Query 013038
Match_columns 451
No_of_seqs 293 out of 1654
Neff 6.0
Searched_HMMs 46136
Date Thu Mar 28 23:47:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013038.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013038hhsearch_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-141 3E-146 1057.3 35.3 422 2-445 4-425 (425)
2 PTZ00063 histone deacetylase; 100.0 2E-116 5E-121 911.6 41.8 387 3-412 2-392 (436)
3 PTZ00346 histone deacetylase; 100.0 9.5E-99 2E-103 775.9 39.1 375 3-400 18-405 (429)
4 COG0123 AcuC Deacetylases, inc 100.0 4E-82 8.7E-87 641.9 32.8 325 5-360 2-335 (340)
5 PF00850 Hist_deacetyl: Histon 100.0 9.2E-78 2E-82 605.4 25.3 298 12-339 1-311 (311)
6 KOG1343 Histone deacetylase co 100.0 1.1E-45 2.4E-50 404.9 23.2 322 22-392 463-794 (797)
7 KOG1344 Predicted histone deac 100.0 9.8E-41 2.1E-45 315.9 12.3 286 3-325 12-305 (324)
8 KOG1343 Histone deacetylase co 100.0 2.1E-33 4.5E-38 308.5 11.0 313 5-344 29-358 (797)
9 cd01835 SGNH_hydrolase_like_3 70.8 23 0.00049 32.4 8.2 62 243-305 41-102 (193)
10 cd04501 SGNH_hydrolase_like_4 69.1 18 0.00038 32.8 7.0 68 242-317 34-102 (183)
11 cd04237 AAK_NAGS-ABP AAK_NAGS- 68.4 12 0.00025 37.7 6.1 64 255-326 1-64 (280)
12 cd04502 SGNH_hydrolase_like_7 66.8 17 0.00037 32.6 6.4 68 242-317 25-95 (171)
13 cd01836 FeeA_FeeB_like SGNH_hy 66.8 16 0.00034 33.4 6.2 67 242-317 43-112 (191)
14 KOG0121 Nuclear cap-binding pr 64.7 5.1 0.00011 36.2 2.3 43 139-181 73-122 (153)
15 TIGR02855 spore_yabG sporulati 63.2 16 0.00035 36.9 5.8 58 263-321 144-207 (283)
16 COG3914 Spy Predicted O-linked 61.4 1.2E+02 0.0026 33.9 12.4 170 141-360 311-511 (620)
17 PF02310 B12-binding: B12 bind 60.1 20 0.00044 30.3 5.3 49 264-323 43-91 (121)
18 cd01825 SGNH_hydrolase_peri1 S 58.5 27 0.00059 31.5 6.2 71 242-318 27-103 (189)
19 TIGR03018 pepcterm_TyrKin exop 57.9 55 0.0012 30.8 8.3 24 258-281 134-157 (207)
20 PF05582 Peptidase_U57: YabG p 57.3 24 0.00053 35.8 5.9 58 263-321 145-208 (287)
21 TIGR00259 thylakoid_BtpA membr 56.6 62 0.0013 32.4 8.7 91 264-388 163-255 (257)
22 cd00840 MPP_Mre11_N Mre11 nucl 56.4 53 0.0012 30.5 7.9 59 253-319 23-84 (223)
23 cd01822 Lysophospholipase_L1_l 54.9 58 0.0013 29.0 7.6 66 242-318 39-108 (177)
24 PRK05279 N-acetylglutamate syn 54.3 38 0.00083 36.0 7.3 65 254-326 7-71 (441)
25 TIGR01890 N-Ac-Glu-synth amino 53.9 23 0.0005 37.6 5.5 62 256-325 1-62 (429)
26 cd01443 Cdc25_Acr2p Cdc25 enzy 53.7 65 0.0014 27.1 7.3 66 242-323 42-109 (113)
27 cd01828 sialate_O-acetylestera 53.5 48 0.001 29.5 6.9 42 270-317 46-93 (169)
28 cd02068 radical_SAM_B12_BD B12 53.1 44 0.00095 28.9 6.3 50 262-323 29-78 (127)
29 COG1618 Predicted nucleotide k 52.4 58 0.0013 30.8 7.1 59 241-318 79-137 (179)
30 KOG2749 mRNA cleavage and poly 51.3 1.1E+02 0.0023 32.5 9.6 67 242-320 174-248 (415)
31 cd01832 SGNH_hydrolase_like_1 48.9 64 0.0014 29.0 7.0 51 261-317 57-111 (185)
32 cd01841 NnaC_like NnaC (CMP-Ne 48.1 65 0.0014 28.8 6.8 68 242-316 26-95 (174)
33 cd01829 SGNH_hydrolase_peri2 S 46.2 62 0.0013 29.6 6.5 22 264-285 51-72 (200)
34 PRK12755 phospho-2-dehydro-3-d 44.6 70 0.0015 33.5 7.1 32 148-182 244-277 (353)
35 TIGR00034 aroFGH phospho-2-deh 43.6 93 0.002 32.6 7.8 30 150-182 239-270 (344)
36 PRK14476 nitrogenase molybdenu 42.4 68 0.0015 34.6 6.9 70 259-339 79-154 (455)
37 COG0420 SbcD DNA repair exonuc 41.3 1E+02 0.0022 32.0 8.0 60 252-319 21-83 (390)
38 cd01830 XynE_like SGNH_hydrola 41.1 60 0.0013 30.2 5.6 50 267-316 69-124 (204)
39 PF13472 Lipase_GDSL_2: GDSL-l 41.0 20 0.00044 31.1 2.3 40 242-283 33-72 (179)
40 cd01838 Isoamyl_acetate_hydrol 40.9 62 0.0013 29.2 5.6 52 265-317 53-113 (199)
41 TIGR01969 minD_arch cell divis 39.3 32 0.00068 32.8 3.5 19 159-177 25-43 (251)
42 cd01833 XynB_like SGNH_hydrola 39.1 75 0.0016 27.8 5.7 39 266-310 34-76 (157)
43 cd01820 PAF_acetylesterase_lik 38.5 46 0.00099 31.3 4.4 44 268-317 85-134 (214)
44 TIGR01278 DPOR_BchB light-inde 38.5 60 0.0013 35.4 5.9 58 259-326 72-130 (511)
45 KOG3147 6-phosphogluconolacton 38.3 1.3E+02 0.0028 30.1 7.5 47 240-288 109-158 (252)
46 TIGR01285 nifN nitrogenase mol 38.3 1.1E+02 0.0024 32.6 7.8 70 259-339 78-153 (432)
47 CHL00073 chlN photochlorophyll 38.1 53 0.0011 35.6 5.2 55 259-323 84-140 (457)
48 CHL00076 chlB photochlorophyll 37.8 85 0.0018 34.4 6.9 60 258-327 71-132 (513)
49 CHL00202 argB acetylglutamate 36.9 83 0.0018 31.6 6.2 64 255-325 6-69 (284)
50 cd01844 SGNH_hydrolase_like_6 36.8 73 0.0016 28.8 5.4 47 265-316 50-98 (177)
51 PRK13236 nitrogenase reductase 36.5 38 0.00082 34.1 3.7 24 160-184 31-54 (296)
52 cd01967 Nitrogenase_MoFe_alpha 36.0 96 0.0021 32.3 6.8 71 259-339 74-146 (406)
53 PRK04531 acetylglutamate kinas 35.1 62 0.0013 34.4 5.1 52 266-325 25-80 (398)
54 PF10609 ParA: ParA/MinD ATPas 34.9 1.2E+02 0.0026 25.1 5.7 55 245-319 6-61 (81)
55 cd06167 LabA_like LabA_like pr 34.8 1.5E+02 0.0032 26.0 6.9 44 269-327 96-139 (149)
56 cd00229 SGNH_hydrolase SGNH_hy 34.7 1.3E+02 0.0027 25.6 6.3 58 265-322 58-117 (187)
57 PF04321 RmlD_sub_bind: RmlD s 33.6 12 0.00026 37.3 -0.5 55 263-317 42-99 (286)
58 PF06866 DUF1256: Protein of u 33.4 1.4E+02 0.003 28.0 6.5 40 253-292 5-44 (163)
59 cd01966 Nitrogenase_NifN_1 Nit 32.4 1.6E+02 0.0034 31.4 7.7 71 259-340 68-144 (417)
60 PRK10528 multifunctional acyl- 32.2 1.9E+02 0.0042 26.7 7.5 65 242-317 46-114 (191)
61 PRK11148 cyclic 3',5'-adenosin 32.1 1.8E+02 0.0039 28.6 7.6 55 257-320 39-94 (275)
62 TIGR03282 methan_mark_13 putat 31.7 3.2E+02 0.0069 28.8 9.4 69 259-340 62-132 (352)
63 TIGR00583 mre11 DNA repair pro 31.2 1.9E+02 0.0042 30.8 8.1 49 253-309 24-72 (405)
64 PF03437 BtpA: BtpA family; I 31.2 1.2E+02 0.0027 30.2 6.3 66 262-341 162-228 (254)
65 cd07388 MPP_Tt1561 Thermus the 30.7 2E+02 0.0043 28.0 7.5 52 259-319 19-70 (224)
66 cd07402 MPP_GpdQ Enterobacter 30.7 1.8E+02 0.0039 27.5 7.2 57 254-319 21-78 (240)
67 COG0455 flhG Antiactivator of 30.3 1.1E+02 0.0025 30.5 5.9 36 247-284 85-124 (262)
68 PLN02512 acetylglutamate kinas 29.9 1.5E+02 0.0033 30.2 6.8 65 253-324 28-92 (309)
69 TIGR02931 anfK_nitrog Fe-only 29.9 1.8E+02 0.0038 31.5 7.6 70 260-340 80-160 (461)
70 cd01981 Pchlide_reductase_B Pc 29.7 1.2E+02 0.0025 32.2 6.2 57 259-325 72-130 (430)
71 cd01971 Nitrogenase_VnfN_like 29.0 1.1E+02 0.0023 32.6 5.7 58 259-326 73-131 (427)
72 COG1654 BirA Biotin operon rep 28.9 37 0.0008 28.0 1.8 53 280-332 15-68 (79)
73 CHL00175 minD septum-site dete 28.8 58 0.0013 32.0 3.5 21 159-179 40-60 (281)
74 cd01972 Nitrogenase_VnfE_like 28.6 1.4E+02 0.0031 31.6 6.6 73 258-340 75-149 (426)
75 PLN02825 amino-acid N-acetyltr 28.3 86 0.0019 34.5 5.0 63 256-326 1-63 (515)
76 KOG4013 Predicted Cu2+ homeost 27.9 64 0.0014 31.3 3.3 43 277-330 154-197 (255)
77 cd03466 Nitrogenase_NifN_2 Nit 27.8 2.3E+02 0.0049 30.2 8.0 71 259-340 71-146 (429)
78 PF02585 PIG-L: GlcNAc-PI de-N 27.0 1.4E+02 0.0029 25.7 5.2 38 247-284 75-112 (128)
79 cd02067 B12-binding B12 bindin 26.8 1.7E+02 0.0037 24.8 5.7 47 266-323 44-92 (119)
80 PF00581 Rhodanese: Rhodanese- 26.8 1E+02 0.0022 25.0 4.2 18 306-323 91-108 (113)
81 cd01965 Nitrogenase_MoFe_beta_ 26.8 2E+02 0.0044 30.4 7.4 69 259-338 68-142 (428)
82 PRK10818 cell division inhibit 26.1 72 0.0016 31.1 3.6 17 161-177 29-45 (270)
83 COG3172 NadR Predicted ATPase/ 26.0 2E+02 0.0044 27.3 6.2 63 263-325 105-170 (187)
84 cd05785 DNA_polB_like2_exo Unc 25.8 3.4E+02 0.0075 25.9 8.1 70 203-277 3-78 (207)
85 KOG2733 Uncharacterized membra 25.8 1.5E+02 0.0033 31.4 5.9 49 251-301 116-164 (423)
86 cd03111 CpaE_like This protein 25.6 78 0.0017 26.6 3.3 15 163-177 29-43 (106)
87 cd01839 SGNH_arylesterase_like 25.6 2.3E+02 0.005 26.2 6.8 36 270-310 77-117 (208)
88 cd01821 Rhamnogalacturan_acety 25.5 1.8E+02 0.0038 26.7 6.0 45 272-317 65-113 (198)
89 TIGR02482 PFKA_ATP 6-phosphofr 25.3 3.2E+02 0.0069 27.9 8.2 98 252-351 10-133 (301)
90 PRK15005 universal stress prot 25.2 1.8E+02 0.004 24.8 5.7 45 263-317 98-143 (144)
91 TIGR02026 BchE magnesium-proto 24.9 1.5E+02 0.0032 32.3 6.0 46 265-322 56-101 (497)
92 PF09383 NIL: NIL domain; Int 24.1 22 0.00047 28.2 -0.4 51 262-312 17-71 (76)
93 TIGR02370 pyl_corrinoid methyl 24.1 1.7E+02 0.0037 27.7 5.7 37 265-312 128-164 (197)
94 COG0434 SgcQ Predicted TIM-bar 23.8 4.3E+02 0.0094 26.5 8.3 68 260-341 165-233 (263)
95 KOG3363 Uncharacterized conser 23.8 1.1E+02 0.0024 28.8 4.0 60 241-317 87-146 (196)
96 PRK13234 nifH nitrogenase redu 23.6 74 0.0016 32.0 3.2 24 159-183 28-51 (295)
97 PRK13233 nifH nitrogenase redu 23.1 73 0.0016 31.2 3.0 16 162-177 30-45 (275)
98 cd03110 Fer4_NifH_child This p 23.1 60 0.0013 29.5 2.3 14 164-177 25-38 (179)
99 KOG3838 Mannose lectin ERGIC-5 23.0 38 0.00083 35.9 1.0 41 174-218 167-207 (497)
100 cd00363 PFK Phosphofructokinas 22.9 4.6E+02 0.01 27.1 9.0 81 252-333 11-114 (338)
101 TIGR01283 nifE nitrogenase mol 22.8 2.1E+02 0.0046 30.6 6.7 63 259-332 108-172 (456)
102 TIGR00619 sbcd exonuclease Sbc 22.6 3.9E+02 0.0084 26.2 8.0 62 255-327 23-88 (253)
103 cd02036 MinD Bacterial cell di 22.5 77 0.0017 28.2 2.8 20 158-177 23-42 (179)
104 COG2047 Uncharacterized protei 22.4 1.1E+02 0.0024 30.3 3.9 44 273-323 84-127 (258)
105 PRK12756 phospho-2-dehydro-3-d 22.2 3.6E+02 0.0078 28.3 7.8 27 149-178 242-270 (348)
106 cd05781 DNA_polB_B3_exo DEDDy 21.9 4.9E+02 0.011 24.4 8.2 47 250-314 45-91 (188)
107 PRK07428 nicotinate-nucleotide 21.8 85 0.0019 31.9 3.2 47 280-331 215-261 (288)
108 PRK13232 nifH nitrogenase redu 21.7 92 0.002 30.6 3.4 17 161-177 27-43 (273)
109 TIGR01968 minD_bact septum sit 21.7 98 0.0021 29.5 3.5 20 158-177 25-44 (261)
110 KOG0782 Predicted diacylglycer 21.4 3E+02 0.0065 30.9 7.3 78 273-364 416-531 (1004)
111 PF02701 zf-Dof: Dof domain, z 21.1 31 0.00067 27.2 -0.1 10 144-153 16-25 (63)
112 PF06925 MGDG_synth: Monogalac 20.9 1E+02 0.0022 28.0 3.3 25 254-278 71-95 (169)
113 TIGR01279 DPOR_bchN light-inde 20.7 2.1E+02 0.0045 30.3 6.0 56 259-324 71-128 (407)
114 PRK07896 nicotinate-nucleotide 20.6 85 0.0018 32.0 2.9 47 278-329 216-262 (289)
115 cd01139 TroA_f Periplasmic bin 20.6 2.7E+02 0.0059 28.0 6.7 62 268-342 87-148 (342)
116 cd02065 B12-binding_like B12 b 20.6 2.6E+02 0.0057 23.3 5.7 15 267-281 45-59 (125)
117 PRK00942 acetylglutamate kinas 20.6 3.6E+02 0.0078 26.8 7.4 63 254-323 5-67 (283)
118 PRK11411 fecB iron-dicitrate t 20.5 5.3E+02 0.011 25.5 8.7 57 267-342 96-152 (303)
119 KOG1615 Phosphoserine phosphat 20.5 2E+02 0.0043 28.1 5.1 79 298-383 91-169 (227)
120 cd07396 MPP_Nbla03831 Homo sap 20.3 3.2E+02 0.007 26.7 6.9 56 257-319 26-81 (267)
121 cd01148 TroA_a Metal binding p 20.1 2.3E+02 0.0049 27.6 5.8 63 267-342 74-142 (284)
122 PLN02905 beta-amylase 20.1 1.3E+02 0.0028 34.0 4.3 58 211-284 340-438 (702)
123 PLN02705 beta-amylase 20.0 1.3E+02 0.0029 33.9 4.3 58 211-284 322-420 (681)
No 1
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]
Probab=100.00 E-value=1.4e-141 Score=1057.29 Aligned_cols=422 Identities=64% Similarity=1.170 Sum_probs=408.3
Q ss_pred CCCCeEEEEEcccccCCCCCCCCCCChHHHHHHHHHHHhCCCCCCceEeCCCCCCHHHHHccCchHHHHHHHHhCCCchh
Q 013038 2 RSKDKISYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQH 81 (451)
Q Consensus 2 ~~~~~v~~~~~~~~~~~~~~~~HP~~p~R~~~~~~ll~~~gl~~~~~~~~p~~at~~eL~~~Hs~~Yi~~l~~~~~~~~~ 81 (451)
.+|+||+|+|++++++|+||++|||+|+|++|+|+||.+|||.++|++++|..|+.+||++|||++||++|++++|+++.
