorrin-3B C17-methyltransferase, EC 2.1.1.131). This enzyme participates in the pathway toward the biosynthesis of cobalamin and related products.
Probab=99.72 E-value=1.1e-16 Score=130.15 Aligned_cols=101 Identities=20% Similarity=0.135 Sum_probs=76.6
Q ss_pred HHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcc-
Q 031196 6 ADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWR- 82 (164)
Q Consensus 6 ~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~- 82 (164)
.+.|.+.++ +++|+||+.|||++|+++.+++.++++.|+++++|||+||++|+ |++|++++.+|++.++.++..+.+
T Consensus 61 ~~~i~~~~~~g~~V~~L~~GDP~~~~~~~~l~~~~~~~g~~veviPGiSS~~aa~a~~g~~l~~~~~~~~~~~~~~~g~~ 140 (229)
T TIGR01465 61 VDIMSDAHREGKLVVRLHTGDPSIYGAIAEQMQLLEALGIPYEVVPGVSSFFAAAAALGAELTVPEVSQTVILTRAEGRT 140 (229)
T ss_pred HHHHHHHHHCCCeEEEEeCcCccccccHHHHHHHHHHCCCCEEEECChhHHHHHHHHcCCCccccCCccEEEEEeccCCC
Confidence 344555555 57999999999999999999999999999999999999999998 999999999998777766554333
Q ss_pred cCchHHHHHHHHhcCCccEEEEecc
Q 031196 83 PGSFYEKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 83 P~s~y~~I~~N~~~glHTlvLLDi~ 107 (164)
|....+.+..=++.+ .|+++|.-.
T Consensus 141 ~~~~~~~l~~~~~~~-~~~vi~~~~ 164 (229)
T TIGR01465 141 PMPEGEKLADLAKHG-ATMAIFLSA 164 (229)
T ss_pred CCCChHHHHHHhcCC-CeEEEECcH
Confidence 222233343333333 587877654
No 11
>PLN02625 uroporphyrin-III C-methyltransferase
Probab=99.70 E-value=2.7e-16 Score=132.20 Aligned_cols=102 Identities=22% Similarity=0.168 Sum_probs=78.1
Q ss_pred HHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCccc
Q 031196 6 ADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRP 83 (164)
Q Consensus 6 ~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P 83 (164)
.+.|.+.+. +++|+||+.|||++|+|+.+++.++++.|+++++||||||++++ |++|+++...+.+-++.|-+.++++
T Consensus 82 ~~~i~~~~~~g~~Vvvl~~GDP~~ys~~~~l~~~l~~~~~~veiiPGISS~~aaaA~lg~pl~~~~~~~~~~i~s~h~~~ 161 (263)
T PLN02625 82 HELLLSFAEAGKTVVRLKGGDPLVFGRGGEEMDALRKNGIPVTVVPGITAAIGAPAELGIPLTHRGVATSVRFLTGHDRE 161 (263)
T ss_pred HHHHHHHHHCCCeEEEEcCCCchhhhhHHHHHHHHHHCCCCEEEECCccHHHHHHHHcCCCcccCCccceEEEEecccCC
Confidence 344555544 68999999999999999999999999999999999999999998 9999999998865444444455555
Q ss_pred CchHH-HHHHHHhcCCccEEEEecc
Q 031196 84 GSFYE-KIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 84 ~s~y~-~I~~N~~~glHTlvLLDi~ 107 (164)
.+..+ ...+.+..+-+|+|+++-.
T Consensus 162 ~~~~~~~~~~~~~~~~~t~vl~~~~ 186 (263)
T PLN02625 162 GGTDPLDVAEAAADPDTTLVVYMGL 186 (263)
T ss_pred CcccchhhHHHHhCCCCeEEEECch
Confidence 44332 2234445555899999743
No 12
>PRK10637 cysG siroheme synthase; Provisional
Probab=99.68 E-value=3.6e-16 Score=140.90 Aligned_cols=99 Identities=20% Similarity=0.182 Sum_probs=80.3
Q ss_pred HHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcccC
Q 031196 7 DKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRPG 84 (164)
Q Consensus 7 ~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P~ 84 (164)
+.|.+.+. +++|+||+.|||++|+|+.+++.++.+.|+++++||||||++|+ |++|++++.++.+-++.+.+.++++.
T Consensus 284 ~~i~~~~~~G~~Vv~L~sGDP~~yg~~~~l~~~l~~~gi~vevVPGISS~~aAaA~~g~pl~~~~~~~~~~vis~h~~~~ 363 (457)
T PRK10637 284 QILLREAQKGKRVVRLKGGDPFIFGRGGEELETLCNAGIPFSVVPGITAASGCSAYSGIPLTHRDYAQSVRLVTGHLKTG 363 (457)
T ss_pred HHHHHHHhCCCEEEEEeCCCccccccHHHHHHHHHhCCCCEEEECCHhHHHHHHHHcCCCcccCCceeeEEEEeCccCCC
Confidence 44555555 57899999999999999999999999999999999999999998 99999999999755555556666665
Q ss_pred chHHHHHHHHhcCCccEEEEecc
Q 031196 85 SFYEKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 85 s~y~~I~~N~~~glHTlvLLDi~ 107 (164)
++++ ..++..+.||+||++-.
T Consensus 364 ~~~~--~~~l~~~~~t~Vl~~~~ 384 (457)
T PRK10637 364 GELD--WENLAAEKQTLVFYMGL 384 (457)
T ss_pred CccC--HHHHhCCCCeEEEECCH
Confidence 5443 25566677999986654
No 13
>PRK05991 precorrin-3B C17-methyltransferase; Provisional
Probab=99.62 E-value=5.3e-15 Score=123.58 Aligned_cols=122 Identities=18% Similarity=0.081 Sum_probs=85.6
Q ss_pred hcccCCeEEEecCCCCccccHHHHHHHHHh-----CCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcccCc
Q 031196 12 ESQESNVAFLVVGDPFGATTHTDLVVRAKK-----LGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRPGS 85 (164)
Q Consensus 12 ~a~~~~VafLt~GDP~~aTTH~~l~~ra~~-----~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P~s 85 (164)
.+++++|++|+.|||++|+||.++....++ .|+++++||||||++|+ |++|+++......+++ .. ..+
T Consensus 69 ~~~g~~Vv~l~~GDP~~~~~~~~l~~~~~~g~~~~~~~~v~vvPGISS~~aa~a~~g~p~~~~~~~~s~--~~----~~~ 142 (250)
T PRK05991 69 AAAGANVCVVSGGDPGVFAMAAAVCEAIENGPAAWRAVDLTIVPGVTAMLAVAARIGAPLGHDFCAISL--SD----NLK 142 (250)
T ss_pred HHCCCeEEEEeCCCchhhhhHHHHHHHHHhcccccCCceEEEECChHHHHHHHHHhCCCCCCCCEEeec--cc----CCC
Confidence 346789999999999999999888887764 46999999999999998 9999999655444443 21 124
Q ss_pred hHHHHHHHH----hcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCCCcceeeeecc
Q 031196 86 FYEKIKRNR----SLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKAHELKIILKQL 161 (164)
Q Consensus 86 ~y~~I~~N~----~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~~~~~~v~~~~ 161 (164)
+++.|++++ +.+.|++++++.+. .+.|.+.++.+.|.+. ...+..++|+.+|
T Consensus 143 ~~~~l~~~l~~~~~~~~~~vl~~~~~~-----------------~~p~~l~~~~~~L~~~-------~~~~~~v~v~~~l 198 (250)
T PRK05991 143 PWELIEKRLRLAAEAGFVIALYNPISR-----------------ARPWQLGEAFDLLREH-------LPATVPVIFGRAA 198 (250)
T ss_pred CHHHHHHHHHhhcCCCeEEEEECCccc-----------------cchhhHHHHHHHHHhc-------CCCCCEEEEEEeC
Confidence 455555554 44767777766652 2457888888887652 1123345666666
Q ss_pred cc
Q 031196 162 QT 163 (164)
Q Consensus 162 ~~ 163 (164)
+.
T Consensus 199 g~ 200 (250)
T PRK05991 199 GR 200 (250)
T ss_pred CC
Confidence 53
No 14
>PRK05990 precorrin-2 C(20)-methyltransferase; Reviewed
Probab=99.62 E-value=9.2e-15 Score=121.98 Aligned_cols=97 Identities=16% Similarity=0.215 Sum_probs=74.5
Q ss_pred hchHHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCC
Q 031196 3 EEKADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTET 80 (164)
Q Consensus 3 E~~~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~ 80 (164)
++.++.|.+.++ +++||||+.|||++|+|+.+++.+.+ .+++++|||||||++|+ |++|+++..-++++++.--.
T Consensus 85 ~~~~~~i~~~~~~G~~Vv~L~~GDP~iyst~~~l~~~l~-~~i~~evIPGISS~~aaaA~~gipL~~~~~~~~i~~~~-- 161 (241)
T PRK05990 85 DTSAEAVAAHLDAGRDVAVICEGDPFFYGSYMYLHDRLA-PRYETEVIPGVCSMLGCWSVLGAPLVYRNQSLSVLSGV-- 161 (241)
T ss_pred HHHHHHHHHHHHCCCeEEEEeCCCcHHHhHHHHHHHHHh-cCCCEEEECcHHHHHHHHHHhCCCeEcCCeEEEEEcCC--
Confidence 344566777776 58999999999999999999988774 48999999999999998 99999999888988883211
Q ss_pred cccCchHHHHHHHHhcCCccEEEEecc
Q 031196 81 WRPGSFYEKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 81 ~~P~s~y~~I~~N~~~glHTlvLLDi~ 107 (164)
.| -+.+...+... .+.|+|...
T Consensus 162 -~~---~~~l~~~l~~~-~~~vv~k~~ 183 (241)
T PRK05990 162 -LP---EEELRRRLADA-DAAVIMKLG 183 (241)
T ss_pred -CC---hHHHHHHHhCC-CCEEEEEeC
Confidence 12 23444444443 577888664
No 15
>PRK05576 cobalt-precorrin-2 C(20)-methyltransferase; Validated
Probab=99.62 E-value=1.2e-14 Score=119.48 Aligned_cols=95 Identities=27% Similarity=0.322 Sum_probs=75.7
Q ss_pred chHHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCc
Q 031196 4 EKADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETW 81 (164)
Q Consensus 4 ~~~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~ 81 (164)
+..+.|.+.+. +++||+|+.|||++|++|.+++.++++.|+++++||||||++|+ |++|+++...++.++|.-...
T Consensus 78 ~~~~~i~~~~~~g~~V~~l~~GDP~~y~~~~~l~~~~~~~~~~v~viPGiSs~~~a~a~~g~~l~~~~~~~~iis~~~-- 155 (229)
T PRK05576 78 ENAEEIAAEAEEGKNVAFITLGDPNLYSTFSHLLEYLKCHDIEVETVPGISSFTAIASRAGVPLAMGDESLAIIPATR-- 155 (229)
T ss_pred HHHHHHHHHHHcCCcEEEEeCcCccccccHHHHHHHHHhCCCCEEEeCChhHHHHHHHHcCCCcccCCceEEEEECCC--
Confidence 34445666555 57999999999999999999999998889999999999999998 999999998888666632111
Q ss_pred ccCchHHHHHHHHhcCCccEEEEec
Q 031196 82 RPGSFYEKIKRNRSLGLHTLCLLDI 106 (164)
Q Consensus 82 ~P~s~y~~I~~N~~~glHTlvLLDi 106 (164)
.+.+..-++.+ .|+|||..
T Consensus 156 -----~~~l~~~l~~~-~~~vl~~~ 174 (229)
T PRK05576 156 -----EALIEQALTDF-DSVVLMKV 174 (229)
T ss_pred -----HHHHHHHhhcC-CEEEEEec
Confidence 34455556555 89999964
No 16
>TIGR01467 cobI_cbiL precorrin-2 C20-methyltransferase. This model represents precorrin-2 C20-methyltransferase, one of several closely related S-adenosylmethionine-dependent methyltransferases involved in cobalamin (vitamin B12) biosynthesis.
Probab=99.61 E-value=2.1e-14 Score=117.69 Aligned_cols=94 Identities=27% Similarity=0.359 Sum_probs=74.0
Q ss_pred HHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCccc
Q 031196 6 ADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRP 83 (164)
Q Consensus 6 ~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P 83 (164)
.+.|.+.++ +++||+|+.|||++|+++.+++.++.+.|+++++|||+||++|+ |++|+++.+.+..+++.-... +
T Consensus 80 ~~~i~~~~~~g~~Vv~l~~GDP~~y~~~~~l~~~~~~~~~~veviPGiSs~~~a~a~~g~~l~~~~~~~~~~~~~~---~ 156 (230)
T TIGR01467 80 AEAVAAELEEGRDVAFLTLGDPSLYSTFSYLLQRLQGMGIEVEVVPGITSFAACASAAGLPLVEGDESLAILPATA---G 156 (230)
T ss_pred HHHHHHHHHCCCcEEEEeCCCCCcccCHHHHHHHHHHCCCcEEEeCChhHHHHHHHHhCCCcccCCceEEEEeCCC---C
Confidence 344666665 58999999999999999999999999889999999999999998 999999999888777632111 1
Q ss_pred CchHHHHHHHHhcCCccEEEEec
Q 031196 84 GSFYEKIKRNRSLGLHTLCLLDI 106 (164)
Q Consensus 84 ~s~y~~I~~N~~~glHTlvLLDi 106 (164)
-+.+.+.++.+ .|+++|.-
T Consensus 157 ---~~~~~~~~~~~-~~vvil~~ 175 (230)
T TIGR01467 157 ---EAELEKALAEF-DTVVLMKV 175 (230)
T ss_pred ---HHHHHHHhccC-CeEEEEec
Confidence 13345555555 78888854
No 17
>PRK05787 cobalt-precorrin-6Y C(5)-methyltransferase; Validated
Probab=99.59 E-value=2.2e-14 Score=115.02 Aligned_cols=93 Identities=19% Similarity=0.231 Sum_probs=67.2
Q ss_pred HHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcccCc
Q 031196 7 DKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRPGS 85 (164)
Q Consensus 7 ~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P~s 85 (164)
+.+...+++++|||++.|||++|+.+. ++.+....++++++|||+||++|+ |++|++++.+ ..+++.. ++..
T Consensus 59 ~~i~~~~~g~~V~~l~~GDP~~~~~~~-~~~~~~~~~~~veviPGiSs~~aaaa~~g~~l~~~---~~is~~~---~~~~ 131 (210)
T PRK05787 59 EWLELAAKGKNVVVLSTGDPLFSGLGK-LLKVRRAVAEDVEVIPGISSVQYAAARLGIDMNDV---VFTTSHG---RGPN 131 (210)
T ss_pred HHHHHhhCCCcEEEEecCCccccccHH-HHHHHhccCCCeEEEcCHHHHHHHHHHhCCCHHHc---EEEeecC---CCcc
Confidence 334344567999999999999999654 444455456999999999999998 9999999963 3455432 2323
Q ss_pred hHHHHHHHHhcCCccEEEEecc
Q 031196 86 FYEKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 86 ~y~~I~~N~~~glHTlvLLDi~ 107 (164)
+ +.++..++.+-++++|.|.+
T Consensus 132 ~-~~l~~~~~~~~~~v~l~~~~ 152 (210)
T PRK05787 132 F-EELEDLLKNGRKVIMLPDPR 152 (210)
T ss_pred h-HHHHHHHHcCCeEEEEcCCC
Confidence 3 56777777777777776554
No 18
>PRK05948 precorrin-2 methyltransferase; Provisional
Probab=99.59 E-value=7.9e-15 Score=123.06 Aligned_cols=98 Identities=17% Similarity=0.208 Sum_probs=77.6
Q ss_pred chHHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHh--CCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCC
Q 031196 4 EKADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKK--LGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTE 79 (164)
Q Consensus 4 ~~~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~--~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~ 79 (164)
+.++.+++.+. +++||||+.|||++|+|..++...+++ .|+++++||||||++|+ |++|.++...+++++|
T Consensus 80 ~~~~~i~~~~~~g~~v~~l~~GDp~~ys~~~~l~~~l~~~~~~~~veivPGIss~~a~aa~~g~pL~~~~e~l~i----- 154 (238)
T PRK05948 80 AAADQVWHYLEQGEDVAFACEGDVSFYSTFTYLAQTLQELYPQVAIQTIPGVCSPLAAAAALGIPLTLGSQRLAI----- 154 (238)
T ss_pred HHHHHHHHHHHcCCeEEEEeCCChHHHHHHHHHHHHHHhcCCCCCEEEECChhHHHHHHHHhCCCeecCCCeEEE-----
Confidence 34566676665 589999999999999999999998877 49999999999999998 9999999999999988
Q ss_pred CcccCc-hHHHHHHHHhcCCccEEEEecccC
Q 031196 80 TWRPGS-FYEKIKRNRSLGLHTLCLLDIRVK 109 (164)
Q Consensus 80 ~~~P~s-~y~~I~~N~~~glHTlvLLDi~~~ 109 (164)
.|.+ ..+.+++-++. -.|+|+|+....
T Consensus 155 --i~~~~~~~~l~~~l~~-~~~vVlmk~~~~ 182 (238)
T PRK05948 155 --LPALYHLEELEQALTW-ADVVVLMKVSSV 182 (238)
T ss_pred --EcCCCCHHHHHHHHhC-CCEEEEEECCcc
Confidence 2322 22344433333 379999998743
No 19
>TIGR02434 CobF precorrin-6A synthase (deacetylating). This model identifies CobF in High GC gram positive, alphaproteobacteria and pseudomonas-related species.
Probab=99.52 E-value=4e-14 Score=119.71 Aligned_cols=95 Identities=22% Similarity=0.259 Sum_probs=73.7
Q ss_pred hHHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHh---CCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCC
Q 031196 5 KADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKK---LGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTE 79 (164)
Q Consensus 5 ~~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~---~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~ 79 (164)
.++.|.+.++ +++||||+.|||++|+|+.+++.+.++ .|+++++||||||++|+ |++|+++...++.+.+..
T Consensus 91 ~a~~i~~~~~~g~~Vv~L~~GDP~~yst~~~l~~~l~~~~~~~~~vevVPGISS~~aaaA~lg~pl~~~~~~l~v~~--- 167 (249)
T TIGR02434 91 WAQAIAEELGDDGTGAFLVWGDPSLYDSTLRILERLRALGGVPFDYEVIPGITSVQALTARHRIPLNRIGEPVQITT--- 167 (249)
T ss_pred HHHHHHHHHhCCCcEEEEeCCCchHhhhHHHHHHHHHHhcCCCCCEEEECCHHHHHHHHHHhCCCcccCCceEEEEe---
Confidence 3455667565 589999999999999999999998876 57999999999999998 999999999999888742
Q ss_pred CcccCchHHHHHHHHhcCCccEEEEecccC
Q 031196 80 TWRPGSFYEKIKRNRSLGLHTLCLLDIRVK 109 (164)
Q Consensus 80 ~~~P~s~y~~I~~N~~~glHTlvLLDi~~~ 109 (164)
....+. ..+..+ .++++|.....
T Consensus 168 ----g~~l~~--~~l~~~-~~~vilk~~~~ 190 (249)
T TIGR02434 168 ----GRRLAE--GGFPEG-DTVVVMLDGEQ 190 (249)
T ss_pred ----ccchhh--ccccCC-CeEEEEECCcc
Confidence 111111 123433 67888886543
No 20
>PRK08284 precorrin 6A synthase; Provisional
Probab=99.51 E-value=8.5e-14 Score=117.94 Aligned_cols=92 Identities=21% Similarity=0.285 Sum_probs=72.6
Q ss_pred HHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHh---CCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCc
Q 031196 7 DKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKK---LGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETW 81 (164)
Q Consensus 7 ~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~---~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~ 81 (164)
+.|.+.+. +++|+||+.|||++|+|+.+++.+.++ +|+++++||||||++|+ |++|+++..+++++.|.
T Consensus 94 ~~i~~~l~~g~~Vv~l~~GDP~~ys~~~~l~~~l~~~~~~~i~vevVPGISS~~aaaA~lg~pl~~~~~~l~ii------ 167 (253)
T PRK08284 94 RLIAEELPDGGTGAFLVWGDPSLYDSTLRILERVRARGRVAFDYEVIPGITSVQALAARHRIPLNRIGEPVHIT------ 167 (253)
T ss_pred HHHHHHHhCCCcEEEEeCCCcchhhHHHHHHHHHHhhccCCCcEEEECChhHHHHHHHHcCCChhcCCceEEEE------
Confidence 44666666 589999999999999999999998876 49999999999999998 99999999999999884
Q ss_pred ccCchHHHHHHHHhcCCccEEEEeccc
Q 031196 82 RPGSFYEKIKRNRSLGLHTLCLLDIRV 108 (164)
Q Consensus 82 ~P~s~y~~I~~N~~~glHTlvLLDi~~ 108 (164)
|... +...+...-.|+|+|....
T Consensus 168 -~g~~---l~~~l~~~~~~vvv~k~~~ 190 (253)
T PRK08284 168 -TGRR---LAEGWPAGVDNVVVMLDGE 190 (253)
T ss_pred -ecCc---hHHHHHhcCCcEEEEECCc
Confidence 2221 1222222336888888754
No 21
>PRK15473 cbiF cobalt-precorrin-4 C(11)-methyltransferase; Provisional
Probab=99.48 E-value=7.5e-13 Score=111.05 Aligned_cols=100 Identities=14% Similarity=0.073 Sum_probs=71.1
Q ss_pred HHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceec--CceEEEecCCCCc
Q 031196 6 ADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRF--GETVSIPFFTETW 81 (164)
Q Consensus 6 ~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~f--g~~vtIpf~~~~~ 81 (164)
.+.|.+.++ +++||+|+.|||++|++..+++.++.+.|+++++||||||++++ |++|+++-.. .+.+.+.-.. +.
T Consensus 70 ~~~i~~~~~~g~~Vv~L~sGDP~~yg~~~~l~~~l~~~~i~veiiPGISS~~aaaA~lg~pl~~~~~~~~~~v~s~h-G~ 148 (257)
T PRK15473 70 IDLMEAGVKAGKTVVRLQTGDVSLYGSIREQGEELTKRGIDFQVVPGVSSFLGAAAELGVEYTVPEVSQSLIITRME-GR 148 (257)
T ss_pred HHHHHHHHHCCCeEEEEeCcCchhhhhHHHHHHHHHHCCCCEEEeCChhHHHHHHHHcCCCcccccccccEEEEeec-CC
Confidence 344445444 58999999999999999999999999999999999999999998 9999998732 3455543222 22
Q ss_pred ccCchHHHHHHHHhcCCccEEEEecc
Q 031196 82 RPGSFYEKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 82 ~P~s~y~~I~~N~~~glHTlvLLDi~ 107 (164)
.|....+.+.. +...-.|+|++...
