Query 020323
Match_columns 327
No_of_seqs 175 out of 1217
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 08:49:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020323.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020323hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0123 AcuC Deacetylases, inc 100.0 2.5E-77 5.5E-82 574.5 29.3 269 12-294 43-313 (340)
2 PF00850 Hist_deacetyl: Histon 100.0 3.9E-78 8.6E-83 576.7 21.8 266 19-290 36-310 (311)
3 PTZ00346 histone deacetylase; 100.0 4.9E-75 1.1E-79 567.5 28.6 267 13-295 66-339 (429)
4 PTZ00063 histone deacetylase; 100.0 7E-73 1.5E-77 555.3 29.9 267 13-293 46-319 (436)
5 KOG1342 Histone deacetylase co 100.0 5.3E-62 1.2E-66 460.0 23.6 272 7-294 43-322 (425)
6 KOG1343 Histone deacetylase co 100.0 9.8E-54 2.1E-58 443.3 22.4 296 21-326 488-788 (797)
7 KOG1344 Predicted histone deac 100.0 5.9E-41 1.3E-45 299.7 11.1 258 14-290 59-317 (324)
8 KOG1343 Histone deacetylase co 100.0 4.8E-39 1E-43 333.9 10.7 299 11-325 73-381 (797)
9 cd01835 SGNH_hydrolase_like_3 73.5 25 0.00054 30.4 8.7 65 190-256 41-106 (193)
10 cd01841 NnaC_like NnaC (CMP-Ne 71.9 34 0.00073 28.9 9.0 40 189-233 26-66 (174)
11 KOG0121 Nuclear cap-binding pr 71.3 3.3 7.1E-05 35.0 2.4 46 107-152 72-122 (153)
12 PRK14476 nitrogenase molybdenu 70.7 18 0.00039 36.7 8.1 75 206-291 79-154 (455)
13 cd01825 SGNH_hydrolase_peri1 S 70.4 29 0.00064 29.5 8.4 41 190-231 28-69 (189)
14 COG3914 Spy Predicted O-linked 69.2 1.4E+02 0.003 31.5 13.8 152 110-294 311-484 (620)
15 PF09754 PAC2: PAC2 family; I 69.1 17 0.00037 32.5 6.8 99 119-235 10-114 (219)
16 cd01833 XynB_like SGNH_hydrola 68.7 36 0.00078 28.2 8.4 37 189-230 15-51 (157)
17 cd01828 sialate_O-acetylestera 68.4 38 0.00082 28.5 8.6 37 189-231 24-61 (169)
18 PF13472 Lipase_GDSL_2: GDSL-l 65.2 15 0.00032 30.2 5.3 74 190-270 34-108 (179)
19 cd01836 FeeA_FeeB_like SGNH_hy 64.9 29 0.00063 29.8 7.2 37 190-232 44-81 (191)
20 TIGR01285 nifN nitrogenase mol 64.4 35 0.00075 34.4 8.6 75 206-291 78-153 (432)
21 TIGR03018 pepcterm_TyrKin exop 64.2 33 0.00072 30.4 7.7 23 206-228 135-157 (207)
22 cd03466 Nitrogenase_NifN_2 Nit 63.3 66 0.0014 32.3 10.3 75 206-292 71-146 (429)
23 PRK13236 nitrogenase reductase 63.0 8.8 0.00019 36.4 3.8 34 120-155 21-54 (296)
24 cd01979 Pchlide_reductase_N Pc 62.9 48 0.001 32.8 9.2 72 206-292 74-146 (396)
25 PF00148 Oxidored_nitro: Nitro 62.1 32 0.00069 33.7 7.8 71 205-290 60-131 (398)
26 cd01822 Lysophospholipase_L1_l 61.9 57 0.0012 27.3 8.4 36 190-230 40-75 (177)
27 cd01966 Nitrogenase_NifN_1 Nit 61.7 1.2E+02 0.0026 30.3 11.9 75 206-291 68-143 (417)
28 TIGR01969 minD_arch cell divis 61.5 10 0.00022 34.3 3.8 26 122-148 18-43 (251)
29 TIGR01279 DPOR_bchN light-inde 61.3 88 0.0019 31.1 10.8 72 206-292 71-143 (407)
30 cd04502 SGNH_hydrolase_like_7 61.2 49 0.0011 27.9 7.9 40 189-233 25-65 (171)
31 cd01965 Nitrogenase_MoFe_beta_ 60.0 91 0.002 31.1 10.7 75 206-291 68-143 (428)
32 TIGR03282 methan_mark_13 putat 59.0 62 0.0014 31.8 8.8 69 206-292 62-132 (352)
33 cd01972 Nitrogenase_VnfE_like 58.9 52 0.0011 32.9 8.7 72 206-291 76-148 (426)
34 cd01967 Nitrogenase_MoFe_alpha 58.4 50 0.0011 32.5 8.4 72 206-291 74-146 (406)
35 cd04237 AAK_NAGS-ABP AAK_NAGS- 57.0 30 0.00065 32.7 6.3 62 203-277 2-63 (280)
36 cd01832 SGNH_hydrolase_like_1 55.7 78 0.0017 26.8 8.3 16 217-232 65-81 (185)
37 TIGR01283 nifE nitrogenase mol 54.5 70 0.0015 32.3 8.9 70 206-290 108-178 (456)
38 cd01838 Isoamyl_acetate_hydrol 53.4 67 0.0015 27.3 7.5 39 219-259 63-102 (199)
39 PRK10818 cell division inhibit 51.4 20 0.00042 33.1 4.0 27 122-149 20-46 (270)
40 cd04501 SGNH_hydrolase_like_4 51.1 1.2E+02 0.0026 25.7 8.7 39 189-232 34-73 (183)
41 cd01974 Nitrogenase_MoFe_beta 50.4 73 0.0016 32.0 8.2 75 206-291 72-147 (435)
42 TIGR01287 nifH nitrogenase iro 49.4 25 0.00054 32.6 4.4 20 127-147 22-41 (275)
43 TIGR02707 butyr_kinase butyrat 49.4 39 0.00084 33.2 5.9 67 99-169 124-204 (351)
44 PRK14477 bifunctional nitrogen 49.4 1.5E+02 0.0033 32.9 11.1 76 205-291 557-633 (917)
45 cd01839 SGNH_arylesterase_like 49.3 96 0.0021 27.0 8.0 39 217-260 77-116 (208)
46 CHL00175 minD septum-site dete 49.1 22 0.00048 33.0 4.0 28 122-150 33-60 (281)
47 PRK02842 light-independent pro 48.3 1.6E+02 0.0034 29.5 10.2 73 206-292 83-157 (427)
48 cd00316 Oxidoreductase_nitroge 47.9 1.1E+02 0.0024 29.8 8.9 68 209-291 70-138 (399)
49 PRK13232 nifH nitrogenase redu 47.7 20 0.00043 33.3 3.5 21 127-148 23-43 (273)
50 cd01968 Nitrogenase_NifE_I Nit 45.3 1.2E+02 0.0027 30.0 8.8 70 206-290 73-143 (410)
51 PRK13230 nitrogenase reductase 45.2 28 0.0006 32.4 4.0 27 125-153 21-47 (279)
52 cd01820 PAF_acetylesterase_lik 45.0 61 0.0013 28.6 6.1 16 215-230 85-100 (214)
53 TIGR02855 spore_yabG sporulati 44.9 51 0.0011 31.4 5.6 26 210-236 144-169 (283)
54 PRK14478 nitrogenase molybdenu 44.0 1E+02 0.0022 31.4 8.2 72 206-292 106-182 (475)
55 cd02036 MinD Bacterial cell di 42.5 34 0.00074 28.8 3.9 23 128-151 23-45 (179)
56 PRK10528 multifunctional acyl- 41.9 1.3E+02 0.0029 26.1 7.7 60 189-260 46-106 (191)
57 cd01981 Pchlide_reductase_B Pc 41.8 2.1E+02 0.0045 28.5 9.9 58 206-277 72-130 (430)
58 cd01971 Nitrogenase_VnfN_like 41.6 81 0.0018 31.6 6.9 70 206-291 73-143 (427)
59 cd01844 SGNH_hydrolase_like_6 40.9 1E+02 0.0022 26.2 6.7 18 213-230 51-68 (177)
60 PF02310 B12-binding: B12 bind 40.8 1.2E+02 0.0026 23.9 6.7 75 120-230 16-90 (121)
61 PRK05279 N-acetylglutamate syn 40.2 98 0.0021 31.0 7.3 64 202-278 8-71 (441)
62 cd02040 NifH NifH gene encodes 38.9 45 0.00097 30.5 4.3 24 127-152 23-46 (270)
63 COG1891 Uncharacterized protei 37.4 47 0.001 29.7 3.9 45 190-235 84-129 (235)
64 TIGR01890 N-Ac-Glu-synth amino 37.2 84 0.0018 31.4 6.3 62 203-277 1-62 (429)
65 PF14639 YqgF: Holliday-juncti 37.0 2.7E+02 0.0058 23.8 8.9 21 206-226 50-70 (150)
66 cd03110 Fer4_NifH_child This p 36.9 25 0.00054 30.1 2.2 14 135-148 25-38 (179)
67 COG1618 Predicted nucleotide k 36.7 1.3E+02 0.0028 26.7 6.5 51 206-270 85-137 (179)
68 TIGR01968 minD_bact septum sit 36.6 43 0.00094 30.2 3.8 14 135-148 31-44 (261)
69 TIGR01281 DPOR_bchL light-inde 36.3 45 0.00098 30.7 3.9 19 131-151 26-44 (268)
70 cd01834 SGNH_hydrolase_like_2 36.2 1.2E+02 0.0026 25.4 6.4 19 215-233 57-76 (191)
71 TIGR02932 vnfK_nitrog V-contai 36.1 2E+02 0.0044 29.2 8.9 75 206-291 76-155 (457)
72 TIGR02015 BchY chlorophyllide 36.1 1.6E+02 0.0036 29.5 8.1 70 205-291 73-143 (422)
73 TIGR02931 anfK_nitrog Fe-only 36.0 3.1E+02 0.0066 27.9 10.1 71 207-291 80-159 (461)
74 cd00229 SGNH_hydrolase SGNH_hy 35.3 2.1E+02 0.0046 22.7 7.6 18 214-231 60-78 (187)
75 PRK13185 chlL protochlorophyll 35.1 44 0.00096 30.7 3.7 21 129-151 26-46 (270)
76 PRK13234 nifH nitrogenase redu 34.8 48 0.001 31.4 3.9 24 129-154 28-51 (295)
77 PF02701 zf-Dof: Dof domain, z 34.8 12 0.00025 27.5 -0.2 10 113-122 16-25 (63)
78 cd03111 CpaE_like This protein 34.6 96 0.0021 24.4 5.1 14 135-148 30-43 (106)
79 TIGR02016 BchX chlorophyllide 34.5 48 0.001 31.5 3.8 23 125-148 20-42 (296)
80 COG0683 LivK ABC-type branched 34.0 94 0.002 30.1 5.9 35 122-156 136-170 (366)
81 PF02310 B12-binding: B12 bind 33.9 1E+02 0.0022 24.3 5.2 18 211-228 43-60 (121)
82 CHL00202 argB acetylglutamate 33.8 1.8E+02 0.0038 27.5 7.6 63 202-276 6-68 (284)
83 cd01821 Rhamnogalacturan_acety 33.5 2.1E+02 0.0046 24.6 7.6 40 219-260 65-105 (198)
84 cd00840 MPP_Mre11_N Mre11 nucl 33.3 3.1E+02 0.0068 23.7 8.8 64 200-274 23-86 (223)
85 PLN02825 amino-acid N-acetyltr 33.1 1.1E+02 0.0023 31.8 6.3 63 203-278 1-63 (515)
86 PF02585 PIG-L: GlcNAc-PI de-N 32.8 62 0.0013 26.1 3.8 26 206-231 87-112 (128)
87 COG4671 Predicted glycosyl tra 32.8 3.4E+02 0.0074 27.1 9.3 29 199-227 86-114 (400)
88 cd02117 NifH_like This family 32.5 61 0.0013 28.8 4.0 23 129-153 24-46 (212)
89 TIGR03371 cellulose_yhjQ cellu 31.6 52 0.0011 29.5 3.5 18 127-145 24-41 (246)
90 PRK10037 cell division protein 31.0 53 0.0012 30.0 3.5 20 127-148 24-43 (250)
91 cd01973 Nitrogenase_VFe_beta_l 31.0 2.7E+02 0.0058 28.3 8.8 75 206-291 73-152 (454)
92 cd01976 Nitrogenase_MoFe_alpha 30.8 2.4E+02 0.0051 28.2 8.3 73 206-292 85-163 (421)
93 PF05582 Peptidase_U57: YabG p 30.6 1.2E+02 0.0026 29.0 5.7 27 209-236 144-170 (287)
94 PF06866 DUF1256: Protein of u 30.3 1.1E+02 0.0024 26.8 5.1 35 205-239 10-44 (163)
95 COG3640 CooC CO dehydrogenase 29.6 58 0.0013 30.5 3.3 40 112-153 111-155 (255)
96 cd02068 radical_SAM_B12_BD B12 29.6 2.5E+02 0.0054 22.6 7.0 12 216-227 36-47 (127)
97 CHL00076 chlB photochlorophyll 29.4 3.9E+02 0.0085 27.5 9.8 73 206-292 72-148 (513)
98 KOG1495 Lactate dehydrogenase 29.3 2.7E+02 0.0058 26.9 7.7 67 206-275 116-196 (332)
99 PF06925 MGDG_synth: Monogalac 29.3 71 0.0015 27.3 3.7 24 202-225 72-95 (169)
100 TIGR01282 nifD nitrogenase mol 29.1 2.5E+02 0.0054 28.6 8.2 57 206-276 118-176 (466)
101 TIGR01862 N2-ase-Ialpha nitrog 29.0 1.9E+02 0.0041 29.1 7.3 73 206-292 104-182 (443)
102 PRK13235 nifH nitrogenase redu 28.7 67 0.0015 29.7 3.7 25 123-148 19-43 (274)
103 cd02032 Bchl_like This family 28.5 68 0.0015 29.5 3.7 20 129-150 24-43 (267)
104 TIGR01278 DPOR_BchB light-inde 28.4 5.3E+02 0.011 26.5 10.5 71 206-291 72-146 (511)
105 cd05781 DNA_polB_B3_exo DEDDy 28.2 3.6E+02 0.0079 23.6 8.2 73 136-235 4-76 (188)
106 PHA02518 ParA-like protein; Pr 27.4 83 0.0018 27.3 4.0 28 122-151 18-45 (211)
107 PF00464 SHMT: Serine hydroxym 27.4 1.4E+02 0.0031 29.9 5.9 35 189-228 144-178 (399)
108 cd01827 sialate_O-acetylestera 27.4 2.7E+02 0.0059 23.5 7.2 17 217-233 65-82 (188)
109 COG3365 Uncharacterized protei 26.8 1.4E+02 0.003 24.5 4.6 25 266-290 34-58 (118)
110 PF13277 YmdB: YmdB-like prote 26.8 1.3E+02 0.0028 28.3 5.1 42 204-251 12-53 (253)
111 cd01830 XynE_like SGNH_hydrola 26.6 4.2E+02 0.0092 22.9 9.0 45 216-260 71-117 (204)
112 TIGR01007 eps_fam capsular exo 25.9 79 0.0017 27.7 3.5 17 130-147 43-59 (204)
113 cd01443 Cdc25_Acr2p Cdc25 enzy 25.5 2.3E+02 0.0049 22.3 5.9 10 266-275 100-109 (113)
114 cd01829 SGNH_hydrolase_peri2 S 25.5 3.8E+02 0.0083 22.8 7.8 21 212-232 52-73 (200)
115 TIGR03815 CpaE_hom_Actino heli 24.9 80 0.0017 30.1 3.6 19 129-148 118-136 (322)
116 COG1692 Calcineurin-like phosp 24.3 1.7E+02 0.0037 27.6 5.4 41 204-250 15-55 (266)
117 KOG4184 Predicted sugar kinase 24.2 68 0.0015 31.8 2.9 22 204-226 224-245 (478)
118 cd01977 Nitrogenase_VFe_alpha 24.0 3.5E+02 0.0077 26.8 8.1 74 206-292 74-153 (415)
119 TIGR03453 partition_RepA plasm 24.0 82 0.0018 31.0 3.6 21 129-151 129-149 (387)
120 PLN02512 acetylglutamate kinas 23.9 3.1E+02 0.0066 26.3 7.4 65 201-277 29-93 (309)
121 PF13458 Peripla_BP_6: Peripla 23.9 2.3E+02 0.0049 26.3 6.5 35 120-154 121-155 (343)
122 TIGR03029 EpsG chain length de 23.5 96 0.0021 28.6 3.8 17 131-148 130-146 (274)
123 CHL00072 chlL photochlorophyll 23.0 93 0.002 29.4 3.6 22 127-150 22-43 (290)
124 TIGR01286 nifK nitrogenase mol 22.8 3.6E+02 0.0078 27.9 8.1 75 206-291 129-204 (515)
125 cd02037 MRP-like MRP (Multiple 22.8 92 0.002 26.4 3.2 14 131-145 26-39 (169)
126 COG0420 SbcD DNA repair exonuc 22.7 3.8E+02 0.0083 26.1 8.0 65 200-275 22-86 (390)
127 TIGR01284 alt_nitrog_alph nitr 22.6 4.3E+02 0.0094 26.7 8.5 74 206-292 111-190 (457)
128 CHL00073 chlN photochlorophyll 22.2 2.2E+02 0.0048 29.1 6.3 56 206-275 84-140 (457)
129 PF01702 TGT: Queuine tRNA-rib 21.9 2.3E+02 0.0049 25.8 5.9 26 263-288 54-79 (238)
130 cd00984 DnaB_C DnaB helicase C 21.8 4.3E+02 0.0094 23.4 7.7 57 209-269 113-169 (242)
131 KOG3147 6-phosphogluconolacton 21.3 77 0.0017 29.7 2.5 82 149-235 70-158 (252)
132 PRK00039 ruvC Holliday junctio 21.3 1.9E+02 0.0042 25.1 4.9 24 202-226 45-68 (164)
133 cd02033 BchX Chlorophyllide re 21.2 1E+02 0.0022 30.0 3.5 20 135-155 60-79 (329)
134 PF13050 DUF3911: Protein of u 20.7 34 0.00074 25.4 0.1 10 113-122 26-35 (77)
135 cd06355 PBP1_FmdD_like Peripla 20.5 1.5E+02 0.0032 28.3 4.5 35 121-155 120-154 (348)
136 PF02075 RuvC: Crossover junct 20.0 1.5E+02 0.0033 25.2 4.0 26 200-225 39-64 (149)
No 1
>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=100.00 E-value=2.5e-77 Score=574.49 Aligned_cols=269 Identities=44% Similarity=0.765 Sum_probs=252.5
Q ss_pred eeeeeCCCCCCHHHHHhhccHHHHHHHHHHhHHHHhcCcccccCCCCcccChhHHHHHHHHHhhHHHHHHHHHhcccCCC
Q 020323 12 IIELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTYATATTFQESLAAAGAGIALVDSVVAASKNRP 91 (327)
Q Consensus 12 ~~~~~~~~~as~~~l~~vHs~~Yv~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~aag~~l~a~~~v~~~~~~~~ 91 (327)
.+++.+|++++.++|++||+++||++|++.+.. .+...++. ++++++++|+++++++|+++.|++.+++|+
T Consensus 43 ~~~~~~p~~~~~~~l~~vH~~~yv~~l~~~~~~---~~~~~~d~--d~~~s~~~~~~a~~a~G~al~A~~~v~~g~---- 113 (340)
T COG0123 43 SLELVEPRPATLEELLLVHSPDYVEFLESLSEE---EGYGNLDG--DTPVSPGTYEAARLAAGGALTAVDAVLEGE---- 113 (340)
T ss_pred cccccCCCcCCHHHHHhhCCHHHHHHHHHhccc---cccccccC--CCccChHHHHHHHHHhhHHHHHHHHHHcCc----
Confidence 367889999999999999999999999987432 22234443 788999999999999999999999999986
Q ss_pred CCCceeeecCCCCCCCCCCCCCCcccccHHHHHHHHHHHHcCCCeEEEEEcccccccccccccccCCCEEEEeeccC--C
Q 020323 92 DPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQD--G 169 (327)
Q Consensus 92 ~~~~~fa~~rppGHHA~~~~~~GFC~fN~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~d~~Vl~iSiH~~--~ 169 (327)
.++||++|||||||++++++|||+|||+||||++++++ +.+||+|||||+|||||||+|||+|++|+++|+|++ +
T Consensus 114 --~~~~~~~rppgHHA~~~~a~GFC~fNn~Aiaa~~l~~~-~~~RVaIiD~DvHHGnGTqeify~~~~V~~~S~H~~~~~ 190 (340)
T COG0123 114 --DNAFALVRPPGHHAGRDRASGFCLFNNVAIAAKYLLKK-GVKRVAIIDFDVHHGNGTQEIFYDDDDVLTVSLHQDGRP 190 (340)
T ss_pred --cceEEECCCCcccccCCCCceeeeecHHHHHHHHHHHc-CCCcEEEEEecCCCChhhHHHHccCCCeEEEeccCCCCC
Confidence 37999999999999999999999999999999999987 889999999999999999999999999999999996 6
Q ss_pred CCCCCCCCCccCCCCCCCceeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHH
Q 020323 170 SYPGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYM 249 (327)
Q Consensus 170 ~yP~tg~~~e~G~~~g~g~~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~ 249 (327)
+||+||..+++|.+. +|+++|||||+|++|++|+.+|+.++.|++++|+||+||||||||+|.+||||+|+||+++|.+
T Consensus 191 ~yPgtg~~~e~g~g~-~g~~vNiPLp~g~~d~~y~~a~~~~v~~~~~~f~PdlvivsaG~D~h~~Dpl~~~~Lt~~~~~~ 269 (340)
T COG0123 191 FYPGTGGADEIGEGK-EGNNVNIPLPPGTGDDSYLEALEEIVLPLLEEFKPDLVIVSAGFDAHRGDPLGRLNLTEEGYAK 269 (340)
T ss_pred CCCcCCCccccccCc-ccceEeeecCCCCCcHHHHHHHHHHHHHHHHhcCCCEEEEecCcccCCCCccceeecCHHHHHH
Confidence 899999999999999 9999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHHHHHHHHhCCC
Q 020323 250 LAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEP 294 (327)
Q Consensus 250 ~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~~~l~g~~ 294 (327)
+++++++++.++ ++|+++||||||+.+.+++++..++..|.|..
T Consensus 270 ~~~~v~~~a~~~-~~~~~~vleGGY~~~~l~~~~~~~~~~l~~~~ 313 (340)
T COG0123 270 IGRAVRKLAEGY-GGPVVAVLEGGYNLDALARSLVAFLAGLAGLV 313 (340)
T ss_pred HHHHHHHHHHhc-CCCeEEEecCCCChHHHHHHHHHHHHHHcCCC
Confidence 999999999988 89999999999999999999999999999964
No 2
>PF00850 Hist_deacetyl: Histone deacetylase domain; InterPro: IPR023801 Regulation of transcription is, in part, modulated by reversible histone acetylation on several lysine. Histone deacetylases (HDA) catalyse the removal of the acetyl group. Histone deacetylases, acetoin utilization proteins and acetylpolyamine amidohydrolases are all members of this ancient protein superfamily []. HDAs function in multi-subunit complexes, reversing the acetylation of histones by histone acetyltransferases [, ], and are also believed to deacetylate general transcription factors such as TFIIF and sequence-specific transcription factors such as p53 []. Thus, HDAs contribute to the regulation of transcription, in particular transcriptional repression []. At N-terminal tails of histones, removal of the acetyl group from the epsilon-amino group of a lysine side chain will restore its positivecharge, which may stabilise the histone-DNA interaction and prevent activating transcription factors binding to promoter elements []. HDAs play important roles in the cell cycle and differentiation, and their deregulation can contribute to the development of cancer [, ]. This entry represents the structural domain found in histone deacetylases. It consists of a 3-layer(alpha-beta-alpha) sandwich.; PDB: 4A69_A 2VQV_A 2VQO_A 2VQJ_A 2VQQ_B 2VQM_A 2VQW_G 3MAX_C 3MEN_D 1T64_B ....
Probab=100.00 E-value=3.9e-78 Score=576.66 Aligned_cols=266 Identities=46% Similarity=0.768 Sum_probs=223.0
Q ss_pred CCCCHHHHHhhccHHHHHHHHHHhHHHHhcCc---cc---ccCCCCcccChhHHHHHHHHHhhHHHHHHHHHhcccCCCC
Q 020323 19 SPASVDDIASVHARAYVSGLEKAMDRASQQGI---IL---IEGSGPTYATATTFQESLAAAGAGIALVDSVVAASKNRPD 92 (327)
Q Consensus 19 ~~as~~~l~~vHs~~Yv~~l~~~~~~~~~~~~---~~---~~~~~~~~~~~~~~~~a~~aag~~l~a~~~v~~~~~~~~~ 92 (327)
++|+.++|++|||++||++|++.......... .. ..+++++++++++++++++++|+++.|++.+++++.