T Consensus 4 ~~k~~V~y~yd~~vg~~~Yg~~hpmkP~R~~mth~Lv~~YgL~k~M~i~~p~~a~~~dm~~FHt~eYi~fL~~V~p~n~~ 83 (425)
T KOG1342|consen 4 LIKRRVSYFYDPDVGNFHYGQGHPMKPHRIRMTHSLVLNYGLYKKMEIYRPDKASAQDMTRFHTDEYINFLQSVTPENME 83 (425)
T ss_pred cCCceEEEEecCccccccccCCCCCCcceehhhhHHHHhcchhhceeeccCCCCCHHHHHhhchHHHHHHHhhCCccccc
Confidence 46899999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred hhHhhhhccccCCCCCCCcchHHHHHHHHhHHHHHHHHHHcCCcceeeecCCCCCCccccCCCCccccchHHHHHHHHHH
Q 013038 82 LFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLK 161 (451)
Q Consensus 82 ~~~~~~~~~~l~~D~p~f~~l~~~~~~~aGgsl~aa~~l~~g~~~~Ai~~~GG~HHA~~~~asGFC~vNdvaiai~~ll~ 161 (451)
....++.+||+++|||+|+|+|+||++++||||.||++|++++++|||||+||+|||||++||||||+|||||||++|+|
T Consensus 84 ~~~~~~~~fNvg~DCPvF~gL~~fC~~~~GgSl~aa~kLn~~~~dIaINW~GGlHHAKK~eASGFCYvNDIVL~ILeLlK 163 (425)
T KOG1342|consen 84 TFNKELKQFNVGEDCPVFDGLYDYCQLYTGGSLNAAQKLNRGECDIAINWAGGLHHAKKSEASGFCYVNDIVLGILELLK 163 (425)
T ss_pred ccchHHHhcCCCCCCccccCHHHHHHHhcccchHHHHHhCCCCceEEEecCcccccccccccCcceeehHHHHHHHHHHH
Confidence 88888999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hCCcEEEEEcccccCCCccccccccccchhhhcccccchhhhccCCCceEEEEeeeccCCCCCCCCCCCCccCCCCCcce
Q 013038 162 YHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFY 241 (451)
Q Consensus 162 ~~~RVl~IDiDvHHGDGtqe~F~~~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~~~~~ffPgtG~~~~~G~g~G~~~ 241 (451)
+++||||||||+|||||||+|||.++| |||+|||+|++.||||||++.|+|.++|++|
T Consensus 164 ~h~RVLYIDIDvHHGDGVEeAFy~TDR----------------------VmTvSfHKyg~~fFPGTG~l~d~G~~kGkyy 221 (425)
T KOG1342|consen 164 YHKRVLYIDIDVHHGDGVEEAFYTTDR----------------------VMTVSFHKYGPGFFPGTGDLSDIGAGKGKYY 221 (425)
T ss_pred hCCceEEEEecccCCccHHHHHhccce----------------------eEEEEEEeccCCCCCCCCcceeccCCCCceE
Confidence 999999999999999999999999999 9999999999889999999999999999999
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCC
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGG 321 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGG 321 (451)
+|||||++|++|++|..+|++||.++++.|+|++||+|||+|++.|||||+||||++||++|+++++++++|+++|||||
T Consensus 222 avNVPL~dGidD~sy~~if~pIi~~v~e~f~P~AiVLQCGaDSL~gDRlgcFnLsi~Gh~~Cv~fvksfn~pllvlGGGG 301 (425)
T KOG1342|consen 222 AVNVPLKDGIDDESYESIFKPIISKVMERFQPEAIVLQCGADSLAGDRLGCFNLSIKGHAECVKFVKSFNLPLLVLGGGG 301 (425)
T ss_pred EEccchhccCCcHHHHHHHHHHHHHHHHHhCCceEEEEcCCccccCCccceeeecchhHHHHHHHHHHcCCcEEEecCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCcchhhhHHHHHHhhhhcCCCCCCCCCchhhhhhcCCCCCCCCCCCCCCCCcHHHHHHHHHHHHHhhhcCCCCCCcccc
Q 013038 322 YTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSIQHAPSVQMQ 401 (451)
Q Consensus 322 Y~~~~var~w~~~t~~llg~~~~~~iP~~~~~~~~~p~~~l~~~~~~~~~~n~~~~l~~~~~~~~~~~~~~~~~~~v~~~ 401 (451)
||++||||||||+|++++|+++|++||+|+||+||+|||+|++.+++++|+|+++||++|++++.+|||++++|||||||
T Consensus 302 YT~rNVARcWtYeT~v~~~~~~~~elP~n~y~~yF~PDy~l~~~~~~~~n~Nt~~~l~~i~~~~~enL~~l~~apSVqm~ 381 (425)
T KOG1342|consen 302 YTLRNVARCWTYETGVLLDQELPNELPYNDYFEYFGPDYKLHIDPSNMENFNTPHYLESIRNEILENLRMLQHAPSVQMQ 381 (425)
T ss_pred cchhhhHHHHHHHhhhhcCccccccCCCccchhhhCCCcccccCccchhcccCHHHHHHHHHHHHHHHHhccCCCccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCCcccCCCcccccccccccccCCCCCCCCCCCCCC
Q 013038 402 EVPPDFYIPEFDEDEQNPDERMDQHTQDKQIQRDDEFYEGDNDN 445 (451)
Q Consensus 402 ~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 445 (451)
.+|+.-......+++++++.|.++...|++++..+||+|+++++
T Consensus 382 ~~p~~~~d~~~~~~~~~~d~~~~~~~~~~~~~~~~e~~d~~~~~ 425 (425)
T KOG1342|consen 382 MIPNPDFDEDMVEDEKDPDLRSSQESEDKDVQDDNEFYDGENEG 425 (425)
T ss_pred ccCCCccchhhhhhhhCcccccchhhhhcccccchhhcccccCC
Confidence 99973222222356788899999999999999999999998763
No 2
>PTZ00063 histone deacetylase; Provisional
Probab=100.00 E-value=2.1e-116 Score=911.63 Aligned_cols=387 Identities=63% Similarity=1.145 Sum_probs=371.4
Q ss_pred CCCeEEEEEcccccCCCCCCCCCCChHHHHHHHHHHHhCCCCCCceEeCCCCCCHHHHHccCchHHHHHHHHhCCCchhh
Q 013038 3 SKDKISYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQHL 82 (451)
Q Consensus 3 ~~~~v~~~~~~~~~~~~~~~~HP~~p~R~~~~~~ll~~~gl~~~~~~~~p~~at~~eL~~~Hs~~Yi~~l~~~~~~~~~~ 82 (451)
.|+||+|+||++++.|++|++|||+|.|+++++++|.++||++.+++++|++||.++|++||+++||++|++.++.+...
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 47889999999999999999999999999999999999999999999999999999999999999999999988765433
Q ss_pred hHhhhhccccC--CCCCCCcchHHHHHHHHhHHHHHHHHHHcCCcceeeecCCCCCCccccCCCCccccchHHHHHHHHH
Q 013038 83 FRQELTKYNLG--EDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELL 160 (451)
Q Consensus 83 ~~~~~~~~~l~--~D~p~f~~l~~~~~~~aGgsl~aa~~l~~g~~~~Ai~~~GG~HHA~~~~asGFC~vNdvaiai~~ll 160 (451)
....+.+|+++ .|||+|+++|++|++++||||.||+++++|++++||||+||+|||++++|+||||||||||||++|+
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 22345678888 4999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhCCcEEEEEcccccCCCccccccccccchhhhcccccchhhhccCCCceEEEEeeeccCCCCCCCCCCCCccCCCCCcc
Q 013038 161 KYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKF 240 (451)
Q Consensus 161 ~~~~RVl~IDiDvHHGDGtqe~F~~~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~~~~~ffPgtG~~~~~G~g~G~~ 240 (451)
+.++||||||||||||||||+|||.+++ |||+|||+++. ||||||..+++|.+.|++
T Consensus 162 ~~~~RVliID~DvHHGdGtqe~F~~~~~----------------------VltvS~H~~~~-ffPgtG~~~e~G~g~G~g 218 (436)
T PTZ00063 162 KYHARVMYIDIDVHHGDGVEEAFYVTHR----------------------VMTVSFHKFGD-FFPGTGDVTDIGVAQGKY 218 (436)
T ss_pred HhCCeEEEEeCCCCCCcchHHHhccCCC----------------------eEEEEeccCCC-cCCCCCCccccCCCCCCc
Confidence 9999999999999999999999999999 99999999984 999999999999999999
Q ss_pred eEEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCC
Q 013038 241 YAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGG 320 (451)
Q Consensus 241 ~~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggG 320 (451)
|++||||++|++|++|+.+|+++|.++++.|+||+||+|||+|+|.+||||+||||++||++|+++++++++|+++||||
T Consensus 219 ~~vNvPL~~G~~D~~Y~~~f~~ii~~~i~~f~Pd~IvvqaG~D~~~~DpLg~l~Lt~~g~~~~~~~~~~~~~pil~l~gG 298 (436)
T PTZ00063 219 YSVNVPLNDGIDDDSFVDLFKPVISKCVEVYRPGAIVLQCGADSLTGDRLGRFNLTIKGHAACVEFVRSLNIPLLVLGGG 298 (436)
T ss_pred eEEEeeCCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEECCccccCCCCCCCcccCHHHHHHHHHHHHhcCCCEEEEeCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCcchhhhHHHHHHhhhhcC--CCCCCCCCchhhhhhcCCCCCCCCCCCCCCCCcHHHHHHHHHHHHHhhhcCCCCCCc
Q 013038 321 GYTKENVARCWTVETGILLDT--ELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSIQHAPSV 398 (451)
Q Consensus 321 GY~~~~var~w~~~t~~llg~--~~~~~iP~~~~~~~~~p~~~l~~~~~~~~~~n~~~~l~~~~~~~~~~~~~~~~~~~v 398 (451)
||+++++||||+++|++++|. +++++||+|+||+||+|+|+|++++++|+|+|+++||++|+++|++|||.+++||||
T Consensus 299 GY~~~~lar~w~~~t~~~~~~~~~~~~~iP~~~~~~~~~~~~~l~~~~~~~~n~n~~~~l~~~~~~~~~~l~~~~~ap~v 378 (436)
T PTZ00063 299 GYTIRNVARCWAYETGVILNKHDEMSDQISLNDYYDYYAPDFQLHLQPSNIPNYNSPEHLEKIKVKILENLRYLEHAPGV 378 (436)
T ss_pred cCCchHHHHHHHHHHHHHhCCcccCCccCCCCcchhhcCCCeEeecCcccccCCCCHHHHHHHHHHHHHHHhcCCCCCee
Confidence 999999999999999999997 699999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCCCCCCC
Q 013038 399 QMQEVPPDFYIPEF 412 (451)
Q Consensus 399 ~~~~~p~~~~~~~~ 412 (451)
|||++||++...+.
T Consensus 379 ~~~~~~~~~~~~~~ 392 (436)
T PTZ00063 379 QFAYVPPDFFDRDI 392 (436)
T ss_pred ccccCCcccccccc
Confidence 99999999876543
No 3
>PTZ00346 histone deacetylase; Provisional
Probab=100.00 E-value=9.5e-99 Score=775.92 Aligned_cols=375 Identities=41% Similarity=0.702 Sum_probs=338.8
Q ss_pred CCCeEEEE----EcccccCCCCCCCCCCChHHHHHHHHHHHhCCCCCCceEeCCCCCCHHHHHccCchHHHHHHHHhCCC
Q 013038 3 SKDKISYF----YDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPD 78 (451)
Q Consensus 3 ~~~~v~~~----~~~~~~~~~~~~~HP~~p~R~~~~~~ll~~~gl~~~~~~~~p~~at~~eL~~~Hs~~Yi~~l~~~~~~ 78 (451)
++++|+|+ |.+++..|+|+++|||+|.|+++++++|+++||...++++.|++|+.++|++||+++||++|++....