T Consensus 149 ~~~~~~~~l~~-~~~~~~t~vi~~~~ 173 (257)
T PRK15473 149 TPVPAREQLES-FASHQTSMAIFLSV 173 (257)
T ss_pred CCCCchhhHHH-HhcCCCeEEEECCc
Confidence 23222233433 33332699999744
No 22
>PRK14994 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional
Probab=99.46 E-value=4.6e-13 Score=115.46 Aligned_cols=107 Identities=22% Similarity=0.296 Sum_probs=79.8
Q ss_pred hchHHHHHhhcc-cCCeEEEe-cCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCC
Q 031196 3 EEKADKILSESQ-ESNVAFLV-VGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTE 79 (164)
Q Consensus 3 E~~~~~I~~~a~-~~~VafLt-~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~ 79 (164)
++.++.|++.++ +++|||++ .|||++|+|+.+|+.++++.|++|++|||+|+++|+ +.+|++..+ +. -.
T Consensus 71 ~~~~~~i~~~l~~G~~ValvSdaGdP~I~dpg~~Lv~~~~~~gi~v~vIPGiSA~~aA~a~sG~~~~~----f~----f~ 142 (287)
T PRK14994 71 QQKAETLLAKLQEGQNIALVSDAGTPLINDPGYHLVRTCREAGIRVVPLPGPCAAITALSAAGLPSDR----FC----YE 142 (287)
T ss_pred HHHHHHHHHHHHCCCeEEEEccCCCCceeCCHHHHHHHHHHCCCCEEEeCCHHHHHHHHHHcCCCCCc----ce----Ee
Confidence 355677888777 58999998 999999999999999999999999999999999998 999999433 21 12
Q ss_pred CcccCch---HHHHHHHHhcCCccEEEEec-ccCCchhhhhhc
Q 031196 80 TWRPGSF---YEKIKRNRSLGLHTLCLLDI-RVKEPSLESLCR 118 (164)
Q Consensus 80 ~~~P~s~---y~~I~~N~~~glHTlvLLDi-~~~e~~~e~~~~ 118 (164)
++.|... -+.+++-+.. -.|+|+++. ..-.+.++.+.+
T Consensus 143 Gflp~~~~~r~~~L~~l~~~-~~t~V~yesp~R~~~~l~~l~~ 184 (287)
T PRK14994 143 GFLPAKSKGRRDALKALEAE-PRTLIFYESTHRLLDSLEDIVA 184 (287)
T ss_pred EECCCCCchHHHHHHHHhcC-CCeEEEEEEChhHHHHHHHHHH
Confidence 3345322 3344444433 389999996 655555666543
No 23
>TIGR01466 cobJ_cbiH precorrin-3B C17-methyltransferase. This model represents precorrin-3B C17-methyltransferase, one of two methyltransferases commonly referred to as precorrin-3 methylase (the other is precorrin-4 C11-methyltransferase, EC 2.1.1.133). This enzyme participates in the pathway toward the biosynthesis of cobalamin and related products. Members of this family may appear as fusion proteins with other enzymes of cobalamin biosynthesis.
Probab=99.44 E-value=3.4e-12 Score=104.99 Aligned_cols=127 Identities=18% Similarity=0.181 Sum_probs=81.9
Q ss_pred HHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCC--CcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcc
Q 031196 7 DKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLG--IQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWR 82 (164)
Q Consensus 7 ~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~g--i~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~ 82 (164)
+.+++.+. +++|++|+.|||++|++..++....++.+ +++++|||+||++|+ |++|+++..-.. .+++... ..
T Consensus 60 ~~~~~~~~~g~~Vv~l~~GDP~~~~~~~~l~~~l~~~~~~~~v~viPGiSS~~aa~a~~g~p~~~~~~--~is~~~~-~~ 136 (239)
T TIGR01466 60 ELAIELAAEGRTVALVSSGDPGIYGMAALVFEALEKKGAEVDIEVIPGITAASAAASLLGAPLGHDFC--VISLSDL-LT 136 (239)
T ss_pred HHHHHHHhCCCCEEEEecCCCcccccHHHHHHHHHhcCCCCCEEEeCCccHHHHHHHHcCCCcccccE--EEECCCC-CC
Confidence 34555444 58999999999999999888888877765 699999999999998 999999954323 3443211 12
Q ss_pred cCchHHHHHHHH----hcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCCCcceeee
Q 031196 83 PGSFYEKIKRNR----SLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKAHELKIIL 158 (164)
Q Consensus 83 P~s~y~~I~~N~----~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~~~~~~v~ 158 (164)
| ++.+.+++ +.+ -+++|++-..+ .|.+++++.++.|.+. ...+...+|+
T Consensus 137 ~---~~~~~~~l~~~~~~~-~~~vl~~~~~~----------------~~~~~~~~i~~~L~~~-------~~~~~~v~v~ 189 (239)
T TIGR01466 137 P---WPEIEKRLRAAAEAD-FVIAIYNPRSK----------------RRPEQFRRAMEILLEH-------RKPDTPVGIV 189 (239)
T ss_pred C---chHHHHHHHHHhCCC-cEEEEECCccc----------------chhhhHHHHHHHHHhc-------CCCCCEEEEE
Confidence 2 33333333 334 34666654322 2457778877777641 1112335577
Q ss_pred ecccc
Q 031196 159 KQLQT 163 (164)
Q Consensus 159 ~~~~~ 163 (164)
.+++.
T Consensus 190 ~~l~~ 194 (239)
T TIGR01466 190 RNAGR 194 (239)
T ss_pred EECCC
Confidence 77664
No 24
>TIGR02467 CbiE precorrin-6y C5,15-methyltransferase (decarboxylating), CbiE subunit. This model recognizes the CbiE methylase which is responsible, in part (along with CbiT), for methylating precorrin-6y (or cobalt-precorrin-6y) at both the 5 and 15 positions as well as the concomitant decarbozylation at C-12. In many organisms, this protein is fused to the CbiT subunit. The fused protein, when found in organisms catalyzing the oxidative version of the cobalamin biosynthesis pathway, is called CobL.
Probab=99.38 E-value=6.9e-12 Score=101.24 Aligned_cols=62 Identities=23% Similarity=0.243 Sum_probs=51.4
Q ss_pred hchHHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcce
Q 031196 3 EEKADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLY 66 (164)
Q Consensus 3 E~~~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly 66 (164)
|+..+.|.+.+.+++|++|+.|||++|++..++..++.+ .++++|||+||++|+ |++|+++-
T Consensus 54 ~~~~~~i~~~~~g~~vv~l~~GDP~~~~~~~~l~~~~~~--~~v~iiPGiSs~~~a~a~~g~~l~ 116 (204)
T TIGR02467 54 DELLEFIAATRKEKRVVVLASGDPLFYGIGRTLAERLGK--ERLEIIPGISSVQYAFARLGLPWQ 116 (204)
T ss_pred HHHHHHHHHhcCCCCEEEEecCCCcccccHHHHHHhCCC--CcEEEeCChHHHHHHHHHcCCChh
Confidence 344555666655789999999999999998887766654 589999999999998 99999995
No 25
>PRK05765 precorrin-3B C17-methyltransferase; Provisional
Probab=99.27 E-value=7.2e-11 Score=98.76 Aligned_cols=94 Identities=14% Similarity=0.112 Sum_probs=66.5
Q ss_pred HHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCC--cEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcc
Q 031196 7 DKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGI--QVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWR 82 (164)
Q Consensus 7 ~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi--~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~ 82 (164)
+.+++.++ +++|++|+.|||++|++...++..+++.|+ ++++|||+||++|+ |++|+++-..-..++. .+...
T Consensus 63 ~~~i~~~~~g~~Vv~l~~GDP~i~~~~~~~~~~l~~~~~~~~veviPGiSs~~aa~a~~g~pl~~~~~~~s~---~~~~~ 139 (246)
T PRK05765 63 NTAIEKALEGNIVALVSSGDPQVYGMAGLVFELISRRKLDVDVEVIPGVTAALAAAARLGSPLSLDFVVISL---SDLLI 139 (246)
T ss_pred HHHHHHHHCCCcEEEEeCCCchhhhhHHHHHHHHHhcCCCCCEEEeCCHHHHHHHHHHhCCCCcCCcEEEEc---CCCCC
Confidence 34666665 689999999999999998999998888876 79999999999998 9999998532233333 22233
Q ss_pred cCchHHHHHHH---HhcCCccEEEEec
Q 031196 83 PGSFYEKIKRN---RSLGLHTLCLLDI 106 (164)
Q Consensus 83 P~s~y~~I~~N---~~~glHTlvLLDi 106 (164)
|. +.+..+ +...-.|+++.+-
T Consensus 140 p~---~~~~~~l~~~~~~~~~ivly~~ 163 (246)
T PRK05765 140 PR---EEILHRVTKAAEADFVIVFYNP 163 (246)
T ss_pred Ch---HHHHHHHHHHhcCCeEEEEEcc
Confidence 42 122222 2344477777664
No 26
>PRK07168 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed
Probab=99.23 E-value=1.1e-10 Score=106.66 Aligned_cols=98 Identities=14% Similarity=0.022 Sum_probs=71.8
Q ss_pred HHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcccCc
Q 031196 8 KILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRPGS 85 (164)
Q Consensus 8 ~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P~s 85 (164)
.+++.++ +++|++|..|||++|.+..+++..+.+.|+++++||||||++|+ +++|+|+..-|.+-++.+-+.+-++..
T Consensus 72 ~l~~~a~~Gk~VvrL~~GDP~vfg~~~ee~~~l~~~gi~~eVVPGISS~~aaaA~aGiPlt~r~~~~s~~viT~h~~~~~ 151 (474)
T PRK07168 72 HLLQFAKEGKIVVRLKGGDPSIFGRVGEEAETLAAANIPYEIVPGITSSIAASSYAGIPLTHRNYSNSVTLLTGHAKGPL 151 (474)
T ss_pred HHHHHHhCCCEEEEEeCCCchHHhhHHHHHHHHHhCCCCEEEECChhHHHHHHHHcCCCCCCccccceEEEEccCcCCcc
Confidence 3556655 58899999999999999999999999999999999999999998 999999988777555555443322210
Q ss_pred hHHHH-HHHHhcCCccEEEEecc
Q 031196 86 FYEKI-KRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 86 ~y~~I-~~N~~~glHTlvLLDi~ 107 (164)
.+.. ...+..+ .|||+|--.
T Consensus 152 -~~~~~~~~l~~~-~tlV~lm~~ 172 (474)
T PRK07168 152 -TDHGKYNSSHNS-DTIAYYMGI 172 (474)
T ss_pred -ccchhHHHhcCC-CeEEEEcCh
Confidence 0111 1123332 588888543
No 27
>PRK15478 cbiH cobalt-precorrin-3B C(17)-methyltransferase; Provisional
Probab=99.14 E-value=8.2e-10 Score=92.60 Aligned_cols=61 Identities=18% Similarity=0.166 Sum_probs=50.6
Q ss_pred HHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCC--CcEEEEcCccHHHHH-HhhCCccee
Q 031196 7 DKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLG--IQVKAVHNASVMNAV-GICGLQLYR 67 (164)
Q Consensus 7 ~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~g--i~vevIpGiSs~~A~-s~~GL~ly~ 67 (164)
+.+++.++ +++|++|..|||++|.....+.....+.| +++++|||+||++|+ |++|+++..
T Consensus 61 ~~~i~~~~~g~~Vv~L~sGDP~~~g~~~~~~~~l~~~~~~~~veviPGiSs~~aaaa~~g~plt~ 125 (241)
T PRK15478 61 QAAIELAQAGHNVALISSGDAGIYGMAGLVLELVSKQKLDVEVRLIPGMTASIAAASLLGAPLMH 125 (241)
T ss_pred HHHHHHHHCCCeEEEEECCCCCcchhHHHHHHHHHhcCCCCcEEEeCCHHHHHHHHHHhCCCccc
Confidence 34566665 58999999999999998777777766554 679999999999998 999999943
No 28
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=98.83 E-value=8.4e-08 Score=80.09 Aligned_cols=88 Identities=24% Similarity=0.307 Sum_probs=58.8
Q ss_pred HHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcccC
Q 031196 6 ADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRPG 84 (164)
Q Consensus 6 ~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P~ 84 (164)
.+.|.++-++++|++|..|||++|-- ....+.+-.--++++|||+||++++ |++|.++.... .+|. +-+|
T Consensus 59 l~~i~~~~~g~~v~VLasGDP~f~G~--g~~l~~~~~~~~v~iIPgiSS~q~a~ARlg~~~~~~~-~isl-----Hgr~- 129 (210)
T COG2241 59 LEEILAERKGRDVVVLASGDPLFSGV--GRLLRRKFSCEEVEIIPGISSVQLAAARLGWPLQDTE-VISL-----HGRP- 129 (210)
T ss_pred HHHHHHHhCCCCeEEEecCCcchhhh--HHHHHHhcCccceEEecChhHHHHHHHHhCCChHHeE-EEEe-----cCCC-
Confidence 45577666689999999999999972 2222222212689999999999988 99999998553 3333 1233
Q ss_pred chHHHHHHHHhcCCccEEEEe
Q 031196 85 SFYEKIKRNRSLGLHTLCLLD 105 (164)
Q Consensus 85 s~y~~I~~N~~~glHTlvLLD 105 (164)
.+.++.-+..| |.++++-
T Consensus 130 --~~~l~~~~~~~-~~~vil~ 147 (210)
T COG2241 130 --VELLRPLLENG-RRLVILT 147 (210)
T ss_pred --HHHHHHHHhCC-ceEEEeC
Confidence 45554434444 6666654
No 29
>COG2875 CobM Precorrin-4 methylase [Coenzyme metabolism]
Probab=98.82 E-value=6.3e-08 Score=82.56 Aligned_cols=105 Identities=22% Similarity=0.241 Sum_probs=76.8
Q ss_pred hhchHHHHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecC--ceEEEecC
Q 031196 2 VEEKADKILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFG--ETVSIPFF 77 (164)
Q Consensus 2 vE~~~~~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg--~~vtIpf~ 77 (164)
+|+..+.+.+..+ +|+||=|-.|||.+|.....-+.+..+.||++++|||+|+|.|+ +.+|..+..=| +++.+.-+
T Consensus 61 LeeIi~~m~~a~~~Gk~VvRLhSGDpsiYgA~~EQm~~L~~~gI~yevvPGVss~~AAAA~L~~ELT~P~vsQtvilTR~ 140 (254)
T COG2875 61 LEEIIDLMVDAVREGKDVVRLHSGDPSIYGALAEQMRELEALGIPYEVVPGVSSFAAAAAALGIELTVPGVSQTVILTRP 140 (254)
T ss_pred HHHHHHHHHHHHHcCCeEEEeecCChhHHHHHHHHHHHHHHcCCCeEEeCCchHHHHHHHHhCceeecCCcceeEEEEcc
Confidence 3555555555555 59999999999999999999999999999999999999999997 88998877655 44444443
Q ss_pred CCCcccCchHHHHHHHHhcCCccEEEEecc
Q 031196 78 TETWRPGSFYEKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 78 ~~~~~P~s~y~~I~~N~~~glHTlvLLDi~ 107 (164)
... .|...-+.+.+=.+.|.-..++|-+.
T Consensus 141 sgr-t~vpe~e~l~~la~~~aTm~I~L~v~ 169 (254)
T COG2875 141 SGR-TPVPEKESLAALAKHGATMVIFLGVH 169 (254)
T ss_pred ccC-CCCCchhHHHHHHhcCceeEeeehhh
Confidence 332 34445777777667773333344443
No 30
>COG1010 CobJ Precorrin-3B methylase [Coenzyme metabolism]
Probab=98.80 E-value=5.9e-08 Score=82.67 Aligned_cols=114 Identities=21% Similarity=0.205 Sum_probs=80.0
Q ss_pred hHHHHHhhccc-CCeEEEecCCCCccccHHHHHHHHHhC---CCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCC
Q 031196 5 KADKILSESQE-SNVAFLVVGDPFGATTHTDLVVRAKKL---GIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTE 79 (164)
Q Consensus 5 ~~~~I~~~a~~-~~VafLt~GDP~~aTTH~~l~~ra~~~---gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~ 79 (164)
.+++-++.|++ ++||++..|||-+|.=-.-.+..+.+. +++|+||||+|..+|+ |++|=||-.-==++|+ ++
T Consensus 61 Ra~~AielA~~G~~ValVSsGDpgVYgMA~lv~E~~~~~~~~~v~veVvPGvTA~~aaAa~lGAPL~hDF~~ISL---SD 137 (249)
T COG1010 61 RAKEAIELAAEGRDVALVSSGDPGVYGMAGLVLEAAEEEGWYDVDVEVVPGVTAALAAAARLGAPLGHDFCVISL---SD 137 (249)
T ss_pred HHHHHHHHHhcCCeEEEEeCCCccHHHhHHHHHHHHHhcCCCCccEEEeCChHHHHHHHHHhCCCcccceEEEEh---Hh
Confidence 34556777885 899999999999996433333434444 4999999999999998 9999999765556666 77
Q ss_pred CcccCchHHHHHHHH----hcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHH
Q 031196 80 TWRPGSFYEKIKRNR----SLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEV 141 (164)
Q Consensus 80 ~~~P~s~y~~I~~N~----~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~ 141 (164)
.+.| ++.|++-+ +.+ -.++|-....+. |-=...+|+++|++.
T Consensus 138 lLtP---we~IekRl~aAA~ad-fVi~~YNP~s~~----------------R~~~~~~a~eil~~~ 183 (249)
T COG1010 138 LLTP---WEVIEKRLRAAAEAD-FVIALYNPISKR----------------RPEQLGRAFEILREH 183 (249)
T ss_pred cCCc---HHHHHHHHHHHhhCC-EEEEEECCcccc----------------chHHHHHHHHHHHHh
Confidence 8888 77776643 334 234444444332 223567899999884
No 31
>COG0007 CysG Uroporphyrinogen-III methylase [Coenzyme metabolism]
Probab=98.70 E-value=1.8e-07 Score=79.72 Aligned_cols=94 Identities=21% Similarity=0.218 Sum_probs=73.1
Q ss_pred HHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcccCc
Q 031196 8 KILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRPGS 85 (164)
Q Consensus 8 ~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P~s 85 (164)
-+.+.|+ ++.|+=|-.|||+++-==..-...+.+.||++|||||+||..|+ +..|+|+..=|-+-++.|-+.+-.+..
T Consensus 73 ~lv~~a~~G~~VVRLKgGDP~iFGRggEE~~~l~~~gI~~eVVPGiTSa~a~~a~agIPlT~R~~a~s~~~vTgh~~~~~ 152 (244)
T COG0007 73 LLVELAREGKRVVRLKGGDPYIFGRGGEEIEALAEAGIEFEVVPGITSAIAAPAYAGIPLTHRGVASSFTFVTGHDRDGK 152 (244)
T ss_pred HHHHHHhcCCeEEEecCCCCCeecCcHHHHHHHHHcCCceEEeCccchHHHHHHHcCCceeecCccceEEEEeCcCCCCC
Confidence 3556676 48999999999999965566777788999999999999999999 999999998887777777776655544
Q ss_pred hHHHHHHHHhcCCccEEEE
Q 031196 86 FYEKIKRNRSLGLHTLCLL 104 (164)
Q Consensus 86 ~y~~I~~N~~~glHTlvLL 104 (164)
.-.+++...--|||++
T Consensus 153 ---~~w~~la~~~~TlVi~ 168 (244)
T COG0007 153 ---LDWEALARSVGTLVIL 168 (244)
T ss_pred ---cChHHhcccCCCEEEE
Confidence 1124455556788764
No 32
>COG0313 Predicted methyltransferases [General function prediction only]
Probab=97.79 E-value=5.1e-05 Score=65.88 Aligned_cols=65 Identities=28% Similarity=0.413 Sum_probs=55.4
Q ss_pred chHHHHHhhccc-CCeEEEe-cCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceec
Q 031196 4 EKADKILSESQE-SNVAFLV-VGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRF 68 (164)
Q Consensus 4 ~~~~~I~~~a~~-~~VafLt-~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~f 68 (164)
+....|++..++ ++||++. .|-|.++.-=..|+.+|++.||+|++|||+|++..+ +.+|++-.+|
T Consensus 65 ~~~~~li~~l~~g~~valVSDAG~P~ISDPG~~LV~~a~~~gi~V~~lPG~sA~~tAL~~SGl~~~~F 132 (275)
T COG0313 65 EKLPKLIPLLKKGKSVALVSDAGTPLISDPGYELVRAAREAGIRVVPLPGPSALITALSASGLPSQRF 132 (275)
T ss_pred HHHHHHHHHHhcCCeEEEEecCCCCcccCccHHHHHHHHHcCCcEEecCCccHHHHHHHHcCCCCCCe
Confidence 344567777775 5999994 699999988899999999999999999999999776 9999987755
No 33
>TIGR00096 probable S-adenosylmethionine-dependent methyltransferase, YraL family. No member of this family is characterized, but Pfam model pfam00590 (tetrapyrrole methylase) demonstrates homology between this family and its other members, which include several methylases for the tetrapyrrole class of compound, as well as the enzyme diphthine synthase.
Probab=97.67 E-value=0.00021 Score=61.83 Aligned_cols=126 Identities=19% Similarity=0.192 Sum_probs=84.2
Q ss_pred HHHHHhhcc-cCCeEEEe-cCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcc
Q 031196 6 ADKILSESQ-ESNVAFLV-VGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWR 82 (164)
Q Consensus 6 ~~~I~~~a~-~~~VafLt-~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~ 82 (164)
...+++..+ +++||+++ .|-|.++.==..|+..|++.|+.|.++||+|+++++ +.+|++-.+ |+-.+|.
