Query 011109
Match_columns 493
No_of_seqs 326 out of 1610
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 08:13:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011109.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011109hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1342 Histone deacetylase co 100.0 1E-138 3E-143 1051.4 34.4 383 12-394 2-385 (425)
2 PTZ00063 histone deacetylase; 100.0 5E-118 1E-122 935.7 41.5 389 15-403 2-394 (436)
3 PTZ00346 histone deacetylase; 100.0 8E-100 2E-104 794.3 38.3 364 15-379 18-391 (429)
4 COG0123 AcuC Deacetylases, inc 100.0 9.8E-83 2.1E-87 654.3 33.1 324 17-349 2-335 (340)
5 PF00850 Hist_deacetyl: Histon 100.0 1.1E-78 2.4E-83 618.5 25.4 297 24-328 1-311 (311)
6 KOG1343 Histone deacetylase co 100.0 1.3E-48 2.7E-53 433.5 22.4 286 34-334 463-762 (797)
7 KOG1344 Predicted histone deac 100.0 2.2E-38 4.7E-43 305.1 11.6 289 16-320 13-310 (324)
8 KOG1343 Histone deacetylase co 100.0 3.1E-35 6.7E-40 327.0 10.0 312 17-333 29-358 (797)
9 PTZ00346 histone deacetylase; 79.4 2.5 5.5E-05 45.9 4.7 60 331-390 344-406 (429)
10 cd04502 SGNH_hydrolase_like_7 77.4 7.1 0.00015 35.6 6.5 49 255-306 44-95 (171)
11 cd04237 AAK_NAGS-ABP AAK_NAGS- 75.7 5.9 0.00013 40.4 6.0 63 244-314 1-63 (280)
12 cd01835 SGNH_hydrolase_like_3 71.0 21 0.00046 33.1 8.1 74 232-306 41-117 (193)
13 TIGR01007 eps_fam capsular exo 70.1 74 0.0016 30.1 11.8 16 173-188 44-59 (204)
14 cd01825 SGNH_hydrolase_peri1 S 68.4 15 0.00032 33.6 6.4 71 231-307 27-103 (189)
15 KOG2749 mRNA cleavage and poly 68.1 38 0.00082 36.4 9.8 118 166-309 122-248 (415)
16 KOG0121 Nuclear cap-binding pr 66.7 7 0.00015 36.1 3.6 42 151-192 73-121 (153)
17 cd01828 sialate_O-acetylestera 62.8 26 0.00057 31.7 6.8 42 259-306 46-93 (169)
18 cd01822 Lysophospholipase_L1_l 62.5 37 0.00081 30.6 7.8 47 255-307 58-108 (177)
19 cd00840 MPP_Mre11_N Mre11 nucl 62.4 32 0.00069 32.4 7.6 59 242-308 23-84 (223)
20 cd01832 SGNH_hydrolase_like_1 62.2 28 0.0006 31.8 7.0 62 239-306 46-111 (185)
21 TIGR01890 N-Ac-Glu-synth amino 61.6 12 0.00027 40.2 5.1 62 245-314 1-62 (429)
22 PRK05279 N-acetylglutamate syn 60.9 22 0.00048 38.3 6.9 65 244-316 8-72 (441)
23 PF02310 B12-binding: B12 bind 59.1 18 0.0004 31.0 4.9 47 254-311 44-90 (121)
24 COG3914 Spy Predicted O-linked 58.8 2.2E+02 0.0047 32.6 14.0 167 154-346 312-507 (620)
25 TIGR03018 pepcterm_TyrKin exop 58.7 42 0.00092 32.1 7.8 24 247-270 134-157 (207)
26 cd01836 FeeA_FeeB_like SGNH_hy 58.5 29 0.00063 32.0 6.4 67 232-306 44-112 (191)
27 cd01820 PAF_acetylesterase_lik 57.9 19 0.00041 34.4 5.2 49 256-306 84-134 (214)
28 cd04501 SGNH_hydrolase_like_4 57.1 44 0.00094 30.6 7.3 47 257-306 55-102 (183)
29 cd01841 NnaC_like NnaC (CMP-Ne 56.7 36 0.00078 30.9 6.6 69 231-306 26-96 (174)
30 cd01830 XynE_like SGNH_hydrola 55.8 27 0.00059 33.0 5.8 50 256-305 69-124 (204)
31 COG1618 Predicted nucleotide k 54.6 48 0.0011 32.0 7.1 59 230-307 79-137 (179)
32 cd02068 radical_SAM_B12_BD B12 53.7 39 0.00084 29.7 6.1 50 251-312 29-78 (127)
33 TIGR02855 spore_yabG sporulati 52.4 32 0.00069 35.5 5.9 58 251-309 143-206 (283)
34 cd01829 SGNH_hydrolase_peri2 S 51.7 45 0.00097 31.0 6.5 53 254-306 52-114 (200)
35 COG0420 SbcD DNA repair exonuc 51.4 51 0.0011 34.8 7.6 66 242-318 22-90 (390)
36 PF13472 Lipase_GDSL_2: GDSL-l 50.9 13 0.00028 32.7 2.6 72 231-307 33-108 (179)
37 cd01443 Cdc25_Acr2p Cdc25 enzy 50.7 80 0.0017 27.0 7.5 67 231-313 42-110 (113)
38 PRK04531 acetylglutamate kinas 48.8 26 0.00057 37.8 4.9 54 254-315 24-81 (398)
39 PLN02825 amino-acid N-acetyltr 47.9 36 0.00078 38.0 6.0 64 245-316 1-64 (515)
40 cd07388 MPP_Tt1561 Thermus the 47.7 67 0.0015 31.9 7.3 52 248-308 19-70 (224)
41 cd01838 Isoamyl_acetate_hydrol 46.8 48 0.001 30.3 5.8 52 254-306 53-113 (199)
42 TIGR00034 aroFGH phospho-2-deh 46.0 80 0.0017 33.6 7.9 29 162-193 239-269 (344)
43 cd01844 SGNH_hydrolase_like_6 45.8 42 0.00092 30.8 5.3 48 254-306 50-99 (177)
44 TIGR01361 DAHP_synth_Bsub phos 44.9 1.4E+02 0.0031 30.2 9.3 88 231-331 134-224 (260)
45 cd01833 XynB_like SGNH_hydrola 44.8 67 0.0014 28.6 6.3 43 255-299 34-76 (157)
46 PF05582 Peptidase_U57: YabG p 44.3 51 0.0011 34.2 5.9 58 251-309 144-207 (287)
47 CHL00202 argB acetylglutamate 43.3 68 0.0015 32.8 6.8 66 244-316 6-71 (284)
48 TIGR00583 mre11 DNA repair pro 42.0 92 0.002 33.8 7.8 48 243-298 25-72 (405)
49 PRK12755 phospho-2-dehydro-3-d 41.6 1.1E+02 0.0024 32.8 8.1 30 161-193 245-276 (353)
50 cd00229 SGNH_hydrolase SGNH_hy 40.3 96 0.0021 26.6 6.5 55 254-308 58-114 (187)
51 PRK10528 multifunctional acyl- 40.2 91 0.002 29.3 6.7 65 231-306 46-114 (191)
52 PRK11148 cyclic 3',5'-adenosin 38.5 1.1E+02 0.0024 30.6 7.3 54 246-308 39-93 (275)
53 cd02651 nuc_hydro_IU_UC_XIUA n 38.3 58 0.0013 33.3 5.4 52 253-316 105-156 (302)
54 cd02067 B12-binding B12 bindin 38.1 79 0.0017 27.4 5.5 47 255-312 44-92 (119)
55 PLN02512 acetylglutamate kinas 37.5 88 0.0019 32.4 6.6 63 244-313 30-92 (309)
56 TIGR01278 DPOR_BchB light-inde 37.4 58 0.0012 36.1 5.6 58 248-315 72-130 (511)
57 cd07402 MPP_GpdQ Enterobacter 37.0 1.2E+02 0.0026 29.1 7.1 57 243-308 21-78 (240)
58 PRK14476 nitrogenase molybdenu 35.9 1.2E+02 0.0025 33.3 7.6 69 249-328 80-154 (455)
59 TIGR01969 minD_arch cell divis 35.8 39 0.00085 32.6 3.6 19 171-189 25-43 (251)
60 PRK09841 cryptic autophosphory 35.6 3.5E+02 0.0077 31.4 11.8 17 173-189 558-574 (726)
61 PF04321 RmlD_sub_bind: RmlD s 35.4 12 0.00026 37.9 -0.2 54 253-306 43-99 (286)
62 PRK13236 nitrogenase reductase 34.9 40 0.00087 34.4 3.6 23 173-196 32-54 (296)
63 cd06167 LabA_like LabA_like pr 34.2 1.4E+02 0.0031 26.6 6.7 44 256-314 94-137 (149)
64 COG0455 flhG Antiactivator of 33.5 1E+02 0.0022 31.4 6.2 95 168-272 25-123 (262)
65 cd01821 Rhamnogalacturan_acety 32.8 1.2E+02 0.0025 28.4 6.1 45 261-306 65-113 (198)
66 COG2755 TesA Lysophospholipase 32.5 3.9E+02 0.0085 25.0 9.8 91 255-347 70-177 (216)
67 PRK13398 3-deoxy-7-phosphohept 32.4 2.3E+02 0.0049 29.0 8.5 112 242-378 147-263 (266)
68 cd02072 Glm_B12_BD B12 binding 31.9 1.3E+02 0.0029 27.4 6.1 47 255-312 44-91 (128)
69 PF10609 ParA: ParA/MinD ATPas 31.8 1.4E+02 0.0029 25.3 5.6 56 234-308 6-61 (81)
70 TIGR00381 cdhD CO dehydrogenas 31.7 3E+02 0.0065 29.9 9.5 61 243-308 128-196 (389)
71 TIGR01285 nifN nitrogenase mol 31.5 1.4E+02 0.0031 32.4 7.3 68 249-327 79-152 (432)
72 cd01839 SGNH_arylesterase_like 31.5 1.7E+02 0.0038 27.4 7.1 36 259-299 77-117 (208)
73 TIGR02370 pyl_corrinoid methyl 31.3 1E+02 0.0022 29.7 5.5 47 254-311 128-177 (197)
74 CHL00073 chlN photochlorophyll 30.4 1.1E+02 0.0025 33.7 6.3 54 250-312 86-140 (457)
75 PRK13396 3-deoxy-7-phosphohept 30.4 2.6E+02 0.0056 29.9 8.7 121 240-385 219-345 (352)
76 KOG3147 6-phosphogluconolacton 30.4 1.3E+02 0.0029 30.6 6.3 85 190-277 70-158 (252)
77 TIGR00619 sbcd exonuclease Sbc 29.8 2.1E+02 0.0046 28.5 7.8 64 244-318 23-90 (253)
78 TIGR00259 thylakoid_BtpA membr 29.6 2.6E+02 0.0056 28.6 8.3 59 257-329 167-227 (257)
79 cd01981 Pchlide_reductase_B Pc 28.0 1.1E+02 0.0024 32.8 5.8 56 249-314 73-130 (430)
80 cd01971 Nitrogenase_VnfN_like 27.6 1.2E+02 0.0026 32.7 5.9 58 249-316 74-132 (427)
81 PF02310 B12-binding: B12 bind 26.5 3.1E+02 0.0068 23.2 7.3 96 169-314 22-118 (121)
82 cd04236 AAK_NAGS-Urea AAK_NAGS 26.4 1E+02 0.0023 31.5 4.9 61 243-313 20-80 (271)
83 CHL00175 minD septum-site dete 26.4 69 0.0015 32.0 3.6 20 172-191 41-60 (281)
84 TIGR02026 BchE magnesium-proto 25.6 1.3E+02 0.0028 33.2 5.8 45 255-311 57-101 (497)
85 PF02585 PIG-L: GlcNAc-PI de-N 25.5 1.1E+02 0.0025 26.6 4.4 27 247-273 86-112 (128)
86 COG1654 BirA Biotin operon rep 25.1 49 0.0011 27.8 1.9 54 268-321 14-68 (79)
87 cd07384 MPP_Cdc1_like Saccharo 24.9 2.7E+02 0.0058 26.1 7.1 18 251-268 35-52 (171)
88 CHL00076 chlB photochlorophyll 24.9 2.7E+02 0.0057 31.1 8.1 59 248-316 72-132 (513)
89 cd01967 Nitrogenase_MoFe_alpha 24.8 1.7E+02 0.0036 31.0 6.3 69 248-326 74-144 (406)
90 cd01494 AAT_I Aspartate aminot 24.4 98 0.0021 27.0 3.8 47 167-217 113-165 (170)
91 cd01827 sialate_O-acetylestera 23.9 1.6E+02 0.0034 26.9 5.3 41 259-299 65-105 (188)
92 cd03110 Fer4_NifH_child This p 23.9 58 0.0013 30.0 2.4 15 176-190 25-39 (179)
93 COG2047 Uncharacterized protei 23.9 1.1E+02 0.0024 31.0 4.3 46 261-313 83-128 (258)
94 cd02071 MM_CoA_mut_B12_BD meth 23.7 2.4E+02 0.0051 24.8 6.1 46 255-311 44-91 (122)
95 cd01834 SGNH_hydrolase_like_2 23.7 1E+02 0.0023 27.8 4.0 48 257-306 57-110 (191)
96 cd01972 Nitrogenase_VnfE_like 23.6 1.7E+02 0.0037 31.5 6.1 71 248-328 76-148 (426)
97 PHA02546 47 endonuclease subun 23.4 3E+02 0.0065 28.7 7.8 58 243-308 22-84 (340)
98 PF14606 Lipase_GDSL_3: GDSL-l 23.4 1.1E+02 0.0024 29.6 4.2 44 253-307 51-100 (178)
99 cd03111 CpaE_like This protein 23.0 97 0.0021 26.5 3.4 15 175-189 29-43 (106)
100 PF00581 Rhodanese: Rhodanese- 22.9 1.3E+02 0.0029 24.7 4.2 19 295-313 91-109 (113)
101 PRK10818 cell division inhibit 22.8 87 0.0019 30.9 3.5 59 249-323 102-160 (270)
102 PF09383 NIL: NIL domain; Int 22.7 17 0.00038 29.3 -1.3 51 251-301 17-71 (76)
103 PRK13233 nifH nitrogenase redu 22.6 79 0.0017 31.4 3.2 16 174-189 30-45 (275)
104 cd01966 Nitrogenase_NifN_1 Nit 22.6 3.1E+02 0.0066 29.6 7.8 69 249-328 69-143 (417)
105 PRK00942 acetylglutamate kinas 22.6 2.9E+02 0.0062 27.9 7.3 62 244-312 6-67 (283)
106 cd02065 B12-binding_like B12 b 22.5 2.2E+02 0.0048 24.2 5.6 15 256-270 45-59 (125)
107 COG1091 RfbD dTDP-4-dehydrorha 22.1 1.2E+02 0.0026 31.4 4.3 65 253-317 42-118 (281)
108 cd02070 corrinoid_protein_B12- 22.0 1.9E+02 0.0042 27.7 5.6 48 255-313 127-177 (201)
109 cd01965 Nitrogenase_MoFe_beta_ 21.9 2.5E+02 0.0055 30.1 7.1 66 249-325 69-140 (428)
110 cd07383 MPP_Dcr2 Saccharomyces 21.8 2.9E+02 0.0064 25.9 6.8 49 253-308 33-84 (199)
111 TIGR02482 PFKA_ATP 6-phosphofr 21.5 2.8E+02 0.0061 28.8 7.0 98 242-340 11-133 (301)
112 PRK10966 exonuclease subunit S 21.3 3.7E+02 0.0081 29.0 8.1 65 244-319 23-90 (407)
113 PF14639 YqgF: Holliday-juncti 21.2 2E+02 0.0042 26.9 5.2 27 242-268 44-70 (150)
114 PRK07428 nicotinate-nucleotide 21.2 83 0.0018 32.6 3.0 47 269-320 215-261 (288)
115 cd02653 nuc_hydro_3 NH_3: A su 21.2 1.6E+02 0.0034 30.7 5.1 47 253-312 105-151 (320)
116 cd04241 AAK_FomA-like AAK_FomA 21.1 1.9E+02 0.0042 28.5 5.6 51 265-316 2-53 (252)
117 PF02701 zf-Dof: Dof domain, z 21.1 34 0.00074 27.7 0.1 11 156-166 16-26 (63)
118 PF01729 QRPTase_C: Quinolinat 21.1 48 0.001 31.5 1.2 46 269-319 99-144 (169)
119 PF06925 MGDG_synth: Monogalac 21.0 98 0.0021 28.6 3.2 24 244-267 72-95 (169)
120 COG0683 LivK ABC-type branched 20.5 5.3E+02 0.011 26.8 8.9 101 167-313 138-240 (366)
121 PRK13232 nifH nitrogenase redu 20.2 95 0.0021 30.9 3.2 17 173-189 27-43 (273)
122 TIGR01501 MthylAspMutase methy 20.1 2.4E+02 0.0053 25.9 5.5 36 255-301 46-81 (134)
123 cd05781 DNA_polB_B3_exo DEDDy 20.1 2.7E+02 0.0059 26.6 6.1 87 177-303 4-91 (188)
124 KOG1432 Predicted DNA repair e 20.0 2.5E+02 0.0055 30.2 6.2 53 252-313 91-147 (379)
No 1
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]
Probab=100.00 E-value=1.4e-138 Score=1051.39 Aligned_cols=383 Identities=70% Similarity=1.257 Sum_probs=378.1
Q ss_pred CCCCCCeEEEEECCCCCCCCCCCCCCCCchHHHHHHHHHHHcCCCCCcEEeCCCCCCHHHHhccChHHHHHHHHhcCchh
Q 011109 12 TDGVKRKVCYFYDPEVGNYYYGQGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPET 91 (493)
Q Consensus 12 ~~~~~~~v~~~yd~~~~~~~~g~~HPe~P~R~~~i~~ll~~~gL~~~~~v~~p~~As~eeL~~vHs~~YI~~L~~~~~~~ 91 (493)
....|++|+|+|++++++|+||++|||+|+|++|+|+||..|||.++|++++|..|+.+||++|||++||+||++++|++
T Consensus 2 ~~~~k~~V~y~yd~~vg~~~Yg~~hpmkP~R~~mth~Lv~~YgL~k~M~i~~p~~a~~~dm~~FHt~eYi~fL~~V~p~n 81 (425)
T KOG1342|consen 2 YSLIKRRVSYFYDPDVGNFHYGQGHPMKPHRIRMTHSLVLNYGLYKKMEIYRPDKASAQDMTRFHTDEYINFLQSVTPEN 81 (425)
T ss_pred CCcCCceEEEEecCccccccccCCCCCCcceehhhhHHHHhcchhhceeeccCCCCCHHHHHhhchHHHHHHHhhCCccc
Confidence 35678999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHhhhhcccCCCCcCCcchHHHHHHHHHHHHHHHHHHhcCccceeeecCCCCCCccccCCCcceeecHHHHHHHHH
Q 011109 92 QQDQLRQLKRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFCYVNDIVLAILEL 171 (493)
Q Consensus 92 ~~~~~~~l~~~~~~~Dcpvf~gl~~~~~~~aGgsl~aa~~L~~g~~~iAin~~GG~HHA~~~~AsGFCy~NdvaIAi~~l 171 (493)
+....+++++||+++|||+|+|+|++|++++||||.||++|+++++||||||+||+|||||++||||||+|||||||++|
T Consensus 82 ~~~~~~~~~~fNvg~DCPvF~gL~~fC~~~~GgSl~aa~kLn~~~~dIaINW~GGlHHAKK~eASGFCYvNDIVL~ILeL 161 (425)
T KOG1342|consen 82 METFNKELKQFNVGEDCPVFDGLYDYCQLYTGGSLNAAQKLNRGECDIAINWAGGLHHAKKSEASGFCYVNDIVLGILEL 161 (425)
T ss_pred ccccchHHHhcCCCCCCccccCHHHHHHHhcccchHHHHHhCCCCceEEEecCcccccccccccCcceeehHHHHHHHHH
Confidence 98877889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhcCCcEEEEEccccCChhhhhhhhcCCCEEEeecCCCC-CCCCCCCCCCcccCCCCCccEeecCCCCCCChHHHHHHHH
Q 011109 172 LKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFK 250 (493)
Q Consensus 172 lk~~~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~g-~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~~f~ 250 (493)
||.++||||||||+|||||||||||.++||||||||+|| +||||||++.|+|.|+||+|+|||||.+|++|++|..+|+
T Consensus 162 lK~h~RVLYIDIDvHHGDGVEeAFy~TDRVmTvSfHKyg~~fFPGTG~l~d~G~~kGkyyavNVPL~dGidD~sy~~if~ 241 (425)
T KOG1342|consen 162 LKYHKRVLYIDIDVHHGDGVEEAFYTTDRVMTVSFHKYGPGFFPGTGDLSDIGAGKGKYYAVNVPLKDGIDDESYESIFK 241 (425)
T ss_pred HHhCCceEEEEecccCCccHHHHHhccceeEEEEEEeccCCCCCCCCcceeccCCCCceEEEccchhccCCcHHHHHHHH
Confidence 999999999999999999999999999999999999997 6999999999999999999999999999999999999999
Q ss_pred HHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchhhHHHHHHHHHHcCC
Q 011109 251 PIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGV 330 (493)
Q Consensus 251 ~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~var~w~~~t~~llg~ 330 (493)
+||.++++.|+|++||+|||+|++.||||||||||++||++|+++++++++|+++|||||||++||||||||+|++++|+
T Consensus 242 pIi~~v~e~f~P~AiVLQCGaDSL~gDRlgcFnLsi~Gh~~Cv~fvksfn~pllvlGGGGYT~rNVARcWtYeT~v~~~~ 321 (425)
T KOG1342|consen 242 PIISKVMERFQPEAIVLQCGADSLAGDRLGCFNLSIKGHAECVKFVKSFNLPLLVLGGGGYTLRNVARCWTYETGVLLDQ 321 (425)
T ss_pred HHHHHHHHHhCCceEEEEcCCccccCCccceeeecchhHHHHHHHHHHcCCcEEEecCCccchhhhHHHHHHHhhhhcCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCchhhcccCCCCccccCCCCCCCcCcHHHHHHHHHHHHHHhhcCCCCCCcccccCCC
Q 011109 331 EVDDKMPQHEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKLLEYLSKLQHAPSVQFQERPP 394 (493)
Q Consensus 331 ~~~~~iP~~~~~~~~~p~~~l~~~~~~~~~~n~~~~le~i~~~~~~~l~~l~~~p~v~~~~~~~ 394 (493)
+++++||+|+||+||||||+|++.+++|+|+|++++|++|++++++||+++++|||||||.+|+
T Consensus 322 ~~~~elP~n~y~~yF~PDy~l~~~~~~~~n~Nt~~~l~~i~~~~~enL~~l~~apSVqm~~~p~ 385 (425)
T KOG1342|consen 322 ELPNELPYNDYFEYFGPDYKLHIDPSNMENFNTPHYLESIRNEILENLRMLQHAPSVQMQMIPN 385 (425)
T ss_pred cccccCCCccchhhhCCCcccccCccchhcccCHHHHHHHHHHHHHHHHhccCCCcccccccCC
Confidence 9999999999999999999999999999999999999999999999999999999999999997
No 2
>PTZ00063 histone deacetylase; Provisional
Probab=100.00 E-value=5e-118 Score=935.69 Aligned_cols=389 Identities=64% Similarity=1.171 Sum_probs=372.8
Q ss_pred CCCeEEEEECCCCCCCCCCCCCCCCchHHHHHHHHHHHcCCCCCcEEeCCCCCCHHHHhccChHHHHHHHHhcCchhhHH
Q 011109 15 VKRKVCYFYDPEVGNYYYGQGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQD 94 (493)
Q Consensus 15 ~~~~v~~~yd~~~~~~~~g~~HPe~P~R~~~i~~ll~~~gL~~~~~v~~p~~As~eeL~~vHs~~YI~~L~~~~~~~~~~ 94 (493)
.|+||+|+||++++.|++|++|||+|.|+++++++|.++||.+++++++|++|+.++|++||+++||++|++.++++..+
T Consensus 2 ~~~~v~~~yd~~~~~h~~g~~HP~~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~L~~~~~~~~~~ 81 (436)
T PTZ00063 2 MRKRVSYFYDPDIGSYYYGPGHPMKPQRIRMAHALILSYDLYKHMEIYRPHKSVEPELVLFHDEEYVDFLSSISPENYRD 81 (436)
T ss_pred CCceEEEEECccccCcCCcCcCCcChHHHHHHHHHHHhCCCcccCeEecCCCCCHHHHHHhCCHHHHHHHHHhChhhccc
Confidence 47899999999999999999999999999999999999999999999999999999999999999999999988765433
Q ss_pred HHHhhhhcccC--CCCcCCcchHHHHHHHHHHHHHHHHHHhcCccceeeecCCCCCCccccCCCcceeecHHHHHHHHHH
Q 011109 95 QLRQLKRFNVG--EDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFCYVNDIVLAILELL 172 (493)
Q Consensus 95 ~~~~l~~~~~~--~Dcpvf~gl~~~~~~~aGgsl~aa~~L~~g~~~iAin~~GG~HHA~~~~AsGFCy~NdvaIAi~~ll 172 (493)
....+.+|+++ .|||+|+++|++|+++|||||.||+++++|++++||||+||+|||++++|+||||||||||||++|+
T Consensus 82 ~~~~~~~f~lg~~~D~pv~~gl~~~a~~aaGgsl~Aa~~l~~g~~~iAin~~GG~HHA~~~~A~GFC~~NdiaiAi~~L~ 161 (436)
T PTZ00063 82 FTYQLKRFNVGEATDCPVFDGLFEFQQSCAGASIDGAYKLNNHQADICVNWSGGLHHAKRSEASGFCYINDIVLGILELL 161 (436)
T ss_pred chhhhhhcccCCCCCCCcccHHHHHHHHHHhHHHHHHHHHHcCCCCEEeeCCCCCCCCccCCCCceeeecHHHHHHHHHH
Confidence 22346678898 4999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCcEEEEEccccCChhhhhhhhcCCCEEEeecCCCCCCCCCCCCCCcccCCCCCccEeecCCCCCCChHHHHHHHHHH
Q 011109 173 KQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFGDYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPI 252 (493)
Q Consensus 173 k~~~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~g~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~~f~~i 252 (493)
+.++||||||||||||||||+|||.+++|||||||++++||||||...++|.|.|++|+|||||++|++|++|+.+|+++
T Consensus 162 ~~~~RVliID~DvHHGdGtqe~F~~~~~VltvS~H~~~~ffPgtG~~~e~G~g~G~g~~vNvPL~~G~~D~~Y~~~f~~i 241 (436)
T PTZ00063 162 KYHARVMYIDIDVHHGDGVEEAFYVTHRVMTVSFHKFGDFFPGTGDVTDIGVAQGKYYSVNVPLNDGIDDDSFVDLFKPV 241 (436)
T ss_pred HhCCeEEEEeCCCCCCcchHHHhccCCCeEEEEeccCCCcCCCCCCccccCCCCCCceEEEeeCCCCCCHHHHHHHHHHH
Confidence 99999999999999999999999999999999999998899999999999999999999999999999999999999999
Q ss_pred HHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchhhHHHHHHHHHHcCC--
Q 011109 253 IGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGV-- 330 (493)
Q Consensus 253 v~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~var~w~~~t~~llg~-- 330 (493)
|.|+++.|+||+||+|||+|++.+||||+|+||++||++|+++++++++|+|+||||||+++++||||+++|++++|.