T Consensus 36 ~~a~~~~L~~vH~~~Yv~~l~~~~~~~~~~~~~~~~~~~~~~~~~dt~~~~~~~~~a~~a~g~~l~a~~~v~~g~~---- 111 (311)
T PF00850_consen 36 RPATDEELLRVHDPEYVDFLESASKEAKEEEEAGSPEFPNILDDGDTPISPGSWEAARLAAGGTLEAADAVLSGEI---- 111 (311)
T ss_dssp ----HHHHTTTS-HHHHHHHHHHHHHTSGCTHHHHHHHCCBTSSSSSEBCTTHHHHHHHHHHHHHHHHHHHHTTSS----
T ss_pred CCCCHHHHHHcCCHHHHHHHHHhcccccccccccccccccccCCCCcceehHHHHHHHHHHHHHHHHHHhhhcccc----
Confidence 88999999999999999999987543222110 00 001458999999999999999999999999998853
Q ss_pred CCceeeecCCCCCCCCCCCCCCcccccHHHHHHHHHHHHcCCCeEEEEEcccccccccccccccCCCEEEEeecc--CCC
Q 020323 93 PPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ--DGS 170 (327)
Q Consensus 93 ~~~~fa~~rppGHHA~~~~~~GFC~fN~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~d~~Vl~iSiH~--~~~ 170 (327)
+++||++|||||||++++++|||+|||+||||++++++++++||+|||||+|||||||++||+||+|+|+|||+ .++
T Consensus 112 -~~~~a~~rppgHHA~~~~a~GFC~~Nnvaiaa~~l~~~~~~~rV~iiD~DvHhGnGtq~if~~d~~V~~~SiH~~~~~~ 190 (311)
T PF00850_consen 112 -KNAFALVRPPGHHAERDRAMGFCYFNNVAIAAKYLRKKYGLKRVAIIDFDVHHGNGTQEIFYDDPRVLYISIHQYPGNF 190 (311)
T ss_dssp -SEEEEEESS--TT-BTTBBBTTBSS-HHHHHHHHHHHTTTTSSEEEEE-SSS--HHHHHHTTT-SSEEEEEEEE-CTTS
T ss_pred -cceeeecCccccccCcCcCcceeeeccHHHHHHHHhhccccceEEEEEeCCCCcccchhheeCCCCEEecCcccccccc
Confidence 48999999999999999999999999999999999998899999999999999999999999999999999999 578
Q ss_pred CC-CCCCCCccCCCCCCCceeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHH
Q 020323 171 YP-GTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYM 249 (327)
Q Consensus 171 yP-~tg~~~e~G~~~g~g~~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~ 249 (327)
|| +||..+|+|.+.|+|+++|||||+|++|++|+.+|+++|.|++++|+||+||||||||++.+||+|+++||+++|.+
T Consensus 191 yP~~tG~~~e~G~~~g~g~~~NipL~~g~~d~~y~~~~~~~l~~~~~~f~P~~ivvsaG~D~~~~Dplg~~~lt~~~~~~ 270 (311)
T PF00850_consen 191 YPFGTGFPDEIGEGKGKGYNLNIPLPPGTGDDEYLEAFEEILLPALEEFRPDLIVVSAGFDAHAGDPLGGLNLTPEGYRE 270 (311)
T ss_dssp TTTSS--TT--ESGGGTTSEEEEEE-TTEBHHHHHHHHHHHHHHHHHHHT-SEEEEEE-STTBTTSTT-SEBB-HHHHHH
T ss_pred CCCcCCCccccCCCcccceeEecccccccchHHHHHHHhhccccchhcccCcEEEEccCcccchhccccCcCCCHHHHHH
Confidence 99 99999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHHHHHHHH
Q 020323 250 LAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAF 290 (327)
Q Consensus 250 ~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~~~l 290 (327)
+++.|++++.+.|. |++++|||||++++++++|..++++|
T Consensus 271 ~~~~~~~~a~~~~~-~~v~vleGGY~~~~~~~~~~~~~~~L 310 (311)
T PF00850_consen 271 LTRRLKSLAKRHCI-PVVSVLEGGYNPESLARSWAAVIAAL 310 (311)
T ss_dssp HHHHHHTTHSHHSG-CEEEEE-S-SSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhcCC-cEEEEECCCCChhHHHHHHHHHHHHh
Confidence 99999999999887 99999999999999999999999987
No 3
>PTZ00346 histone deacetylase; Provisional
Probab=100.00 E-value=4.9e-75 Score=567.52 Aligned_cols=267 Identities=23% Similarity=0.378 Sum_probs=242.1
Q ss_pred eeeeCCCCCCHHHHHhhccHHHHHHHHHHhHHH----HhcCcccccCCCCcccChhHHHHHHHHHhhHHHHHHHHHhccc
Q 020323 13 IELKNFSPASVDDIASVHARAYVSGLEKAMDRA----SQQGIILIEGSGPTYATATTFQESLAAAGAGIALVDSVVAASK 88 (327)
Q Consensus 13 ~~~~~~~~as~~~l~~vHs~~Yv~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~a~~aag~~l~a~~~v~~~~~ 88 (327)
+++..|++|+.++|++||+++||++|++.+... ...+...++ +++++++++|+++++++|+++.|++.+++|+
T Consensus 66 ~~~~~p~~At~eeL~~vHs~~YI~~l~~~~~~~~~~~~~~~~~~~d--~Dtpv~~~~~~~a~laaGgsl~Aa~~v~~g~- 142 (429)
T PTZ00346 66 CRTVVPPLVKVEELMAYHTDTYLANLGLHSCRSWLWNAETSKVFFS--GDCPPVEGLMEHSIATASGTLMGAVLLNSGQ- 142 (429)
T ss_pred CeeecCCCCCHHHHHHhCCHHHHHHHHHhccccccccccccccccc--CCCCCChHHHHHHHHHHHHHHHHHHHHHcCC-
Confidence 667889999999999999999999998642110 011122233 3688999999999999999999999999875
Q ss_pred CCCCCCceeeecCCCC-CCCCCCCCCCcccccHHHHHHHHHHHHcCCCeEEEEEcccccccccccccccCCCEEEEeecc
Q 020323 89 NRPDPPLGFALIRPPG-HHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQ 167 (327)
Q Consensus 89 ~~~~~~~~fa~~rppG-HHA~~~~~~GFC~fN~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~d~~Vl~iSiH~ 167 (327)
..+|++|||| |||++++++|||+|||+||||++|++++ +||+|||||||||||||++||+||+|||+|+|+
T Consensus 143 ------~~~Ai~~pGG~HHA~~~~a~GFC~fNdvAIAa~~ll~~~--~RVliID~DVHHGnGTqeiF~~dp~Vl~vSiHq 214 (429)
T PTZ00346 143 ------VDVAVHWGGGMHHSKCGECSGFCYVNDIVLGILELLKCH--DRVLYVDIDMHHGDGVDEAFCTSDRVFTLSLHK 214 (429)
T ss_pred ------CCEEEeCCCCcCcCCCCCCCcchHHhHHHHHHHHHHHcC--CeEEEEeCCCCCCchHHHHHcCCCCeEEEEecC
Confidence 2478889988 9999999999999999999999998864 799999999999999999999999999999999
Q ss_pred CC--CCCCCCCCCccCCCCCCCceeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHH
Q 020323 168 DG--SYPGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTG 245 (327)
Q Consensus 168 ~~--~yP~tg~~~e~G~~~g~g~~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~ 245 (327)
++ +||+||...++|.|.|.|+++|||||+|++|++|+.+|+++|.|++++|+||+||+|||||+|.+||||+|+||.+
T Consensus 215 ~~~~fyPgtG~~~e~G~g~G~g~~vNVPL~~G~~D~~Yl~~f~~ii~p~l~~F~PdlIvvsaG~Da~~~DpLg~l~LT~~ 294 (429)
T PTZ00346 215 FGESFFPGTGHPRDVGYGRGRYYSMNLAVWDGITDFYYLGLFEHALHSIVRRYSPDAIVLQCGADSLAGDRLGLLNLSSF 294 (429)
T ss_pred CCCCCCCCCCCccccCCCCCceeEEeeeCCCCcCHHHHHHHHHHHHHHHHHhcCCCEEEEECCccCCCCCCCCCceeCHH
Confidence 86 8999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHHHHHHHHhCCCC
Q 020323 246 TYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEPS 295 (327)
Q Consensus 246 ~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~~~l~g~~~ 295 (327)
+|.++++.++++ ++|++++|||||++.+++++|..+++.++|.+.
T Consensus 295 g~~~~~~~l~~~-----~~plv~vleGGY~~~~lar~w~~~t~~l~g~~i 339 (429)
T PTZ00346 295 GHGQCVQAVRDL-----GIPMLALGGGGYTIRNVAKLWAYETSILTGHPL 339 (429)
T ss_pred HHHHHHHHHHhc-----CCCEEEEeCCcCCccHHHHHHHHHHHHHcCCCC
Confidence 999999888764 679999999999999999999999999999763
No 4
>PTZ00063 histone deacetylase; Provisional
Probab=100.00 E-value=7e-73 Score=555.29 Aligned_cols=267 Identities=23% Similarity=0.379 Sum_probs=241.0
Q ss_pred eeeeCCCCCCHHHHHhhccHHHHHHHHHHhHHHHhcC-----cccccCCCCcccChhHHHHHHHHHhhHHHHHHHHHhcc
Q 020323 13 IELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQG-----IILIEGSGPTYATATTFQESLAAAGAGIALVDSVVAAS 87 (327)
Q Consensus 13 ~~~~~~~~as~~~l~~vHs~~Yv~~l~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~a~~aag~~l~a~~~v~~~~ 87 (327)
+++..|++||.++|++||+++||++|++......... ...++...++++++++|+++++++|+++.|++.+++++
T Consensus 46 ~~~~~p~~At~eeL~~vHs~~YI~~L~~~~~~~~~~~~~~~~~f~lg~~~D~pv~~gl~~~a~~aaGgsl~Aa~~l~~g~ 125 (436)
T PTZ00063 46 MEIYRPHKSVEPELVLFHDEEYVDFLSSISPENYRDFTYQLKRFNVGEATDCPVFDGLFEFQQSCAGASIDGAYKLNNHQ 125 (436)
T ss_pred CeEecCCCCCHHHHHHhCCHHHHHHHHHhChhhcccchhhhhhcccCCCCCCCcccHHHHHHHHHHhHHHHHHHHHHcCC
Confidence 6788899999999999999999999987532211100 00122123788899999999999999999999999774
Q ss_pred cCCCCCCceeeecCCCC-CCCCCCCCCCcccccHHHHHHHHHHHHcCCCeEEEEEcccccccccccccccCCCEEEEeec
Q 020323 88 KNRPDPPLGFALIRPPG-HHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTH 166 (327)
Q Consensus 88 ~~~~~~~~~fa~~rppG-HHA~~~~~~GFC~fN~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~d~~Vl~iSiH 166 (327)
..||++|||| |||++++++|||||||+||||++|++++ +||+|||||||||||||++||+||+|+|+|+|
T Consensus 126 -------~~iAin~~GG~HHA~~~~A~GFC~~NdiaiAi~~L~~~~--~RVliID~DvHHGdGtqe~F~~~~~VltvS~H 196 (436)
T PTZ00063 126 -------ADICVNWSGGLHHAKRSEASGFCYINDIVLGILELLKYH--ARVMYIDIDVHHGDGVEEAFYVTHRVMTVSFH 196 (436)
T ss_pred -------CCEEeeCCCCCCCCccCCCCceeeecHHHHHHHHHHHhC--CeEEEEeCCCCCCcchHHHhccCCCeEEEEec
Confidence 3699999999 9999999999999999999999998864 79999999999999999999999999999999
Q ss_pred cCC-CCCCCCCCCccCCCCCCCceeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHH
Q 020323 167 QDG-SYPGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTG 245 (327)
Q Consensus 167 ~~~-~yP~tg~~~e~G~~~g~g~~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~ 245 (327)
+++ +||+||..+++|.+.|+++++|||||+|++|++|+.+|+++|.|++++|+||+||+|||+|++.+||||.|+||.+
T Consensus 197 ~~~~ffPgtG~~~e~G~g~G~g~~vNvPL~~G~~D~~Y~~~f~~ii~~~i~~f~Pd~IvvqaG~D~~~~DpLg~l~Lt~~ 276 (436)
T PTZ00063 197 KFGDFFPGTGDVTDIGVAQGKYYSVNVPLNDGIDDDSFVDLFKPVISKCVEVYRPGAIVLQCGADSLTGDRLGRFNLTIK 276 (436)
T ss_pred cCCCcCCCCCCccccCCCCCCceEEEeeCCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEECCccccCCCCCCCcccCHH
Confidence 987 8899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHHHHHHHHhCC
Q 020323 246 TYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGE 293 (327)
Q Consensus 246 ~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~~~l~g~ 293 (327)
+|.++++.++++ ++|+++++||||++.++++||...+..++|.
T Consensus 277 g~~~~~~~~~~~-----~~pil~l~gGGY~~~~lar~w~~~t~~~~~~ 319 (436)
T PTZ00063 277 GHAACVEFVRSL-----NIPLLVLGGGGYTIRNVARCWAYETGVILNK 319 (436)
T ss_pred HHHHHHHHHHhc-----CCCEEEEeCccCCchHHHHHHHHHHHHHhCC
Confidence 999987776553 6799999999999999999999999999985
No 5
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]
Probab=100.00 E-value=5.3e-62 Score=460.00 Aligned_cols=272 Identities=23% Similarity=0.427 Sum_probs=244.4
Q ss_pred ccCCceeeeeCCCCCCHHHHHhhccHHHHHHHHHHhHHHH-----hcCcccccCCCCcccChhHHHHHHHHHhhHHHHHH
Q 020323 7 FRGSEIIELKNFSPASVDDIASVHARAYVSGLEKAMDRAS-----QQGIILIEGSGPTYATATTFQESLAAAGAGIALVD 81 (327)
Q Consensus 7 ~~~~~~~~~~~~~~as~~~l~~vHs~~Yv~~l~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~a~~aag~~l~a~~ 81 (327)
+.-.+-+++..|.+|+.+++.++||.+||++|++..++-. +.....+.+++|+| .++|+.+.+.+||+|.|+.
T Consensus 43 YgL~k~M~i~~p~~a~~~dm~~FHt~eYi~fL~~V~p~n~~~~~~~~~~fNvg~DCPvF--~gL~~fC~~~~GgSl~aa~ 120 (425)
T KOG1342|consen 43 YGLYKKMEIYRPDKASAQDMTRFHTDEYINFLQSVTPENMETFNKELKQFNVGEDCPVF--DGLYDYCQLYTGGSLNAAQ 120 (425)
T ss_pred cchhhceeeccCCCCCHHHHHhhchHHHHHHHhhCCcccccccchHHHhcCCCCCCccc--cCHHHHHHHhcccchHHHH
Confidence 3344558899999999999999999999999987643211 11112344555654 6899999999999999999
Q ss_pred HHHhcccCCCCCCceeeecCCCC-CCCCCCCCCCcccccHHHHHHHHHHHHcCCCeEEEEEcccccccccccccccCCCE
Q 020323 82 SVVAASKNRPDPPLGFALIRPPG-HHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDI 160 (327)
Q Consensus 82 ~v~~~~~~~~~~~~~fa~~rppG-HHA~~~~~~GFC~fN~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~d~~V 160 (327)
++..+. .-+|++|++| |||+++.|+||||+|||+++|..|++.+ +||++||+|+|||||+|++||..++|
T Consensus 121 kLn~~~-------~dIaINW~GGlHHAKK~eASGFCYvNDIVL~ILeLlK~h--~RVLYIDIDvHHGDGVEeAFy~TDRV 191 (425)
T KOG1342|consen 121 KLNRGE-------CDIAINWAGGLHHAKKSEASGFCYVNDIVLGILELLKYH--KRVLYIDIDVHHGDGVEEAFYTTDRV 191 (425)
T ss_pred HhCCCC-------ceEEEecCcccccccccccCcceeehHHHHHHHHHHHhC--CceEEEEecccCCccHHHHHhcccee
Confidence 988764 4689999999 9999999999999999999999999876 59999999999999999999999999
Q ss_pred EEEeeccCC--CCCCCCCCCccCCCCCCCceeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCC
Q 020323 161 FFLSTHQDG--SYPGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLA 238 (327)
Q Consensus 161 l~iSiH~~~--~yP~tg~~~e~G~~~g~g~~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg 238 (327)
+|+|+|.++ +|||||...++|.+.|+.+.+||||..|.+|+.|..+|+.+|.++++.|+|++||+|||.|+..+|+||
T Consensus 192 mTvSfHKyg~~fFPGTG~l~d~G~~kGkyyavNVPL~dGidD~sy~~if~pIi~~v~e~f~P~AiVLQCGaDSL~gDRlg 271 (425)
T KOG1342|consen 192 MTVSFHKYGPGFFPGTGDLSDIGAGKGKYYAVNVPLKDGIDDESYESIFKPIISKVMERFQPEAIVLQCGADSLAGDRLG 271 (425)
T ss_pred EEEEEEeccCCCCCCCCcceeccCCCCceEEEccchhccCCcHHHHHHHHHHHHHHHHHhCCceEEEEcCCccccCCccc
Confidence 999999986 899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHHHHHHHHhCCC
Q 020323 239 SLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEP 294 (327)
Q Consensus 239 ~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~~~l~g~~ 294 (327)
.|+||.+|..+..+.++++ +.|++++.+|||++.++++||.-....+++..
T Consensus 272 cFnLsi~Gh~~Cv~fvksf-----n~pllvlGGGGYT~rNVARcWtYeT~v~~~~~ 322 (425)
T KOG1342|consen 272 CFNLSIKGHAECVKFVKSF-----NLPLLVLGGGGYTLRNVARCWTYETGVLLDQE 322 (425)
T ss_pred eeeecchhHHHHHHHHHHc-----CCcEEEecCCccchhhhHHHHHHHhhhhcCcc
Confidence 9999999999998888776 46999999999999999999999999999864
No 6
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=100.00 E-value=9.8e-54 Score=443.25 Aligned_cols=296 Identities=36% Similarity=0.610 Sum_probs=253.6
Q ss_pred CCHHHHHhhccHHHHHHHHHHhHHHHhcCcccc-cCCCCcccChhHHHHHHHHHhhHHHHHHHHHhcccCCCCCCceeee
Q 020323 21 ASVDDIASVHARAYVSGLEKAMDRASQQGIILI-EGSGPTYATATTFQESLAAAGAGIALVDSVVAASKNRPDPPLGFAL 99 (327)
Q Consensus 21 as~~~l~~vHs~~Yv~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~a~~aag~~l~a~~~v~~~~~~~~~~~~~fa~ 99 (327)
||.++|+.||+..|+..+.............+. ...+.++..+++|.....++|++..+++.+..-.... ..|||+
T Consensus 488 at~~el~~vHs~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~dt~~~~~~ssga~~~av~~v~~~~~~~---~~g~av 564 (797)
T KOG1343|consen 488 ATLEELQLVHSEAHVLLYGSRKLLGDLSLKFESRLPCGGIGVDSDTWWNELHSSGAARLAVGCVIELAFKV---ASGFAV 564 (797)
T ss_pred cchhhhhhcccchhhcccchhhhcccccchhhhhccccceeecccHHHHHHHHHHHHHHhcchhhhhhhhh---hcceeE
Confidence 899999999999999885421100000000000 1123466778899999999999999999885543221 248999
Q ss_pred cCCCCCCCCCCCCCCcccccHHHHHHHHHHHHcCCCeEEEEEcccccccccccccccCCCEEEEeeccC---CCCCCCCC
Q 020323 100 IRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQD---GSYPGTGK 176 (327)
Q Consensus 100 ~rppGHHA~~~~~~GFC~fN~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~d~~Vl~iSiH~~---~~yP~tg~ 176 (327)
+|||||||....++|||+|||+|||+++++..+...||+|+|||||||||||.+||.||+|+|+|+|.+ ++||++|.
T Consensus 565 vRppGHha~~~~a~gfc~fn~vaiaak~l~~~~~~~rilivdwDvhhgngtq~~f~~~~~vlyislhr~~~G~~fp~~g~ 644 (797)
T KOG1343|consen 565 VRPPGHHAEASTAMGFCFFNSVAIAAKLLQQRSKASRILIVDWDVHHGNGTQQAFYSDPSVLYISLHRHDDGNFFPGSGA 644 (797)
T ss_pred ecCCccccccCCcceeeeecchhhhhHHhhhhhhhcceEEEeecccCCcceeeeeccCccccccccchhccCCcCCCCCC
Confidence 999999999999999999999999999999887789999999999999999999999999999999985 47799999
Q ss_pred CCccCCCCCCCceeeccCCCCC-CHHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHH
Q 020323 177 IDEVGRGDGEGSTLNLPLPGGS-GDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIK 255 (327)
Q Consensus 177 ~~e~G~~~g~g~~~nipL~~g~-~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~ 255 (327)
.+++|.+.|.|+++|||++.+. +|.+|+.+|+.+++|+.++|.||+|++|+|||+..+||||+.++|.++|..+++.++
T Consensus 645 ~~e~g~~~g~g~~vNv~~~~~~~~D~ey~~a~~~vv~Pia~~F~pd~VlvSagfDaa~~dplg~~~vt~~~~~~lt~~l~ 724 (797)
T KOG1343|consen 645 PDEVGKGEGVGFNVNVAWTGGLDPDAEYLAAFRTVVMPIAYEFNPDLVLVSAGFDAAEGDPLGGYKVTAECFGYLTQQLM 724 (797)
T ss_pred chhcccccccceeecccccCCCCCCHHHHHHHHHhhHHHHHHhCCCeEEEeccccccccCccccccccHhHHHHHHHHHH
Confidence 9999999999999999998765 469999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcCCcEEEEeCCCCCchhHHHHHHHHHHHHhCCCCCCCCCCCCccccCCccHHHHHHHHHHHHHhC
Q 020323 256 QLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEPSKASEFDNPAILYEEPSAKVKQAIERVKHIHS 326 (327)
Q Consensus 256 ~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~ 326 (327)
++| +||++.+|||||+..++.++...++++++|.+.+. ..+....+.|...+.+.|++++++++
T Consensus 725 ~la----gGRvv~~LEggy~lt~is~s~~~~~~~llg~~~p~---~~~~~~~~~~~~~a~~~l~~~~~~~~ 788 (797)
T KOG1343|consen 725 GLA----GGRVVLALEGGYDLTAISDSAEACVRALLGDSLPP---LSEAYLPQKPNSNAVATLEKVIEVQS 788 (797)
T ss_pred Hhc----CCcEEEEecCCcchhhhhHHHHHHHHhccCCCCCC---ccccccCCCcchHHHHHHHHHHHhhh
Confidence 998 89999999999999999999999999999987542 23445557777789999999999875
No 7
>KOG1344 consensus Predicted histone deacetylase [Chromatin structure and dynamics]
Probab=100.00 E-value=5.9e-41 Score=299.72 Aligned_cols=258 Identities=22% Similarity=0.360 Sum_probs=209.2
Q ss_pred eeeCCCCCCHHHHHhhccHHHHHHHHHHhHHHHhcCcccccCCCCcccChhHHHHHHHHHhhHHHHHHHHHhcccCCCCC
Q 020323 14 ELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQGIILIEGSGPTYATATTFQESLAAAGAGIALVDSVVAASKNRPDP 93 (327)
Q Consensus 14 ~~~~~~~as~~~l~~vHs~~Yv~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~aag~~l~a~~~v~~~~~~~~~~ 93 (327)
.+.+|..+|+++|++||+.+|+..|+.....+.-....+...-.+.++-.......++-+|+++.|++..+
T Consensus 59 ~lvEp~e~t~e~L~rvHtr~YLkslr~s~~vA~I~EiP~v~flPn~~iqrk~LrPlR~QagGtilA~kLAl--------- 129 (324)
T KOG1344|consen 59 TLVEPNEATKEDLLRVHTRKYLKSLRWSIKVAQITEIPFVGFLPNCIIQRKLLRPLRLQAGGTILAAKLAL--------- 129 (324)
T ss_pred ccccCcccCHHHHHhHhhHHHHHHhhccceeeEEEeccccccCchhhhhhhhccceeeccCceeehhhhhh---------
Confidence 47789999999999999999999998654322211222211112334444455566777899998877655
Q ss_pred CceeeecCCCC-CCCCCCCCCCcccccHHHHHHHHHHHHcCCCeEEEEEcccccccccccccccCCCEEEEeeccCCCCC
Q 020323 94 PLGFALIRPPG-HHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSYP 172 (327)
Q Consensus 94 ~~~fa~~rppG-HHA~~~~~~GFC~fN~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~d~~Vl~iSiH~~~~yP 172 (327)
..|||++-++| |||..+++.|||.+.|+.+|+..+-.+..+.|++|||+|+|+|||.+.-|.+| .|.++.+...-.||
T Consensus 130 e~GWAINvGGGFHHcss~rGGGFC~yADItl~I~~lFer~~isr~mivDLDAHQGNghErdf~~~-~vyi~d~ynr~iyp 208 (324)
T KOG1344|consen 130 ERGWAINVGGGFHHCSSSRGGGFCAYADITLAIFFLFERKAISRAMIVDLDAHQGNGHERDFEDD-AVYIFDMYNRFIYP 208 (324)
T ss_pred hcCeEEeecCccceeccCCCCceeehhhHHHHHHHHHhhhhhhheEEEecccccCCccccccccc-eeehhhhhhhhccc
Confidence 36999999998 99999999999999999999999988778999999999999999999999888 88888888888899
Q ss_pred CCCCCCccCCCCCCCceeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHH
Q 020323 173 GTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAA 252 (327)
Q Consensus 173 ~tg~~~e~G~~~g~g~~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~ 252 (327)
+.-...+ .....|.|..|++|++|+..+++.+...+.+|+||+||+.||.|...+||||.+.+|++|.-+..+
T Consensus 209 ~D~~Ak~-------~Ir~kVEl~~gTeddeYLrkl~r~l~~sl~ef~Pd~VvYNAGTDiLeGDpLG~L~ISp~Gi~~RDe 281 (324)
T KOG1344|consen 209 RDHVAKE-------SIRCKVELRNGTEDDEYLRKLKRCLMQSLAEFRPDMVVYNAGTDILEGDPLGNLAISPEGIIERDE 281 (324)
T ss_pred hhHHHHH-------HhhheeeeecCCCchHHHHHHHHHHHHHHHhhCCcEEEEeCCCccccCCCCCCeeecccccchhhH
Confidence 8543322 134578889999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcCCcEEEEeCCCCCchhHHHHHHHHHHHH
Q 020323 253 NIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAF 290 (327)
Q Consensus 253 ~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~~~l 290 (327)
.+.++++.. +.|++++..|||... .++.++..+..|
T Consensus 282 lVFr~~R~~-~iPvvMltSGGY~K~-sArvIaDSI~NL 317 (324)
T KOG1344|consen 282 LVFRTFRAL-GIPVVMLTSGGYLKA-SARVIADSIVNL 317 (324)
T ss_pred HHHHHHHHc-CCcEEEEecCceehh-hhhhhHHHHHhH
Confidence 999998765 679999999999643 233444444333
No 8
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=100.00 E-value=4.8e-39 Score=333.93 Aligned_cols=299 Identities=29% Similarity=0.442 Sum_probs=248.8
Q ss_pred ceeeeeCCCCCCHHHHHhhccHHHHHHHHHHhHHHHhcCcccc-cCCCCcccChhHHHHHHHHHhhHHHHHHHHHhcccC
Q 020323 11 EIIELKNFSPASVDDIASVHARAYVSGLEKAMDRASQQGIILI-EGSGPTYATATTFQESLAAAGAGIALVDSVVAASKN 89 (327)
Q Consensus 11 ~~~~~~~~~~as~~~l~~vHs~~Yv~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~a~~aag~~l~a~~~v~~~~~~ 89 (327)
+++....++.++.++++.+|+++|++.+........+.+...+ ......|.++.++..+..+.|+.+..++.++.+..