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 77888899999999999999999999999999999999999999999999999999999999875332
Q ss_pred chhhhHhhhhccccCCCCCCCcchHHHHHHHHhHHHHHHHHHHcCCcceeeecCCCCCCccccCCCCccccchHHHHHHH
Q 013038 79 TQHLFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILE 158 (451)
Q Consensus 79 ~~~~~~~~~~~~~l~~D~p~f~~l~~~~~~~aGgsl~aa~~l~~g~~~~Ai~~~GG~HHA~~~~asGFC~vNdvaiai~~ 158 (451)
.... ......+.++.|||+|+++|++|++++||+|.||+++++|++++||||+||+|||++++|+||||||||||||++
T Consensus 98 ~~~~-~~~~~~~~~d~Dtpv~~~~~~~a~laaGgsl~Aa~~v~~g~~~~Ai~~pGG~HHA~~~~a~GFC~fNdvAIAa~~ 176 (429)
T PTZ00346 98 SWLW-NAETSKVFFSGDCPPVEGLMEHSIATASGTLMGAVLLNSGQVDVAVHWGGGMHHSKCGECSGFCYVNDIVLGILE 176 (429)
T ss_pred cccc-ccccccccccCCCCCChHHHHHHHHHHHHHHHHHHHHHcCCCCEEEeCCCCcCcCCCCCCCcchHHhHHHHHHHH
Confidence 1100 011224567789999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhCCcEEEEEcccccCCCccccccccccchhhhcccccchhhhccCCCceEEEEeeeccCCCCCCCCCCCCccCCCCC
Q 013038 159 LLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREG 238 (451)
Q Consensus 159 ll~~~~RVl~IDiDvHHGDGtqe~F~~~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~~~~~ffPgtG~~~~~G~g~G 238 (451)
|+++++||||||||||||||||+|||++++ |||+|||+++..||||||..+++|.+.|
T Consensus 177 ll~~~~RVliID~DVHHGnGTqeiF~~dp~----------------------Vl~vSiHq~~~~fyPgtG~~~e~G~g~G 234 (429)
T PTZ00346 177 LLKCHDRVLYVDIDMHHGDGVDEAFCTSDR----------------------VFTLSLHKFGESFFPGTGHPRDVGYGRG 234 (429)
T ss_pred HHHcCCeEEEEeCCCCCCchHHHHHcCCCC----------------------eEEEEecCCCCCCCCCCCCccccCCCCC
Confidence 999999999999999999999999999999 9999999998789999999999999999
Q ss_pred cceEEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEc
Q 013038 239 KFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTG 318 (451)
Q Consensus 239 ~~~~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lg 318 (451)
++|++||||++|++|++|+.+|+++|.+++++|+||+||+|||+|++.+||||.|+||.+||.+|+++++++++|+++||
T Consensus 235 ~g~~vNVPL~~G~~D~~Yl~~f~~ii~p~l~~F~PdlIvvsaG~Da~~~DpLg~l~LT~~g~~~~~~~l~~~~~plv~vl 314 (429)
T PTZ00346 235 RYYSMNLAVWDGITDFYYLGLFEHALHSIVRRYSPDAIVLQCGADSLAGDRLGLLNLSSFGHGQCVQAVRDLGIPMLALG 314 (429)
T ss_pred ceeEEeeeCCCCcCHHHHHHHHHHHHHHHHHhcCCCEEEEECCccCCCCCCCCCceeCHHHHHHHHHHHHhcCCCEEEEe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcchhhhHHHHHHhhhhcCCCCCC--CC--CchhhhhhcCCCCCCCCCCCCCCCC-cHHHHHHHHHH----HHHhh
Q 013038 319 GGGYTKENVARCWTVETGILLDTELPNE--IP--ENEYIKYFAPECSLRIPNGHIENLN-SKSYLSTIKMQ----VLENL 389 (451)
Q Consensus 319 gGGY~~~~var~w~~~t~~llg~~~~~~--iP--~~~~~~~~~p~~~l~~~~~~~~~~n-~~~~l~~~~~~----~~~~~ 389 (451)
||||++.+++|||+++|++|+|+++|++ || +..|.+||+|+|+|++.+++++|.| +..+.++..++ |.++|
T Consensus 315 eGGY~~~~lar~w~~~t~~l~g~~i~~~~~lp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 394 (429)
T PTZ00346 315 GGGYTIRNVAKLWAYETSILTGHPLPPNTVLPVAEMPLSGWLFQDSPLLIVAQDRSNHVLPGLHCQRAYQMMTEQIDRHV 394 (429)
T ss_pred CCcCCccHHHHHHHHHHHHHcCCCCCCCCCCCCCCCchhhhhcCCCccccccccccccCCCcchhHHHHHHHHHHHHhhh
Confidence 9999999999999999999999999976 78 4579999999999999888777777 45555555554 44555
Q ss_pred hcCCCCCCccc
Q 013038 390 RSIQHAPSVQM 400 (451)
Q Consensus 390 ~~~~~~~~v~~ 400 (451)
+.++..|-.|-
T Consensus 395 ~~~~~~~~~~~ 405 (429)
T PTZ00346 395 PHIQPHPRLQK 405 (429)
T ss_pred hccCCcHHHHH
Confidence 55554444443
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=4e-82 Score=641.88 Aligned_cols=325 Identities=34% Similarity=0.511 Sum_probs=301.3
Q ss_pred CeEEEEEcccccCCCCCCCCCCChHHHHHHHHHHHhCCCCCCceEeCCCCCCHHHHHccCchHHHHHHHHhCCCchhhhH
Q 013038 5 DKISYFYDGDVGSVYFGPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQHLFR 84 (451)
Q Consensus 5 ~~v~~~~~~~~~~~~~~~~HP~~p~R~~~~~~ll~~~gl~~~~~~~~p~~at~~eL~~~Hs~~Yi~~l~~~~~~~~~~~~ 84 (451)
+++.++|++.+..|.++..|||+|.|++++.++|++.++...+++++|++++.++|+++|+++||++|++.++...
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 5688999999999999999999999999999999999988899999999999999999999999999999876521
Q ss_pred hhhhccccCCCCCCCcchHHHHHHHHhHHHHHHHHHHcCCcceeeecCCCCCCccccCCCCccccchHHHHHHHHHHh-C
Q 013038 85 QELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKY-H 163 (451)
Q Consensus 85 ~~~~~~~l~~D~p~f~~l~~~~~~~aGgsl~aa~~l~~g~~~~Ai~~~GG~HHA~~~~asGFC~vNdvaiai~~ll~~-~ 163 (451)
.+.++.|||+++++|++|++++|++++|++.+++|+..++++|.||+|||++++++|||+|||+||||++|+++ .
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 46788999999999999999999999999999999877888898888999999999999999999999999996 6
Q ss_pred CcEEEEEcccccCCCccccccccccchhhhcccccchhhhccCCCceEEEEeeeccCCCCCCCCCCCCccCCCCCcceEE
Q 013038 164 ARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAI 243 (451)
Q Consensus 164 ~RVl~IDiDvHHGDGtqe~F~~~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~~~~~ffPgtG~~~~~G~g~G~~~~v 243 (451)
+||+|||||+|||||||+|||++++ |+|+|+|+++..||||||..+++|.++ ++|++
T Consensus 154 ~RVaIiD~DvHHGnGTqeify~~~~----------------------V~~~S~H~~~~~~yPgtg~~~e~g~g~-~g~~v 210 (340)
T COG0123 154 KRVAIIDFDVHHGNGTQEIFYDDDD----------------------VLTVSLHQDGRPFYPGTGGADEIGEGK-EGNNV 210 (340)
T ss_pred CcEEEEEecCCCChhhHHHHccCCC----------------------eEEEeccCCCCCCCCcCCCccccccCc-ccceE
Confidence 9999999999999999999999999 999999999888999999999999998 99999
Q ss_pred eecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhc----CCCEEEEcC
Q 013038 244 NVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF----NLPLLVTGG 319 (451)
Q Consensus 244 NvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~----~~p~l~lgg 319 (451)
|||||+|++|++|+.+|+.++.++++.|+||+||+|||||+|.+||||+||||.++|.+|+++++++ ++|+++|||
T Consensus 211 NiPLp~g~~d~~y~~a~~~~v~~~~~~f~PdlvivsaG~D~h~~Dpl~~~~Lt~~~~~~~~~~v~~~a~~~~~~~~~vle 290 (340)
T COG0123 211 NIPLPPGTGDDSYLEALEEIVLPLLEEFKPDLVIVSAGFDAHRGDPLGRLNLTEEGYAKIGRAVRKLAEGYGGPVVAVLE 290 (340)
T ss_pred eeecCCCCCcHHHHHHHHHHHHHHHHhcCCCEEEEecCcccCCCCccceeecCHHHHHHHHHHHHHHHHhcCCCeEEEec
Confidence 9999999999999999999999999999999999999999999999999999999999999988876 569999999
Q ss_pred CCCCcchhhhHHHHHHhhhhcCC---CCCCCCCc-hhhhhhcCCC
Q 013038 320 GGYTKENVARCWTVETGILLDTE---LPNEIPEN-EYIKYFAPEC 360 (451)
Q Consensus 320 GGY~~~~var~w~~~t~~llg~~---~~~~iP~~-~~~~~~~p~~ 360 (451)
|||+..+++++|+.++..|.|.. .+..+|.. +++..+.+++
T Consensus 291 GGY~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 335 (340)
T COG0123 291 GGYNLDALARSLVAFLAGLAGLVEEELEEPLPEDLELRRAFRADY 335 (340)
T ss_pred CCCChHHHHHHHHHHHHHHcCCCccccccccccchhhhhhhccch
Confidence 99999999999999999999964 33445543 3555555544
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=9.2e-78 Score=605.38 Aligned_cols=298 Identities=35% Similarity=0.588 Sum_probs=238.4
Q ss_pred cccccCCCCCCCCCCChHHHH-HHHHHHHhCCCCCCceEeCCCCCCHHHHHccCchHHHHHHHHhCCCchhhhHhhhhcc
Q 013038 12 DGDVGSVYFGPNHPMKPHRLC-MTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQHLFRQELTKY 90 (451)
Q Consensus 12 ~~~~~~~~~~~~HP~~p~R~~-~~~~ll~~~gl~~~~~~~~p~~at~~eL~~~Hs~~Yi~~l~~~~~~~~~~~~~~~~~~ 90 (451)
+|.+. +.+++.|||+|.|+. ++..|..++++++. ++|+.++|++|||++||++|++.+..............
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 46777 889999999999999 55555555688766 89999999999999999999987643332211100000
Q ss_pred -c-c-CCCCCCCcchHHHHHHHHhHHHHHHHHHHcC--CcceeeecCCCCCCccccCCCCccccchHHHHHHHHHHhC--
Q 013038 91 -N-L-GEDCPVFENLFEFCQIYAGGTIDAARRLNNQ--LCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYH-- 163 (451)
Q Consensus 91 -~-l-~~D~p~f~~l~~~~~~~aGgsl~aa~~l~~g--~~~~Ai~~~GG~HHA~~~~asGFC~vNdvaiai~~ll~~~-- 163 (451)
. + +.|||+++++++++++++|+++.|++.+.+| +..+|++++|| |||++++++||||||||||||++|++++
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 0 1 5799999999999999999999999999999 45577775665 9999999999999999999999999853
Q ss_pred CcEEEEEcccccCCCccccccccccchhhhcccccchhhhccCCCceEEEEeeeccCCCCCC-CCCCCCccCCCCCcceE
Q 013038 164 ARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFP-GTGDVKEIGEREGKFYA 242 (451)
Q Consensus 164 ~RVl~IDiDvHHGDGtqe~F~~~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~~~~~ffP-gtG~~~~~G~g~G~~~~ 242 (451)
+||+|||||+|||||||++||++++ |+|+|||+++..||| |||..+++|.++|++++
T Consensus 153 ~rV~iiD~DvHhGnGtq~if~~d~~----------------------V~~~SiH~~~~~~yP~~tG~~~e~G~~~g~g~~ 210 (311)
T PF00850_consen 153 KRVAIIDFDVHHGNGTQEIFYDDPR----------------------VLYISIHQYPGNFYPFGTGFPDEIGEGKGKGYN 210 (311)
T ss_dssp SSEEEEE-SSS--HHHHHHTTT-SS----------------------EEEEEEEE-CTTSTTTSS--TT--ESGGGTTSE
T ss_pred ceEEEEEeCCCCcccchhheeCCCC----------------------EEecCccccccccCCCcCCCccccCCCccccee
Confidence 8999999999999999999999999 999999999888999 99999999999999999
Q ss_pred EeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC----CEEEEc
Q 013038 243 INVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNL----PLLVTG 318 (451)
Q Consensus 243 vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~----p~l~lg 318 (451)
+||||++|++|++|+.+|+++|.|++++|+||+||+|||||++.+||+|.++||+++|.+++++++++.. |+++||
T Consensus 211 ~NipL~~g~~d~~y~~~~~~~l~~~~~~f~P~~ivvsaG~D~~~~Dplg~~~lt~~~~~~~~~~~~~~a~~~~~~~v~vl 290 (311)
T PF00850_consen 211 LNIPLPPGTGDDEYLEAFEEILLPALEEFRPDLIVVSAGFDAHAGDPLGGLNLTPEGYRELTRRLKSLAKRHCIPVVSVL 290 (311)
T ss_dssp EEEEE-TTEBHHHHHHHHHHHHHHHHHHHT-SEEEEEE-STTBTTSTT-SEBB-HHHHHHHHHHHHTTHSHHSGCEEEEE
T ss_pred EecccccccchHHHHHHHhhccccchhcccCcEEEEccCcccchhccccCcCCCHHHHHHHHHHHHHHHHhcCCcEEEEE
Confidence 9999999999999999999999999999999999999999999999999999999999999999998744 999999
Q ss_pred CCCCCcchhhhHHHHHHhhhh
Q 013038 319 GGGYTKENVARCWTVETGILL 339 (451)
Q Consensus 319 gGGY~~~~var~w~~~t~~ll 339 (451)
||||+++++++||+.++++|.