T Consensus 242 i~~~i~~f~Pd~IvvqaG~D~~~~DpLg~l~Lt~~g~~~~~~~~~~~~~pil~l~gGGY~~~~lar~w~~~t~~~~~~~~ 321 (436)
T PTZ00063 242 ISKCVEVYRPGAIVLQCGADSLTGDRLGRFNLTIKGHAACVEFVRSLNIPLLVLGGGGYTIRNVARCWAYETGVILNKHD 321 (436)
T ss_pred HHHHHHHhCCCEEEEECCccccCCCCCCCcccCHHHHHHHHHHHHhcCCCEEEEeCccCCchHHHHHHHHHHHHHhCCcc
Confidence 999999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred CCCCCCCCchhhcccCCCCccccCCCCCCCcCcHHHHHHHHHHHHHHhhcCCCCCCcccccCCCCCCCCCcCC
Q 011109 331 EVDDKMPQHEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKLLEYLSKLQHAPSVQFQERPPDSELPEADE 403 (493)
Q Consensus 331 ~~~~~iP~~~~~~~~~p~~~l~~~~~~~~~~n~~~~le~i~~~~~~~l~~l~~~p~v~~~~~~~~~~~~~~~~ 403 (493)
+++++||+|+||+||+|+|+|++.+++|+|+|+++||++|++++++||+.+++|||||||.+||+....+.++
T Consensus 322 ~~~~~iP~~~~~~~~~~~~~l~~~~~~~~n~n~~~~l~~~~~~~~~~l~~~~~ap~v~~~~~~~~~~~~~~~~ 394 (436)
T PTZ00063 322 EMSDQISLNDYYDYYAPDFQLHLQPSNIPNYNSPEHLEKIKVKILENLRYLEHAPGVQFAYVPPDFFDRDIDD 394 (436)
T ss_pred cCCccCCCCcchhhcCCCeEeecCcccccCCCCHHHHHHHHHHHHHHHhcCCCCCeeccccCCcccccccccc
Confidence 6999999999999999999999999999999999999999999999999999999999999999876555433
No 3
>PTZ00346 histone deacetylase; Provisional
Probab=100.00 E-value=8.2e-100 Score=794.28 Aligned_cols=364 Identities=41% Similarity=0.734 Sum_probs=334.5
Q ss_pred CCCeEEEE----ECCCCCCCCCCCCCCCCchHHHHHHHHHHHcCCCCCcEEeCCCCCCHHHHhccChHHHHHHHHhcCch
Q 011109 15 VKRKVCYF----YDPEVGNYYYGQGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPE 90 (493)
Q Consensus 15 ~~~~v~~~----yd~~~~~~~~g~~HPe~P~R~~~i~~ll~~~gL~~~~~v~~p~~As~eeL~~vHs~~YI~~L~~~~~~ 90 (493)
.+++|+|+ |.+++..|+|+++|||+|.|+++++++|+++||..++.++.|++|+.++|++||+++||++|++....
T Consensus 18 ~~~~~~~~~~~~y~~~~~~~~~~~~HPe~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~l~~~~~~ 97 (429)
T PTZ00346 18 SRGRVALIDTSGYASDMNISAFVPQHAMKPYRVLAAMEIVRSLKIDAHCRTVVPPLVKVEELMAYHTDTYLANLGLHSCR 97 (429)
T ss_pred ccceeEEEecCccccccccccCCCcCCCCHHHHHHHHHHHHhcCCcccCeeecCCCCCHHHHHHhCCHHHHHHHHHhccc
Confidence 46789999 77777889999999999999999999999999999999999999999999999999999999874332
Q ss_pred hhHHHHHhhhhcccCCCCcCCcchHHHHHHHHHHHHHHHHHHhcCccceeeecCCCCCCccccCCCcceeecHHHHHHHH
Q 011109 91 TQQDQLRQLKRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFCYVNDIVLAILE 170 (493)
Q Consensus 91 ~~~~~~~~l~~~~~~~Dcpvf~gl~~~~~~~aGgsl~aa~~L~~g~~~iAin~~GG~HHA~~~~AsGFCy~NdvaIAi~~ 170 (493)
..... .....+.++.|||+|+++|++|+++|||+|.||+++++|++++||||+||+|||++++|+||||||||||||++
T Consensus 98 ~~~~~-~~~~~~~~d~Dtpv~~~~~~~a~laaGgsl~Aa~~v~~g~~~~Ai~~pGG~HHA~~~~a~GFC~fNdvAIAa~~ 176 (429)
T PTZ00346 98 SWLWN-AETSKVFFSGDCPPVEGLMEHSIATASGTLMGAVLLNSGQVDVAVHWGGGMHHSKCGECSGFCYVNDIVLGILE 176 (429)
T ss_pred ccccc-cccccccccCCCCCChHHHHHHHHHHHHHHHHHHHHHcCCCCEEEeCCCCcCcCCCCCCCcchHHhHHHHHHHH
Confidence 11100 01123557789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhcCCcEEEEEccccCChhhhhhhhcCCCEEEeecCCCC-CCCCCCCCCCcccCCCCCccEeecCCCCCCChHHHHHHH
Q 011109 171 LLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLF 249 (493)
Q Consensus 171 llk~~~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~g-~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~~f 249 (493)
|+++++||||||||||||||||+|||++++|||||||+++ .||||||...++|.|.|++|++||||++|++|++|+.+|
T Consensus 177 ll~~~~RVliID~DVHHGnGTqeiF~~dp~Vl~vSiHq~~~~fyPgtG~~~e~G~g~G~g~~vNVPL~~G~~D~~Yl~~f 256 (429)
T PTZ00346 177 LLKCHDRVLYVDIDMHHGDGVDEAFCTSDRVFTLSLHKFGESFFPGTGHPRDVGYGRGRYYSMNLAVWDGITDFYYLGLF 256 (429)
T ss_pred HHHcCCeEEEEeCCCCCCchHHHHHcCCCCeEEEEecCCCCCCCCCCCCccccCCCCCceeEEeeeCCCCcCHHHHHHHH
Confidence 9999999999999999999999999999999999999995 599999999999999999999999999999999999999
Q ss_pred HHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchhhHHHHHHHHHHcC
Q 011109 250 KPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALG 329 (493)
Q Consensus 250 ~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~var~w~~~t~~llg 329 (493)
+++|.|++++|+||+||||||||++.+||||+|+||.+||.+|+++++++++|++++|||||++.++||||+++|++++|
T Consensus 257 ~~ii~p~l~~F~PdlIvvsaG~Da~~~DpLg~l~LT~~g~~~~~~~l~~~~~plv~vleGGY~~~~lar~w~~~t~~l~g 336 (429)
T PTZ00346 257 EHALHSIVRRYSPDAIVLQCGADSLAGDRLGLLNLSSFGHGQCVQAVRDLGIPMLALGGGGYTIRNVAKLWAYETSILTG 336 (429)
T ss_pred HHHHHHHHHhcCCCEEEEECCccCCCCCCCCCceeCHHHHHHHHHHHHhcCCCEEEEeCCcCCccHHHHHHHHHHHHHcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCC--CC--CchhhcccCCCCccccCCCCCCCcC-cHHHHHHHHHHHHHHhh
Q 011109 330 VEVDDK--MP--QHEYYEYFGPDYTLHVAPSNMENKN-SRQLLEEIRNKLLEYLS 379 (493)
Q Consensus 330 ~~~~~~--iP--~~~~~~~~~p~~~l~~~~~~~~~~n-~~~~le~i~~~~~~~l~ 379 (493)
.++|++ || ..+|.+||+|+|+|++.+++++|.| +....+++.++++++++
T Consensus 337 ~~i~~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 391 (429)
T PTZ00346 337 HPLPPNTVLPVAEMPLSGWLFQDSPLLIVAQDRSNHVLPGLHCQRAYQMMTEQID 391 (429)
T ss_pred CCCCCCCCCCCCCCchhhhhcCCCccccccccccccCCCcchhHHHHHHHHHHHH
Confidence 999876 78 4689999999999999888888887 56666666666666665
No 4
>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=9.8e-83 Score=654.33 Aligned_cols=324 Identities=33% Similarity=0.557 Sum_probs=300.1
Q ss_pred CeEEEEECCCCCCCCCCCCCCCCchHHHHHHHHHHHcCCCCCcEEeCCCCCCHHHHhccChHHHHHHHHhcCchhhHHHH
Q 011109 17 RKVCYFYDPEVGNYYYGQGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQL 96 (493)
Q Consensus 17 ~~v~~~yd~~~~~~~~g~~HPe~P~R~~~i~~ll~~~gL~~~~~v~~p~~As~eeL~~vHs~~YI~~L~~~~~~~~~~~~ 96 (493)
+++.++|++.++.|.++..|||+|.|++++.++|++.++...+++++|++++.++|+++|+++||++|++.++...
T Consensus 2 ~~~~~~~~~~~~~~~~~~~Hpe~p~R~~~~~~~l~~~~~~~~~~~~~p~~~~~~~l~~vH~~~yv~~l~~~~~~~~---- 77 (340)
T COG0123 2 MKTALIYHPEFLEHEPPPGHPENPDRLRLILELLESSGLPDSLELVEPRPATLEELLLVHSPDYVEFLESLSEEEG---- 77 (340)
T ss_pred CcceEeeCHHHhcCCCCCCCCCChHHHHHHHHHHHhcCccccccccCCCcCCHHHHHhhCCHHHHHHHHHhccccc----
Confidence 5788999999999999999999999999999999999988899999999999999999999999999999876511
Q ss_pred HhhhhcccCCCCcCCcchHHHHHHHHHHHHHHHHHHhcCccceeeecCCCCCCccccCCCcceeecHHHHHHHHHHhc-C
Q 011109 97 RQLKRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLCDIAINWAGGLHHAKKCEASGFCYVNDIVLAILELLKQ-H 175 (493)
Q Consensus 97 ~~l~~~~~~~Dcpvf~gl~~~~~~~aGgsl~aa~~L~~g~~~iAin~~GG~HHA~~~~AsGFCy~NdvaIAi~~llk~-~ 175 (493)
.+.++.|||+++++|++|++++|++++|++.+.+|+..++++|.||+|||++++|+|||+|||+||||++|+++ .
T Consensus 78 ----~~~~d~d~~~s~~~~~~a~~a~G~al~A~~~v~~g~~~~~~~~rppgHHA~~~~a~GFC~fNn~Aiaa~~l~~~~~ 153 (340)
T COG0123 78 ----YGNLDGDTPVSPGTYEAARLAAGGALTAVDAVLEGEDNAFALVRPPGHHAGRDRASGFCLFNNVAIAAKYLLKKGV 153 (340)
T ss_pred ----cccccCCCccChHHHHHHHHHhhHHHHHHHHHHcCccceEEECCCCcccccCCCCceeeeecHHHHHHHHHHHcCC
Confidence 46788999999999999999999999999999999867888888888999999999999999999999999996 7
Q ss_pred CcEEEEEccccCChhhhhhhhcCCCEEEeecCCCC-CCCCCCCCCCcccCCCCCccEeecCCCCCCChHHHHHHHHHHHH
Q 011109 176 ERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFG-DYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIG 254 (493)
Q Consensus 176 ~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~g-~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~~f~~iv~ 254 (493)
+||+|||||+|||||||+|||++++|+|+|+|+++ .||||||..+++|.|+ ++|++|||||+|++|++|+.+|+.+|.
T Consensus 154 ~RVaIiD~DvHHGnGTqeify~~~~V~~~S~H~~~~~~yPgtg~~~e~g~g~-~g~~vNiPLp~g~~d~~y~~a~~~~v~ 232 (340)
T COG0123 154 KRVAIIDFDVHHGNGTQEIFYDDDDVLTVSLHQDGRPFYPGTGGADEIGEGK-EGNNVNIPLPPGTGDDSYLEALEEIVL 232 (340)
T ss_pred CcEEEEEecCCCChhhHHHHccCCCeEEEeccCCCCCCCCcCCCccccccCc-ccceEeeecCCCCCcHHHHHHHHHHHH
Confidence 99999999999999999999999999999999994 6999999999999998 999999999999999999999999999
Q ss_pred hHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc----CCCEEEEeCCCCCCchhhHHHHHHHHHHcCC
Q 011109 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF----NVPLLLLGGGGYTIRNVARCWCYETGVALGV 330 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~----~~pllvlggGGY~~~~var~w~~~t~~llg~ 330 (493)
|++++|+||+||||||||+|.+||||+|+||..+|.+|+++++++ ++|+++||||||+..+++++|++++..+.|.
T Consensus 233 ~~~~~f~PdlvivsaG~D~h~~Dpl~~~~Lt~~~~~~~~~~v~~~a~~~~~~~~~vleGGY~~~~l~~~~~~~~~~l~~~ 312 (340)
T COG0123 233 PLLEEFKPDLVIVSAGFDAHRGDPLGRLNLTEEGYAKIGRAVRKLAEGYGGPVVAVLEGGYNLDALARSLVAFLAGLAGL 312 (340)
T ss_pred HHHHhcCCCEEEEecCcccCCCCccceeecCHHHHHHHHHHHHHHHHhcCCCeEEEecCCCChHHHHHHHHHHHHHHcCC
Confidence 999999999999999999999999999999999999999988765 5699999999999999999999999999996
Q ss_pred C---CCCCCCCc-hhhcccCCCC
Q 011109 331 E---VDDKMPQH-EYYEYFGPDY 349 (493)
Q Consensus 331 ~---~~~~iP~~-~~~~~~~p~~ 349 (493)
. .+..+|.. +++..+.+++
T Consensus 313 ~~~~~~~~~~~~~~~~~~~~~~~ 335 (340)
T COG0123 313 VEEELEEPLPEDLELRRAFRADY 335 (340)
T ss_pred Cccccccccccchhhhhhhccch
Confidence 4 33444543 5555555554
No 5
>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=1.1e-78 Score=618.48 Aligned_cols=297 Identities=35% Similarity=0.645 Sum_probs=236.4
Q ss_pred CCCCCCCCCCCCCCCCchHHHHHHHHHHH-cCCCCCcEEeCCCCCCHHHHhccChHHHHHHHHhcCchhhHHHHHhhhhc
Q 011109 24 DPEVGNYYYGQGHPMKPHRIRMTHALLAH-YGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQDQLRQLKRF 102 (493)
Q Consensus 24 d~~~~~~~~g~~HPe~P~R~~~i~~ll~~-~gL~~~~~v~~p~~As~eeL~~vHs~~YI~~L~~~~~~~~~~~~~~l~~~ 102 (493)
+|.|. |.+++.|||+|+|++.+.+.|.+ ++|++. ++|+.++|++|||++||++|++.+.............+
T Consensus 1 ~~~~~-~~~~~~Hpe~p~R~~~i~~~L~~~~~l~~~------~~a~~~~L~~vH~~~Yv~~l~~~~~~~~~~~~~~~~~~ 73 (311)
T PF00850_consen 1 HPQYQ-HQLGDGHPESPERLESIVEALKESYGLLPR------RPATDEELLRVHDPEYVDFLESASKEAKEEEEAGSPEF 73 (311)
T ss_dssp ----T-T-CCTTSSSCTHHHHHHHHHHHHTTTGGGG----------HHHHTTTS-HHHHHHHHHHHHHTSGCTHHHHHHH
T ss_pred CCccc-CCCCCCcCCCHHHHHHHHHHHHHhcCCCCC------CCCCHHHHHHcCCHHHHHHHHHhccccccccccccccc
Confidence 46776 88999999999999965555555 587655 99999999999999999999976543222110000111
Q ss_pred -c-c-CCCCcCCcchHHHHHHHHHHHHHHHHHHhcC--ccceeeecCCCCCCccccCCCcceeecHHHHHHHHHHhc--C
Q 011109 103 -N-V-GEDCPVFDGLFSFCQTYAGGSVGGAVKLNHG--LCDIAINWAGGLHHAKKCEASGFCYVNDIVLAILELLKQ--H 175 (493)
Q Consensus 103 -~-~-~~Dcpvf~gl~~~~~~~aGgsl~aa~~L~~g--~~~iAin~~GG~HHA~~~~AsGFCy~NdvaIAi~~llk~--~ 175 (493)
. + +.|||+++++++++++++|+++.|++.+.+| +..+|+++||| |||++++++||||||||||||++|+++ .
T Consensus 74 ~~~~~~~dt~~~~~~~~~a~~a~g~~l~a~~~v~~g~~~~~~a~~rppg-HHA~~~~a~GFC~~Nnvaiaa~~l~~~~~~ 152 (311)
T PF00850_consen 74 PNILDDGDTPISPGSWEAARLAAGGTLEAADAVLSGEIKNAFALVRPPG-HHAERDRAMGFCYFNNVAIAAKYLRKKYGL 152 (311)
T ss_dssp CCBTSSSSSEBCTTHHHHHHHHHHHHHHHHHHHHTTSSSEEEEEESS---TT-BTTBBBTTBSS-HHHHHHHHHHHTTTT
T ss_pred ccccCCCCcceehHHHHHHHHHHHHHHHHHHhhhcccccceeeecCccc-cccCcCcCcceeeeccHHHHHHHHhhcccc
Confidence 1 1 6799999999999999999999999999999 45678886666 999999999999999999999999985 3
Q ss_pred CcEEEEEccccCChhhhhhhhcCCCEEEeecCCC-CCCCC-CCCCCCcccCCCCCccEeecCCCCCCChHHHHHHHHHHH
Q 011109 176 ERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKF-GDYFP-GTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPII 253 (493)
Q Consensus 176 ~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~-g~ffP-gTG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~~f~~iv 253 (493)
+||+|||||+|||||||++||+|++|||+|||++ +.||| |||..+++|.|+|+++++||||++|++|++|+.+|+++|
T Consensus 153 ~rV~iiD~DvHhGnGtq~if~~d~~V~~~SiH~~~~~~yP~~tG~~~e~G~~~g~g~~~NipL~~g~~d~~y~~~~~~~l 232 (311)
T PF00850_consen 153 KRVAIIDFDVHHGNGTQEIFYDDPRVLYISIHQYPGNFYPFGTGFPDEIGEGKGKGYNLNIPLPPGTGDDEYLEAFEEIL 232 (311)
T ss_dssp SSEEEEE-SSS--HHHHHHTTT-SSEEEEEEEE-CTTSTTTSS--TT--ESGGGTTSEEEEEE-TTEBHHHHHHHHHHHH
T ss_pred ceEEEEEeCCCCcccchhheeCCCCEEecCccccccccCCCcCCCccccCCCcccceeEecccccccchHHHHHHHhhcc
Confidence 8999999999999999999999999999999998 56999 999999999999999999999999999999999999999
Q ss_pred HhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC----CEEEEeCCCCCCchhhHHHHHHHHHHc
Q 011109 254 GKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNV----PLLLLGGGGYTIRNVARCWCYETGVAL 328 (493)
Q Consensus 254 ~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~----pllvlggGGY~~~~var~w~~~t~~ll 328 (493)
.|++++|+||+||||||||++.+||+|.|+||++||.+++++|+++.. |+|++|||||++.++++||+.++++|.
T Consensus 233 ~~~~~~f~P~~ivvsaG~D~~~~Dplg~~~lt~~~~~~~~~~~~~~a~~~~~~~v~vleGGY~~~~~~~~~~~~~~~L~ 311 (311)
T PF00850_consen 233 LPALEEFRPDLIVVSAGFDAHAGDPLGGLNLTPEGYRELTRRLKSLAKRHCIPVVSVLEGGYNPESLARSWAAVIAALA 311 (311)
T ss_dssp HHHHHHHT-SEEEEEE-STTBTTSTT-SEBB-HHHHHHHHHHHHTTHSHHSGCEEEEE-S-SSHHHHHHHHHHHHHHH-
T ss_pred ccchhcccCcEEEEccCcccchhccccCcCCCHHHHHHHHHHHHHHHHhcCCcEEEEECCCCChhHHHHHHHHHHHHhC
Confidence 999999999999999999999999999999999999999999988744 999999999999999999999999873
No 6
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=100.00 E-value=1.3e-48 Score=433.52 Aligned_cols=286 Identities=25% Similarity=0.409 Sum_probs=237.0
Q ss_pred CCCCCCchHHHHHHHHHHHcCCCCCcEEeCCCCCCHHHHhccChHHHHHHHHhcCchhh---HHHH-HhhhhcccCCCCc
Q 011109 34 QGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQ---QDQL-RQLKRFNVGEDCP 109 (493)
Q Consensus 34 ~~HPe~P~R~~~i~~ll~~~gL~~~~~v~~p~~As~eeL~~vHs~~YI~~L~~~~~~~~---~~~~-~~l~~~~~~~Dcp 109 (493)
.+||..|.| .+..+. +||+.+|+-+ ||.++++.||+..|+..+.+.-.... .... ....-..++
T Consensus 463 ~~~~~~p~r--~~t~~~--~gl~~~c~r~----at~~el~~vHs~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~---- 530 (797)
T KOG1343|consen 463 SRSPESPAR--FTTGLH--TGLLGKCERI----ATLEELQLVHSEAHVLLYGSRKLLGDLSLKFESRLPCGGIGVD---- 530 (797)
T ss_pred cCCcccchh--hhcccc--cccccccccc----cchhhhhhcccchhhcccchhhhcccccchhhhhccccceeec----
Confidence 478999999 333333 8999999877 99999999999999998652111000 0000 001111222
Q ss_pred CCcchHHHHHHHHHHHHHHHHHH--hcCcc--ceeeecCCCCCCccccCCCcceeecHHHHHHHHHHhcC--CcEEEEEc
Q 011109 110 VFDGLFSFCQTYAGGSVGGAVKL--NHGLC--DIAINWAGGLHHAKKCEASGFCYVNDIVLAILELLKQH--ERVLYVDI 183 (493)
Q Consensus 110 vf~gl~~~~~~~aGgsl~aa~~L--~~g~~--~iAin~~GG~HHA~~~~AsGFCy~NdvaIAi~~llk~~--~RVl~VDi 183 (493)
...|.....++|+...++..+ +.++. .+|+.++|| |||....++|||+|||+|||+.+|.... .|||||||
T Consensus 531 --~dt~~~~~~ssga~~~av~~v~~~~~~~~~g~avvRppG-Hha~~~~a~gfc~fn~vaiaak~l~~~~~~~rilivdw 607 (797)
T KOG1343|consen 531 --SDTWWNELHSSGAARLAVGCVIELAFKVASGFAVVRPPG-HHAEASTAMGFCFFNSVAIAAKLLQQRSKASRILIVDW 607 (797)
T ss_pred --ccHHHHHHHHHHHHHHhcchhhhhhhhhhcceeEecCCc-cccccCCcceeeeecchhhhhHHhhhhhhhcceEEEee
Confidence 344555555555555555444 12222 289999998 9999999999999999999999988654 89999999
Q ss_pred cccCChhhhhhhhcCCCEEEeecCCC--CCCCCCCCCCCcccCCCCCccEeecCCCCCCC-hHHHHHHHHHHHHhHhhhc
Q 011109 184 DIHHGDGVEEAFYTTDRVMTVSFHKF--GDYFPGTGDIRDIGYSKGKFYSLNVPLDDGID-DESYHYLFKPIIGKVMEVF 260 (493)
Q Consensus 184 DvHHGDGtqeaF~~d~rVltiS~H~~--g~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~-D~~yl~~f~~iv~pv~~~f 260 (493)
|||||||||.+||.++.||++|+|++ |+|||++|..+++|.+.|+++++|||++.|.. |.+|+.+|+.++.|++++|
T Consensus 608 Dvhhgngtq~~f~~~~~vlyislhr~~~G~~fp~~g~~~e~g~~~g~g~~vNv~~~~~~~~D~ey~~a~~~vv~Pia~~F 687 (797)
T KOG1343|consen 608 DVHHGNGTQQAFYSDPSVLYISLHRHDDGNFFPGSGAPDEVGKGEGVGFNVNVAWTGGLDPDAEYLAAFRTVVMPIAYEF 687 (797)
T ss_pred cccCCcceeeeeccCccccccccchhccCCcCCCCCCchhcccccccceeecccccCCCCCCHHHHHHHHHhhHHHHHHh
Confidence 99999999999999999999999999 78999999999999999999999999987544 6999999999999999999
Q ss_pred CCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc-CCCEEEEeCCCCCCchhhHHHHHHHHHHcCCCCCC
Q 011109 261 RPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF-NVPLLLLGGGGYTIRNVARCWCYETGVALGVEVDD 334 (493)
Q Consensus 261 ~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~-~~pllvlggGGY~~~~var~w~~~t~~llg~~~~~ 334 (493)
.||+|++++|||+..+||||+..+|.++|+.+++.|+.+ ++|+++.+||||+..+++++...++.+|+|.+.|.