T Consensus 73 ~~~~~~~~~~a~~~~~~~v~~ke~~~~~~~t~~~~~e~~l~~~~~~~~~~~~~~~s~~~a~~a~~~~~~~~~~~~~~~~- 151 (797)
T KOG1343|consen 73 PLLILRNKREAKESAVASVHVKEKLQEFLLSKKMTAEEGLNHSSSRYPSLYYTSASHSSADQASGSLSGSYKAVLAGKA- 151 (797)
T ss_pred ccccccchhhcccchhcccccHHHHHHHHhhhhhcchhhhhcccCCCCcceecCCchhhhcccCcccccccccccCCcc-
Confidence 3445555688999999999999999998765322112212221 22345788889999999999999998888887752
Q ss_pred CCCCCceeeecCCCCCCCCCCCCCCcccccHHHHHHHHHHHHcCCCeEEEEEccccccccccccccc--CCCEEEEeecc
Q 020323 90 RPDPPLGFALIRPPGHHAIPKGPMGFCVFGNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYD--DPDIFFLSTHQ 167 (327)
Q Consensus 90 ~~~~~~~fa~~rppGHHA~~~~~~GFC~fN~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~--d~~Vl~iSiH~ 167 (327)
.++++.+|||||||+++...|||+|||||++++....++..+||+|+|||+|||+|||..|++ |++|+++|+|+
T Consensus 152 ----~n~~a~v~p~~hhsep~~~~~~cl~n~Va~~~~~~~~~~~~rri~i~d~dvh~g~Gtq~~~~~~~d~~vl~~s~~r 227 (797)
T KOG1343|consen 152 ----SNGKADFRPPGHHSEPNLKVGFCLFNNVAERRSSPLLRRKKRRILIVDWDVHHGPGTQPSSPNNGDQRVLYFSLHR 227 (797)
T ss_pred ----cCccCcCCCCCCccccchhcchhHHHHHHHHhhccccccccceeEeecccccCCCCCCCccCCCcccccccccchh
Confidence 489999999999999999999999999999999888777689999999999999999999999 99999999999
Q ss_pred C---CCCCC--CCCCCccCCCCCCCceeeccCCC-CCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCC-CCCc
Q 020323 168 D---GSYPG--TGKIDEVGRGDGEGSTLNLPLPG-GSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDP-LASL 240 (327)
Q Consensus 168 ~---~~yP~--tg~~~e~G~~~g~g~~~nipL~~-g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dp-lg~~ 240 (327)
. .+||. .|..+.+|.|.+.|+++|+|+.. |++|.+|..+|..++.|...+|+||++++++|||+..+|| +|.|
T Consensus 228 ~e~~~f~P~~~~g~~~~~~~g~~~g~~~nl~~~~~g~~~~dy~~~~~~~~~~~~~efqp~Lv~~sag~dA~lg~~~~~~m 307 (797)
T KOG1343|consen 228 LETGPFLPNITLGLATLRGGGPGLGQTGNLPWNQVGMTDADYEAAFLHVLLPHASEFQPDLLLVSAGFDALLGDGPVGLM 307 (797)
T ss_pred cccCCcCCCCccchHHHhCcCCCcceeeccchhhcCCcchhhhhhhhccCccchhhcCcceEEeeccccccccCcccCcc
Confidence 5 58997 46667899999999999999975 8899999999999999999999999999999999999997 6999
Q ss_pred ccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHHHHHHHHhCCCCCCCCCCCCccccCCccHHHHHHHHH
Q 020323 241 QFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEPSKASEFDNPAILYEEPSAKVKQAIER 320 (327)
Q Consensus 241 ~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 320 (327)
..|+.+|.+++... +++ ..++++++++|||+++.++.. ..++..++|.+.. +. ....+|.+++.+.+..
T Consensus 308 ~~tP~~~~~~~~~~-~~~---~r~~l~v~~e~gy~le~l~~~-~~~~~~llg~~~~--~~----~~~~~p~~~~~e~~~~ 376 (797)
T KOG1343|consen 308 AQTPLGYAHRTSMH-RPL---GRGQLVVVLEGGYFLEKLAQS-QLVLNKLLGKPIE--QL----RQPGSPKEEAEEELQS 376 (797)
T ss_pred cCCcccHHHHhccc-ccc---ccCccceecchhHHHHHHHHh-hhhHHhhcCCCcc--cc----ccCCCchHHHHHHhhh
Confidence 99999999998872 222 127899999999999999998 7889999998643 11 1222367777777777
Q ss_pred HHHHh
Q 020323 321 VKHIH 325 (327)
Q Consensus 321 ~~~~~ 325 (327)
+.+++
T Consensus 377 ~~~~~ 381 (797)
T KOG1343|consen 377 VQAVQ 381 (797)
T ss_pred hHHHh
Confidence 66654
No 9
>cd01835 SGNH_hydrolase_like_3 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=73.48 E-value=25 Score=30.35 Aligned_cols=65 Identities=12% Similarity=0.171 Sum_probs=38.2
Q ss_pred eeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHH
Q 020323 190 LNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQ 256 (327)
Q Consensus 190 ~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~ 256 (327)
+|...+..+. ..++..++..+.+.+..++||+|+|..|. |....+. +....+.+.|....+.+..
T Consensus 41 ~N~gi~G~t~-~~~~~r~~~~~~~~~~~~~pd~V~i~~G~ND~~~~~~-~~~~~~~~~~~~~~~~ii~ 106 (193)
T cd01835 41 YNLGVRGDGS-EDVAARWRAEWSRRGELNVPNRLVLSVGLNDTARGGR-KRPQLSARAFLFGLNQLLE 106 (193)
T ss_pred EeecCCCCCH-HHHHHHHHHHHHhhcccCCCCEEEEEecCcccccccC-cccccCHHHHHHHHHHHHH
Confidence 4666555443 35556666555444455899999999999 6554421 1234566666654444433
No 10
>cd01841 NnaC_like NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases. E. coli NnaC appears to be involved in polysaccharide synthesis.
Probab=71.89 E-value=34 Score=28.89 Aligned_cols=40 Identities=20% Similarity=0.174 Sum_probs=26.1
Q ss_pred eeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CCCC
Q 020323 189 TLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DAHV 233 (327)
Q Consensus 189 ~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~~~ 233 (327)
.+|..++..+.. .++..+ .+.+...+||+|++..|. |...
T Consensus 26 v~n~g~~G~t~~-~~~~~~----~~~~~~~~pd~v~i~~G~ND~~~ 66 (174)
T cd01841 26 VNNLGIAGISSR-QYLEHI----EPQLIQKNPSKVFLFLGTNDIGK 66 (174)
T ss_pred EEecccccccHH-HHHHHH----HHHHHhcCCCEEEEEeccccCCC
Confidence 567777665543 334333 344557899999999998 5543
No 11
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=71.31 E-value=3.3 Score=35.03 Aligned_cols=46 Identities=28% Similarity=0.413 Sum_probs=31.9
Q ss_pred CCCCCCCCcccc-----cHHHHHHHHHHHHcCCCeEEEEEccccccccccc
Q 020323 107 AIPKGPMGFCVF-----GNVAIAARYAQRAHGLKRVFIIDFDVHHGNGTND 152 (327)
Q Consensus 107 A~~~~~~GFC~f-----N~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~ 152 (327)
-..-.++|||++ .++-.|++|+-...--+|++-+|||.-.=+|-|.
T Consensus 72 r~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF~eGRQy 122 (153)
T KOG0121|consen 72 RFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGFVEGRQY 122 (153)
T ss_pred cCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccccchhhhhh
Confidence 345678899976 3555666777443323799999999877677653
No 12
>PRK14476 nitrogenase molybdenum-cofactor biosynthesis protein NifN; Provisional
Probab=70.74 E-value=18 Score=36.67 Aligned_cols=75 Identities=16% Similarity=0.150 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
.|.+.|..+.++|+|++|+|.++. ....+|. +..+.+.++.-..+..+.|++.+--.||.. +....+.
T Consensus 79 ~L~~aI~~~~~~~~P~~I~V~ttC~~eiIGDD----------i~~v~~~~~~~~p~~~~~pvi~v~tpgF~g-~~~~G~~ 147 (455)
T PRK14476 79 NVEEAILNICKKAKPKIIGLCTTGLTETRGDD----------VAGALKEIRARHPELADTPIVYVSTPDFKG-ALEDGWA 147 (455)
T ss_pred HHHHHHHHHHHhhCCCEEEEeCcchHhhhhcc----------HHHHHHHHHhhccccCCCeEEEecCCCCCC-cHHHHHH
Confidence 344555567788999988776665 7777773 544444433221111245788899999965 3556666
Q ss_pred HHHHHHh
Q 020323 285 DSFRAFL 291 (327)
Q Consensus 285 ~~~~~l~ 291 (327)
..+++++
T Consensus 148 ~a~~al~ 154 (455)
T PRK14476 148 AAVEAIV 154 (455)
T ss_pred HHHHHHH
Confidence 6666554
No 13
>cd01825 SGNH_hydrolase_peri1 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=70.41 E-value=29 Score=29.48 Aligned_cols=41 Identities=27% Similarity=0.336 Sum_probs=24.1
Q ss_pred eeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CC
Q 020323 190 LNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DA 231 (327)
Q Consensus 190 ~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~ 231 (327)
.|..++..++. .+...-.+.+.+.+...+||+|+++.|. |.
T Consensus 28 ~N~g~~G~t~~-~~~~~~~~~~~~~l~~~~pd~Vii~~G~ND~ 69 (189)
T cd01825 28 DNLGVNGASAS-LLLKWDAEFLQAQLAALPPDLVILSYGTNEA 69 (189)
T ss_pred ecCccCchhhh-hhhccCHHHHHHHHhhCCCCEEEEECCCccc
Confidence 45555544433 2222112233346778999999999997 43
No 14
>COG3914 Spy Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]
Probab=69.19 E-value=1.4e+02 Score=31.51 Aligned_cols=152 Identities=14% Similarity=0.225 Sum_probs=86.9
Q ss_pred CCCCCccccc--HHHHHHHHHHHHcCCCeEEEEEcccccccccccccccCCCEEEEeeccCCCCCCCCCCCccCCCCCCC
Q 020323 110 KGPMGFCVFG--NVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSYPGTGKIDEVGRGDGEG 187 (327)
Q Consensus 110 ~~~~GFC~fN--~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~d~~Vl~iSiH~~~~yP~tg~~~e~G~~~g~g 187 (327)
....++|-++ +-+=+|+..+. -|++ ..||+|.|-=|++..+|...|-=+-||.- -||+|+.....----+.
T Consensus 311 a~~~~~~~~~~~dd~e~a~~I~~-d~Id--ILvDl~g~T~d~r~~v~A~RpAPiqvswl---Gy~aT~g~p~~DY~I~D- 383 (620)
T COG3914 311 AAVEKWYPIGRMDDAEIANAIRT-DGID--ILVDLDGHTVDTRCQVFAHRPAPIQVSWL---GYPATTGSPNMDYFISD- 383 (620)
T ss_pred HhhhheeccCCcCHHHHHHHHHh-cCCe--EEEeccCceeccchhhhhcCCCceEEeec---ccccccCCCcceEEeeC-
Confidence 3456888888 33333444433 3543 56899999999999999998877777763 47886542211000001
Q ss_pred ceeeccCCCCCCHHHHHHHHHHHHHHHHHhcC--------------------CCEEEEeccCCCCCCCCCCCcccCHHHH
Q 020323 188 STLNLPLPGGSGDTAMRTVFHEVIVPCAQRFK--------------------PDLILVSAGYDAHVLDPLASLQFTTGTY 247 (327)
Q Consensus 188 ~~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~--------------------PdlIvv~aG~D~~~~Dplg~~~ls~~~~ 247 (327)
.+-+ |+.. ..-|-+.+-++ | .-|+ +|.+|+.|| -+.++.+++-+
T Consensus 384 -~y~v--Pp~a-e~yysEkl~RL--p--~cy~p~d~~~~v~p~~sR~~lglp~~avVf~c~--------~n~~K~~pev~ 447 (620)
T COG3914 384 -PYTV--PPTA-EEYYSEKLWRL--P--QCYQPVDGFEPVTPPPSRAQLGLPEDAVVFCCF--------NNYFKITPEVF 447 (620)
T ss_pred -ceec--CchH-HHHHHHHHHhc--c--cccCCCCCcccCCCCcchhhcCCCCCeEEEEec--------CCcccCCHHHH
Confidence 1222 3322 22333333321 2 2232 367777777 34566777877
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHHHHHHHHhCCC
Q 020323 248 YMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSFRAFLGEP 294 (327)
Q Consensus 248 ~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~~~l~g~~ 294 (327)
..--+.|++ ..+.+++++.||-+ ..+.+.++.+....
T Consensus 448 ~~wmqIL~~-----vP~Svl~L~~~~~~-----~~~~~~l~~la~~~ 484 (620)
T COG3914 448 ALWMQILSA-----VPNSVLLLKAGGDD-----AEINARLRDLAERE 484 (620)
T ss_pred HHHHHHHHh-----CCCcEEEEecCCCc-----HHHHHHHHHHHHHc
Confidence 654444443 24678899999955 33555666665443
No 15
>PF09754 PAC2: PAC2 family; InterPro: IPR019151 This PAC2 (Proteasome assembly chaperone) family of proteins is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 247 and 307 amino acids in length. These proteins function as a chaperone for the 26S proteasome, which is about 2000 kilodaltons (kDa) in molecular mass and contains one 20S core particle structure and two 19S regulatory caps. The 26S proteasome mediates ubiquitin-dependent proteolysis in eukaryotic cells. A number of studies including very recent ones have revealed that assembly of its 20S catalytic core particle is an ordered process that involves several conserved proteasome assembly chaperones (PACs). Two heterodimeric chaperones, PAC1-PAC2 and PAC3-PAC4, promote the assembly of rings composed of seven alpha subunits [, , , ].; PDB: 3MNF_A 2P90_B 3E35_A 3GAA_D 2WAM_C.
Probab=69.05 E-value=17 Score=32.48 Aligned_cols=99 Identities=20% Similarity=0.174 Sum_probs=51.7
Q ss_pred cHHHHHHHHHHHHcCCCeEEEEEcccccc-ccccc-ccccCC-CEEEEeeccCCCCCCCCCCCccCCCCCCCc---eeec
Q 020323 119 GNVAIAARYAQRAHGLKRVFIIDFDVHHG-NGTND-AFYDDP-DIFFLSTHQDGSYPGTGKIDEVGRGDGEGS---TLNL 192 (327)
Q Consensus 119 N~vAiaa~~l~~~~~~~RV~iiD~DvHhG-nGt~~-~f~~d~-~Vl~iSiH~~~~yP~tg~~~e~G~~~g~g~---~~ni 192 (327)
|=--+|+.|+.+..+.++|..||.|-+.- -|... +..++. +.+. +...+|=.+ ..+. .-+.
T Consensus 10 ~Vg~la~d~Li~~l~~~~vg~i~~~~~~P~~~~~p~~~~~~g~~~~~---~~~~iy~~~----------~~~i~vl~~~~ 76 (219)
T PF09754_consen 10 NVGQLAVDHLIESLNLEKVGYIDSDPLFPYVGPRPYVVVDDGSNILS---PPLEIYYSE----------DSKILVLQGRS 76 (219)
T ss_dssp GHHHHHHHHHHHHSCEEEEEEE-HHHHSBTTTS--EEEEETTEEEEB----SEEEEEEE----------CTTEEEEEESS
T ss_pred hHHHHHHHHHHHhCCCEEEEEEeccccCCCccCCCeEEeccccceec---cceEEEEEC----------CCCEEEEEecC
Confidence 34457889999998999999999955444 12110 111111 0000 000001000 0011 1234
Q ss_pred cCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCC
Q 020323 193 PLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLD 235 (327)
Q Consensus 193 pL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~D 235 (327)
|.|++. ...|-+.+...+++++..-||+-.|.++....
T Consensus 77 p~~~~~-----~~~f~~~l~~~~~~~g~~~vi~l~g~~~~~~~ 114 (219)
T PF09754_consen 77 PIPPGR-----WYEFAEELLDWIKSFGVKEVIVLGGLPAMEPH 114 (219)
T ss_dssp E--SCG-----HHHHHHHHHHHHHHTTECEEEEEEEEEESS-T
T ss_pred CCCchH-----HHHHHHHHHHHHHHcCCCEEEEEeCCcCCCCc
Confidence 665543 22344446688999999999999999988754
No 16
>cd01833 XynB_like SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=68.69 E-value=36 Score=28.17 Aligned_cols=37 Identities=16% Similarity=0.113 Sum_probs=22.5
Q ss_pred eeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCC
Q 020323 189 TLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYD 230 (327)
Q Consensus 189 ~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D 230 (327)
..|...+..+. ......+. ..+..++||+|+++.|..
T Consensus 15 ~~n~g~~G~~~-~~~~~~~~----~~~~~~~pd~vvi~~G~N 51 (157)
T cd01833 15 KDHEGHSGYLI-DQIAAAAA----DWVLAAKPDVVLLHLGTN 51 (157)
T ss_pred CCCCCCCCccH-HHHHHHhh----hccccCCCCEEEEeccCc
Confidence 44554544443 23444443 344568999999999983
No 17
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=68.42 E-value=38 Score=28.47 Aligned_cols=37 Identities=19% Similarity=0.339 Sum_probs=22.2
Q ss_pred eeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CC
Q 020323 189 TLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DA 231 (327)
Q Consensus 189 ~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~ 231 (327)
.+|..++..+.. .+...+++ .+ .++||+||++.|. |.
T Consensus 24 v~n~g~~G~~~~-~~~~~l~~----~~-~~~pd~vvl~~G~ND~ 61 (169)
T cd01828 24 VANRGISGDTTR-GLLARLDE----DV-ALQPKAIFIMIGINDL 61 (169)
T ss_pred eEecCcccccHH-HHHHHHHH----Hh-ccCCCEEEEEeeccCC
Confidence 345555544432 33333433 33 6799999999997 54
No 18
>PF13472 Lipase_GDSL_2: GDSL-like Lipase/Acylhydrolase family; PDB: 1ES9_A 1WAB_A 3DT9_A 1BWQ_A 1FXW_A 3DT6_A 1BWR_A 3DT8_A 1BWP_A 2WAA_A ....
Probab=65.18 E-value=15 Score=30.22 Aligned_cols=74 Identities=16% Similarity=0.204 Sum_probs=37.2
Q ss_pred eeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEE
Q 020323 190 LNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVF 268 (327)
Q Consensus 190 ~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~ 268 (327)
.|...+..+ -..+...+...+.+ +...+||+||++.|. |...+ .....+.+.|....+.+.+.+.+ .+++++
T Consensus 34 ~n~~~~G~~-~~~~~~~~~~~~~~-~~~~~~d~vvi~~G~ND~~~~---~~~~~~~~~~~~~l~~~i~~~~~--~~~vi~ 106 (179)
T PF13472_consen 34 YNLGVSGAT-SSDFLARLQRDVLR-FKDPKPDLVVISFGTNDVLNG---DENDTSPEQYEQNLRRIIEQLRP--HGPVIL 106 (179)
T ss_dssp EEEE-TT-B-HHHHHHHHHHHCHH-HCGTTCSEEEEE--HHHHCTC---TTCHHHHHHHHHHHHHHHHHHHT--TSEEEE
T ss_pred EEEeecCcc-HhHHHHHHHHHHhh-hccCCCCEEEEEccccccccc---ccccccHHHHHHHHHHHHHhhcc--cCcEEE
Confidence 455554444 33455556555444 588999999999997 55443 12233444444433333333333 346665
Q ss_pred Ee
Q 020323 269 FL 270 (327)
Q Consensus 269 vl 270 (327)
+.
T Consensus 107 ~~ 108 (179)
T PF13472_consen 107 VS 108 (179)
T ss_dssp EE
T ss_pred ec
Confidence 54
No 19
>cd01836 FeeA_FeeB_like SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it turn are loaded onto the acyl carrier protein FeeL. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=64.89 E-value=29 Score=29.82 Aligned_cols=37 Identities=14% Similarity=0.198 Sum_probs=23.4
Q ss_pred eeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CCC
Q 020323 190 LNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DAH 232 (327)
Q Consensus 190 ~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~~ 232 (327)
.|+..+..+ -.+++..+++ +..++||+|++..|. |..
T Consensus 44 ~n~g~~G~t-~~~~~~~l~~-----~~~~~pd~Vii~~G~ND~~ 81 (191)
T cd01836 44 RLFAKTGAT-SADLLRQLAP-----LPETRFDVAVISIGVNDVT 81 (191)
T ss_pred EEEecCCcC-HHHHHHHHHh-----cccCCCCEEEEEecccCcC
Confidence 344443333 3455555544 456899999999998 554
No 20
>TIGR01285 nifN nitrogenase molybdenum-iron cofactor biosynthesis protein NifN. This protein forms a complex with NifE, and appears as a NifEN in some species. NifEN is a required for producing the molybdenum-iron cofactor of molybdenum-requiring nitrogenases. NifN is closely related to the nitrogenase molybdenum-iron protein beta chain NifK. This model describes most examples of NifN but excludes some cases, such as the putative NifN of Chlorobium tepidum, for which a separate model may be created.
Probab=64.38 E-value=35 Score=34.38 Aligned_cols=75 Identities=16% Similarity=0.099 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
-|.+.|..+.++|+|++|+|.+.+ ....+| ++..+.+.+++-..+..+.|++.+-..||.. +...++.
T Consensus 78 ~L~~~I~~~~~~~~P~~I~V~ttC~~eiIGD----------Di~~v~~~~~~e~p~~~~~pvi~v~tpgf~g-~~~~G~~ 146 (432)
T TIGR01285 78 HIEEAIDTLCQRNKPKAIGLLSTGLTETRGE----------DIARVVRQFREKHPQHKGTAVVTVNTPDFKG-SLEDGYA 146 (432)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCCccccccc----------CHHHHHHHHHhhcccccCCeEEEecCCCcCC-chHHHHH
Confidence 445556667789999988776665 556777 3555444433210011245788999999975 4455666
Q ss_pred HHHHHHh
Q 020323 285 DSFRAFL 291 (327)
Q Consensus 285 ~~~~~l~ 291 (327)
..+++++
T Consensus 147 ~a~~al~ 153 (432)
T TIGR01285 147 AAVESII 153 (432)
T ss_pred HHHHHHH
Confidence 5555554
No 21
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=64.18 E-value=33 Score=30.42 Aligned_cols=23 Identities=13% Similarity=0.368 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHhcCCCEEEEecc
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAG 228 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG 228 (327)
.+.+.+..+.++|++|+||+-++
T Consensus 135 ~l~~~l~~l~~~y~~D~IiiD~p 157 (207)
T TIGR03018 135 RMRSLLHELARRYPDRIIIIDTP 157 (207)
T ss_pred HHHHHHHHHHhhCCCCEEEEECC
Confidence 45666666667888899999887
No 22
>cd03466 Nitrogenase_NifN_2 Nitrogenase_nifN_2: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco). This group also contains the Clostidium fused NifN-NifB protein.
Probab=63.27 E-value=66 Score=32.25 Aligned_cols=75 Identities=8% Similarity=0.131 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
-|++.|..+.++++|++|+|.... ....+|. +..+.+.+++- ....+.|++.+--.||.. +...++.