T Consensus 291 eGGY~~~~~~~~~~~~~~~L~ 311 (311)
T PF00850_consen 291 EGGYNPESLARSWAAVIAALA 311 (311)
T ss_dssp -S-SSHHHHHHHHHHHHHHH-
T ss_pred CCCCChhHHHHHHHHHHHHhC
Confidence 999999999999999999873
No 6
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=100.00 E-value=1.1e-45 Score=404.92 Aligned_cols=322 Identities=24% Similarity=0.354 Sum_probs=254.4
Q ss_pred CCCCCChHHHHHHHHHHHhCCCCCCceEeCCCCCCHHHHHccCchHHHHHHHHhCCCchhhhHhhh-hccccCCCCCCCc
Q 013038 22 PNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQHLFRQEL-TKYNLGEDCPVFE 100 (451)
Q Consensus 22 ~~HP~~p~R~~~~~~ll~~~gl~~~~~~~~p~~at~~eL~~~Hs~~Yi~~l~~~~~~~~~~~~~~~-~~~~l~~D~p~f~ 100 (451)
..||..|.|. +..+. .||+.+|+.+ ||.++++.||+..|+..+.+...........+. ..++. ..+-+
T Consensus 463 ~~~~~~p~r~--~t~~~--~gl~~~c~r~----at~~el~~vHs~~~~~~~~~~~~~~~~~~~~~~~~~~~~---i~~~~ 531 (797)
T KOG1343|consen 463 SRSPESPARF--TTGLH--TGLLGKCERI----ATLEELQLVHSEAHVLLYGSRKLLGDLSLKFESRLPCGG---IGVDS 531 (797)
T ss_pred cCCcccchhh--hcccc--cccccccccc----cchhhhhhcccchhhcccchhhhcccccchhhhhccccc---eeecc
Confidence 4689999993 22232 8999999877 999999999999999885522111110000000 01111 11223
Q ss_pred chHHHHHHHHhHHHHHHHHH--HcCCc--ceeeecCCCCCCccccCCCCccccchHHHHHHHHHHhC--CcEEEEEcccc
Q 013038 101 NLFEFCQIYAGGTIDAARRL--NNQLC--DIAINWAGGLHHAKKCEASGFCYINDLVLGILELLKYH--ARVLYIDIDVH 174 (451)
Q Consensus 101 ~l~~~~~~~aGgsl~aa~~l--~~g~~--~~Ai~~~GG~HHA~~~~asGFC~vNdvaiai~~ll~~~--~RVl~IDiDvH 174 (451)
.++.....++|+...|+..+ +.++. .+|+.+++| |||....++|||+|||+|||+.+|.... .||+|||||||
T Consensus 532 dt~~~~~~ssga~~~av~~v~~~~~~~~~g~avvRppG-Hha~~~~a~gfc~fn~vaiaak~l~~~~~~~rilivdwDvh 610 (797)
T KOG1343|consen 532 DTWWNELHSSGAARLAVGCVIELAFKVASGFAVVRPPG-HHAEASTAMGFCFFNSVAIAAKLLQQRSKASRILIVDWDVH 610 (797)
T ss_pred cHHHHHHHHHHHHHHhcchhhhhhhhhhcceeEecCCc-cccccCCcceeeeecchhhhhHHhhhhhhhcceEEEeeccc
Confidence 44555556666666655554 12222 389999998 9999999999999999999999998765 89999999999
Q ss_pred cCCCccccccccccchhhhcccccchhhhccCCCceEEEEeeecc-CCCCCCCCCCCCccCCCCCcceEEeecCCCCC-C
Q 013038 175 HGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKF-GDLFFPGTGDVKEIGEREGKFYAINVPLKDGI-D 252 (451)
Q Consensus 175 HGDGtqe~F~~~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~~-~~~ffPgtG~~~~~G~g~G~~~~vNvPL~~g~-~ 252 (451)
||||||.+|+.++. |+|+|+|++ +..|||++|.++++|.+.|+++++|||++.+. +
T Consensus 611 hgngtq~~f~~~~~----------------------vlyislhr~~~G~~fp~~g~~~e~g~~~g~g~~vNv~~~~~~~~ 668 (797)
T KOG1343|consen 611 HGNGTQQAFYSDPS----------------------VLYISLHRHDDGNFFPGSGAPDEVGKGEGVGFNVNVAWTGGLDP 668 (797)
T ss_pred CCcceeeeeccCcc----------------------ccccccchhccCCcCCCCCCchhcccccccceeecccccCCCCC
Confidence 99999999999999 999999999 55699999999999999999999999998654 4
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhc-CCCEEEEcCCCCCcchhhhHH
Q 013038 253 DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF-NLPLLVTGGGGYTKENVARCW 331 (451)
Q Consensus 253 D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~-~~p~l~lggGGY~~~~var~w 331 (451)
|.+|+.+|+.+++|+++.|.||+|++++|||+..+||||+..+|.++|+.+++.++.+ ++++++.+||||+..++.++-
T Consensus 669 D~ey~~a~~~vv~Pia~~F~pd~VlvSagfDaa~~dplg~~~vt~~~~~~lt~~l~~lagGRvv~~LEggy~lt~is~s~ 748 (797)
T KOG1343|consen 669 DAEYLAAFRTVVMPIAYEFNPDLVLVSAGFDAAEGDPLGGYKVTAECFGYLTQQLMGLAGGRVVLALEGGYDLTAISDSA 748 (797)
T ss_pred CHHHHHHHHHhhHHHHHHhCCCeEEEeccccccccCccccccccHhHHHHHHHHHHHhcCCcEEEEecCCcchhhhhHHH
Confidence 6999999999999999999999999999999999999999999999999999999988 789999999999999999999
Q ss_pred HHHHhhhhcCCCCCCCCCchhhhhhcCCCCCCCCCCCCCCCCcHHHHHHHHHHHHHhhhcC
Q 013038 332 TVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLENLRSI 392 (451)
Q Consensus 332 ~~~t~~llg~~~~~~iP~~~~~~~~~p~~~l~~~~~~~~~~n~~~~l~~~~~~~~~~~~~~ 392 (451)
..++.+|+|.+.|. +++. | ....++.|-..+|+++++.=.+.|+-+
T Consensus 749 ~~~~~~llg~~~p~-~~~~-~-------------~~~~~~~~a~~~l~~~~~~~~~~w~~~ 794 (797)
T KOG1343|consen 749 EACVRALLGDSLPP-LSEA-Y-------------LPQKPNSNAVATLEKVIEVQSKYWSCL 794 (797)
T ss_pred HHHHHhccCCCCCC-cccc-c-------------cCCCcchHHHHHHHHHHHhhhcccccc
Confidence 99999999988774 2210 0 112345577788888776544555433
No 7
>KOG1344 consensus Predicted histone deacetylase [Chromatin structure and dynamics]
Probab=100.00 E-value=9.8e-41 Score=315.89 Aligned_cols=286 Identities=26% Similarity=0.462 Sum_probs=234.1
Q ss_pred CCCeEEEEEcccccCCCC--CCCCCCChHHHHHHHHHHHhCCCCCCceEeCCCCCCHHHHHccCchHHHHHHHHhCCCch
Q 013038 3 SKDKISYFYDGDVGSVYF--GPNHPMKPHRLCMTHHLVLSYDLHKKMEIYRPHKAYPVELAQFHSADYVEFLHRITPDTQ 80 (451)
Q Consensus 3 ~~~~v~~~~~~~~~~~~~--~~~HP~~p~R~~~~~~ll~~~gl~~~~~~~~p~~at~~eL~~~Hs~~Yi~~l~~~~~~~~ 80 (451)
+-.|+.++|++.|.--.. .+-||++..+..-++++|.+.+++..-.+++|.++|.++|+++|+++|++.|+..-..++
T Consensus 12 p~~k~pIvyS~~Y~i~FmGlEkLHPFDa~Kwg~v~kfL~~~~~l~d~~lvEp~e~t~e~L~rvHtr~YLkslr~s~~vA~ 91 (324)
T KOG1344|consen 12 PAGKLPIVYSRNYAIRFMGLEKLHPFDAAKWGHVHKFLCAMNLLTDETLVEPNEATKEDLLRVHTRKYLKSLRWSIKVAQ 91 (324)
T ss_pred ccccccEEecCccceeecchhhcCcCcccchhHHHHHHHHhccccccccccCcccCHHHHHhHhhHHHHHHhhccceeeE
Confidence 345789999999863333 367999999999999999999999999999999999999999999999999986533221
Q ss_pred hhhHhhhhccccCCCCCCCcchHHHHHHHHhHHHHHHHHHHcCCcceeeecCCCCCCccccCCCCccccchHHHHHHHHH
Q 013038 81 HLFRQELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLCDIAINWAGGLHHAKKCEASGFCYINDLVLGILELL 160 (451)
Q Consensus 81 ~~~~~~~~~~~l~~D~p~f~~l~~~~~~~aGgsl~aa~~l~~g~~~~Ai~~~GG~HHA~~~~asGFC~vNdvaiai~~ll 160 (451)
- .+..-.+.-+.|.+-..+..-.++.||||+.|+....+ ..+|||..||+|||..+++.|||.+.||.+||..|-
T Consensus 92 I---~EiP~v~flPn~~iqrk~LrPlR~QagGtilA~kLAle--~GWAINvGGGFHHcss~rGGGFC~yADItl~I~~lF 166 (324)
T KOG1344|consen 92 I---TEIPFVGFLPNCIIQRKLLRPLRLQAGGTILAAKLALE--RGWAINVGGGFHHCSSSRGGGFCAYADITLAIFFLF 166 (324)
T ss_pred E---EeccccccCchhhhhhhhccceeeccCceeehhhhhhh--cCeEEeecCccceeccCCCCceeehhhHHHHHHHHH
Confidence 1 11111222345666666666677889999999987554 259999999999999999999999999999998876
Q ss_pred Hh--CCcEEEEEcccccCCCccccccccccchhhhcccccchhhhccCCCceEEEEeeeccCCCCCCCCCCCCccCCCCC
Q 013038 161 KY--HARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKFGDLFFPGTGDVKEIGEREG 238 (451)
Q Consensus 161 ~~--~~RVl~IDiDvHHGDGtqe~F~~~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~~~~~ffPgtG~~~~~G~g~G 238 (451)
.+ ..|++|||+|+|+|||.|.-|.++ + |..+ -.|+...||+.-...+
T Consensus 167 er~~isr~mivDLDAHQGNghErdf~~~-~----------------------vyi~--d~ynr~iyp~D~~Ak~------ 215 (324)
T KOG1344|consen 167 ERKAISRAMIVDLDAHQGNGHERDFEDD-A----------------------VYIF--DMYNRFIYPRDHVAKE------ 215 (324)
T ss_pred hhhhhhheEEEecccccCCccccccccc-e----------------------eehh--hhhhhhccchhHHHHH------
Confidence 54 499999999999999999999765 5 4433 3457778997532221
Q ss_pred cceEEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHH----HHHHHHhcCCCE
Q 013038 239 KFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAE----CVRFVKKFNLPL 314 (451)
Q Consensus 239 ~~~~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~----~~~~l~~~~~p~ 314 (451)
.-..-|-|..|++|++|+.-++..++..+.+|+||+||+.||.|.+.|||||.+.+|++|..+ ++++.+..++|+
T Consensus 216 -~Ir~kVEl~~gTeddeYLrkl~r~l~~sl~ef~Pd~VvYNAGTDiLeGDpLG~L~ISp~Gi~~RDelVFr~~R~~~iPv 294 (324)
T KOG1344|consen 216 -SIRCKVELRNGTEDDEYLRKLKRCLMQSLAEFRPDMVVYNAGTDILEGDPLGNLAISPEGIIERDELVFRTFRALGIPV 294 (324)
T ss_pred -HhhheeeeecCCCchHHHHHHHHHHHHHHHhhCCcEEEEeCCCccccCCCCCCeeecccccchhhHHHHHHHHHcCCcE
Confidence 123567888999999999999999999999999999999999999999999999999999876 456778889999
Q ss_pred EEEcCCCCCcc
Q 013038 315 LVTGGGGYTKE 325 (451)
Q Consensus 315 l~lggGGY~~~ 325 (451)
++|..|||-.+
T Consensus 295 vMltSGGY~K~ 305 (324)
T KOG1344|consen 295 VMLTSGGYLKA 305 (324)
T ss_pred EEEecCceehh
Confidence 99999999854
No 8
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=100.00 E-value=2.1e-33 Score=308.49 Aligned_cols=313 Identities=19% Similarity=0.216 Sum_probs=258.5
Q ss_pred CeEEEEEcccccCCC--CCCCCC-CChHHHHHHHHHHHhCCCCCCceEeCC-CCCCHHHHHccCchHHHHHHHHhCCCch
Q 013038 5 DKISYFYDGDVGSVY--FGPNHP-MKPHRLCMTHHLVLSYDLHKKMEIYRP-HKAYPVELAQFHSADYVEFLHRITPDTQ 80 (451)
Q Consensus 5 ~~v~~~~~~~~~~~~--~~~~HP-~~p~R~~~~~~ll~~~gl~~~~~~~~p-~~at~~eL~~~Hs~~Yi~~l~~~~~~~~ 80 (451)
+++..+|++....|. -...|+ +.++|++.+...+.+.++...+.+..+ +.|+.++++.+|+++|++++........
T Consensus 29 ~~~~l~~~~~~~~h~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~v~~ke~~~~~~~t~~~~~ 108 (797)
T KOG1343|consen 29 IQKQLLFAEFQKQHENQQELLEKEEKLERLRQIEEELERHRLEQPLLILRNKREAKESAVASVHVKEKLQEFLLSKKMTA 108 (797)
T ss_pred hhhhhhhhhhhhhhhcccccccchhhhhHHHHHHHHhhccCCccccccccchhhcccchhcccccHHHHHHHHhhhhhcc
Confidence 367778888877664 234455 888999988888999998888777666 8999999999999999999876542221
Q ss_pred hhhHh-hhhccccCCCCCCCcchHHHHHHHHhHHHHHHHHHHcCCc--ceeeecCCCCCCccccCCCCccccchHHHHHH
Q 013038 81 HLFRQ-ELTKYNLGEDCPVFENLFEFCQIYAGGTIDAARRLNNQLC--DIAINWAGGLHHAKKCEASGFCYINDLVLGIL 157 (451)
Q Consensus 81 ~~~~~-~~~~~~l~~D~p~f~~l~~~~~~~aGgsl~aa~~l~~g~~--~~Ai~~~GG~HHA~~~~asGFC~vNdvaiai~ 157 (451)
..... ...+ .+.+++.+..+..+..++|+.+...+.+..|++ ..|+.+++| |||.++...|||++||||++..
T Consensus 109 e~~l~~~~~~---~~~~~~~~~s~~~a~~a~~~~~~~~~~~~~~~~~n~~a~v~p~~-hhsep~~~~~~cl~n~Va~~~~ 184 (797)
T KOG1343|consen 109 EEGLNHSSSR---YPSLYYTSASHSSADQASGSLSGSYKAVLAGKASNGKADFRPPG-HHSEPNLKVGFCLFNNVAERRS 184 (797)
T ss_pred hhhhhcccCC---CCcceecCCchhhhcccCcccccccccccCCcccCccCcCCCCC-CccccchhcchhHHHHHHHHhh
Confidence 11011 0111 134566677778888889999887777666642 356677777 9999999999999999999998
Q ss_pred HHHHhC--CcEEEEEcccccCCCccccccc--cccchhhhcccccchhhhccCCCceEEEEeeecc-CCCCCCC--CCCC
Q 013038 158 ELLKYH--ARVLYIDIDVHHGDGVEEAFYF--TDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHKF-GDLFFPG--TGDV 230 (451)
Q Consensus 158 ~ll~~~--~RVl~IDiDvHHGDGtqe~F~~--~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~~-~~~ffPg--tG~~ 230 (451)
..+-.+ +||+++|+|+|||+|||..|++ +++ |+++|+|++ ...|||. +|..
T Consensus 185 ~~~~~~~~rri~i~d~dvh~g~Gtq~~~~~~~d~~----------------------vl~~s~~r~e~~~f~P~~~~g~~ 242 (797)
T KOG1343|consen 185 SPLLRRKKRRILIVDWDVHHGPGTQPSSPNNGDQR----------------------VLYFSLHRLETGPFLPNITLGLA 242 (797)
T ss_pred ccccccccceeEeecccccCCCCCCCccCCCcccc----------------------cccccchhcccCCcCCCCccchH
Confidence 765444 9999999999999999999999 888 999999999 4569997 5888
Q ss_pred CccCCCCCcceEEeecCCC-CCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCC-CCccccCHHHHHHHHHHHH
Q 013038 231 KEIGEREGKFYAINVPLKD-GIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDR-LGCFNLSIDGHAECVRFVK 308 (451)
Q Consensus 231 ~~~G~g~G~~~~vNvPL~~-g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDp-lG~~nLs~~g~~~~~~~l~ 308 (451)
+.+|.|+|.+|++|+|+.. |+++.+|.++|..++.+...+|+|++|+++||+|++.||+ +|.+..|+.+|...+...+
T Consensus 243 ~~~~~g~~~g~~~nl~~~~~g~~~~dy~~~~~~~~~~~~~efqp~Lv~~sag~dA~lg~~~~~~m~~tP~~~~~~~~~~~ 322 (797)
T KOG1343|consen 243 TLRGGGPGLGQTGNLPWNQVGMTDADYEAAFLHVLLPHASEFQPDLLLVSAGFDALLGDGPVGLMAQTPLGYAHRTSMHR 322 (797)
T ss_pred HHhCcCCCcceeeccchhhcCCcchhhhhhhhccCccchhhcCcceEEeeccccccccCcccCcccCCcccHHHHhcccc
Confidence 8999999999999999975 8999999999999999999999999999999999999997 7999999999999999855
Q ss_pred hcC-CCEEEEcCCCCCcchhhhHHHHHHhhhhcCCCC
Q 013038 309 KFN-LPLLVTGGGGYTKENVARCWTVETGILLDTELP 344 (451)
Q Consensus 309 ~~~-~p~l~lggGGY~~~~var~w~~~t~~llg~~~~ 344 (451)
-.+ +++.++++|||+.+..+.. ......++|.+.+
T Consensus 323 ~~~r~~l~v~~e~gy~le~l~~~-~~~~~~llg~~~~ 358 (797)
T KOG1343|consen 323 PLGRGQLVVVLEGGYFLEKLAQS-QLVLNKLLGKPIE 358 (797)
T ss_pred ccccCccceecchhHHHHHHHHh-hhhHHhhcCCCcc
Confidence 555 8999999999999999887 6666778886654
No 9
>cd01835 SGNH_hydrolase_like_3 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=70.83 E-value=23 Score=32.44 Aligned_cols=62 Identities=18% Similarity=0.161 Sum_probs=36.5
Q ss_pred EeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHH
Q 013038 243 INVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVR 305 (451)
Q Consensus 243 vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~ 305 (451)
+|.... |.+-..++..|...+......++||+|||..|..=.....-+....+.+.|...++
T Consensus 41 ~N~gi~-G~t~~~~~~r~~~~~~~~~~~~~pd~V~i~~G~ND~~~~~~~~~~~~~~~~~~~~~ 102 (193)
T cd01835 41 YNLGVR-GDGSEDVAARWRAEWSRRGELNVPNRLVLSVGLNDTARGGRKRPQLSARAFLFGLN 102 (193)
T ss_pred EeecCC-CCCHHHHHHHHHHHHHhhcccCCCCEEEEEecCcccccccCcccccCHHHHHHHHH
Confidence 465553 34455666666665554444589999999999865433211122456666665443
No 10
>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=69.14 E-value=18 Score=32.84 Aligned_cols=68 Identities=15% Similarity=0.228 Sum_probs=36.7
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCC-CCCCccccCHHHHHHHHHHHHhcCCCEEEE
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAG-DRLGCFNLSIDGHAECVRFVKKFNLPLLVT 317 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~g-DplG~~nLs~~g~~~~~~~l~~~~~p~l~l 317 (451)
.+|..+. |.+-.+++..++.. +...+||+|+++.|..=... .++.. -.+.+..+++.+++.+.+++++
T Consensus 34 v~n~g~~-G~~~~~~l~~l~~~----~~~~~~d~v~i~~G~ND~~~~~~~~~---~~~~~~~li~~~~~~~~~~il~ 102 (183)
T cd04501 34 VINRGIN-GDTTSQMLVRFYED----VIALKPAVVIIMGGTNDIIVNTSLEM---IKDNIRSMVELAEANGIKVILA 102 (183)
T ss_pred EEecCcC-CccHHHHHHHHHHH----HHhcCCCEEEEEeccCccccCCCHHH---HHHHHHHHHHHHHHCCCcEEEE
Confidence 4555443 33334555544433 34579999999999863322 11111 1233444666666666665554
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=68.39 E-value=12 Score=37.70 Aligned_cols=64 Identities=14% Similarity=0.310 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcch
Q 013038 255 SFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKEN 326 (451)
Q Consensus 255 ~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~ 326 (451)
+|.++|+..+ |-+.+|+-..+|+-.|-.++..| ++ +.+..-+..+.+.+.++++|-|||.....