T Consensus 62 ~~~l~~~l~~g~~valvSDAG~P~ISDPG~~LV~~~~~~~i~v~~ipG~sA~~~Al~~SG~~~~~--------f~F~GFl 133 (276)
T TIGR00096 62 QNLLAAKLEIGNNIAVSSDAGPPLISDPGHLLVACREKANIIVVPLPGAAALTAALCASGPATDR--------FFFGGFL 133 (276)
T ss_pred HHHHHHHHHcCCcEEEEecCCCCCcCCccHHHHHHHHHCCCeEEcCChHHHHHHHHHhcCCCCCc--------eEEeeeC
Confidence 345666555 58899995 599999988899999999999999999999999988 999986542 3334555
Q ss_pred cCch--HHHHHHHHhcCCccEEEEecccCCch-hhhhhc--C-C---------ccCCCCCCCCHHHHHHHHH
Q 031196 83 PGSF--YEKIKRNRSLGLHTLCLLDIRVKEPS-LESLCR--G-K---------KLYEPPRYMTVNIAIEQLL 139 (164)
Q Consensus 83 P~s~--y~~I~~N~~~glHTlvLLDi~~~e~~-~e~~~~--g-~---------~~~~~~r~Mt~~~A~~~Ll 139 (164)
|... -..+.+.+...-+|+++..---.-.+ ++.|.. | + |.||-=.+-++.+.++.+-
T Consensus 134 p~k~~~r~~~l~~l~~~~~t~ifyEsp~Rl~~~L~~l~~~~g~r~i~~arELTK~~E~~~~g~~~e~~~~~~ 205 (276)
T TIGR00096 134 PKKSKRRQALKAYIAEERTTVFFYESHHRLLTTLTDLNVFLGSERFVGAAELTKKESEYWFGTVGQLLPDIT 205 (276)
T ss_pred CCChHHHHHHHHHHhCCCCeEEEEECcHhHHHHHHHHHHhcCCceEEEEEecCCCceEEEeCCHHHHHHHHH
Confidence 6533 33444555556688888776533222 222211 1 1 2333334567777777763
No 34
>COG3956 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]
Probab=97.11 E-value=0.0012 Score=59.88 Aligned_cols=66 Identities=20% Similarity=0.303 Sum_probs=55.5
Q ss_pred HHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhC-CCcEEEEcCccHHHHH-HhhCCcceecCce
Q 031196 6 ADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKL-GIQVKAVHNASVMNAV-GICGLQLYRFGET 71 (164)
Q Consensus 6 ~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~-gi~vevIpGiSs~~A~-s~~GL~ly~fg~~ 71 (164)
+..+++.|+++|++..+||-|++|-+-..|+.+|.++ +|+|++++|.|=+-|. ..+.++-.++=+.
T Consensus 73 ~~~LveaAkekdIvYAVPGHP~VAEktVqlL~e~~ek~ni~Vkilgg~SFiD~~fealkiDPveG~q~ 140 (488)
T COG3956 73 AADLVEAAKEKDIVYAVPGHPLVAEKTVQLLIEACEKENIKVKILGGQSFIDALFEALKIDPVEGFQI 140 (488)
T ss_pred HHHHHHhhcccceEEecCCCchhHHHHHHHHHHHHhccCceEEEeCcchhHHHHHHHhcCCcccCceE
Confidence 4557788999999999999999997778888887766 7999999999999997 8888776654433
No 35
>KOG1527 consensus Uroporphyrin III methyltransferase [Coenzyme transport and metabolism]
Probab=95.04 E-value=0.041 Score=50.32 Aligned_cols=69 Identities=17% Similarity=0.168 Sum_probs=54.3
Q ss_pred hhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCC
Q 031196 11 SESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTE 79 (164)
Q Consensus 11 ~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~ 79 (164)
+.+. +-.|+=|--|||+++----.-..-.++.|+...|||||||-.++ ...|+|+..=|=.-.+-|-+.
T Consensus 328 ~~l~~G~~VVRLKqGDPyifGRGGEE~~Ff~qhGy~p~ViPGIssal~~~~~agIP~ThRgvAdqvl~cTG 398 (506)
T KOG1527|consen 328 NFLEAGATVVRLKQGDPYIFGRGGEEMDFFQQHGYRPQVIPGISSALGIAAEAGIPLTHRGVADQVLFCTG 398 (506)
T ss_pred HHHhCCCEEEEecCCCceeecCCchhhhhHHhCCceeEeccchhhhhhhhHhcCCCcccccccceEEEEec
Confidence 3344 46788899999999965555556678999999999999999988 899999998776655555443
No 36
>PRK15062 hydrogenase isoenzymes formation protein HypD; Provisional
Probab=87.42 E-value=4 Score=37.16 Aligned_cols=122 Identities=19% Similarity=0.208 Sum_probs=81.6
Q ss_pred chHHHHHhhcccCCeEEEecCCCCcc-ccHHHHHHHHHhCCCcEEEEcCccHHHHH--HhhCCcceecCceEEEecCCCC
Q 031196 4 EKADKILSESQESNVAFLVVGDPFGA-TTHTDLVVRAKKLGIQVKAVHNASVMNAV--GICGLQLYRFGETVSIPFFTET 80 (164)
Q Consensus 4 ~~~~~I~~~a~~~~VafLt~GDP~~a-TTH~~l~~ra~~~gi~vevIpGiSs~~A~--s~~GL~ly~fg~~vtIpf~~~~ 80 (164)
+..|..++.|...+|.+.|-||=|-- .|+.+ +..|+..|-+|++|- |.+-|+ ++-+ ..-.|.|+--+
T Consensus 70 ~~ID~ai~La~~~~vi~~TfGDmlRVPGs~~S-L~~ara~GadVriVY--SpldAl~iA~~n-------P~k~vVF~avG 139 (364)
T PRK15062 70 GRIDAAIELASRPGVILCTFGDMLRVPGSKGS-LLEAKAEGADVRIVY--SPLDALKIAREN-------PDKEVVFFAIG 139 (364)
T ss_pred HHHHHHHHHhCCCCeEEEeccccccCCCCcCC-HHHHHhCCCCEEEEe--CHHHHHHHHHHC-------CCCeEEEEecC
Confidence 45678889999999999999997754 44444 456888999999995 445554 4433 34466777766
Q ss_pred cccCch--HHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCCCccee
Q 031196 81 WRPGSF--YEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKAHELKI 156 (164)
Q Consensus 81 ~~P~s~--y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~~~~~~ 156 (164)
|--+.| --.|++-.+.+++.+.+|--. -+..-|++.||+-.+.+=.|.+.+.-.+
T Consensus 140 FETTaP~~A~~i~~A~~~~~~Nfsvl~~h---------------------kl~PPa~~~ll~~~~~~idgfi~PGHVs 196 (364)
T PRK15062 140 FETTAPATAATLLQAKAEGLKNFSVLSSH---------------------KLVPPAMRALLEDPELRIDGFIAPGHVS 196 (364)
T ss_pred chhccHHHHHHHHHHHHcCCCCEEEEEec---------------------cccHHHHHHHHcCCCCCccEEEecCEeE
Confidence 654444 345666667788888887664 2445688888865444444555554443
No 37
>PF01924 HypD: Hydrogenase formation hypA family; InterPro: IPR002780 HypD is involved in the hyp operon which is needed for the activity of the three hydrogenase isoenzymes in Escherichia coli. HypD is one of the genes needed for formation of these enzymes []. This protein has been found in Gram-negative and Gram-positive bacteria and Archaea. HypD contains many possible metal binding residues, which may bind to nickel. Transposon insertions into HypD resulted in Rhizobium leguminosarum mutants that lacked any hydrogenase activity in symbiosis with peas [].; GO: 0046872 metal ion binding; PDB: 2Z1D_A.
Probab=86.87 E-value=0.99 Score=40.84 Aligned_cols=110 Identities=19% Similarity=0.261 Sum_probs=67.8
Q ss_pred chHHHHHhhcccCCeEEEecCCCCcc-ccHHHHHHHHHhCCCcEEEEcCccHHHHH--HhhCCcceecCceEEEecCCCC
Q 031196 4 EKADKILSESQESNVAFLVVGDPFGA-TTHTDLVVRAKKLGIQVKAVHNASVMNAV--GICGLQLYRFGETVSIPFFTET 80 (164)
Q Consensus 4 ~~~~~I~~~a~~~~VafLt~GDP~~a-TTH~~l~~ra~~~gi~vevIpGiSs~~A~--s~~GL~ly~fg~~vtIpf~~~~ 80 (164)
...|..++.|+..||.+.|-||-|-- .++.. +.+||..|-+|++|- |.+-|+ |+-+ ..-.+.|+--+
T Consensus 65 ~~ID~ai~LA~~~~vil~TfGDm~RVPGs~~S-L~~ara~GadVriVy--Sp~dAl~iA~~n-------P~k~vVF~avG 134 (355)
T PF01924_consen 65 GDIDAAIELAKRPGVILATFGDMMRVPGSRGS-LAEARAEGADVRIVY--SPLDALKIAKEN-------PDKEVVFFAVG 134 (355)
T ss_dssp HHHHHHHHHHTT--EEEEE-TTGGG---TT---HHHHHHTT-EEEE-S--SHHHHHHHHHH--------TTSEEEEEEEE
T ss_pred HHHHHHHHHhCCCCeEEEeCcccccCCCCCCC-HHHHHhCCCCEEEEe--CHHHHHHHHHhC-------CCCceEEEEeC
Confidence 45678889999999999999998765 44444 566888899999995 445565 5443 23356666655
Q ss_pred cccCc--hHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHH
Q 031196 81 WRPGS--FYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELL 144 (164)
Q Consensus 81 ~~P~s--~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~ 144 (164)
|--+. .--.|.+..+.|++.+.+|-.. .+...|++.||+-.+.
T Consensus 135 FETTaP~~A~~i~~a~~~~~~Nfsvl~~h---------------------k~~ppal~~ll~~~~~ 179 (355)
T PF01924_consen 135 FETTAPATAAAILQAKEEGIKNFSVLSSH---------------------KLTPPALEALLEDPEL 179 (355)
T ss_dssp -HHHHHHHHHHHHHHHHHT-SSEEEEEEE---------------------E-CHHHHHHHHHTT--
T ss_pred cccCcHHHHHHHHHHHHcCCCCEEEEEec---------------------cccHHHHHHHHcCCCC
Confidence 54332 3557778888888988888765 4556788888885433
No 38
>TIGR00075 hypD hydrogenase expression/formation protein HypD. HypD is involved in the hyp operon which is needed for the activity of the three hydrogenase isoenzymes in Escherichia coli. HypD is one of the genes needed for formation of these enzymes. This protein has been found in gram-negative and gram-positive bacteria and Archaea.
Probab=86.79 E-value=3.9 Score=37.26 Aligned_cols=122 Identities=19% Similarity=0.213 Sum_probs=80.9
Q ss_pred chHHHHHhhcccCCeEEEecCCCCcc-ccHHHHHHHHHhCCCcEEEEcCccHHHHH--HhhCCcceecCceEEEecCCCC
Q 031196 4 EKADKILSESQESNVAFLVVGDPFGA-TTHTDLVVRAKKLGIQVKAVHNASVMNAV--GICGLQLYRFGETVSIPFFTET 80 (164)
Q Consensus 4 ~~~~~I~~~a~~~~VafLt~GDP~~a-TTH~~l~~ra~~~gi~vevIpGiSs~~A~--s~~GL~ly~fg~~vtIpf~~~~ 80 (164)
+..|..++.|...+|-+.|-||=|-- .|.. =+.+|+..|-+|++|- |.+-|+ ++-+ ..-.|.|+--+
T Consensus 76 ~~ID~ai~LA~~~~vii~TfGDmlRVPGs~~-SL~~ara~GadVriVY--SpldAl~iA~~n-------Pdk~VVF~avG 145 (369)
T TIGR00075 76 ERIDEAIELATIPEIIFCTFGDMMRVPGSGG-SLLQARAEGADVRIVY--SPMDALKIAKEN-------PDRKVVFFAIG 145 (369)
T ss_pred HHHHHHHHHhCCCCeEEEecchhccCCCCCC-CHHHHHhCCCCEEEEe--CHHHHHHHHHHC-------CCCeEEEEecC
Confidence 45678888998899999999997654 3333 3667899999999995 455554 4332 34456677766
Q ss_pred cccCch--HHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCCCCCCccee
Q 031196 81 WRPGSF--YEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGESGKAHELKI 156 (164)
Q Consensus 81 ~~P~s~--y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~~~~~~~~~ 156 (164)
|--+.| --.|++-.+.|+..+.+|--. -+..-|++.||+-++.+=.|.+.+.-++
T Consensus 146 FETTaP~~A~~i~~a~~~~~~Nfsvl~~h---------------------kl~PPa~~~ll~~~~~~idgfi~PGHVs 202 (369)
T TIGR00075 146 FETTAPTTASTLLSAKAEDINNFFFLSAH---------------------RLVPPAVEALLENPAVQIDAFLAPGHVS 202 (369)
T ss_pred chhccHHHHHHHHHHHHcCCCcEEEEEec---------------------cccHHHHHHHHcCCCCCccEEEecCEEE
Confidence 654433 446667777788888887654 3456688888865433334555554443
No 39
>COG0409 HypD Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]
Probab=79.06 E-value=8.8 Score=34.87 Aligned_cols=96 Identities=15% Similarity=0.209 Sum_probs=64.0
Q ss_pred chHHHHHhhcccCCeEEEecCCCCcc-ccHHHHHHHHHhCCCcEEEEcCccHHHHHHhhCCcceecCceEEEecCCCCcc
Q 031196 4 EKADKILSESQESNVAFLVVGDPFGA-TTHTDLVVRAKKLGIQVKAVHNASVMNAVGICGLQLYRFGETVSIPFFTETWR 82 (164)
Q Consensus 4 ~~~~~I~~~a~~~~VafLt~GDP~~a-TTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~ly~fg~~vtIpf~~~~~~ 82 (164)
+.++.-++.|+.+++-|.|.||=+-- ++..+ +..++..|.+|++|-.+.---.+++-+ ..--|.|+.-+|-
T Consensus 72 ~~id~aiela~~~~~i~~TfGDm~RVPgs~~S-L~~~ka~G~DVRiVYS~~dal~iA~en-------pdk~VVffaiGFE 143 (364)
T COG0409 72 GRIDTAIELASSKDVIFCTFGDMMRVPGSPGS-LLDAKAEGADVRIVYSPMDALKIAKEN-------PDKKVVFFAIGFE 143 (364)
T ss_pred HHHHHHHHHhCCCCcEEEeccceeecCCCCcc-hhhhhcCCccEEEEecHHHHHHHHhhC-------CCCceEEEeCccc
Confidence 34567778888899999999996654 33333 445788899999996443322235444 3345667766666
Q ss_pred cCchHH--HHHHHHhcCCccEEEEecc
Q 031196 83 PGSFYE--KIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 83 P~s~y~--~I~~N~~~glHTlvLLDi~ 107 (164)
.+.|-. .|..+...|+...-++-..
T Consensus 144 TT~P~TA~~l~~~~~e~i~Nf~~ls~H 170 (364)
T COG0409 144 TTTPTTACMLLSAKGEGIENFFVLSNH 170 (364)
T ss_pred cCCCchHHHHHhccccccceEEEEEec
Confidence 665544 3667777777777777665
No 40
>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055). It is often gene clustered with the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487) and presumably fulfills the identical function as NrdG which utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in NrdD.
Probab=78.92 E-value=6.4 Score=30.77 Aligned_cols=37 Identities=24% Similarity=0.337 Sum_probs=29.6
Q ss_pred eEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccH
Q 031196 18 VAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASV 54 (164)
Q Consensus 18 VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs 54 (164)
...++.|||+.......++..+++.|+.+.+..|.+.
T Consensus 65 ~i~~sGGEPll~~~l~~li~~~~~~g~~v~i~TNg~~ 101 (191)
T TIGR02495 65 GVVITGGEPTLQAGLPDFLRKVRELGFEVKLDTNGSN 101 (191)
T ss_pred eEEEECCcccCcHhHHHHHHHHHHCCCeEEEEeCCCC
Confidence 4456789999987777889999999988888766653
No 41
>COG4521 TauA ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=68.74 E-value=3.8 Score=36.29 Aligned_cols=33 Identities=33% Similarity=0.478 Sum_probs=25.6
Q ss_pred hcccCCeEEEecCCCCccccHHHHHHHHHhCCCc---EEEE
Q 031196 12 ESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQ---VKAV 49 (164)
Q Consensus 12 ~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~---vevI 49 (164)
++.+|+|| =||++|||..|+.-.+..||+ |+++
T Consensus 127 DL~GK~ia-----vPFvSTtHysLLaaLkhw~idp~~V~Il 162 (334)
T COG4521 127 DLIGKRIA-----VPFVSTTHYSLLAALKHWGIDPGQVEIL 162 (334)
T ss_pred HhccCeec-----cceeehhHHHHHHHHHHcCCCccceeEe
Confidence 44566665 499999999999999988875 5555
No 42
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=67.87 E-value=8.9 Score=25.24 Aligned_cols=47 Identities=15% Similarity=0.241 Sum_probs=32.4
Q ss_pred HHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccH
Q 031196 6 ADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASV 54 (164)
Q Consensus 6 ~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs 54 (164)
.+++++.|+++....+.+-|-....-+..+...+++.| +++|||+-+
T Consensus 17 ~~~~~~~a~~~g~~~v~iTDh~~~~~~~~~~~~~~~~g--i~~i~G~E~ 63 (67)
T smart00481 17 PEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAG--IKPIIGLEA 63 (67)
T ss_pred HHHHHHHHHHcCCCEEEEeeCCcccCHHHHHHHHHHcC--CeEEEEEEE
Confidence 46788888877777776666655555566777777766 456888754
No 43
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=67.12 E-value=4.1 Score=27.94 Aligned_cols=35 Identities=31% Similarity=0.456 Sum_probs=25.8
Q ss_pred ccccHHHHHHH--HHhCCCcEEEEcCccHHHHHHhhCCc
Q 031196 28 GATTHTDLVVR--AKKLGIQVKAVHNASVMNAVGICGLQ 64 (164)
Q Consensus 28 ~aTTH~~l~~r--a~~~gi~vevIpGiSs~~A~s~~GL~ 64 (164)
|.|||-.+..+ +++.|+++++||-...+++ .||+.
T Consensus 8 F~st~~a~~~ek~lk~~gi~~~liP~P~~i~~--~CG~a 44 (73)
T PF11823_consen 8 FPSTHDAMKAEKLLKKNGIPVRLIPTPREISA--GCGLA 44 (73)
T ss_pred ECCHHHHHHHHHHHHHCCCcEEEeCCChhccC--CCCEE
Confidence 45777666655 7788999999998887754 37753
No 44
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=66.86 E-value=13 Score=27.20 Aligned_cols=38 Identities=29% Similarity=0.380 Sum_probs=25.6
Q ss_pred HHhhcc--cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEc
Q 031196 9 ILSESQ--ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVH 50 (164)
Q Consensus 9 I~~~a~--~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIp 50 (164)
+++.+. .-+..+|+.|| +-+..++.+++++|.+|.++.
T Consensus 87 ~~~~~~~~~~d~ivLvSgD----~Df~~~v~~l~~~g~~V~v~~ 126 (146)
T PF01936_consen 87 ILELAYENPPDTIVLVSGD----SDFAPLVRKLRERGKRVIVVG 126 (146)
T ss_dssp HHHHG--GG-SEEEEE-------GGGHHHHHHHHHH--EEEEEE
T ss_pred HHHHhhccCCCEEEEEECc----HHHHHHHHHHHHcCCEEEEEE
Confidence 555563 34999999999 557889999999999999996
No 45
>TIGR03365 Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE. This uncharacterized enzyme, designated QueE, participates in the biosynthesis, from GTP, of 7-cyano-7-deazaguanosine, also called preQ0 because in many species it is a precursor of queuosine. In most Archaea, it is instead the precursor of a different tRNA modified base, archaeosine.
Probab=66.83 E-value=15 Score=30.59 Aligned_cols=41 Identities=20% Similarity=0.120 Sum_probs=34.3
Q ss_pred CeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHH
Q 031196 17 NVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNA 57 (164)
Q Consensus 17 ~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A 57 (164)
.-..+|.|+|+...--..|+.++++.|+.+.+.-|-+....
T Consensus 74 ~~V~lTGGEPll~~~l~~li~~l~~~g~~v~leTNGtl~~~ 114 (238)
T TIGR03365 74 LHVSLSGGNPALQKPLGELIDLGKAKGYRFALETQGSVWQD 114 (238)
T ss_pred CeEEEeCCchhhhHhHHHHHHHHHHCCCCEEEECCCCCcHH
Confidence 35778999999986567788889999999999999987765
No 46
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=65.87 E-value=16 Score=34.05 Aligned_cols=72 Identities=15% Similarity=0.151 Sum_probs=53.4
Q ss_pred chHHHHHhhccc--CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCC
Q 031196 4 EKADKILSESQE--SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTET 80 (164)
Q Consensus 4 ~~~~~I~~~a~~--~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~ 80 (164)
+-..+|++.+++ =|+++||...|.+-=+=..+.++..+.||+|..|-++.-++-- | .-|+=.+++||||-.+
T Consensus 323 ~~g~eIa~~Lk~dgVDAvILtstCgtCtrcga~m~keiE~~GIPvV~i~~~~pI~~~vG-----anRiv~~~~i~~PlGn 397 (431)
T TIGR01917 323 QFAKEFSKELLAAGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVHICTVTPIALTVG-----ANRIIPAIAIPHPLGD 397 (431)
T ss_pred HHHHHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEEEeechhHHHhcC-----CCceecCCCCCCCCCC
Confidence 345678888884 5999999999988766566667777779999999887766643 3 3345567789998764
No 47
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=64.68 E-value=17 Score=33.82 Aligned_cols=72 Identities=18% Similarity=0.194 Sum_probs=53.8
Q ss_pred chHHHHHhhccc--CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHH-HHhhCCcceecCceEEEecCCCC
Q 031196 4 EKADKILSESQE--SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNA-VGICGLQLYRFGETVSIPFFTET 80 (164)
Q Consensus 4 ~~~~~I~~~a~~--~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A-~s~~GL~ly~fg~~vtIpf~~~~ 80 (164)
+-..+|++.+++ =|+++||...|.+--+=..+.++..+.||+|..|-++..++- +| .-|-=+.++||||-.+
T Consensus 323 ~~g~eIa~~Lk~dgVDAVILTstCgtC~r~~a~m~keiE~~GiPvv~~~~~~pis~tvG-----anrivp~~~ip~PlGn 397 (431)
T TIGR01918 323 QFAKEFVVELKQGGVDAVILTSTUGTCTRCGATMVKEIERAGIPVVHMCTVIPIALTVG-----ANRIVPTIAIPHPLGD 397 (431)
T ss_pred HHHHHHHHHHHHcCCCEEEEcCCCCcchhHHHHHHHHHHHcCCCEEEEeecccHhhhcC-----ccceecccCcCCCCCC
Confidence 445678888874 599999999998876656677777778999999988776664 33 2334468899998764
No 48
>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional
Probab=64.25 E-value=11 Score=32.94 Aligned_cols=50 Identities=18% Similarity=0.304 Sum_probs=37.1
Q ss_pred HHHHhhcccC--CeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHH
Q 031196 7 DKILSESQES--NVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMN 56 (164)
Q Consensus 7 ~~I~~~a~~~--~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~ 56 (164)
.++++.+.+. ....++.|+|+..--..+++.+++++|+.+.+.-|-+-++
T Consensus 52 ~~ii~~~~~~g~~~v~~~GGEPll~~~~~~il~~~~~~g~~~~i~TNG~ll~ 103 (378)
T PRK05301 52 IRVLREARALGALQLHFSGGEPLLRKDLEELVAHARELGLYTNLITSGVGLT 103 (378)
T ss_pred HHHHHHHHHcCCcEEEEECCccCCchhHHHHHHHHHHcCCcEEEECCCccCC
Confidence 4566655532 2234567999998777889999999999998888877655
No 49
>PF13394 Fer4_14: 4Fe-4S single cluster domain; PDB: 1TV8_B 1TV7_A 2FB2_A 2FB3_A.