T Consensus 71 kL~~aI~~~~~~~~P~~I~V~ttc~~~iiGdD----------i~~v~~~~~~~-~~~~~~~vi~v~t~gF~g-~~~~G~~ 138 (429)
T cd03466 71 NLKKGLKNVIEQYNPEVIGIATTCLSETIGED----------VPRIIREFREE-VDDSEPKIIPASTPGYGG-THVEGYD 138 (429)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCchHHHhhcC----------HHHHHHHHhhc-ccCCCCcEEEEECCCCcc-cHHHHHH
Confidence 455556677889999977665554 6666773 54444433221 001244788888889974 4446666
Q ss_pred HHHHHHhC
Q 020323 285 DSFRAFLG 292 (327)
Q Consensus 285 ~~~~~l~g 292 (327)
..+++++.
T Consensus 139 ~a~~al~~ 146 (429)
T cd03466 139 TAVRSIVK 146 (429)
T ss_pred HHHHHHHH
Confidence 66666653
No 23
>PRK13236 nitrogenase reductase; Reviewed
Probab=62.96 E-value=8.8 Score=36.45 Aligned_cols=34 Identities=18% Similarity=0.208 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHcCCCeEEEEEcccccccccccccc
Q 020323 120 NVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFY 155 (327)
Q Consensus 120 ~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~ 155 (327)
++|+-+.+++.+.| +||++||.|.+.+| |.-+|.
T Consensus 21 t~a~NLA~~La~~G-~rVLliD~D~q~~~-~~~l~~ 54 (296)
T PRK13236 21 TTSQNTLAAMAEMG-QRILIVGCDPKADS-TRLMLH 54 (296)
T ss_pred HHHHHHHHHHHHCC-CcEEEEEccCCCCc-cchhcc
Confidence 34455455556555 69999999999888 444443
No 24
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=62.92 E-value=48 Score=32.82 Aligned_cols=72 Identities=10% Similarity=0.153 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
-+++.|..+.++|+|++|+|.+.+ -...+|. +..+.+.+. ++ .+.|++.+--.||.. +..+++.
T Consensus 74 ~L~~aI~ei~~~~~P~~I~V~sTCv~e~IGDD----------i~~v~~~~~---~~-~~~pvi~v~t~gf~g-~~~~G~~ 138 (396)
T cd01979 74 ELDRVVTQIKRDRNPSVIFLIGSCTTEVIKMD----------LEGAAPRLS---AE-IGVPILVASASGLDY-TFTQGED 138 (396)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCHHHHHhcC----------HHHHHHHHh---hc-CCCcEEEeeCCCccc-cHHHHHH
Confidence 345556677899999988776665 5666663 444443332 22 256888888889963 4456777
Q ss_pred HHHHHHhC
Q 020323 285 DSFRAFLG 292 (327)
Q Consensus 285 ~~~~~l~g 292 (327)
..++++.+
T Consensus 139 ~~~~alv~ 146 (396)
T cd01979 139 TVLAALVP 146 (396)
T ss_pred HHHHHHhh
Confidence 77777775
No 25
>PF00148 Oxidored_nitro: Nitrogenase component 1 type Oxidoreductase; InterPro: IPR000510 Enzymes belonging to this family include cofactor-requiring nitrogenases and protochlorophyllide reductase. The key enzymatic reactions in nitrogen fixation are catalysed by the nitrogenase complex, which has two components, the iron protein (component 2), and a component (component 1) which is either a molybdenum-iron, vanadium-iron or iron-iron protein. The enzyme (1.18.6.1 from EC) forms a hexamer of two alpha, two beta and two delta chains. Protochlorophyllide reductase (1.3.1.33 from EC) is involved in the light-dependent accumulation of chlorophyll, probably at the step of reduction of protochlorophyllide to chlorophyllide.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QH1_C 1QH8_A 1H1L_C 1QGU_A 3AEK_C 3AET_C 3AER_C 3AEU_A 3AES_C 3AEQ_C ....
Probab=62.14 E-value=32 Score=33.71 Aligned_cols=71 Identities=21% Similarity=0.337 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHH
Q 020323 205 TVFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSV 283 (327)
Q Consensus 205 ~~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~ 283 (327)
.-+.+.|..+.++++|++|+|.... ....+| ++..+.+.+. .+. +.|++.+--.||. .+-..+.
T Consensus 60 ~kL~~~i~~~~~~~~P~~i~v~~sC~~~iIGd----------D~~~v~~~~~---~~~-~~~vi~v~~~gf~-~~~~~G~ 124 (398)
T PF00148_consen 60 EKLREAIKEIAEKYKPKAIFVVTSCVPEIIGD----------DIEAVARELQ---EEY-GIPVIPVHTPGFS-GSYSQGY 124 (398)
T ss_dssp HHHHHHHHHHHHHHSTSEEEEEE-HHHHHTTT----------THHHHHHHHH---HHH-SSEEEEEE--TTS-SSHHHHH
T ss_pred hhHHHHHHHHHhcCCCcEEEEECCCCHHHhCC----------CHHHHHHHhh---ccc-CCcEEEEECCCcc-CCccchH
Confidence 3455566667789999988876665 666676 3555554443 233 4589999999993 3333444
Q ss_pred HHHHHHH
Q 020323 284 ADSFRAF 290 (327)
Q Consensus 284 ~~~~~~l 290 (327)
...++++
T Consensus 125 ~~a~~~l 131 (398)
T PF00148_consen 125 DAALRAL 131 (398)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 4444444
No 26
>cd01822 Lysophospholipase_L1_like Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity.
Probab=61.91 E-value=57 Score=27.32 Aligned_cols=36 Identities=19% Similarity=0.340 Sum_probs=21.7
Q ss_pred eeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccCC
Q 020323 190 LNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGYD 230 (327)
Q Consensus 190 ~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D 230 (327)
+|..+...+.. ..+..+++ .+..++||+|++..|..
T Consensus 40 ~n~g~~G~~~~-~~~~~l~~----~~~~~~pd~v~i~~G~N 75 (177)
T cd01822 40 INAGVSGDTTA-GGLARLPA----LLAQHKPDLVILELGGN 75 (177)
T ss_pred EecCcCCcccH-HHHHHHHH----HHHhcCCCEEEEeccCc
Confidence 45555543333 23333433 44568999999999973
No 27
>cd01966 Nitrogenase_NifN_1 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=61.66 E-value=1.2e+02 Score=30.30 Aligned_cols=75 Identities=15% Similarity=0.103 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccCCC-CCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGYDA-HVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~D~-~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
.|++.|..+.++|+|++|+|.++.=+ ..+| ++..+.+.+++-..+..+.|++.+--.||... ....+.
T Consensus 68 ~L~~~i~~~~~~~~p~~I~V~ttc~~eiIGd----------Di~~v~~~~~~~~p~~~~~~vi~v~t~gf~g~-~~~G~~ 136 (417)
T cd01966 68 NLEEALDTLAERAKPKVIGLLSTGLTETRGE----------DIAGALKQFRAEHPELADVPVVYVSTPDFEGS-LEDGWA 136 (417)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCccccccc----------CHHHHHHHHHhhccccCCCeEEEecCCCCCCc-HHHHHH
Confidence 34455556778899998888877633 3455 34444333322111112468899999999753 456666
Q ss_pred HHHHHHh
Q 020323 285 DSFRAFL 291 (327)
Q Consensus 285 ~~~~~l~ 291 (327)
..+++++
T Consensus 137 ~a~~al~ 143 (417)
T cd01966 137 AAVEAII 143 (417)
T ss_pred HHHHHHH
Confidence 6666654
No 28
>TIGR01969 minD_arch cell division ATPase MinD, archaeal. This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.
Probab=61.52 E-value=10 Score=34.27 Aligned_cols=26 Identities=27% Similarity=0.346 Sum_probs=17.8
Q ss_pred HHHHHHHHHHcCCCeEEEEEccccccc
Q 020323 122 AIAARYAQRAHGLKRVFIIDFDVHHGN 148 (327)
Q Consensus 122 Aiaa~~l~~~~~~~RV~iiD~DvHhGn 148 (327)
|+.+.+++.+.| +||++||+|.++||
T Consensus 18 a~~LA~~la~~g-~~VlliD~D~~~~~ 43 (251)
T TIGR01969 18 TANLGVALAKLG-KKVLALDADITMAN 43 (251)
T ss_pred HHHHHHHHHHCC-CeEEEEeCCCCCcc
Confidence 333333444445 69999999998887
No 29
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=61.27 E-value=88 Score=31.13 Aligned_cols=72 Identities=13% Similarity=0.205 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
.|++.|..+.++|+|++|+|.+.+ -...+| ++..+.+.++ .+ .+.|++.+--.||.. +...+..
T Consensus 71 ~L~~aI~~i~~~~~P~~I~V~tTC~se~IGD----------Di~~v~~~~~---~~-~~~pVi~v~tpgf~g-~~~~G~~ 135 (407)
T TIGR01279 71 ELDRVVEQIKRDRNPSVIFLLSSCTPEVIKM----------DLEGLAERLS---TN-FGVPVLFAPASGLDY-TFTQGED 135 (407)
T ss_pred HHHHHHHHHHhhcCCCEEEEECCchHHHHHh----------hHHHHHHHHH---Hh-hCCCEEEeeCCCccc-cHHHHHH
Confidence 455566677799999999888775 555566 3444443332 12 256888888889964 3345566
Q ss_pred HHHHHHhC
Q 020323 285 DSFRAFLG 292 (327)
Q Consensus 285 ~~~~~l~g 292 (327)
+.++++.+
T Consensus 136 ~~~~alv~ 143 (407)
T TIGR01279 136 TVLAALVP 143 (407)
T ss_pred HHHHHHHH
Confidence 66776664
No 30
>cd04502 SGNH_hydrolase_like_7 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=61.24 E-value=49 Score=27.91 Aligned_cols=40 Identities=18% Similarity=0.247 Sum_probs=25.2
Q ss_pred eeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CCCC
Q 020323 189 TLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DAHV 233 (327)
Q Consensus 189 ~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~~~ 233 (327)
.+|..+...+.. +.+..+.+ .+..++||+|++..|. |...
T Consensus 25 v~N~Gi~G~~~~-~~~~~~~~----~~~~~~p~~vvi~~G~ND~~~ 65 (171)
T cd04502 25 VVNRGFGGSTLA-DCLHYFDR----LVLPYQPRRVVLYAGDNDLAS 65 (171)
T ss_pred eeecCcccchHH-HHHHHHHh----hhccCCCCEEEEEEecCcccC
Confidence 466666554433 33333333 3456899999999998 7543
No 31
>cd01965 Nitrogenase_MoFe_beta_like Nitrogenase_MoFe_beta_like: Nitrogenase MoFe protein, beta subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. This group contains the beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (Fe
Probab=60.01 E-value=91 Score=31.10 Aligned_cols=75 Identities=13% Similarity=0.154 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
-+.+.|..+.++++|++|+|.... ....+|. +..+.+.+.+-..+..+-|++.+--.||..+ ...++.
T Consensus 68 ~L~~~i~~~~~~~~p~~I~v~~tC~~~liGdD----------i~~v~~~~~~~~~~~~~~~vi~v~tpgf~g~-~~~G~~ 136 (428)
T cd01965 68 NLIEALKNLLSRYKPDVIGVLTTCLTETIGDD----------VAGFIKEFRAEGPEPADFPVVYASTPSFKGS-HETGYD 136 (428)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCcchhhcCCC----------HHHHHHHHHhhccCCCCCeEEEeeCCCCCCc-HHHHHH
Confidence 344555667788999976665554 6667773 5444443322100023567888888999753 335565
Q ss_pred HHHHHHh
Q 020323 285 DSFRAFL 291 (327)
Q Consensus 285 ~~~~~l~ 291 (327)
..++++.
T Consensus 137 ~a~~al~ 143 (428)
T cd01965 137 NAVKAII 143 (428)
T ss_pred HHHHHHH
Confidence 5555554
No 32
>TIGR03282 methan_mark_13 putative methanogenesis marker 13 metalloprotein. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it. This metal cluster-binding family is related to nitrogenase structural protein NifD and accessory protein NifE, among others.
Probab=58.99 E-value=62 Score=31.78 Aligned_cols=69 Identities=16% Similarity=0.192 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeC-CCCCchhHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLE-GGYNLNSLSYSV 283 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vle-GGY~~~~l~~~~ 283 (327)
.|++.|..+.++|+|++|+|..++ -...+|. +..+.+. . + .+.|++.|=- ||+ .+...++
T Consensus 62 KL~eaI~ea~e~y~P~lI~VvTTCvseIIGDD----------IeaVvkE---~--~-~giPVI~V~t~GGf--Gdn~~G~ 123 (352)
T TIGR03282 62 KLVKVIRYAEEKFKPELIGVVGTCASMIIGED----------LKEAVDE---A--D-VDAEVIAVEVHAGF--GDNTEGV 123 (352)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCchhhccCC----------HHHHHHH---h--C-CCCCEEEEECCCCC--ccHHHHH
Confidence 455566667899999988887776 4455663 4333332 1 1 2457777754 888 3444567
Q ss_pred HHHHHHHhC
Q 020323 284 ADSFRAFLG 292 (327)
Q Consensus 284 ~~~~~~l~g 292 (327)
...+++++.
T Consensus 124 ~~aLeAiid 132 (352)
T TIGR03282 124 IATLESAAE 132 (352)
T ss_pred HHHHHHHHH
Confidence 777777664
No 33
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=58.92 E-value=52 Score=32.87 Aligned_cols=72 Identities=17% Similarity=0.303 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
-|.+.|..+.++++|++|+|.+.+ ....+| ++..+.+.++ ++. +.|++.+--.||...+...++.
T Consensus 76 kL~~aI~~~~~~~~P~~I~V~ttC~~~iIGd----------Di~~v~~~~~---~~~-~~pvi~v~t~gf~g~~~~~G~~ 141 (426)
T cd01972 76 KLEDTIKEAYSRYKPKAIFVATSCATGIIGD----------DVESVVEELE---DEI-GIPVVALHCEGFKGKHWRSGFD 141 (426)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCChHHHhcc----------CHHHHHHHHH---Hhh-CCCEEEEeCCccCCccHhHHHH
Confidence 455566667889999988877766 555566 3444444332 222 5689999999998745555555
Q ss_pred HHHHHHh
Q 020323 285 DSFRAFL 291 (327)
Q Consensus 285 ~~~~~l~ 291 (327)
..+++++
T Consensus 142 ~a~~al~ 148 (426)
T cd01972 142 AAFHGIL 148 (426)
T ss_pred HHHHHHH
Confidence 5555555
No 34
>cd01967 Nitrogenase_MoFe_alpha_like Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). This group contains the alpha subunit of component 1 of all three different forms. The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. The role of the delta subunit is unknown. For MoFe, each alphabeta pair of subunits contains one
Probab=58.45 E-value=50 Score=32.52 Aligned_cols=72 Identities=22% Similarity=0.204 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
.+.+.|..+.++++|++|+|..+. ....+|. +..+.+.+. .+. +.|++.+--.||...+...++.
T Consensus 74 ~L~~~i~~~~~~~~P~~i~v~~tC~~~~iGdD----------i~~v~~~~~---~~~-~~~vi~v~t~gf~g~~~~~G~~ 139 (406)
T cd01967 74 KLKKAIKEAYERFPPKAIFVYSTCPTGLIGDD----------IEAVAKEAS---KEL-GIPVIPVNCEGFRGVSQSLGHH 139 (406)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCCchhhhccC----------HHHHHHHHH---Hhh-CCCEEEEeCCCeeCCcccHHHH
Confidence 455556667789999977776665 6666663 544444433 222 4688888888886644444555
Q ss_pred HHHHHHh
Q 020323 285 DSFRAFL 291 (327)
Q Consensus 285 ~~~~~l~ 291 (327)
..+++++
T Consensus 140 ~a~~al~ 146 (406)
T cd01967 140 IANDAIL 146 (406)
T ss_pred HHHHHHH
Confidence 5555444
No 35
>cd04237 AAK_NAGS-ABP AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an N-terminal NAG kinase-like (ArgB) domain (this CD) and a C-terminal NAG synthase, acetyltransferase (ArgA) domain. Both bacterial and plant sequences in this CD have a conserved N-terminal extension; a similar sequence in the NAG kinases of the cyclic arginine-biosynthesis pathway has been implicated in feedback inhibition sensing. Plant sequences also have an N-terminal chloroplast transit peptide and an insert (approx. 70 residues) in the C-terminal region of ArgB. Members of this CD belong to the Amino Acid Kinase Superfamily (AAK).
Probab=57.03 E-value=30 Score=32.69 Aligned_cols=62 Identities=16% Similarity=0.241 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCch
Q 020323 203 MRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLN 277 (327)
Q Consensus 203 y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~ 277 (327)
|...|++. .|.+..|+-..+||-.|-.+..+| .+..+.+.|..+.. .+.++++|.+||....
T Consensus 2 ~~~~~~~~-~~yi~~~~~~~~VIKlGG~ai~~~----------~l~~~~~~ia~l~~--~g~~~ViVHGggp~i~ 63 (280)
T cd04237 2 FVDWFREA-APYINAHRGKTFVIAFGGEAVAHP----------NFDNIVHDIALLHS--LGIRLVLVHGARPQID 63 (280)
T ss_pred hHHHHHHH-hHHHHHhCCCEEEEEEChHHhcCc----------hHHHHHHHHHHHHH--CCCcEEEEeCCCHHHH
Confidence 56677776 489999999999999988777654 23344444554432 1457999999998754
No 36
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=55.73 E-value=78 Score=26.80 Aligned_cols=16 Identities=38% Similarity=0.603 Sum_probs=13.2
Q ss_pred hcCCCEEEEeccC-CCC
Q 020323 217 RFKPDLILVSAGY-DAH 232 (327)
Q Consensus 217 ~f~PdlIvv~aG~-D~~ 232 (327)
.++||+||+..|. |+.
T Consensus 65 ~~~~d~vii~~G~ND~~ 81 (185)
T cd01832 65 ALRPDLVTLLAGGNDIL 81 (185)
T ss_pred hcCCCEEEEeccccccc
Confidence 4799999999998 443
No 37
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=54.52 E-value=70 Score=32.30 Aligned_cols=70 Identities=11% Similarity=0.126 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
.|.+.|..+.++++|++|+|.+.. ....+|. +..+.+.+.+ +. +.|++.+-..||..+ ...++.
T Consensus 108 kL~~~I~e~~~~~~P~~I~V~ttC~~~lIGdD----------i~~v~~e~~~---~~-~~~vi~v~t~gf~g~-~~~G~~ 172 (456)
T TIGR01283 108 KLFHAIREIVERYHPPAVFVYSTCVPGLIGDD----------LEAVCKAAAE---KT-GIPVIPVDSEGFYGS-KNLGNK 172 (456)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCChHHHhcCC----------HHHHHHHHHH---Hh-CCCEEEEECCCCccc-hhHHHH
Confidence 444555667788999987766554 6666773 5554444332 22 568888888888543 334444
Q ss_pred HHHHHH
Q 020323 285 DSFRAF 290 (327)
Q Consensus 285 ~~~~~l 290 (327)
..++++
T Consensus 173 ~a~~al 178 (456)
T TIGR01283 173 LACDAL 178 (456)
T ss_pred HHHHHH
Confidence 444443
No 38
>cd01838 Isoamyl_acetate_hydrolase_like Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases
Probab=53.37 E-value=67 Score=27.28 Aligned_cols=39 Identities=23% Similarity=0.249 Sum_probs=22.0
Q ss_pred CCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHH
Q 020323 219 KPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAK 259 (327)
Q Consensus 219 ~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~ 259 (327)
+||+||+..|. |..... ..-..+.+.|..-.+.+.+.++
T Consensus 63 ~pd~vii~~G~ND~~~~~--~~~~~~~~~~~~~~~~~i~~~~ 102 (199)
T cd01838 63 QPDLVTIFFGANDAALPG--QPQHVPLDEYKENLRKIVSHLK 102 (199)
T ss_pred CceEEEEEecCccccCCC--CCCcccHHHHHHHHHHHHHHHH
Confidence 89999999998 443321 0123556666544444333333
No 39
>PRK10818 cell division inhibitor MinD; Provisional
Probab=51.44 E-value=20 Score=33.09 Aligned_cols=27 Identities=30% Similarity=0.401 Sum_probs=18.3
Q ss_pred HHHHHHHHHHcCCCeEEEEEcccccccc
Q 020323 122 AIAARYAQRAHGLKRVFIIDFDVHHGNG 149 (327)
Q Consensus 122 Aiaa~~l~~~~~~~RV~iiD~DvHhGnG 149 (327)
|+.+.+++.+.| +||++||+|.+.+|-
T Consensus 20 a~nlA~~la~~g-~~vllvD~D~~~~~~ 46 (270)
T PRK10818 20 SAAIATGLAQKG-KKTVVIDFDIGLRNL 46 (270)
T ss_pred HHHHHHHHHHCC-CeEEEEECCCCCCCh
Confidence 333334444445 699999999988874
No 40
>cd04501 SGNH_hydrolase_like_4 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=51.10 E-value=1.2e+02 Score=25.66 Aligned_cols=39 Identities=23% Similarity=0.396 Sum_probs=23.4
Q ss_pred eeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CCC
Q 020323 189 TLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DAH 232 (327)
Q Consensus 189 ~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~~ 232 (327)
.+|..++..+ -..++..+++. +...+||+|+++.|. |..
T Consensus 34 v~n~g~~G~~-~~~~l~~l~~~----~~~~~~d~v~i~~G~ND~~ 73 (183)
T cd04501 34 VINRGINGDT-TSQMLVRFYED----VIALKPAVVIIMGGTNDII 73 (183)
T ss_pred EEecCcCCcc-HHHHHHHHHHH----HHhcCCCEEEEEeccCccc
Confidence 3455444333 23455544433 355799999999998 444
No 41
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=50.41 E-value=73 Score=31.98 Aligned_cols=75 Identities=16% Similarity=0.100 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
-|.+.|..+.++++|++|+|..+. ....+| ++..+.+.++.-.....+.|++.+--.||.. +...++.
T Consensus 72 ~L~~ai~~~~~~~~p~~I~v~ttC~~~iiGd----------Di~~v~~~~~~~~~~~~~~~vi~v~tpgf~g-s~~~G~~ 140 (435)
T cd01974 72 NLIDGLKNAYAVYKPDMIAVSTTCMAEVIGD----------DLNAFIKNAKNKGSIPADFPVPFANTPSFVG-SHITGYD 140 (435)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCchHhhhhc----------cHHHHHHHHHHhccCCCCCeEEEecCCCCcc-CHHHHHH
Confidence 445556667889999977766654 666666 3544444332210000134677777778874 4446666
Q ss_pred HHHHHHh
Q 020323 285 DSFRAFL 291 (327)
Q Consensus 285 ~~~~~l~ 291 (327)
..+++++
T Consensus 141 ~a~~al~ 147 (435)
T cd01974 141 NMVKGIL 147 (435)
T ss_pred HHHHHHH
Confidence 6666665
No 42
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=49.43 E-value=25 Score=32.56 Aligned_cols=20 Identities=30% Similarity=0.391 Sum_probs=14.2
Q ss_pred HHHHHcCCCeEEEEEcccccc
Q 020323 127 YAQRAHGLKRVFIIDFDVHHG 147 (327)
Q Consensus 127 ~l~~~~~~~RV~iiD~DvHhG 147 (327)
+++.+.| +||++||+|.+-+
T Consensus 22 ~~La~~G-~~VlliD~D~q~~ 41 (275)
T TIGR01287 22 AALAEMG-KKVMIVGCDPKAD 41 (275)
T ss_pred HHHHHCC-CeEEEEeCCCCCC
Confidence 3344445 6999999998743
No 43
>TIGR02707 butyr_kinase butyrate kinase. This model represents an enzyme family in which members are designated either butryate kinase or branched-chain carboxylic acid kinase. The EC designation 2.7.2.7 describes an enzyme with relatively broad specificity; gene products whose context suggests a role in metabolism of aliphatic amino acids are likely to act as branched-chain carboxylic acid kinase. The gene typically found adjacent, ptb (phosphate butyryltransferase), likewise encodes an enzyme that may have a broad specificity that includes a role in aliphatic amino acid cabolism.