T Consensus 1 ~~~~~~~~~~-~yi~~~~~~~~VIKlGG~ai~~~-----~l--~~~~~~ia~l~~~g~~~ViVHGggp~i~~ 64 (280)
T cd04237 1 QFVDWFREAA-PYINAHRGKTFVIAFGGEAVAHP-----NF--DNIVHDIALLHSLGIRLVLVHGARPQIDQ 64 (280)
T ss_pred ChHHHHHHHh-HHHHHhCCCEEEEEEChHHhcCc-----hH--HHHHHHHHHHHHCCCcEEEEeCCCHHHHH
Confidence 3778888875 67899999999999998887754 22 23334444556668899999999877543
No 12
>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=66.83 E-value=17 Score=32.64 Aligned_cols=68 Identities=19% Similarity=0.309 Sum_probs=37.3
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCC-CCCCCCCCCccccCHHHHHHHHHHHHhc--CCCEEEE
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGA-DSLAGDRLGCFNLSIDGHAECVRFVKKF--NLPLLVT 317 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~-D~~~gDplG~~nLs~~g~~~~~~~l~~~--~~p~l~l 317 (451)
.+|..+...+ -.+.+..+. ..+..++|++||++.|. |...+-+ ..-..+.+..+++.+++. +.+++++
T Consensus 25 v~N~Gi~G~~-~~~~~~~~~----~~~~~~~p~~vvi~~G~ND~~~~~~---~~~~~~~~~~lv~~i~~~~~~~~iil~ 95 (171)
T cd04502 25 VVNRGFGGST-LADCLHYFD----RLVLPYQPRRVVLYAGDNDLASGRT---PEEVLRDFRELVNRIRAKLPDTPIAII 95 (171)
T ss_pred eeecCcccch-HHHHHHHHH----hhhccCCCCEEEEEEecCcccCCCC---HHHHHHHHHHHHHHHHHHCCCCcEEEE
Confidence 4666664433 233333333 34456899999999998 5433221 112234455567777664 3455544
No 13
>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=66.78 E-value=16 Score=33.40 Aligned_cols=67 Identities=13% Similarity=0.036 Sum_probs=37.9
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCC-CCCCCCCCccccCHHHHHHHHHHHHh--cCCCEEEE
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGAD-SLAGDRLGCFNLSIDGHAECVRFVKK--FNLPLLVT 317 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D-~~~gDplG~~nLs~~g~~~~~~~l~~--~~~p~l~l 317 (451)
..|+.. .|.+-.+++..+.. +..++||+|++..|.. ...+.+ ..--.+.+.++++.+++ -+.+++++
T Consensus 43 ~~n~g~-~G~t~~~~~~~l~~-----~~~~~pd~Vii~~G~ND~~~~~~---~~~~~~~l~~li~~i~~~~~~~~iiv~ 112 (191)
T cd01836 43 WRLFAK-TGATSADLLRQLAP-----LPETRFDVAVISIGVNDVTHLTS---IARWRKQLAELVDALRAKFPGARVVVT 112 (191)
T ss_pred EEEEec-CCcCHHHHHHHHHh-----cccCCCCEEEEEecccCcCCCCC---HHHHHHHHHHHHHHHHhhCCCCEEEEE
Confidence 355555 34455566655544 4568999999999984 332111 11112344456667766 35566654
No 14
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=64.74 E-value=5.1 Score=36.24 Aligned_cols=43 Identities=23% Similarity=0.328 Sum_probs=30.3
Q ss_pred cccCCCCcccc----c-hHHHHHHHHHHhC--CcEEEEEcccccCCCccc
Q 013038 139 KKCEASGFCYI----N-DLVLGILELLKYH--ARVLYIDIDVHHGDGVEE 181 (451)
Q Consensus 139 ~~~~asGFC~v----N-dvaiai~~ll~~~--~RVl~IDiDvHHGDGtqe 181 (451)
.+-.+.|||+| + ++-.|++|+-... +|++-||||.-.=+|-|-
T Consensus 73 ~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF~eGRQy 122 (153)
T KOG0121|consen 73 FKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGFVEGRQY 122 (153)
T ss_pred CCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccccchhhhhh
Confidence 45578999987 3 4445556665443 899999999877677664
No 15
>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=63.20 E-value=16 Score=36.85 Aligned_cols=58 Identities=24% Similarity=0.387 Sum_probs=40.4
Q ss_pred HHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccC----HHHHHHHHHHHHhc--CCCEEEEcCCC
Q 013038 263 IISKVVETYAPGAIVLQCGADSLAGDRLGCFNLS----IDGHAECVRFVKKF--NLPLLVTGGGG 321 (451)
Q Consensus 263 ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs----~~g~~~~~~~l~~~--~~p~l~lggGG 321 (451)
.|..++++++||++|+ .|-|+...++-...+|. .+-|-++++.++.+ +.--|++..|.
T Consensus 144 ~i~~Ll~~~~PDIlVi-TGHD~~~K~~~d~~dl~~YrnSkyFVeaVk~aR~y~~~~D~LVIFAGA 207 (283)
T TIGR02855 144 KVLDLIEEVRPDILVI-TGHDAYSKNKGNYMDLNAYRHSKYFVETVREARKYVPSLDQLVIFAGA 207 (283)
T ss_pred HHHHHHHHhCCCEEEE-eCchhhhcCCCChhhhhhhhhhHHHHHHHHHHHhcCCCcccEEEEcch
Confidence 5678899999998765 89999986654433443 34566778888876 44556666664
No 16
>COG3914 Spy Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]
Probab=61.38 E-value=1.2e+02 Score=33.95 Aligned_cols=170 Identities=17% Similarity=0.232 Sum_probs=96.5
Q ss_pred cCCCCccccc--hHHHHHHHHHHhCCcEEEEEcccccCCCccccccccccchhhhcccccchhhhccCCCceEEEEeeec
Q 013038 141 CEASGFCYIN--DLVLGILELLKYHARVLYIDIDVHHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHK 218 (451)
Q Consensus 141 ~~asGFC~vN--dvaiai~~ll~~~~RVl~IDiDvHHGDGtqe~F~~~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~ 218 (451)
....++|-++ |-+=++...+...=- .-||+|.|-=|++-.+|-..|- =.-||.-
T Consensus 311 a~~~~~~~~~~~dd~e~a~~I~~d~Id-ILvDl~g~T~d~r~~v~A~RpA----------------------Piqvswl- 366 (620)
T COG3914 311 AAVEKWYPIGRMDDAEIANAIRTDGID-ILVDLDGHTVDTRCQVFAHRPA----------------------PIQVSWL- 366 (620)
T ss_pred HhhhheeccCCcCHHHHHHHHHhcCCe-EEEeccCceeccchhhhhcCCC----------------------ceEEeec-
Confidence 3455788887 333333333322222 4589999999999999987765 3344543
Q ss_pred cCCCCCCCCCCCCccCCCCCcceEEeec--CCCCCChHHHHHHHHHHHHHHHHhcC--------------------CCEE
Q 013038 219 FGDLFFPGTGDVKEIGEREGKFYAINVP--LKDGIDDTSFTRLFKTIISKVVETYA--------------------PGAI 276 (451)
Q Consensus 219 ~~~~ffPgtG~~~~~G~g~G~~~~vNvP--L~~g~~D~~y~~~f~~ii~~~~~~f~--------------------Pd~I 276 (451)
=||+|+....+ . |-|-=| +|+. ..+-| .+.|.++-.-|+ ++++
T Consensus 367 ----Gy~aT~g~p~~-----D-Y~I~D~y~vPp~-ae~yy----sEkl~RLp~cy~p~d~~~~v~p~~sR~~lglp~~av 431 (620)
T COG3914 367 ----GYPATTGSPNM-----D-YFISDPYTVPPT-AEEYY----SEKLWRLPQCYQPVDGFEPVTPPPSRAQLGLPEDAV 431 (620)
T ss_pred ----ccccccCCCcc-----e-EEeeCceecCch-HHHHH----HHHHHhcccccCCCCCcccCCCCcchhhcCCCCCeE
Confidence 27887653221 1 222222 2222 22223 333333333333 5688
Q ss_pred EEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcchhhhHHHHHHhhhhcCC------CCCCCCCc
Q 013038 277 VLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTE------LPNEIPEN 350 (451)
Q Consensus 277 vvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~var~w~~~t~~llg~~------~~~~iP~~ 350 (451)
|..|| -+.++.+++-+..-.+.+++...-++++.+||=+....++.= ..+.-.|.. +| .-|..
T Consensus 432 Vf~c~--------~n~~K~~pev~~~wmqIL~~vP~Svl~L~~~~~~~~~~~~l~--~la~~~Gv~~eRL~f~p-~~~~~ 500 (620)
T COG3914 432 VFCCF--------NNYFKITPEVFALWMQILSAVPNSVLLLKAGGDDAEINARLR--DLAEREGVDSERLRFLP-PAPNE 500 (620)
T ss_pred EEEec--------CCcccCCHHHHHHHHHHHHhCCCcEEEEecCCCcHHHHHHHH--HHHHHcCCChhheeecC-CCCCH
Confidence 88887 356788888888888899998888999999996654443321 111122322 22 33444
Q ss_pred hhhhhhc-CCC
Q 013038 351 EYIKYFA-PEC 360 (451)
Q Consensus 351 ~~~~~~~-p~~ 360 (451)
+++++|+ .|-
T Consensus 501 ~h~a~~~iADl 511 (620)
T COG3914 501 DHRARYGIADL 511 (620)
T ss_pred HHHHhhchhhe
Confidence 7888886 443
No 17
>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=60.06 E-value=20 Score=30.29 Aligned_cols=49 Identities=12% Similarity=0.213 Sum_probs=32.0
Q ss_pred HHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCC
Q 013038 264 ISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYT 323 (451)
Q Consensus 264 i~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~ 323 (451)
+...+.+++||+|.+++- +.-+.....++.+.+|+.+..+.++.||.+-
T Consensus 43 l~~~~~~~~pd~V~iS~~-----------~~~~~~~~~~l~~~~k~~~p~~~iv~GG~~~ 91 (121)
T PF02310_consen 43 LVEALRAERPDVVGISVS-----------MTPNLPEAKRLARAIKERNPNIPIVVGGPHA 91 (121)
T ss_dssp HHHHHHHTTCSEEEEEES-----------SSTHHHHHHHHHHHHHTTCTTSEEEEEESSS
T ss_pred HHHHHhcCCCcEEEEEcc-----------CcCcHHHHHHHHHHHHhcCCCCEEEEECCch
Confidence 345677789999999875 2233445566777777775555555566553
No 18
>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=58.50 E-value=27 Score=31.46 Aligned_cols=71 Identities=13% Similarity=0.235 Sum_probs=38.5
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHH----HHHHHHHhc--CCCEE
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHA----ECVRFVKKF--NLPLL 315 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~----~~~~~l~~~--~~p~l 315 (451)
..|..+...++. .+...-...+...+...+||+||+++|..=.. ....+.+.|. .+++.+++. +.+++
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 355555433332 33322223444567789999999999965332 2234454444 455666663 45555
Q ss_pred EEc
Q 013038 316 VTG 318 (451)
Q Consensus 316 ~lg 318 (451)
+++
T Consensus 101 ~~~ 103 (189)
T cd01825 101 LVG 103 (189)
T ss_pred EEc
Confidence 544
No 19
>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=57.88 E-value=55 Score=30.83 Aligned_cols=24 Identities=8% Similarity=0.391 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHhcCCCEEEEeeC
Q 013038 258 RLFKTIISKVVETYAPGAIVLQCG 281 (451)
Q Consensus 258 ~~f~~ii~~~~~~f~Pd~Ivvq~G 281 (451)
..++.++..+.++|++|+||+=++
T Consensus 134 ~~l~~~l~~l~~~y~~D~IiiD~p 157 (207)
T TIGR03018 134 QRMRSLLHELARRYPDRIIIIDTP 157 (207)
T ss_pred HHHHHHHHHHHhhCCCCEEEEECC
Confidence 346677777888888899999887
No 20
>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=57.26 E-value=24 Score=35.78 Aligned_cols=58 Identities=28% Similarity=0.415 Sum_probs=39.7
Q ss_pred HHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccC----HHHHHHHHHHHHhc--CCCEEEEcCCC
Q 013038 263 IISKVVETYAPGAIVLQCGADSLAGDRLGCFNLS----IDGHAECVRFVKKF--NLPLLVTGGGG 321 (451)
Q Consensus 263 ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs----~~g~~~~~~~l~~~--~~p~l~lggGG 321 (451)
.|..++++++||++|+ +|-|++..+.-...+|. .+-|-++|+.++.+ +.--|++..|.
T Consensus 145 ~i~~Ll~~~~PDIlVi-TGHD~~~K~~~d~~dl~~YrnSkyFVeaV~~aR~~ep~~D~LVIfAGA 208 (287)
T PF05582_consen 145 KIYRLLEEYRPDILVI-TGHDGYLKNKKDYSDLNNYRNSKYFVEAVKEARKYEPNLDDLVIFAGA 208 (287)
T ss_pred HHHHHHHHcCCCEEEE-eCchhhhcCCCChhhhhhhhccHHHHHHHHHHHhcCCCcccEEEEcch
Confidence 5678889999998665 89999877753333333 34556677888776 44556666664
No 21
>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=56.64 E-value=62 Score=32.42 Aligned_cols=91 Identities=23% Similarity=0.353 Sum_probs=51.2
Q ss_pred HHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhc--CCCEEEEcCCCCCcchhhhHHHHHHhhhhcC
Q 013038 264 ISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF--NLPLLVTGGGGYTKENVARCWTVETGILLDT 341 (451)
Q Consensus 264 i~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~--~~p~l~lggGGY~~~~var~w~~~t~~llg~ 341 (451)
....+..-.+|.|+++-=.-+..-|+ +.++.+++. ..| ++++||=++.|+.+.|...-++..|.