Probab=63.40 E-value=5.7 Score=28.58 Aligned_cols=50 Identities=20% Similarity=0.353 Sum_probs=27.2
Q ss_pred HHHHHhhcccC----CeEEEecCCCCcccc---HHHHHHHHHhCC--CcEEEEcCccHH
Q 031196 6 ADKILSESQES----NVAFLVVGDPFGATT---HTDLVVRAKKLG--IQVKAVHNASVM 55 (164)
Q Consensus 6 ~~~I~~~a~~~----~VafLt~GDP~~aTT---H~~l~~ra~~~g--i~vevIpGiSs~ 55 (164)
.+++++.++.. .-..++.|+|+.+-- -..++.++++.+ +.+.+..|.+..
T Consensus 34 ~~~~i~~~~~~~~~~~~v~~~GGEPll~~~~~~l~~~i~~~~~~~~~~~i~i~TNg~~~ 92 (119)
T PF13394_consen 34 LEEIIDELKEKGFRPSTVVFTGGEPLLYLNPEDLIELIEYLKERGPEIKIRIETNGTLP 92 (119)
T ss_dssp HHHHHHHHHHTT----EEEEESSSGGGSTTHHHHHHHHCTSTT-----EEEEEE-STTH
T ss_pred HHHHHHHHHhcCCceEEEEEECCCCccccCHHHHHHHHHHHHhhCCCceEEEEeCCeec
Confidence 34555433432 336778899998732 234555566666 777777766555
No 50
>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E. This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.
Probab=62.44 E-value=13 Score=32.22 Aligned_cols=50 Identities=18% Similarity=0.369 Sum_probs=36.7
Q ss_pred HHHHhhcccC--CeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHH
Q 031196 7 DKILSESQES--NVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMN 56 (164)
Q Consensus 7 ~~I~~~a~~~--~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~ 56 (164)
.++++.+.+- ....++.|+|+..--..+++..++++|+.+.+.-|-+-++
T Consensus 43 ~~ii~~~~~~g~~~v~~~GGEPll~~~~~~ii~~~~~~g~~~~l~TNG~ll~ 94 (358)
T TIGR02109 43 TDVLTQAAELGVLQLHFSGGEPLARPDLVELVAHARRLGLYTNLITSGVGLT 94 (358)
T ss_pred HHHHHHHHhcCCcEEEEeCccccccccHHHHHHHHHHcCCeEEEEeCCccCC
Confidence 4566655532 2345677999998777888999999999988887766554
No 51
>PF04055 Radical_SAM: Radical SAM superfamily; InterPro: IPR007197 Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].; GO: 0003824 catalytic activity, 0051536 iron-sulfur cluster binding; PDB: 2A5H_D 3T7V_A 3C8F_A 3CB8_A 2FB2_A 2FB3_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A ....
Probab=61.62 E-value=10 Score=27.36 Aligned_cols=40 Identities=20% Similarity=0.357 Sum_probs=33.0
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhC---CCcEEEEcCccHH
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKL---GIQVKAVHNASVM 55 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~---gi~vevIpGiSs~ 55 (164)
....+++.|||+.......++..+.+. ++.+.+.-+.+-.
T Consensus 46 ~~~i~~~~gep~~~~~~~~~~~~~~~~~~~~~~i~~~t~~~~~ 88 (166)
T PF04055_consen 46 VKEIFFGGGEPTLHPDFIELLELLRKIKKRGIRISINTNGTLL 88 (166)
T ss_dssp HEEEEEESSTGGGSCHHHHHHHHHHHCTCTTEEEEEEEESTTH
T ss_pred CcEEEEeecCCCcchhHHHHHHHHHHhhccccceeeeccccch
Confidence 567788999999998888888888876 8888888777664
No 52
>PF13353 Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A 3CB8_A 3T7V_A 2YX0_A 3CAN_A.
Probab=60.38 E-value=27 Score=25.50 Aligned_cols=54 Identities=15% Similarity=0.177 Sum_probs=33.4
Q ss_pred chHHHHHhhccc--CCeEEEecCCCCc---cccHHHHHHHHHhCCC-cEEEEcCccHHHH
Q 031196 4 EKADKILSESQE--SNVAFLVVGDPFG---ATTHTDLVVRAKKLGI-QVKAVHNASVMNA 57 (164)
Q Consensus 4 ~~~~~I~~~a~~--~~VafLt~GDP~~---aTTH~~l~~ra~~~gi-~vevIpGiSs~~A 57 (164)
+..+++++.+++ ..-..++.|+|+. .---.+++..+++.+. .+.+.-+.+....
T Consensus 39 ~~~~~ii~~~~~~~~~~i~l~GGEPll~~~~~~l~~i~~~~k~~~~~~~~~~tng~~~~~ 98 (139)
T PF13353_consen 39 EIIEEIIEELKNYGIKGIVLTGGEPLLHENYDELLEILKYIKEKFPKKIIILTNGYTLDE 98 (139)
T ss_dssp HHHHHHCHHHCCCCCCEEEEECSTGGGHHSHHHHHHHHHHHHHTT-SEEEEEETT--HHH
T ss_pred hhhhhhhhHHhcCCceEEEEcCCCeeeeccHhHHHHHHHHHHHhCCCCeEEEECCCchhH
Confidence 344666666643 3344456799999 6666778888898887 5565555555443
No 53
>PF08902 DUF1848: Domain of unknown function (DUF1848); InterPro: IPR014998 This group of proteins are functionally uncharacterised. The C terminus contains a cluster of cysteines that are similar to the iron-sulphur cluster found at the N terminus of IPR007197 from INTERPRO.
Probab=56.94 E-value=43 Score=29.21 Aligned_cols=67 Identities=21% Similarity=0.217 Sum_probs=52.1
Q ss_pred CceEEEecCCCCcccCchHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHHHHHHHHHHhCCC
Q 031196 69 GETVSIPFFTETWRPGSFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIEQLLEVELLQGES 148 (164)
Q Consensus 69 g~~vtIpf~~~~~~P~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~~Lle~e~~~~~~ 148 (164)
..+=.|+||+.+..| +.+.+.+=.++|.|..+..=|..=++++| |.--+..+.++.+.++.+.-+..
T Consensus 46 ~~Vd~iVFWTKnp~P--~l~~L~~l~~~gy~~yfq~Tit~Y~~~lE-----------p~vP~~~~~i~~f~~Ls~~iG~~ 112 (266)
T PF08902_consen 46 EDVDCIVFWTKNPAP--FLPYLDELDERGYPYYFQFTITGYGKDLE-----------PNVPPKDERIETFRELSERIGPE 112 (266)
T ss_pred hcceEEEEecCCcHH--HHhhHHHHHhCCCceEEEEEeCCCCcccc-----------CCCCCHHHHHHHHHHHHHHHCCC
Confidence 345578999998666 78888887888999999988875443333 45678999999999999886544
No 54
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=56.63 E-value=23 Score=31.13 Aligned_cols=46 Identities=20% Similarity=0.192 Sum_probs=35.6
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHHHhh
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAVGIC 61 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~ 61 (164)
+.++|-..|+|+.+---.+++..++++|+.+.++-|-+....+..+
T Consensus 131 ~~v~iSl~GEPlL~p~l~eli~~~k~~Gi~~~L~TNG~~~e~l~~L 176 (322)
T PRK13762 131 KHVAISLSGEPTLYPYLPELIEEFHKRGFTTFLVTNGTRPDVLEKL 176 (322)
T ss_pred CEEEEeCCccccchhhHHHHHHHHHHcCCCEEEECCCCCHHHHHHH
Confidence 5688876799999875667888899999999998877654444444
No 55
>PRK11263 cardiolipin synthase 2; Provisional
Probab=55.95 E-value=45 Score=30.31 Aligned_cols=56 Identities=18% Similarity=0.275 Sum_probs=33.2
Q ss_pred HHhhcccCCeEEEecCCCCcccc--HHHHHHHHHhCCCcEEEE-cCccHHHHH-----------HhhCCcceec
Q 031196 9 ILSESQESNVAFLVVGDPFGATT--HTDLVVRAKKLGIQVKAV-HNASVMNAV-----------GICGLQLYRF 68 (164)
Q Consensus 9 I~~~a~~~~VafLt~GDP~~aTT--H~~l~~ra~~~gi~vevI-pGiSs~~A~-----------s~~GL~ly~f 68 (164)
.+..|+ +.|-+.+ |.+..+ -..-+..|.++|++|++| ||-+....+ -..|..+|++
T Consensus 214 ~i~~A~-~~I~I~t---pYf~p~~~l~~aL~~Aa~RGV~V~ii~~~~~d~~~~~~a~~~~~~~Ll~~Gv~I~~y 283 (411)
T PRK11263 214 ALRQAR-REVIIAN---AYFFPGYRLLRALRNAARRGVRVRLILQGEPDMPIVRVGARLLYNYLLKGGVQIYEY 283 (411)
T ss_pred HHHHhc-eEEEEEe---cCcCCCHHHHHHHHHHHHCCCEEEEEeCCCCCcHHHHHHHHHHHHHHHHCCCEEEEe
Confidence 334444 4455544 555432 233345688899999997 887653211 2368998876
No 56
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=49.89 E-value=29 Score=28.75 Aligned_cols=36 Identities=14% Similarity=0.147 Sum_probs=29.4
Q ss_pred eEEEecCCCCccccH-HHHHHHHHhCCCcEEEEcCcc
Q 031196 18 VAFLVVGDPFGATTH-TDLVVRAKKLGIQVKAVHNAS 53 (164)
Q Consensus 18 VafLt~GDP~~aTTH-~~l~~ra~~~gi~vevIpGiS 53 (164)
-+-++.|+|++..-+ .+++.++++.|+.+-+.-+-+
T Consensus 41 GVt~SGGEPllq~~fl~~l~~~~k~~gi~~~leTnG~ 77 (213)
T PRK10076 41 GVTLSGGEVLMQAEFATRFLQRLRLWGVSCAIETAGD 77 (213)
T ss_pred EEEEeCchHHcCHHHHHHHHHHHHHcCCCEEEECCCC
Confidence 555689999999776 588999999999988876654
No 57
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=48.38 E-value=25 Score=31.23 Aligned_cols=84 Identities=19% Similarity=0.106 Sum_probs=52.1
Q ss_pred EEEecCCCCccc--cHHHHHHHHHhCCCcEEEEcCccHHHH-H-HhhCCcceecCceEEEec---CCCCcccCchHHHHH
Q 031196 19 AFLVVGDPFGAT--THTDLVVRAKKLGIQVKAVHNASVMNA-V-GICGLQLYRFGETVSIPF---FTETWRPGSFYEKIK 91 (164)
Q Consensus 19 afLt~GDP~~aT--TH~~l~~ra~~~gi~vevIpGiSs~~A-~-s~~GL~ly~fg~~vtIpf---~~~~~~P~s~y~~I~ 91 (164)
+|+.+||+.+.. |+..-...|+..|.++..||=.. ++- + +.+ -.+-+--+.+=|+- |+.+|.+..-...+.
T Consensus 94 ~~~~~gd~vl~~~Ptf~~Y~~~a~~~g~~~~~v~~~~-~~~d~~~~~-~~~~~~~~lv~i~nPNNPTG~~~~~~~l~~l~ 171 (356)
T COG0079 94 AFVEPGDTVLIPEPTFSMYEIAAQLAGAEVVKVPLKE-FRLDLDAIL-AAIRDKTKLVFLCNPNNPTGTLLPREELRALL 171 (356)
T ss_pred HhhcCCCEEEEcCCChHHHHHHHHhcCCeEEEecccc-cccCHHHHH-HhhhcCCCEEEEeCCCCCCCCCCCHHHHHHHH
Confidence 467777877775 44444455888899988888764 221 1 110 00001124455554 457888877777787
Q ss_pred HHHhcCCccEEEEec
Q 031196 92 RNRSLGLHTLCLLDI 106 (164)
Q Consensus 92 ~N~~~glHTlvLLDi 106 (164)
++... |++|++|=
T Consensus 172 ~~~~~--~~~vVvDE 184 (356)
T COG0079 172 EALPE--GGLVVIDE 184 (356)
T ss_pred HhCCC--CcEEEEeC
Confidence 77666 99999984
No 58
>PF03401 TctC: Tripartite tricarboxylate transporter family receptor; InterPro: IPR005064 Bordetella pertussis, the causative agent of human whooping cough (pertussis), is an obligate human pathogen with diverse high-affinity transport systems for the assimilation of iron, a biometal that is essential for growth []. Periplasmic binding proteins of a new family, particularly well represented in this organism (and more generally in beta-proteobacteria), have been called Bug receptors []. They adopt a characteristic Venus flytrap fold with two globular domains bisected by a ligand-binding cleft. The family is specific for carboxylated solutes, with a characteristic mode of binding involving two highly conserved beta strand-beta turn-alpha helix motifs originating from each domain. These two motifs form hydrogen bonds with a carboxylate group of the ligand, both directly and via conserved water molecules, and have thus been termed the carboxylate pincers. Domain 1 recognises the ligand and the carboxylate group serves as an initial anchoring point. Domain 2 discriminates between productively and non-productively bound ligands as proper interactions with this domain is needed for the of the closed conformation []. BugE has a glutamate bound ligand. No charged residues are involved in glutamate binding by BugE, unlike what has been described for all glutamate receptors reported so far. The Bug architecture is highly conserved despite limited sequence identity [].; GO: 0030288 outer membrane-bounded periplasmic space; PDB: 2QPQ_C 2DVZ_A 2F5X_A.
Probab=47.35 E-value=46 Score=28.11 Aligned_cols=51 Identities=20% Similarity=0.306 Sum_probs=34.3
Q ss_pred hHHHHHhhccc--CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHH
Q 031196 5 KADKILSESQE--SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNA 57 (164)
Q Consensus 5 ~~~~I~~~a~~--~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A 57 (164)
..+++++.+|+ +.+.|-+.|. ..+.|.....-+++.|++++.||=-+.=-+
T Consensus 92 t~~eli~~ak~~p~~~~~g~~g~--g~~~hl~~~~l~~~~G~~~~~Vpy~G~~~~ 144 (274)
T PF03401_consen 92 TLEELIEYAKANPGKLTFGSSGP--GSSDHLAAALLAKAAGIKFTHVPYDGGAEA 144 (274)
T ss_dssp SHHHHHHHHHCSCCC-EEEESST--TSHHHHHHHHHHHHHT---EEEE-SSHHHH
T ss_pred cHHHHHHHHHhCCCCeEEEecCC--CchHHHHHHHHHHHhCCceEEEEeCCccHH
Confidence 45778888886 6789988873 567788888778888999999985444333
No 59
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=46.43 E-value=13 Score=27.86 Aligned_cols=38 Identities=24% Similarity=0.253 Sum_probs=25.3
Q ss_pred CeEEEecCCCCcc----------ccHHHHHHHHHhCCCcEEEEcCccHH
Q 031196 17 NVAFLVVGDPFGA----------TTHTDLVVRAKKLGIQVKAVHNASVM 55 (164)
Q Consensus 17 ~VafLt~GDP~~a----------TTH~~l~~ra~~~gi~vevIpGiSs~ 55 (164)
+-.|+.+|.|-++ +.|..+...|++.+|+..+| |.-..
T Consensus 26 ~~v~~aPGN~G~~~~~~~~~~~~~d~~~l~~~a~~~~idlvvv-GPE~p 73 (100)
T PF02844_consen 26 EEVYVAPGNPGTAELGKNVPIDITDPEELADFAKENKIDLVVV-GPEAP 73 (100)
T ss_dssp EEEEEEE--TTGGGTSEEE-S-TT-HHHHHHHHHHTTESEEEE-SSHHH
T ss_pred CEEEEeCCCHHHHhhceecCCCCCCHHHHHHHHHHcCCCEEEE-CChHH
Confidence 4567788887655 45678888899989998877 55443
No 60
>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.
Probab=45.54 E-value=2.1e+02 Score=24.95 Aligned_cols=37 Identities=22% Similarity=0.270 Sum_probs=23.3
Q ss_pred HHHHhhcc---cCCeEEEecCCCCcccc--HHHHHHHHHhCC
Q 031196 7 DKILSESQ---ESNVAFLVVGDPFGATT--HTDLVVRAKKLG 43 (164)
Q Consensus 7 ~~I~~~a~---~~~VafLt~GDP~~aTT--H~~l~~ra~~~g 43 (164)
+++++.++ +-.-++++.|||+..+. -..++.++++.+
T Consensus 125 ~~~i~~i~~~~~I~~VilSGGDPl~~~~~~L~~ll~~l~~i~ 166 (321)
T TIGR03822 125 DAAFAYIADHPEIWEVILTGGDPLVLSPRRLGDIMARLAAID 166 (321)
T ss_pred HHHHHHHHhCCCccEEEEeCCCcccCCHHHHHHHHHHHHhCC
Confidence 44554443 23457899999998743 246666777665
No 61
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=44.41 E-value=37 Score=29.61 Aligned_cols=100 Identities=18% Similarity=0.350 Sum_probs=54.5
Q ss_pred cCCeEEEecCCCCccccHHHHHHHHHhCCCcEE---------EEcCccHHHHH--Hhh-CCcce---------e-cCc--
Q 031196 15 ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVK---------AVHNASVMNAV--GIC-GLQLY---------R-FGE-- 70 (164)
Q Consensus 15 ~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~ve---------vIpGiSs~~A~--s~~-GL~ly---------~-fg~-- 70 (164)
..-|.|+|.|||-..|| ..++..+.+.|.++= +--|..|-.|- +.- |..+- + .+.
T Consensus 17 ~a~i~yit~GdP~~e~s-~e~i~~L~~~GaD~iELGvPfSDPvADGP~Iq~A~~rAL~~g~t~~~~lel~~~~r~~~~~~ 95 (265)
T COG0159 17 GALIPYVTAGDPDLETS-LEIIKTLVEAGADILELGVPFSDPVADGPTIQAAHLRALAAGVTLEDTLELVEEIRAKGVKV 95 (265)
T ss_pred CCeEEEEeCCCCCHHHH-HHHHHHHHhCCCCEEEecCCCCCcCccCHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCCC
Confidence 35799999999999887 555555566665543 23455555553 322 22221 1 111
Q ss_pred -eEEEecCCCCcc--cCchHHHHHHHHhcCCccEEEEecccCCch-hhhhhc
Q 031196 71 -TVSIPFFTETWR--PGSFYEKIKRNRSLGLHTLCLLDIRVKEPS-LESLCR 118 (164)
Q Consensus 71 -~vtIpf~~~~~~--P~s~y~~I~~N~~~glHTlvLLDi~~~e~~-~e~~~~ 118 (164)
.+-..|+.--|. -..||. .-.+.|.+-+++-|+-.+|.. +...++
T Consensus 96 Pivlm~Y~Npi~~~Gie~F~~---~~~~~GvdGlivpDLP~ee~~~~~~~~~ 144 (265)
T COG0159 96 PIVLMTYYNPIFNYGIEKFLR---RAKEAGVDGLLVPDLPPEESDELLKAAE 144 (265)
T ss_pred CEEEEEeccHHHHhhHHHHHH---HHHHcCCCEEEeCCCChHHHHHHHHHHH
Confidence 122223222111 113343 446679999999999876644 444443
No 62
>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme. An iron-sulfur protein with a radical-SAM domain (pfam04055). A single glycine residue in EC 2.3.1.54, formate C-acetyltransferase (formate-pyruvate lyase), is oxidized to the corresponding radical by transfer of H from its CH2 to AdoMet with concomitant cleavage of the latter. The reaction requires Fe2+. The first stage is reduction of the AdoMet to give methionine and the 5'-deoxyadenosin-5-yl radical, which then abstracts a hydrogen radical from the glycine residue.
Probab=43.61 E-value=46 Score=26.81 Aligned_cols=36 Identities=22% Similarity=0.294 Sum_probs=28.3
Q ss_pred CeEEEecCCCCccccHH-HHHHHHHhCCCcEEEEcCcc
Q 031196 17 NVAFLVVGDPFGATTHT-DLVVRAKKLGIQVKAVHNAS 53 (164)
Q Consensus 17 ~VafLt~GDP~~aTTH~-~l~~ra~~~gi~vevIpGiS 53 (164)
.|. ++.|+|+..--+. .++..+++.|+.+.+.-|.+
T Consensus 68 ~I~-~~GGEPll~~~~~~~li~~~~~~g~~~~i~TNG~ 104 (235)
T TIGR02493 68 GVT-FSGGEPLLQPEFLSELFKACKELGIHTCLDTSGF 104 (235)
T ss_pred eEE-EeCcccccCHHHHHHHHHHHHHCCCCEEEEcCCC
Confidence 354 4679999987765 78888999999988877764
No 63
>PF00466 Ribosomal_L10: Ribosomal protein L10; InterPro: IPR001790 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. On the basis of sequence similarities the following prokaryotic and eukaryotic ribosomal proteins can be grouped: Bacterial 50S ribosomal protein L10; Archaebacterial acidic ribosomal protein P0 homologue (L10E); Eukaryotic 60S ribosomal protein P0 (L10E). This entry represents the ribosomal protein L10P family, with includes the above mentioned ribosomal proteins.; GO: 0042254 ribosome biogenesis, 0005622 intracellular; PDB: 3A1Y_G 3D5D_J 3PYT_I 3PYV_I 3D5B_J 3PYO_I 3PYR_I 3MS1_I 3MRZ_I 1VQ9_G ....