Probab=49.43 E-value=39 Score=33.17 Aligned_cols=67 Identities=16% Similarity=0.241 Sum_probs=46.0
Q ss_pred ecCCCCCCCCCC-----------CCCCcccccHHHHHHHHHHHHc-CCC--eEEEEEcccccccccccccccCCCEEEEe
Q 020323 99 LIRPPGHHAIPK-----------GPMGFCVFGNVAIAARYAQRAH-GLK--RVFIIDFDVHHGNGTNDAFYDDPDIFFLS 164 (327)
Q Consensus 99 ~~rppGHHA~~~-----------~~~GFC~fN~vAiaa~~l~~~~-~~~--RV~iiD~DvHhGnGt~~~f~~d~~Vl~iS 164 (327)
+.-++-|+-.+. +-.||==+|--.|+-+++.... +.+ +++++=+ |+|+--....|.+++--|
T Consensus 124 vfDt~fh~~~~~~a~~~alpe~~RrygfHgls~~~v~~~~~~~~g~~~~~~~~I~~hL----GtGig~~ai~~Gk~vdgs 199 (351)
T TIGR02707 124 IVDPVVVDEMEDVARISGLPEIERKSIFHALNQKAVARRIAKELGKRYEEMNLIVAHM----GGGISVAAHRKGRVIDVN 199 (351)
T ss_pred EcCChhhhcChHHHHHhccchhhhhhchhhhhHHHHHHHHHHHcCCCcccCCEEEEEe----CCCceeeeEECCEEEEcC
Confidence 556666775443 4457888888888888775431 223 7877766 999998888888877766
Q ss_pred eccCC
Q 020323 165 THQDG 169 (327)
Q Consensus 165 iH~~~ 169 (327)
.-..+
T Consensus 200 ~G~ag 204 (351)
T TIGR02707 200 NALDG 204 (351)
T ss_pred CCCCC
Confidence 64333
No 44
>PRK14477 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional
Probab=49.39 E-value=1.5e+02 Score=32.90 Aligned_cols=76 Identities=18% Similarity=0.168 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHH
Q 020323 205 TVFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSV 283 (327)
Q Consensus 205 ~~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~ 283 (327)
.-|++.|..+.++|+|++|+|.++. =...+| ++..+.+.+++--.++.+.|++.+--.||.. +...++
T Consensus 557 ~~L~~~I~~~~~~~~p~~I~V~tTc~~eiIGD----------Di~~vi~~~~~~~~~~~~~pvi~v~tpgF~G-s~~~G~ 625 (917)
T PRK14477 557 ENLKQGILRVIEKFKPKVIGVMTTGLTETMGD----------DVRSAIVQFREEHPELDDVPVVWASTPDYCG-SLQEGY 625 (917)
T ss_pred HHHHHHHHHHHHhcCCCEEEEECCchHhhhhc----------CHHHHHHHHHhhccccCCCeEEEeeCCCCcc-CHHHHH
Confidence 3566667778899999988887765 334455 3444333322111111245889999999965 456677
Q ss_pred HHHHHHHh
Q 020323 284 ADSFRAFL 291 (327)
Q Consensus 284 ~~~~~~l~ 291 (327)
...+++++
T Consensus 626 ~~a~~aiv 633 (917)
T PRK14477 626 AAAVEAIV 633 (917)
T ss_pred HHHHHHHH
Confidence 76666665
No 45
>cd01839 SGNH_arylesterase_like SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=49.34 E-value=96 Score=27.05 Aligned_cols=39 Identities=10% Similarity=0.177 Sum_probs=23.6
Q ss_pred hcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHH
Q 020323 217 RFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKD 260 (327)
Q Consensus 217 ~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~ 260 (327)
..+||+|++..|. |... .+.++.+.|..-.+.+.+.+++
T Consensus 77 ~~~pd~vii~lGtND~~~-----~~~~~~~~~~~~l~~lv~~i~~ 116 (208)
T cd01839 77 HSPLDLVIIMLGTNDLKS-----YFNLSAAEIAQGLGALVDIIRT 116 (208)
T ss_pred CCCCCEEEEecccccccc-----ccCCCHHHHHHHHHHHHHHHHh
Confidence 3799999999998 6542 2334666665443333333433
No 46
>CHL00175 minD septum-site determining protein; Validated
Probab=49.15 E-value=22 Score=33.04 Aligned_cols=28 Identities=25% Similarity=0.188 Sum_probs=19.3
Q ss_pred HHHHHHHHHHcCCCeEEEEEccccccccc
Q 020323 122 AIAARYAQRAHGLKRVFIIDFDVHHGNGT 150 (327)
Q Consensus 122 Aiaa~~l~~~~~~~RV~iiD~DvHhGnGt 150 (327)
|+-+.+++.+.| +||++||+|..+||-+
T Consensus 33 a~nLA~~La~~g-~~vlliD~D~~~~~l~ 60 (281)
T CHL00175 33 TANLGMSIARLG-YRVALIDADIGLRNLD 60 (281)
T ss_pred HHHHHHHHHhCC-CeEEEEeCCCCCCChh
Confidence 333334444555 6999999999998844
No 47
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=48.33 E-value=1.6e+02 Score=29.53 Aligned_cols=73 Identities=10% Similarity=0.158 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHhc-CCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHH
Q 020323 206 VFHEVIVPCAQRF-KPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSV 283 (327)
Q Consensus 206 ~~~~~l~p~~~~f-~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~ 283 (327)
.+.+.+..+++++ +|++|+|.+.+ -...+|. +..+.+.+. .+.-+.|++.+-..||.. +...+.
T Consensus 83 ~L~~ai~ei~~~~~~P~~I~V~tTC~~e~IGDD----------i~~v~~e~~---~~~~~~pvv~v~t~Gf~g-~~~~G~ 148 (427)
T PRK02842 83 ELDRVVEELIKRRPNISVLFLVGSCPSEVIKLD----------LEGLAERLS---TEFAGVPVLNYSGSGLET-TFTQGE 148 (427)
T ss_pred HHHHHHHHHHhccCCCCEEEEECCChHHhhcCC----------HHHHHHHhh---cccCCCeEEEeeCCCccc-cHHHHH
Confidence 3444455545566 89999888876 5555663 444433322 222145788888999964 334566
Q ss_pred HHHHHHHhC
Q 020323 284 ADSFRAFLG 292 (327)
Q Consensus 284 ~~~~~~l~g 292 (327)
...++++++
T Consensus 149 ~~~~~alv~ 157 (427)
T PRK02842 149 DAVLAALVP 157 (427)
T ss_pred HHHHHHHhh
Confidence 677777775
No 48
>cd00316 Oxidoreductase_nitrogenase The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase) and, both subunits of Protochlorophyllide (Pchlide) reductase and chlorophyllide (chlide) reductase. The nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized nitrogenase is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers whose alpha and beta subunits are similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molec
Probab=47.92 E-value=1.1e+02 Score=29.77 Aligned_cols=68 Identities=22% Similarity=0.270 Sum_probs=43.8
Q ss_pred HHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHHHHH
Q 020323 209 EVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVADSF 287 (327)
Q Consensus 209 ~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~~~~ 287 (327)
+.+...+++++|++|+|..+. ....+| ++..+.+.+.. ..+.|++.+-..||. .+...++...+
T Consensus 70 ~~i~~~~~~~~p~~i~v~~tc~~~liGd----------Di~~v~~~~~~----~~~~~vv~~~~~gf~-~~~~~G~~~a~ 134 (399)
T cd00316 70 EAIINELKRYKPKVIFVYTTCTTELIGD----------DIEAVAKEASK----EIGIPVVPASTPGFR-GSQSAGYDAAV 134 (399)
T ss_pred HHHHHHHHHcCCCEEEEecCchhhhhcc----------CHHHHHHHHHH----hhCCceEEeeCCCCc-ccHHHHHHHHH
Confidence 344457788999988777665 555666 35555444432 235688989999998 54555555555
Q ss_pred HHHh
Q 020323 288 RAFL 291 (327)
Q Consensus 288 ~~l~ 291 (327)
+++.
T Consensus 135 ~~~~ 138 (399)
T cd00316 135 KAII 138 (399)
T ss_pred HHHH
Confidence 5554
No 49
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=47.71 E-value=20 Score=33.26 Aligned_cols=21 Identities=14% Similarity=0.347 Sum_probs=15.3
Q ss_pred HHHHHcCCCeEEEEEccccccc
Q 020323 127 YAQRAHGLKRVFIIDFDVHHGN 148 (327)
Q Consensus 127 ~l~~~~~~~RV~iiD~DvHhGn 148 (327)
+++.+.| +||++||+|.+..+
T Consensus 23 ~~La~~G-~rVllvD~Dpq~~~ 43 (273)
T PRK13232 23 AALSTMG-NKILLVGCDPKADS 43 (273)
T ss_pred HHHHhhC-CCeEEEeccccccc
Confidence 3344445 59999999998665
No 50
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=45.28 E-value=1.2e+02 Score=29.99 Aligned_cols=70 Identities=14% Similarity=0.179 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
.|.+.|..+.++|+|++|+|.... ....+| ++..+.+.++. +. +.|++.+--.||..+ ....+.
T Consensus 73 ~L~~~i~~~~~~~~P~~i~v~~tC~~~~iGd----------Di~~v~~~~~~---~~-~~~vi~v~t~gf~g~-~~~G~~ 137 (410)
T cd01968 73 KLYKAILEIIERYHPKAVFVYSTCVVALIGD----------DIDAVCKTASE---KF-GIPVIPVHSPGFVGN-KNLGNK 137 (410)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCCchhhhcc----------CHHHHHHHHHH---hh-CCCEEEEECCCcccC-hhHHHH
Confidence 444555667788999977666554 666676 45555544332 22 568888888888543 233444
Q ss_pred HHHHHH
Q 020323 285 DSFRAF 290 (327)
Q Consensus 285 ~~~~~l 290 (327)
..++++
T Consensus 138 ~a~~~l 143 (410)
T cd01968 138 LACEAL 143 (410)
T ss_pred HHHHHH
Confidence 343333
No 51
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=45.18 E-value=28 Score=32.40 Aligned_cols=27 Identities=22% Similarity=0.345 Sum_probs=17.9
Q ss_pred HHHHHHHcCCCeEEEEEcccccccccccc
Q 020323 125 ARYAQRAHGLKRVFIIDFDVHHGNGTNDA 153 (327)
Q Consensus 125 a~~l~~~~~~~RV~iiD~DvHhGnGt~~~ 153 (327)
+.+++.+.| +||++||+|. +||=|..+
T Consensus 21 LA~~La~~G-~rVLliD~Dp-q~n~t~~l 47 (279)
T PRK13230 21 IAAALAESG-KKVLVVGCDP-KADCTRNL 47 (279)
T ss_pred HHHHHHhCC-CEEEEEeeCC-cccccccc
Confidence 334444555 5999999999 46655544
No 52
>cd01820 PAF_acetylesterase_like PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate specificity towards PAF, hydrolyzing an acetyl ester at the sn-2 position. PAF-AH also degrades a family of oxidized PAF-like phospholipids with short sn-2 residues. In addition, PAF and PAF-AH are associated with neural migration and mammalian reproduction.
Probab=45.04 E-value=61 Score=28.65 Aligned_cols=16 Identities=13% Similarity=0.422 Sum_probs=13.4
Q ss_pred HHhcCCCEEEEeccCC
Q 020323 215 AQRFKPDLILVSAGYD 230 (327)
Q Consensus 215 ~~~f~PdlIvv~aG~D 230 (327)
+..++||+|||..|..
T Consensus 85 l~~~~pd~VvI~~G~N 100 (214)
T cd01820 85 LDGVNPKVVVLLIGTN 100 (214)
T ss_pred ccCCCCCEEEEEeccc
Confidence 4567999999999983
No 53
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=44.89 E-value=51 Score=31.35 Aligned_cols=26 Identities=19% Similarity=0.404 Sum_probs=20.4
Q ss_pred HHHHHHHhcCCCEEEEeccCCCCCCCC
Q 020323 210 VIVPCAQRFKPDLILVSAGYDAHVLDP 236 (327)
Q Consensus 210 ~l~p~~~~f~PdlIvv~aG~D~~~~Dp 236 (327)
.+.+++++++||++| -+|-|+...++
T Consensus 144 ~i~~Ll~~~~PDIlV-iTGHD~~~K~~ 169 (283)
T TIGR02855 144 KVLDLIEEVRPDILV-ITGHDAYSKNK 169 (283)
T ss_pred HHHHHHHHhCCCEEE-EeCchhhhcCC
Confidence 456789999999765 58999997554
No 54
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=44.00 E-value=1e+02 Score=31.42 Aligned_cols=72 Identities=13% Similarity=0.160 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHH-
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSV- 283 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~- 283 (327)
.|.+.|..+.++|+|++|+|.... ....+| ++..+.+.++ .+. +.|++.+--.||..+ ....+
T Consensus 106 kL~~~I~ei~~~~~P~~I~V~tTC~~~lIGd----------Di~~v~~~~~---~~~-~~pvi~v~t~Gf~g~-~~~G~~ 170 (475)
T PRK14478 106 KLFKAIDEIIEKYAPPAVFVYQTCVVALIGD----------DIDAVCKRAA---EKF-GIPVIPVNSPGFVGN-KNLGNK 170 (475)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCChHHHhcc----------CHHHHHHHHH---Hhh-CCCEEEEECCCcccc-hhhhHH
Confidence 344555567788999988776654 666666 4555544433 222 568888888888642 22333
Q ss_pred ---HHHHHHHhC
Q 020323 284 ---ADSFRAFLG 292 (327)
Q Consensus 284 ---~~~~~~l~g 292 (327)
..+++.+++
T Consensus 171 ~a~~al~~~l~~ 182 (475)
T PRK14478 171 LAGEALLDHVIG 182 (475)
T ss_pred HHHHHHHHHHhc
Confidence 344555554
No 55
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=42.49 E-value=34 Score=28.84 Aligned_cols=23 Identities=30% Similarity=0.242 Sum_probs=16.4
Q ss_pred HHHHcCCCeEEEEEcccccccccc
Q 020323 128 AQRAHGLKRVFIIDFDVHHGNGTN 151 (327)
Q Consensus 128 l~~~~~~~RV~iiD~DvHhGnGt~ 151 (327)
.+++.| .||++||.|...+|-+.
T Consensus 23 ~l~~~g-~~vllvD~D~~~~~~~~ 45 (179)
T cd02036 23 ALAQLG-YKVVLIDADLGLRNLDL 45 (179)
T ss_pred HHHhCC-CeEEEEeCCCCCCCchh
Confidence 333445 59999999998877443
No 56
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=41.92 E-value=1.3e+02 Score=26.12 Aligned_cols=60 Identities=18% Similarity=0.189 Sum_probs=33.2
Q ss_pred eeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHH
Q 020323 189 TLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKD 260 (327)
Q Consensus 189 ~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~ 260 (327)
.+|..++..+.. ..+..|.+ .+..++||+||+..|. |... .++.+.|..-.+.+.+.++.
T Consensus 46 v~N~Gi~G~tt~-~~~~rl~~----~l~~~~pd~Vii~~GtND~~~-------~~~~~~~~~~l~~li~~~~~ 106 (191)
T PRK10528 46 VVNASISGDTSQ-QGLARLPA----LLKQHQPRWVLVELGGNDGLR-------GFPPQQTEQTLRQIIQDVKA 106 (191)
T ss_pred EEecCcCcccHH-HHHHHHHH----HHHhcCCCEEEEEeccCcCcc-------CCCHHHHHHHHHHHHHHHHH
Confidence 456666554443 23344443 4456799999999998 5422 35565554433333333333
No 57
>cd01981 Pchlide_reductase_B Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=41.85 E-value=2.1e+02 Score=28.55 Aligned_cols=58 Identities=17% Similarity=0.141 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHhcCCCEEEEecc-CCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCch
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAG-YDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLN 277 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG-~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~ 277 (327)
.|++.|..+.++++|++|+|.+. .....+|. +..+.+.+. ++ .+.|++.+--.||...
T Consensus 72 kL~~~I~~~~~~~~p~~I~v~~tC~~~iIGdD----------i~~v~~~~~---~~-~~~~vi~v~t~gf~g~ 130 (430)
T cd01981 72 KVVENITRKDKEEKPDLIVLTPTCTSSILQED----------LQNFVRAAG---LS-SKSPVLPLDVNHYRVN 130 (430)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCccHHHHhhC----------HHHHHHHhh---hc-cCCCeEEecCCCccch
Confidence 34445556678899998887776 46666774 444443332 12 2457888888888653
No 58
>cd01971 Nitrogenase_VnfN_like Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protien for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=41.62 E-value=81 Score=31.56 Aligned_cols=70 Identities=19% Similarity=0.300 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
-|++.|..+.++|+|++|+|.... ....+|. +..+.+.+ ++ .+.|++.+--.||..+.. .++.
T Consensus 73 kL~~~I~~~~~~~~p~~I~V~ttC~~~~IGdD----------i~~v~~~~----~~-~~~~vi~v~t~gf~g~~~-~G~~ 136 (427)
T cd01971 73 RLRELIKSTLSIIDADLFVVLTGCIAEIIGDD----------VGAVVSEF----QE-GGAPIVYLETGGFKGNNY-AGHE 136 (427)
T ss_pred HHHHHHHHHHHhCCCCEEEEEcCCcHHHhhcC----------HHHHHHHh----hh-cCCCEEEEECCCcCcccc-cHHH
Confidence 444555567788999977766654 6666763 44444333 22 246888888899976432 4444
Q ss_pred HHHHHHh
Q 020323 285 DSFRAFL 291 (327)
Q Consensus 285 ~~~~~l~ 291 (327)
..+++++
T Consensus 137 ~a~~al~ 143 (427)
T cd01971 137 IVLKAII 143 (427)
T ss_pred HHHHHHH
Confidence 4444443
No 59
>cd01844 SGNH_hydrolase_like_6 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=40.92 E-value=1e+02 Score=26.18 Aligned_cols=18 Identities=17% Similarity=0.342 Sum_probs=14.5
Q ss_pred HHHHhcCCCEEEEeccCC
Q 020323 213 PCAQRFKPDLILVSAGYD 230 (327)
Q Consensus 213 p~~~~f~PdlIvv~aG~D 230 (327)
..+...+||+||+..|..
T Consensus 51 ~~~~~~~pd~vii~~G~N 68 (177)
T cd01844 51 ELLRDVPADLYIIDCGPN 68 (177)
T ss_pred HHHHhcCCCEEEEEeccC
Confidence 344568999999999985
No 60
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=40.79 E-value=1.2e+02 Score=23.87 Aligned_cols=75 Identities=17% Similarity=0.225 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHcCCCeEEEEEcccccccccccccccCCCEEEEeeccCCCCCCCCCCCccCCCCCCCceeeccCCCCCC
Q 020323 120 NVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSYPGTGKIDEVGRGDGEGSTLNLPLPGGSG 199 (327)
Q Consensus 120 ~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~d~~Vl~iSiH~~~~yP~tg~~~e~G~~~g~g~~~nipL~~g~~ 199 (327)
.+.+.+.++++ .|. .|-++|.+++..+-.+.+-..+|+++.+|.+..+
T Consensus 16 Gl~~la~~l~~-~G~-~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~------------------------------ 63 (121)
T PF02310_consen 16 GLLYLAAYLRK-AGH-EVDILDANVPPEELVEALRAERPDVVGISVSMTP------------------------------ 63 (121)
T ss_dssp HHHHHHHHHHH-TTB-EEEEEESSB-HHHHHHHHHHTTCSEEEEEESSST------------------------------
T ss_pred HHHHHHHHHHH-CCC-eEEEECCCCCHHHHHHHHhcCCCcEEEEEccCcC------------------------------
Confidence 45555556655 465 8999999998876777777789999999974210
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCEEEEeccCC
Q 020323 200 DTAMRTVFHEVIVPCAQRFKPDLILVSAGYD 230 (327)
Q Consensus 200 d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D 230 (327)
.+. ...++ ...+++..|+.+++.-|.-
T Consensus 64 --~~~-~~~~l-~~~~k~~~p~~~iv~GG~~ 90 (121)
T PF02310_consen 64 --NLP-EAKRL-ARAIKERNPNIPIVVGGPH 90 (121)
T ss_dssp --HHH-HHHHH-HHHHHTTCTTSEEEEEESS
T ss_pred --cHH-HHHHH-HHHHHhcCCCCEEEEECCc
Confidence 111 11222 2457889999999988843
No 61
>PRK05279 N-acetylglutamate synthase; Validated
Probab=40.16 E-value=98 Score=31.00 Aligned_cols=64 Identities=14% Similarity=0.201 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchh
Q 020323 202 AMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNS 278 (327)
Q Consensus 202 ~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~ 278 (327)
+|...|++.+ |.+.+|+=+.+||-.|-.+..++ .+..+.+.|..+.. .+.++++|.+||+..+.
T Consensus 8 ~~~~~~~~~~-~~i~~~~~~~~VIk~GG~~l~~~----------~~~~~~~~i~~l~~--~g~~~VlVHGgg~~i~~ 71 (441)
T PRK05279 8 EFVDWFRHSA-PYINAHRGKTFVIMLGGEAIAHG----------NFSNIVHDIALLHS--LGIRLVLVHGARPQIEE 71 (441)
T ss_pred HHHHHHHHHh-HHHHHhCCCEEEEEECchhccCh----------hHHHHHHHHHHHHH--CCCeEEEECCCCHHHHH
Confidence 5778888764 89999998899999998777533 24445555555432 14478999999987553
No 62
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=38.93 E-value=45 Score=30.47 Aligned_cols=24 Identities=29% Similarity=0.362 Sum_probs=15.9
Q ss_pred HHHHHcCCCeEEEEEccccccccccc
Q 020323 127 YAQRAHGLKRVFIIDFDVHHGNGTND 152 (327)
Q Consensus 127 ~l~~~~~~~RV~iiD~DvHhGnGt~~ 152 (327)
+++.+.| +||++||+|. +||-+..
T Consensus 23 ~~La~~G-~kVlliD~Dp-q~n~~~~ 46 (270)
T cd02040 23 AALAEMG-KKVMIVGCDP-KADSTRL 46 (270)
T ss_pred HHHHhCC-CeEEEEEcCC-CCCchhh
Confidence 3333445 5999999998 4665543
No 63
>COG1891 Uncharacterized protein conserved in archaea [Function unknown]
Probab=37.44 E-value=47 Score=29.72 Aligned_cols=45 Identities=29% Similarity=0.532 Sum_probs=31.5
Q ss_pred eeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEeccC-CCCCCC
Q 020323 190 LNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAGY-DAHVLD 235 (327)
Q Consensus 190 ~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~D 235 (327)
+.+.|-.--..++-+.++..++ .+++.|.|+-+|+.+|+ |+|+--
T Consensus 84 iKVGLYg~kn~~eA~e~m~~vv-rAVkd~d~~k~VVAaGYaDa~Rvg 129 (235)
T COG1891 84 IKVGLYGTKNEEEALEVMKNVV-RAVKDFDPSKKVVAAGYADAHRVG 129 (235)
T ss_pred EEEeecccccHHHHHHHHHHHH-HHHhccCCCceEEeccccchhhcc
Confidence 4555544334445556666655 58899999999999998 887643
No 64
>TIGR01890 N-Ac-Glu-synth amino-acid N-acetyltransferase. This model represents a clade of amino-acid N-acetyltransferases acting mainly on glutamate in the first step of the "acetylated" ornithine biosynthesis pathway. For this reason it is also called N-acetylglutamate synthase. The enzyme may also act on aspartate.
Probab=37.18 E-value=84 Score=31.43 Aligned_cols=62 Identities=18% Similarity=0.182 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCch
Q 020323 203 MRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLN 277 (327)
Q Consensus 203 y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~ 277 (327)
|...|.+. +|.+++|+=+.+||=.|-.+..++. ...+.+.|..+.. .+.++++|.+||+..+
T Consensus 1 ~~~~~~~~-~~~i~~~~~~~~ViK~GG~~~~~~~----------~~~~~~~i~~l~~--~g~~~vlVHGgg~~i~ 62 (429)
T TIGR01890 1 FVAWFREA-APYINAHRGKTFVVGLGGELVEGGN----------LGNIVADIALLHS--LGVRLVLVHGARPQIE 62 (429)
T ss_pred ChhHHhhh-hHHHHHhCCCEEEEEEChhhccCcc----------HHHHHHHHHHHHH--CCCcEEEEcCCCHHHH
Confidence 34566666 4899999999999999876664321 2234444444432 2447999999997644
No 65
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=36.98 E-value=2.7e+02 Score=23.84 Aligned_cols=21 Identities=29% Similarity=0.335 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHhcCCCEEEEe
Q 020323 206 VFHEVIVPCAQRFKPDLILVS 226 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~ 226 (327)
.+.+.+..++.+++|++|+|+
T Consensus 50 ~~~~~l~~~i~~~kP~vI~v~ 70 (150)
T PF14639_consen 50 EDMERLKKFIEKHKPDVIAVG 70 (150)
T ss_dssp HHHHHHHHHHHHH--SEEEE-
T ss_pred HHHHHHHHHHHHcCCeEEEEc
Confidence 333445567789999999994
No 66
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=36.85 E-value=25 Score=30.14 Aligned_cols=14 Identities=43% Similarity=0.544 Sum_probs=12.6
Q ss_pred CeEEEEEccccccc
Q 020323 135 KRVFIIDFDVHHGN 148 (327)
Q Consensus 135 ~RV~iiD~DvHhGn 148 (327)
+||++||.|.+.+|
T Consensus 25 ~~vlliD~D~~~~~ 38 (179)
T cd03110 25 KNVVLADCDVDAPN 38 (179)
T ss_pred hCcEEEECCCCCCc
Confidence 59999999999877
No 67
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=36.74 E-value=1.3e+02 Score=26.69 Aligned_cols=51 Identities=16% Similarity=0.437 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHh-c-CCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEe
Q 020323 206 VFHEVIVPCAQR-F-KPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFL 270 (327)
Q Consensus 206 ~~~~~l~p~~~~-f-~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vl 270 (327)
.|+++..|.+++ + .-|+|++ |..|.|.+.+..|....+.+.. |+.|+++++
T Consensus 85 ~le~i~~~al~rA~~~aDvIII---------DEIGpMElks~~f~~~ve~vl~-----~~kpliatl 137 (179)
T COG1618 85 GLEEIAIPALRRALEEADVIII---------DEIGPMELKSKKFREAVEEVLK-----SGKPLIATL 137 (179)
T ss_pred HHHHHhHHHHHHHhhcCCEEEE---------ecccchhhccHHHHHHHHHHhc-----CCCcEEEEE
Confidence 455555666654 2 3588887 7899999999999876655442 355677666
No 68
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=36.59 E-value=43 Score=30.17 Aligned_cols=14 Identities=43% Similarity=0.617 Sum_probs=12.4
Q ss_pred CeEEEEEccccccc
Q 020323 135 KRVFIIDFDVHHGN 148 (327)
Q Consensus 135 ~RV~iiD~DvHhGn 148 (327)
+||++||.|...||
T Consensus 31 ~~vlliD~D~~~~~ 44 (261)
T TIGR01968 31 KKVVLIDADIGLRN 44 (261)
T ss_pred CeEEEEECCCCCCC
Confidence 59999999998776
No 69
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=36.34 E-value=45 Score=30.65 Aligned_cols=19 Identities=37% Similarity=0.406 Sum_probs=14.0
Q ss_pred HcCCCeEEEEEcccccccccc
Q 020323 131 AHGLKRVFIIDFDVHHGNGTN 151 (327)
Q Consensus 131 ~~~~~RV~iiD~DvHhGnGt~ 151 (327)
+.| +||++||+|. +||-|.