T Consensus 688 ~pd~VlvSagfDaa~~dplg~~~vt~~~~~~lt~~l~~lagGRvv~~LEggy~lt~is~s~~~~~~~llg~~~p~ 762 (797)
T KOG1343|consen 688 NPDLVLVSAGFDAAEGDPLGGYKVTAECFGYLTQQLMGLAGGRVVLALEGGYDLTAISDSAEACVRALLGDSLPP 762 (797)
T ss_pred CCCeEEEeccccccccCccccccccHhHHHHHHHHHHHhcCCcEEEEecCCcchhhhhHHHHHHHHhccCCCCCC
Confidence 999999999999999999999999999999999999887 78999999999999999999999999999987763
No 7
>KOG1344 consensus Predicted histone deacetylase [Chromatin structure and dynamics]
Probab=100.00 E-value=2.2e-38 Score=305.08 Aligned_cols=289 Identities=28% Similarity=0.460 Sum_probs=233.2
Q ss_pred CCeEEEEECCCCCCCCCC--CCCCCCchHHHHHHHHHHHcCCCCCcEEeCCCCCCHHHHhccChHHHHHHHHhcCchhhH
Q 011109 16 KRKVCYFYDPEVGNYYYG--QGHPMKPHRIRMTHALLAHYGLLQNMQVLKPFPARERDLCRFHADDYVSFLRSITPETQQ 93 (493)
Q Consensus 16 ~~~v~~~yd~~~~~~~~g--~~HPe~P~R~~~i~~ll~~~gL~~~~~v~~p~~As~eeL~~vHs~~YI~~L~~~~~~~~~ 93 (493)
-.|+.++|++.|.--..| ..||+...+-..++++|.+.+++..-.+++|..+|.++|+++|+.+|++.|+..-.-.+-
T Consensus 13 ~~k~pIvyS~~Y~i~FmGlEkLHPFDa~Kwg~v~kfL~~~~~l~d~~lvEp~e~t~e~L~rvHtr~YLkslr~s~~vA~I 92 (324)
T KOG1344|consen 13 AGKLPIVYSRNYAIRFMGLEKLHPFDAAKWGHVHKFLCAMNLLTDETLVEPNEATKEDLLRVHTRKYLKSLRWSIKVAQI 92 (324)
T ss_pred cccccEEecCccceeecchhhcCcCcccchhHHHHHHHHhccccccccccCcccCHHHHHhHhhHHHHHHhhccceeeEE
Confidence 357899999998543333 679999999999999999999999889999999999999999999999999864211110
Q ss_pred HHHHhhhhcccCCCCcCCcchHHHHHHHHHHHHHHHHHHh-cCccceeeecCCCCCCccccCCCcceeecHHHHHHHHHH
Q 011109 94 DQLRQLKRFNVGEDCPVFDGLFSFCQTYAGGSVGGAVKLN-HGLCDIAINWAGGLHHAKKCEASGFCYVNDIVLAILELL 172 (493)
Q Consensus 94 ~~~~~l~~~~~~~Dcpvf~gl~~~~~~~aGgsl~aa~~L~-~g~~~iAin~~GG~HHA~~~~AsGFCy~NdvaIAi~~ll 172 (493)
.+..-.+.-+.|.+-..+....++.|||||.|+.... +| .|||..||+|||..+++.|||.+.||.+||..|-
T Consensus 93 ---~EiP~v~flPn~~iqrk~LrPlR~QagGtilA~kLAle~G---WAINvGGGFHHcss~rGGGFC~yADItl~I~~lF 166 (324)
T KOG1344|consen 93 ---TEIPFVGFLPNCIIQRKLLRPLRLQAGGTILAAKLALERG---WAINVGGGFHHCSSSRGGGFCAYADITLAIFFLF 166 (324)
T ss_pred ---EeccccccCchhhhhhhhccceeeccCceeehhhhhhhcC---eEEeecCccceeccCCCCceeehhhHHHHHHHHH
Confidence 1111122234555555666667788999999998544 44 8999999999999999999999999999998876
Q ss_pred hc--CCcEEEEEccccCChhhhhhhhcCCCEEEeecCCCCCCCCCCCCCCcccCCCCCccEeecCCCCCCChHHHHHHHH
Q 011109 173 KQ--HERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFGDYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFK 250 (493)
Q Consensus 173 k~--~~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~g~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~~f~ 250 (493)
.+ ..|++|||+|+|+|||-|.-|.++ .|..+.+... -.||+.-...+ .-..-|.|..|+.|++|+.-++
T Consensus 167 er~~isr~mivDLDAHQGNghErdf~~~-~vyi~d~ynr-~iyp~D~~Ak~-------~Ir~kVEl~~gTeddeYLrkl~ 237 (324)
T KOG1344|consen 167 ERKAISRAMIVDLDAHQGNGHERDFEDD-AVYIFDMYNR-FIYPRDHVAKE-------SIRCKVELRNGTEDDEYLRKLK 237 (324)
T ss_pred hhhhhhheEEEecccccCCccccccccc-eeehhhhhhh-hccchhHHHHH-------HhhheeeeecCCCchHHHHHHH
Confidence 54 589999999999999999999877 6666554332 35887543321 1234577889999999999999
Q ss_pred HHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHH----HHHHHHhcCCCEEEEeCCCCCCchhhHHH
Q 011109 251 PIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAE----CVKFMRSFNVPLLLLGGGGYTIRNVARCW 320 (493)
Q Consensus 251 ~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~----~v~~l~~~~~pllvlggGGY~~~~var~w 320 (493)
+.+...+.+|+||+||+.+|.|.+.|||||.+.+|++|..+ +.++.+..++|+++|..|||-.+ .||-.
T Consensus 238 r~l~~sl~ef~Pd~VvYNAGTDiLeGDpLG~L~ISp~Gi~~RDelVFr~~R~~~iPvvMltSGGY~K~-sArvI 310 (324)
T KOG1344|consen 238 RCLMQSLAEFRPDMVVYNAGTDILEGDPLGNLAISPEGIIERDELVFRTFRALGIPVVMLTSGGYLKA-SARVI 310 (324)
T ss_pred HHHHHHHHhhCCcEEEEeCCCccccCCCCCCeeecccccchhhHHHHHHHHHcCCcEEEEecCceehh-hhhhh
Confidence 99999999999999999999999999999999999999875 55677888999999999999763 34433
No 8
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=100.00 E-value=3.1e-35 Score=326.96 Aligned_cols=312 Identities=21% Similarity=0.279 Sum_probs=261.4
Q ss_pred CeEEEEECCCCCCCC--CCCCCC-CCchHHHHHHHHHHHcCCCCCcEEeCC-CCCCHHHHhccChHHHHHHHHhcCchhh
Q 011109 17 RKVCYFYDPEVGNYY--YGQGHP-MKPHRIRMTHALLAHYGLLQNMQVLKP-FPARERDLCRFHADDYVSFLRSITPETQ 92 (493)
Q Consensus 17 ~~v~~~yd~~~~~~~--~g~~HP-e~P~R~~~i~~ll~~~gL~~~~~v~~p-~~As~eeL~~vHs~~YI~~L~~~~~~~~ 92 (493)
+++.++|++....|. -...|+ ++++|++.+.+.+.+.++...+.+..+ +.|+.++++.+|+++|++++........
T Consensus 29 ~~~~l~~~~~~~~h~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~v~~ke~~~~~~~t~~~~~ 108 (797)
T KOG1343|consen 29 IQKQLLFAEFQKQHENQQELLEKEEKLERLRQIEEELERHRLEQPLLILRNKREAKESAVASVHVKEKLQEFLLSKKMTA 108 (797)
T ss_pred hhhhhhhhhhhhhhhcccccccchhhhhHHHHHHHHhhccCCccccccccchhhcccchhcccccHHHHHHHHhhhhhcc
Confidence 468899999887774 234455 888999999999999999888877776 8999999999999999998875431111
Q ss_pred HHHHHhhhhc-ccCCCCcCCcchHHHHHHHHHHHHHHHHHHhcCcc--ceeeecCCCCCCccccCCCcceeecHHHHHHH
Q 011109 93 QDQLRQLKRF-NVGEDCPVFDGLFSFCQTYAGGSVGGAVKLNHGLC--DIAINWAGGLHHAKKCEASGFCYVNDIVLAIL 169 (493)
Q Consensus 93 ~~~~~~l~~~-~~~~Dcpvf~gl~~~~~~~aGgsl~aa~~L~~g~~--~iAin~~GG~HHA~~~~AsGFCy~NdvaIAi~ 169 (493)
++. +... .-.+.+++....+..+..++|+.+...+.+..|++ ..|+.+++| |||.+....|||+|||||++..
T Consensus 109 e~~---l~~~~~~~~~~~~~~~s~~~a~~a~~~~~~~~~~~~~~~~~n~~a~v~p~~-hhsep~~~~~~cl~n~Va~~~~ 184 (797)
T KOG1343|consen 109 EEG---LNHSSSRYPSLYYTSASHSSADQASGSLSGSYKAVLAGKASNGKADFRPPG-HHSEPNLKVGFCLFNNVAERRS 184 (797)
T ss_pred hhh---hhcccCCCCcceecCCchhhhcccCcccccccccccCCcccCccCcCCCCC-CccccchhcchhHHHHHHHHhh
Confidence 111 1111 11234555667777888889999887777666643 357778888 9999999999999999999998
Q ss_pred HHHhcC--CcEEEEEccccCChhhhhhhhc--CCCEEEeecCCC--CCCCCC--CCCCCcccCCCCCccEeecCCCC-CC
Q 011109 170 ELLKQH--ERVLYVDIDIHHGDGVEEAFYT--TDRVMTVSFHKF--GDYFPG--TGDIRDIGYSKGKFYSLNVPLDD-GI 240 (493)
Q Consensus 170 ~llk~~--~RVl~VDiDvHHGDGtqeaF~~--d~rVltiS~H~~--g~ffPg--TG~~~eiG~g~G~g~~vNVPL~~-G~ 240 (493)
..+..+ +||+++|||+|||+|||..|++ |++|+++|+|++ +.|||. +|....+|.|.|.|+++|+|+.. |+
T Consensus 185 ~~~~~~~~rri~i~d~dvh~g~Gtq~~~~~~~d~~vl~~s~~r~e~~~f~P~~~~g~~~~~~~g~~~g~~~nl~~~~~g~ 264 (797)
T KOG1343|consen 185 SPLLRRKKRRILIVDWDVHHGPGTQPSSPNNGDQRVLYFSLHRLETGPFLPNITLGLATLRGGGPGLGQTGNLPWNQVGM 264 (797)
T ss_pred ccccccccceeEeecccccCCCCCCCccCCCcccccccccchhcccCCcCCCCccchHHHhCcCCCcceeeccchhhcCC
Confidence 765444 8999999999999999999999 999999999999 779998 48888999999999999999986 89
Q ss_pred ChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCC-CCccccCHHHHHHHHHHHHhcC-CCEEEEeCCCCCCchhhH
Q 011109 241 DDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDR-LGCFNLSIKGHAECVKFMRSFN-VPLLLLGGGGYTIRNVAR 318 (493)
Q Consensus 241 ~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDp-LG~~nLT~~g~~~~v~~l~~~~-~pllvlggGGY~~~~var 318 (493)
+|.+|.++|..++.|...+|+|++|+++||||++.||+ +|.+..|+.+|+..+...+-.+ +++.++++|||+...+++
T Consensus 265 ~~~dy~~~~~~~~~~~~~efqp~Lv~~sag~dA~lg~~~~~~m~~tP~~~~~~~~~~~~~~r~~l~v~~e~gy~le~l~~ 344 (797)
T KOG1343|consen 265 TDADYEAAFLHVLLPHASEFQPDLLLVSAGFDALLGDGPVGLMAQTPLGYAHRTSMHRPLGRGQLVVVLEGGYFLEKLAQ 344 (797)
T ss_pred cchhhhhhhhccCccchhhcCcceEEeeccccccccCcccCcccCCcccHHHHhccccccccCccceecchhHHHHHHHH
Confidence 99999999999999999999999999999999999997 6999999999999999855555 899999999999999999
Q ss_pred HHHHHHHHHcCCCCC
Q 011109 319 CWCYETGVALGVEVD 333 (493)
Q Consensus 319 ~w~~~t~~llg~~~~ 333 (493)
. ......++|.+.+
T Consensus 345 ~-~~~~~~llg~~~~ 358 (797)
T KOG1343|consen 345 S-QLVLNKLLGKPIE 358 (797)
T ss_pred h-hhhHHhhcCCCcc
Confidence 7 6666778887554
No 9
>PTZ00346 histone deacetylase; Provisional
Probab=79.42 E-value=2.5 Score=45.88 Aligned_cols=60 Identities=10% Similarity=0.139 Sum_probs=52.6
Q ss_pred CCC-CCCCCchhhcccCCCCcc--ccCCCCCCCcCcHHHHHHHHHHHHHHhhcCCCCCCcccc
Q 011109 331 EVD-DKMPQHEYYEYFGPDYTL--HVAPSNMENKNSRQLLEEIRNKLLEYLSKLQHAPSVQFQ 390 (493)
Q Consensus 331 ~~~-~~iP~~~~~~~~~p~~~l--~~~~~~~~~~n~~~~le~i~~~~~~~l~~l~~~p~v~~~ 390 (493)
.+| ..+|+++||..+.|.+.+ ++.+.+.+..|..+.+++|.++|.++++.++..|.+|-.
T Consensus 344 ~lp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 406 (429)
T PTZ00346 344 VLPVAEMPLSGWLFQDSPLLIVAQDRSNHVLPGLHCQRAYQMMTEQIDRHVPHIQPHPRLQKA 406 (429)
T ss_pred CCCCCCCchhhhhcCCCccccccccccccCCCcchhHHHHHHHHHHHHhhhhccCCcHHHHHH
Confidence 466 689999999999999988 888899999999999999999999999999966655543
No 10
>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=77.39 E-value=7.1 Score=35.62 Aligned_cols=49 Identities=24% Similarity=0.430 Sum_probs=29.8
Q ss_pred hHhhhcCCCEEEEecCC-CCCCCCCCCccccCHHHHHHHHHHHHhc--CCCEEEE
Q 011109 255 KVMEVFRPGAVVLQCGA-DSLSGDRLGCFNLSIKGHAECVKFMRSF--NVPLLLL 306 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~-Dsl~gDpLG~~nLT~~g~~~~v~~l~~~--~~pllvl 306 (493)
..+..++|++||+++|. |...+-+ ..-..+.+.++++.+++. +.+++++
T Consensus 44 ~~~~~~~p~~vvi~~G~ND~~~~~~---~~~~~~~~~~lv~~i~~~~~~~~iil~ 95 (171)
T cd04502 44 RLVLPYQPRRVVLYAGDNDLASGRT---PEEVLRDFRELVNRIRAKLPDTPIAII 95 (171)
T ss_pred hhhccCCCCEEEEEEecCcccCCCC---HHHHHHHHHHHHHHHHHHCCCCcEEEE
Confidence 34456899999999998 5433221 222344555677777664 4555554
No 11
>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=75.68 E-value=5.9 Score=40.39 Aligned_cols=63 Identities=16% Similarity=0.331 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCc
Q 011109 244 SYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIR 314 (493)
Q Consensus 244 ~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~ 314 (493)
+|..+|++.+ |-+..|+-..+||-.|-.++..| ++ +.+..-+..+.+.+.+++++.|||....
T Consensus 1 ~~~~~~~~~~-~yi~~~~~~~~VIKlGG~ai~~~-----~l--~~~~~~ia~l~~~g~~~ViVHGggp~i~ 63 (280)
T cd04237 1 QFVDWFREAA-PYINAHRGKTFVIAFGGEAVAHP-----NF--DNIVHDIALLHSLGIRLVLVHGARPQID 63 (280)
T ss_pred ChHHHHHHHh-HHHHHhCCCEEEEEEChHHhcCc-----hH--HHHHHHHHHHHHCCCcEEEEeCCCHHHH
Confidence 3778888764 67899999999999998888754 22 3344455556667889999999988764
No 12
>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=71.02 E-value=21 Score=33.11 Aligned_cols=74 Identities=16% Similarity=0.152 Sum_probs=40.5
Q ss_pred eecCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHH-Hh--cCCCEEEE
Q 011109 232 LNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFM-RS--FNVPLLLL 306 (493)
Q Consensus 232 vNVPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l-~~--~~~pllvl 306 (493)
+|.-... .+-..++.-|...+......++||+|||..|..=.....-+....+.+.|.+.++.+ +. -+.+++++
T Consensus 41 ~N~gi~G-~t~~~~~~r~~~~~~~~~~~~~pd~V~i~~G~ND~~~~~~~~~~~~~~~~~~~~~~ii~~~~~~~~vi~~ 117 (193)
T cd01835 41 YNLGVRG-DGSEDVAARWRAEWSRRGELNVPNRLVLSVGLNDTARGGRKRPQLSARAFLFGLNQLLEEAKRLVPVLVV 117 (193)
T ss_pred EeecCCC-CCHHHHHHHHHHHHHhhcccCCCCEEEEEecCcccccccCcccccCHHHHHHHHHHHHHHHhcCCcEEEE
Confidence 4554433 334456666655555444458999999999986543321112235666666544433 22 24555554
No 13
>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=70.06 E-value=74 Score=30.07 Aligned_cols=16 Identities=19% Similarity=0.347 Sum_probs=12.9
Q ss_pred hcCCcEEEEEccccCC
Q 011109 173 KQHERVLYVDIDIHHG 188 (493)
Q Consensus 173 k~~~RVl~VDiDvHHG 188 (493)
+..+|||+||.|....
T Consensus 44 ~~G~rVllID~D~~~~ 59 (204)
T TIGR01007 44 QAGYKTLLIDGDMRNS 59 (204)
T ss_pred hCCCeEEEEeCCCCCh
Confidence 4468999999998754
No 14
>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=68.40 E-value=15 Score=33.64 Aligned_cols=71 Identities=18% Similarity=0.238 Sum_probs=38.7
Q ss_pred EeecCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHH----HHHHHHHHhc--CCCEE
Q 011109 231 SLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGH----AECVKFMRSF--NVPLL 304 (493)
Q Consensus 231 ~vNVPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~----~~~v~~l~~~--~~pll 304 (493)
..|..+...+.. .+...-...+.+.+...+||+|||++|..=.. ....+.+.| ..+++.+++. +.+++
T Consensus 27 v~N~g~~G~t~~-~~~~~~~~~~~~~l~~~~pd~Vii~~G~ND~~-----~~~~~~~~~~~~~~~li~~i~~~~~~~~iv 100 (189)
T cd01825 27 YDNLGVNGASAS-LLLKWDAEFLQAQLAALPPDLVILSYGTNEAF-----NKQLNASEYRQQLREFIKRLRQILPNASIL 100 (189)
T ss_pred EecCccCchhhh-hhhccCHHHHHHHHhhCCCCEEEEECCCcccc-----cCCCCHHHHHHHHHHHHHHHHHHCCCCeEE
Confidence 345544443322 23322223444567789999999999965432 222344444 4566666663 55666
Q ss_pred EEe
Q 011109 305 LLG 307 (493)
Q Consensus 305 vlg 307 (493)
+++
T Consensus 101 ~~~ 103 (189)
T cd01825 101 LVG 103 (189)
T ss_pred EEc
Confidence 553
No 15
>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]
Probab=68.09 E-value=38 Score=36.40 Aligned_cols=118 Identities=22% Similarity=0.295 Sum_probs=67.3
Q ss_pred HHHHHHHhcCCcEEEEEccccCCh----hhhhhhhcCCCEEEeecCCCCCCCCCCCCCCcc--cCCCCCccEeecCC-CC
Q 011109 166 LAILELLKQHERVLYVDIDIHHGD----GVEEAFYTTDRVMTVSFHKFGDYFPGTGDIRDI--GYSKGKFYSLNVPL-DD 238 (493)
Q Consensus 166 IAi~~llk~~~RVl~VDiDvHHGD----GtqeaF~~d~rVltiS~H~~g~ffPgTG~~~ei--G~g~G~g~~vNVPL-~~ 238 (493)
+-+.|+.|...|.+|||+|+-.|- |+=.++.-.. +-|+ |-+.-..-..|..+ .+
T Consensus 122 ~L~nyavk~gr~Plfv~LDvgQ~sitiPGsiaA~~i~~-------------------~~D~~eGf~l~~pLV~~FG~~sp 182 (415)
T KOG2749|consen 122 ILLNYAVKQGRRPLFVELDVGQGSITIPGSIAAIPIEM-------------------PLDVIEGFSLTAPLVYNFGLTSP 182 (415)
T ss_pred HHHHHHHHcCCcceEEEcCCCCCceecccchhheeccc-------------------ccchhhCcccCCceeeeccCCCC
Confidence 345677788899999999996651 3333322110 0111 10011112334444 45
Q ss_pred CCChHHHHHHHHHHHHhHhhhc--CCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCC
Q 011109 239 GIDDESYHYLFKPIIGKVMEVF--RPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGG 309 (493)
Q Consensus 239 G~~D~~yl~~f~~iv~pv~~~f--~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggG 309 (493)
..+-+-|...+.++-.-+-+++ +|++=+=-|=. |-. +|.. .+||+.++..++.|+.-+++|+|-
T Consensus 183 ~~N~~LY~~~~s~La~v~~~~~~~n~~ar~sG~iI-----nT~-g~i~-~egy~~llhai~~f~v~vviVLg~ 248 (415)
T KOG2749|consen 183 STNLELYKALVSELAEVLKQRLSLNPEARVSGCII-----NTC-GWIE-GEGYAALLHAIKAFEVDVVIVLGQ 248 (415)
T ss_pred CcCHHHHHHHHHHHHHHHHHHhccCchhcccceEE-----ecc-ceec-cccHHHHHHHHHHcCccEEEEecc
Confidence 6667788888877666555555 33321111111 111 2444 789999999999999998888875
No 16
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=66.66 E-value=7 Score=36.13 Aligned_cols=42 Identities=24% Similarity=0.352 Sum_probs=29.7
Q ss_pred cccCCCcceee----cHHHHHH-HHHHhc--CCcEEEEEccccCChhhh
Q 011109 151 KKCEASGFCYV----NDIVLAI-LELLKQ--HERVLYVDIDIHHGDGVE 192 (493)
Q Consensus 151 ~~~~AsGFCy~----NdvaIAi-~~llk~--~~RVl~VDiDvHHGDGtq 192 (493)
.+-.++|||++ ++-|..+ +++-.. -+|++-||||.-.=+|-|
T Consensus 73 ~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF~eGRQ 121 (153)
T KOG0121|consen 73 FKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGFVEGRQ 121 (153)
T ss_pred CCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccccchhhhh
Confidence 45578999986 5555544 444332 289999999997777776
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=62.76 E-value=26 Score=31.73 Aligned_cols=42 Identities=17% Similarity=0.271 Sum_probs=26.1
Q ss_pred hcCCCEEEEecCCCCCCCCCCCccccCHH----HHHHHHHHHHh--cCCCEEEE
Q 011109 259 VFRPGAVVLQCGADSLSGDRLGCFNLSIK----GHAECVKFMRS--FNVPLLLL 306 (493)
Q Consensus 259 ~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~----g~~~~v~~l~~--~~~pllvl 306 (493)
.++||+||+++|..=. ... .+.+ .+.++++.+++ -+.+++++
T Consensus 46 ~~~pd~vvl~~G~ND~----~~~--~~~~~~~~~l~~li~~~~~~~~~~~vi~~ 93 (169)
T cd01828 46 ALQPKAIFIMIGINDL----AQG--TSDEDIVANYRTILEKLRKHFPNIKIVVQ 93 (169)
T ss_pred ccCCCEEEEEeeccCC----CCC--CCHHHHHHHHHHHHHHHHHHCCCCeEEEE
Confidence 6899999999996432 222 3444 44455666666 35666654
No 18
>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=62.53 E-value=37 Score=30.60 Aligned_cols=47 Identities=19% Similarity=0.415 Sum_probs=30.2
Q ss_pred hHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHH----HHHHHHHHhcCCCEEEEe
Q 011109 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGH----AECVKFMRSFNVPLLLLG 307 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~----~~~v~~l~~~~~pllvlg 307 (493)
..+..++||+|||+.|..=. .. ..+.+.| .++++.+++.+.+++++.
T Consensus 58 ~~~~~~~pd~v~i~~G~ND~----~~--~~~~~~~~~~l~~li~~~~~~~~~vil~~ 108 (177)
T cd01822 58 ALLAQHKPDLVILELGGNDG----LR--GIPPDQTRANLRQMIETAQARGAPVLLVG 108 (177)
T ss_pred HHHHhcCCCEEEEeccCccc----cc--CCCHHHHHHHHHHHHHHHHHCCCeEEEEe
Confidence 34456899999999997532 22 2344444 456677777777777663
No 19
>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=62.40 E-value=32 Score=32.40 Aligned_cols=59 Identities=19% Similarity=0.290 Sum_probs=38.0
Q ss_pred hHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc---CCCEEEEeC
Q 011109 242 DESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF---NVPLLLLGG 308 (493)
Q Consensus 242 D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~---~~pllvlgg 308 (493)
.++...+|+.++.. +.+.+||+||+. ||=+.....+..-+..+.+.++++ ++|+.++.|
T Consensus 23 ~~~~~~~~~~~~~~-~~~~~~d~i~~~-------GD~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~G 84 (223)
T cd00840 23 REDQFEAFEEIVEL-AIEEKVDFVLIA-------GDLFDSNNPSPEALELLIEALRRLKEAGIPVFIIAG 84 (223)
T ss_pred hHHHHHHHHHHHHH-HHhcCCCEEEEC-------CcccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEecC
Confidence 35677888887754 566799987763 444333334445555566666555 788877765
No 20
>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=62.20 E-value=28 Score=31.84 Aligned_cols=62 Identities=13% Similarity=0.239 Sum_probs=33.7
Q ss_pred CCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHH----HHHHHHHhcCCCEEEE
Q 011109 239 GIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHA----ECVKFMRSFNVPLLLL 306 (493)
Q Consensus 239 G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~----~~v~~l~~~~~pllvl 306 (493)
|++......++...+..++ .++||+|||..|..=... -..+.+.|. .+++.++..+.+++++
T Consensus 46 g~~G~~~~~~~~~~~~~~~-~~~~d~vii~~G~ND~~~-----~~~~~~~~~~~~~~~i~~i~~~~~~vil~ 111 (185)
T cd01832 46 AVRGRRTAQILAEQLPAAL-ALRPDLVTLLAGGNDILR-----PGTDPDTYRADLEEAVRRLRAAGARVVVF 111 (185)
T ss_pred cCCcchHHHHHHHHHHHHH-hcCCCEEEEecccccccc-----CCCCHHHHHHHHHHHHHHHHhCCCEEEEe
Confidence 3333334434444444443 479999999999742211 134555554 4455555446666554
No 21
>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=61.57 E-value=12 Score=40.23 Aligned_cols=62 Identities=19% Similarity=0.344 Sum_probs=45.7
Q ss_pred HHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCc
Q 011109 245 YHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIR 314 (493)
Q Consensus 245 yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~ 314 (493)
|...|++. .|-+..|+=..+||=+|-.++..+. + ..+..-+..++..+.++++|.|||+.+.