Probab=43.43 E-value=80 Score=22.26 Aligned_cols=85 Identities=21% Similarity=0.219 Sum_probs=56.4
Q ss_pred HHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHHHhhC----CcceecCceEEEecCCCCc
Q 031196 6 ADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAVGICG----LQLYRFGETVSIPFFTETW 81 (164)
Q Consensus 6 ~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~G----L~ly~fg~~vtIpf~~~~~ 81 (164)
.+++-+..++.+.++++-=.-+-+.--..++...+..|+.+.++.+-=.--|+..++ |.-+=-|.+ .+.|..++
T Consensus 10 v~~~~~~l~~~~~v~v~~~~~l~~~~~~~lR~~l~~~~~~~~v~KN~l~~~Al~~~~~~~~l~~~l~G~~-~~if~~~d- 87 (100)
T PF00466_consen 10 VEELKELLKKSKYVIVVDYNGLSANQLQELRKELRKKGGKFKVVKNTLMKKALKNTGFEEALSPLLKGPT-ALIFSNED- 87 (100)
T ss_dssp HHHHHHHHHCSSEEEEEECTTSCHHHHHHHHHHHHHHTEEEEECSHHHHHHHHHHHHTSSSSSCCTSSSE-EEEEESSS-
T ss_pred HHHHHHHHHhCCEEEEEEeCCCCHHHHHHHHHHHHhcCcEEEEecHHHHHHHHhcCccccCccccccCCE-EEEEECCC-
Confidence 455666666667777777777778777889999999999999998875555664443 445555555 44454332
Q ss_pred ccCchHHHHHHH
Q 031196 82 RPGSFYEKIKRN 93 (164)
Q Consensus 82 ~P~s~y~~I~~N 93 (164)
|....+.+.++
T Consensus 88 -~~~~~k~l~~~ 98 (100)
T PF00466_consen 88 -PFEIAKILKKF 98 (100)
T ss_dssp -HHHHHHHHHHS
T ss_pred -HHHHHHHHHHh
Confidence 44455555544
No 64
>cd07227 Pat_Fungal_NTE1 Fungal patatin-like phospholipase domain containing protein 6. These are fungal Neuropathy Target Esterase (NTE), commonly referred to as NTE1. Patatin-like phospholipase. NTE has at least two functional domains: the N-terminal domain putatively regulatory domain and the C-terminal catalytic domain which shows esterase activity. NTE shows phospholipase activity for lysophosphatidylcholine (LPC) and phosphatidylcholine (PC). Exposure of NTE to organophosphates leads to organophosphate-induced delayed neurotoxicity (OPIDN). OPIDN is a progressive neurological condition that is characterized by weakness, paralysis, pain, and paresthesia. This family includes NTE1 from fungi.
Probab=42.80 E-value=34 Score=29.38 Aligned_cols=53 Identities=11% Similarity=0.152 Sum_probs=42.9
Q ss_pred hhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccH--HHHH-HhhCC
Q 031196 11 SESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASV--MNAV-GICGL 63 (164)
Q Consensus 11 ~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs--~~A~-s~~GL 63 (164)
....++.|+++.-|==+-...|.-++....+.||++..|-|.|+ +.|+ -++|.
T Consensus 4 r~l~g~~igLVL~GGGaRG~ahiGVL~aLeE~gi~~d~v~GtSaGAiiga~ya~g~ 59 (269)
T cd07227 4 RRLCGQAIGLVLGGGGARGISHIGILQALEEAGIPIDAIGGTSIGSFVGGLYAREA 59 (269)
T ss_pred hHhcCCCEEEEECCcHHHHHHHHHHHHHHHHcCCCccEEEEECHHHHHHHHHHcCC
Confidence 34457889999999888889999999999999999999999983 4444 44553
No 65
>PF03575 Peptidase_S51: Peptidase family S51; InterPro: IPR005320 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S51 (clan PC(S)). The type example being dipeptidase E (alpha-aspartyl dipeptidase) from Escherichia coli. The family contains alpha-aspartyl dipeptidases (dipeptidase E) and cyanophycinases. The three-dimensional structure of Salmonella typhimurium aspartyl dipeptidase, peptidase E has been determine at 1.2-A resolution. The structure of this 25kDa enzyme consists of two mixed beta-sheets forming a V, flanked by six alpha-helices. The active site contains a Ser-His-Glu catalytic triad and is the first example of a serine peptidase/protease with a glutamate in the catalytic triad. The active site Ser is located on a strand-helix motif reminiscent of that found in alpha/beta-hydrolases, but the polypeptide fold and the organisation of the catalytic triad differ from those of the known serine proteases. This enzyme appears to represent a new example of convergent evolution of peptidase activity []. Alpha-aspartyl dipeptidase hydrolyses dipeptides containing N-terminal aspartate residues, asp-|-xaa. It does not act on peptides with N-terminal Glu, Asn or Gln, nor does it cleave isoaspartyl peptides. In the cyanobacteria, cyanophycinase is an exopeptidase that catalyses the hydrolytic cleavage of multi-l-arginyl-poly-l-aspartic acid (cyanophycin; a water- insoluble reserve polymer) into aspartate-arginine dipeptides.; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 3EN0_B 1FYE_A 1FY2_A 3L4E_A.
Probab=42.07 E-value=87 Score=23.92 Aligned_cols=51 Identities=22% Similarity=0.263 Sum_probs=30.6
Q ss_pred hHHHHHhhcccCCeEEEecCCCCccc------cHHHHHHHHHhCCCcEEEEcCccHHHHH
Q 031196 5 KADKILSESQESNVAFLVVGDPFGAT------THTDLVVRAKKLGIQVKAVHNASVMNAV 58 (164)
Q Consensus 5 ~~~~I~~~a~~~~VafLt~GDP~~aT------TH~~l~~ra~~~gi~vevIpGiSs~~A~ 58 (164)
+.+.+.+..++-|+.|+..|||+-+- .=...+.++-+.|. +|=|.|.=+++
T Consensus 25 ~~~~~~~~i~~ad~I~~~GG~~~~l~~~l~~t~l~~~i~~~~~~G~---vi~G~SAGA~i 81 (154)
T PF03575_consen 25 NDADILEAIREADAIFLGGGDTFRLLRQLKETGLDEAIREAYRKGG---VIIGTSAGAMI 81 (154)
T ss_dssp GHHHHHHHHHHSSEEEE--S-HHHHHHHHHHTTHHHHHHHHHHTTS---EEEEETHHHHC
T ss_pred ChHHHHHHHHhCCEEEECCCCHHHHHHHHHhCCHHHHHHHHHHCCC---EEEEEChHHhh
Confidence 33467777778899999999999873 22345555667773 34477654444
No 66
>COG0206 FtsZ Cell division GTPase [Cell division and chromosome partitioning]
Probab=41.86 E-value=1.7e+02 Score=26.30 Aligned_cols=44 Identities=25% Similarity=0.315 Sum_probs=27.3
Q ss_pred hchHHHHHhhcccCCeEEEecCCCCcc-ccHHHH-HHHHHhCCCcE
Q 031196 3 EEKADKILSESQESNVAFLVVGDPFGA-TTHTDL-VVRAKKLGIQV 46 (164)
Q Consensus 3 E~~~~~I~~~a~~~~VafLt~GDP~~a-TTH~~l-~~ra~~~gi~v 46 (164)
|+..++|.+..++-+.+|+|.|.=-.- |.-.-+ ..-|+++|+.|
T Consensus 83 ee~~~~I~~~l~g~dmvfitaG~GGGTGtGaaPVvakiake~g~lt 128 (338)
T COG0206 83 EESIEEIEEALKGADMVFVTAGMGGGTGTGAAPVVAEIAKELGALT 128 (338)
T ss_pred HHHHHHHHHHhccCCeEEEEeeecCCccccccHHHHHHHHhcCCcE
Confidence 445577888888889999999764443 322333 33355655443
No 67
>TIGR03006 pepcterm_polyde polysaccharide deactylase family protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide deacetylases (pfam01522). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene. The highest scoring homologs below the trusted cutoff for this model are found in several species of Methanosarcina, an archaeal genus.
Probab=41.69 E-value=30 Score=29.56 Aligned_cols=49 Identities=27% Similarity=0.349 Sum_probs=37.7
Q ss_pred hhchHHHHHhhcccC--CeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCcc
Q 031196 2 VEEKADKILSESQES--NVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNAS 53 (164)
Q Consensus 2 vE~~~~~I~~~a~~~--~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiS 53 (164)
||++..+|++.+++. .+.|.+.|. ++..|-+++.++.+.|.++. -||-+
T Consensus 26 v~~nt~riL~lL~~~gikATFFv~g~--~~e~~p~lir~i~~~GhEIg-sHg~s 76 (265)
T TIGR03006 26 VERNTDRILDLLDRHGVKATFFTLGW--VAERYPELVRRIVAAGHELA-SHGYG 76 (265)
T ss_pred HHHhHHHHHHHHHHcCCcEEEEEecc--chhhCHHHHHHHHHcCCEee-ecccc
Confidence 577888899888853 568888886 66778899999999998765 35543
No 68
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=41.62 E-value=74 Score=23.59 Aligned_cols=40 Identities=30% Similarity=0.346 Sum_probs=30.8
Q ss_pred HHhhccc--CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCc
Q 031196 9 ILSESQE--SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNA 52 (164)
Q Consensus 9 I~~~a~~--~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGi 52 (164)
+++.+.+ -+..+|+-||- -+..++.+++++|.+|.++.--
T Consensus 91 ~~~~~~~~~~d~ivLvSgD~----Df~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 91 ALELAYKRRIDTIVLVSGDS----DFVPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred HHHHhhhcCCCEEEEEECCc----cHHHHHHHHHHcCCEEEEEccC
Confidence 4455554 58899999995 5667999999999999998443
No 69
>COG0602 NrdG Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]
Probab=41.07 E-value=75 Score=26.28 Aligned_cols=50 Identities=24% Similarity=0.367 Sum_probs=33.2
Q ss_pred HHHHHhhccc---C-CeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHH
Q 031196 6 ADKILSESQE---S-NVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVM 55 (164)
Q Consensus 6 ~~~I~~~a~~---~-~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~ 55 (164)
+++|+++.++ + .-+-+|.|+|+..--=..|+...+++|+++.+=-|-|+.
T Consensus 58 ~~~I~~~i~~~~~~~~~V~lTGGEP~~~~~l~~Ll~~l~~~g~~~~lETngti~ 111 (212)
T COG0602 58 ADEILADIKSLGYKARGVSLTGGEPLLQPNLLELLELLKRLGFRIALETNGTIP 111 (212)
T ss_pred HHHHHHHHHhcCCCcceEEEeCCcCCCcccHHHHHHHHHhCCceEEecCCCCcc
Confidence 4556655553 2 235578999977533367888888889888877655443
No 70
>PRK11145 pflA pyruvate formate lyase-activating enzyme 1; Provisional
Probab=39.95 E-value=44 Score=27.27 Aligned_cols=36 Identities=22% Similarity=0.159 Sum_probs=27.8
Q ss_pred CeEEEecCCCCccccHH-HHHHHHHhCCCcEEEEcCcc
Q 031196 17 NVAFLVVGDPFGATTHT-DLVVRAKKLGIQVKAVHNAS 53 (164)
Q Consensus 17 ~VafLt~GDP~~aTTH~-~l~~ra~~~gi~vevIpGiS 53 (164)
.|. ++.|+|+...-+. .++..+++.|+.+-+.-+-+
T Consensus 73 ~V~-~sGGEPll~~~~~~~l~~~~k~~g~~i~l~TNG~ 109 (246)
T PRK11145 73 GVT-ASGGEAILQAEFVRDWFRACKKEGIHTCLDTNGF 109 (246)
T ss_pred eEE-EeCccHhcCHHHHHHHHHHHHHcCCCEEEECCCC
Confidence 455 5889999987765 78888999999887776554
No 71
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=39.65 E-value=82 Score=25.68 Aligned_cols=41 Identities=17% Similarity=0.259 Sum_probs=29.7
Q ss_pred HHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEc
Q 031196 9 ILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVH 50 (164)
Q Consensus 9 I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIp 50 (164)
..+.+.+.| .||++|-++.-..-..+...++++|..+-+|+
T Consensus 161 a~~~~~~~D-l~lvlGTSl~V~p~~~l~~~~~~~~~~~i~iN 201 (218)
T cd01407 161 AAEALAKAD-LLLVIGTSLQVYPAAGLPLYAPERGAPVVIIN 201 (218)
T ss_pred HHHHHhcCC-EEEEeCCCcccccHHHHHHHHHHCCCeEEEEC
Confidence 333334444 48899988887777888888888888877774
No 72
>PF13192 Thioredoxin_3: Thioredoxin domain; PDB: 1ZYP_B 1ZYN_A 1HYU_A 1ILO_A 1J08_F 2YWM_B 2AYT_B 2HLS_B 1A8L_A 2K8S_B ....
Probab=37.53 E-value=85 Score=21.11 Aligned_cols=48 Identities=19% Similarity=0.327 Sum_probs=34.9
Q ss_pred eEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH---HhhCCcce
Q 031196 18 VAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV---GICGLQLY 66 (164)
Q Consensus 18 VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~---s~~GL~ly 66 (164)
|-++.+|.|.+..++.-+..-+.+.|++++++.. +-+.-+ +..+.|..
T Consensus 3 I~v~~~~C~~C~~~~~~~~~~~~~~~i~~ei~~~-~~~~~~~~ygv~~vPal 53 (76)
T PF13192_consen 3 IKVFSPGCPYCPELVQLLKEAAEELGIEVEIIDI-EDFEEIEKYGVMSVPAL 53 (76)
T ss_dssp EEEECSSCTTHHHHHHHHHHHHHHTTEEEEEEET-TTHHHHHHTT-SSSSEE
T ss_pred EEEeCCCCCCcHHHHHHHHHHHHhcCCeEEEEEc-cCHHHHHHcCCCCCCEE
Confidence 4457889999998888787778888999999986 666554 34444433
No 73
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=36.76 E-value=86 Score=25.36 Aligned_cols=33 Identities=18% Similarity=0.241 Sum_probs=27.2
Q ss_pred ccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEc
Q 031196 14 QESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVH 50 (164)
Q Consensus 14 ~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIp 50 (164)
..=|...|+-|| +=+..|+.+++++|..|.++-
T Consensus 104 ~~iD~~vLvSgD----~DF~~Lv~~lre~G~~V~v~g 136 (160)
T TIGR00288 104 PNIDAVALVTRD----ADFLPVINKAKENGKETIVIG 136 (160)
T ss_pred CCCCEEEEEecc----HhHHHHHHHHHHCCCEEEEEe
Confidence 456889999999 345679999999999999984
No 74
>PRK06683 hypothetical protein; Provisional
Probab=36.09 E-value=1.6e+02 Score=20.91 Aligned_cols=56 Identities=20% Similarity=0.225 Sum_probs=36.1
Q ss_pred HHHHHhhcccCCeEEEe-cCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcc
Q 031196 6 ADKILSESQESNVAFLV-VGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQL 65 (164)
Q Consensus 6 ~~~I~~~a~~~~VafLt-~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~l 65 (164)
.++.++..+.+.+-++. ..|---. |.-.+...|++.+|++..++ |. --. ..||.+.
T Consensus 16 ~~~v~kaik~gkaklViiA~Da~~~-~~~~i~~~~~~~~Vpv~~~~--t~-~eLG~A~G~~~ 73 (82)
T PRK06683 16 HKRTLEAIKNGIVKEVVIAEDADMR-LTHVIIRTALQHNIPITKVE--SV-RKLGKVAGIQV 73 (82)
T ss_pred HHHHHHHHHcCCeeEEEEECCCCHH-HHHHHHHHHHhcCCCEEEEC--CH-HHHHHHhCCcc
Confidence 34566666655565554 4664433 55677888999999999997 33 334 5677653
No 75
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=36.08 E-value=2.1e+02 Score=22.44 Aligned_cols=37 Identities=14% Similarity=0.191 Sum_probs=25.5
Q ss_pred CeEEEec--CCCCccccHHHHHHHHHhCCCcEEEEcCcc
Q 031196 17 NVAFLVV--GDPFGATTHTDLVVRAKKLGIQVKAVHNAS 53 (164)
Q Consensus 17 ~VafLt~--GDP~~aTTH~~l~~ra~~~gi~vevIpGiS 53 (164)
+|+|+++ .||+....-..+...|++.|+++.+...-.
T Consensus 1 ~Ig~i~~~~~~~~~~~~~~gi~~~~~~~g~~~~~~~~~~ 39 (273)
T cd06305 1 RIAVVRYGGSGDFDQAYLAGTKAEAEALGGDLRVYDAGG 39 (273)
T ss_pred CeEEEeecCCCcHHHHHHHHHHHHHHHcCCEEEEECCCC
Confidence 3667765 577766555566677888899888876543
No 76
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=35.68 E-value=72 Score=25.61 Aligned_cols=44 Identities=18% Similarity=0.172 Sum_probs=33.8
Q ss_pred HHhhcc--cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHH
Q 031196 9 ILSESQ--ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMN 56 (164)
Q Consensus 9 I~~~a~--~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~ 56 (164)
+.+.+. .-|..+|+-||-=+.. ++..|+++|..|.++.....++
T Consensus 102 ~~~l~~~~~~D~ivl~SgD~DF~p----~v~~~~~~G~rv~v~~~~~~~s 147 (181)
T COG1432 102 AMELADKKNVDTIVLFSGDGDFIP----LVEAARDKGKRVEVAGIEPMTS 147 (181)
T ss_pred HHHhhcccCCCEEEEEcCCccHHH----HHHHHHHcCCEEEEEecCCcCH
Confidence 555566 5789999999955544 6888999999999997766443
No 77
>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial. The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.
Probab=34.91 E-value=90 Score=26.80 Aligned_cols=50 Identities=18% Similarity=0.280 Sum_probs=33.4
Q ss_pred HHHHhhccc--CCeEEEecCCCCccccHHHHHHHHHh-CCC-cEEEEcCccHHH
Q 031196 7 DKILSESQE--SNVAFLVVGDPFGATTHTDLVVRAKK-LGI-QVKAVHNASVMN 56 (164)
Q Consensus 7 ~~I~~~a~~--~~VafLt~GDP~~aTTH~~l~~ra~~-~gi-~vevIpGiSs~~ 56 (164)
.++++.+.+ -....++.|+|++.---.+++..+++ .|+ .+.+.-|.+-+.
T Consensus 49 ~~~i~~~~~~gv~~V~ltGGEPll~~~l~~li~~i~~~~gi~~v~itTNG~ll~ 102 (334)
T TIGR02666 49 ERLVRAFVGLGVRKVRLTGGEPLLRKDLVELVARLAALPGIEDIALTTNGLLLA 102 (334)
T ss_pred HHHHHHHHHCCCCEEEEECccccccCCHHHHHHHHHhcCCCCeEEEEeCchhHH
Confidence 344444432 23456688999998777778887776 588 777776665543
No 78
>cd07225 Pat_PNPLA6_PNPLA7 Patatin-like phospholipase domain containing protein 6 and protein 7. Patatin-like phospholipase domain containing protein 6 (PNPLA6) and protein 7 (PNPLA7) are 60% identical to each other. PNPLA6 is commonly known as Neuropathy Target Esterase (NTE). NTE has at least two functional domains: the N-terminal domain putatively regulatory domain and the C-terminal catalytic domain which shows esterase activity. NTE shows phospholipase activity for lysophosphatidylcholine (LPC) and phosphatidylcholine (PC). Exposure of NTE to organophosphates leads to organophosphate-induced delayed neurotoxicity (OPIDN). OPIDN is a progressive neurological condition that is characterized by weakness, paralysis, pain, and paresthesia. PNPLA7 is an insulin-regulated phospholipase that is homologous to Neuropathy Target Esterase (NTE or PNPLA6) and is also known as NTE-related esterase (NRE). Human NRE is predominantly expressed in prostate, white adipose, and pancreatic tissue. NRE
Probab=33.65 E-value=85 Score=27.32 Aligned_cols=57 Identities=14% Similarity=0.179 Sum_probs=45.7
Q ss_pred HHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccH--HHHH-HhhC
Q 031196 6 ADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASV--MNAV-GICG 62 (164)
Q Consensus 6 ~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs--~~A~-s~~G 62 (164)
.+++.....+++++++.-|==+-..-|.-++....+.||.+..|-|.|. +.|+ =.+|
T Consensus 4 ~~rl~r~l~~~~~gLvL~GGG~RG~ahiGvL~aLee~gi~~d~v~GtSaGAi~ga~ya~g 63 (306)
T cd07225 4 FSRLARVLTGNSIALVLGGGGARGCAHIGVIKALEEAGIPVDMVGGTSIGAFIGALYAEE 63 (306)
T ss_pred HHHHHHHhcCCCEEEEECChHHHHHHHHHHHHHHHHcCCCCCEEEEECHHHHHHHHHHcC
Confidence 3456666667899999999877779999999999999999999999984 4444 3445
No 79
>PF00290 Trp_syntA: Tryptophan synthase alpha chain; InterPro: IPR002028 Tryptophan synthase (4.2.1.20 from EC) catalyzes the last step in the biosynthesis of tryptophan [, ]: L-serine + 1-(indol-3-yl)glycerol 3-phosphate = L-tryptophan + glyceraldehyde 3-phosphate + H2O It has two functional domains, each found in bacteria and plants on a separate subunit. In Escherichia coli, the 2 subunits, A and B, are encoded by the trpA and trpB genes respectively. The alpha chain is for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate and the beta chain IPR006653 from INTERPRO is for the synthesis of tryptophan from indole and serine. In fungi the two domains are fused together in a single multifunctional protein, in the order: (NH2-A-B-COOH) [, ]. The two domains of the Neurospora crassa polypeptide are linked by a connector of 54-amino acid residues that has less than 25% identity to the 45-residue connector of the Saccharomyces cerevisiae (Baker's yeast) polypeptide. Two acidic residues are believed to serve as proton donors/acceptors in the enzyme's catalytic mechanism.; GO: 0004834 tryptophan synthase activity, 0006568 tryptophan metabolic process; PDB: 1TJR_B 1RD5_B 1K8X_A 1QOQ_A 1KFE_A 1KFB_A 2CLO_A 1TTP_A 2RH9_A 1K7F_A ....