T Consensus 26 ~~g-~rVLliD~D~-q~~~~~ 44 (268)
T TIGR01281 26 KLG-KRVLQIGCDP-KHDSTF 44 (268)
T ss_pred hCC-CeEEEEecCc-cccccc
Confidence 344 5999999997 466554
No 70
>cd01834 SGNH_hydrolase_like_2 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=36.20 E-value=1.2e+02 Score=25.42 Aligned_cols=19 Identities=26% Similarity=0.398 Sum_probs=14.7
Q ss_pred HHhcCCCEEEEeccC-CCCC
Q 020323 215 AQRFKPDLILVSAGY-DAHV 233 (327)
Q Consensus 215 ~~~f~PdlIvv~aG~-D~~~ 233 (327)
+...+||+|+++.|. |...
T Consensus 57 ~~~~~~d~v~l~~G~ND~~~ 76 (191)
T cd01834 57 VLPAKPDVVSIMFGINDSFR 76 (191)
T ss_pred cccCCCCEEEEEeecchHhh
Confidence 345789999999998 5543
No 71
>TIGR02932 vnfK_nitrog V-containing nitrogenase, beta subunit. Nitrogenase is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, VnfK, represents the beta subunit of the vanadium (V)-containing alternative nitrogenase. It is homologous to NifK and AnfK, of the molybdenum-containing and the iron (Fe)-only types, respectively.
Probab=36.15 E-value=2e+02 Score=29.17 Aligned_cols=75 Identities=13% Similarity=0.138 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHhc-CCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHH-HHHHHh--cCCcEEEEeCCCCCchhHH
Q 020323 206 VFHEVIVPCAQRF-KPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIK-QLAKDL--CGSRCVFFLEGGYNLNSLS 280 (327)
Q Consensus 206 ~~~~~l~p~~~~f-~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~-~~a~~~--~~g~~v~vleGGY~~~~l~ 280 (327)
-|++.|..+.++| +|++|+|.+++ =...+| +...+.+.++ ++.+++ .+.|++.|-.+||.. +..
T Consensus 76 kL~~aI~~~~~~~~~p~~I~V~ttC~~eiIGD----------Di~~v~~~~~~~~~~e~~~~~~~vv~v~tpgF~g-s~~ 144 (457)
T TIGR02932 76 RIEEGVLTLARRYPNLRVIPIITTCSTETIGD----------DIEGSIRKVNRALKKEFPDRKIKLVPVHTPSFKG-SQV 144 (457)
T ss_pred HHHHHHHHHHHhCCCCCEEEEECCchHHhhcC----------CHHHHHHHHHhhhhhhcCCCCCeEEEeeCCCCcC-cHH
Confidence 3445556677888 69988886665 444566 3444443322 111222 135788888999975 444
Q ss_pred HHHHHHHHHHh
Q 020323 281 YSVADSFRAFL 291 (327)
Q Consensus 281 ~~~~~~~~~l~ 291 (327)
.++...+++++
T Consensus 145 ~G~~~a~~ali 155 (457)
T TIGR02932 145 TGYAECVKSVI 155 (457)
T ss_pred HHHHHHHHHHH
Confidence 55665555555
No 72
>TIGR02015 BchY chlorophyllide reductase subunit Y. This model represents the Y subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase.
Probab=36.10 E-value=1.6e+02 Score=29.48 Aligned_cols=70 Identities=17% Similarity=0.065 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHhcCCCEEEEeccCCC-CCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHH
Q 020323 205 TVFHEVIVPCAQRFKPDLILVSAGYDA-HVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSV 283 (327)
Q Consensus 205 ~~~~~~l~p~~~~f~PdlIvv~aG~D~-~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~ 283 (327)
..+.+.+..+.++++|++|+|.+++=+ ..+|. ... ++++..+.|++.+---||...+-....
T Consensus 73 ~~L~~~i~~~~~~~~P~~I~V~tTC~se~IGdD----------i~~-------~~~~~~~~pVi~v~tpgF~~~s~~~G~ 135 (422)
T TIGR02015 73 EDVRCSVHKLADPASYDAIVVINLCVPTASGVP----------LEL-------LPKRINGVRVLGIDVPGFGVPTHAEAK 135 (422)
T ss_pred HHHHHHHHHHhhcCCCCEEEEECCCcHHHhcCc----------HHH-------HHHhcCCCCeEEEeCCCCCCchHHHHH
Confidence 456666667778899999999988422 12331 211 111112458999999999655544555
Q ss_pred HHHHHHHh
Q 020323 284 ADSFRAFL 291 (327)
Q Consensus 284 ~~~~~~l~ 291 (327)
...+++++
T Consensus 136 d~a~~ai~ 143 (422)
T TIGR02015 136 DVLVSAML 143 (422)
T ss_pred HHHHHHHH
Confidence 54444444
No 73
>TIGR02931 anfK_nitrog Fe-only nitrogenase, beta subunit. Nitrogenase is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, AnfK, represents the beta subunit of the iron-only alternative nitrogenase. It is homologous to NifK and VnfK, of the molybdenum-containing and the vanadium (V)-containing types, respectively.
Probab=36.04 E-value=3.1e+02 Score=27.89 Aligned_cols=71 Identities=10% Similarity=0.124 Sum_probs=45.9
Q ss_pred HHHHHHHHHHhc-CCCEE-EEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHh-------cCCcEEEEeCCCCCch
Q 020323 207 FHEVIVPCAQRF-KPDLI-LVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDL-------CGSRCVFFLEGGYNLN 277 (327)
Q Consensus 207 ~~~~l~p~~~~f-~PdlI-vv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~-------~~g~~v~vleGGY~~~ 277 (327)
+++.|..+.++| +|++| |++++.....+|. +..+.+.+. ++. ...|++.+-.+||..
T Consensus 80 L~~ai~~~~~~~~~p~~i~v~ttc~~eiiGDD----------i~~v~~~~~---~~~~~~~~p~~~~~ii~v~tpgF~g- 145 (461)
T TIGR02931 80 VEEAVDVLLTRYPDVKVVPIITTCSTEIIGDD----------VDGLISKLN---EELLKEKFPDREVHLIPIHTPSFVG- 145 (461)
T ss_pred HHHHHHHHHHhcCCCCEEEEECCchHHhhhcC----------HHHHHHHHH---hhhcccccCCCCCeEEEeeCCCCCC-
Confidence 556666778889 59987 5556668888884 555444332 211 134688888999975
Q ss_pred hHHHHHHHHHHHHh
Q 020323 278 SLSYSVADSFRAFL 291 (327)
Q Consensus 278 ~l~~~~~~~~~~l~ 291 (327)
+....+...+++++
T Consensus 146 s~~~Gy~~a~~ali 159 (461)
T TIGR02931 146 SMITGYDVAVHDFV 159 (461)
T ss_pred cHHHHHHHHHHHHH
Confidence 45566666666666
No 74
>cd00229 SGNH_hydrolase SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the typical Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=35.31 E-value=2.1e+02 Score=22.73 Aligned_cols=18 Identities=33% Similarity=0.586 Sum_probs=14.7
Q ss_pred HHHhcCCCEEEEeccC-CC
Q 020323 214 CAQRFKPDLILVSAGY-DA 231 (327)
Q Consensus 214 ~~~~f~PdlIvv~aG~-D~ 231 (327)
.....+||+|+++.|. |.
T Consensus 60 ~~~~~~~d~vil~~G~ND~ 78 (187)
T cd00229 60 ALLKDKPDLVIIELGTNDL 78 (187)
T ss_pred hhccCCCCEEEEEeccccc
Confidence 4567899999999997 44
No 75
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=35.06 E-value=44 Score=30.74 Aligned_cols=21 Identities=29% Similarity=0.286 Sum_probs=14.7
Q ss_pred HHHcCCCeEEEEEcccccccccc
Q 020323 129 QRAHGLKRVFIIDFDVHHGNGTN 151 (327)
Q Consensus 129 ~~~~~~~RV~iiD~DvHhGnGt~ 151 (327)
+.+.| +||++||.|- +||=|.
T Consensus 26 la~~G-~kVLliD~Dp-q~~~t~ 46 (270)
T PRK13185 26 FAKLG-KKVLQIGCDP-KHDSTF 46 (270)
T ss_pred HHHCC-CeEEEEeccC-Ccchhh
Confidence 33445 5999999997 566554
No 76
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=34.84 E-value=48 Score=31.40 Aligned_cols=24 Identities=17% Similarity=0.295 Sum_probs=16.2
Q ss_pred HHHcCCCeEEEEEccccccccccccc
Q 020323 129 QRAHGLKRVFIIDFDVHHGNGTNDAF 154 (327)
Q Consensus 129 ~~~~~~~RV~iiD~DvHhGnGt~~~f 154 (327)
+.+.| +||++||+|.+..+ |.-+|
T Consensus 28 la~~g-~kVLliD~D~q~~~-~~~~~ 51 (295)
T PRK13234 28 LVEMG-QKILIVGCDPKADS-TRLIL 51 (295)
T ss_pred HHHCC-CeEEEEeccccccc-ccccc
Confidence 34445 59999999998655 44333
No 77
>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent
Probab=34.84 E-value=12 Score=27.53 Aligned_cols=10 Identities=30% Similarity=0.786 Sum_probs=7.7
Q ss_pred CCcccccHHH
Q 020323 113 MGFCVFGNVA 122 (327)
Q Consensus 113 ~GFC~fN~vA 122 (327)
.-||||||--
T Consensus 16 TKFcYyNNy~ 25 (63)
T PF02701_consen 16 TKFCYYNNYN 25 (63)
T ss_pred CEEEeecCCC
Confidence 4699999853
No 78
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=34.60 E-value=96 Score=24.40 Aligned_cols=14 Identities=36% Similarity=0.994 Sum_probs=13.1
Q ss_pred CeEEEEEccccccc
Q 020323 135 KRVFIIDFDVHHGN 148 (327)
Q Consensus 135 ~RV~iiD~DvHhGn 148 (327)
++|+++|.|.++++
T Consensus 30 ~~~~l~d~d~~~~~ 43 (106)
T cd03111 30 RRVLLVDLDLQFGD 43 (106)
T ss_pred CcEEEEECCCCCCC
Confidence 69999999999987
No 79
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=34.47 E-value=48 Score=31.53 Aligned_cols=23 Identities=26% Similarity=0.340 Sum_probs=15.6
Q ss_pred HHHHHHHcCCCeEEEEEccccccc
Q 020323 125 ARYAQRAHGLKRVFIIDFDVHHGN 148 (327)
Q Consensus 125 a~~l~~~~~~~RV~iiD~DvHhGn 148 (327)
+.+++.+.| +||++||+|...++
T Consensus 20 LA~~La~~g-~rVLlID~Dpq~~~ 42 (296)
T TIGR02016 20 LSHMMAEMG-KRVLQLGCDPKHDS 42 (296)
T ss_pred HHHHHHHCC-CeEEEEEecCCCCc
Confidence 333344444 69999999998654
No 80
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=34.01 E-value=94 Score=30.07 Aligned_cols=35 Identities=46% Similarity=0.515 Sum_probs=28.6
Q ss_pred HHHHHHHHHHcCCCeEEEEEccccccccccccccc
Q 020323 122 AIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFYD 156 (327)
Q Consensus 122 Aiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~~ 156 (327)
+.++.|+.+..+.+||++|+-|.=.|.|..+.|..
T Consensus 136 ~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~~~~~ 170 (366)
T COG0683 136 AAAADYLVKKGGKKRVAIIGDDYAYGEGLADAFKA 170 (366)
T ss_pred HHHHHHHHHhcCCcEEEEEeCCCCcchhHHHHHHH
Confidence 44567777766656999999999999999999864
No 81
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=33.86 E-value=1e+02 Score=24.28 Aligned_cols=18 Identities=22% Similarity=0.432 Sum_probs=14.3
Q ss_pred HHHHHHhcCCCEEEEecc
Q 020323 211 IVPCAQRFKPDLILVSAG 228 (327)
Q Consensus 211 l~p~~~~f~PdlIvv~aG 228 (327)
+...+++++||+|.+|+-
T Consensus 43 l~~~~~~~~pd~V~iS~~ 60 (121)
T PF02310_consen 43 LVEALRAERPDVVGISVS 60 (121)
T ss_dssp HHHHHHHTTCSEEEEEES
T ss_pred HHHHHhcCCCcEEEEEcc
Confidence 345678899999999875
No 82
>CHL00202 argB acetylglutamate kinase; Provisional
Probab=33.82 E-value=1.8e+02 Score=27.49 Aligned_cols=63 Identities=21% Similarity=0.230 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCc
Q 020323 202 AMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNL 276 (327)
Q Consensus 202 ~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~ 276 (327)
.....|++. .|.+++|+=+.+||=.|-++..++. -...+.+.+..+.. .+.++++|.+||...
T Consensus 6 ~~~~~~~~~-~pyi~~~~~~~~VIk~gG~~~~~~~---------l~~~~~~di~~l~~--~g~~~VlVHGgg~~i 68 (284)
T CHL00202 6 ERVQVLSEA-LPYIQKFRGRIMVIKYGGAAMKNLI---------LKADIIKDILFLSC--IGLKIVVVHGGGPEI 68 (284)
T ss_pred HHHHHHHHH-HHHHHHHcCCeEEEEEChHHhcCcc---------hHHHHHHHHHHHHH--CCCcEEEEeCCcHHH
Confidence 345667776 5899999999999999987765432 23344455554432 356789999999854
No 83
>cd01821 Rhamnogalacturan_acetylesterase_like Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are highly branched regions in pectic polysaccharides, consisting of repeating -(1,2)-L-Rha-(1,4)-D-GalUA disaccharide units, with many rhamnose residues substituted by neutral oligosaccharides such as arabinans, galactans and arabinogalactans. Extracellular enzymes participating in the degradation of plant cell wall polymers, such as Rhamnogalacturonan acetylesterase, would typically be found in saprophytic and plant pathogenic fungi and bacteria.
Probab=33.50 E-value=2.1e+02 Score=24.58 Aligned_cols=40 Identities=23% Similarity=0.215 Sum_probs=22.3
Q ss_pred CCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHH
Q 020323 219 KPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKD 260 (327)
Q Consensus 219 ~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~ 260 (327)
+||+|+++.|. |+....+ ....+.+.|..-.+.+.+.+++
T Consensus 65 ~pdlVii~~G~ND~~~~~~--~~~~~~~~~~~nl~~ii~~~~~ 105 (198)
T cd01821 65 PGDYVLIQFGHNDQKPKDP--EYTEPYTTYKEYLRRYIAEARA 105 (198)
T ss_pred CCCEEEEECCCCCCCCCCC--CCCCcHHHHHHHHHHHHHHHHH
Confidence 79999999998 6544321 1234455554443333333333
No 84
>cd00840 MPP_Mre11_N Mre11 nuclease, N-terminal metallophosphatase domain. Mre11 (also known as SbcD in Escherichia coli) is a subunit of the MRX protein complex. This complex includes: Mre11, Rad50, and Xrs2/Nbs1, and plays a vital role in several nuclear processes including DNA double-strand break repair, telomere length maintenance, cell cycle checkpoint control, and meiotic recombination, in eukaryotes. During double-strand break repair, the MRX complex is required to hold the two ends of a broken chromosome together. In vitro studies show that Mre11 has 3'-5' exonuclease activity on dsDNA templates and endonuclease activity on dsDNA and ssDNA templates. In addition to the N-terminal phosphatase domain, the eukaryotic MRE11 members of this family have a C-terminal DNA binding domain (not included in this alignment model). MRE11-like proteins are found in prokaryotes and archaea was well as in eukaryotes. Mre11 belongs to the metallophosphatase (MPP) superfamily. MPPs are functi
Probab=33.33 E-value=3.1e+02 Score=23.73 Aligned_cols=64 Identities=20% Similarity=0.294 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCC
Q 020323 200 DTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGY 274 (327)
Q Consensus 200 d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY 274 (327)
.++...+|++++ ..+.+.+||+|++ +| |.... ...+.+.+..+.+.+.++.. ...+++ ++-|--
T Consensus 23 ~~~~~~~~~~~~-~~~~~~~~d~i~~-~G-D~~~~-----~~~~~~~~~~~~~~~~~~~~--~~~~v~-~~~GNH 86 (223)
T cd00840 23 REDQFEAFEEIV-ELAIEEKVDFVLI-AG-DLFDS-----NNPSPEALELLIEALRRLKE--AGIPVF-IIAGNH 86 (223)
T ss_pred hHHHHHHHHHHH-HHHHhcCCCEEEE-CC-cccCC-----CCCCHHHHHHHHHHHHHHHH--CCCCEE-EecCCC
Confidence 356677888775 4677789998665 33 44332 22445555555555555432 134544 444433
No 85
>PLN02825 amino-acid N-acetyltransferase
Probab=33.09 E-value=1.1e+02 Score=31.83 Aligned_cols=63 Identities=14% Similarity=0.124 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchh
Q 020323 203 MRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNS 278 (327)
Q Consensus 203 y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~ 278 (327)
|...|++. .|.++.|+=..+||-.|-.+..++ .+..+.+.|..|.. .+.++|+|.+||...+.
T Consensus 1 ~v~~fr~a-~pYI~~~rgktfVIk~gG~~l~~~----------~~~~l~~DialL~~--lGi~~VlVHGggpqI~~ 63 (515)
T PLN02825 1 FVRWFREA-WPYIQGHRGSTFVVVISGEVVAGP----------HLDNILQDISLLHG--LGIKFVLVPGTHVQIDK 63 (515)
T ss_pred ChhHHHhh-hHHHHHHCCCEEEEEECchhhcCc----------hHHHHHHHHHHHHH--CCCCEEEEcCCCHHHHH
Confidence 34566665 499999999999999997776533 45566655554432 26789999999997654
No 86
>PF02585 PIG-L: GlcNAc-PI de-N-acetylase; InterPro: IPR003737 A number of the members of this family have been characterised as a probable N-acetylglucosaminyl-phosphatidylinositol de-N-acetylase, (3.5.1.89 from EC) that catalyses the second step in glycosylphosphatidylinositol (GPI) biosynthesis [, ]. The family also includes a number of thiol biosynthesis proteins. ; PDB: 2XAD_C 2X9L_A 3DFK_A 3DFM_A 3DFF_A 2IXD_A 1UAN_A 1Q74_B 1Q7T_B 3DFI_A.
Probab=32.81 E-value=62 Score=26.13 Aligned_cols=26 Identities=15% Similarity=0.324 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccCCC
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGYDA 231 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~D~ 231 (327)
.+.+.|..++++++||+|+.-...|.
T Consensus 87 ~~~~~l~~~i~~~~p~~V~t~~~~~~ 112 (128)
T PF02585_consen 87 ELVRDLEDLIREFRPDVVFTPDPDDG 112 (128)
T ss_dssp HHHHHHHHHHHHH-ESEEEEE-STTS
T ss_pred HHHHHHHHHHHHcCCCEEEECCCCCC
Confidence 34445667889999999999988887
No 87
>COG4671 Predicted glycosyl transferase [General function prediction only]
Probab=32.78 E-value=3.4e+02 Score=27.08 Aligned_cols=29 Identities=24% Similarity=0.487 Sum_probs=24.7
Q ss_pred CHHHHHHHHHHHHHHHHHhcCCCEEEEec
Q 020323 199 GDTAMRTVFHEVIVPCAQRFKPDLILVSA 227 (327)
Q Consensus 199 ~d~~y~~~~~~~l~p~~~~f~PdlIvv~a 227 (327)
+++++...=.++|+..++.|+||+++|-.
T Consensus 86 ~l~e~~~~Rs~lil~t~~~fkPDi~IVd~ 114 (400)
T COG4671 86 DLEETKKLRSQLILSTAETFKPDIFIVDK 114 (400)
T ss_pred CHHHHHHHHHHHHHHHHHhcCCCEEEEec
Confidence 46788887788999999999999999854
No 88
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=32.53 E-value=61 Score=28.76 Aligned_cols=23 Identities=22% Similarity=0.278 Sum_probs=15.3
Q ss_pred HHHcCCCeEEEEEcccccccccccc
Q 020323 129 QRAHGLKRVFIIDFDVHHGNGTNDA 153 (327)
Q Consensus 129 ~~~~~~~RV~iiD~DvHhGnGt~~~ 153 (327)
+.+.| +||++||.|.. ||.+...
T Consensus 24 la~~G-~rvLliD~D~q-~~~~~~~ 46 (212)
T cd02117 24 LAEMG-KKVLQVGCDPK-ADSTRLL 46 (212)
T ss_pred HHHCC-CcEEEEeCCCC-CCccccc
Confidence 33444 59999999965 5655443
No 89
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=31.56 E-value=52 Score=29.49 Aligned_cols=18 Identities=33% Similarity=0.460 Sum_probs=12.7
Q ss_pred HHHHHcCCCeEEEEEcccc
Q 020323 127 YAQRAHGLKRVFIIDFDVH 145 (327)
Q Consensus 127 ~l~~~~~~~RV~iiD~DvH 145 (327)
+.+.+.| +||++||+|..
T Consensus 24 ~~la~~g-~~VlliD~D~q 41 (246)
T TIGR03371 24 SALKLLG-EPVLAIDLDPQ 41 (246)
T ss_pred HHHHhCC-CcEEEEeCCCc
Confidence 3344445 59999999983
No 90
>PRK10037 cell division protein; Provisional
Probab=31.04 E-value=53 Score=29.99 Aligned_cols=20 Identities=20% Similarity=0.306 Sum_probs=14.0
Q ss_pred HHHHHcCCCeEEEEEccccccc
Q 020323 127 YAQRAHGLKRVFIIDFDVHHGN 148 (327)
Q Consensus 127 ~l~~~~~~~RV~iiD~DvHhGn 148 (327)
+++.+.| +||++||+|-+ ||
T Consensus 24 ~~La~~G-~rVLlID~D~q-~~ 43 (250)
T PRK10037 24 WSLQMLG-ENVLVIDACPD-NL 43 (250)
T ss_pred HHHHhcC-CcEEEEeCChh-hh
Confidence 3344444 59999999994 55
No 91
>cd01973 Nitrogenase_VFe_beta_like Nitrogenase_VFe_beta -like: Nitrogenase VFe protein, beta subunit like. This group contains proteins similar to the beta subunits of the VFe protein of the vanadium-dependent (V-) nitrogenase. Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V-nitrogenase there is a molybdenum (Mo)-dependent nitrogenase and an iron only (Fe-) nitrogenase. The Mo-nitrogenase is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe p
Probab=31.02 E-value=2.7e+02 Score=28.27 Aligned_cols=75 Identities=9% Similarity=0.113 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHhc-CCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHH-HHh--cCCcEEEEeCCCCCchhHH
Q 020323 206 VFHEVIVPCAQRF-KPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLA-KDL--CGSRCVFFLEGGYNLNSLS 280 (327)
Q Consensus 206 ~~~~~l~p~~~~f-~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a-~~~--~~g~~v~vleGGY~~~~l~ 280 (327)
-|++.|..+.++| +|++|+|.+++ =...+|. ...+.+.+.+-. +++ .+.+++.+-.+||.. +..