T Consensus 1 ~~~~~~~~-~~~i~~~~~~~~ViK~GG~~~~~~~-----~--~~~~~~i~~l~~~g~~~vlVHGgg~~i~ 62 (429)
T TIGR01890 1 FVAWFREA-APYINAHRGKTFVVGLGGELVEGGN-----L--GNIVADIALLHSLGVRLVLVHGARPQIE 62 (429)
T ss_pred ChhHHhhh-hHHHHHhCCCEEEEEEChhhccCcc-----H--HHHHHHHHHHHHCCCcEEEEcCCCHHHH
Confidence 45667665 4778999999999999977775431 1 2455566677778889999999997654
No 22
>PRK05279 N-acetylglutamate synthase; Validated
Probab=60.85 E-value=22 Score=38.34 Aligned_cols=65 Identities=15% Similarity=0.308 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchh
Q 011109 244 SYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNV 316 (493)
Q Consensus 244 ~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~v 316 (493)
.|...|+..+ |-+.+|+=..+||-+|-.++..+ + .+....-+..+...+.++|+|.|||..+...
T Consensus 8 ~~~~~~~~~~-~~i~~~~~~~~VIk~GG~~l~~~-----~--~~~~~~~i~~l~~~g~~~VlVHGgg~~i~~~ 72 (441)
T PRK05279 8 EFVDWFRHSA-PYINAHRGKTFVIMLGGEAIAHG-----N--FSNIVHDIALLHSLGIRLVLVHGARPQIEEQ 72 (441)
T ss_pred HHHHHHHHHh-HHHHHhCCCEEEEEECchhccCh-----h--HHHHHHHHHHHHHCCCeEEEECCCCHHHHHH
Confidence 5788888765 66788888899999998888543 1 2344555566677788999999999887543
No 23
>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=59.15 E-value=18 Score=31.00 Aligned_cols=47 Identities=13% Similarity=0.202 Sum_probs=29.9
Q ss_pred HhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCC
Q 011109 254 GKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGY 311 (493)
Q Consensus 254 ~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY 311 (493)
...+.+++||+|.+++- +.-+.....++++.+|+.+-.+.++.||.+
T Consensus 44 ~~~~~~~~pd~V~iS~~-----------~~~~~~~~~~l~~~~k~~~p~~~iv~GG~~ 90 (121)
T PF02310_consen 44 VEALRAERPDVVGISVS-----------MTPNLPEAKRLARAIKERNPNIPIVVGGPH 90 (121)
T ss_dssp HHHHHHTTCSEEEEEES-----------SSTHHHHHHHHHHHHHTTCTTSEEEEEESS
T ss_pred HHHHhcCCCcEEEEEcc-----------CcCcHHHHHHHHHHHHhcCCCCEEEEECCc
Confidence 34677889999999864 223344556677777776544444555544
No 24
>COG3914 Spy Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]
Probab=58.80 E-value=2.2e+02 Score=32.59 Aligned_cols=167 Identities=19% Similarity=0.252 Sum_probs=95.1
Q ss_pred CCCcceeec--HHHHHHHHHHhcCCcEEEEEccccCChhhhhhhhcCCCEEEeecCCCCCCCCCCCCCCcccCCCCCccE
Q 011109 154 EASGFCYVN--DIVLAILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFGDYFPGTGDIRDIGYSKGKFYS 231 (493)
Q Consensus 154 ~AsGFCy~N--dvaIAi~~llk~~~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~g~ffPgTG~~~eiG~g~G~g~~ 231 (493)
...++|-++ |-+=+|...+...=- .-||+|.|-=|++-.+|...|--.-||.-. ||+|+....+ .|-
T Consensus 312 ~~~~~~~~~~~dd~e~a~~I~~d~Id-ILvDl~g~T~d~r~~v~A~RpAPiqvswlG----y~aT~g~p~~------DY~ 380 (620)
T COG3914 312 AVEKWYPIGRMDDAEIANAIRTDGID-ILVDLDGHTVDTRCQVFAHRPAPIQVSWLG----YPATTGSPNM------DYF 380 (620)
T ss_pred hhhheeccCCcCHHHHHHHHHhcCCe-EEEeccCceeccchhhhhcCCCceEEeecc----cccccCCCcc------eEE
Confidence 456778787 222223333222223 458999999999999999988777777555 4666542221 122
Q ss_pred eecC--CCCCCChHHHHHHHHHHHHhHhhhc--------------------CCCEEEEecCCCCCCCCCCCccccCHHHH
Q 011109 232 LNVP--LDDGIDDESYHYLFKPIIGKVMEVF--------------------RPGAVVLQCGADSLSGDRLGCFNLSIKGH 289 (493)
Q Consensus 232 vNVP--L~~G~~D~~yl~~f~~iv~pv~~~f--------------------~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~ 289 (493)
|-=| +|++. ...|.. .|.++-.-| .++++|..||- +.+..+++=+
T Consensus 381 I~D~y~vPp~a-e~yysE----kl~RLp~cy~p~d~~~~v~p~~sR~~lglp~~avVf~c~~--------n~~K~~pev~ 447 (620)
T COG3914 381 ISDPYTVPPTA-EEYYSE----KLWRLPQCYQPVDGFEPVTPPPSRAQLGLPEDAVVFCCFN--------NYFKITPEVF 447 (620)
T ss_pred eeCceecCchH-HHHHHH----HHHhcccccCCCCCcccCCCCcchhhcCCCCCeEEEEecC--------CcccCCHHHH
Confidence 2212 12222 223332 222222122 34788888873 4567787777
Q ss_pred HHHHHHHHhcCCCEEEEeCCCCCCchhhHHHHHHHHHHcCCCC-----CCCCCCchhhcccC
Q 011109 290 AECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYETGVALGVEV-----DDKMPQHEYYEYFG 346 (493)
Q Consensus 290 ~~~v~~l~~~~~pllvlggGGY~~~~var~w~~~t~~llg~~~-----~~~iP~~~~~~~~~ 346 (493)
..-.+.|++...-++++.+||=+....++. -..+...|... -+..|...++++|+
T Consensus 448 ~~wmqIL~~vP~Svl~L~~~~~~~~~~~~l--~~la~~~Gv~~eRL~f~p~~~~~~h~a~~~ 507 (620)
T COG3914 448 ALWMQILSAVPNSVLLLKAGGDDAEINARL--RDLAEREGVDSERLRFLPPAPNEDHRARYG 507 (620)
T ss_pred HHHHHHHHhCCCcEEEEecCCCcHHHHHHH--HHHHHHcCCChhheeecCCCCCHHHHHhhc
Confidence 777788888888899999999665544443 12223344321 12334446666665
No 25
>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=58.72 E-value=42 Score=32.09 Aligned_cols=24 Identities=0% Similarity=0.213 Sum_probs=18.9
Q ss_pred HHHHHHHHhHhhhcCCCEEEEecC
Q 011109 247 YLFKPIIGKVMEVFRPGAVVLQCG 270 (493)
Q Consensus 247 ~~f~~iv~pv~~~f~PdlIVvqaG 270 (493)
..++.++..+.++|++|+|||=|+
T Consensus 134 ~~l~~~l~~l~~~y~~D~IiiD~p 157 (207)
T TIGR03018 134 QRMRSLLHELARRYPDRIIIIDTP 157 (207)
T ss_pred HHHHHHHHHHHhhCCCCEEEEECC
Confidence 346677777778888899999887
No 26
>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=58.46 E-value=29 Score=32.03 Aligned_cols=67 Identities=15% Similarity=0.114 Sum_probs=37.3
Q ss_pred eecCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHh--cCCCEEEE
Q 011109 232 LNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRS--FNVPLLLL 306 (493)
Q Consensus 232 vNVPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~--~~~pllvl 306 (493)
.|+... |..-.+++..++. +..++||+|+|..|..=+... ....-..+.+.++++.+++ -+.+++++
T Consensus 44 ~n~g~~-G~t~~~~~~~l~~-----~~~~~pd~Vii~~G~ND~~~~--~~~~~~~~~l~~li~~i~~~~~~~~iiv~ 112 (191)
T cd01836 44 RLFAKT-GATSADLLRQLAP-----LPETRFDVAVISIGVNDVTHL--TSIARWRKQLAELVDALRAKFPGARVVVT 112 (191)
T ss_pred EEEecC-CcCHHHHHHHHHh-----cccCCCCEEEEEecccCcCCC--CCHHHHHHHHHHHHHHHHhhCCCCEEEEE
Confidence 444332 3334455554444 456899999999998433211 1112223445567777776 35666655
No 27
>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=57.86 E-value=19 Score=34.45 Aligned_cols=49 Identities=24% Similarity=0.316 Sum_probs=28.2
Q ss_pred HhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc--CCCEEEE
Q 011109 256 VMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF--NVPLLLL 306 (493)
Q Consensus 256 v~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~--~~pllvl 306 (493)
.+..++|++|||.+|..=..... ...-..+.+.++++.+++. +.+++++
T Consensus 84 ~l~~~~pd~VvI~~G~ND~~~~~--~~~~~~~~l~~ii~~l~~~~P~~~Iil~ 134 (214)
T cd01820 84 ELDGVNPKVVVLLIGTNNIGHTT--TAEEIAEGILAIVEEIREKLPNAKILLL 134 (214)
T ss_pred CccCCCCCEEEEEecccccCCCC--CHHHHHHHHHHHHHHHHHHCCCCeEEEE
Confidence 35568999999999986543210 1111223445566666654 4455554
No 28
>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=57.09 E-value=44 Score=30.63 Aligned_cols=47 Identities=13% Similarity=0.273 Sum_probs=28.1
Q ss_pred hhhcCCCEEEEecCCCCCCCC-CCCccccCHHHHHHHHHHHHhcCCCEEEE
Q 011109 257 MEVFRPGAVVLQCGADSLSGD-RLGCFNLSIKGHAECVKFMRSFNVPLLLL 306 (493)
Q Consensus 257 ~~~f~PdlIVvqaG~Dsl~gD-pLG~~nLT~~g~~~~v~~l~~~~~pllvl 306 (493)
+...+||+||+++|..=.... ++.. -.+.+..+++.+++.+.+++++
T Consensus 55 ~~~~~~d~v~i~~G~ND~~~~~~~~~---~~~~~~~li~~~~~~~~~~il~ 102 (183)
T cd04501 55 VIALKPAVVIIMGGTNDIIVNTSLEM---IKDNIRSMVELAEANGIKVILA 102 (183)
T ss_pred HHhcCCCEEEEEeccCccccCCCHHH---HHHHHHHHHHHHHHCCCcEEEE
Confidence 345799999999997643321 1111 1234445666677767666655
No 29
>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=56.65 E-value=36 Score=30.91 Aligned_cols=69 Identities=19% Similarity=0.166 Sum_probs=38.1
Q ss_pred EeecCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc--CCCEEEE
Q 011109 231 SLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF--NVPLLLL 306 (493)
Q Consensus 231 ~vNVPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~--~~pllvl 306 (493)
.+|......+. ..++..+ .+.+..++||+|||..|..=..... ...-..+.+.++++.+++. +.+++++
T Consensus 26 v~n~g~~G~t~-~~~~~~~----~~~~~~~~pd~v~i~~G~ND~~~~~--~~~~~~~~~~~l~~~~~~~~p~~~vi~~ 96 (174)
T cd01841 26 VNNLGIAGISS-RQYLEHI----EPQLIQKNPSKVFLFLGTNDIGKEV--SSNQFIKWYRDIIEQIREEFPNTKIYLL 96 (174)
T ss_pred EEecccccccH-HHHHHHH----HHHHHhcCCCEEEEEeccccCCCCC--CHHHHHHHHHHHHHHHHHHCCCCEEEEE
Confidence 56666654433 3333333 3344568999999999986443221 1122234455667666653 4455554
No 30
>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=55.81 E-value=27 Score=33.02 Aligned_cols=50 Identities=8% Similarity=0.152 Sum_probs=28.5
Q ss_pred HhhhcCCCEEEEecCCCCCCCCCCC--ccccCHH----HHHHHHHHHHhcCCCEEE
Q 011109 256 VMEVFRPGAVVLQCGADSLSGDRLG--CFNLSIK----GHAECVKFMRSFNVPLLL 305 (493)
Q Consensus 256 v~~~f~PdlIVvqaG~Dsl~gDpLG--~~nLT~~----g~~~~v~~l~~~~~pllv 305 (493)
++..-+|++|+|.+|..=+.....+ .-.++++ .+..+++.+++.+.++++
T Consensus 69 v~~~~~p~~vii~~G~ND~~~~~~~~~~~~~~~~~~~~~l~~ii~~~~~~~~~vil 124 (204)
T cd01830 69 VLSQPGVRTVIILEGVNDIGASGTDFAAAPVTAEELIAGYRQLIRRAHARGIKVIG 124 (204)
T ss_pred HhcCCCCCEEEEecccccccccccccccCCCCHHHHHHHHHHHHHHHHHCCCeEEE
Confidence 3344579999999998644321110 0122333 455666777766766654
No 31
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=54.56 E-value=48 Score=31.98 Aligned_cols=59 Identities=24% Similarity=0.385 Sum_probs=45.3
Q ss_pred cEeecCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEe
Q 011109 230 YSLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLG 307 (493)
Q Consensus 230 ~~vNVPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlg 307 (493)
|.||+ +.+..+.-+.+..+++. -|+|++ |-.|-|.|..+.|.+.++.+...+.|+++++
T Consensus 79 Y~V~v--------~~le~i~~~al~rA~~~--aDvIII---------DEIGpMElks~~f~~~ve~vl~~~kpliatl 137 (179)
T COG1618 79 YGVNV--------EGLEEIAIPALRRALEE--ADVIII---------DEIGPMELKSKKFREAVEEVLKSGKPLIATL 137 (179)
T ss_pred EEeeH--------HHHHHHhHHHHHHHhhc--CCEEEE---------ecccchhhccHHHHHHHHHHhcCCCcEEEEE
Confidence 67887 34444555556555543 578777 7899999999999999999988889988764
No 32
>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=53.67 E-value=39 Score=29.72 Aligned_cols=50 Identities=18% Similarity=0.304 Sum_probs=31.3
Q ss_pred HHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCC
Q 011109 251 PIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYT 312 (493)
Q Consensus 251 ~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~ 312 (493)
..+..+.+.++||+|.++| +..+.....++++.+|+.+..+.++.||.+-
T Consensus 29 ~~~~~~~~~~~pdiv~~S~------------~~~~~~~~~~~~~~ik~~~p~~~iv~GG~~~ 78 (127)
T cd02068 29 DIVEDIKELLKPDVVGISL------------MTSAIYEALELAKIAKEVLPNVIVVVGGPHA 78 (127)
T ss_pred HHHHHHHHhcCCCEEEEee------------ccccHHHHHHHHHHHHHHCCCCEEEECCcch
Confidence 3444444449999999984 1223334566788888876556666666554
No 33
>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=52.40 E-value=32 Score=35.50 Aligned_cols=58 Identities=24% Similarity=0.383 Sum_probs=38.1
Q ss_pred HHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccC----HHHHHHHHHHHHhc--CCCEEEEeCC
Q 011109 251 PIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLS----IKGHAECVKFMRSF--NVPLLLLGGG 309 (493)
Q Consensus 251 ~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT----~~g~~~~v~~l~~~--~~pllvlggG 309 (493)
..|.+++++++||++|+ .|-|++..++-.-.+|. .+-|-++|+.++.+ +.-=|++..|
T Consensus 143 ~~i~~Ll~~~~PDIlVi-TGHD~~~K~~~d~~dl~~YrnSkyFVeaVk~aR~y~~~~D~LVIFAG 206 (283)
T TIGR02855 143 EKVLDLIEEVRPDILVI-TGHDAYSKNKGNYMDLNAYRHSKYFVETVREARKYVPSLDQLVIFAG 206 (283)
T ss_pred HHHHHHHHHhCCCEEEE-eCchhhhcCCCChhhhhhhhhhHHHHHHHHHHHhcCCCcccEEEEcc
Confidence 45668899999998766 69999986653333442 23445677777776 3334555555
No 34
>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=51.70 E-value=45 Score=30.96 Aligned_cols=53 Identities=23% Similarity=0.313 Sum_probs=29.5
Q ss_pred HhHhhhcCCCEEEEecCCCCCCCCCCCc--ccc-C---HHHH----HHHHHHHHhcCCCEEEE
Q 011109 254 GKVMEVFRPGAVVLQCGADSLSGDRLGC--FNL-S---IKGH----AECVKFMRSFNVPLLLL 306 (493)
Q Consensus 254 ~pv~~~f~PdlIVvqaG~Dsl~gDpLG~--~nL-T---~~g~----~~~v~~l~~~~~pllvl 306 (493)
...+.+.+||+||+..|..=+.....+. ... + .+.| ..+++.++..+.+++++
T Consensus 52 ~~~l~~~~pd~vii~~G~ND~~~~~~~~~~~~~~~~~~~~~~~~~l~~lv~~~~~~~~~vili 114 (200)
T cd01829 52 KELIAEEKPDVVVVFLGANDRQDIRDGDGYLKFGSPEWEEEYRQRIDELLNVARAKGVPVIWV 114 (200)
T ss_pred HHHHhcCCCCEEEEEecCCCCccccCCCceeecCChhHHHHHHHHHHHHHHHHHhCCCcEEEE
Confidence 3445678999999999985443211110 000 0 1333 34555556557777765
No 35
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=51.42 E-value=51 Score=34.76 Aligned_cols=66 Identities=17% Similarity=0.290 Sum_probs=48.7
Q ss_pred hHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc---CCCEEEEeCCCCCCchhhH
Q 011109 242 DESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF---NVPLLLLGGGGYTIRNVAR 318 (493)
Q Consensus 242 D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~---~~pllvlggGGY~~~~var 318 (493)
-+++..+|..++. ++.+-++|+||++ ||=.=..+.+.+.-....+.++.+ ++|++++-| |....++
T Consensus 22 ~~d~~~~f~~~l~-~a~~~~vD~vliA-------GDlFd~~~Ps~~a~~~~~~~l~~l~~~~Ipv~~I~G---NHD~~~~ 90 (390)
T COG0420 22 LEDQKKAFDELLE-IAKEEKVDFVLIA-------GDLFDTNNPSPRALKLFLEALRRLKDAGIPVVVIAG---NHDSPSR 90 (390)
T ss_pred hHHHHHHHHHHHH-HHHHccCCEEEEc-------cccccCCCCCHHHHHHHHHHHHHhccCCCcEEEecC---CCCchhc
Confidence 4678888888775 5677899999986 777777788888777777777665 689988754 5544444
No 36
>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=50.90 E-value=13 Score=32.72 Aligned_cols=72 Identities=14% Similarity=0.260 Sum_probs=35.5
Q ss_pred EeecCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHH----HHHHHHHhcCCCEEEE
Q 011109 231 SLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHA----ECVKFMRSFNVPLLLL 306 (493)
Q Consensus 231 ~vNVPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~----~~v~~l~~~~~pllvl 306 (493)
..|.-.+ |.+-..++..+..-+.+ +...+||+|||++|..=.... .....+...+. ++++.++..+ +++++
T Consensus 33 ~~n~~~~-G~~~~~~~~~~~~~~~~-~~~~~~d~vvi~~G~ND~~~~--~~~~~~~~~~~~~l~~~i~~~~~~~-~vi~~ 107 (179)
T PF13472_consen 33 VYNLGVS-GATSSDFLARLQRDVLR-FKDPKPDLVVISFGTNDVLNG--DENDTSPEQYEQNLRRIIEQLRPHG-PVILV 107 (179)
T ss_dssp EEEEE-T-T-BHHHHHHHHHHHCHH-HCGTTCSEEEEE--HHHHCTC--TTCHHHHHHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred EEEEeec-CccHhHHHHHHHHHHhh-hccCCCCEEEEEccccccccc--ccccccHHHHHHHHHHHHHhhcccC-cEEEe
Confidence 3444443 33333455555554444 588999999999996333221 12233334333 3444444444 66666
Q ss_pred e
Q 011109 307 G 307 (493)
Q Consensus 307 g 307 (493)
.
T Consensus 108 ~ 108 (179)
T PF13472_consen 108 S 108 (179)
T ss_dssp E
T ss_pred c
Confidence 4
No 37
>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=50.66 E-value=80 Score=27.04 Aligned_cols=67 Identities=13% Similarity=0.243 Sum_probs=34.5
Q ss_pred EeecCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC--CEEEEeC
Q 011109 231 SLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNV--PLLLLGG 308 (493)
Q Consensus 231 ~vNVPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~--pllvlgg 308 (493)
++|||+.. +..-+..++.. +...+...||+.|+..... +.....++.+.+++.+. .-+.++.
T Consensus 42 Ai~ip~~~------~~~~~~~~~~~-~~~~~~~~iv~~C~~~g~r---------s~~a~~~l~~~l~~~G~~~~~v~~l~ 105 (113)
T cd01443 42 SINLPAQS------CYQTLPQVYAL-FSLAGVKLAIFYCGSSQGR---------GPRAARWFADYLRKVGESLPKSYILT 105 (113)
T ss_pred ceecchhH------HHHHHHHHHHH-hhhcCCCEEEEECCCCCcc---------cHHHHHHHHHHHhccCCCCCeEEEEC
Confidence 68999853 22222233322 2234567888888743221 22222334444544453 4467779
Q ss_pred CCCCC
Q 011109 309 GGYTI 313 (493)
Q Consensus 309 GGY~~ 313 (493)
|||+-
T Consensus 106 GG~~~ 110 (113)
T cd01443 106 GGIKA 110 (113)
T ss_pred Chhhh
Confidence 99863
No 38
>PRK04531 acetylglutamate kinase; Provisional
Probab=48.75 E-value=26 Score=37.78 Aligned_cols=54 Identities=17% Similarity=0.399 Sum_probs=41.7
Q ss_pred HhHhhhcCC----CEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCch
Q 011109 254 GKVMEVFRP----GAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRN 315 (493)
Q Consensus 254 ~pv~~~f~P----dlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~ 315 (493)
.+-++.|+- ..+||-.|-..+. ++ ...+...+.++.+.+.++++|.|||..++.
T Consensus 24 ~~~l~~F~~~~~~~~~VIKiGG~~l~-~~-------~~~l~~dla~L~~~G~~~VlVHGggpqI~~ 81 (398)
T PRK04531 24 SQYLKRFSQLDAERFAVIKVGGAVLR-DD-------LEALASSLSFLQEVGLTPIVVHGAGPQLDA 81 (398)
T ss_pred HHHHHHHhCcCCCcEEEEEEChHHhh-cC-------HHHHHHHHHHHHHCCCcEEEEECCCHHHHH
Confidence 344555664 8899999988776 32 367788888999999999999999988753
No 39
>PLN02825 amino-acid N-acetyltransferase
Probab=47.91 E-value=36 Score=38.04 Aligned_cols=64 Identities=11% Similarity=0.279 Sum_probs=49.2
Q ss_pred HHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchh
Q 011109 245 YHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNV 316 (493)
Q Consensus 245 yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~v 316 (493)
|...|++.. |-+..|+=..+||-.|-.++..+ . ......-+.+|.+.++++|+|.|||..+...
T Consensus 1 ~v~~fr~a~-pYI~~~rgktfVIk~gG~~l~~~---~----~~~l~~DialL~~lGi~~VlVHGggpqI~~~ 64 (515)
T PLN02825 1 FVRWFREAW-PYIQGHRGSTFVVVISGEVVAGP---H----LDNILQDISLLHGLGIKFVLVPGTHVQIDKL 64 (515)
T ss_pred ChhHHHhhh-HHHHHHCCCEEEEEECchhhcCc---h----HHHHHHHHHHHHHCCCCEEEEcCCCHHHHHH
Confidence 456677754 78899999999999998888633 1 2445556677888999999999999987544
No 40
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=47.69 E-value=67 Score=31.87 Aligned_cols=52 Identities=15% Similarity=0.231 Sum_probs=35.5
Q ss_pred HHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeC
Q 011109 248 LFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGG 308 (493)
Q Consensus 248 ~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlgg 308 (493)
+++.++. .+++-+||+||+. ||= ..+....+.+..+++.+..++.|++++-|
T Consensus 19 ~le~l~~-~~~~~~~D~vv~~-------GDl-~~~g~~~~~~~~~l~~l~~l~~pv~~V~G 70 (224)
T cd07388 19 ALEKLVG-LAPETGADAIVLI-------GNL-LPKAAKSEDYAAFFRILGEAHLPTFYVPG 70 (224)
T ss_pred HHHHHHH-HHhhcCCCEEEEC-------CCC-CCCCCCHHHHHHHHHHHHhcCCceEEEcC
Confidence 4444443 4556789998875 663 33444567788888888888899987765
No 41
>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=46.81 E-value=48 Score=30.30 Aligned_cols=52 Identities=15% Similarity=0.192 Sum_probs=29.4
Q ss_pred HhHhhhc---CCCEEEEecCCCCCCCCCCCccccCHHHHH----HHHHHHHh--cCCCEEEE
Q 011109 254 GKVMEVF---RPGAVVLQCGADSLSGDRLGCFNLSIKGHA----ECVKFMRS--FNVPLLLL 306 (493)
Q Consensus 254 ~pv~~~f---~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~----~~v~~l~~--~~~pllvl 306 (493)
...+..+ +||+|||+.|..=..... +.-..+.+-|. .+++.+++ -+.+++++
T Consensus 53 ~~~~~~~~~~~pd~vii~~G~ND~~~~~-~~~~~~~~~~~~~~~~~i~~~~~~~~~~~ii~~ 113 (199)
T cd01838 53 PKIFLEEKLAQPDLVTIFFGANDAALPG-QPQHVPLDEYKENLRKIVSHLKSLSPKTKVILI 113 (199)
T ss_pred HHhcCccccCCceEEEEEecCccccCCC-CCCcccHHHHHHHHHHHHHHHHhhCCCCeEEEe
Confidence 3344445 899999999976443321 00124444444 45566665 35666665
No 42
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=46.03 E-value=80 Score=33.62 Aligned_cols=29 Identities=28% Similarity=0.463 Sum_probs=18.1
Q ss_pred cHHHHHHHHHHhcC--CcEEEEEccccCChhhhh
Q 011109 162 NDIVLAILELLKQH--ERVLYVDIDIHHGDGVEE 193 (493)
Q Consensus 162 NdvaIAi~~llk~~--~RVl~VDiDvHHGDGtqe 193 (493)
.||.-+...+.+.+ .||+ +|.=||||-.+
T Consensus 239 ~di~~~~~~l~~~~lp~~vm---VD~SH~ns~k~ 269 (344)
T TIGR00034 239 ADVAAAKKQLEKAGLPPHLM---IDFSHGNSNKD 269 (344)
T ss_pred HHHHHHHHHHHHcCCCCeEE---EeCCCcccccc
Confidence 57766665555443 4555 47789998743
No 43
>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=45.80 E-value=42 Score=30.85 Aligned_cols=48 Identities=17% Similarity=0.397 Sum_probs=29.9
Q ss_pred HhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc--CCCEEEE
Q 011109 254 GKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF--NVPLLLL 306 (493)
Q Consensus 254 ~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~--~~pllvl 306 (493)
..++..++|++||+.+|..=...+. -..+.+..+++.+++. +.|++++
T Consensus 50 ~~~~~~~~pd~vii~~G~ND~~~~~-----~~~~~~~~~i~~i~~~~p~~~iil~ 99 (177)
T cd01844 50 AELLRDVPADLYIIDCGPNIVGAEA-----MVRERLGPLVKGLRETHPDTPILLV 99 (177)
T ss_pred HHHHHhcCCCEEEEEeccCCCccHH-----HHHHHHHHHHHHHHHHCcCCCEEEE
Confidence 3455668999999999987432211 1234555677777664 3566654
No 44
>TIGR01361 DAHP_synth_Bsub phospho-2-dehydro-3-deoxyheptonate aldolase. The member of this family from Synechocystis PCC 6803, CcmA, was shown to be essential for carboxysome formation. However, no other candidate for this enzyme is present in that species, chorismate biosynthesis does occur, other species having this protein lack carboxysomes but appear to make chorismate, and a requirement of CcmA for carboxysome formation does not prohibit a role in chorismate biosynthesis.