Probab=33.58 E-value=34 Score=29.46 Aligned_cols=33 Identities=15% Similarity=0.320 Sum_probs=25.0
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEE
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAV 49 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevI 49 (164)
.=+.|+|.|||-.-+| ..++..+.+.|+++-=|
T Consensus 11 ~li~yitaG~P~~~~~-~~~~~~l~~~GaD~iEi 43 (259)
T PF00290_consen 11 ALIPYITAGYPDLETT-LEILKALEEAGADIIEI 43 (259)
T ss_dssp EEEEEEETTSSSHHHH-HHHHHHHHHTTBSSEEE
T ss_pred eEEEEEeCCCCCHHHH-HHHHHHHHHcCCCEEEE
Confidence 4689999999998876 66667677778765443
No 80
>PRK09330 cell division protein FtsZ; Validated
Probab=33.54 E-value=2.4e+02 Score=25.73 Aligned_cols=82 Identities=24% Similarity=0.272 Sum_probs=44.1
Q ss_pred hchHHHHHhhcccCCeEEEecC--CCCccccHHHHHHHHHhCCCcEEEEcCccHHHHHHhhCCcceecCceEEEecCCCC
Q 031196 3 EEKADKILSESQESNVAFLVVG--DPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAVGICGLQLYRFGETVSIPFFTET 80 (164)
Q Consensus 3 E~~~~~I~~~a~~~~VafLt~G--DP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~ly~fg~~vtIpf~~~~ 80 (164)
|+..++|.+.+++-|.+|++.| --...-.-.-+..-|+++|+-+- -.|+.||..++
T Consensus 85 ee~~e~I~~~l~~~D~vfI~AGmGGGTGTGaapvIA~iake~g~ltv----------------------aVvt~PF~fEG 142 (384)
T PRK09330 85 EESREEIREALEGADMVFITAGMGGGTGTGAAPVVAEIAKELGILTV----------------------AVVTKPFSFEG 142 (384)
T ss_pred HHHHHHHHHHHcCCCEEEEEecCCCcccHHHHHHHHHHHHHcCCcEE----------------------EEEecCccccc
Confidence 4555677777778899999986 22222111223344566552211 23566776654
Q ss_pred c-ccCchHHHHHHHHhcCCccEEEEecc
Q 031196 81 W-RPGSFYEKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 81 ~-~P~s~y~~I~~N~~~glHTlvLLDi~ 107 (164)
- ++..--..|++ ++...++++++|=.
T Consensus 143 ~~r~~nA~~gL~~-L~~~~D~vIvi~Nd 169 (384)
T PRK09330 143 KKRMKQAEEGIEE-LRKHVDTLIVIPND 169 (384)
T ss_pred hhHHHHHHHHHHH-HHHHCCEEEEEecH
Confidence 2 34333334433 33445888887754
No 81
>PLN02591 tryptophan synthase
Probab=33.21 E-value=47 Score=28.37 Aligned_cols=31 Identities=23% Similarity=0.304 Sum_probs=22.3
Q ss_pred CeEEEecCCCCccccHHHHHHHHHhCCCcEEE
Q 031196 17 NVAFLVVGDPFGATTHTDLVVRAKKLGIQVKA 48 (164)
Q Consensus 17 ~VafLt~GDP~~aTTH~~l~~ra~~~gi~vev 48 (164)
-|.|+|.|||-.-+| ..++....+.|+++==
T Consensus 4 li~yi~aG~P~~e~~-~~~~~~l~~~Gad~iE 34 (250)
T PLN02591 4 FIPYITAGDPDLDTT-AEALRLLDACGADVIE 34 (250)
T ss_pred eEEEEeCCCCCHHHH-HHHHHHHHHCCCCEEE
Confidence 489999999999987 4455555566766543
No 82
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=32.84 E-value=49 Score=28.40 Aligned_cols=32 Identities=22% Similarity=0.298 Sum_probs=23.1
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhCCCcEEE
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKA 48 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vev 48 (164)
.-|.|+|.|||-.-+| ..++....+.|+++-=
T Consensus 16 ali~yi~aG~P~~~~~-~~~~~~l~~~Gad~iE 47 (263)
T CHL00200 16 ALIPFITAGDPDIVIT-KKALKILDKKGADIIE 47 (263)
T ss_pred cEEEEEeCCCCCHHHH-HHHHHHHHHCCCCEEE
Confidence 4699999999998876 5555556666766543
No 83
>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=31.97 E-value=85 Score=24.14 Aligned_cols=33 Identities=30% Similarity=0.261 Sum_probs=23.6
Q ss_pred CeEEEecCCCCcc----ccHH-HHHHHHHhCCCcEEEE
Q 031196 17 NVAFLVVGDPFGA----TTHT-DLVVRAKKLGIQVKAV 49 (164)
Q Consensus 17 ~VafLt~GDP~~a----TTH~-~l~~ra~~~gi~vevI 49 (164)
++++++.||+... .++. .|...+++.|+++.-.
T Consensus 2 ~~~ii~~~~e~~~g~i~d~n~~~l~~~l~~~G~~v~~~ 39 (152)
T cd00886 2 RAAVLTVSDTRSAGEAEDRSGPALVELLEEAGHEVVAY 39 (152)
T ss_pred EEEEEEEcCcccCCCCccchHHHHHHHHHHcCCeeeeE
Confidence 5899999998875 4444 4555588889776544
No 84
>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal. This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).
Probab=31.93 E-value=1.4e+02 Score=25.15 Aligned_cols=49 Identities=22% Similarity=0.442 Sum_probs=34.1
Q ss_pred HHHHhhccc---CCeEEEecCCCCccccHHHHHHHHHhCCC-cEEEEcCccHHH
Q 031196 7 DKILSESQE---SNVAFLVVGDPFGATTHTDLVVRAKKLGI-QVKAVHNASVMN 56 (164)
Q Consensus 7 ~~I~~~a~~---~~VafLt~GDP~~aTTH~~l~~ra~~~gi-~vevIpGiSs~~ 56 (164)
..+++.+.. +.|. ++.|+|++.---.+++..+++.|+ .+.+.-+.+-+.
T Consensus 46 ~~~i~~~~~~gi~~I~-~tGGEPll~~~l~~iv~~l~~~g~~~v~i~TNG~ll~ 98 (302)
T TIGR02668 46 ERIVRVASEFGVRKVK-ITGGEPLLRKDLIEIIRRIKDYGIKDVSMTTNGILLE 98 (302)
T ss_pred HHHHHHHHHcCCCEEE-EECcccccccCHHHHHHHHHhCCCceEEEEcCchHHH
Confidence 445544432 3444 478999998777788888888888 787777665544
No 85
>TIGR01766 tspaseT_teng_C transposase, IS605 OrfB family, central region. This model represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by pfam model pfam01385, and other proteins.
Probab=31.92 E-value=92 Score=21.10 Aligned_cols=23 Identities=22% Similarity=0.247 Sum_probs=17.4
Q ss_pred chHHHHHhhcccCCeEEEecCCCC
Q 031196 4 EKADKILSESQESNVAFLVVGDPF 27 (164)
Q Consensus 4 ~~~~~I~~~a~~~~VafLt~GDP~ 27 (164)
+-+..|++.+.+ .+..+++||.-
T Consensus 11 k~a~~iv~~~~~-~~~~Ivie~L~ 33 (82)
T TIGR01766 11 KIVKQIVEYAKE-NNGTIVLEDLK 33 (82)
T ss_pred HHHHHHHHHHHH-cCCEEEECCcc
Confidence 345678888877 66889999986
No 86
>CHL00144 odpB pyruvate dehydrogenase E1 component beta subunit; Validated
Probab=31.20 E-value=1.3e+02 Score=26.49 Aligned_cols=72 Identities=11% Similarity=0.167 Sum_probs=43.0
Q ss_pred cCCeEEEecCCCCccccHHHHHH--HHHhCCCcEEEEcCccHHHHH--HhhCCcceecCceEEEecCCCCcccCchHHHH
Q 031196 15 ESNVAFLVVGDPFGATTHTDLVV--RAKKLGIQVKAVHNASVMNAV--GICGLQLYRFGETVSIPFFTETWRPGSFYEKI 90 (164)
Q Consensus 15 ~~~VafLt~GDP~~aTTH~~l~~--ra~~~gi~vevIpGiSs~~A~--s~~GL~ly~fg~~vtIpf~~~~~~P~s~y~~I 90 (164)
+.|++++..|- .+|..+.. ..++.||++++|.=-|+ .=+ ..+.-.+-+-|+.+++ ++++...++-..|
T Consensus 201 G~ditiia~G~----~v~~al~Aa~~L~~~Gi~~~VId~~~i-kPlD~~~i~~~~~~t~~vv~v---EE~~~~gGlG~~v 272 (327)
T CHL00144 201 GNDITILTYSR----MRHHVLQAVKVLVEKGYDPEIIDLISL-KPLDLGTISKSVKKTHKVLIV---EECMKTGGIGAEL 272 (327)
T ss_pred CCCEEEEEccH----HHHHHHHHHHHHHhcCCCEEEEecCcC-CCCCHHHHHHHHHhhCcEEEE---ECCCCCCCHHHHH
Confidence 57888888883 33443332 23567999999954443 211 1111123344688887 7888877776666
Q ss_pred HHHH
Q 031196 91 KRNR 94 (164)
Q Consensus 91 ~~N~ 94 (164)
-+-+
T Consensus 273 a~~l 276 (327)
T CHL00144 273 IAQI 276 (327)
T ss_pred HHHH
Confidence 5533
No 87
>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH. The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH
Probab=30.81 E-value=1.2e+02 Score=26.23 Aligned_cols=42 Identities=17% Similarity=0.111 Sum_probs=34.5
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHH
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNA 57 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A 57 (164)
-.+..++.|+|++.---.+++..++++|..+.+.-|.+-++-
T Consensus 73 ~~~V~i~GGEPLL~pdl~eiv~~~~~~g~~v~l~TNG~ll~~ 114 (318)
T TIGR03470 73 APVVSIPGGEPLLHPEIDEIVRGLVARKKFVYLCTNALLLEK 114 (318)
T ss_pred CCEEEEeCccccccccHHHHHHHHHHcCCeEEEecCceehHH
Confidence 345666889999997778889999999999999988877654
No 88
>TIGR00262 trpA tryptophan synthase, alpha subunit. Tryptophan synthase catalyzes the last step in the biosynthesis of tryptophan. The alpha chain is responsible for the aldol cleavage of indoleglycerol phosphate to indole and glyceraldehyde 3-phosphate. In bacteria and plants each domain is found on a separate subunit (alpha and beta chains), while in fungi the two domains are fused together on a single multifunctional protein. The signature pattern for trpA contains three conserved acidic residues. [LIVM]-E-[LIVM]-G-x(2)-[FYC]-[ST]-[DE]-[PA]-[LIVMY]-[AGLI]-[DE]-G and this is located between residues 43-58 of the model. The Sulfolobus solfataricus trpA is known to be quite divergent from other known trpA sequences.
Probab=30.29 E-value=57 Score=27.67 Aligned_cols=33 Identities=18% Similarity=0.357 Sum_probs=23.9
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEE
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAV 49 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevI 49 (164)
.-+.|+|.|||-.-+| ..++....+.|+++-=+
T Consensus 11 ~li~y~~aG~P~~~~~-~~~~~~l~~~Gad~iEl 43 (256)
T TIGR00262 11 AFIPFVTAGDPTLETS-LEIIKTLIEAGADALEL 43 (256)
T ss_pred eEEEEEeCCCCCHHHH-HHHHHHHHHcCCCEEEE
Confidence 4699999999998887 45555566667666544
No 89
>cd07399 MPP_YvnB Bacillus subtilis YvnB and related proteins, metallophosphatase domain. YvnB (BSU35040) is an uncharacterized Bacillus subtilis protein with a metallophosphatase domain. This family includes bacterial and eukaryotic proteins similar to YvnB. YvnB belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for
Probab=29.64 E-value=1.1e+02 Score=24.71 Aligned_cols=51 Identities=22% Similarity=0.332 Sum_probs=31.7
Q ss_pred chHHHHHhhcccCCeEEE-ecCCCCcccc-HH------HHHHHHHhCCCcEEEEcCccH
Q 031196 4 EKADKILSESQESNVAFL-VVGDPFGATT-HT------DLVVRAKKLGIQVKAVHNASV 54 (164)
Q Consensus 4 ~~~~~I~~~a~~~~VafL-t~GDP~~aTT-H~------~l~~ra~~~gi~vevIpGiSs 54 (164)
+..+.|++.+++.++.|+ ..||=.-..+ .. .++.+.++.++++-++||=--
T Consensus 22 ~~~~~i~~~~~~~~~d~iv~~GDl~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~GNHD 80 (214)
T cd07399 22 AQTDWIVDNAEALNIAFVLHLGDIVDDGDNDAEWEAADKAFARLDKAGIPYSVLAGNHD 80 (214)
T ss_pred HHHHHHHHHHHHcCCCEEEECCCccCCCCCHHHHHHHHHHHHHHHHcCCcEEEECCCCc
Confidence 344667777776666555 6699665444 21 334444446788999988655
No 90
>KOG0840 consensus ATP-dependent Clp protease, proteolytic subunit [Posttranslational modification, protein turnover, chaperones]
Probab=28.99 E-value=45 Score=29.40 Aligned_cols=13 Identities=31% Similarity=0.373 Sum_probs=11.4
Q ss_pred CCCCCCHHHHHHH
Q 031196 125 PPRYMTVNIAIEQ 137 (164)
Q Consensus 125 ~~r~Mt~~~A~~~ 137 (164)
.+|||++.||.+.
T Consensus 236 Rd~fmsa~EA~ey 248 (275)
T KOG0840|consen 236 RDRFMSAEEAKEY 248 (275)
T ss_pred ccccCCHHHHHHh
Confidence 4899999999885
No 91
>TIGR02494 PFLE_PFLC glycyl-radical enzyme activating protein family. This subset of the radical-SAM family (pfam04055) includes a number of probable activating proteins acting on different enzymes all requiring an amino-acid-centered radical. The closest relatives to this family are the pyruvate-formate lyase activating enzyme (PflA, 1.97.1.4, TIGR02493) and the anaerobic ribonucleotide reductase activating enzyme (TIGR02491). Included within this subfamily are activators of hydroxyphenyl acetate decarboxylase (HdpA, ), benzylsuccinate synthase (BssD, ), gycerol dehydratase (DhaB2, ) as well as enzymes annotated in E. coli as activators of different isozymes of pyruvate-formate lyase (PFLC and PFLE) however, these appear to lack characterization and may activate enzymes with distinctive functions. Most of the sequence-level variability between these forms is concentrated within an N-terminal domain which follows a conserved group of three cysteines and contains a variable pattern of 0
Probab=28.57 E-value=1e+02 Score=25.85 Aligned_cols=37 Identities=16% Similarity=0.195 Sum_probs=28.6
Q ss_pred EEEecCCCCccccHH-HHHHHHHhCCCcEEEEcCccHH
Q 031196 19 AFLVVGDPFGATTHT-DLVVRAKKLGIQVKAVHNASVM 55 (164)
Q Consensus 19 afLt~GDP~~aTTH~-~l~~ra~~~gi~vevIpGiSs~ 55 (164)
..++.|+|+..--.. .++.++++.|+.+.+.-+-+..
T Consensus 129 V~~sGGEPll~~~~l~~l~~~~k~~g~~~~i~TnG~~~ 166 (295)
T TIGR02494 129 VTLSGGEPLLQPEFALALLQACHERGIHTAVETSGFTP 166 (295)
T ss_pred EEeeCcchhchHHHHHHHHHHHHHcCCcEeeeCCCCCC
Confidence 455679999988764 7888999999988887665543
No 92
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=28.48 E-value=43 Score=19.75 Aligned_cols=11 Identities=55% Similarity=0.673 Sum_probs=9.4
Q ss_pred CCCHHHHHHHH
Q 031196 128 YMTVNIAIEQL 138 (164)
Q Consensus 128 ~Mt~~~A~~~L 138 (164)
|||+.||++.|
T Consensus 1 ~lt~~e~a~~l 11 (49)
T TIGR01764 1 YLTVEEAAEYL 11 (49)
T ss_pred CCCHHHHHHHH
Confidence 78999999876
No 93
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=28.33 E-value=1.1e+02 Score=24.31 Aligned_cols=33 Identities=27% Similarity=0.387 Sum_probs=24.5
Q ss_pred CeEEEecCCCCcc-----ccHHHHHHHHHhCCCcEEEE
Q 031196 17 NVAFLVVGDPFGA-----TTHTDLVVRAKKLGIQVKAV 49 (164)
Q Consensus 17 ~VafLt~GDP~~a-----TTH~~l~~ra~~~gi~vevI 49 (164)
+|++++.||.... |+...|..++++.|+++.-+
T Consensus 1 ~v~Ii~~GdEl~~G~i~d~n~~~l~~~L~~~G~~v~~~ 38 (170)
T cd00885 1 TAEIIAIGDELLSGQIVDTNAAFLAKELAELGIEVYRV 38 (170)
T ss_pred CEEEEEECccccCCeEEEhHHHHHHHHHHHCCCEEEEE
Confidence 4789999998876 44557777788889877543
No 94
>PF14488 DUF4434: Domain of unknown function (DUF4434)
Probab=27.81 E-value=1.3e+02 Score=24.01 Aligned_cols=65 Identities=23% Similarity=0.360 Sum_probs=46.0
Q ss_pred CCcccCchHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCC-CCCHHHHHHHHHHHHHHhCCC
Q 031196 79 ETWRPGSFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPR-YMTVNIAIEQLLEVELLQGES 148 (164)
Q Consensus 79 ~~~~P~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r-~Mt~~~A~~~Lle~e~~~~~~ 148 (164)
.+|-|..+-..+..=.+.|++|||+....-+.... .+.+. .+++ +|.....++.+|+..++.+-.
T Consensus 15 ~~~~~~~W~~~~~~m~~~GidtlIlq~~~~~~~~~----yps~~-~~~~~~~~~~d~l~~~L~~A~~~Gmk 80 (166)
T PF14488_consen 15 QNWTPAQWREEFRAMKAIGIDTLILQWTGYGGFAF----YPSKL-SPGGFYMPPVDLLEMILDAADKYGMK 80 (166)
T ss_pred cCCCHHHHHHHHHHHHHcCCcEEEEEEeecCCccc----CCccc-cCccccCCcccHHHHHHHHHHHcCCE
Confidence 48888888888888889999999999776543111 11222 2233 378889999999998886543
No 95
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=27.31 E-value=1.5e+02 Score=25.62 Aligned_cols=50 Identities=22% Similarity=0.227 Sum_probs=32.9
Q ss_pred HHHHhhccc--CCeEEEecCCCCccccHHHHHHHHHhCC-C-cEEEEcCccHHH
Q 031196 7 DKILSESQE--SNVAFLVVGDPFGATTHTDLVVRAKKLG-I-QVKAVHNASVMN 56 (164)
Q Consensus 7 ~~I~~~a~~--~~VafLt~GDP~~aTTH~~l~~ra~~~g-i-~vevIpGiSs~~ 56 (164)
..+++.+.+ -....++.|+|++..--.+++.++++.+ + ++.+.-|-+-+.
T Consensus 51 ~~li~~~~~~Gv~~I~~tGGEPllr~dl~~li~~i~~~~~l~~i~itTNG~ll~ 104 (329)
T PRK13361 51 AWLAQAFTELGVRKIRLTGGEPLVRRGCDQLVARLGKLPGLEELSLTTNGSRLA 104 (329)
T ss_pred HHHHHHHHHCCCCEEEEECcCCCccccHHHHHHHHHhCCCCceEEEEeChhHHH
Confidence 344444432 2345668899999877778888888765 4 576666665554
No 96
>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein. Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.
Probab=27.19 E-value=1.6e+02 Score=22.94 Aligned_cols=36 Identities=11% Similarity=0.193 Sum_probs=27.4
Q ss_pred CeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCcc
Q 031196 17 NVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNAS 53 (164)
Q Consensus 17 ~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiS 53 (164)
.-+-++.|+ +.+.-=..++.+++++|+.+.+..|-+
T Consensus 63 ~gVt~SGGE-l~~~~l~~ll~~lk~~Gl~i~l~Tg~~ 98 (147)
T TIGR02826 63 SCVLFLGGE-WNREALLSLLKIFKEKGLKTCLYTGLE 98 (147)
T ss_pred CEEEEechh-cCHHHHHHHHHHHHHCCCCEEEECCCC
Confidence 456678899 666545578888999999998887744
No 97
>PF04430 DUF498: Protein of unknown function (DUF498/DUF598); InterPro: IPR007523 NADH:ubiquinone oxidoreductase (complex I) (1.6.5.3 from EC) is a respiratory-chain enzyme that catalyses the transfer of two electrons from NADH to ubiquinone in a reaction that is associated with proton translocation across the membrane (NADH + ubiquinone = NAD+ + ubiquinol) []. Complex I is a major source of reactive oxygen species (ROS) that are predominantly formed by electron transfer from FMNH(2). Complex I is found in bacteria, cyanobacteria (as a NADH-plastoquinone oxidoreductase), archaea [], mitochondira, and in the hydrogenosome, a mitochondria-derived organelle. In general, the bacterial complex consists of 14 different subunits, while the mitochondrial complex contains homologues to these subunits in addition to approximately 31 additional proteins []. Mitochondrial complex I, which is located in the inner mitochondrial membrane, is the largest multimeric respiratory enzyme in the mitochondria, consisting of more than 40 subunits, one FMN co-factor and eight FeS clusters []. The assembly of mitochondrial complex I is an intricate process that requires the cooperation of the nuclear and mitochondrial genomes [, ]. Mitochondrial complex I can cycle between active and deactive forms that can be distinguished by the reactivity towards divalent cations and thiol-reactive agents. All redox prosthetic groups reside in the peripheral arm of the L-shaped structure. The NADH oxidation domain harbouring the FMN cofactor is connected via a chain of iron-sulphur clusters to the ubiquinone reduction site that is located in a large pocket formed by the PSST and 49kDa subunits of complex I []. This is entry represents an essential factor for the assembly of mitochondrial NADH:ubiquinone oxidoreductase complex (complex I) []. The crystal structure of this protein revealed a 3-layer beta+alpha/beta/alpha topology [].; PDB: 2K2E_A 2Q4Q_B 2AB1_A 2FVT_A 2CYJ_A 1IHN_B 2GM2_A 3CPK_A 2FI9_A.