T Consensus 73 ~L~~~I~~~~~~~~~p~~I~V~tTC~~eiIGDD----------i~~vv~~~~~~~~~e~~~~~~~vi~v~tpgF~G-s~~ 141 (454)
T cd01973 73 RVEEGVLVLARRYPDLRVIPIITTCSTEIIGDD----------IEGVIRKLNEALKEEFPDREVHLIPVHTPSFKG-SMV 141 (454)
T ss_pred HHHHHHHHHHHhcCCCCEEEEECCchHhhhccC----------HHHHHHHHHhhhhhccCCCCCeEEEeeCCCcCC-CHH
Confidence 3445566677889 69988877776 4445553 333333322110 011 134677788888864 444
Q ss_pred HHHHHHHHHHh
Q 020323 281 YSVADSFRAFL 291 (327)
Q Consensus 281 ~~~~~~~~~l~ 291 (327)
.++...+++++
T Consensus 142 ~G~~~a~~ali 152 (454)
T cd01973 142 TGYDEAVRSVV 152 (454)
T ss_pred HHHHHHHHHHH
Confidence 55555554444
No 92
>cd01976 Nitrogenase_MoFe_alpha Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Mo-nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=30.81 E-value=2.4e+02 Score=28.24 Aligned_cols=73 Identities=18% Similarity=0.068 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHhcCC-CEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhH----
Q 020323 206 VFHEVIVPCAQRFKP-DLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSL---- 279 (327)
Q Consensus 206 ~~~~~l~p~~~~f~P-dlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l---- 279 (327)
-|.+.|..+.++|+| ++|+|.+.+ ....+| ++..+.+.++ .+ .+.|++.+--.||...+-
T Consensus 85 kL~~~I~~~~~~~~p~~~I~V~tTC~~~iIGd----------Di~~v~~~~~---~~-~~~pvi~v~t~gf~g~s~~~G~ 150 (421)
T cd01976 85 KLAKAIDEAYELFPLNKGISVQSECPVGLIGD----------DIEAVARKAS---KE-LGIPVVPVRCEGFRGVSQSLGH 150 (421)
T ss_pred HHHHHHHHHHHhCCCccEEEEECCChHHHhcc----------CHHHHHHHHH---Hh-hCCCEEEEeCCCccCCcccHHH
Confidence 455666678899999 987776655 566666 3544443332 22 256888888888854221
Q ss_pred HHHHHHHHHHHhC
Q 020323 280 SYSVADSFRAFLG 292 (327)
Q Consensus 280 ~~~~~~~~~~l~g 292 (327)
..+...+++.+.+
T Consensus 151 ~~a~~ai~~~l~~ 163 (421)
T cd01976 151 HIANDAIRDHILG 163 (421)
T ss_pred HHHHHHHHHHHhc
Confidence 1223445555554
No 93
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 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. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=30.60 E-value=1.2e+02 Score=28.98 Aligned_cols=27 Identities=22% Similarity=0.474 Sum_probs=20.7
Q ss_pred HHHHHHHHhcCCCEEEEeccCCCCCCCC
Q 020323 209 EVIVPCAQRFKPDLILVSAGYDAHVLDP 236 (327)
Q Consensus 209 ~~l~p~~~~f~PdlIvv~aG~D~~~~Dp 236 (327)
+.|..++++++||++| -+|-|+...+.
T Consensus 144 ~~i~~Ll~~~~PDIlV-iTGHD~~~K~~ 170 (287)
T PF05582_consen 144 EKIYRLLEEYRPDILV-ITGHDGYLKNK 170 (287)
T ss_pred HHHHHHHHHcCCCEEE-EeCchhhhcCC
Confidence 3456788999999665 58999987664
No 94
>PF06866 DUF1256: Protein of unknown function (DUF1256); InterPro: IPR009665 This family consists of several uncharacterised bacterial proteins, which seem to be specific to the orders Clostridia and Bacillales. Family members are typically around 180 residues in length. The function of this family is unknown.
Probab=30.28 E-value=1.1e+02 Score=26.77 Aligned_cols=35 Identities=11% Similarity=0.272 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCC
Q 020323 205 TVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLAS 239 (327)
Q Consensus 205 ~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~ 239 (327)
..+.+.+...+....-++||+.-|.|-..+|-||-
T Consensus 10 ~~l~~~L~~~~~~~~~~iv~lCIGTDRstGDsLGP 44 (163)
T PF06866_consen 10 EKLANFLYSLIPKHNREIVFLCIGTDRSTGDSLGP 44 (163)
T ss_pred HHHHHHHHHHHhhcCCCEEEEEECCCCCccccccc
Confidence 33444444445444778999999999999998775
No 95
>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]
Probab=29.63 E-value=58 Score=30.52 Aligned_cols=40 Identities=25% Similarity=0.332 Sum_probs=26.3
Q ss_pred CCC-cccccHHHHHH-HHHHHHcCCCeEEEEEccc---ccccccccc
Q 020323 112 PMG-FCVFGNVAIAA-RYAQRAHGLKRVFIIDFDV---HHGNGTNDA 153 (327)
Q Consensus 112 ~~G-FC~fN~vAiaa-~~l~~~~~~~RV~iiD~Dv---HhGnGt~~~ 153 (327)
++| ||..|+.+=.+ +++... -.-+.|||+.+ |.|-||.+-
T Consensus 111 GeGC~Cp~~allR~~l~~l~~~--~~e~VivDtEAGiEHfgRg~~~~ 155 (255)
T COG3640 111 GEGCACPMNALLRRLLRHLILN--RYEVVIVDTEAGIEHFGRGTIEG 155 (255)
T ss_pred CCcccchHHHHHHHHHHHHhcc--cCcEEEEecccchhhhccccccC
Confidence 344 99999887554 333222 14699999987 677776554
No 96
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=29.61 E-value=2.5e+02 Score=22.56 Aligned_cols=12 Identities=33% Similarity=0.600 Sum_probs=9.8
Q ss_pred HhcCCCEEEEec
Q 020323 216 QRFKPDLILVSA 227 (327)
Q Consensus 216 ~~f~PdlIvv~a 227 (327)
++++||+|.+|+
T Consensus 36 ~~~~pdiv~~S~ 47 (127)
T cd02068 36 ELLKPDVVGISL 47 (127)
T ss_pred HhcCCCEEEEee
Confidence 339999999984
No 97
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=29.45 E-value=3.9e+02 Score=27.55 Aligned_cols=73 Identities=15% Similarity=0.227 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccCCC-CCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhH---HH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGYDA-HVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSL---SY 281 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~D~-~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l---~~ 281 (327)
.|.+.|..+.++|+|++|+|.+++=+ ..+| +...+.+.+. .+ .+.|++.+--.||..... ..
T Consensus 72 kL~~~I~~~~~~~~P~~I~V~tTC~~eiIGD----------Di~~v~~~~~---~~-~~~pVi~v~t~~f~g~~~~g~~~ 137 (513)
T CHL00076 72 KVVDNITRKDKEERPDLIVLTPTCTSSILQE----------DLQNFVDRAS---IE-SDSDVILADVNHYRVNELQAADR 137 (513)
T ss_pred HHHHHHHHHHHhcCCCEEEECCCCchhhhhc----------CHHHHHHHhh---cc-cCCCEEEeCCCCCcccHHHHHHH
Confidence 45555666789999999999988733 2344 2433333322 11 245788888889975433 22
Q ss_pred HHHHHHHHHhC
Q 020323 282 SVADSFRAFLG 292 (327)
Q Consensus 282 ~~~~~~~~l~g 292 (327)
.+.++++.+..
T Consensus 138 ~l~~lv~~~~~ 148 (513)
T CHL00076 138 TLEQIVRFYLE 148 (513)
T ss_pred HHHHHHHHHhh
Confidence 35556666654
No 98
>KOG1495 consensus Lactate dehydrogenase [Energy production and conversion]
Probab=29.34 E-value=2.7e+02 Score=26.89 Aligned_cols=67 Identities=22% Similarity=0.423 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHhcCCC--EEEEeccCCCCCCC-------C----C-CCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeC
Q 020323 206 VFHEVIVPCAQRFKPD--LILVSAGYDAHVLD-------P----L-ASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLE 271 (327)
Q Consensus 206 ~~~~~l~p~~~~f~Pd--lIvv~aG~D~~~~D-------p----l-g~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vle 271 (327)
+|+. +.|.+-+|.|| +||+|-=.|....= | + .+++|.+.-|+.+......+..+-|.| -++.|
T Consensus 116 ifK~-iip~lv~ySpd~~llvvSNPVDilTYv~wKLSgfP~nRViGsGcnLDsaRFryLi~~~Lg~~pss~hg--wIiGE 192 (332)
T KOG1495|consen 116 IFKA-IIPALVKYSPDCILLVVSNPVDILTYVTWKLSGFPKNRVIGSGCNLDSARFRYLIGNRLGVHPSSCHG--WIIGE 192 (332)
T ss_pred HHHH-HHHHHhhcCCCeEEEEecCchHHHHHHHHHHcCCcccceeccCcCccHHHHHHHHHHHhCCCcccceE--EEeec
Confidence 3444 35888999999 45555555554211 1 2 368899988888766555555444432 33455
Q ss_pred CCCC
Q 020323 272 GGYN 275 (327)
Q Consensus 272 GGY~ 275 (327)
-|-+
T Consensus 193 HGdS 196 (332)
T KOG1495|consen 193 HGDS 196 (332)
T ss_pred cCCc
Confidence 5543
No 99
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=29.26 E-value=71 Score=27.34 Aligned_cols=24 Identities=29% Similarity=0.639 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEE
Q 020323 202 AMRTVFHEVIVPCAQRFKPDLILV 225 (327)
Q Consensus 202 ~y~~~~~~~l~p~~~~f~PdlIvv 225 (327)
.+...+.+-+.+.+++++||+||-
T Consensus 72 ~~~~~~~~~l~~~l~~~~PD~IIs 95 (169)
T PF06925_consen 72 ALSRLFARRLIRLLREFQPDLIIS 95 (169)
T ss_pred HHHHHHHHHHHHHHhhcCCCEEEE
Confidence 345555566778899999998874
No 100
>TIGR01282 nifD nitrogenase molybdenum-iron protein alpha chain. Nitrogenase consists of alpha (NifD) and beta (NifK) subunits of the molybdenum-iron protein and an ATP-binding iron-sulfur protein (NifH). This model describes a large clade of NifD proteins, but excludes a lineage that contains putative NifD and NifD homologs from species with vanadium-dependent nitrogenases.
Probab=29.10 E-value=2.5e+02 Score=28.58 Aligned_cols=57 Identities=18% Similarity=0.134 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHhcCC-CEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCc
Q 020323 206 VFHEVIVPCAQRFKP-DLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNL 276 (327)
Q Consensus 206 ~~~~~l~p~~~~f~P-dlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~ 276 (327)
-|.+.|..+.++|+| ++|+|.+.+ ....+|. +..+.+.+ ..+. +.|++.+--.||..
T Consensus 118 kL~~aI~e~~~~~~P~~~I~V~tTC~~~lIGDD----------i~av~~~~---~~~~-~~pVi~v~t~gf~G 176 (466)
T TIGR01282 118 KLKKAIDEIEELFPLNKGISIQSECPVGLIGDD----------IEAVAKKA---SKEL-GKPVVPVRCEGFRG 176 (466)
T ss_pred HHHHHHHHHHHhCCcccEEEEeCCChHHHhccC----------HHHHHHHH---hhhc-CCcEEEEeCCCcCC
Confidence 456667778899999 888777665 5666773 44443332 2222 56889898899863
No 101
>TIGR01862 N2-ase-Ialpha nitrogenase component I, alpha chain. This model represents the alpha chain of all three varieties (Mo-Fe, V-Fe, and Fe-Fe) of component I of nitrogenase.
Probab=29.02 E-value=1.9e+02 Score=29.14 Aligned_cols=73 Identities=18% Similarity=0.154 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHhcCC-CEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchh----H
Q 020323 206 VFHEVIVPCAQRFKP-DLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNS----L 279 (327)
Q Consensus 206 ~~~~~l~p~~~~f~P-dlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~----l 279 (327)
-|.+.|..+.++++| ++|+|.... ....+| ++..+.+.++ .+. +-|++.+--.||...+ .
T Consensus 104 ~L~~aI~~~~~~~~p~~~I~V~~tC~~~liGd----------Di~~v~~~~~---~~~-~~pvi~v~t~gf~g~~~~~G~ 169 (443)
T TIGR01862 104 KLKKLIHEAFTEFPLIKAISVYATCPTGLIGD----------DIEAVAKEVS---KEI-GKDVVAVNCPGFAGVSQSKGH 169 (443)
T ss_pred HHHHHHHHHHHhCCccceEEEECCChHHHhcc----------CHHHHHHHHH---Hhc-CCCEEEEecCCccCCccchHH
Confidence 445556667789999 977776665 555566 3554444332 222 3578888888886432 2
Q ss_pred HHHHHHHHHHHhC
Q 020323 280 SYSVADSFRAFLG 292 (327)
Q Consensus 280 ~~~~~~~~~~l~g 292 (327)
..+..++++.+..
T Consensus 170 ~~a~~al~~~l~~ 182 (443)
T TIGR01862 170 HIANIAVINDKVG 182 (443)
T ss_pred HHHHHHHHHHHhC
Confidence 2334445666654
No 102
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=28.71 E-value=67 Score=29.73 Aligned_cols=25 Identities=16% Similarity=0.240 Sum_probs=16.1
Q ss_pred HHHHHHHHHcCCCeEEEEEccccccc
Q 020323 123 IAARYAQRAHGLKRVFIIDFDVHHGN 148 (327)
Q Consensus 123 iaa~~l~~~~~~~RV~iiD~DvHhGn 148 (327)
+-+.+++.+.| +||++||+|....+
T Consensus 19 ~nLA~~La~~G-~rVLlID~Dpq~~~ 43 (274)
T PRK13235 19 QNTVAGLAEMG-KKVMVVGCDPKADS 43 (274)
T ss_pred HHHHHHHHHCC-CcEEEEecCCcccc
Confidence 33334444445 59999999986543
No 103
>cd02032 Bchl_like This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.
Probab=28.54 E-value=68 Score=29.46 Aligned_cols=20 Identities=30% Similarity=0.410 Sum_probs=13.7
Q ss_pred HHHcCCCeEEEEEccccccccc
Q 020323 129 QRAHGLKRVFIIDFDVHHGNGT 150 (327)
Q Consensus 129 ~~~~~~~RV~iiD~DvHhGnGt 150 (327)
+.+.| +||++||.|. +||-+
T Consensus 24 la~~G-~rvlliD~Dp-q~~~~ 43 (267)
T cd02032 24 LAKRG-KKVLQIGCDP-KHDST 43 (267)
T ss_pred HHHCC-CcEEEEecCC-CCCcc
Confidence 33445 5999999996 45543
No 104
>TIGR01278 DPOR_BchB light-independent protochlorophyllide reductase, B subunit. This enzyme describes the B subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme. This subunit shows homology to the nitrogenase molybdenum-iron protein. It catalyzes a step in bacteriochlorophyll biosynthesis.
Probab=28.36 E-value=5.3e+02 Score=26.52 Aligned_cols=71 Identities=23% Similarity=0.314 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchh---HHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNS---LSY 281 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~---l~~ 281 (327)
.|.+.|..+.++|+|++|+|...+ -...+|. +..+.+. +..+ +.|++.+--.||.... -..
T Consensus 72 ~L~~aI~~~~~~~~P~~I~V~sTC~selIGdD----------i~~~~~~---~~~~--~~pvi~v~t~gf~g~~~~g~~~ 136 (511)
T TIGR01278 72 RLVDTVRRVDDRFKPDLIVVTPSCTSSLLQED----------LGNLAAA---AGLD--KSKVIVADVNAYRRKENQAADR 136 (511)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCChHHHhccC----------HHHHHHH---hccC--CCcEEEecCCCcccchhHHHHH
Confidence 455556667789999988888776 6666774 3333322 2111 3578888778886542 223
Q ss_pred HHHHHHHHHh
Q 020323 282 SVADSFRAFL 291 (327)
Q Consensus 282 ~~~~~~~~l~ 291 (327)
.+.++++.++
T Consensus 137 al~~lv~~~~ 146 (511)
T TIGR01278 137 TLTQLVRRFA 146 (511)
T ss_pred HHHHHHHHHH
Confidence 3444444444
No 105
>cd05781 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of Sulfurisphaera ohwakuensis DNA polymerase B3 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of archaeal proteins with similarity to Sulfurisphaera ohwakuensis DNA polymerase B3. B3 is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. B3 exhibits both polymerase and 3'-5' exonuclease activities. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Archaeal proteins that are involved in DNA replicatio
Probab=28.21 E-value=3.6e+02 Score=23.65 Aligned_cols=73 Identities=22% Similarity=0.446 Sum_probs=43.5
Q ss_pred eEEEEEcccccccccccccccCCCEEEEeeccCCCCCCCCCCCccCCCCCCCceeeccCCCCCCHHHHHHHHHHHHHHHH
Q 020323 136 RVFIIDFDVHHGNGTNDAFYDDPDIFFLSTHQDGSYPGTGKIDEVGRGDGEGSTLNLPLPGGSGDTAMRTVFHEVIVPCA 215 (327)
Q Consensus 136 RV~iiD~DvHhGnGt~~~f~~d~~Vl~iSiH~~~~yP~tg~~~e~G~~~g~g~~~nipL~~g~~d~~y~~~~~~~l~p~~ 215 (327)
|++-+|+-..-..|..+. +...|+.||..... | ....+. ..+.+..+.+..|. ..+
T Consensus 4 ~~l~fDIEt~~~~gfp~~--~~d~Ii~Is~~~~~-----g----------~~~~~~---~~~~~E~~lL~~F~----~~i 59 (188)
T cd05781 4 KTLAFDIEVYSKYGTPNP--RRDPIIVISLATSN-----G----------DVEFIL---AEGLDDRKIIREFV----KYV 59 (188)
T ss_pred eEEEEEEEecCCCCCCCC--CCCCEEEEEEEeCC-----C----------CEEEEE---ecCCCHHHHHHHHH----HHH
Confidence 899999988744453222 34689999986421 0 001111 12345556666654 456
Q ss_pred HhcCCCEEEEeccCCCCCCC
Q 020323 216 QRFKPDLILVSAGYDAHVLD 235 (327)
Q Consensus 216 ~~f~PdlIvv~aG~D~~~~D 235 (327)
++++||+|+ |+.+..-|
T Consensus 60 ~~~dPd~i~---gyN~~~FD 76 (188)
T cd05781 60 KEYDPDIIV---GYNSNAFD 76 (188)
T ss_pred HHcCCCEEE---ecCCCcCc
Confidence 889999887 66665555
No 106
>PHA02518 ParA-like protein; Provisional
Probab=27.42 E-value=83 Score=27.30 Aligned_cols=28 Identities=29% Similarity=0.484 Sum_probs=16.8
Q ss_pred HHHHHHHHHHcCCCeEEEEEcccccccccc
Q 020323 122 AIAARYAQRAHGLKRVFIIDFDVHHGNGTN 151 (327)
Q Consensus 122 Aiaa~~l~~~~~~~RV~iiD~DvHhGnGt~ 151 (327)
|+.+.+.+.+.| +||++||+|. +++-+.
T Consensus 18 a~~la~~la~~g-~~vlliD~D~-q~~~~~ 45 (211)
T PHA02518 18 ATNLASWLHADG-HKVLLVDLDP-QGSSTD 45 (211)
T ss_pred HHHHHHHHHhCC-CeEEEEeCCC-CCChHH
Confidence 333333444445 6999999996 455443
No 107
>PF00464 SHMT: Serine hydroxymethyltransferase; InterPro: IPR001085 Synonym(s): Serine hydroxymethyltransferase, Serine aldolase, Threonine aldolase Serine hydroxymethyltransferase (SHMT) is a pyridoxal phosphate (PLP) dependent enzyme and belongs to the aspartate aminotransferase superfamily (fold type I) []. The pyridoxal-P group is attached to a lysine residue around which the sequence is highly conserved in all forms of the enzyme []. The enzyme carries out interconversion of serine and glycine using PLP as the cofactor. SHMT catalyses the transfer of a hydroxymethyl group from N5, N10- methylene tetrahydrofolate to glycine, resulting in the formation of serine and tetrahydrofolate. Both eukaryotic and prokaryotic SHMT enzymes form tight obligate homodimers and the mammalian enzyme forms a homotetramer [, ]. PLP dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalysed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary history of these enzymes. Structure and sequence analysis has revealed that the PLP dependent enzymes can be classified into four major groups of different evolutionary origin: aspartate aminotransferase superfamily (fold type I), tryptophan synthase beta superfamily (fold type II), alanine racemase superfamily (fold type III), D-amino acid superfamily (fold type IV) and glycogen phophorylase family (fold type V) [, ]. In vertebrates, glycine hydroxymethyltransferase exists in a cytoplasmic and a mitochondrial form whereas only one form is found in prokaryotes.; GO: 0004372 glycine hydroxymethyltransferase activity, 0006544 glycine metabolic process, 0006563 L-serine metabolic process; PDB: 3GBX_B 3H7F_A 1YJS_A 2VMW_A 2W7H_A 2W7E_A 2VMY_B 2W7L_A 2VMZ_A 2VMS_A ....
Probab=27.40 E-value=1.4e+02 Score=29.88 Aligned_cols=35 Identities=23% Similarity=0.387 Sum_probs=18.0
Q ss_pred eeeccCCCCCCHHHHHHHHHHHHHHHHHhcCCCEEEEecc
Q 020323 189 TLNLPLPGGSGDTAMRTVFHEVIVPCAQRFKPDLILVSAG 228 (327)
Q Consensus 189 ~~nipL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvv~aG 228 (327)
.++.|+-+.++.=+|.+ +..++++++|++|++.+-
T Consensus 144 ~~~y~~d~~~~~ID~d~-----l~~~a~~~kPklIi~G~S 178 (399)
T PF00464_consen 144 SVPYPVDPDTGLIDYDE-----LEKLAKEHKPKLIICGAS 178 (399)
T ss_dssp EEEEEB-TTTSSB-HHH-----HHHHHHHH--SEEEEE-S
T ss_pred EEeeeeecCCCeECHHH-----HHHHHhhcCCCEEEECch
Confidence 34555554444445533 335678899999997554
No 108
>cd01827 sialate_O-acetylesterase_like1 sialate O-acetylesterase_like family of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=27.39 E-value=2.7e+02 Score=23.47 Aligned_cols=17 Identities=29% Similarity=0.751 Sum_probs=14.0
Q ss_pred hcCCCEEEEeccC-CCCC
Q 020323 217 RFKPDLILVSAGY-DAHV 233 (327)
Q Consensus 217 ~f~PdlIvv~aG~-D~~~ 233 (327)
.++||+|++..|. |+..
T Consensus 65 ~~~pd~Vii~~G~ND~~~ 82 (188)
T cd01827 65 AFNPNIVIIKLGTNDAKP 82 (188)
T ss_pred ccCCCEEEEEcccCCCCC
Confidence 4799999999998 5543
No 109
>COG3365 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.82 E-value=1.4e+02 Score=24.51 Aligned_cols=25 Identities=16% Similarity=0.271 Sum_probs=21.4
Q ss_pred EEEEeCCCCCchhHHHHHHHHHHHH
Q 020323 266 CVFFLEGGYNLNSLSYSVADSFRAF 290 (327)
Q Consensus 266 ~v~vleGGY~~~~l~~~~~~~~~~l 290 (327)
-++|||||-+++..++.+..+++..
T Consensus 34 ~IlVLE~gL~P~eeaklIe~TM~eI 58 (118)
T COG3365 34 DILVLEGGLTPEEEAKLIEMTMSEI 58 (118)
T ss_pred cEEEEeCCCChHHHHHHHHHHHHhc
Confidence 4669999999999999998888755
No 110
>PF13277 YmdB: YmdB-like protein; PDB: 2CV9_B 2Z06_C.
Probab=26.78 E-value=1.3e+02 Score=28.33 Aligned_cols=42 Identities=12% Similarity=0.162 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHH
Q 020323 204 RTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLA 251 (327)
Q Consensus 204 ~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~ 251 (327)
..++++.|..+.+++++|+||+.+ ..--+++.+|.+.|.++.
T Consensus 12 r~~v~~~Lp~L~~~~~~DfVIaNg------ENaa~G~Git~~~~~~L~ 53 (253)
T PF13277_consen 12 RRAVKEHLPELKEEYGIDFVIANG------ENAAGGFGITPKIAEELF 53 (253)
T ss_dssp HHHHHHHHHHHGG--G-SEEEEE-------TTTTTTSS--HHHHHHHH
T ss_pred HHHHHHHHHHHHhhcCCCEEEECC------cccCCCCCCCHHHHHHHH
Confidence 467778887778899999999875 334678899999987653
No 111
>cd01830 XynE_like SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=26.55 E-value=4.2e+02 Score=22.90 Aligned_cols=45 Identities=11% Similarity=0.059 Sum_probs=24.4
Q ss_pred HhcCCCEEEEeccC-CCCCCCC-CCCcccCHHHHHHHHHHHHHHHHH
Q 020323 216 QRFKPDLILVSAGY-DAHVLDP-LASLQFTTGTYYMLAANIKQLAKD 260 (327)
Q Consensus 216 ~~f~PdlIvv~aG~-D~~~~Dp-lg~~~ls~~~~~~~~~~l~~~a~~ 260 (327)
..-+||+|++..|. |...... -+.-.++.+.|..-.+.+.+.+++
T Consensus 71 ~~~~p~~vii~~G~ND~~~~~~~~~~~~~~~~~~~~~l~~ii~~~~~ 117 (204)
T cd01830 71 SQPGVRTVIILEGVNDIGASGTDFAAAPVTAEELIAGYRQLIRRAHA 117 (204)
T ss_pred cCCCCCEEEEecccccccccccccccCCCCHHHHHHHHHHHHHHHHH
Confidence 44479999999999 5443221 011234666664444444444443
No 112
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=25.94 E-value=79 Score=27.69 Aligned_cols=17 Identities=24% Similarity=0.440 Sum_probs=12.7
Q ss_pred HHcCCCeEEEEEcccccc
Q 020323 130 RAHGLKRVFIIDFDVHHG 147 (327)
Q Consensus 130 ~~~~~~RV~iiD~DvHhG 147 (327)
.+.| +||++||+|....
T Consensus 43 a~~G-~rVllID~D~~~~ 59 (204)
T TIGR01007 43 AQAG-YKTLLIDGDMRNS 59 (204)
T ss_pred HhCC-CeEEEEeCCCCCh
Confidence 3344 5999999998654
No 113
>cd01443 Cdc25_Acr2p Cdc25 enzymes are members of the Rhodanese Homology Domain (RHOD) superfamily. Also included in this CD are eukaryotic arsenate resistance proteins such as Saccharomyces cerevisiae Acr2p and similar proteins. Cdc25 phosphatases activate the cell division kinases throughout the cell cycle progression. Cdc25 phosphatases dephosphorylate phosphotyrosine and phosphothreonine residues, in order to activate their Cdk/cyclin substrates. The Cdc25 and Acr2p RHOD domains have the signature motif (H/YCxxxxxR).