Probab=44.85 E-value=1.4e+02 Score=30.21 Aligned_cols=88 Identities=11% Similarity=0.217 Sum_probs=49.5
Q ss_pred EeecCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHh-cCCCEEE--Ee
Q 011109 231 SLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRS-FNVPLLL--LG 307 (493)
Q Consensus 231 ~vNVPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~-~~~pllv--lg 307 (493)
-|+|--....+-+++..+.+ .+.+.-.++++++.||+-++..-+.-..|| ..+..|++ ++.||++ -.
T Consensus 134 PVilk~G~~~t~~e~~~Ave----~i~~~Gn~~i~l~~rG~s~y~~~~~~~~dl------~~i~~lk~~~~~pV~~ds~H 203 (260)
T TIGR01361 134 PVLLKRGMGNTIEEWLYAAE----YILSSGNGNVILCERGIRTFEKATRNTLDL------SAVPVLKKETHLPIIVDPSH 203 (260)
T ss_pred cEEEeCCCCCCHHHHHHHHH----HHHHcCCCcEEEEECCCCCCCCCCcCCcCH------HHHHHHHHhhCCCEEEcCCC
Confidence 44443332334556665554 444556789999999986663222223444 24555655 6899887 45
Q ss_pred CCCCCCchhhHHHHHHHHHHcCCC
Q 011109 308 GGGYTIRNVARCWCYETGVALGVE 331 (493)
Q Consensus 308 gGGY~~~~var~w~~~t~~llg~~ 331 (493)
.+|+..-..+-+ .+++++|..
T Consensus 204 s~G~r~~~~~~~---~aAva~Ga~ 224 (260)
T TIGR01361 204 AAGRRDLVIPLA---KAAIAAGAD 224 (260)
T ss_pred CCCccchHHHHH---HHHHHcCCC
Confidence 667554333333 346677754
No 45
>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=44.83 E-value=67 Score=28.59 Aligned_cols=43 Identities=16% Similarity=0.159 Sum_probs=25.2
Q ss_pred hHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc
Q 011109 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF 299 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~ 299 (493)
..+..++|++||++.|..=+..- -...-..+.+.++++.+++.
T Consensus 34 ~~~~~~~pd~vvi~~G~ND~~~~--~~~~~~~~~~~~~i~~i~~~ 76 (157)
T cd01833 34 DWVLAAKPDVVLLHLGTNDLVLN--RDPDTAPDRLRALIDQMRAA 76 (157)
T ss_pred hccccCCCCEEEEeccCcccccC--CCHHHHHHHHHHHHHHHHHh
Confidence 34556899999999997543221 01111233445566667665
No 46
>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=44.26 E-value=51 Score=34.19 Aligned_cols=58 Identities=28% Similarity=0.402 Sum_probs=37.2
Q ss_pred HHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccC----HHHHHHHHHHHHhc--CCCEEEEeCC
Q 011109 251 PIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLS----IKGHAECVKFMRSF--NVPLLLLGGG 309 (493)
Q Consensus 251 ~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT----~~g~~~~v~~l~~~--~~pllvlggG 309 (493)
..|..++++++||++|+ .|-|++..+.-.-.+|. .+-|-++|+.++.+ +.--|++..|
T Consensus 144 ~~i~~Ll~~~~PDIlVi-TGHD~~~K~~~d~~dl~~YrnSkyFVeaV~~aR~~ep~~D~LVIfAG 207 (287)
T PF05582_consen 144 EKIYRLLEEYRPDILVI-TGHDGYLKNKKDYSDLNNYRNSKYFVEAVKEARKYEPNLDDLVIFAG 207 (287)
T ss_pred HHHHHHHHHcCCCEEEE-eCchhhhcCCCChhhhhhhhccHHHHHHHHHHHhcCCCcccEEEEcc
Confidence 45667889999998766 69999987753333332 23344677777766 3334555555
No 47
>CHL00202 argB acetylglutamate kinase; Provisional
Probab=43.29 E-value=68 Score=32.77 Aligned_cols=66 Identities=15% Similarity=0.278 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchh
Q 011109 244 SYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNV 316 (493)
Q Consensus 244 ~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~v 316 (493)
.....|++.. |-+.+|+=..+||-+|-+++..+.+ .+.+.+=+.++.+.+.++++|.|||.-....
T Consensus 6 ~~~~~~~~~~-pyi~~~~~~~~VIk~gG~~~~~~~l------~~~~~~di~~l~~~g~~~VlVHGgg~~i~~~ 71 (284)
T CHL00202 6 ERVQVLSEAL-PYIQKFRGRIMVIKYGGAAMKNLIL------KADIIKDILFLSCIGLKIVVVHGGGPEINFW 71 (284)
T ss_pred HHHHHHHHHH-HHHHHHcCCeEEEEEChHHhcCcch------HHHHHHHHHHHHHCCCcEEEEeCCcHHHHHH
Confidence 5567787764 7789999999999999877654321 1223444556677899999999999865433
No 48
>TIGR00583 mre11 DNA repair protein (mre11). All proteins in this family for which functions are known are subunits of a nuclease complex made up of multiple proteins including MRE11 and RAD50 homologs. The functions of this nuclease complex include recombinational repair and non-homolgous end joining. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). The proteins in this family are distantly related to proteins in the SbcCD complex of bacteria.
Probab=42.03 E-value=92 Score=33.75 Aligned_cols=48 Identities=15% Similarity=0.175 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHh
Q 011109 243 ESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRS 298 (493)
Q Consensus 243 ~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~ 298 (493)
.+...+|++++. ++.+.+||+||++ ||=.-.-.-|.+....+.+.|++
T Consensus 25 ~D~~~~f~eil~-~a~~~~vD~VLia-------GDLFd~~~Ps~~~~~~~~~~lr~ 72 (405)
T TIGR00583 25 DDSWNTFEEVLQ-IAKEQDVDMILLG-------GDLFHENKPSRKSLYQVLRSLRL 72 (405)
T ss_pred hhHHHHHHHHHH-HHHHcCCCEEEEC-------CccCCCCCCCHHHHHHHHHHHHH
Confidence 567788988876 4578899999986 66555555677777777777764
No 49
>PRK12755 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=41.63 E-value=1.1e+02 Score=32.75 Aligned_cols=30 Identities=20% Similarity=0.327 Sum_probs=21.3
Q ss_pred ecHHHHHHHHHHhcC--CcEEEEEccccCChhhhh
Q 011109 161 VNDIVLAILELLKQH--ERVLYVDIDIHHGDGVEE 193 (493)
Q Consensus 161 ~NdvaIAi~~llk~~--~RVl~VDiDvHHGDGtqe 193 (493)
-+++..++..+.+.. .+|+ +|.=|||+-.+
T Consensus 245 ~~~i~~a~~~l~k~~l~~~vm---VD~SH~Ns~K~ 276 (353)
T PRK12755 245 AASVAACEAQLEKAGLRPRLM---IDCSHANSGKD 276 (353)
T ss_pred HHHHHHHHHHHHHcCCCCcEE---ecCCccccccc
Confidence 467788777776653 5665 58899998663
No 50
>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=40.32 E-value=96 Score=26.62 Aligned_cols=55 Identities=13% Similarity=0.154 Sum_probs=32.2
Q ss_pred HhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHh--cCCCEEEEeC
Q 011109 254 GKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRS--FNVPLLLLGG 308 (493)
Q Consensus 254 ~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~--~~~pllvlgg 308 (493)
...+..++|++||++.|..=....+..........+.++++.+++ .+.+++++.-
T Consensus 58 ~~~~~~~~~d~vil~~G~ND~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~vv~~~~ 114 (187)
T cd00229 58 RLALLKDKPDLVIIELGTNDLGRGGDTSIDEFKANLEELLDALRERAPGAKVILITP 114 (187)
T ss_pred hhhhccCCCCEEEEEecccccccccccCHHHHHHHHHHHHHHHHHHCCCCcEEEEeC
Confidence 345678999999999996533322101223334455566776664 3556666643
No 51
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=40.18 E-value=91 Score=29.34 Aligned_cols=65 Identities=12% Similarity=0.200 Sum_probs=36.4
Q ss_pred EeecCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHH----HHHHHHHHHHhcCCCEEEE
Q 011109 231 SLNVPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIK----GHAECVKFMRSFNVPLLLL 306 (493)
Q Consensus 231 ~vNVPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~----g~~~~v~~l~~~~~pllvl 306 (493)
.+|.-+...+.. ..+..|. ..+..++||+||++.|..=. .. .++.+ .+..+++.++..+..++++
T Consensus 46 v~N~Gi~G~tt~-~~~~rl~----~~l~~~~pd~Vii~~GtND~----~~--~~~~~~~~~~l~~li~~~~~~~~~~ill 114 (191)
T PRK10528 46 VVNASISGDTSQ-QGLARLP----ALLKQHQPRWVLVELGGNDG----LR--GFPPQQTEQTLRQIIQDVKAANAQPLLM 114 (191)
T ss_pred EEecCcCcccHH-HHHHHHH----HHHHhcCCCEEEEEeccCcC----cc--CCCHHHHHHHHHHHHHHHHHcCCCEEEE
Confidence 455555433322 2333343 34456799999999997543 22 24553 4445666666666555444
No 52
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=38.52 E-value=1.1e+02 Score=30.64 Aligned_cols=54 Identities=13% Similarity=0.177 Sum_probs=36.5
Q ss_pred HHHHHHHHHhHhhh-cCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeC
Q 011109 246 HYLFKPIIGKVMEV-FRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGG 308 (493)
Q Consensus 246 l~~f~~iv~pv~~~-f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlgg 308 (493)
...|+.+|..+... -+||+||+. ||=.- .-+.+.|..+.+.++.++.|+.++.|
T Consensus 39 ~~~l~~~i~~i~~~~~~~D~vvit-------GDl~~--~~~~~~~~~~~~~l~~l~~Pv~~v~G 93 (275)
T PRK11148 39 WESYQAVLEAIRAQQHEFDLIVAT-------GDLAQ--DHSSEAYQHFAEGIAPLRKPCVWLPG 93 (275)
T ss_pred HHHHHHHHHHHHhhCCCCCEEEEC-------CCCCC--CCCHHHHHHHHHHHhhcCCcEEEeCC
Confidence 44566666655443 579998875 45221 12467788888889999999887765
No 53
>cd02651 nuc_hydro_IU_UC_XIUA nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains proteins similar to nucleoside hydrolases which hydrolyze both pyrimidine and purine ribonucleosides: the inosine-uridine preferring nucleoside hydrolase from Crithidia fasciculata, the inosine-uridine-xanthosine preferring nucleoside hydrolase RihC from Escherichia coli and the xanthosine-inosine-uridine-adenosine-preferring nucleoside hydrolase RihC from Salmonella enterica serovar Typhimurium. This group also contains proteins similar to the pyrimidine-specific uridine-cytidine preferring nucleoside hydrolases URH1 from Saccharomyces cerevisiae, E. coli RihA and E. coli RihB. E. coli RihA is equally efficient with uridine a
Probab=38.25 E-value=58 Score=33.34 Aligned_cols=52 Identities=17% Similarity=0.211 Sum_probs=33.2
Q ss_pred HHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchh
Q 011109 253 IGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNV 316 (493)
Q Consensus 253 v~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~v 316 (493)
|...++++..++.||+.| ||..+-+-..-+.++.+. ++=|+++||++...|+
T Consensus 105 i~~~~~~~~~evtiva~G-------PLTNlA~al~~~P~~~~~-----ik~iviMGG~~~~GN~ 156 (302)
T cd02651 105 IIDTLRASPEPITLVATG-------PLTNIALLLRKYPELAER-----IKEIVLMGGALGRGNI 156 (302)
T ss_pred HHHHHHhCCCCEEEEEcC-------chHHHHHHHHHChhhHhh-----cCEEEEecCCcCCCCC
Confidence 445667788899999999 887665544333343333 3447777887754444
No 54
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=38.10 E-value=79 Score=27.35 Aligned_cols=47 Identities=15% Similarity=0.113 Sum_probs=28.2
Q ss_pred hHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC--CEEEEeCCCCC
Q 011109 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNV--PLLLLGGGGYT 312 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~--pllvlggGGY~ 312 (493)
..+.+.+||+|++++-... +.....++++.+++.+. ..+++||...+
T Consensus 44 ~~~~~~~pdvV~iS~~~~~-----------~~~~~~~~i~~l~~~~~~~~~i~vGG~~~~ 92 (119)
T cd02067 44 EAAKEEDADAIGLSGLLTT-----------HMTLMKEVIEELKEAGLDDIPVLVGGAIVT 92 (119)
T ss_pred HHHHHcCCCEEEEeccccc-----------cHHHHHHHHHHHHHcCCCCCeEEEECCCCC
Confidence 4567889999999864221 22334567777877643 34455444433
No 55
>PLN02512 acetylglutamate kinase
Probab=37.48 E-value=88 Score=32.40 Aligned_cols=63 Identities=21% Similarity=0.316 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCC
Q 011109 244 SYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTI 313 (493)
Q Consensus 244 ~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~ 313 (493)
.|..+|+++ .|-+..|+=..|||=.|-.++.... + .+.+.+-+..++..+.++++|.|||...
T Consensus 30 ~~~~~~r~~-~pyi~~~~~~tiVIKlGGs~i~d~~-----~-~~~~~~di~~l~~~g~~iVlVHGgG~~i 92 (309)
T PLN02512 30 SRVDILSEA-LPFIQRFRGKTVVVKYGGAAMKDPE-----L-KAGVIRDLVLLSCVGLRPVLVHGGGPEI 92 (309)
T ss_pred HHHHHHHHH-hHHHHHHCCCeEEEEECCeeccChh-----H-HHHHHHHHHHHHHCCCCEEEEECCcHHH
Confidence 788889886 4788999999999999977764322 1 1222333345677888999999999854
No 56
>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=37.40 E-value=58 Score=36.13 Aligned_cols=58 Identities=16% Similarity=0.222 Sum_probs=40.4
Q ss_pred HHHHHHHhHhhhcCCCEEEEecCC-CCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCch
Q 011109 248 LFKPIIGKVMEVFRPGAVVLQCGA-DSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRN 315 (493)
Q Consensus 248 ~f~~iv~pv~~~f~PdlIVvqaG~-Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~ 315 (493)
-+++.|..+.++|+|++|+|...+ -.+.||.++. +++.+..-+.|++.+--.||.-..
T Consensus 72 ~L~~aI~~~~~~~~P~~I~V~sTC~selIGdDi~~----------~~~~~~~~~~pvi~v~t~gf~g~~ 130 (511)
T TIGR01278 72 RLVDTVRRVDDRFKPDLIVVTPSCTSSLLQEDLGN----------LAAAAGLDKSKVIVADVNAYRRKE 130 (511)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCChHHHhccCHHH----------HHHHhccCCCcEEEecCCCcccch
Confidence 445666778889999998888776 7777775443 333332226899999888887643
No 57
>cd07402 MPP_GpdQ Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain. GpdQ (glycerophosphodiesterase Q, also known as Rv0805 in Mycobacterium tuberculosis) is a binuclear metallophosphoesterase from Enterobacter aerogenes that catalyzes the hydrolysis of mono-, di-, and triester substrates, including some organophosphate pesticides and products of the degradation of nerve agents. The GpdQ homolog, Rv0805, has 2',3'-cyclic nucleotide phosphodiesterase activity. GpdQ and Rv0805 belong to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosa
Probab=36.96 E-value=1.2e+02 Score=29.12 Aligned_cols=57 Identities=18% Similarity=0.285 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhHhhh-cCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeC
Q 011109 243 ESYHYLFKPIIGKVMEV-FRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGG 308 (493)
Q Consensus 243 ~~yl~~f~~iv~pv~~~-f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlgg 308 (493)
......|+.++..+.+. -+||+||+. ||=... -+.+.|..+.+.+..+++|++++.|
T Consensus 21 ~~~~~~l~~~~~~i~~~~~~~d~vi~~-------GDl~~~--~~~~~~~~~~~~l~~~~~p~~~v~G 78 (240)
T cd07402 21 VDTAASLEAVLAHINALHPRPDLVLVT-------GDLTDD--GSPESYERLRELLAALPIPVYLLPG 78 (240)
T ss_pred cCHHHHHHHHHHHHHhcCCCCCEEEEC-------ccCCCC--CCHHHHHHHHHHHhhcCCCEEEeCC
Confidence 34566677777654433 389988765 453222 2345677777888888999887755
No 58
>PRK14476 nitrogenase molybdenum-cofactor biosynthesis protein NifN; Provisional
Probab=35.93 E-value=1.2e+02 Score=33.27 Aligned_cols=69 Identities=14% Similarity=0.282 Sum_probs=43.7
Q ss_pred HHHHHHhHhhhcCCCEEEEecCC-CCCCCCCCCccccCHHHHHHHHHHHHh-c----CCCEEEEeCCCCCCchhhHHHHH
Q 011109 249 FKPIIGKVMEVFRPGAVVLQCGA-DSLSGDRLGCFNLSIKGHAECVKFMRS-F----NVPLLLLGGGGYTIRNVARCWCY 322 (493)
Q Consensus 249 f~~iv~pv~~~f~PdlIVvqaG~-Dsl~gDpLG~~nLT~~g~~~~v~~l~~-~----~~pllvlggGGY~~~~var~w~~ 322 (493)
+++.|..+.+.|+|++|+|..++ -...||-+ ..+++.++. . +.|++.+--.||.- +....|..
T Consensus 80 L~~aI~~~~~~~~P~~I~V~ttC~~eiIGDDi----------~~v~~~~~~~~p~~~~~pvi~v~tpgF~g-~~~~G~~~ 148 (455)
T PRK14476 80 VEEAILNICKKAKPKIIGLCTTGLTETRGDDV----------AGALKEIRARHPELADTPIVYVSTPDFKG-ALEDGWAA 148 (455)
T ss_pred HHHHHHHHHHhhCCCEEEEeCcchHhhhhccH----------HHHHHHHHhhccccCCCeEEEecCCCCCC-cHHHHHHH
Confidence 34555667778999999766554 77777742 234444432 2 68999999999975 44555555
Q ss_pred HHHHHc
Q 011109 323 ETGVAL 328 (493)
Q Consensus 323 ~t~~ll 328 (493)
....++
T Consensus 149 a~~al~ 154 (455)
T PRK14476 149 AVEAIV 154 (455)
T ss_pred HHHHHH
Confidence 444433
No 59
>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=35.82 E-value=39 Score=32.58 Aligned_cols=19 Identities=37% Similarity=0.485 Sum_probs=15.3
Q ss_pred HHhcCCcEEEEEccccCCh
Q 011109 171 LLKQHERVLYVDIDIHHGD 189 (493)
Q Consensus 171 llk~~~RVl~VDiDvHHGD 189 (493)
|.+..+||++||+|.++||
T Consensus 25 la~~g~~VlliD~D~~~~~ 43 (251)
T TIGR01969 25 LAKLGKKVLALDADITMAN 43 (251)
T ss_pred HHHCCCeEEEEeCCCCCcc
Confidence 3345689999999998876
No 60
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=35.63 E-value=3.5e+02 Score=31.36 Aligned_cols=17 Identities=29% Similarity=0.755 Sum_probs=14.3
Q ss_pred hcCCcEEEEEccccCCh
Q 011109 173 KQHERVLYVDIDIHHGD 189 (493)
Q Consensus 173 k~~~RVl~VDiDvHHGD 189 (493)
...+|||+||.|.+.+.
T Consensus 558 ~~G~rVLlID~D~r~~~ 574 (726)
T PRK09841 558 QSDQKVLFIDADLRRGY 574 (726)
T ss_pred hCCCeEEEEeCCCCCCc
Confidence 45689999999999875
No 61
>PF04321 RmlD_sub_bind: RmlD substrate binding domain; InterPro: IPR005913 dTDP-4-dehydrorhamnose reductase (1.1.1.133 from EC) catalyzes the last of 4 steps in making dTDP-rhamnose, a precursor of LPS molecules such as core antigen and O-antigen. dTDP-6-deoxy-L-mannose + NADP+ = dTDP-4-dehydro-6-deoxy-L-mannose + NADPH ; GO: 0008831 dTDP-4-dehydrorhamnose reductase activity, 0045226 extracellular polysaccharide biosynthetic process; PDB: 2YDX_D 2YDY_A 3SC6_C 1VL0_B 2GGS_A 1KBZ_A 1KC3_A 1KC1_A 1N2S_A.
Probab=35.45 E-value=12 Score=37.92 Aligned_cols=54 Identities=13% Similarity=0.313 Sum_probs=33.9
Q ss_pred HHhHhhhcCCCEEEEecCC---CCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEE
Q 011109 253 IGKVMEVFRPGAVVLQCGA---DSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLL 306 (493)
Q Consensus 253 v~pv~~~f~PdlIVvqaG~---Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvl 306 (493)
+..++++++||+||..+|. |....+|...+.+...+-..+.+.++..+.++|.+
T Consensus 43 ~~~~~~~~~pd~Vin~aa~~~~~~ce~~p~~a~~iN~~~~~~la~~~~~~~~~li~~ 99 (286)
T PF04321_consen 43 VAKLLEAFKPDVVINCAAYTNVDACEKNPEEAYAINVDATKNLAEACKERGARLIHI 99 (286)
T ss_dssp HHHHHHHH--SEEEE------HHHHHHSHHHHHHHHTHHHHHHHHHHHHCT-EEEEE
T ss_pred HHHHHHHhCCCeEeccceeecHHhhhhChhhhHHHhhHHHHHHHHHHHHcCCcEEEe
Confidence 4456678899999999886 33444666666666677778888888889888754
No 62
>PRK13236 nitrogenase reductase; Reviewed
Probab=34.91 E-value=40 Score=34.42 Aligned_cols=23 Identities=17% Similarity=0.193 Sum_probs=17.6
Q ss_pred hcCCcEEEEEccccCChhhhhhhh
Q 011109 173 KQHERVLYVDIDIHHGDGVEEAFY 196 (493)
Q Consensus 173 k~~~RVl~VDiDvHHGDGtqeaF~ 196 (493)
+..+|||+||.|.++++ +.-+|.
T Consensus 32 ~~G~rVLliD~D~q~~~-~~~l~~ 54 (296)
T PRK13236 32 EMGQRILIVGCDPKADS-TRLMLH 54 (296)
T ss_pred HCCCcEEEEEccCCCCc-cchhcc
Confidence 45699999999999887 444443
No 63
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=34.23 E-value=1.4e+02 Score=26.56 Aligned_cols=44 Identities=25% Similarity=0.293 Sum_probs=32.9
Q ss_pred HhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCc
Q 011109 256 VMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIR 314 (493)
Q Consensus 256 v~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~ 314 (493)
.+...++|.||+.+| |+ +|...++.+++.+.++++++-.+....
T Consensus 94 ~~~~~~~d~ivLvSg-D~--------------Df~~~i~~lr~~G~~V~v~~~~~~~s~ 137 (149)
T cd06167 94 LAYKRRIDTIVLVSG-DS--------------DFVPLVERLRELGKRVIVVGFEAKTSR 137 (149)
T ss_pred HhhhcCCCEEEEEEC-Cc--------------cHHHHHHHHHHcCCEEEEEccCccChH
Confidence 334448999999988 44 567789999999999998877644433
No 64
>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]
Probab=33.49 E-value=1e+02 Score=31.40 Aligned_cols=95 Identities=23% Similarity=0.306 Sum_probs=49.5
Q ss_pred HHHHHhcCCcEEEEEccccCChhhhhhhhcCCCEEEeecCCCCCCCCCCCCCCcccCCCCCccEeecCCCCCCChHHHHH
Q 011109 168 ILELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFGDYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHY 247 (493)
Q Consensus 168 i~~llk~~~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~g~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~ 247 (493)
+.-+....+||++||.|+=-|| +...|--++.-.+ +|.+ --+.-.++|+=.-.. ...|.+ ||.+.+-+++..