Probab=26.67 E-value=1.8e+02 Score=21.28 Aligned_cols=36 Identities=19% Similarity=0.234 Sum_probs=26.8
Q ss_pred cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcC
Q 031196 15 ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHN 51 (164)
Q Consensus 15 ~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpG 51 (164)
+=++.++=-|.. ...-+-.+....+++||.+++.+-
T Consensus 53 ~pe~liiGtG~~-~~~~~~~~~~~l~~~GI~ve~m~T 88 (110)
T PF04430_consen 53 KPEVLIIGTGKR-QLFLPPELREYLRKKGIGVEVMDT 88 (110)
T ss_dssp S-SEEEEEETTS--SECTHHHHHHHHTTT-EEEEE-H
T ss_pred CCcEEEEccCCc-cccCCHHHHHHHHHcCCeEEEECH
Confidence 346777777888 667778999999999999999953
No 98
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=26.60 E-value=1.1e+02 Score=26.25 Aligned_cols=33 Identities=15% Similarity=0.356 Sum_probs=24.3
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEE
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAV 49 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevI 49 (164)
.-+.|+|.|||-.-+| ..++....+.|++.-=+
T Consensus 13 ~li~yi~aG~P~~~~~-~~~~~~l~~~Gad~iEl 45 (258)
T PRK13111 13 ALIPYITAGDPDLETS-LEIIKALVEAGADIIEL 45 (258)
T ss_pred cEEEEEeCCCCCHHHH-HHHHHHHHHCCCCEEEE
Confidence 4799999999999987 55555566667666544
No 99
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=26.29 E-value=86 Score=27.53 Aligned_cols=48 Identities=27% Similarity=0.438 Sum_probs=34.1
Q ss_pred hHHHHHhhcccCCeEEE-ecCCCC------cc--ccHHHHHHHHHhCCCcEEEEcCc
Q 031196 5 KADKILSESQESNVAFL-VVGDPF------GA--TTHTDLVVRAKKLGIQVKAVHNA 52 (164)
Q Consensus 5 ~~~~I~~~a~~~~VafL-t~GDP~------~a--TTH~~l~~ra~~~gi~vevIpGi 52 (164)
..+++++.|++.+|-|+ ..||=| .. -.....+.+.++.||+|-+|||=
T Consensus 28 ~f~~~l~~a~~~~vD~vliAGDlFd~~~Ps~~a~~~~~~~l~~l~~~~Ipv~~I~GN 84 (390)
T COG0420 28 AFDELLEIAKEEKVDFVLIAGDLFDTNNPSPRALKLFLEALRRLKDAGIPVVVIAGN 84 (390)
T ss_pred HHHHHHHHHHHccCCEEEEccccccCCCCCHHHHHHHHHHHHHhccCCCcEEEecCC
Confidence 34668888998888665 559833 22 23456667777789999999994
No 100
>PF03033 Glyco_transf_28: Glycosyltransferase family 28 N-terminal domain; InterPro: IPR004276 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 28 GT28 from CAZY comprises enzymes with a number of known activities; 1,2-diacylglycerol 3-beta-galactosyltransferase (2.4.1.46 from EC); 1,2-diacylglycerol 3-beta-glucosyltransferase (2.4.1.157 from EC); beta-N-acetylglucosamine transferase (2.4.1 from EC).; GO: 0016758 transferase activity, transferring hexosyl groups, 0005975 carbohydrate metabolic process, 0030259 lipid glycosylation; PDB: 2IYF_B 2YJN_A 2P6P_A 1PNV_A 3H4T_A 3H4I_A 1PN3_B 3IA7_B 1NLM_B 1F0K_B ....
Probab=25.71 E-value=1.7e+02 Score=21.02 Aligned_cols=39 Identities=15% Similarity=0.211 Sum_probs=26.9
Q ss_pred HHHHHHHHhCCCcEEEEcCccHHHHHHhhCCcceecCce
Q 031196 33 TDLVVRAKKLGIQVKAVHNASVMNAVGICGLQLYRFGET 71 (164)
Q Consensus 33 ~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~ly~fg~~ 71 (164)
..|-.+.+++|.+|.+.-+-..-..+...|++...++..
T Consensus 16 lala~~L~~rGh~V~~~~~~~~~~~v~~~Gl~~~~~~~~ 54 (139)
T PF03033_consen 16 LALARALRRRGHEVRLATPPDFRERVEAAGLEFVPIPGD 54 (139)
T ss_dssp HHHHHHHHHTT-EEEEEETGGGHHHHHHTT-EEEESSSC
T ss_pred HHHHHHHhccCCeEEEeecccceecccccCceEEEecCC
Confidence 457778899999999776655445568899987766555
No 101
>PF08401 DUF1738: Domain of unknown function (DUF1738); InterPro: IPR013610 This region is found in a number of bacterial hypothetical proteins. Some members are annotated as being similar to replication primases, and in fact this region is often found together with the Toprim domain (IPR006171 from INTERPRO).
Probab=25.68 E-value=37 Score=25.74 Aligned_cols=41 Identities=27% Similarity=0.325 Sum_probs=24.6
Q ss_pred chHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCCCCCCCCHHHHHH
Q 031196 85 SFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYEPPRYMTVNIAIE 136 (164)
Q Consensus 85 s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~~~r~Mt~~~A~~ 136 (164)
-|++-+..+.-+|.-.|.|. +... + +-|..|||||.+||-+
T Consensus 36 ~P~N~~tg~~Y~G~N~l~L~-~~~~-------~---~gy~~prw~Tf~Qak~ 76 (125)
T PF08401_consen 36 MPHNAITGRPYRGINALLLW-LAAE-------E---NGYKDPRWMTFKQAKE 76 (125)
T ss_pred ccccccCCCceeeehHHHHH-HHHH-------H---cCCCCCcEEcHHHHHH
Confidence 34444444455565555443 3322 1 3488899999999876
No 102
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=24.96 E-value=1.8e+02 Score=23.59 Aligned_cols=33 Identities=27% Similarity=0.272 Sum_probs=20.4
Q ss_pred CeEEEecCCCCccccHHHHHHHHHhCCCcEEEE
Q 031196 17 NVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAV 49 (164)
Q Consensus 17 ~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevI 49 (164)
.-+||++|-++.-.....+...++++|..+-+|
T Consensus 165 ~dl~lvlGTsl~v~p~~~l~~~~~~~~~~~i~i 197 (224)
T cd01412 165 ADLFLVIGTSGVVYPAAGLPEEAKERGARVIEI 197 (224)
T ss_pred CCEEEEECcCccchhHHHHHHHHHHCCCeEEEE
Confidence 346667777666555566666666666655555
No 103
>COG0244 RplJ Ribosomal protein L10 [Translation, ribosomal structure and biogenesis]
Probab=24.87 E-value=3.7e+02 Score=21.62 Aligned_cols=100 Identities=21% Similarity=0.180 Sum_probs=64.3
Q ss_pred HHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHHHhhCCc---ceecCceEEEecCCCCccc
Q 031196 7 DKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAVGICGLQ---LYRFGETVSIPFFTETWRP 83 (164)
Q Consensus 7 ~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~---ly~fg~~vtIpf~~~~~~P 83 (164)
+++-+..++....+++-=.=+.++-=.+|+.++++.|.+++++-|-=..-|+..+|.. -|=-|.+ .|-|..+ -|
T Consensus 13 ~el~e~~~~s~~~~i~dy~Gl~~~ql~~lR~~lr~~g~~lkV~KNtL~~rAl~~~~~e~l~~~l~Gp~-ai~fs~~--dp 89 (175)
T COG0244 13 AELKELIKESPSVVIVDYRGLTVAQLTELRKKLREAGAKLKVVKNTLLRRALEEAGLEGLDDLLKGPT-AIAFSNE--DP 89 (175)
T ss_pred HHHHHHHhhCCEEEEEEeCCCcHHHHHHHHHHHHhCCcEEEEEhhHHHHHHHHhcchhhHHHhccCCe-EEEEecC--CH
Confidence 3444555554444444423333333467888889889999999997666676555655 4444544 5656554 58
Q ss_pred CchHHHHHHHHhcCCccEEEEecccCC
Q 031196 84 GSFYEKIKRNRSLGLHTLCLLDIRVKE 110 (164)
Q Consensus 84 ~s~y~~I~~N~~~glHTlvLLDi~~~e 110 (164)
...+..++++.+.. |...-+|+-.-+
T Consensus 90 ~~~~K~~~~f~k~~-~~~~~~~~~~~e 115 (175)
T COG0244 90 VAAAKLLKDFAKEA-GDKAPIKGGVPE 115 (175)
T ss_pred HHHHHHHHHHhhhh-cccceEEEEEec
Confidence 88899999998885 566666766533
No 104
>PLN02335 anthranilate synthase
Probab=24.72 E-value=96 Score=25.58 Aligned_cols=38 Identities=18% Similarity=0.255 Sum_probs=29.5
Q ss_pred Hhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcC
Q 031196 10 LSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHN 51 (164)
Q Consensus 10 ~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpG 51 (164)
+...+ .+.|.++--||.+.+. |....+++|+++++++.
T Consensus 12 ~~~~~~~~~ilviD~~dsft~~----i~~~L~~~g~~~~v~~~ 50 (222)
T PLN02335 12 INSSKQNGPIIVIDNYDSFTYN----LCQYMGELGCHFEVYRN 50 (222)
T ss_pred hcccCccCcEEEEECCCCHHHH----HHHHHHHCCCcEEEEEC
Confidence 34444 4788888888976665 77778888999999997
No 105
>COG2518 Pcm Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=24.71 E-value=1.1e+02 Score=25.72 Aligned_cols=78 Identities=14% Similarity=0.254 Sum_probs=48.2
Q ss_pred HHHhhcc-cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHHHhhCCcceecCceEEEecCC--CCcccC
Q 031196 8 KILSESQ-ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAVGICGLQLYRFGETVSIPFFT--ETWRPG 84 (164)
Q Consensus 8 ~I~~~a~-~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~ly~fg~~vtIpf~~--~~~~P~ 84 (164)
.+++.++ +..=..|-+|-...|. +.++-+.-. .|-+|-=+..+...++-.|.-...+. |++-+-+ .+|-+.
T Consensus 63 ~m~~~L~~~~g~~VLEIGtGsGY~--aAvla~l~~---~V~siEr~~~L~~~A~~~L~~lg~~n-V~v~~gDG~~G~~~~ 136 (209)
T COG2518 63 RMLQLLELKPGDRVLEIGTGSGYQ--AAVLARLVG---RVVSIERIEELAEQARRNLETLGYEN-VTVRHGDGSKGWPEE 136 (209)
T ss_pred HHHHHhCCCCCCeEEEECCCchHH--HHHHHHHhC---eEEEEEEcHHHHHHHHHHHHHcCCCc-eEEEECCcccCCCCC
Confidence 3455555 4556778999999887 455555444 55555555666655555555555544 6665544 366677
Q ss_pred chHHHHH
Q 031196 85 SFYEKIK 91 (164)
Q Consensus 85 s~y~~I~ 91 (164)
.|||+|.
T Consensus 137 aPyD~I~ 143 (209)
T COG2518 137 APYDRII 143 (209)
T ss_pred CCcCEEE
Confidence 8888774
No 106
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=24.64 E-value=1e+02 Score=24.43 Aligned_cols=38 Identities=11% Similarity=-0.018 Sum_probs=17.9
Q ss_pred HHHHHHHhCCCcEEEEcCcc-H---HHHHHhhCCcceecCce
Q 031196 34 DLVVRAKKLGIQVKAVHNAS-V---MNAVGICGLQLYRFGET 71 (164)
Q Consensus 34 ~l~~ra~~~gi~vevIpGiS-s---~~A~s~~GL~ly~fg~~ 71 (164)
.+.......+++--++-+.. . +..+-..|+|+.-+|..
T Consensus 55 ~~~~~l~~~~~dgiii~~~~~~~~~~~~~~~~~ipvV~~~~~ 96 (275)
T cd06295 55 WLARYLASGRADGVILIGQHDQDPLPERLAETGLPFVVWGRP 96 (275)
T ss_pred HHHHHHHhCCCCEEEEeCCCCChHHHHHHHhCCCCEEEECCc
Confidence 33333444566655554332 1 11123457776666653
No 107
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=24.52 E-value=4e+02 Score=21.85 Aligned_cols=18 Identities=22% Similarity=0.311 Sum_probs=10.4
Q ss_pred HHHHHHHHhCCCcEEEEc
Q 031196 33 TDLVVRAKKLGIQVKAVH 50 (164)
Q Consensus 33 ~~l~~ra~~~gi~vevIp 50 (164)
-.+...|+..|++..+++
T Consensus 46 ~~~~~~A~~lgip~~~i~ 63 (218)
T TIGR03679 46 ELTRLQAEALGIPLVKIE 63 (218)
T ss_pred HHHHHHHHHhCCCEEEEE
Confidence 334445666677766664
No 108
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=24.45 E-value=1.8e+02 Score=23.87 Aligned_cols=44 Identities=18% Similarity=0.235 Sum_probs=35.0
Q ss_pred cCCeEEEecCCCCccccHHHHHHHHHhCCCcEE----EEcCccHHHHH
Q 031196 15 ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVK----AVHNASVMNAV 58 (164)
Q Consensus 15 ~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~ve----vIpGiSs~~A~ 58 (164)
.+.|+++...||.....+..+...+++.|+++- +=+|.+.+++.
T Consensus 135 ~~~v~iv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~~d~~~~ 182 (343)
T PF13458_consen 135 AKKVAIVYPDDPYGRSLAEAFRKALEAAGGKVVGEIRYPPGDTDFSAL 182 (343)
T ss_dssp TSEEEEEEESSHHHHHHHHHHHHHHHHTTCEEEEEEEE-TTSSHHHHH
T ss_pred CcEEEEEecCchhhhHHHHHHHHHHhhcCceeccceecccccccchHH
Confidence 379999999999998888888888999998862 23477777764
No 109
>PF12728 HTH_17: Helix-turn-helix domain
Probab=24.27 E-value=56 Score=20.21 Aligned_cols=11 Identities=55% Similarity=0.673 Sum_probs=9.2
Q ss_pred CCCHHHHHHHH
Q 031196 128 YMTVNIAIEQL 138 (164)
Q Consensus 128 ~Mt~~~A~~~L 138 (164)
|||+.||++.|
T Consensus 1 ~lt~~e~a~~l 11 (51)
T PF12728_consen 1 YLTVKEAAELL 11 (51)
T ss_pred CCCHHHHHHHH
Confidence 68999998876
No 110
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=24.11 E-value=1.9e+02 Score=23.95 Aligned_cols=35 Identities=17% Similarity=0.304 Sum_probs=23.2
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEc
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVH 50 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIp 50 (164)
+.-.||++|-++.-.....+...|+++|..+-+|+
T Consensus 177 ~~dl~lviGTsl~V~p~~~l~~~~~~~~~~~i~iN 211 (242)
T PRK00481 177 EADLFIVIGTSLVVYPAAGLPYEAREHGAKTVEIN 211 (242)
T ss_pred cCCEEEEECCCceEcCHhHHHHHHHHCCCeEEEEC
Confidence 33557778877766556666666777777766663
No 111
>TIGR01380 glut_syn glutathione synthetase, prokaryotic. This model was built using glutathione synthetases found in Gram-negative bacteria. This gene does not appear to be present in genomes of Gram-positive bacteria. Glutathione synthetase has an ATP-binding domain in the COOH terminus and catalyzes the second step in the glutathione biosynthesis pathway: ATP + gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate + glutathione. Glutathione is a tripeptide that functions as a reductant in many cellular reactions.
Probab=23.83 E-value=1.1e+02 Score=26.46 Aligned_cols=31 Identities=32% Similarity=0.400 Sum_probs=24.1
Q ss_pred CeEEEecCCCCcc-----ccHHHHHHHHHhCCCcEEEE
Q 031196 17 NVAFLVVGDPFGA-----TTHTDLVVRAKKLGIQVKAV 49 (164)
Q Consensus 17 ~VafLt~GDP~~a-----TTH~~l~~ra~~~gi~vevI 49 (164)
+++|+. ||.-. .|-..|+..|+++|+++.++
T Consensus 2 ~~~~~~--~~~~~~~~~~~st~~L~~aa~~rG~~v~~~ 37 (312)
T TIGR01380 2 KVAFQM--DPIESINIGKDTTFALMEEAQKRGHELFFY 37 (312)
T ss_pred eEEEEe--CCHHHCCCCcChHHHHHHHHHHcCCEEEEE
Confidence 467776 76654 34478999999999999988
No 112
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=23.69 E-value=55 Score=25.24 Aligned_cols=45 Identities=31% Similarity=0.408 Sum_probs=30.2
Q ss_pred hcCCccEEEEecccCCchhhhh-hcCCccCCCCCCCCHHHHHHHHHHHH
Q 031196 95 SLGLHTLCLLDIRVKEPSLESL-CRGKKLYEPPRYMTVNIAIEQLLEVE 142 (164)
Q Consensus 95 ~~glHTlvLLDi~~~e~~~e~~-~~g~~~~~~~r~Mt~~~A~~~Lle~e 142 (164)
+.|-..++.=.|. ++.++-+ ..|.+.|..++ +|+.||++++++-+
T Consensus 63 ~~gvdvvi~~~iG--~~a~~~l~~~GIkv~~~~~-~~V~e~i~~~~~g~ 108 (121)
T COG1433 63 DEGVDVVIASNIG--PNAYNALKAAGIKVYVAPG-GTVEEAIKAFLEGE 108 (121)
T ss_pred HcCCCEEEECccC--HHHHHHHHHcCcEEEecCC-CCHHHHHHHHhcCC
Confidence 3444445444443 3344444 34899999998 99999999998754
No 113
>cd01335 Radical_SAM Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. Mechanistically, they share the transfer of a single electron from the iron-sulfur cluster to SAM, which leads to its reductive cleavage to methionine and a 5'-deoxyadenosyl radical, which, in turn, abstracts a hydrogen from the appropriately positioned carbon atom. Depending on the enzyme, SAM is consumed during this process or it is restored and reused. Radical SAM enzymes catalyze steps in metabolism, DNA repair, the biosynthesis of vitamins and coenzymes, and the biosynthesis of many antibiotics. Examples are biotin synthase (BioB), lipoyl synthase (LipA), pyruvate formate-lyase (PFL), coproporphyrinogen oxidase (HemN), lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide reductase (ARR), and MoaA, an enzyme o
Probab=23.62 E-value=2.5e+02 Score=20.38 Aligned_cols=39 Identities=26% Similarity=0.401 Sum_probs=28.2
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhC--CCcEEEEcCccH
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKL--GIQVKAVHNASV 54 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~--gi~vevIpGiSs 54 (164)
....+++.|||+...-..+++.++++. ++.+.+.-+...
T Consensus 45 ~~~i~~~ggep~~~~~~~~~i~~~~~~~~~~~~~i~T~~~~ 85 (204)
T cd01335 45 VEVVILTGGEPLLYPELAELLRRLKKELPGFEISIETNGTL 85 (204)
T ss_pred ceEEEEeCCcCCccHhHHHHHHHHHhhCCCceEEEEcCccc
Confidence 566677889999998556667777776 777777655554
No 114
>PF11495 Regulator_TrmB: Archaeal transcriptional regulator TrmB; InterPro: IPR021586 TrmB is an alpha-glucoside sensing transcriptional regulator. The protein is the transcriptional repressor for gene cluster encoding trehalose/maltose ABC transporter in T.litoralis and P.furiosus []. TrmB has lost its DNA binding domain but retained its sugar recognition site. A nonreducing glucosyl residue is shared by all substrates bound to TrmB which suggests that its a common recognition motif []. ; PDB: 3QPH_A 2F5T_X.
Probab=23.56 E-value=1.5e+02 Score=24.33 Aligned_cols=43 Identities=19% Similarity=0.281 Sum_probs=27.8
Q ss_pred chHHHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEE
Q 031196 4 EKADKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAV 49 (164)
Q Consensus 4 ~~~~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevI 49 (164)
+.++++++.|+ ..+-+-+. |-....+.+-+.+|.++|+.|.++
T Consensus 13 ~~i~elI~~Ae-~eI~is~~--~~~l~~l~~~L~~a~~rGV~V~li 55 (233)
T PF11495_consen 13 ERIRELIENAE-SEIYISIP--PEFLEELRDELEEAVDRGVKVKLI 55 (233)
T ss_dssp HHHHHHHHC-S-SEEEEEE---GGGHHHHHHHHHHHHHTT-EEEEE
T ss_pred HHHHHHHHHhh-eEEEEEcC--HHHHHHHHHHHHHHHHCCCEEEEE
Confidence 44566777776 44544443 445566777888899999999876
No 115
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=23.54 E-value=2e+02 Score=25.08 Aligned_cols=61 Identities=20% Similarity=0.234 Sum_probs=39.8
Q ss_pred HHHHhhcccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHHHhhCCcceecCceEEEe
Q 031196 7 DKILSESQESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAVGICGLQLYRFGETVSIP 75 (164)
Q Consensus 7 ~~I~~~a~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~ly~fg~~vtIp 75 (164)
+++.+.|++-| +++++|++.-+-| .-|..-|++.|.++--|-+++-+..- ..+..+++-|.
T Consensus 201 ~a~~~La~~vD-~miVIGg~~SsNT-~kL~eia~~~~~~t~~Ie~~~el~~~------~l~~~~~VGIt 261 (281)
T PF02401_consen 201 EAARELAKEVD-AMIVIGGKNSSNT-RKLAEIAKEHGKPTYHIETADELDPE------WLKGVKKVGIT 261 (281)
T ss_dssp HHHHHHHCCSS-EEEEES-TT-HHH-HHHHHHHHHCTTCEEEESSGGG--HH------HHTT-SEEEEE
T ss_pred HHHHHHHhhCC-EEEEecCCCCccH-HHHHHHHHHhCCCEEEeCCccccCHh------HhCCCCEEEEE
Confidence 55677777767 6778888888743 55777799999999999999866532 22334566663
No 116
>PF03192 DUF257: Pyrococcus protein of unknown function, DUF257; InterPro: IPR005489 This family of proteins is of unknown function.; PDB: 2EKD_C.
Probab=23.23 E-value=84 Score=26.16 Aligned_cols=42 Identities=31% Similarity=0.317 Sum_probs=25.5
Q ss_pred ceecCceEEEecCCCCcccCchHHHHHHHHhcCCccEEEEecc
Q 031196 65 LYRFGETVSIPFFTETWRPGSFYEKIKRNRSLGLHTLCLLDIR 107 (164)
Q Consensus 65 ly~fg~~vtIpf~~~~~~P~s~y~~I~~N~~~glHTlvLLDi~ 107 (164)
--+||++|-|=|++.....-.+|.-++.-.++| +.++..|+=
T Consensus 7 ~~k~GE~VLVEy~S~~~~el~~~~li~~~~~~~-~~vlI~Dil 48 (210)
T PF03192_consen 7 SIKPGETVLVEYSSSSPPELLFYELIKWAREKG-YPVLIDDIL 48 (210)
T ss_dssp TS-TT-EEEEEE-TTS-THHHHHHHHH---T-S-S-BEEEEET
T ss_pred cCCCCCEEEEEeCCCCcHHHHHHHHHHHhhhcC-CCEEEEEcC
Confidence 458999999988775544557888888888888 667777875
No 117
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=22.99 E-value=1.3e+02 Score=23.53 Aligned_cols=31 Identities=10% Similarity=0.028 Sum_probs=14.3
Q ss_pred hCCCcEEEEcCccH----HHHHHhhCCcceecCce
Q 031196 41 KLGIQVKAVHNASV----MNAVGICGLQLYRFGET 71 (164)
Q Consensus 41 ~~gi~vevIpGiSs----~~A~s~~GL~ly~fg~~ 71 (164)
+.+++--++.+.+. +..+...|.|+--+++.