Probab=25.52 E-value=2.3e+02 Score=22.26 Aligned_cols=10 Identities=30% Similarity=0.650 Sum_probs=7.9
Q ss_pred EEEEeCCCCC
Q 020323 266 CVFFLEGGYN 275 (327)
Q Consensus 266 ~v~vleGGY~ 275 (327)
-+.+|+|||+
T Consensus 100 ~v~~l~GG~~ 109 (113)
T cd01443 100 KSYILTGGIK 109 (113)
T ss_pred eEEEECChhh
Confidence 3678899985
No 114
>cd01829 SGNH_hydrolase_peri2 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=25.49 E-value=3.8e+02 Score=22.78 Aligned_cols=21 Identities=29% Similarity=0.368 Sum_probs=16.4
Q ss_pred HHHHHhcCCCEEEEeccC-CCC
Q 020323 212 VPCAQRFKPDLILVSAGY-DAH 232 (327)
Q Consensus 212 ~p~~~~f~PdlIvv~aG~-D~~ 232 (327)
...+.+.+||+|+++.|. |..
T Consensus 52 ~~~l~~~~pd~vii~~G~ND~~ 73 (200)
T cd01829 52 KELIAEEKPDVVVVFLGANDRQ 73 (200)
T ss_pred HHHHhcCCCCEEEEEecCCCCc
Confidence 344577899999999998 553
No 115
>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein. Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.
Probab=24.95 E-value=80 Score=30.06 Aligned_cols=19 Identities=32% Similarity=0.559 Sum_probs=13.7
Q ss_pred HHHcCCCeEEEEEccccccc
Q 020323 129 QRAHGLKRVFIIDFDVHHGN 148 (327)
Q Consensus 129 ~~~~~~~RV~iiD~DvHhGn 148 (327)
+.+.| +||++||.|...|+
T Consensus 118 la~~g-~~VlLvD~D~~~~~ 136 (322)
T TIGR03815 118 AARHG-LRTLLVDADPWGGG 136 (322)
T ss_pred HHhcC-CCEEEEecCCCCCC
Confidence 33444 69999999977654
No 116
>COG1692 Calcineurin-like phosphoesterase [General function prediction only]
Probab=24.32 E-value=1.7e+02 Score=27.59 Aligned_cols=41 Identities=20% Similarity=0.358 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHH
Q 020323 204 RTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYML 250 (327)
Q Consensus 204 ~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~ 250 (327)
+.++.+.|..+..+|++|++|+.+= .--|++.+|.+-|..+
T Consensus 15 r~~v~~~Lp~lk~kyk~dfvI~N~E------Naa~G~Git~k~y~~l 55 (266)
T COG1692 15 RKAVKEHLPQLKSKYKIDFVIVNGE------NAAGGFGITEKIYKEL 55 (266)
T ss_pred HHHHHHHhHHHHHhhcCcEEEEcCc------cccCCcCCCHHHHHHH
Confidence 4567777888889999999999863 4467888999988764
No 117
>KOG4184 consensus Predicted sugar kinase [Carbohydrate transport and metabolism; General function prediction only]
Probab=24.18 E-value=68 Score=31.79 Aligned_cols=22 Identities=27% Similarity=0.519 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHhcCCCEEEEe
Q 020323 204 RTVFHEVIVPCAQRFKPDLILVS 226 (327)
Q Consensus 204 ~~~~~~~l~p~~~~f~PdlIvv~ 226 (327)
+.+++.. ..++++||||++|++
T Consensus 224 m~~~E~f-~~Al~~fqPdLvVvs 245 (478)
T KOG4184|consen 224 MRAVEQF-TDALKMFQPDLVVVS 245 (478)
T ss_pred HHHHHHH-HHHHHHhCCCEEEEe
Confidence 4455443 467899999999986
No 118
>cd01977 Nitrogenase_VFe_alpha Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V- and Fe- nitrogenases there is a molybdenum (Mo)-dependent nitrogenase which is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha sub
Probab=24.05 E-value=3.5e+02 Score=26.81 Aligned_cols=74 Identities=15% Similarity=0.103 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHhc-CCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHH-
Q 020323 206 VFHEVIVPCAQRF-KPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYS- 282 (327)
Q Consensus 206 ~~~~~l~p~~~~f-~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~- 282 (327)
-|.+.|..+.++| +|++|+|.... ....+| ++..+.+.++ .+....|++.+--.||....-...
T Consensus 74 ~L~~aI~~~~~~~p~p~~i~V~~tc~~~liGd----------Di~~v~~~~~---~~~~~~~vi~v~tpgf~g~~~~~G~ 140 (415)
T cd01977 74 KLKKNIIEAFKEFPDIKRMTVYTTCTTALIGD----------DIKAVAKEVM---EELPDVDIFVCNAPGFAGPSQSKGH 140 (415)
T ss_pred HHHHHHHHHHHhCCCCcEEEEECCCchhhhcC----------CHHHHHHHHH---HhcCCCeEEEEeCCCcCCcchhHHH
Confidence 3444455566788 79977776655 555666 3555544433 233225788888888864322222
Q ss_pred ---HHHHHHHHhC
Q 020323 283 ---VADSFRAFLG 292 (327)
Q Consensus 283 ---~~~~~~~l~g 292 (327)
..++++.+.+
T Consensus 141 ~~a~~al~~~l~~ 153 (415)
T cd01977 141 HVLNIAWINQKVG 153 (415)
T ss_pred HHHHHHHHHHhhC
Confidence 3445666664
No 119
>TIGR03453 partition_RepA plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.
Probab=24.00 E-value=82 Score=30.97 Aligned_cols=21 Identities=29% Similarity=0.382 Sum_probs=14.7
Q ss_pred HHHcCCCeEEEEEcccccccccc
Q 020323 129 QRAHGLKRVFIIDFDVHHGNGTN 151 (327)
Q Consensus 129 ~~~~~~~RV~iiD~DvHhGnGt~ 151 (327)
+...| +||++||+|. +||=+.
T Consensus 129 La~~G-~rVLlID~Dp-Q~~ls~ 149 (387)
T TIGR03453 129 LALRG-YRVLAIDLDP-QASLSA 149 (387)
T ss_pred HHhcC-CCEEEEecCC-CCCHHH
Confidence 33445 5999999997 676443
No 120
>PLN02512 acetylglutamate kinase
Probab=23.94 E-value=3.1e+02 Score=26.26 Aligned_cols=65 Identities=23% Similarity=0.265 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCch
Q 020323 201 TAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLN 277 (327)
Q Consensus 201 ~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~ 277 (327)
..+...|++. .|.+..|+=+.+|+=.|-+...++. -...+.+.+..+. . .+.++++|.+||...+
T Consensus 29 ~~~~~~~r~~-~pyi~~~~~~tiVIKlGGs~i~d~~---------~~~~~~~di~~l~-~-~g~~iVlVHGgG~~i~ 93 (309)
T PLN02512 29 LSRVDILSEA-LPFIQRFRGKTVVVKYGGAAMKDPE---------LKAGVIRDLVLLS-C-VGLRPVLVHGGGPEIN 93 (309)
T ss_pred HHHHHHHHHH-hHHHHHHCCCeEEEEECCeeccChh---------HHHHHHHHHHHHH-H-CCCCEEEEECCcHHHH
Confidence 3677788886 5999999999999988876643322 1223444444332 2 2457899999998543
No 121
>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=23.93 E-value=2.3e+02 Score=26.27 Aligned_cols=35 Identities=31% Similarity=0.382 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHcCCCeEEEEEccccccccccccc
Q 020323 120 NVAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAF 154 (327)
Q Consensus 120 ~vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f 154 (327)
.....++|++++.+.+||++|--|.=.|+...+.|
T Consensus 121 ~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~ 155 (343)
T PF13458_consen 121 QAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAF 155 (343)
T ss_dssp HHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHH
Confidence 45566677777678899999987654555554444
No 122
>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG. The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).
Probab=23.48 E-value=96 Score=28.58 Aligned_cols=17 Identities=18% Similarity=0.409 Sum_probs=13.3
Q ss_pred HcCCCeEEEEEccccccc
Q 020323 131 AHGLKRVFIIDFDVHHGN 148 (327)
Q Consensus 131 ~~~~~RV~iiD~DvHhGn 148 (327)
+.| +||++||+|.+..+
T Consensus 130 ~~g-~~VllID~D~~~~~ 146 (274)
T TIGR03029 130 QLG-EKTLLIDANLRDPV 146 (274)
T ss_pred hcC-CeEEEEeCCCCCcc
Confidence 344 69999999997754
No 123
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=22.97 E-value=93 Score=29.43 Aligned_cols=22 Identities=32% Similarity=0.395 Sum_probs=15.0
Q ss_pred HHHHHcCCCeEEEEEccccccccc
Q 020323 127 YAQRAHGLKRVFIIDFDVHHGNGT 150 (327)
Q Consensus 127 ~l~~~~~~~RV~iiD~DvHhGnGt 150 (327)
+++.+.| +||++||+|.. ||-|
T Consensus 22 ~~La~~G-~rVLlID~DpQ-~n~t 43 (290)
T CHL00072 22 IALARRG-KKVLQIGCDPK-HDST 43 (290)
T ss_pred HHHHHCC-CeEEEEeccCC-Cccc
Confidence 4444445 59999999986 5444
No 124
>TIGR01286 nifK nitrogenase molybdenum-iron protein beta chain. This model represents the majority of known sequences of the nitrogenase molybdenum-iron protein beta subunit. A distinct clade in a phylogenetic tree contains molybdenum-iron, vanadium-iron, and iron-iron forms of nitrogenase beta subunit and is excluded from this model. Nitrogenase, also called dinitrogenase, is responsible for nitrogen fixation. Note: the trusted cutoff score has recently been lowered to include an additional family in which the beta subunit is shorter by about 50 amino acids at the N-terminus. In species with the shorter form of the beta subunit, the alpha subunit has a novel insert of similar length.
Probab=22.84 E-value=3.6e+02 Score=27.93 Aligned_cols=75 Identities=17% Similarity=0.134 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHHHHHH
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLSYSVA 284 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~~~~~ 284 (327)
-|.+.|..+.+.|+|++|+|.+.+ =...+|. ...+.+..++-..--..-|++.+--.||.. +...++.
T Consensus 129 ~L~e~I~~~~~~y~P~~I~V~tTC~~evIGDD----------i~a~i~~~~~~~~~p~~~pVi~v~TpgF~G-s~~~Gyd 197 (515)
T TIGR01286 129 NMVDGLQNCYALYKPKMIAVSTTCMAEVIGDD----------LNAFIGNAKKEGFIPDDFPVPFAHTPSFVG-SHITGYD 197 (515)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCcHHHHhhcc----------HHHHHHHHHHhcCCCCCCceEEeeCCCCcc-cHHHHHH
Confidence 444556667889999999988875 3334553 333332222110000123688888889964 4445555
Q ss_pred HHHHHHh
Q 020323 285 DSFRAFL 291 (327)
Q Consensus 285 ~~~~~l~ 291 (327)
..+++++
T Consensus 198 ~a~~ail 204 (515)
T TIGR01286 198 NMFKGIL 204 (515)
T ss_pred HHHHHHH
Confidence 5555554
No 125
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=22.82 E-value=92 Score=26.41 Aligned_cols=14 Identities=29% Similarity=0.399 Sum_probs=10.9
Q ss_pred HcCCCeEEEEEcccc
Q 020323 131 AHGLKRVFIIDFDVH 145 (327)
Q Consensus 131 ~~~~~RV~iiD~DvH 145 (327)
+.| +||++||.|.-
T Consensus 26 ~~g-~~vllvD~D~q 39 (169)
T cd02037 26 KLG-YKVGLLDADIY 39 (169)
T ss_pred HcC-CcEEEEeCCCC
Confidence 334 69999999983
No 126
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=22.67 E-value=3.8e+02 Score=26.13 Aligned_cols=65 Identities=17% Similarity=0.297 Sum_probs=44.5
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCC
Q 020323 200 DTAMRTVFHEVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYN 275 (327)
Q Consensus 200 d~~y~~~~~~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~ 275 (327)
.+++..+|.+++ .++.+-++|+||++ ||=+=.-+-|.+.-....+.++.+.. .+.| ++++.|--+
T Consensus 22 ~~d~~~~f~~~l-~~a~~~~vD~vliA-------GDlFd~~~Ps~~a~~~~~~~l~~l~~--~~Ip-v~~I~GNHD 86 (390)
T COG0420 22 LEDQKKAFDELL-EIAKEEKVDFVLIA-------GDLFDTNNPSPRALKLFLEALRRLKD--AGIP-VVVIAGNHD 86 (390)
T ss_pred hHHHHHHHHHHH-HHHHHccCCEEEEc-------cccccCCCCCHHHHHHHHHHHHHhcc--CCCc-EEEecCCCC
Confidence 467788898877 47788899999875 46555566788887777776666543 2344 456667553
No 127
>TIGR01284 alt_nitrog_alph nitrogenase alpha chain. This model represents the alpha chains of various forms of the nitrogen-fixing enzyme nitrogenase: vanadium-iron, iron-iron, and molybdenum-iron. Most examples of NifD, the molybdenum-iron type nitrogenase alpha chain, are excluded from this model and described instead by equivalog model TIGR01282. It appears by phylogenetic and UPGMA trees that this model represents a distinct clade of NifD homologs, in which arose several molybdenum-independent forms.
Probab=22.60 E-value=4.3e+02 Score=26.73 Aligned_cols=74 Identities=14% Similarity=0.108 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHhc-CCCEEEEeccC-CCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCCchhHH---
Q 020323 206 VFHEVIVPCAQRF-KPDLILVSAGY-DAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYNLNSLS--- 280 (327)
Q Consensus 206 ~~~~~l~p~~~~f-~PdlIvv~aG~-D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~~~~l~--- 280 (327)
-|.+.|..+.++| +|++|+|.+.. ....+| ++..+.+. +.++..+.|++.+--.||...+-.
T Consensus 111 kL~~aI~e~~~~~p~p~~I~V~stC~~~lIGD----------Di~~v~~e---~~~~~~~~pvv~v~t~gf~g~s~~~G~ 177 (457)
T TIGR01284 111 KLKRCILEAFREFPEIKRMYTYATCTTALIGD----------DIDAIARE---VMEEIPDVDVFAINAPGFAGPSQSKGH 177 (457)
T ss_pred HHHHHHHHHHHhCCCCceEEEECCChHHhhcc----------CHHHHHHH---HHHhcCCCeEEEeeCCCcCCcccchHH
Confidence 4445555667888 79977776665 556676 35444433 333332257888877887642211
Q ss_pred -HHHHHHHHHHhC
Q 020323 281 -YSVADSFRAFLG 292 (327)
Q Consensus 281 -~~~~~~~~~l~g 292 (327)
.+..+.++.+.+
T Consensus 178 ~~a~~al~~~l~~ 190 (457)
T TIGR01284 178 HVANITWINDKVG 190 (457)
T ss_pred HHHHHHHHHHHhC
Confidence 223345666665
No 128
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=22.22 E-value=2.2e+02 Score=29.06 Aligned_cols=56 Identities=13% Similarity=0.166 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHhcCCCEEEEeccCCC-CCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEEeCCCCC
Q 020323 206 VFHEVIVPCAQRFKPDLILVSAGYDA-HVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFFLEGGYN 275 (327)
Q Consensus 206 ~~~~~l~p~~~~f~PdlIvv~aG~D~-~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~vleGGY~ 275 (327)
-|++.+..++++|+|++|||.+++=+ ..+|. ...+.+ ++..++ +.|++.+-..|+.
T Consensus 84 ~L~~~i~ei~~~~~p~~ifv~~TC~t~iIGdD----------le~va~---~~~~~~-gipVV~v~~~Gf~ 140 (457)
T CHL00073 84 ELKRLCLQIKKDRNPSVIVWIGTCTTEIIKMD----------LEGMAP---KLEAEI-GIPIVVARANGLD 140 (457)
T ss_pred HHHHHHHHHHHhCCCCEEEEEccCcHHhhccC----------HHHHHH---HHHHhh-CCCEEEEeCCCcc
Confidence 45566777889999999999998732 23442 322222 232333 6799999988886
No 129
>PF01702 TGT: Queuine tRNA-ribosyltransferase; InterPro: IPR002616 This is a family of queuine, archaeosine and general tRNA-ribosyltransferases 2.4.2.29 from EC, also known as tRNA-guanine transglycosylase and guanine insertion enzyme. Queuine tRNA-ribosyltransferase modifies tRNAs for asparagine, aspartic acid, histidine and tyrosine with queuine at position 34 and with archaeosine at position 15 in archaeal tRNAs. In bacterial it catalyses the exchange of guanine-34 at the wobble position with 7-aminomethyl-7-deazaguanine, and the addition of a cyclopentenediol moiety to 7-aminomethyl-7-deazaguanine-34 tRNA; giving a hypermodified base queuine in the wobble position [, ]. The aligned region contains a zinc binding motif C-x-C-x2-C-x29-H, and important tRNA and 7-aminomethyl-7deazaguanine binding residues [].; GO: 0008479 queuine tRNA-ribosyltransferase activity, 0006400 tRNA modification, 0008616 queuosine biosynthetic process; PDB: 2ASH_A 1J2B_A 1IT8_A 1IT7_B 1IQ8_A 1R5Y_A 1P0B_A 3BL3_A 3EOS_A 1EFZ_A ....
Probab=21.91 E-value=2.3e+02 Score=25.82 Aligned_cols=26 Identities=12% Similarity=0.051 Sum_probs=14.5
Q ss_pred CCcEEEEeCCCCCchhHHHHHHHHHH
Q 020323 263 GSRCVFFLEGGYNLNSLSYSVADSFR 288 (327)
Q Consensus 263 ~g~~v~vleGGY~~~~l~~~~~~~~~ 288 (327)
+..+..+..||+..+.-.+++..+.+
T Consensus 54 ~~~l~gvIqGg~~~~lR~~s~~~l~~ 79 (238)
T PF01702_consen 54 KQSLFGVIQGGDDKDLRRRSAEELSE 79 (238)
T ss_dssp CSEEEEEE--TT-HHHHHHHHHHHHH
T ss_pred CcceeeeeCCCCCHHHHHHHHHHHHh
Confidence 44577788888887655555555555
No 130
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=21.76 E-value=4.3e+02 Score=23.43 Aligned_cols=57 Identities=12% Similarity=0.053 Sum_probs=30.7
Q ss_pred HHHHHHHHhcCCCEEEEeccCCCCCCCCCCCcccCHHHHHHHHHHHHHHHHHhcCCcEEEE
Q 020323 209 EVIVPCAQRFKPDLILVSAGYDAHVLDPLASLQFTTGTYYMLAANIKQLAKDLCGSRCVFF 269 (327)
Q Consensus 209 ~~l~p~~~~f~PdlIvv~aG~D~~~~Dplg~~~ls~~~~~~~~~~l~~~a~~~~~g~~v~v 269 (327)
+.+..+.++++|++|||-. ........ .-.-..+....+.+.|+.+|.++ +-.++++
T Consensus 113 ~~i~~~~~~~~~~~vvID~-l~~l~~~~--~~~~~~~~~~~~~~~L~~la~~~-~~~ii~~ 169 (242)
T cd00984 113 SRARRLKKEHGLGLIVIDY-LQLMSGSK--KKGNRQQEVAEISRSLKLLAKEL-NVPVIAL 169 (242)
T ss_pred HHHHHHHHhcCCCEEEEcC-chhcCCCC--CCCCHHHHHHHHHHHHHHHHHHh-CCeEEEe
Confidence 3444456778999999853 22222111 00111234556777888888876 3344443
No 131
>KOG3147 consensus 6-phosphogluconolactonase - like protein [Carbohydrate transport and metabolism]
Probab=21.33 E-value=77 Score=29.71 Aligned_cols=82 Identities=16% Similarity=0.186 Sum_probs=45.9
Q ss_pred ccccccccCCCEEEEeeccCCCCC-C-CCCCCccCCCCCCCceeeccCCC--CCCHHHHHHHHHHHHHHHHHh---cCCC
Q 020323 149 GTNDAFYDDPDIFFLSTHQDGSYP-G-TGKIDEVGRGDGEGSTLNLPLPG--GSGDTAMRTVFHEVIVPCAQR---FKPD 221 (327)
Q Consensus 149 Gt~~~f~~d~~Vl~iSiH~~~~yP-~-tg~~~e~G~~~g~g~~~nipL~~--g~~d~~y~~~~~~~l~p~~~~---f~Pd 221 (327)
+-.+||+-|.|+.=++ |.+.+|= . ++..+++-.-...-+.+|-.|+. ...-+.|.+.+.+.+ .. =..|
T Consensus 70 ~kW~if~~DER~Vp~~-~~dSNyg~~~~~~l~~v~~~~~~i~~id~~L~~~~~~~a~~ye~~l~~~v----~~~s~p~FD 144 (252)
T KOG3147|consen 70 SKWHIFFVDERVVPLD-DPDSNYGLAKRHFLSKVPIPHYNIYPIDESLIADAEEAADLYEKELKALV----ANDSFPVFD 144 (252)
T ss_pred cceEEEEEeccccCCC-CCcccHHHHHHhhhhhCCCCcCcEEECChhhccCHHHHHHHHHHHHHHHh----ccCCCccee
Confidence 7789999999987766 4444441 1 22222221111122455666653 122234555554433 22 2469
Q ss_pred EEEEeccCCCCCCC
Q 020323 222 LILVSAGYDAHVLD 235 (327)
Q Consensus 222 lIvv~aG~D~~~~D 235 (327)
++++-+|-|+|.--
T Consensus 145 L~LLG~GpDGHtaS 158 (252)
T KOG3147|consen 145 LLLLGMGPDGHTAS 158 (252)
T ss_pred EEEeccCCCCCeee
Confidence 99999999999743
No 132
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=21.29 E-value=1.9e+02 Score=25.09 Aligned_cols=24 Identities=8% Similarity=0.474 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEe
Q 020323 202 AMRTVFHEVIVPCAQRFKPDLILVS 226 (327)
Q Consensus 202 ~y~~~~~~~l~p~~~~f~PdlIvv~ 226 (327)
-+..++ +.|..++++|+||.+++=
T Consensus 45 Rl~~I~-~~l~~~i~~~~Pd~vaiE 68 (164)
T PRK00039 45 RLKQIY-DGLSELIDEYQPDEVAIE 68 (164)
T ss_pred HHHHHH-HHHHHHHHHhCCCEEEEe
Confidence 344444 556789999999998863
No 133
>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.
Probab=21.22 E-value=1e+02 Score=30.00 Aligned_cols=20 Identities=35% Similarity=0.409 Sum_probs=15.6
Q ss_pred CeEEEEEcccccccccccccc
Q 020323 135 KRVFIIDFDVHHGNGTNDAFY 155 (327)
Q Consensus 135 ~RV~iiD~DvHhGnGt~~~f~ 155 (327)
+||++||.|.++++ +..+|.
T Consensus 60 ~rVllid~D~~~~~-~~~~~g 79 (329)
T cd02033 60 KRVLLIGCDPKSDT-TSLLFG 79 (329)
T ss_pred CcEEEEEeeecccc-cchhcc
Confidence 69999999999865 555553
No 134
>PF13050 DUF3911: Protein of unknown function (DUF3911)
Probab=20.73 E-value=34 Score=25.36 Aligned_cols=10 Identities=50% Similarity=1.072 Sum_probs=7.9
Q ss_pred CCcccccHHH
Q 020323 113 MGFCVFGNVA 122 (327)
Q Consensus 113 ~GFC~fN~vA 122 (327)
-|||-|||-+
T Consensus 26 kgfckf~nyv 35 (77)
T PF13050_consen 26 KGFCKFNNYV 35 (77)
T ss_pred ccccccCCEE
Confidence 4899999853
No 135
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=20.50 E-value=1.5e+02 Score=28.25 Aligned_cols=35 Identities=17% Similarity=0.225 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHcCCCeEEEEEcccccccccccccc
Q 020323 121 VAIAARYAQRAHGLKRVFIIDFDVHHGNGTNDAFY 155 (327)
Q Consensus 121 vAiaa~~l~~~~~~~RV~iiD~DvHhGnGt~~~f~ 155 (327)
+..+++|+.++.+.+||++|--|-=.|.+..+.|.
T Consensus 120 ~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~~ 154 (348)
T cd06355 120 IIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKILK 154 (348)
T ss_pred HHHHHHHHHhccCCCeEEEECCcchHHHHHHHHHH
Confidence 34566888776678999999777767877766653
No 136
>PF02075 RuvC: Crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination []. RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo []. RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices [].; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJR_A.
Probab=20.05 E-value=1.5e+02 Score=25.19 Aligned_cols=26 Identities=12% Similarity=0.149 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCEEEE
Q 020323 200 DTAMRTVFHEVIVPCAQRFKPDLILV 225 (327)
Q Consensus 200 d~~y~~~~~~~l~p~~~~f~PdlIvv 225 (327)
..+=+..+.+.+..++++|+||.+++
T Consensus 39 ~~~Rl~~I~~~l~~li~~~~P~~vai 64 (149)
T PF02075_consen 39 LPERLKEIYEELEELIEEYNPDEVAI 64 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHH--SEEEE
T ss_pred HHHHHHHHHHHHHHHHHhhCCCEEEe
Confidence 33444555566778999999999998
Done!