T Consensus 25 a~~~~~~~k~V~~iDaD~g~~n-L~~~~g~~~~~~~--l~dv---L~~~~~~~Di~~~~~-~~gl~v-ipg~~~~~~~~~ 96 (262)
T COG0455 25 AALAALGGKVVLLIDADLGLGN-LSLLLGVESKPTT--LHDV---LAGEASIEDIIYETP-QDGLYV-LPGGSGLEDLAK 96 (262)
T ss_pred HHHHhhCCCeEEEEecCCCCCc-HHHHhCCCCCccc--HHHH---HhCCCCHhHeeeecC-cCCEEE-eeCCCChHHHhh
Confidence 3344456688999999997776 2223333332222 3333 111122223211111 012222 566777777765
Q ss_pred HH----HHHHHhHhhhcCCCEEEEecCCC
Q 011109 248 LF----KPIIGKVMEVFRPGAVVLQCGAD 272 (493)
Q Consensus 248 ~f----~~iv~pv~~~f~PdlIVvqaG~D 272 (493)
+. +.++..+.+.+ |+||+-||.-
T Consensus 97 ~~~~~~~~~~~~l~~~~--D~iliD~~aG 123 (262)
T COG0455 97 LDPEDLEDVIKELEELY--DYILIDTGAG 123 (262)
T ss_pred cCHHHHHHHHHHHHhcC--CEEEEeCCCC
Confidence 44 34565555545 9999999853
No 65
>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=32.75 E-value=1.2e+02 Score=28.36 Aligned_cols=45 Identities=11% Similarity=0.096 Sum_probs=26.4
Q ss_pred CCCEEEEecCCCCCCCCCCCccccCHHHHH----HHHHHHHhcCCCEEEE
Q 011109 261 RPGAVVLQCGADSLSGDRLGCFNLSIKGHA----ECVKFMRSFNVPLLLL 306 (493)
Q Consensus 261 ~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~----~~v~~l~~~~~pllvl 306 (493)
+||+|||+.|..=..... .....+.+.|. ++++.+++.+.+++++
T Consensus 65 ~pdlVii~~G~ND~~~~~-~~~~~~~~~~~~nl~~ii~~~~~~~~~~il~ 113 (198)
T cd01821 65 PGDYVLIQFGHNDQKPKD-PEYTEPYTTYKEYLRRYIAEARAKGATPILV 113 (198)
T ss_pred CCCEEEEECCCCCCCCCC-CCCCCcHHHHHHHHHHHHHHHHHCCCeEEEE
Confidence 799999999965433211 00123445454 4566667666665554
No 66
>COG2755 TesA Lysophospholipase L1 and related esterases [Amino acid transport and metabolism]
Probab=32.48 E-value=3.9e+02 Score=25.00 Aligned_cols=91 Identities=14% Similarity=0.149 Sum_probs=46.9
Q ss_pred hHhhhcC-CCEEEEecCCCCCCCCCCCccc----cCHHHHHHHHHHHHhcCCC-----EEEEeCCCCCC------chhhH
Q 011109 255 KVMEVFR-PGAVVLQCGADSLSGDRLGCFN----LSIKGHAECVKFMRSFNVP-----LLLLGGGGYTI------RNVAR 318 (493)
Q Consensus 255 pv~~~f~-PdlIVvqaG~Dsl~gDpLG~~n----LT~~g~~~~v~~l~~~~~p-----llvlggGGY~~------~~var 318 (493)
.++.... ||+|+++.|..=.. |...+. .....+..+++.+++.+.+ +-++..+-+++ ....+
T Consensus 70 ~~l~~~~~~d~v~i~lG~ND~~--~~~~~~p~~~~~~~~~~~li~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~ 147 (216)
T COG2755 70 ALLKQHLPPDLVIIMLGGNDIG--PLRGFSPNAAEFTKNLRQLIQALRKANPLAGLTPIPVLLVGIAPPFIATDFPTYGA 147 (216)
T ss_pred HHHhccCCCCEEEEEeeccccc--hhcccCccHHHHHHHHHHHHHHHHHhcccccccccceeEEEecCCccccchhHHHH
Confidence 3444444 99999999986654 222221 1222334566777766522 22222333443 44455
Q ss_pred HHHHHHHHHcCCCCC-CCCCCchhhcccCC
Q 011109 319 CWCYETGVALGVEVD-DKMPQHEYYEYFGP 347 (493)
Q Consensus 319 ~w~~~t~~llg~~~~-~~iP~~~~~~~~~p 347 (493)
-|..-..-.+..-.. ..+|..++|..+.+
T Consensus 148 ~~~~~~~~~~~~la~~~~v~~~d~~~~~~~ 177 (216)
T COG2755 148 DWFHAANEILAQLANELFVPLADLFDAGVD 177 (216)
T ss_pred HHHHHHHHHHHHhhhhcCccchHHHhcccc
Confidence 555544444333222 45677777765553
No 67
>PRK13398 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=32.38 E-value=2.3e+02 Score=28.96 Aligned_cols=112 Identities=14% Similarity=0.202 Sum_probs=58.0
Q ss_pred hHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHh-cCCCEEE--EeCCCCCCchhhH
Q 011109 242 DESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRS-FNVPLLL--LGGGGYTIRNVAR 318 (493)
Q Consensus 242 D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~-~~~pllv--lggGGY~~~~var 318 (493)
-++++.+. ..+...-+++++++.||.=+..+-|.-.++| ..+..+++ ++.||++ -..-|+..-..+
T Consensus 147 ~~e~~~A~----e~i~~~Gn~~i~L~~rG~~t~~~Y~~~~vdl------~~i~~lk~~~~~pV~~D~sHs~G~~~~v~~- 215 (266)
T PRK13398 147 LEEWLYAA----EYIMSEGNENVVLCERGIRTFETYTRNTLDL------AAVAVIKELSHLPIIVDPSHATGRRELVIP- 215 (266)
T ss_pred HHHHHHHH----HHHHhcCCCeEEEEECCCCCCCCCCHHHHHH------HHHHHHHhccCCCEEEeCCCcccchhhHHH-
Confidence 44566554 3345567899999999975554444223333 24555655 4889776 334454332222
Q ss_pred HHHHHHHHHcCCC--CCCCCCCchhhcccCCCCccccCCCCCCCcCcHHHHHHHHHHHHHHh
Q 011109 319 CWCYETGVALGVE--VDDKMPQHEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKLLEYL 378 (493)
Q Consensus 319 ~w~~~t~~llg~~--~~~~iP~~~~~~~~~p~~~l~~~~~~~~~~n~~~~le~i~~~~~~~l 378 (493)
....++++|.. +-+ .+|-||-.+ +.-+..=+++.++++.+.+.+-.
T Consensus 216 --~~~aAva~Ga~Gl~iE--------~H~~pd~a~----~D~~~sl~p~~l~~l~~~i~~~~ 263 (266)
T PRK13398 216 --MAKAAIAAGADGLMIE--------VHPEPEKAL----SDARQTLNFEEMKELVDELKPMA 263 (266)
T ss_pred --HHHHHHHcCCCEEEEe--------ccCCccccC----CchhhcCCHHHHHHHHHHHHHHH
Confidence 23456677753 110 122233222 12223345677777776665543
No 68
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=31.91 E-value=1.3e+02 Score=27.44 Aligned_cols=47 Identities=11% Similarity=0.084 Sum_probs=31.6
Q ss_pred hHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC-CEEEEeCCCCC
Q 011109 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNV-PLLLLGGGGYT 312 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~-pllvlggGGY~ 312 (493)
..+.+.+||+|.+|+ -+.-+.....++++.+++.+. .+.++.||+-.
T Consensus 44 ~aa~~~~adiVglS~-----------L~t~~~~~~~~~~~~l~~~gl~~v~vivGG~~~ 91 (128)
T cd02072 44 DAAIETDADAILVSS-----------LYGHGEIDCKGLREKCDEAGLKDILLYVGGNLV 91 (128)
T ss_pred HHHHHcCCCEEEEec-----------cccCCHHHHHHHHHHHHHCCCCCCeEEEECCCC
Confidence 345677999999984 222355667788888988765 45555566543
No 69
>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []. It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.
Probab=31.79 E-value=1.4e+02 Score=25.35 Aligned_cols=56 Identities=25% Similarity=0.396 Sum_probs=33.4
Q ss_pred cCCCCCCChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeC
Q 011109 234 VPLDDGIDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGG 308 (493)
Q Consensus 234 VPL~~G~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlgg 308 (493)
|-+|+|++|.. +.+++.+ | ...+|||..- -.++...-.+.++++++.++|++-+.|
T Consensus 6 iD~PPGTgD~~-l~~~~~~--~-----~~g~ivVTTP-----------q~la~~dv~r~~~~~~~~~vpilGvVE 61 (81)
T PF10609_consen 6 IDLPPGTGDEH-LTLMQYL--P-----IDGAIVVTTP-----------QELALADVRRAIDMFRKLNVPILGVVE 61 (81)
T ss_dssp EE--SCSSSHH-HHHHHHH---------SEEEEEE-C-----------CC--HHHHHHHHHHHHCTT-EEEEEEE
T ss_pred EeCCCCCCcHH-HHHHHhC--C-----CCeEEEEeCC-----------HHHHHHHHHHHHHHHHhcCCCcEEEEE
Confidence 45789999865 4444322 1 2257777754 235667778899999999999996654
No 70
>TIGR00381 cdhD CO dehydrogenase/acetyl-CoA synthase, delta subunit. This is the small subunit of a heterodimer which catalyzes the reaction CO + H2O + Acceptor = CO2 + Reduced acceptor and is involved in the synthesis of acetyl-CoA from CO2 and H2.
Probab=31.67 E-value=3e+02 Score=29.89 Aligned_cols=61 Identities=18% Similarity=0.244 Sum_probs=43.7
Q ss_pred HHHHHHHHHHH-------HhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHH-HhcCCCEEEEeC
Q 011109 243 ESYHYLFKPII-------GKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFM-RSFNVPLLLLGG 308 (493)
Q Consensus 243 ~~yl~~f~~iv-------~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l-~~~~~pllvlgg 308 (493)
+.....|+.+. ...++.|++|+|.|.+= ++||.| .+=+++-|+++++.+ ...+.|+++.+-
T Consensus 128 ~~i~~~~~dV~~dP~~wak~~V~~~~aD~Ialr~~----S~DP~~-~d~~~~e~a~~vk~V~~av~vPLIL~gs 196 (389)
T TIGR00381 128 KPIRMHFEDVMEDPAEWARKCVKEFGADMVTIHLI----STDPKL-DDKSPSEAAKVLEDVLQAVDVPIVIGGS 196 (389)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHhCCCEEEEEec----CCCccc-cccCHHHHHHHHHHHHHhCCCCEEEeCC
Confidence 55666666555 23348899999999973 456644 566888999999988 556999977644
No 71
>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=31.53 E-value=1.4e+02 Score=32.37 Aligned_cols=68 Identities=12% Similarity=0.195 Sum_probs=42.9
Q ss_pred HHHHHHhHhhhcCCCEEEEecCC-CCCCCCCCCccccCHHHHHHHHHHHHh-----cCCCEEEEeCCCCCCchhhHHHHH
Q 011109 249 FKPIIGKVMEVFRPGAVVLQCGA-DSLSGDRLGCFNLSIKGHAECVKFMRS-----FNVPLLLLGGGGYTIRNVARCWCY 322 (493)
Q Consensus 249 f~~iv~pv~~~f~PdlIVvqaG~-Dsl~gDpLG~~nLT~~g~~~~v~~l~~-----~~~pllvlggGGY~~~~var~w~~ 322 (493)
+++.|..+.+.|+|++|+|...+ ....||-+ ..+++.++. .++|++.+--.||.- +....|..
T Consensus 79 L~~~I~~~~~~~~P~~I~V~ttC~~eiIGDDi----------~~v~~~~~~e~p~~~~~pvi~v~tpgf~g-~~~~G~~~ 147 (432)
T TIGR01285 79 IEEAIDTLCQRNKPKAIGLLSTGLTETRGEDI----------ARVVRQFREKHPQHKGTAVVTVNTPDFKG-SLEDGYAA 147 (432)
T ss_pred HHHHHHHHHHhcCCCEEEEeCCCcccccccCH----------HHHHHHHHhhcccccCCeEEEecCCCcCC-chHHHHHH
Confidence 44556677889999988776553 44666633 234444443 378999999999986 34444443
Q ss_pred HHHHH
Q 011109 323 ETGVA 327 (493)
Q Consensus 323 ~t~~l 327 (493)
....+
T Consensus 148 a~~al 152 (432)
T TIGR01285 148 AVESI 152 (432)
T ss_pred HHHHH
Confidence 33333
No 72
>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=31.51 E-value=1.7e+02 Score=27.39 Aligned_cols=36 Identities=28% Similarity=0.281 Sum_probs=22.7
Q ss_pred hcCCCEEEEecCC-CCCCCCCCCccccCHHHH----HHHHHHHHhc
Q 011109 259 VFRPGAVVLQCGA-DSLSGDRLGCFNLSIKGH----AECVKFMRSF 299 (493)
Q Consensus 259 ~f~PdlIVvqaG~-Dsl~gDpLG~~nLT~~g~----~~~v~~l~~~ 299 (493)
..+||+|||..|. |... .++.+..-| .++++.+++.
T Consensus 77 ~~~pd~vii~lGtND~~~-----~~~~~~~~~~~~l~~lv~~i~~~ 117 (208)
T cd01839 77 HSPLDLVIIMLGTNDLKS-----YFNLSAAEIAQGLGALVDIIRTA 117 (208)
T ss_pred CCCCCEEEEecccccccc-----ccCCCHHHHHHHHHHHHHHHHhc
Confidence 3799999999998 4432 233444444 4556666654
No 73
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=31.26 E-value=1e+02 Score=29.74 Aligned_cols=47 Identities=9% Similarity=0.087 Sum_probs=31.1
Q ss_pred HhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCC---EEEEeCCCC
Q 011109 254 GKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVP---LLLLGGGGY 311 (493)
Q Consensus 254 ~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~p---llvlggGGY 311 (493)
...+++.+||+|.+|+-.. -+.....++++.+++.+.+ .+++||.-.
T Consensus 128 v~~~~~~~pd~v~lS~~~~-----------~~~~~~~~~i~~l~~~~~~~~v~i~vGG~~~ 177 (197)
T TIGR02370 128 VEKVKKEKPLMLTGSALMT-----------TTMYGQKDINDKLKEEGYRDSVKFMVGGAPV 177 (197)
T ss_pred HHHHHHcCCCEEEEccccc-----------cCHHHHHHHHHHHHHcCCCCCCEEEEEChhc
Confidence 3567889999999997433 2355567788888887543 344444333
No 74
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=30.41 E-value=1.1e+02 Score=33.68 Aligned_cols=54 Identities=11% Similarity=0.258 Sum_probs=37.5
Q ss_pred HHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHH-HhcCCCEEEEeCCCCC
Q 011109 250 KPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFM-RSFNVPLLLLGGGGYT 312 (493)
Q Consensus 250 ~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l-~~~~~pllvlggGGY~ 312 (493)
+.+|..++++|+|++|||..++= -+-....+++ +++.+ +++++|||.+-..||.
T Consensus 86 ~~~i~ei~~~~~p~~ifv~~TC~------t~iIGdDle~---va~~~~~~~gipVV~v~~~Gf~ 140 (457)
T CHL00073 86 KRLCLQIKKDRNPSVIVWIGTCT------TEIIKMDLEG---MAPKLEAEIGIPIVVARANGLD 140 (457)
T ss_pred HHHHHHHHHhCCCCEEEEEccCc------HHhhccCHHH---HHHHHHHhhCCCEEEEeCCCcc
Confidence 35667789999999999987742 2223333333 33333 3569999999999997
No 75
>PRK13396 3-deoxy-7-phosphoheptulonate synthase; Provisional
Probab=30.36 E-value=2.6e+02 Score=29.94 Aligned_cols=121 Identities=13% Similarity=0.205 Sum_probs=68.5
Q ss_pred CChHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCC-CCCCCccccCHHHHHHHHHHHHhc-CCCEEE--EeCCCCCCch
Q 011109 240 IDDESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLS-GDRLGCFNLSIKGHAECVKFMRSF-NVPLLL--LGGGGYTIRN 315 (493)
Q Consensus 240 ~~D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~-gDpLG~~nLT~~g~~~~v~~l~~~-~~pllv--lggGGY~~~~ 315 (493)
.+-++++.+.+. +...-++++|++.||+=++. +-|.-.++|. .+..+++. +.|+++ ....||.--.
T Consensus 219 ~t~ee~~~A~e~----i~~~Gn~~viL~erG~rtf~s~y~~~~~dl~------ai~~lk~~~~lPVi~DpsH~~G~sd~~ 288 (352)
T PRK13396 219 ATIDEWLMAAEY----ILAAGNPNVILCERGIRTFDRQYTRNTLDLS------VIPVLRSLTHLPIMIDPSHGTGKSEYV 288 (352)
T ss_pred CCHHHHHHHHHH----HHHcCCCeEEEEecCCccCcCCCCCCCcCHH------HHHHHHHhhCCCEEECCcccCCcHHHH
Confidence 345677766654 44566789999999995543 2233344552 45556654 889874 3455776533
Q ss_pred hhHHHHHHHHHHcCCC--CCCCCCCchhhcccCCCCccccCCCCCCCcCcHHHHHHHHHHHHHHhhcCCCCC
Q 011109 316 VARCWCYETGVALGVE--VDDKMPQHEYYEYFGPDYTLHVAPSNMENKNSRQLLEEIRNKLLEYLSKLQHAP 385 (493)
Q Consensus 316 var~w~~~t~~llg~~--~~~~iP~~~~~~~~~p~~~l~~~~~~~~~~n~~~~le~i~~~~~~~l~~l~~~p 385 (493)
.+ ...+++++|.. +-+ .++-|+-.+ +.-+..=+++.++++.+.+..-.+.+...|
T Consensus 289 ~~---~a~AAva~GAdGliIE--------~H~~pd~Al----sD~~qsl~p~~~~~l~~~i~~i~~~~g~~~ 345 (352)
T PRK13396 289 PS---MAMAAIAAGTDSLMIE--------VHPNPAKAL----SDGPQSLTPDRFDRLMQELAVIGKTVGRWP 345 (352)
T ss_pred HH---HHHHHHhhCCCeEEEE--------ecCCcccCC----ChhhhcCCHHHHHHHHHHHHHHHHHhCCCC
Confidence 32 34456667754 211 122233222 122334467788888877777766665544
No 76
>KOG3147 consensus 6-phosphogluconolactonase - like protein [Carbohydrate transport and metabolism]
Probab=30.36 E-value=1.3e+02 Score=30.62 Aligned_cols=85 Identities=14% Similarity=0.187 Sum_probs=43.8
Q ss_pred hhhhhhhcCCCEEEeecCCCCCCCCC-CCCCCcccCCCCCccEeecCCCCCCChHHHHHHHHHHHHhHhhh---cCCCEE
Q 011109 190 GVEEAFYTTDRVMTVSFHKFGDYFPG-TGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGKVMEV---FRPGAV 265 (493)
Q Consensus 190 GtqeaF~~d~rVltiS~H~~g~ffPg-TG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~~f~~iv~pv~~~---f~PdlI 265 (493)
+-..+|+-|.|+.-++ |...+|=+. .+.++.+-.-..+-|.+|--|.. +.++=....+..+...+.. =+.|++
T Consensus 70 ~kW~if~~DER~Vp~~-~~dSNyg~~~~~~l~~v~~~~~~i~~id~~L~~--~~~~~a~~ye~~l~~~v~~~s~p~FDL~ 146 (252)
T KOG3147|consen 70 SKWHIFFVDERVVPLD-DPDSNYGLAKRHFLSKVPIPHYNIYPIDESLIA--DAEEAADLYEKELKALVANDSFPVFDLL 146 (252)
T ss_pred cceEEEEEeccccCCC-CCcccHHHHHHhhhhhCCCCcCcEEECChhhcc--CHHHHHHHHHHHHHHHhccCCCcceeEE
Confidence 5567788888877655 222111000 12222222222234677777764 2222223333333333333 246999
Q ss_pred EEecCCCCCCCC
Q 011109 266 VLQCGADSLSGD 277 (493)
Q Consensus 266 VvqaG~Dsl~gD 277 (493)
++-||-|+|..-
T Consensus 147 LLG~GpDGHtaS 158 (252)
T KOG3147|consen 147 LLGMGPDGHTAS 158 (252)
T ss_pred EeccCCCCCeee
Confidence 999999999754
No 77
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=29.80 E-value=2.1e+02 Score=28.51 Aligned_cols=64 Identities=13% Similarity=0.282 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHH---HHHHHHHHHhcC-CCEEEEeCCCCCCchhhH
Q 011109 244 SYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKG---HAECVKFMRSFN-VPLLLLGGGGYTIRNVAR 318 (493)
Q Consensus 244 ~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g---~~~~v~~l~~~~-~pllvlggGGY~~~~var 318 (493)
+....|+.++. .+.+.+||+||++ ||=.-..+-+... +.+.++.+++.+ +|++++.| |.+...+
T Consensus 23 ~~~~~l~~l~~-~~~~~~~D~lli~-------GDi~d~~~p~~~~~~~~~~~l~~l~~~~~i~v~~i~G---NHD~~~~ 90 (253)
T TIGR00619 23 EQKAFLDDLLE-FAKAEQIDALLVA-------GDVFDTANPPAEAQELFNAFFRNLSDANPIPIVVISG---NHDSAQR 90 (253)
T ss_pred HHHHHHHHHHH-HHHHcCCCEEEEC-------CccCCCCCCCHHHHHHHHHHHHHHHhcCCceEEEEcc---CCCChhh
Confidence 34556766664 5667799999886 5544333333222 334445555556 78888765 5555443
No 78
>TIGR00259 thylakoid_BtpA membrane complex biogenesis protein, BtpA family. Members of this family are found in C. elegans, Synechocystis sp., E. coli, and several of the Archaea. Members in Cyanobacteria have been shown to play a role in protein complex biogenesis, and designated BtpA (biogenesis of thylakoid protein). Homologs in non-photosynthetic species, where thylakoid intracytoplasmic membranes are lacking, are likely to act elsewhere in membrane protein biogenesis.
Probab=29.61 E-value=2.6e+02 Score=28.60 Aligned_cols=59 Identities=25% Similarity=0.410 Sum_probs=33.8
Q ss_pred hhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHh-c-CCCEEEEeCCCCCCchhhHHHHHHHHHHcC
Q 011109 257 MEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRS-F-NVPLLLLGGGGYTIRNVARCWCYETGVALG 329 (493)
Q Consensus 257 ~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~-~-~~pllvlggGGY~~~~var~w~~~t~~llg 329 (493)
+..-.+|.|+|+-=.-+.. +.+ +.++.+++ . ..| ++++||=++.|+++.|.+.-++.+|
T Consensus 167 ~~~~~aDavivtG~~TG~~------~d~------~~l~~vr~~~~~~P--vllggGvt~eNv~e~l~~adGviVg 227 (257)
T TIGR00259 167 VERGLADAVILSGKTTGTE------VDL------ELLKLAKETVKDTP--VLAGSGVNLENVEELLSIADGVIVA 227 (257)
T ss_pred HHhcCCCEEEECcCCCCCC------CCH------HHHHHHHhccCCCe--EEEECCCCHHHHHHHHhhCCEEEEC
Confidence 3334589999872111111 111 23444444 2 456 5779999999999998763333343
No 79
>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=28.04 E-value=1.1e+02 Score=32.77 Aligned_cols=56 Identities=21% Similarity=0.236 Sum_probs=38.1
Q ss_pred HHHHHHhHhhhcCCCEEEEecC-CCCCCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEeCCCCCCc
Q 011109 249 FKPIIGKVMEVFRPGAVVLQCG-ADSLSGDRLGCFNLSIKGHAECVKFMR-SFNVPLLLLGGGGYTIR 314 (493)
Q Consensus 249 f~~iv~pv~~~f~PdlIVvqaG-~Dsl~gDpLG~~nLT~~g~~~~v~~l~-~~~~pllvlggGGY~~~ 314 (493)
++..|..+.++|+|++|+|... .....||.+ ..+++.++ ..+.|++.+--.||.-.
T Consensus 73 L~~~I~~~~~~~~p~~I~v~~tC~~~iIGdDi----------~~v~~~~~~~~~~~vi~v~t~gf~g~ 130 (430)
T cd01981 73 VVENITRKDKEEKPDLIVLTPTCTSSILQEDL----------QNFVRAAGLSSKSPVLPLDVNHYRVN 130 (430)
T ss_pred HHHHHHHHHHhcCCCEEEEeCCccHHHHhhCH----------HHHHHHhhhccCCCeEEecCCCccch
Confidence 3455566778899998877765 566666643 22444443 45889999988999864
No 80
>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=27.57 E-value=1.2e+02 Score=32.68 Aligned_cols=58 Identities=17% Similarity=0.324 Sum_probs=38.6
Q ss_pred HHHHHHhHhhhcCCCEEEEec-CCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchh
Q 011109 249 FKPIIGKVMEVFRPGAVVLQC-GADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNV 316 (493)
Q Consensus 249 f~~iv~pv~~~f~PdlIVvqa-G~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~v 316 (493)
++..|..+.++|+|++|+|.. ......||- ...+++.++..+.|++.+--.||.-...
T Consensus 74 L~~~I~~~~~~~~p~~I~V~ttC~~~~IGdD----------i~~v~~~~~~~~~~vi~v~t~gf~g~~~ 132 (427)
T cd01971 74 LRELIKSTLSIIDADLFVVLTGCIAEIIGDD----------VGAVVSEFQEGGAPIVYLETGGFKGNNY 132 (427)
T ss_pred HHHHHHHHHHhCCCCEEEEEcCCcHHHhhcC----------HHHHHHHhhhcCCCEEEEECCCcCcccc
Confidence 344555678889999776654 445555553 2334444566789999999999987543
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=26.51 E-value=3.1e+02 Score=23.22 Aligned_cols=96 Identities=16% Similarity=0.136 Sum_probs=61.1
Q ss_pred HHHHhcCCcEEEEEccccCChhhhhhhhcCCCEEEeecCCCCCCCCCCCCCCcccCCCCCccEeecCCCCCCChHHHHHH
Q 011109 169 LELLKQHERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFGDYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYL 248 (493)
Q Consensus 169 ~~llk~~~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~g~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~~ 248 (493)
..|++..-.|-++|.+++..+-++.+-...++++.+|.+... .+..
T Consensus 22 ~~l~~~G~~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~---------------------------------~~~~- 67 (121)
T PF02310_consen 22 AYLRKAGHEVDILDANVPPEELVEALRAERPDVVGISVSMTP---------------------------------NLPE- 67 (121)
T ss_dssp HHHHHTTBEEEEEESSB-HHHHHHHHHHTTCSEEEEEESSST---------------------------------HHHH-
T ss_pred HHHHHCCCeEEEECCCCCHHHHHHHHhcCCCcEEEEEccCcC---------------------------------cHHH-
Confidence 344454568999999999877788787889999999976321 1222
Q ss_pred HHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHh-cCCCEEEEeCCCCCCc
Q 011109 249 FKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRS-FNVPLLLLGGGGYTIR 314 (493)
Q Consensus 249 f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~-~~~pllvlggGGY~~~ 314 (493)
...++. .+++..|+.+++.-|.- .|.. ...+ ++. .+.-.++.|+|-++..