T Consensus 57 ~~~vdgiii~~~~~~~~~~~~~~~~~ipvV~~~~~ 91 (268)
T cd06271 57 SGLVDGVIISRTRPDDPRVALLLERGFPFVTHGRT 91 (268)
T ss_pred cCCCCEEEEecCCCCChHHHHHHhcCCCEEEECCc
Confidence 34566555544321 11123456666656543
No 118
>PF03465 eRF1_3: eRF1 domain 3; InterPro: IPR005142 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination but this awaits experimental verification.; PDB: 3OBY_A 3E1Y_D 1DT9_A 2KTU_A 2KTV_A 3IR9_A 3E20_H 3OBW_A 3AGJ_F 3MCA_B ....
Probab=22.94 E-value=98 Score=23.01 Aligned_cols=63 Identities=21% Similarity=0.292 Sum_probs=40.4
Q ss_pred HHHHHhhcccCCeEEEecCCCCcccc-------------------HHHHHHHHHhCCCcEEEEcCccHHHHHHhhCCcc-
Q 031196 6 ADKILSESQESNVAFLVVGDPFGATT-------------------HTDLVVRAKKLGIQVKAVHNASVMNAVGICGLQL- 65 (164)
Q Consensus 6 ~~~I~~~a~~~~VafLt~GDP~~aTT-------------------H~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~l- 65 (164)
.+++.+.+..+.|--|.+-|=+..+- --.++..|++.|.+|++||.-+. .|.++
T Consensus 26 ~~eV~~Al~~GaV~~LlI~d~l~~~~~~~r~~~~~~~~~~~~~~~i~~l~~~a~~~g~~v~iis~~~e------~G~~L~ 99 (113)
T PF03465_consen 26 IEEVKKALEMGAVETLLISDDLFRSRDVERCKCPECGGELEVVELIEELIELAEQSGAKVEIISSEHE------EGEQLL 99 (113)
T ss_dssp HHHHHHHHHTT-EEEEEEEHHHHTESCHHHHHSTTTHSEEEEEEHHHHHHHHHHHTTSEEEEE-TTSH------HHHHHH
T ss_pred HHHHHHHHHhCCCcEEEEecccccccceeccccccccchhhhHHHHHHHHHHHHHcCCEEEEEcCCCc------cHHHHH
Confidence 34555555556666666555444432 36788889999999999987643 45556
Q ss_pred eecCceEEE
Q 031196 66 YRFGETVSI 74 (164)
Q Consensus 66 y~fg~~vtI 74 (164)
-.||..+.|
T Consensus 100 ~~~gGIaai 108 (113)
T PF03465_consen 100 KGFGGIAAI 108 (113)
T ss_dssp HCTTTEEEE
T ss_pred hcCCcEEEE
Confidence 667777666
No 119
>PRK13789 phosphoribosylamine--glycine ligase; Provisional
Probab=22.71 E-value=92 Score=28.23 Aligned_cols=37 Identities=30% Similarity=0.412 Sum_probs=20.7
Q ss_pred hHHHHHhhcccCCeEEEecC--CCCccccHHHHHHHHHhCCCc
Q 031196 5 KADKILSESQESNVAFLVVG--DPFGATTHTDLVVRAKKLGIQ 45 (164)
Q Consensus 5 ~~~~I~~~a~~~~VafLt~G--DP~~aTTH~~l~~ra~~~gi~ 45 (164)
+.+.|++.|++.++-++++| ||++.+ +...+.+.|+.
T Consensus 56 d~~~l~~~a~~~~iD~Vv~g~E~~l~~g----lad~~~~~Gip 94 (426)
T PRK13789 56 DKSSVQSFLKSNPFDLIVVGPEDPLVAG----FADWAAELGIP 94 (426)
T ss_pred CHHHHHHHHHHcCCCEEEECCchHHHHH----HHHHHHHcCCC
Confidence 44566676776555555443 666554 44445556654
No 120
>TIGR02009 PGMB-YQAB-SF beta-phosphoglucomutase family hydrolase. All of these are members of the larger Haloacid dehalogenase (HAD) subfamily IA and include the "variant 3" glu-asp version of the third conserved HAD domain (TIGR01509).
Probab=22.11 E-value=3.4e+02 Score=20.30 Aligned_cols=69 Identities=17% Similarity=0.197 Sum_probs=41.7
Q ss_pred HHHHHHHHhCCCcEEEEcCccHHHHH-HhhCCcceecCceEEEecCCCCcccCc-hHHHHHHHHhcCCccEEE
Q 031196 33 TDLVVRAKKLGIQVKAVHNASVMNAV-GICGLQLYRFGETVSIPFFTETWRPGS-FYEKIKRNRSLGLHTLCL 103 (164)
Q Consensus 33 ~~l~~ra~~~gi~vevIpGiSs~~A~-s~~GL~ly~fg~~vtIpf~~~~~~P~s-~y~~I~~N~~~glHTlvL 103 (164)
..++..+++.|+.+-++.|-..+..+ ...|+.-| |...++-. .....+|.. .|..+.+.+....+..++
T Consensus 94 ~~~l~~l~~~g~~i~i~S~~~~~~~~l~~~~l~~~-f~~v~~~~-~~~~~kp~~~~~~~~~~~~~~~~~~~v~ 164 (185)
T TIGR02009 94 ENFLKRLKKKGIAVGLGSSSKNADRILAKLGLTDY-FDAIVDAD-EVKEGKPHPETFLLAAELLGVSPNECVV 164 (185)
T ss_pred HHHHHHHHHcCCeEEEEeCchhHHHHHHHcChHHH-CCEeeehh-hCCCCCCChHHHHHHHHHcCCCHHHeEE
Confidence 44667778889999999876555555 78888766 65554431 122346653 466665554443344444
No 121
>COG1752 RssA Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]
Probab=22.01 E-value=1.6e+02 Score=25.19 Aligned_cols=49 Identities=14% Similarity=0.295 Sum_probs=38.8
Q ss_pred cCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccH--HHHH-HhhCC
Q 031196 15 ESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASV--MNAV-GICGL 63 (164)
Q Consensus 15 ~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs--~~A~-s~~GL 63 (164)
.+.++++..|==.....|.-++....+.|+++.+|-|.|+ ++|+ -++|.
T Consensus 9 ~~~i~LvL~GGgArG~~hiGVl~aL~e~gi~~~~iaGtS~GAiva~l~A~g~ 60 (306)
T COG1752 9 KLRIGLVLGGGGARGAAHIGVLKALEEAGIPIDVIAGTSAGAIVAALYAAGM 60 (306)
T ss_pred CceEEEEecCcHHHHHHHHHHHHHHHHcCCCccEEEecCHHHHHHHHHHcCC
Confidence 3568888888777778999999999999999999999883 4443 44553
No 122
>COG5379 BtaA S-adenosylmethionine:diacylglycerol 3-amino-3-carboxypropyl transferase [Lipid metabolism]
Probab=21.60 E-value=1.8e+02 Score=26.73 Aligned_cols=62 Identities=21% Similarity=0.249 Sum_probs=36.8
Q ss_pred EecCCCCccc----CchHHHHHHHHhcCCccEEEEecccCCchhhhhhcCCccCC--------CCCCCCHHHHHHHHHHH
Q 031196 74 IPFFTETWRP----GSFYEKIKRNRSLGLHTLCLLDIRVKEPSLESLCRGKKLYE--------PPRYMTVNIAIEQLLEV 141 (164)
Q Consensus 74 Ipf~~~~~~P----~s~y~~I~~N~~~glHTlvLLDi~~~e~~~e~~~~g~~~~~--------~~r~Mt~~~A~~~Lle~ 141 (164)
.|+|.++-.| .+.|+.|.+|+.+ +..+-.++-.+.+|+..=. -+.|||..|+=+.+-++
T Consensus 282 yp~p~Eg~lP~yl~~~~YEsir~n~~R---------V~ihha~~iE~l~~k~ag~Vdr~iLlDaqdwmtd~qln~lws~i 352 (414)
T COG5379 282 YPYPGEGALPAYLDEGVYESIRQNLRR---------VAIHHADIIELLAGKPAGNVDRYILLDAQDWMTDGQLNSLWSEI 352 (414)
T ss_pred CCCCCCCCCChhhchhhHHHHHhhhhh---------eeeecccHHHHhccCCCCCcceEEEecchhhcccchHHHHHHHH
Confidence 4677665344 4889999999987 1222222223333322111 13589999998888877
Q ss_pred HHH
Q 031196 142 ELL 144 (164)
Q Consensus 142 e~~ 144 (164)
-..
T Consensus 353 srt 355 (414)
T COG5379 353 SRT 355 (414)
T ss_pred hhc
Confidence 544
No 123
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=21.44 E-value=2.9e+02 Score=23.43 Aligned_cols=121 Identities=10% Similarity=0.043 Sum_probs=57.7
Q ss_pred ccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCcc--HHHHHHhhCCcceecCceEEEecCC--------CCccc
Q 031196 14 QESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNAS--VMNAVGICGLQLYRFGETVSIPFFT--------ETWRP 83 (164)
Q Consensus 14 ~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiS--s~~A~s~~GL~ly~fg~~vtIpf~~--------~~~~P 83 (164)
.++|++|+..--+-...+ ...+..|+++|+++-.|-+.. .+...|-..+..+ .++.. .++.. .-+.+
T Consensus 93 ~~~d~~I~iS~sG~t~~~-~~~~~~ak~~g~~vi~iT~~~~s~la~~ad~~l~~~-~~~~~-~~~~~~~~~s~ia~~~~~ 169 (326)
T PRK10892 93 TPQDVVIAISNSGESSEI-LALIPVLKRLHVPLICITGRPESSMARAADIHLCVK-VPKEA-CPLGLAPTSSTTATLVMG 169 (326)
T ss_pred CCCCEEEEEeCCCCCHHH-HHHHHHHHHCCCcEEEEECCCCCcccccCCEEEEeC-CCccc-CCCCCCchHHHHHHHHHH
Confidence 345666655433322222 456777999999998887653 2222222222221 11110 01100 12234
Q ss_pred CchHHHHHHHHhcCC------ccEEEEecccCCchhhhhhcC-C--ccCCCCCCCCHHHHHHHHHH
Q 031196 84 GSFYEKIKRNRSLGL------HTLCLLDIRVKEPSLESLCRG-K--KLYEPPRYMTVNIAIEQLLE 140 (164)
Q Consensus 84 ~s~y~~I~~N~~~gl------HTlvLLDi~~~e~~~e~~~~g-~--~~~~~~r~Mt~~~A~~~Lle 140 (164)
++.|..+..-...-+ |..-+| ++...-+.+++|.. + ....| -+|+.+|++.|.+
T Consensus 170 dsL~~~~l~~~g~~~~~~~~~~~~~~l-~~~~~~~V~dim~~~~~~~~v~~--~~sl~~a~~~~~~ 232 (326)
T PRK10892 170 DALAVALLKARGFTAEDFALSHPGGAL-GRKLLLRVSDIMHTGDEIPHVSK--TASLRDALLEITR 232 (326)
T ss_pred HHHHHHHHHHhCCCHHHHHhcCCCchh-cccccCcHHHHhCCCCCCeEECC--CCCHHHHHHHHHh
Confidence 455554433322222 433333 33334456777763 2 22333 3999999998743
No 124
>PRK05282 (alpha)-aspartyl dipeptidase; Validated
Probab=21.43 E-value=1.4e+02 Score=25.14 Aligned_cols=89 Identities=17% Similarity=0.139 Sum_probs=51.6
Q ss_pred HHHHHhhc-ccCCeEEE-ecCCCCccccHHHHHHH-HHhCCCcEEEEcCccHHHH-HHhhCCcceecCceEEEecCCCCc
Q 031196 6 ADKILSES-QESNVAFL-VVGDPFGATTHTDLVVR-AKKLGIQVKAVHNASVMNA-VGICGLQLYRFGETVSIPFFTETW 81 (164)
Q Consensus 6 ~~~I~~~a-~~~~VafL-t~GDP~~aTTH~~l~~r-a~~~gi~vevIpGiSs~~A-~s~~GL~ly~fg~~vtIpf~~~~~ 81 (164)
...+.+.+ +++.|+|+ |.+++-=+.-|.....+ .++.|+++..++-...+.+ +..+..=.--+|.+..+ ...|
T Consensus 21 ~~~~~~~~~~~~~v~fIPtAs~~~~~~~y~~~~~~af~~lG~~v~~l~~~~d~~~~l~~ad~I~v~GGnt~~l---~~~l 97 (233)
T PRK05282 21 LPLIAELLAGRRKAVFIPYAGVTQSWDDYTAKVAEALAPLGIEVTGIHRVADPVAAIENAEAIFVGGGNTFQL---LKQL 97 (233)
T ss_pred HHHHHHHHcCCCeEEEECCCCCCCCHHHHHHHHHHHHHHCCCEEEEeccchhhHHHHhcCCEEEECCccHHHH---HHHH
Confidence 33344433 35789999 66655444445554444 4456999999988765443 34343333445555544 2345
Q ss_pred ccCchHHHHHHHHhcC
Q 031196 82 RPGSFYEKIKRNRSLG 97 (164)
Q Consensus 82 ~P~s~y~~I~~N~~~g 97 (164)
+-....+.|++-.++|
T Consensus 98 ~~~gl~~~l~~~~~~G 113 (233)
T PRK05282 98 YERGLLAPIREAVKNG 113 (233)
T ss_pred HHCCcHHHHHHHHHCC
Confidence 5556666777666665
No 125
>PF07521 RMMBL: RNA-metabolising metallo-beta-lactamase; InterPro: IPR011108 The metallo-beta-lactamase fold contains five sequence motifs. The first four motifs are found in IPR001279 from INTERPRO and are common to all metallo-beta-lactamases. The fifth motif appears to be specific to function. This entry represents the fifth motif from metallo-beta-lactamases involved in RNA metabolism [].; PDB: 3ZQ4_D 2I7T_A 2I7V_A 2YCB_B 3BK1_A 3T3N_A 3BK2_A 3T3O_A 3AF5_A 3AF6_A ....
Probab=21.10 E-value=68 Score=19.88 Aligned_cols=19 Identities=21% Similarity=0.420 Sum_probs=13.8
Q ss_pred HHHHhhcccCCeEEEecCCC
Q 031196 7 DKILSESQESNVAFLVVGDP 26 (164)
Q Consensus 7 ~~I~~~a~~~~VafLt~GDP 26 (164)
..+++..+ -.-.|++.|||
T Consensus 24 ~~~i~~~~-p~~vilVHGe~ 42 (43)
T PF07521_consen 24 LEFIEQLN-PRKVILVHGEP 42 (43)
T ss_dssp HHHHHHHC-SSEEEEESSEH
T ss_pred HHHHHhcC-CCEEEEecCCC
Confidence 44566664 48899999986
No 126
>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=20.84 E-value=2.1e+02 Score=21.34 Aligned_cols=33 Identities=27% Similarity=0.319 Sum_probs=21.9
Q ss_pred CeEEEecCCCCcc-----ccHHHHHHHHHhCCCcEEEE
Q 031196 17 NVAFLVVGDPFGA-----TTHTDLVVRAKKLGIQVKAV 49 (164)
Q Consensus 17 ~VafLt~GDP~~a-----TTH~~l~~ra~~~gi~vevI 49 (164)
.|++++.||.... ++...+...+++.|.++...
T Consensus 1 ~v~ii~~G~El~~g~i~d~n~~~l~~~l~~~G~~v~~~ 38 (133)
T cd00758 1 RVAIVTVSDELSQGQIEDTNGPALEALLEDLGCEVIYA 38 (133)
T ss_pred CEEEEEeCccccCCceEEchHHHHHHHHHHCCCEEEEe
Confidence 3788999998753 44445555577777766544
No 127
>cd07198 Patatin Patatin-like phospholipase. Patatin is a storage protein of the potato tuber that shows Phospholipase A2 activity (PLA2; EC 3.1.1.4). Patatin catalyzes the nonspecific hydrolysis of phospholipids, glycolipids, sulfolipids, and mono- and diacylglycerols, thereby showing lipid acyl hydrolase activity. The active site includes an oxyanion hole with a conserved GGxR motif; it is found in almost all the members of this family. The catalytic dyad is formed by a serine and an aspartate. Patatin belongs to the alpha-beta hydrolase family which is identified by a characteristic nucleophile elbow with a consensus sequence of Sm-X-Nu-Sm (Sm = small residue, X = any residue and Nu = nucleophile). Members of this family have been found also in vertebrates. This family includes PNPLA (1-9), TGL (3-5), ExoU-like, and SDP1-like subfamilies. There are some additional hypothetical proteins included in this family.
Probab=20.63 E-value=1.2e+02 Score=23.43 Aligned_cols=36 Identities=17% Similarity=0.182 Sum_probs=27.6
Q ss_pred cHHHHHHHHHhCCCcEEEEcCcc--HHHHH-HhhCCcce
Q 031196 31 THTDLVVRAKKLGIQVKAVHNAS--VMNAV-GICGLQLY 66 (164)
Q Consensus 31 TH~~l~~ra~~~gi~vevIpGiS--s~~A~-s~~GL~ly 66 (164)
-|.-++....+.|+.+..|-|+| +++|+ -.+|.+..
T Consensus 12 ~~~Gvl~aL~e~gi~~d~v~GtSaGAi~aa~~a~g~~~~ 50 (172)
T cd07198 12 YHVGVAKALRERGPLIDIIAGTSAGAIVAALLASGRDLE 50 (172)
T ss_pred HHHHHHHHHHHcCCCCCEEEEECHHHHHHHHHHcCCCHH
Confidence 47888898999999999999999 45555 55665433
No 128
>PRK03670 competence damage-inducible protein A; Provisional
Probab=20.62 E-value=1.7e+02 Score=24.98 Aligned_cols=33 Identities=15% Similarity=0.272 Sum_probs=23.9
Q ss_pred CeEEEecCCCCcc----ccHH-HHHHHHHhCCCcEEEE
Q 031196 17 NVAFLVVGDPFGA----TTHT-DLVVRAKKLGIQVKAV 49 (164)
Q Consensus 17 ~VafLt~GDP~~a----TTH~-~l~~ra~~~gi~vevI 49 (164)
+++++++||.... .||. .|..++.+.|+++.-+
T Consensus 2 ~a~Ii~iGdEll~G~i~dtN~~~la~~L~~~G~~v~~~ 39 (252)
T PRK03670 2 FAEIITVGDELLTGNTVDSNSAFIAQKLTEKGYWVRRI 39 (252)
T ss_pred EEEEEEeCCcCcCCeEEehhHHHHHHHHHHCCCEEEEE
Confidence 4788999998865 4555 5666688889877654
No 129
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=20.42 E-value=1.3e+02 Score=25.10 Aligned_cols=39 Identities=21% Similarity=0.383 Sum_probs=24.9
Q ss_pred eEEEecCCCCccccHHHHHHHHHhCC---CcEE------EEcCccHHHH
Q 031196 18 VAFLVVGDPFGATTHTDLVVRAKKLG---IQVK------AVHNASVMNA 57 (164)
Q Consensus 18 VafLt~GDP~~aTTH~~l~~ra~~~g---i~ve------vIpGiSs~~A 57 (164)
++|+|.|||..-++ ...+.+..+.| +++. +.-|..+-+|
T Consensus 3 i~y~~~G~P~~~~~-~~~~~~l~~~Gad~iel~iPfsdPv~DG~~I~~a 50 (242)
T cd04724 3 IPYITAGDPDLETT-LEILKALVEAGADIIELGIPFSDPVADGPVIQAA 50 (242)
T ss_pred EEEEeCCCCCHHHH-HHHHHHHHHCCCCEEEECCCCCCCCCCCHHHHHH
Confidence 78999999998543 55555566656 4444 4445555544
No 130
>COG1509 KamA Lysine 2,3-aminomutase [Amino acid transport and metabolism]
Probab=20.37 E-value=53 Score=30.09 Aligned_cols=26 Identities=23% Similarity=0.386 Sum_probs=19.6
Q ss_pred CeEEEecCCCCccccHH--HHHHHHHhC
Q 031196 17 NVAFLVVGDPFGATTHT--DLVVRAKKL 42 (164)
Q Consensus 17 ~VafLt~GDP~~aTTH~--~l~~ra~~~ 42 (164)
+=++++.|||+..++|- +|+.+.++-
T Consensus 160 ~eVllSGGDPL~ls~~~L~~ll~~L~~I 187 (369)
T COG1509 160 REVLLSGGDPLSLSDKKLEWLLKRLRAI 187 (369)
T ss_pred heEEecCCCccccCHHHHHHHHHHHhcC
Confidence 44688999999999884 566665553
No 131
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=20.35 E-value=2.9e+02 Score=20.28 Aligned_cols=47 Identities=17% Similarity=0.221 Sum_probs=32.2
Q ss_pred CCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcCccHHHHHHhhCCcce
Q 031196 16 SNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHNASVMNAVGICGLQLY 66 (164)
Q Consensus 16 ~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpGiSs~~A~s~~GL~ly 66 (164)
=++.++=-|.-. ..-|-.+....+++||.+|+.+-. +|+.-.++-+.
T Consensus 53 peiliiGTG~~~-~~~~~~~~~~l~~~gI~vE~m~T~---aAcrTyNiL~~ 99 (109)
T cd00248 53 PDILLIGTGAEI-AFLPRALRAALRAAGIGVEVMSTG---AACRTYNVLLS 99 (109)
T ss_pred CCEEEEcCCCCC-CcCCHHHHHHHHHcCCeEEEeCcH---HHHHHHHHHHh
Confidence 356666557766 456788999999999999999754 34444444333
No 132
>PF02780 Transketolase_C: Transketolase, C-terminal domain; InterPro: IPR005476 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 2E6K_A 3JU3_A 2R8P_B ....
Probab=20.19 E-value=1.4e+02 Score=21.74 Aligned_cols=36 Identities=8% Similarity=0.226 Sum_probs=23.5
Q ss_pred ccCCeEEEecCCCCccccHHHHHHHHHhCCCcEEEEcC
Q 031196 14 QESNVAFLVVGDPFGATTHTDLVVRAKKLGIQVKAVHN 51 (164)
Q Consensus 14 ~~~~VafLt~GDP~~aTTH~~l~~ra~~~gi~vevIpG 51 (164)
.++|+++++.|--.-.. .....+.++.|+++.+|.=
T Consensus 8 ~g~di~iia~G~~~~~a--l~A~~~L~~~Gi~~~vi~~ 43 (124)
T PF02780_consen 8 EGADITIIAYGSMVEEA--LEAAEELEEEGIKAGVIDL 43 (124)
T ss_dssp SSSSEEEEEETTHHHHH--HHHHHHHHHTTCEEEEEEE
T ss_pred CCCCEEEEeehHHHHHH--HHHHHHHHHcCCceeEEee
Confidence 36899999999632111 3334445667999999843
Done!