T Consensus 163 a~~~~~~~~aDavivtG~~TG~~~d~------------~~l~~vr~~~~~~P--vllggGvt~eNv~e~l~~adGviVgS 228 (257)
T TIGR00259 163 ALDTVERGLADAVILSGKTTGTEVDL------------ELLKLAKETVKDTP--VLAGSGVNLENVEELLSIADGVIVAT 228 (257)
T ss_pred HHHHHHhcCCCEEEECcCCCCCCCCH------------HHHHHHHhccCCCe--EEEECCCCHHHHHHHHhhCCEEEECC
Confidence 33344444599998874322222221 344455542 456 57899999999999988643444442
Q ss_pred CCCCCCCCchhhhhhcCCCCCCCCCCCCCCCCcHHHHHHHHHHHHHh
Q 013038 342 ELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSYLSTIKMQVLEN 388 (451)
Q Consensus 342 ~~~~~iP~~~~~~~~~p~~~l~~~~~~~~~~n~~~~l~~~~~~~~~~ 388 (451)
.+ + .+..+.|.-+.+.+++..+.+.+-
T Consensus 229 ~~----------K----------~~G~~~n~~D~~rV~~Fm~~v~~~ 255 (257)
T TIGR00259 229 TI----------K----------KDGVFNNFVDQARVSQFVEKVAHG 255 (257)
T ss_pred Cc----------c----------cCCccCCCcCHHHHHHHHHHHHHh
Confidence 21 1 133455555666666665555443
No 22
>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=56.40 E-value=53 Score=30.47 Aligned_cols=59 Identities=14% Similarity=0.268 Sum_probs=37.9
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhc---CCCEEEEcC
Q 013038 253 DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF---NLPLLVTGG 319 (451)
Q Consensus 253 D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~---~~p~l~lgg 319 (451)
.++...+|+.++.. +.+.+||+||+ +| |. +.....+...+..+.+.++++ +.|+.++.|
T Consensus 23 ~~~~~~~~~~~~~~-~~~~~~d~i~~-~G-D~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~G 84 (223)
T cd00840 23 REDQFEAFEEIVEL-AIEEKVDFVLI-AG-DL-----FDSNNPSPEALELLIEALRRLKEAGIPVFIIAG 84 (223)
T ss_pred hHHHHHHHHHHHHH-HHhcCCCEEEE-CC-cc-----cCCCCCCHHHHHHHHHHHHHHHHCCCCEEEecC
Confidence 46677888888755 55679998665 33 44 333334555555666666655 788887776
No 23
>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=54.93 E-value=58 Score=28.95 Aligned_cols=66 Identities=15% Similarity=0.263 Sum_probs=37.8
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHH----HHHHHHHHhcCCCEEEE
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGH----AECVRFVKKFNLPLLVT 317 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~----~~~~~~l~~~~~p~l~l 317 (451)
.+|......+. ...+..+. ..+..++||+||++.|..=. .. ..+.+.| .++++.+++.+.+++++
T Consensus 39 v~n~g~~G~~~-~~~~~~l~----~~~~~~~pd~v~i~~G~ND~----~~--~~~~~~~~~~l~~li~~~~~~~~~vil~ 107 (177)
T cd01822 39 VINAGVSGDTT-AGGLARLP----ALLAQHKPDLVILELGGNDG----LR--GIPPDQTRANLRQMIETAQARGAPVLLV 107 (177)
T ss_pred EEecCcCCccc-HHHHHHHH----HHHHhcCCCEEEEeccCccc----cc--CCCHHHHHHHHHHHHHHHHHCCCeEEEE
Confidence 45555543222 33333333 44556899999999997532 22 2344444 45666677667777665
Q ss_pred c
Q 013038 318 G 318 (451)
Q Consensus 318 g 318 (451)
.
T Consensus 108 ~ 108 (177)
T cd01822 108 G 108 (177)
T ss_pred e
Confidence 3
No 24
>PRK05279 N-acetylglutamate synthase; Validated
Probab=54.26 E-value=38 Score=36.01 Aligned_cols=65 Identities=15% Similarity=0.292 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcch
Q 013038 254 TSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKEN 326 (451)
Q Consensus 254 ~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~ 326 (451)
..|...|+..+ |-+.+|+=..+||-+|-.++..+ + .+.+..-+..++..+.++++|-|||.....
T Consensus 7 ~~~~~~~~~~~-~~i~~~~~~~~VIk~GG~~l~~~-----~--~~~~~~~i~~l~~~g~~~VlVHGgg~~i~~ 71 (441)
T PRK05279 7 TEFVDWFRHSA-PYINAHRGKTFVIMLGGEAIAHG-----N--FSNIVHDIALLHSLGIRLVLVHGARPQIEE 71 (441)
T ss_pred hHHHHHHHHHh-HHHHHhCCCEEEEEECchhccCh-----h--HHHHHHHHHHHHHCCCeEEEECCCCHHHHH
Confidence 45888888875 66788888899999998887543 1 233444455566678899999999987654
No 25
>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=53.88 E-value=23 Score=37.58 Aligned_cols=62 Identities=15% Similarity=0.282 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcc
Q 013038 256 FTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325 (451)
Q Consensus 256 y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~ 325 (451)
|...|.+.+ |-+.+|+=..+|+=+|-.++..+.+ ..+..-+.++++.+.++++|-|||....
T Consensus 1 ~~~~~~~~~-~~i~~~~~~~~ViK~GG~~~~~~~~-------~~~~~~i~~l~~~g~~~vlVHGgg~~i~ 62 (429)
T TIGR01890 1 FVAWFREAA-PYINAHRGKTFVVGLGGELVEGGNL-------GNIVADIALLHSLGVRLVLVHGARPQIE 62 (429)
T ss_pred ChhHHhhhh-HHHHHhCCCEEEEEEChhhccCccH-------HHHHHHHHHHHHCCCcEEEEcCCCHHHH
Confidence 456677764 7789999999999999777754322 2344555667777889999999996644
No 26
>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=53.72 E-value=65 Score=27.14 Aligned_cols=66 Identities=14% Similarity=0.207 Sum_probs=33.9
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC--CEEEEcC
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNL--PLLVTGG 319 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~--p~l~lgg 319 (451)
++|+|+.. +..-+..++.. +...+...||+.|+..+.. +.....++.+.++..+. .-+.++.
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 58999853 11222223322 2234567788888743221 22222334444444442 4567789
Q ss_pred CCCC
Q 013038 320 GGYT 323 (451)
Q Consensus 320 GGY~ 323 (451)
||++
T Consensus 106 GG~~ 109 (113)
T cd01443 106 GGIK 109 (113)
T ss_pred Chhh
Confidence 9985
No 27
>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=53.53 E-value=48 Score=29.55 Aligned_cols=42 Identities=21% Similarity=0.299 Sum_probs=25.5
Q ss_pred hcCCCEEEEeeCCCCCCCCCCCccccCHHH----HHHHHHHHHh--cCCCEEEE
Q 013038 270 TYAPGAIVLQCGADSLAGDRLGCFNLSIDG----HAECVRFVKK--FNLPLLVT 317 (451)
Q Consensus 270 ~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g----~~~~~~~l~~--~~~p~l~l 317 (451)
.++||+||++.|..=. .. +.+.+. +..+++.+++ -+.+++++
T Consensus 46 ~~~pd~vvl~~G~ND~----~~--~~~~~~~~~~l~~li~~~~~~~~~~~vi~~ 93 (169)
T cd01828 46 ALQPKAIFIMIGINDL----AQ--GTSDEDIVANYRTILEKLRKHFPNIKIVVQ 93 (169)
T ss_pred ccCCCEEEEEeeccCC----CC--CCCHHHHHHHHHHHHHHHHHHCCCCeEEEE
Confidence 6899999999996422 22 234444 4445566665 35566554
No 28
>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=53.05 E-value=44 Score=28.89 Aligned_cols=50 Identities=18% Similarity=0.226 Sum_probs=31.9
Q ss_pred HHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCC
Q 013038 262 TIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYT 323 (451)
Q Consensus 262 ~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~ 323 (451)
..+..+.+.++||+|.++|= ..+.....++++.+|+.+..+.++.||.+.
T Consensus 29 ~~~~~~~~~~~pdiv~~S~~------------~~~~~~~~~~~~~ik~~~p~~~iv~GG~~~ 78 (127)
T cd02068 29 DIVEDIKELLKPDVVGISLM------------TSAIYEALELAKIAKEVLPNVIVVVGGPHA 78 (127)
T ss_pred HHHHHHHHhcCCCEEEEeec------------cccHHHHHHHHHHHHHHCCCCEEEECCcch
Confidence 34445444499999999841 222334556788888876556666666664
No 29
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=52.45 E-value=58 Score=30.81 Aligned_cols=59 Identities=25% Similarity=0.405 Sum_probs=45.6
Q ss_pred eEEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEc
Q 013038 241 YAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTG 318 (451)
Q Consensus 241 ~~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lg 318 (451)
|.||+ +.+..+.-+.+..+++. -|+||+ |-.|-|.|..+.|.+.++.+...+.|+++++
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 77887 34444665666665544 577776 8999999999999999999999999988765
No 30
>KOG2749 consensus mRNA cleavage and polyadenylation factor IA/II complex, subunit CLP1 [RNA processing and modification]
Probab=51.32 E-value=1.1e+02 Score=32.48 Aligned_cols=67 Identities=18% Similarity=0.333 Sum_probs=43.8
Q ss_pred EEeecC-CCCCChHHHHHHHHHHHHHHHHhcC--CC-----EEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCC
Q 013038 242 AINVPL-KDGIDDTSFTRLFKTIISKVVETYA--PG-----AIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLP 313 (451)
Q Consensus 242 ~vNvPL-~~g~~D~~y~~~f~~ii~~~~~~f~--Pd-----~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p 313 (451)
..|+.+ .+..+-+-|..++.++-+-+-+++. |+ .||=-|| |.. .+||..+...++.|+.-
T Consensus 174 V~~FG~~sp~~N~~LY~~~~s~La~v~~~~~~~n~~ar~sG~iInT~g-----------~i~-~egy~~llhai~~f~v~ 241 (415)
T KOG2749|consen 174 VYNFGLTSPSTNLELYKALVSELAEVLKQRLSLNPEARVSGCIINTCG-----------WIE-GEGYAALLHAIKAFEVD 241 (415)
T ss_pred eeeccCCCCCcCHHHHHHHHHHHHHHHHHHhccCchhcccceEEeccc-----------eec-cccHHHHHHHHHHcCcc
Confidence 344444 4566777788877776666556653 33 3333332 223 67899999999999998
Q ss_pred EEEEcCC
Q 013038 314 LLVTGGG 320 (451)
Q Consensus 314 ~l~lggG 320 (451)
+++|+|-
T Consensus 242 vviVLg~ 248 (415)
T KOG2749|consen 242 VVIVLGQ 248 (415)
T ss_pred EEEEecc
Confidence 8888864
No 31
>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=48.88 E-value=64 Score=29.02 Aligned_cols=51 Identities=14% Similarity=0.195 Sum_probs=28.4
Q ss_pred HHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHH----HHHHHHhcCCCEEEE
Q 013038 261 KTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAE----CVRFVKKFNLPLLVT 317 (451)
Q Consensus 261 ~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~----~~~~l~~~~~p~l~l 317 (451)
...+..++ .++||+||+..|..=... -+.+.+.+.+ +++.++..+.+++++
T Consensus 57 ~~~~~~~~-~~~~d~vii~~G~ND~~~-----~~~~~~~~~~~~~~~i~~i~~~~~~vil~ 111 (185)
T cd01832 57 AEQLPAAL-ALRPDLVTLLAGGNDILR-----PGTDPDTYRADLEEAVRRLRAAGARVVVF 111 (185)
T ss_pred HHHHHHHH-hcCCCEEEEecccccccc-----CCCCHHHHHHHHHHHHHHHHhCCCEEEEe
Confidence 33344443 369999999999742211 1345554444 445555445555554
No 32
>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=48.11 E-value=65 Score=28.79 Aligned_cols=68 Identities=10% Similarity=0.130 Sum_probs=37.2
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhc--CCCEEE
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF--NLPLLV 316 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~--~~p~l~ 316 (451)
.+|..+...+ -..++..+ ...+...+|++|||+.|..=..... ...-..+.+..+++.+++. +.++++
T Consensus 26 v~n~g~~G~t-~~~~~~~~----~~~~~~~~pd~v~i~~G~ND~~~~~--~~~~~~~~~~~l~~~~~~~~p~~~vi~ 95 (174)
T cd01841 26 VNNLGIAGIS-SRQYLEHI----EPQLIQKNPSKVFLFLGTNDIGKEV--SSNQFIKWYRDIIEQIREEFPNTKIYL 95 (174)
T ss_pred EEeccccccc-HHHHHHHH----HHHHHhcCCCEEEEEeccccCCCCC--CHHHHHHHHHHHHHHHHHHCCCCEEEE
Confidence 5777765443 34444444 3344568999999999985433211 1111234455566666654 344444
No 33
>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=46.16 E-value=62 Score=29.60 Aligned_cols=22 Identities=18% Similarity=0.415 Sum_probs=16.6
Q ss_pred HHHHHHhcCCCEEEEeeCCCCC
Q 013038 264 ISKVVETYAPGAIVLQCGADSL 285 (451)
Q Consensus 264 i~~~~~~f~Pd~Ivvq~G~D~~ 285 (451)
+...+...+||+||+..|..=+
T Consensus 51 ~~~~l~~~~pd~vii~~G~ND~ 72 (200)
T cd01829 51 LKELIAEEKPDVVVVFLGANDR 72 (200)
T ss_pred HHHHHhcCCCCEEEEEecCCCC
Confidence 3444567899999999998543
No 34
>PRK12755 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=44.59 E-value=70 Score=33.54 Aligned_cols=32 Identities=19% Similarity=0.205 Sum_probs=22.8
Q ss_pred ccchHHHHHHHHHHhC--CcEEEEEcccccCCCcccc
Q 013038 148 YINDLVLGILELLKYH--ARVLYIDIDVHHGDGVEEA 182 (451)
Q Consensus 148 ~vNdvaiai~~ll~~~--~RVl~IDiDvHHGDGtqe~ 182 (451)
.-+++..++..+.+.. .+|+ +|+=|||+-.+.
T Consensus 244 ~~~~i~~a~~~l~k~~l~~~vm---VD~SH~Ns~K~~ 277 (353)
T PRK12755 244 DAASVAACEAQLEKAGLRPRLM---IDCSHANSGKDY 277 (353)
T ss_pred CHHHHHHHHHHHHHcCCCCcEE---ecCCccccccch
Confidence 4477888887777654 5665 688999987654
No 35
>TIGR00034 aroFGH phospho-2-dehydro-3-deoxyheptonate aldolase.
Probab=43.62 E-value=93 Score=32.56 Aligned_cols=30 Identities=23% Similarity=0.380 Sum_probs=19.2
Q ss_pred chHHHHHHHHHHhC--CcEEEEEcccccCCCcccc
Q 013038 150 NDLVLGILELLKYH--ARVLYIDIDVHHGDGVEEA 182 (451)
Q Consensus 150 Ndvaiai~~ll~~~--~RVl~IDiDvHHGDGtqe~ 182 (451)
.|+.-+...+.+.+ .||+ +|.=||||-.+.