T Consensus 68 ~~~l~~-~~k~~~p~~~iv~GG~~-----------~t~~-~~~~---l~~~~~~D~vv~GegE~~~~ 118 (121)
T PF02310_consen 68 AKRLAR-AIKERNPNIPIVVGGPH-----------ATAD-PEEI---LREYPGIDYVVRGEGEEAFP 118 (121)
T ss_dssp HHHHHH-HHHTTCTTSEEEEEESS-----------SGHH-HHHH---HHHHHTSEEEEEETTSSHHH
T ss_pred HHHHHH-HHHhcCCCCEEEEECCc-----------hhcC-hHHH---hccCcCcceecCCChHHhhc
Confidence 234443 37889999999986622 1211 1112 222 4667899999977653
No 82
>cd04236 AAK_NAGS-Urea AAK_NAGS-Urea: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the urea cycle found in animals. Ureogenic NAGS is a mitochondrial enzyme catalyzing the formation of NAG from acetylcoenzyme A and L-glutamate; NAG is an essential allosteric activator of carbamylphosphate synthase I, the first and rate limiting enzyme of the urea cycle. Ureogenic NAGS activity is dependent on the concentration of glutamate (substrate) and arginine (activator). Domain architecture of ureogenic NAGS consists of an N-terminal NAG kinase-like (ArgB) domain (this CD) and a C-terminal DUF619 domain. Members of this CD belong to the protein superfamily, the Amino Acid Kinase Family (AAKF).
Probab=26.43 E-value=1e+02 Score=31.53 Aligned_cols=61 Identities=13% Similarity=0.162 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCC
Q 011109 243 ESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTI 313 (493)
Q Consensus 243 ~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~ 313 (493)
..|+.-|..+-.+ -++.++||-+|-.++..+. ........+.+|.+.+.+.|+|.|||=..
T Consensus 20 ~~~l~~f~~~~~~----~~~~f~VIK~GG~~~~~~~------~~~~l~~dla~L~~lGl~~VlVHGggp~i 80 (271)
T cd04236 20 RYWLTQFQIAMPN----DWPAFAVLEVDHSVFRSLE------MVQSLSFGLAFLQRMDMKLLVVMGLSAPD 80 (271)
T ss_pred HHHHHHhhccCCC----CCCCEEEEEEChhhhcCch------hHHHHHHHHHHHHHCCCeEEEEeCCChHH
Confidence 3566666442211 2468999999977764221 13456677888999999999999998754
No 83
>CHL00175 minD septum-site determining protein; Validated
Probab=26.41 E-value=69 Score=31.98 Aligned_cols=20 Identities=25% Similarity=0.152 Sum_probs=16.1
Q ss_pred HhcCCcEEEEEccccCChhh
Q 011109 172 LKQHERVLYVDIDIHHGDGV 191 (493)
Q Consensus 172 lk~~~RVl~VDiDvHHGDGt 191 (493)
.+..+||++||.|.+.||-.
T Consensus 41 a~~g~~vlliD~D~~~~~l~ 60 (281)
T CHL00175 41 ARLGYRVALIDADIGLRNLD 60 (281)
T ss_pred HhCCCeEEEEeCCCCCCChh
Confidence 34568999999999988844
No 84
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=25.62 E-value=1.3e+02 Score=33.15 Aligned_cols=45 Identities=20% Similarity=0.234 Sum_probs=26.4
Q ss_pred hHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCC
Q 011109 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGY 311 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY 311 (493)
..+.+++||+|.+++ +..+...-.++++.+|+..-.+.+|.||..
T Consensus 57 ~~l~~~~pdvVgis~------------~t~~~~~a~~~~~~~k~~~P~~~iV~GG~h 101 (497)
T TIGR02026 57 ERLRAHCPDLVLITA------------ITPAIYIACETLKFARERLPNAIIVLGGIH 101 (497)
T ss_pred HHHHhcCcCEEEEec------------CcccHHHHHHHHHHHHHHCCCCEEEEcCCC
Confidence 456778999999974 112333344567777765333444445543
No 85
>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=25.51 E-value=1.1e+02 Score=26.57 Aligned_cols=27 Identities=19% Similarity=0.210 Sum_probs=19.2
Q ss_pred HHHHHHHHhHhhhcCCCEEEEecCCCC
Q 011109 247 YLFKPIIGKVMEVFRPGAVVLQCGADS 273 (493)
Q Consensus 247 ~~f~~iv~pv~~~f~PdlIVvqaG~Ds 273 (493)
..+...|..++++++|++|+.-...|.
T Consensus 86 ~~~~~~l~~~i~~~~p~~V~t~~~~~~ 112 (128)
T PF02585_consen 86 EELVRDLEDLIREFRPDVVFTPDPDDG 112 (128)
T ss_dssp HHHHHHHHHHHHHH-ESEEEEE-STTS
T ss_pred HHHHHHHHHHHHHcCCCEEEECCCCCC
Confidence 334455778889999999999877776
No 86
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=25.13 E-value=49 Score=27.81 Aligned_cols=54 Identities=17% Similarity=0.239 Sum_probs=42.6
Q ss_pred ecCCCCCCCCCCC-ccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchhhHHHH
Q 011109 268 QCGADSLSGDRLG-CFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWC 321 (493)
Q Consensus 268 qaG~Dsl~gDpLG-~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~var~w~ 321 (493)
.++-+.++|+.|+ .+.+|-....++++.|+..|.+|..+.+=||.+......+.
T Consensus 14 ~~~~~~~SGe~La~~LgiSRtaVwK~Iq~Lr~~G~~I~s~~~kGY~L~~~~~ll~ 68 (79)
T COG1654 14 LLTGNFVSGEKLAEELGISRTAVWKHIQQLREEGVDIESVRGKGYLLPQLPDLLP 68 (79)
T ss_pred HcCCCcccHHHHHHHHCccHHHHHHHHHHHHHhCCceEecCCCceeccCccccCc
Confidence 3445567777777 47888889999999999999999999888999866655443
No 87
>cd07384 MPP_Cdc1_like Saccharomyces cerevisiae CDC1 and related proteins, metallophosphatase domain. Cdc1 (also known as XlCdc1 in Xenopus laevis) is an endoplasmic reticulum-localized transmembrane lipid phosphatase with a metallophosphatase domain facing the ER lumen. In budding yeast, the gene encoding CDC1 is essential while nonlethal mutations cause defects in Golgi inheritance and actin polarization. Cdc1 mutant cells accumulate an unidentified phospholipid, suggesting that Cdc1 is a lipid phosphatase. Cdc1 mutant cells also have highly elevated intracellular calcium levels suggesting a possible role for Cdc1 in calcium regulation. The 5' flanking region of Cdc1 is a regulatory region with conserved binding site motifs for AP1, AP2, Sp1, NF-1 and CREB. DNA polymerase delta consists of at least four subunits - Pol3, Cdc1, Cdc27, and Cdm1. This group also contains Saccharomyces cerevisiae TED1 (Trafficking of Emp24p/Erv25p-dependent cargo disrupted 1), which acts together wit
Probab=24.91 E-value=2.7e+02 Score=26.09 Aligned_cols=18 Identities=11% Similarity=0.353 Sum_probs=13.1
Q ss_pred HHHHhHhhhcCCCEEEEe
Q 011109 251 PIIGKVMEVFRPGAVVLQ 268 (493)
Q Consensus 251 ~iv~pv~~~f~PdlIVvq 268 (493)
..+..++++++||+||+.
T Consensus 35 ~~~~~~i~~~~pd~vi~l 52 (171)
T cd07384 35 RAFKTALQRLKPDVVLFL 52 (171)
T ss_pred HHHHHHHHhcCCCEEEEe
Confidence 334456678999999875
No 88
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=24.87 E-value=2.7e+02 Score=31.10 Aligned_cols=59 Identities=15% Similarity=0.140 Sum_probs=39.2
Q ss_pred HHHHHHHhHhhhcCCCEEEEecCCCC-CCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEeCCCCCCchh
Q 011109 248 LFKPIIGKVMEVFRPGAVVLQCGADS-LSGDRLGCFNLSIKGHAECVKFMR-SFNVPLLLLGGGGYTIRNV 316 (493)
Q Consensus 248 ~f~~iv~pv~~~f~PdlIVvqaG~Ds-l~gDpLG~~nLT~~g~~~~v~~l~-~~~~pllvlggGGY~~~~v 316 (493)
-++..|..+.++|+|++|+|..++=+ +.|| +...+++.++ ..+.|++.+--.||.-...
T Consensus 72 kL~~~I~~~~~~~~P~~I~V~tTC~~eiIGD----------Di~~v~~~~~~~~~~pVi~v~t~~f~g~~~ 132 (513)
T CHL00076 72 KVVDNITRKDKEERPDLIVLTPTCTSSILQE----------DLQNFVDRASIESDSDVILADVNHYRVNEL 132 (513)
T ss_pred HHHHHHHHHHHhcCCCEEEECCCCchhhhhc----------CHHHHHHHhhcccCCCEEEeCCCCCcccHH
Confidence 34455666888999999999876422 2233 2233444443 3588999999999987554
No 89
>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=24.76 E-value=1.7e+02 Score=31.00 Aligned_cols=69 Identities=17% Similarity=0.238 Sum_probs=43.6
Q ss_pred HHHHHHHhHhhhcCCCEEEEecC-CCCCCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEeCCCCCCchhhHHHHHHHH
Q 011109 248 LFKPIIGKVMEVFRPGAVVLQCG-ADSLSGDRLGCFNLSIKGHAECVKFMR-SFNVPLLLLGGGGYTIRNVARCWCYETG 325 (493)
Q Consensus 248 ~f~~iv~pv~~~f~PdlIVvqaG-~Dsl~gDpLG~~nLT~~g~~~~v~~l~-~~~~pllvlggGGY~~~~var~w~~~t~ 325 (493)
-+++.|..+.++|+|++|+|..+ .....||- +..+++.++ ..+.|++.+--.||.-.+....|.....
T Consensus 74 ~L~~~i~~~~~~~~P~~i~v~~tC~~~~iGdD----------i~~v~~~~~~~~~~~vi~v~t~gf~g~~~~~G~~~a~~ 143 (406)
T cd01967 74 KLKKAIKEAYERFPPKAIFVYSTCPTGLIGDD----------IEAVAKEASKELGIPVIPVNCEGFRGVSQSLGHHIAND 143 (406)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCCchhhhccC----------HHHHHHHHHHhhCCCEEEEeCCCeeCCcccHHHHHHHH
Confidence 45566677888999997766543 45555553 233444443 4589999999999877455445544333
Q ss_pred H
Q 011109 326 V 326 (493)
Q Consensus 326 ~ 326 (493)
.
T Consensus 144 a 144 (406)
T cd01967 144 A 144 (406)
T ss_pred H
Confidence 3
No 90
>cd01494 AAT_I Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. 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
Probab=24.40 E-value=98 Score=26.98 Aligned_cols=47 Identities=30% Similarity=0.345 Sum_probs=27.0
Q ss_pred HHHHHHhcCCcEEEEEccccCChhhhh-----hhhcCCCEEEeecCCC-CCCCCCCC
Q 011109 167 AILELLKQHERVLYVDIDIHHGDGVEE-----AFYTTDRVMTVSFHKF-GDYFPGTG 217 (493)
Q Consensus 167 Ai~~llk~~~RVl~VDiDvHHGDGtqe-----aF~~d~rVltiS~H~~-g~ffPgTG 217 (493)
.+.++.+++.-++++| ++|. .++.. .-.....+++.|+||. +. |+.|
T Consensus 113 ~l~~~~~~~~~~li~D-~a~~-~~~~~~~~~~~~~~~~d~~~~s~~K~~~~--~~~G 165 (170)
T cd01494 113 EIRKIAKEYGILLLVD-AASA-GGASPAPGVLIPEGGADVVTFSLHKNLGG--EGGG 165 (170)
T ss_pred HHHHHHHHcCCEEEEe-cccc-cccccccccccccccCCEEEEEcccccCC--CceE
Confidence 3344555666677776 3444 33332 2223467999999997 42 5544
No 91
>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=23.91 E-value=1.6e+02 Score=26.94 Aligned_cols=41 Identities=12% Similarity=0.222 Sum_probs=22.5
Q ss_pred hcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc
Q 011109 259 VFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF 299 (493)
Q Consensus 259 ~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~ 299 (493)
.++||+|||+.|..=..........--.+.+.++++.+++.
T Consensus 65 ~~~pd~Vii~~G~ND~~~~~~~~~~~~~~~l~~li~~i~~~ 105 (188)
T cd01827 65 AFNPNIVIIKLGTNDAKPQNWKYKDDFKKDYETMIDSFQAL 105 (188)
T ss_pred ccCCCEEEEEcccCCCCCCCCccHHHHHHHHHHHHHHHHHH
Confidence 47999999999975332211000000123455677776654
No 92
>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=23.88 E-value=58 Score=29.98 Aligned_cols=15 Identities=20% Similarity=0.313 Sum_probs=13.1
Q ss_pred CcEEEEEccccCChh
Q 011109 176 ERVLYVDIDIHHGDG 190 (493)
Q Consensus 176 ~RVl~VDiDvHHGDG 190 (493)
+||++||.|.+.++-
T Consensus 25 ~~vlliD~D~~~~~~ 39 (179)
T cd03110 25 KNVVLADCDVDAPNL 39 (179)
T ss_pred hCcEEEECCCCCCch
Confidence 799999999998763
No 93
>COG2047 Uncharacterized protein (ATP-grasp superfamily) [General function prediction only]
Probab=23.88 E-value=1.1e+02 Score=30.96 Aligned_cols=46 Identities=17% Similarity=0.407 Sum_probs=33.2
Q ss_pred CCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCC
Q 011109 261 RPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTI 313 (493)
Q Consensus 261 ~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~ 313 (493)
.+|+||+. -|.-+.++.|++.|+. .++++.+.++.+.+..+| ||..
T Consensus 83 ~~Dliil~--Gd~Q~~~~~gqyel~~----~~Ld~a~e~g~~~IyTLG-Gy~v 128 (258)
T COG2047 83 ERDLIILV--GDTQATSSEGQYELTG----KILDIAKEFGARMIYTLG-GYGV 128 (258)
T ss_pred CCcEEEEe--ccccccCcchhHHHHH----HHHHHHHHcCCcEEEEec-Cccc
Confidence 45888875 3555577788887753 477788899999998886 4653
No 94
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=23.71 E-value=2.4e+02 Score=24.82 Aligned_cols=46 Identities=13% Similarity=0.028 Sum_probs=28.0
Q ss_pred hHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC--CEEEEeCCCC
Q 011109 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNV--PLLLLGGGGY 311 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~--pllvlggGGY 311 (493)
..+.+.+|++|++++- ..-+.....++++.+++.+. ..+++||.++
T Consensus 44 ~~a~~~~~d~V~iS~~-----------~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~~ 91 (122)
T cd02071 44 EAAIQEDVDVIGLSSL-----------SGGHMTLFPEVIELLRELGAGDILVVGGGIIP 91 (122)
T ss_pred HHHHHcCCCEEEEccc-----------chhhHHHHHHHHHHHHhcCCCCCEEEEECCCC
Confidence 4566889999999854 12234445667777877633 3444444443
No 95
>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=23.69 E-value=1e+02 Score=27.81 Aligned_cols=48 Identities=8% Similarity=0.093 Sum_probs=26.8
Q ss_pred hhhcCCCEEEEecCCCCCCCCCCCccccCHH----HHHHHHHHHHh--cCCCEEEE
Q 011109 257 MEVFRPGAVVLQCGADSLSGDRLGCFNLSIK----GHAECVKFMRS--FNVPLLLL 306 (493)
Q Consensus 257 ~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~----g~~~~v~~l~~--~~~pllvl 306 (493)
+...+||+|+|++|..=....+. -..+++ .+..+++.+++ -+.+++++
T Consensus 57 ~~~~~~d~v~l~~G~ND~~~~~~--~~~~~~~~~~~l~~~v~~~~~~~~~~~ii~~ 110 (191)
T cd01834 57 VLPAKPDVVSIMFGINDSFRGFD--DPVGLEKFKTNLRRLIDRLKNKESAPRIVLV 110 (191)
T ss_pred cccCCCCEEEEEeecchHhhccc--ccccHHHHHHHHHHHHHHHHcccCCCcEEEE
Confidence 34578999999999744332110 023343 44556666642 24555544
No 96
>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=23.58 E-value=1.7e+02 Score=31.51 Aligned_cols=71 Identities=14% Similarity=0.251 Sum_probs=45.7
Q ss_pred HHHHHHHhHhhhcCCCEEEEecCC-CCCCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEeCCCCCCchhhHHHHHHHH
Q 011109 248 LFKPIIGKVMEVFRPGAVVLQCGA-DSLSGDRLGCFNLSIKGHAECVKFMR-SFNVPLLLLGGGGYTIRNVARCWCYETG 325 (493)
Q Consensus 248 ~f~~iv~pv~~~f~PdlIVvqaG~-Dsl~gDpLG~~nLT~~g~~~~v~~l~-~~~~pllvlggGGY~~~~var~w~~~t~ 325 (493)
-+++.|..+.+.|+|++|+|...+ ..+.||- ...+++.++ +.+.|++.+--.||.-.+....|.....
T Consensus 76 kL~~aI~~~~~~~~P~~I~V~ttC~~~iIGdD----------i~~v~~~~~~~~~~pvi~v~t~gf~g~~~~~G~~~a~~ 145 (426)
T cd01972 76 KLEDTIKEAYSRYKPKAIFVATSCATGIIGDD----------VESVVEELEDEIGIPVVALHCEGFKGKHWRSGFDAAFH 145 (426)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCChHHHhccC----------HHHHHHHHHHhhCCCEEEEeCCccCCccHhHHHHHHHH
Confidence 445666778889999988876553 3344442 233555453 4689999999999987555555544444
Q ss_pred HHc
Q 011109 326 VAL 328 (493)
Q Consensus 326 ~ll 328 (493)
.++
T Consensus 146 al~ 148 (426)
T cd01972 146 GIL 148 (426)
T ss_pred HHH
Confidence 443
No 97
>PHA02546 47 endonuclease subunit; Provisional
Probab=23.45 E-value=3e+02 Score=28.74 Aligned_cols=58 Identities=14% Similarity=0.152 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCcc-ccCHHH---HHH-HHHHHHhcCCCEEEEeC
Q 011109 243 ESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCF-NLSIKG---HAE-CVKFMRSFNVPLLLLGG 308 (493)
Q Consensus 243 ~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~-nLT~~g---~~~-~v~~l~~~~~pllvlgg 308 (493)
+.+...|+.++. .+.+.+||+||+. ||=.-.. ..+... ..+ +.+.++..++|++++.|
T Consensus 22 ~~~~~~l~~ii~-~a~~~~vD~Vlia-------GDlfD~~~~~~~~~~~~~~~~l~~~L~~~gi~v~~I~G 84 (340)
T PHA02546 22 NYQLKFIKQAIE-YSKAHGITTWIQL-------GDTFDVRKAITQNTMNFVREKIFDLLKEAGITLHVLVG 84 (340)
T ss_pred HHHHHHHHHHHH-HHHHcCCCEEEEC-------CcccCCCCCCCHHHHHHHHHHHHHHHHHCCCeEEEEcc
Confidence 356678888764 5678899999885 5543332 222222 222 34556667889888754
No 98
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=23.43 E-value=1.1e+02 Score=29.55 Aligned_cols=44 Identities=27% Similarity=0.573 Sum_probs=27.1
Q ss_pred HHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHH----HHHHHHhc--CCCEEEEe
Q 011109 253 IGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAE----CVKFMRSF--NVPLLLLG 307 (493)
Q Consensus 253 v~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~----~v~~l~~~--~~pllvlg 307 (493)
+...+.+-+++++++.||.. .+.+.+.+ .++.+++. ..|||++-
T Consensus 51 ~a~~ia~~~a~~~~ld~~~N-----------~~~~~~~~~~~~fv~~iR~~hP~tPIllv~ 100 (178)
T PF14606_consen 51 VADLIAEIDADLIVLDCGPN-----------MSPEEFRERLDGFVKTIREAHPDTPILLVS 100 (178)
T ss_dssp HHHHHHHS--SEEEEEESHH-----------CCTTTHHHHHHHHHHHHHTT-SSS-EEEEE
T ss_pred HHHHHhcCCCCEEEEEeecC-----------CCHHHHHHHHHHHHHHHHHhCCCCCEEEEe
Confidence 44555666889999999977 45555554 44555554 68999874
No 99
>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=23.00 E-value=97 Score=26.52 Aligned_cols=15 Identities=53% Similarity=0.930 Sum_probs=14.0
Q ss_pred CCcEEEEEccccCCh
Q 011109 175 HERVLYVDIDIHHGD 189 (493)
Q Consensus 175 ~~RVl~VDiDvHHGD 189 (493)
.++|++||.|.++++
T Consensus 29 ~~~~~l~d~d~~~~~ 43 (106)
T cd03111 29 GRRVLLVDLDLQFGD 43 (106)
T ss_pred CCcEEEEECCCCCCC
Confidence 789999999999987
No 100
>PF00581 Rhodanese: Rhodanese-like domain This Prosite entry represents a subset of this family.; InterPro: IPR001763 Rhodanese, a sulphurtransferase involved in cyanide detoxification (see IPR001307 from INTERPRO) shares evolutionary relationship with a large family of proteins [], including Cdc25 phosphatase catalytic domain. non-catalytic domains of eukaryotic dual-specificity MAPK-phosphatases. non-catalytic domains of yeast PTP-type MAPK-phosphatases. non-catalytic domains of yeast Ubp4, Ubp5, Ubp7. non-catalytic domains of mammalian Ubp-Y. Drosophila heat shock protein HSP-67BB. several bacterial cold-shock and phage shock proteins. plant senescence associated proteins. catalytic and non-catalytic domains of rhodanese (see IPR001307 from INTERPRO). Rhodanese has an internal duplication. This domain is found as a single copy in other proteins, including phosphatases and ubiquitin C-terminal hydrolases [].; PDB: 2J6P_D 2FSX_A 1UAR_A 1OKG_A 1GMX_A 1GN0_A 3NTD_B 3NTA_B 3NT6_A 1C25_A ....
Probab=22.92 E-value=1.3e+02 Score=24.67 Aligned_cols=19 Identities=11% Similarity=0.408 Sum_probs=14.1
Q ss_pred HHHhcCCCEEEEeCCCCCC
Q 011109 295 FMRSFNVPLLLLGGGGYTI 313 (493)
Q Consensus 295 ~l~~~~~pllvlggGGY~~ 313 (493)
.++.++.+=+.++.|||.-
T Consensus 91 ~l~~~g~~~v~~l~GG~~~ 109 (113)
T PF00581_consen 91 ILKKLGFKNVYILDGGFEA 109 (113)
T ss_dssp HHHHTTTSSEEEETTHHHH
T ss_pred HHHHcCCCCEEEecChHHH
Confidence 3666777667888999873
No 101
>PRK10818 cell division inhibitor MinD; Provisional
Probab=22.78 E-value=87 Score=30.92 Aligned_cols=59 Identities=7% Similarity=0.004 Sum_probs=32.5
Q ss_pred HHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchhhHHHHHH
Q 011109 249 FKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCWCYE 323 (493)
Q Consensus 249 f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~var~w~~~ 323 (493)
+..+|..+ +..+.|+||+=|+... +.. ....+.....-++++--+....+++.+.+..+
T Consensus 102 ~~~~l~~l-~~~~yd~viiD~p~~~------~~~---------~~~~l~~ad~vivv~~p~~~sl~~~~~~l~~i 160 (270)
T PRK10818 102 VAKVLDDL-KAMDFEFIVCDSPAGI------ETG---------ALMALYFADEAIITTNPEVSSVRDSDRILGIL 160 (270)
T ss_pred HHHHHHHH-hhcCCCEEEEeCCCCc------cHH---------HHHHHHhCCeEEEEcCCCchHHHhHHHHHHHH
Confidence 34445443 3346799999887322 111 12234555665666666666677776655443
No 102
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=22.69 E-value=17 Score=29.29 Aligned_cols=51 Identities=22% Similarity=0.514 Sum_probs=40.6
Q ss_pred HHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHH----HHHHHHHHhcCC
Q 011109 251 PIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGH----AECVKFMRSFNV 301 (493)
Q Consensus 251 ~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~----~~~v~~l~~~~~ 301 (493)
++|..+.++|+-++=|++++.|...+.|+|.|-+...|- .+.+++|++.++
T Consensus 17 piis~l~~~~~v~~nIl~g~i~~i~~~~~G~l~l~l~g~~~~~~~a~~~L~~~~v 71 (76)
T PF09383_consen 17 PIISQLIREFGVDVNILHGNIEEIQGTPFGILILELPGDDEEIEKAIAYLREQGV 71 (76)
T ss_dssp CHHHHHHHHHT-EEEEEEEEEEEETTEEEEEEEEEEES-HHHHHHHHHHHHHTTE
T ss_pred hHHHHHHHHhCCCEEEEEEEeEEcCCeeEEEEEEEEECCHHHHHHHHHHHHHCCC
Confidence 678889999999999999999999999999987766544 456667776554
No 103
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=22.62 E-value=79 Score=31.44 Aligned_cols=16 Identities=13% Similarity=0.204 Sum_probs=13.4
Q ss_pred cCCcEEEEEccccCCh
Q 011109 174 QHERVLYVDIDIHHGD 189 (493)
Q Consensus 174 ~~~RVl~VDiDvHHGD 189 (493)
..+|||+||+|.++..
T Consensus 30 ~G~rvLliD~Dpq~~~ 45 (275)
T PRK13233 30 HDKKVFIHGCDPKADS 45 (275)
T ss_pred cCCeEEEeccCcCcCh
Confidence 4789999999998654
No 104
>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=22.57 E-value=3.1e+02 Score=29.63 Aligned_cols=69 Identities=14% Similarity=0.279 Sum_probs=41.6
Q ss_pred HHHHHHhHhhhcCCCEEEEecCCC-CCCCCCCCccccCHHHHHHHHHHHHh-----cCCCEEEEeCCCCCCchhhHHHHH
Q 011109 249 FKPIIGKVMEVFRPGAVVLQCGAD-SLSGDRLGCFNLSIKGHAECVKFMRS-----FNVPLLLLGGGGYTIRNVARCWCY 322 (493)
Q Consensus 249 f~~iv~pv~~~f~PdlIVvqaG~D-sl~gDpLG~~nLT~~g~~~~v~~l~~-----~~~pllvlggGGY~~~~var~w~~ 322 (493)
+++.|..+.++|+|++|+|..++= ...||- ...+++.++. .+.|++.+--.||.-. ....|..
T Consensus 69 L~~~i~~~~~~~~p~~I~V~ttc~~eiIGdD----------i~~v~~~~~~~~p~~~~~~vi~v~t~gf~g~-~~~G~~~ 137 (417)
T cd01966 69 LEEALDTLAERAKPKVIGLLSTGLTETRGED----------IAGALKQFRAEHPELADVPVVYVSTPDFEGS-LEDGWAA 137 (417)
T ss_pred HHHHHHHHHHhcCCCEEEEECCCcccccccC----------HHHHHHHHHhhccccCCCeEEEecCCCCCCc-HHHHHHH
Confidence 344555677789999887765532 223332 2334444432 3789999999999873 4455555
Q ss_pred HHHHHc
Q 011109 323 ETGVAL 328 (493)
Q Consensus 323 ~t~~ll 328 (493)
....++
T Consensus 138 a~~al~ 143 (417)
T cd01966 138 AVEAII 143 (417)
T ss_pred HHHHHH
Confidence 444443
No 105
>PRK00942 acetylglutamate kinase; Provisional
Probab=22.56 E-value=2.9e+02 Score=27.94 Aligned_cols=62 Identities=11% Similarity=0.319 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCC
Q 011109 244 SYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYT 312 (493)
Q Consensus 244 ~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~ 312 (493)
.....|++.. |-+..|+=..||+-.|-.++.... ..+...+.+..+++.+.++++|.|||-.
T Consensus 6 ~~~~~~r~~~-~yi~~~~~~~iViK~GGs~l~~~~------~~~~l~~~i~~l~~~g~~vVlVhGgg~~ 67 (283)
T PRK00942 6 EKAEVLSEAL-PYIQRFMGKTIVIKYGGNAMTDEE------LKEAFARDIVLLKQVGINPVVVHGGGPQ 67 (283)
T ss_pred HHHHHHHHHH-HHHHHHcCCeEEEEEChHHhcCcc------hHHHHHHHHHHHHHCCCCEEEEeCChHH
Confidence 4566777754 778889888999999988875442 1233445566667788888888887654
No 106
>cd02065 B12-binding_like B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins. Not all members of this family contain the conserved binding motif.
Probab=22.53 E-value=2.2e+02 Score=24.21 Aligned_cols=15 Identities=13% Similarity=-0.099 Sum_probs=11.5
Q ss_pred HhhhcCCCEEEEecC
Q 011109 256 VMEVFRPGAVVLQCG 270 (493)
Q Consensus 256 v~~~f~PdlIVvqaG 270 (493)
.+.+.+||+|.+++-
T Consensus 45 ~i~~~~pdiV~iS~~ 59 (125)
T cd02065 45 AAKEEDADVVGLSAL 59 (125)
T ss_pred HHHHcCCCEEEEecc
Confidence 344589999999974
No 107
>COG1091 RfbD dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]
Probab=22.07 E-value=1.2e+02 Score=31.42 Aligned_cols=65 Identities=15% Similarity=0.239 Sum_probs=48.9
Q ss_pred HHhHhhhcCCCEEEEecCC---CCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEE-------eCC--CCCCchhh
Q 011109 253 IGKVMEVFRPGAVVLQCGA---DSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLL-------GGG--GYTIRNVA 317 (493)
Q Consensus 253 v~pv~~~f~PdlIVvqaG~---Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvl-------ggG--GY~~~~va 317 (493)
+..++++.+||+||-.+.+ |....+|.-.|.+...|-..+.+..++.+.++|-+ |.+ .|......
T Consensus 42 v~~~i~~~~PDvVIn~AAyt~vD~aE~~~e~A~~vNa~~~~~lA~aa~~~ga~lVhiSTDyVFDG~~~~~Y~E~D~~ 118 (281)
T COG1091 42 VLEVIRETRPDVVINAAAYTAVDKAESEPELAFAVNATGAENLARAAAEVGARLVHISTDYVFDGEKGGPYKETDTP 118 (281)
T ss_pred HHHHHHhhCCCEEEECccccccccccCCHHHHHHhHHHHHHHHHHHHHHhCCeEEEeecceEecCCCCCCCCCCCCC
Confidence 4566777899999999874 77777887788888888888888888888887633 444 38765443
No 108
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=21.95 E-value=1.9e+02 Score=27.70 Aligned_cols=48 Identities=13% Similarity=0.296 Sum_probs=31.9
Q ss_pred hHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC---CEEEEeCCCCCC
Q 011109 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNV---PLLLLGGGGYTI 313 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~---pllvlggGGY~~ 313 (493)
..+.+.+||+|.+|+=... +.....++++.+++.+. ..+++||...+.
T Consensus 127 ~~~~~~~~d~v~lS~~~~~-----------~~~~~~~~i~~lr~~~~~~~~~i~vGG~~~~~ 177 (201)
T cd02070 127 EAVKEHKPDILGLSALMTT-----------TMGGMKEVIEALKEAGLRDKVKVMVGGAPVNQ 177 (201)
T ss_pred HHHHHcCCCEEEEeccccc-----------cHHHHHHHHHHHHHCCCCcCCeEEEECCcCCH
Confidence 4567889999999964222 34455678888887643 346666666553
No 109
>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=21.91 E-value=2.5e+02 Score=30.11 Aligned_cols=66 Identities=11% Similarity=0.213 Sum_probs=39.3
Q ss_pred HHHHHHhHhhhcCCCEEEE-ecCCCCCCCCCCCccccCHHHHHHHHHHHHh-----cCCCEEEEeCCCCCCchhhHHHHH
Q 011109 249 FKPIIGKVMEVFRPGAVVL-QCGADSLSGDRLGCFNLSIKGHAECVKFMRS-----FNVPLLLLGGGGYTIRNVARCWCY 322 (493)
Q Consensus 249 f~~iv~pv~~~f~PdlIVv-qaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~-----~~~pllvlggGGY~~~~var~w~~ 322 (493)
+++.|..+.+.|+|++|+| ++....+.||-+ ..+++.++. .+.|++.+--.||.- +....|..
T Consensus 69 L~~~i~~~~~~~~p~~I~v~~tC~~~liGdDi----------~~v~~~~~~~~~~~~~~~vi~v~tpgf~g-~~~~G~~~ 137 (428)
T cd01965 69 LIEALKNLLSRYKPDVIGVLTTCLTETIGDDV----------AGFIKEFRAEGPEPADFPVVYASTPSFKG-SHETGYDN 137 (428)
T ss_pred HHHHHHHHHHhcCCCEEEEECCcchhhcCCCH----------HHHHHHHHhhccCCCCCeEEEeeCCCCCC-cHHHHHHH
Confidence 3455667778899997655 444555666632 234455543 577888887888874 33344444
Q ss_pred HHH
Q 011109 323 ETG 325 (493)
Q Consensus 323 ~t~ 325 (493)
...
T Consensus 138 a~~ 140 (428)
T cd01965 138 AVK 140 (428)
T ss_pred HHH
Confidence 333
No 110
>cd07383 MPP_Dcr2 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain. DCR2 phosphatase (Dosage-dependent Cell Cycle Regulator 2) functions together with DCR1 (Gid8) in a common pathway to accelerate initiation of DNA replication in Saccharomyces cerevisiae. Genetic analysis suggests that DCR1 functions upstream of DCR2. DCR2 interacts with and dephosphorylates Sic1, an inhibitor of mitotic cyclin/cyclin-dependent kinase complexes, which may serve to trigger the initiation of cell division. DCR2 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAP
Probab=21.84 E-value=2.9e+02 Score=25.95 Aligned_cols=49 Identities=27% Similarity=0.316 Sum_probs=27.0
Q ss_pred HHhHhhhcCCCEEEEecCCCCCCCCCCCccccC---HHHHHHHHHHHHhcCCCEEEEeC
Q 011109 253 IGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLS---IKGHAECVKFMRSFNVPLLLLGG 308 (493)
Q Consensus 253 v~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT---~~g~~~~v~~l~~~~~pllvlgg 308 (493)
+..+++..+||+||+. ||=.....-. ..-+.++++.+...++|+.++.|
T Consensus 33 ~~~~~~~~~~d~vv~~-------GDl~~~~~~~~~~~~~~~~~~~~l~~~~~p~~~~~G 84 (199)
T cd07383 33 IERVLDAEKPDLVVLT-------GDLITGENTNDNSTSALDKAVSPMIDRKIPWAATFG 84 (199)
T ss_pred HHHHHhhcCCCEEEEC-------CccccCCCCchHHHHHHHHHHHHHHHcCCCEEEECc
Confidence 3445667799998765 4432222111 22333444555556889887654
No 111
>TIGR02482 PFKA_ATP 6-phosphofructokinase. 6-phosphofructokinase (EC 2.7.1.11) catalyzes the addition of phosphate from ATP to fructose 6-phosphate to give fructose 1,6-bisphosphate. This represents a key control step in glycolysis. This model hits bacterial ATP-dependent 6-phosphofructokinases which lack a beta-hairpin loop present in TIGR02483 family members. TIGR02483 contains members that are ATP-dependent as well as members that are pyrophosphate-dependent. TIGR02477 represents the pyrophosphate-dependent phosphofructokinase, diphosphate--fructose-6-phosphate 1-phosphotransferase (EC 2.7.1.90).
Probab=21.53 E-value=2.8e+02 Score=28.85 Aligned_cols=98 Identities=11% Similarity=0.227 Sum_probs=60.9
Q ss_pred hHHHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCC-------------------Cc--cc--cCHHHHHHHHHHHHh
Q 011109 242 DESYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRL-------------------GC--FN--LSIKGHAECVKFMRS 298 (493)
Q Consensus 242 D~~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpL-------------------G~--~n--LT~~g~~~~v~~l~~ 298 (493)
-...-.+++.++..+.+ .+.+++-+.-|+.++..+.+ |. .+ .+.+.+.++++.+++
T Consensus 11 apG~Na~i~~vv~~a~~-~g~~v~G~~~G~~GL~~~~~~~l~~~~v~~~~~~gGt~LgtsR~~~~~~~~~~~~~~~~l~~ 89 (301)
T TIGR02482 11 APGMNAAIRAVVRTAIY-HGFEVYGIRRGYKGLINGEIKPLESKNVSGIIHRGGTILGTARCPEFKTEEGRQKAVENLKK 89 (301)
T ss_pred cHHHHHHHHHHHHHHHH-CCCEEEEEecCHHHhcCCCeEeCCHHHHhhHHhCCCceeccCCCCccCCHHHHHHHHHHHHH
Confidence 34566677777765443 46788888888888765421 11 10 134567788999999
Q ss_pred cCCCEEEEeCCCCCCchhhHHHHHHHHHHcCC--CCCCCCCCch
Q 011109 299 FNVPLLLLGGGGYTIRNVARCWCYETGVALGV--EVDDKMPQHE 340 (493)
Q Consensus 299 ~~~pllvlggGGY~~~~var~w~~~t~~llg~--~~~~~iP~~~ 340 (493)
+++..|++.||-=+.+...+.+.+.---.+|. .+++++|..+
T Consensus 90 ~~Id~Li~IGGdgs~~~a~~L~e~~~i~vigiPkTIDNDl~~td 133 (301)
T TIGR02482 90 LGIEGLVVIGGDGSYTGAQKLYEEGGIPVIGLPGTIDNDIPGTD 133 (301)
T ss_pred cCCCEEEEeCCchHHHHHHHHHHhhCCCEEeecccccCCCcCcc
Confidence 99999999888777766655543210112332 2567777554
No 112
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=21.32 E-value=3.7e+02 Score=29.01 Aligned_cols=65 Identities=14% Similarity=0.168 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCH---HHHHHHHHHHHhcCCCEEEEeCCCCCCchhhHH
Q 011109 244 SYHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSI---KGHAECVKFMRSFNVPLLLLGGGGYTIRNVARC 319 (493)
Q Consensus 244 ~yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~---~g~~~~v~~l~~~~~pllvlggGGY~~~~var~ 319 (493)
+...+++.++ .++.+.+||+||+. ||=.-..+-+. .-+.+++..++..++|++++. | |..+..+.
T Consensus 23 ~~~~~l~~l~-~~i~~~~~D~viIa-------GDifD~~~p~~~a~~~~~~~l~~L~~~~~~v~~I~-G--NHD~~~~l 90 (407)
T PRK10966 23 EHQAFLDWLL-EQVQEHQVDAIIVA-------GDIFDTGSPPSYARELYNRFVVNLQQTGCQLVVLA-G--NHDSVATL 90 (407)
T ss_pred HHHHHHHHHH-HHHHhcCCCEEEEC-------CccccCCCCcHHHHHHHHHHHHHHHhcCCcEEEEc-C--CCCChhhh
Confidence 4555565555 46678999999986 45332222221 123344455666678877764 4 44444443
No 113
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=21.18 E-value=2e+02 Score=26.88 Aligned_cols=27 Identities=15% Similarity=0.170 Sum_probs=15.1
Q ss_pred hHHHHHHHHHHHHhHhhhcCCCEEEEe
Q 011109 242 DESYHYLFKPIIGKVMEVFRPGAVVLQ 268 (493)
Q Consensus 242 D~~yl~~f~~iv~pv~~~f~PdlIVvq 268 (493)
|.....-+...+..++.+++|++|+|+
T Consensus 44 ~~~~~~~~~~~l~~~i~~~kP~vI~v~ 70 (150)
T PF14639_consen 44 DRERKEEDMERLKKFIEKHKPDVIAVG 70 (150)
T ss_dssp -SS-SHHHHHHHHHHHHHH--SEEEE-
T ss_pred chHHHHHHHHHHHHHHHHcCCeEEEEc
Confidence 334444444555567788999999994
No 114
>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=21.17 E-value=83 Score=32.57 Aligned_cols=47 Identities=21% Similarity=0.315 Sum_probs=35.7
Q ss_pred cCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchhhHHH
Q 011109 269 CGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARCW 320 (493)
Q Consensus 269 aG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~var~w 320 (493)
+|+|...-| |++++...++++.+++.+..+.+.--||=|..|++...
T Consensus 215 ~GaD~I~LD-----n~~~e~l~~av~~~~~~~~~i~leAsGGIt~~ni~~ya 261 (288)
T PRK07428 215 YGADIIMLD-----NMPVDLMQQAVQLIRQQNPRVKIEASGNITLETIRAVA 261 (288)
T ss_pred cCCCEEEEC-----CCCHHHHHHHHHHHHhcCCCeEEEEECCCCHHHHHHHH
Confidence 445555444 78889999999998876666677778999999998764
No 115
>cd02653 nuc_hydro_3 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity.
Probab=21.15 E-value=1.6e+02 Score=30.73 Aligned_cols=47 Identities=17% Similarity=0.321 Sum_probs=31.3
Q ss_pred HHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCC
Q 011109 253 IGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYT 312 (493)
Q Consensus 253 v~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~ 312 (493)
|...++++. ++.||+.| ||..+-+-..-+.++.+. +.-|+++||.+.
T Consensus 105 i~~~~~~~~-eitiva~G-------PLTNlA~al~~~P~~~~~-----ik~iviMGG~~~ 151 (320)
T cd02653 105 WVDLARAHP-DLIGLATG-------PLTNLALALREEPELPRL-----LRRLVIMGGAFN 151 (320)
T ss_pred HHHHHHhCC-CeEEEECC-------chHHHHHHHHHChHHHHh-----cCEEEEECCCcC
Confidence 345667777 99999999 887766544444444443 345788888864
No 116
>cd04241 AAK_FomA-like AAK_FomA-like: This CD includes a fosfomycin biosynthetic gene product, FomA, and similar proteins found in a wide range of organisms. Together, the fomA and fomB genes in the fosfomycin biosynthetic gene cluster of Streptomyces wedmorensis confer high-level fosfomycin resistance. FomA and FomB proteins converted fosfomycin to fosfomycin monophosphate and fosfomycin diphosphate in the presence of ATP and a magnesium ion, indicating that FomA and FomB catalyzed phosphorylations of fosfomycin and fosfomycin monophosphate, respectively. FomA and related sequences in this CD are members of the Amino Acid Kinase Superfamily (AAK).
Probab=21.14 E-value=1.9e+02 Score=28.51 Aligned_cols=51 Identities=14% Similarity=0.204 Sum_probs=33.9
Q ss_pred EEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhc-CCCEEEEeCCCCCCchh
Q 011109 265 VVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSF-NVPLLLLGGGGYTIRNV 316 (493)
Q Consensus 265 IVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~-~~pllvlggGGY~~~~v 316 (493)
|||-.|--.+..+. +.-.+...-..++++.++++ +.++++|.|||.-....
T Consensus 2 iVIKiGGs~l~~~~-~~~~~~~~~l~~l~~~l~~l~g~~vvlVhGgg~~~~~~ 53 (252)
T cd04241 2 IILKLGGSVITDKD-RPETIREENLERIARELAEAIDEKLVLVHGGGSFGHPK 53 (252)
T ss_pred EEEEEeceEEEcCC-CCCccCHHHHHHHHHHHHhccCCCEEEEECCCcccCHH
Confidence 67777766665432 22335556667778888877 88888888888765433
No 117
>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=21.10 E-value=34 Score=27.67 Aligned_cols=11 Identities=45% Similarity=0.990 Sum_probs=8.3
Q ss_pred CcceeecHHHH
Q 011109 156 SGFCYVNDIVL 166 (493)
Q Consensus 156 sGFCy~NdvaI 166 (493)
--|||+||--+
T Consensus 16 TKFcYyNNy~~ 26 (63)
T PF02701_consen 16 TKFCYYNNYNL 26 (63)
T ss_pred CEEEeecCCCC
Confidence 46999998644
No 118
>PF01729 QRPTase_C: Quinolinate phosphoribosyl transferase, C-terminal domain; InterPro: IPR002638 Quinolinate phosphoribosyl transferase (QPRTase) or nicotinate-nucleotide pyrophosphorylase 2.4.2.19 from EC is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid with 5-phosphoribosyl-1-pyrophosphate (PRPP) in the presence of Mg2+ to give rise to nicotinic acid mononucleotide (NaMN), pyrophosphate and carbon dioxide [, ]. Unlike IPR004393 from INTERPRO, this domain also includes the molybdenum transport system protein ModD.; GO: 0004514 nicotinate-nucleotide diphosphorylase (carboxylating) activity, 0009435 NAD biosynthetic process; PDB: 3C2O_A 3C2F_A 3C2E_A 3C2R_A 3C2V_A 1QPN_E 1QPO_A 1QPQ_F 1QPR_E 2I14_D ....
Probab=21.06 E-value=48 Score=31.52 Aligned_cols=46 Identities=33% Similarity=0.457 Sum_probs=36.2
Q ss_pred cCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCCchhhHH
Q 011109 269 CGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTIRNVARC 319 (493)
Q Consensus 269 aG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~~~var~ 319 (493)
+|+|...-| |++++...++++.++..+.++.+..-||-|+.|++..
T Consensus 99 ~g~d~I~lD-----~~~~~~~~~~v~~l~~~~~~v~ie~SGGI~~~ni~~y 144 (169)
T PF01729_consen 99 AGADIIMLD-----NMSPEDLKEAVEELRELNPRVKIEASGGITLENIAEY 144 (169)
T ss_dssp TT-SEEEEE-----S-CHHHHHHHHHHHHHHTTTSEEEEESSSSTTTHHHH
T ss_pred hCCCEEEec-----CcCHHHHHHHHHHHhhcCCcEEEEEECCCCHHHHHHH
Confidence 566666556 3478889999999988888888889999999999875
No 119
>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=20.97 E-value=98 Score=28.62 Aligned_cols=24 Identities=17% Similarity=0.412 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHhHhhhcCCCEEEE
Q 011109 244 SYHYLFKPIIGKVMEVFRPGAVVL 267 (493)
Q Consensus 244 ~yl~~f~~iv~pv~~~f~PdlIVv 267 (493)
.+...+.+-+.+.+++++||+||-
T Consensus 72 ~~~~~~~~~l~~~l~~~~PD~IIs 95 (169)
T PF06925_consen 72 ALSRLFARRLIRLLREFQPDLIIS 95 (169)
T ss_pred HHHHHHHHHHHHHHhhcCCCEEEE
Confidence 455666677888999999999885
No 120
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=20.53 E-value=5.3e+02 Score=26.80 Aligned_cols=101 Identities=26% Similarity=0.391 Sum_probs=58.8
Q ss_pred HHHHHHhcC--CcEEEEEccccCChhhhhhhhcCCCEEEeecCCCCCCCCCCCCCCcccCCCCCccEeecCCCCCCChHH
Q 011109 167 AILELLKQH--ERVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKFGDYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDES 244 (493)
Q Consensus 167 Ai~~llk~~--~RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~g~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~D~~ 244 (493)
++.++.+.. +||.+|+-|-=.|.|..++|... +...| ++ -.+..+..++..|
T Consensus 138 ~~~~l~~~~~~k~v~ii~~~~~yg~~~~~~~~~~-------l~~~G----------------~~-~~~~~~~~~~~~~-- 191 (366)
T COG0683 138 AADYLVKKGGKKRVAIIGDDYAYGEGLADAFKAA-------LKALG----------------GE-VVVEEVYAPGDTD-- 191 (366)
T ss_pred HHHHHHHhcCCcEEEEEeCCCCcchhHHHHHHHH-------HHhCC----------------Ce-EEEEEeeCCCCCC--
Confidence 345565543 49999999999999999999642 11111 11 1222334444444
Q ss_pred HHHHHHHHHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEeCCCCCC
Q 011109 245 YHYLFKPIIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPLLLLGGGGYTI 313 (493)
Q Consensus 245 yl~~f~~iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pllvlggGGY~~ 313 (493)
|..+|.+ +...+||+|++..- ++.. ..+++.++..+..-.+++++|-..
T Consensus 192 ----~~~~v~~-i~~~~~d~v~~~~~-----~~~~----------~~~~r~~~~~G~~~~~~~~~~~~~ 240 (366)
T COG0683 192 ----FSALVAK-IKAAGPDAVLVGGY-----GPDA----------ALFLRQAREQGLKAKLIGGDGAGT 240 (366)
T ss_pred ----hHHHHHH-HHhcCCCEEEECCC-----Cccc----------hHHHHHHHHcCCCCccccccccCc
Confidence 5566665 56789996666532 2221 236777777776655554444443
No 121
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=20.18 E-value=95 Score=30.93 Aligned_cols=17 Identities=18% Similarity=0.262 Sum_probs=14.4
Q ss_pred hcCCcEEEEEccccCCh
Q 011109 173 KQHERVLYVDIDIHHGD 189 (493)
Q Consensus 173 k~~~RVl~VDiDvHHGD 189 (493)
+..+|||+||.|.+..+
T Consensus 27 ~~G~rVllvD~Dpq~~~ 43 (273)
T PRK13232 27 TMGNKILLVGCDPKADS 43 (273)
T ss_pred hhCCCeEEEeccccccc
Confidence 45789999999999765
No 122
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=20.15 E-value=2.4e+02 Score=25.89 Aligned_cols=36 Identities=6% Similarity=-0.023 Sum_probs=24.9
Q ss_pred hHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC
Q 011109 255 KVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNV 301 (493)
Q Consensus 255 pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~ 301 (493)
..+.+.+||+|.+|+ .+.-+.....++++.|++.+.
T Consensus 46 ~aa~~~~adiVglS~-----------l~~~~~~~~~~~~~~l~~~gl 81 (134)
T TIGR01501 46 KAAIETKADAILVSS-----------LYGHGEIDCKGLRQKCDEAGL 81 (134)
T ss_pred HHHHHcCCCEEEEec-----------ccccCHHHHHHHHHHHHHCCC
Confidence 345678999999984 122355567778888887654
No 123
>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=20.06 E-value=2.7e+02 Score=26.56 Aligned_cols=87 Identities=24% Similarity=0.349 Sum_probs=53.1
Q ss_pred cEEEEEccccCChhhhhhhhcCCCEEEeecCCC-CCCCCCCCCCCcccCCCCCccEeecCCCCCCChHHHHHHHHHHHHh
Q 011109 177 RVLYVDIDIHHGDGVEEAFYTTDRVMTVSFHKF-GDYFPGTGDIRDIGYSKGKFYSLNVPLDDGIDDESYHYLFKPIIGK 255 (493)
Q Consensus 177 RVl~VDiDvHHGDGtqeaF~~d~rVltiS~H~~-g~ffPgTG~~~eiG~g~G~g~~vNVPL~~G~~D~~yl~~f~~iv~p 255 (493)
|+|.+||-+.-..|.-++ ..++|+.||++.. |. ...+. ..+.+..+.+..|-.
T Consensus 4 ~~l~fDIEt~~~~gfp~~--~~d~Ii~Is~~~~~g~-----------------~~~~~---~~~~~E~~lL~~F~~---- 57 (188)
T cd05781 4 KTLAFDIEVYSKYGTPNP--RRDPIIVISLATSNGD-----------------VEFIL---AEGLDDRKIIREFVK---- 57 (188)
T ss_pred eEEEEEEEecCCCCCCCC--CCCCEEEEEEEeCCCC-----------------EEEEE---ecCCCHHHHHHHHHH----
Confidence 899999999855553222 3468999998664 21 01111 124556677777654
Q ss_pred HhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCE
Q 011109 256 VMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFMRSFNVPL 303 (493)
Q Consensus 256 v~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l~~~~~pl 303 (493)
.+++++||+|+ |+.+..-| ..-+.+.++.+++++
T Consensus 58 ~i~~~dPd~i~---gyN~~~FD-----------lpyl~~Ra~~~gi~~ 91 (188)
T cd05781 58 YVKEYDPDIIV---GYNSNAFD-----------WPYLVERARVLGVKL 91 (188)
T ss_pred HHHHcCCCEEE---ecCCCcCc-----------HHHHHHHHHHhCCCc
Confidence 55679999887 55444444 234666666677664
No 124
>KOG1432 consensus Predicted DNA repair exonuclease SIA1 [General function prediction only]
Probab=20.02 E-value=2.5e+02 Score=30.16 Aligned_cols=53 Identities=19% Similarity=0.214 Sum_probs=36.7
Q ss_pred HHHhHhhhcCCCEEEEecCCCCCCCCCCCccccCHHHHHHHHHHH----HhcCCCEEEEeCCCCCC
Q 011109 252 IIGKVMEVFRPGAVVLQCGADSLSGDRLGCFNLSIKGHAECVKFM----RSFNVPLLLLGGGGYTI 313 (493)
Q Consensus 252 iv~pv~~~f~PdlIVvqaG~Dsl~gDpLG~~nLT~~g~~~~v~~l----~~~~~pllvlggGGY~~ 313 (493)
.|..+++.=+||+||+. ||-+-+ -++..+..++... .+.++|.++++|-==..
T Consensus 91 F~~rvL~sE~PDlVVfT-------GD~i~g--~~t~Da~~sl~kAvaP~I~~~IPwA~~lGNHDde 147 (379)
T KOG1432|consen 91 FVSRVLASEKPDLVVFT-------GDNIFG--HSTQDAATSLMKAVAPAIDRKIPWAAVLGNHDDE 147 (379)
T ss_pred HHHHHHhccCCCEEEEe-------CCcccc--cccHhHHHHHHHHhhhHhhcCCCeEEEecccccc
Confidence 36677788899999986 665433 5667777665433 45699999998854333
Done!