T Consensus 239 ~di~~~~~~l~~~~lp~~vm---VD~SH~ns~k~~ 270 (344)
T TIGR00034 239 ADVAAAKKQLEKAGLPPHLM---IDFSHGNSNKDH 270 (344)
T ss_pred HHHHHHHHHHHHcCCCCeEE---EeCCCcccccch
Confidence 57776665555544 4455 577899987554
No 36
>PRK14476 nitrogenase molybdenum-cofactor biosynthesis protein NifN; Provisional
Probab=42.37 E-value=68 Score=34.56 Aligned_cols=70 Identities=11% Similarity=0.258 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHhcCCCEEEEeeCC-CCCCCCCCCccccCHHHHHHHHHHHHhc-----CCCEEEEcCCCCCcchhhhHHH
Q 013038 259 LFKTIISKVVETYAPGAIVLQCGA-DSLAGDRLGCFNLSIDGHAECVRFVKKF-----NLPLLVTGGGGYTKENVARCWT 332 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~G~-D~~~gDplG~~nLs~~g~~~~~~~l~~~-----~~p~l~lggGGY~~~~var~w~ 332 (451)
.+++.|..+.+.|+|++|+|..+. -..-||-+- .+++.++.. +.|++.+--.||.- +....|.
T Consensus 79 ~L~~aI~~~~~~~~P~~I~V~ttC~~eiIGDDi~----------~v~~~~~~~~p~~~~~pvi~v~tpgF~g-~~~~G~~ 147 (455)
T PRK14476 79 NVEEAILNICKKAKPKIIGLCTTGLTETRGDDVA----------GALKEIRARHPELADTPIVYVSTPDFKG-ALEDGWA 147 (455)
T ss_pred HHHHHHHHHHHhhCCCEEEEeCcchHhhhhccHH----------HHHHHHHhhccccCCCeEEEecCCCCCC-cHHHHHH
Confidence 345566677888999988766554 667777543 344444332 68999999999976 4556666
Q ss_pred HHHhhhh
Q 013038 333 VETGILL 339 (451)
Q Consensus 333 ~~t~~ll 339 (451)
.....++
T Consensus 148 ~a~~al~ 154 (455)
T PRK14476 148 AAVEAIV 154 (455)
T ss_pred HHHHHHH
Confidence 5554444
No 37
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=41.29 E-value=1e+02 Score=32.02 Aligned_cols=60 Identities=13% Similarity=0.276 Sum_probs=46.3
Q ss_pred ChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhc---CCCEEEEcC
Q 013038 252 DDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF---NLPLLVTGG 319 (451)
Q Consensus 252 ~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~---~~p~l~lgg 319 (451)
-.+++...|..++. ++.+-++|+||++ ||=.=..+.|.+.-....+.++.+ ++|++++-|
T Consensus 21 r~~d~~~~f~~~l~-~a~~~~vD~vliA-------GDlFd~~~Ps~~a~~~~~~~l~~l~~~~Ipv~~I~G 83 (390)
T COG0420 21 RLEDQKKAFDELLE-IAKEEKVDFVLIA-------GDLFDTNNPSPRALKLFLEALRRLKDAGIPVVVIAG 83 (390)
T ss_pred chHHHHHHHHHHHH-HHHHccCCEEEEc-------cccccCCCCCHHHHHHHHHHHHHhccCCCcEEEecC
Confidence 45778888888775 5677888999874 676666788888888887777776 589988766
No 38
>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=41.14 E-value=60 Score=30.19 Aligned_cols=50 Identities=8% Similarity=0.193 Sum_probs=28.0
Q ss_pred HHHhcCCCEEEEeeCCCCCCCCCCC--ccccCHH----HHHHHHHHHHhcCCCEEE
Q 013038 267 VVETYAPGAIVLQCGADSLAGDRLG--CFNLSID----GHAECVRFVKKFNLPLLV 316 (451)
Q Consensus 267 ~~~~f~Pd~Ivvq~G~D~~~gDplG--~~nLs~~----g~~~~~~~l~~~~~p~l~ 316 (451)
++..-+|++|+|.+|..=......+ .-.++.+ .+..+++.+++.+.++++
T Consensus 69 v~~~~~p~~vii~~G~ND~~~~~~~~~~~~~~~~~~~~~l~~ii~~~~~~~~~vil 124 (204)
T cd01830 69 VLSQPGVRTVIILEGVNDIGASGTDFAAAPVTAEELIAGYRQLIRRAHARGIKVIG 124 (204)
T ss_pred HhcCCCCCEEEEecccccccccccccccCCCCHHHHHHHHHHHHHHHHHCCCeEEE
Confidence 3444579999999998643321110 1123444 445566666666666554
No 39
>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=41.00 E-value=20 Score=31.12 Aligned_cols=40 Identities=15% Similarity=0.352 Sum_probs=23.0
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCC
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGAD 283 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D 283 (451)
..|.-.+ |.+-..+...+...+.+ +...+||+||+++|..
T Consensus 33 ~~n~~~~-G~~~~~~~~~~~~~~~~-~~~~~~d~vvi~~G~N 72 (179)
T PF13472_consen 33 VYNLGVS-GATSSDFLARLQRDVLR-FKDPKPDLVVISFGTN 72 (179)
T ss_dssp EEEEE-T-T-BHHHHHHHHHHHCHH-HCGTTCSEEEEE--HH
T ss_pred EEEEeec-CccHhHHHHHHHHHHhh-hccCCCCEEEEEcccc
Confidence 3455443 33444455556554444 5889999999999963
No 40
>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=40.95 E-value=62 Score=29.17 Aligned_cols=52 Identities=15% Similarity=0.170 Sum_probs=29.4
Q ss_pred HHHHHhc---CCCEEEEeeCCCCCCCCCCCccccCHHHHH----HHHHHHHh--cCCCEEEE
Q 013038 265 SKVVETY---APGAIVLQCGADSLAGDRLGCFNLSIDGHA----ECVRFVKK--FNLPLLVT 317 (451)
Q Consensus 265 ~~~~~~f---~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~----~~~~~l~~--~~~p~l~l 317 (451)
...+..+ +||+||++.|..=.....- .-+.+.+.|. .+++.+++ -+.+++++
T Consensus 53 ~~~~~~~~~~~pd~vii~~G~ND~~~~~~-~~~~~~~~~~~~~~~~i~~~~~~~~~~~ii~~ 113 (199)
T cd01838 53 PKIFLEEKLAQPDLVTIFFGANDAALPGQ-PQHVPLDEYKENLRKIVSHLKSLSPKTKVILI 113 (199)
T ss_pred HHhcCccccCCceEEEEEecCccccCCCC-CCcccHHHHHHHHHHHHHHHHhhCCCCeEEEe
Confidence 3444445 8999999999864432211 0124555444 45556665 35566655
No 41
>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=39.30 E-value=32 Score=32.81 Aligned_cols=19 Identities=32% Similarity=0.487 Sum_probs=15.5
Q ss_pred HHHhCCcEEEEEcccccCC
Q 013038 159 LLKYHARVLYIDIDVHHGD 177 (451)
Q Consensus 159 ll~~~~RVl~IDiDvHHGD 177 (451)
|.+...||++||+|.++||
T Consensus 25 la~~g~~VlliD~D~~~~~ 43 (251)
T TIGR01969 25 LAKLGKKVLALDADITMAN 43 (251)
T ss_pred HHHCCCeEEEEeCCCCCcc
Confidence 3455689999999998877
No 42
>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=39.12 E-value=75 Score=27.84 Aligned_cols=39 Identities=15% Similarity=0.155 Sum_probs=24.7
Q ss_pred HHHHhcCCCEEEEeeCCCCCCCCCCCccccCH----HHHHHHHHHHHhc
Q 013038 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSI----DGHAECVRFVKKF 310 (451)
Q Consensus 266 ~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~----~g~~~~~~~l~~~ 310 (451)
..+..++|++||++.|..=... . .+. +.+..+++.+++.
T Consensus 34 ~~~~~~~pd~vvi~~G~ND~~~----~--~~~~~~~~~~~~~i~~i~~~ 76 (157)
T cd01833 34 DWVLAAKPDVVLLHLGTNDLVL----N--RDPDTAPDRLRALIDQMRAA 76 (157)
T ss_pred hccccCCCCEEEEeccCccccc----C--CCHHHHHHHHHHHHHHHHHh
Confidence 4455689999999999853322 1 343 3444566666665
No 43
>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=38.54 E-value=46 Score=31.31 Aligned_cols=44 Identities=18% Similarity=0.348 Sum_probs=27.1
Q ss_pred HHhcCCCEEEEeeCCCCCCCCCCCccccCHH----HHHHHHHHHHhc--CCCEEEE
Q 013038 268 VETYAPGAIVLQCGADSLAGDRLGCFNLSID----GHAECVRFVKKF--NLPLLVT 317 (451)
Q Consensus 268 ~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~----g~~~~~~~l~~~--~~p~l~l 317 (451)
+..++|++|||.+|..=.... .+.+ .+..+++.+++. +.+++++
T Consensus 85 l~~~~pd~VvI~~G~ND~~~~------~~~~~~~~~l~~ii~~l~~~~P~~~Iil~ 134 (214)
T cd01820 85 LDGVNPKVVVLLIGTNNIGHT------TTAEEIAEGILAIVEEIREKLPNAKILLL 134 (214)
T ss_pred ccCCCCCEEEEEecccccCCC------CCHHHHHHHHHHHHHHHHHHCCCCeEEEE
Confidence 456799999999998644221 1444 444566666665 3455544
No 44
>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=38.52 E-value=60 Score=35.45 Aligned_cols=58 Identities=17% Similarity=0.260 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHhcCCCEEEEeeCC-CCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcch
Q 013038 259 LFKTIISKVVETYAPGAIVLQCGA-DSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKEN 326 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~G~-D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~ 326 (451)
.++..|..+.+.|+|++|+|..+. -..-||.++. +++.+..-+.|++.+--.||....
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 455667778889999988887776 6677776654 333333226899999888888653
No 45
>KOG3147 consensus 6-phosphogluconolactonase - like protein [Carbohydrate transport and metabolism]
Probab=38.32 E-value=1.3e+02 Score=30.13 Aligned_cols=47 Identities=19% Similarity=0.316 Sum_probs=28.9
Q ss_pred ceEEeecCCCCCChHHHHHHHHHHHHHHHHh---cCCCEEEEeeCCCCCCCC
Q 013038 240 FYAINVPLKDGIDDTSFTRLFKTIISKVVET---YAPGAIVLQCGADSLAGD 288 (451)
Q Consensus 240 ~~~vNvPL~~g~~D~~y~~~f~~ii~~~~~~---f~Pd~Ivvq~G~D~~~gD 288 (451)
-|.+|-.|.. +.++=...++..+...+.. -+.|++++-||.|+|-.-
T Consensus 109 i~~id~~L~~--~~~~~a~~ye~~l~~~v~~~s~p~FDL~LLG~GpDGHtaS 158 (252)
T KOG3147|consen 109 IYPIDESLIA--DAEEAADLYEKELKALVANDSFPVFDLLLLGMGPDGHTAS 158 (252)
T ss_pred EEECChhhcc--CHHHHHHHHHHHHHHHhccCCCcceeEEEeccCCCCCeee
Confidence 4667777764 2333333444444444444 357999999999998754
No 46
>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=38.26 E-value=1.1e+02 Score=32.64 Aligned_cols=70 Identities=11% Similarity=0.219 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHhcCCCEEEEeeC-CCCCCCCCCCccccCHHHHHHHHHHHHh-----cCCCEEEEcCCCCCcchhhhHHH
Q 013038 259 LFKTIISKVVETYAPGAIVLQCG-ADSLAGDRLGCFNLSIDGHAECVRFVKK-----FNLPLLVTGGGGYTKENVARCWT 332 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~G-~D~~~gDplG~~nLs~~g~~~~~~~l~~-----~~~p~l~lggGGY~~~~var~w~ 332 (451)
-+++.|..+.+.|+|++|+|..+ ....-||-+. .+++.++. .+.|++.+--.||.- +....|.
T Consensus 78 ~L~~~I~~~~~~~~P~~I~V~ttC~~eiIGDDi~----------~v~~~~~~e~p~~~~~pvi~v~tpgf~g-~~~~G~~ 146 (432)
T TIGR01285 78 HIEEAIDTLCQRNKPKAIGLLSTGLTETRGEDIA----------RVVRQFREKHPQHKGTAVVTVNTPDFKG-SLEDGYA 146 (432)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCCcccccccCHH----------HHHHHHHhhcccccCCeEEEecCCCcCC-chHHHHH
Confidence 45556677888999998776554 4446677554 34444443 378999999999996 4455555
Q ss_pred HHHhhhh
Q 013038 333 VETGILL 339 (451)
Q Consensus 333 ~~t~~ll 339 (451)
.....++
T Consensus 147 ~a~~al~ 153 (432)
T TIGR01285 147 AAVESII 153 (432)
T ss_pred HHHHHHH
Confidence 4444443
No 47
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=38.12 E-value=53 Score=35.63 Aligned_cols=55 Identities=15% Similarity=0.245 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHhcCCCEEEEeeCCCC-CCCCCCCccccCHHHHHHHHHHH-HhcCCCEEEEcCCCCC
Q 013038 259 LFKTIISKVVETYAPGAIVLQCGADS-LAGDRLGCFNLSIDGHAECVRFV-KKFNLPLLVTGGGGYT 323 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~G~D~-~~gDplG~~nLs~~g~~~~~~~l-~~~~~p~l~lggGGY~ 323 (451)
-++.++..++++|+|++|||..++=+ .-||-+. .+.+.+ +..++||+.+-..|+.
T Consensus 84 ~L~~~i~ei~~~~~p~~ifv~~TC~t~iIGdDle----------~va~~~~~~~gipVV~v~~~Gf~ 140 (457)
T CHL00073 84 ELKRLCLQIKKDRNPSVIVWIGTCTTEIIKMDLE----------GMAPKLEAEIGIPIVVARANGLD 140 (457)
T ss_pred HHHHHHHHHHHhCCCCEEEEEccCcHHhhccCHH----------HHHHHHHHhhCCCEEEEeCCCcc
Confidence 34456778899999999999887533 3344332 233333 3669999999999987
No 48
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=37.83 E-value=85 Score=34.41 Aligned_cols=60 Identities=15% Similarity=0.158 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHhcCCCEEEEeeCCCC-CCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEcCCCCCcchh
Q 013038 258 RLFKTIISKVVETYAPGAIVLQCGADS-LAGDRLGCFNLSIDGHAECVRFVK-KFNLPLLVTGGGGYTKENV 327 (451)
Q Consensus 258 ~~f~~ii~~~~~~f~Pd~Ivvq~G~D~-~~gDplG~~nLs~~g~~~~~~~l~-~~~~p~l~lggGGY~~~~v 327 (451)
..+...|..+.+.|+|++|+|..++=+ +-||-++ .+++.++ ..+.|++.+--.||.....
T Consensus 71 ~kL~~~I~~~~~~~~P~~I~V~tTC~~eiIGDDi~----------~v~~~~~~~~~~pVi~v~t~~f~g~~~ 132 (513)
T CHL00076 71 EKVVDNITRKDKEERPDLIVLTPTCTSSILQEDLQ----------NFVDRASIESDSDVILADVNHYRVNEL 132 (513)
T ss_pred HHHHHHHHHHHHhcCCCEEEECCCCchhhhhcCHH----------HHHHHhhcccCCCEEEeCCCCCcccHH
Confidence 345556667889999999999877543 3444333 3444444 3578999999999996544
No 49
>CHL00202 argB acetylglutamate kinase; Provisional
Probab=36.88 E-value=83 Score=31.60 Aligned_cols=64 Identities=14% Similarity=0.283 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcc
Q 013038 255 SFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325 (451)
Q Consensus 255 ~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~ 325 (451)
+....|++.. |-+.+|+=..+|+-+|-+++..+.+- +.+..=+.++++.+.++++|-|||.-..
T Consensus 6 ~~~~~~~~~~-pyi~~~~~~~~VIk~gG~~~~~~~l~------~~~~~di~~l~~~g~~~VlVHGgg~~i~ 69 (284)
T CHL00202 6 ERVQVLSEAL-PYIQKFRGRIMVIKYGGAAMKNLILK------ADIIKDILFLSCIGLKIVVVHGGGPEIN 69 (284)
T ss_pred HHHHHHHHHH-HHHHHHcCCeEEEEEChHHhcCcchH------HHHHHHHHHHHHCCCcEEEEeCCcHHHH
Confidence 5577788765 77899998999999998776544322 1233344556677899999999998543
No 50
>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=36.78 E-value=73 Score=28.83 Aligned_cols=47 Identities=11% Similarity=0.382 Sum_probs=28.2
Q ss_pred HHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhc--CCCEEE
Q 013038 265 SKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF--NLPLLV 316 (451)
Q Consensus 265 ~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~--~~p~l~ 316 (451)
..++...+|++||+..|..=...+. --.+.+..+++.+++. +.|+++
T Consensus 50 ~~~~~~~~pd~vii~~G~ND~~~~~-----~~~~~~~~~i~~i~~~~p~~~iil 98 (177)
T cd01844 50 AELLRDVPADLYIIDCGPNIVGAEA-----MVRERLGPLVKGLRETHPDTPILL 98 (177)
T ss_pred HHHHHhcCCCEEEEEeccCCCccHH-----HHHHHHHHHHHHHHHHCcCCCEEE
Confidence 3455668999999999987432211 1234455566666664 345554
No 51
>PRK13236 nitrogenase reductase; Reviewed
Probab=36.51 E-value=38 Score=34.10 Aligned_cols=24 Identities=13% Similarity=0.160 Sum_probs=18.2
Q ss_pred HHhCCcEEEEEcccccCCCcccccc
Q 013038 160 LKYHARVLYIDIDVHHGDGVEEAFY 184 (451)
Q Consensus 160 l~~~~RVl~IDiDvHHGDGtqe~F~ 184 (451)
.+..+||++||.|.++++ +.-+|.
T Consensus 31 a~~G~rVLliD~D~q~~~-~~~l~~ 54 (296)
T PRK13236 31 AEMGQRILIVGCDPKADS-TRLMLH 54 (296)
T ss_pred HHCCCcEEEEEccCCCCc-cchhcc
Confidence 345699999999999877 555553
No 52
>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=35.98 E-value=96 Score=32.35 Aligned_cols=71 Identities=17% Similarity=0.332 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHhcCCCEEEEee-CCCCCCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEcCCCCCcchhhhHHHHHHh
Q 013038 259 LFKTIISKVVETYAPGAIVLQC-GADSLAGDRLGCFNLSIDGHAECVRFVK-KFNLPLLVTGGGGYTKENVARCWTVETG 336 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~-G~D~~~gDplG~~nLs~~g~~~~~~~l~-~~~~p~l~lggGGY~~~~var~w~~~t~ 336 (451)
.+++.|..+.+.++|++|+|.. .....-||-+. .+++.++ ..+.|++.+--.||...+....|.....
T Consensus 74 ~L~~~i~~~~~~~~P~~i~v~~tC~~~~iGdDi~----------~v~~~~~~~~~~~vi~v~t~gf~g~~~~~G~~~a~~ 143 (406)
T cd01967 74 KLKKAIKEAYERFPPKAIFVYSTCPTGLIGDDIE----------AVAKEASKELGIPVIPVNCEGFRGVSQSLGHHIAND 143 (406)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCCchhhhccCHH----------HHHHHHHHhhCCCEEEEeCCCeeCCcccHHHHHHHH
Confidence 5566777888899999766554 44555566433 3444443 3578999999999887555555554444
Q ss_pred hhh
Q 013038 337 ILL 339 (451)
Q Consensus 337 ~ll 339 (451)
.++
T Consensus 144 al~ 146 (406)
T cd01967 144 AIL 146 (406)
T ss_pred HHH
Confidence 443
No 53
>PRK04531 acetylglutamate kinase; Provisional
Probab=35.08 E-value=62 Score=34.39 Aligned_cols=52 Identities=17% Similarity=0.386 Sum_probs=39.6
Q ss_pred HHHHhcCC----CEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcc
Q 013038 266 KVVETYAP----GAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325 (451)
Q Consensus 266 ~~~~~f~P----d~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~ 325 (451)
+-+..|+- ..+||-.|-..+.. + ...+...+.++.+.+.++++|-|||..+.
T Consensus 25 ~~l~~F~~~~~~~~~VIKiGG~~l~~-~-------~~~l~~dla~L~~~G~~~VlVHGggpqI~ 80 (398)
T PRK04531 25 QYLKRFSQLDAERFAVIKVGGAVLRD-D-------LEALASSLSFLQEVGLTPIVVHGAGPQLD 80 (398)
T ss_pred HHHHHHhCcCCCcEEEEEEChHHhhc-C-------HHHHHHHHHHHHHCCCcEEEEECCCHHHH
Confidence 34555654 78899999877763 2 36777888889999999999999997654
No 54
>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=34.92 E-value=1.2e+02 Score=25.15 Aligned_cols=55 Identities=22% Similarity=0.340 Sum_probs=32.6
Q ss_pred ecCCCCCChHHHHHHHHHHHHHHHHhcCCC-EEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcC
Q 013038 245 VPLKDGIDDTSFTRLFKTIISKVVETYAPG-AIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGG 319 (451)
Q Consensus 245 vPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd-~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lgg 319 (451)
|-+|+|++|+. +.+++ ....+ +|||..- -.++...-.+.+.++++.++|++-+.|
T Consensus 6 iD~PPGTgD~~-l~~~~--------~~~~~g~ivVTTP-----------q~la~~dv~r~~~~~~~~~vpilGvVE 61 (81)
T PF10609_consen 6 IDLPPGTGDEH-LTLMQ--------YLPIDGAIVVTTP-----------QELALADVRRAIDMFRKLNVPILGVVE 61 (81)
T ss_dssp EE--SCSSSHH-HHHHH--------HH--SEEEEEE-C-----------CC--HHHHHHHHHHHHCTT-EEEEEEE
T ss_pred EeCCCCCCcHH-HHHHH--------hCCCCeEEEEeCC-----------HHHHHHHHHHHHHHHHhcCCCcEEEEE
Confidence 45789999865 33333 23344 6777665 245666777889999999999997654
No 55
>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=34.77 E-value=1.5e+02 Score=26.03 Aligned_cols=44 Identities=23% Similarity=0.252 Sum_probs=33.8
Q ss_pred HhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcchh
Q 013038 269 ETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENV 327 (451)
Q Consensus 269 ~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~v 327 (451)
...++|.||+.+| |+ .|...++.+++.+.++++++-.+-..+.+
T Consensus 96 ~~~~~d~ivLvSg-D~--------------Df~~~i~~lr~~G~~V~v~~~~~~~s~~L 139 (149)
T cd06167 96 YKRRIDTIVLVSG-DS--------------DFVPLVERLRELGKRVIVVGFEAKTSREL 139 (149)
T ss_pred hhcCCCEEEEEEC-Cc--------------cHHHHHHHHHHcCCEEEEEccCccChHHH
Confidence 3338999999999 54 56678999999999999988775544444
No 56
>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=34.71 E-value=1.3e+02 Score=25.58 Aligned_cols=58 Identities=7% Similarity=0.055 Sum_probs=32.6
Q ss_pred HHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHh--cCCCEEEEcCCCC
Q 013038 265 SKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKK--FNLPLLVTGGGGY 322 (451)
Q Consensus 265 ~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~--~~~p~l~lggGGY 322 (451)
...+...+|++||++.|..=....+..........+..+++.+++ -+.+++++.---+
T Consensus 58 ~~~~~~~~~d~vil~~G~ND~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~vv~~~~~~~ 117 (187)
T cd00229 58 RLALLKDKPDLVIIELGTNDLGRGGDTSIDEFKANLEELLDALRERAPGAKVILITPPPP 117 (187)
T ss_pred hhhhccCCCCEEEEEecccccccccccCHHHHHHHHHHHHHHHHHHCCCCcEEEEeCCCC
Confidence 456778999999999986533221101122233445556666664 3556666544333
No 57
>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=33.57 E-value=12 Score=37.33 Aligned_cols=55 Identities=13% Similarity=0.276 Sum_probs=34.3
Q ss_pred HHHHHHHhcCCCEEEEeeCC---CCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEE
Q 013038 263 IISKVVETYAPGAIVLQCGA---DSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVT 317 (451)
Q Consensus 263 ii~~~~~~f~Pd~Ivvq~G~---D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~l 317 (451)
.+..+++.++||+||..+|. |....+|...+.+...+-..+.+.++..+.|++.+
T Consensus 42 ~~~~~~~~~~pd~Vin~aa~~~~~~ce~~p~~a~~iN~~~~~~la~~~~~~~~~li~~ 99 (286)
T PF04321_consen 42 AVAKLLEAFKPDVVINCAAYTNVDACEKNPEEAYAINVDATKNLAEACKERGARLIHI 99 (286)
T ss_dssp HHHHHHHHH--SEEEE------HHHHHHSHHHHHHHHTHHHHHHHHHHHHCT-EEEEE
T ss_pred HHHHHHHHhCCCeEeccceeecHHhhhhChhhhHHHhhHHHHHHHHHHHHcCCcEEEe
Confidence 34566778899999999986 34445666666666667777888888888888743
No 58
>PF06866 DUF1256: Protein of unknown function (DUF1256); InterPro: IPR009665 This family consists of several uncharacterised bacterial proteins, which seem to be specific to the orders Clostridia and Bacillales. Family members are typically around 180 residues in length. The function of this family is unknown.
Probab=33.43 E-value=1.4e+02 Score=28.02 Aligned_cols=40 Identities=20% Similarity=0.317 Sum_probs=29.2
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCc
Q 013038 253 DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGC 292 (451)
Q Consensus 253 D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~ 292 (451)
|..-...|...+...+....-++||+.-|.|-..||-||-
T Consensus 5 ~~~a~~~l~~~L~~~~~~~~~~iv~lCIGTDRstGDsLGP 44 (163)
T PF06866_consen 5 DKNAPEKLANFLYSLIPKHNREIVFLCIGTDRSTGDSLGP 44 (163)
T ss_pred CHHHHHHHHHHHHHHHhhcCCCEEEEEECCCCCccccccc
Confidence 3444444445555555555889999999999999999885
No 59
>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=32.42 E-value=1.6e+02 Score=31.39 Aligned_cols=71 Identities=11% Similarity=0.298 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHhcCCCEEEEeeCCCC-CCCCCCCccccCHHHHHHHHHHHHh-----cCCCEEEEcCCCCCcchhhhHHH
Q 013038 259 LFKTIISKVVETYAPGAIVLQCGADS-LAGDRLGCFNLSIDGHAECVRFVKK-----FNLPLLVTGGGGYTKENVARCWT 332 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~G~D~-~~gDplG~~nLs~~g~~~~~~~l~~-----~~~p~l~lggGGY~~~~var~w~ 332 (451)
.+++.|..+.++|+|++|+|..+.=+ .-||-+ ..+++.++. .+.|++.+--+||.-. ....|.
T Consensus 68 ~L~~~i~~~~~~~~p~~I~V~ttc~~eiIGdDi----------~~v~~~~~~~~p~~~~~~vi~v~t~gf~g~-~~~G~~ 136 (417)
T cd01966 68 NLEEALDTLAERAKPKVIGLLSTGLTETRGEDI----------AGALKQFRAEHPELADVPVVYVSTPDFEGS-LEDGWA 136 (417)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCcccccccCH----------HHHHHHHHhhccccCCCeEEEecCCCCCCc-HHHHHH
Confidence 34455667788899998777665432 334432 234444433 2789999999999974 456666
Q ss_pred HHHhhhhc
Q 013038 333 VETGILLD 340 (451)
Q Consensus 333 ~~t~~llg 340 (451)
.....++.
T Consensus 137 ~a~~al~~ 144 (417)
T cd01966 137 AAVEAIIE 144 (417)
T ss_pred HHHHHHHH
Confidence 65555543
No 60
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=32.20 E-value=1.9e+02 Score=26.66 Aligned_cols=65 Identities=12% Similarity=0.163 Sum_probs=37.7
Q ss_pred EEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCH----HHHHHHHHHHHhcCCCEEEE
Q 013038 242 AINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSI----DGHAECVRFVKKFNLPLLVT 317 (451)
Q Consensus 242 ~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~----~g~~~~~~~l~~~~~p~l~l 317 (451)
.+|..+...++. ..+..|. ..+...+||+||++.|..-. .. .++. +.+..+++.+++.+.+++++
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 566666443332 3344443 34556799999999997543 22 3455 34445666677666555444
No 61
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=32.06 E-value=1.8e+02 Score=28.63 Aligned_cols=55 Identities=13% Similarity=0.141 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHh-cCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCC
Q 013038 257 TRLFKTIISKVVET-YAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGG 320 (451)
Q Consensus 257 ~~~f~~ii~~~~~~-f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggG 320 (451)
...|+.+|..+.+. -+||+||+. ||=.- +-+.+.|..+.+.++.++.|+.++.|-
T Consensus 39 ~~~l~~~i~~i~~~~~~~D~vvit-------GDl~~--~~~~~~~~~~~~~l~~l~~Pv~~v~GN 94 (275)
T PRK11148 39 WESYQAVLEAIRAQQHEFDLIVAT-------GDLAQ--DHSSEAYQHFAEGIAPLRKPCVWLPGN 94 (275)
T ss_pred HHHHHHHHHHHHhhCCCCCEEEEC-------CCCCC--CCCHHHHHHHHHHHhhcCCcEEEeCCC
Confidence 44566666665443 479987663 33221 124678888888899999998887764
No 62
>TIGR03282 methan_mark_13 putative methanogenesis marker 13 metalloprotein. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it. This metal cluster-binding family is related to nitrogenase structural protein NifD and accessory protein NifE, among others.
Probab=31.73 E-value=3.2e+02 Score=28.76 Aligned_cols=69 Identities=13% Similarity=0.172 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHhcCCCEEEEeeCC-CCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcC-CCCCcchhhhHHHHHHh
Q 013038 259 LFKTIISKVVETYAPGAIVLQCGA-DSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGG-GGYTKENVARCWTVETG 336 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~G~-D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lgg-GGY~~~~var~w~~~t~ 336 (451)
.+++.|..+.+.|+|++|+|..+. -..-||-+. .+++.. ..+.|++.|-- ||+ - +....+.....
T Consensus 62 KL~eaI~ea~e~y~P~lI~VvTTCvseIIGDDIe----------aVvkE~-~~giPVI~V~t~GGf-G-dn~~G~~~aLe 128 (352)
T TIGR03282 62 KLVKVIRYAEEKFKPELIGVVGTCASMIIGEDLK----------EAVDEA-DVDAEVIAVEVHAGF-G-DNTEGVIATLE 128 (352)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCchhhccCCHH----------HHHHHh-CCCCCEEEEECCCCC-c-cHHHHHHHHHH
Confidence 455667788999999988776653 335555433 233322 45789999965 888 3 33344444444
Q ss_pred hhhc
Q 013038 337 ILLD 340 (451)
Q Consensus 337 ~llg 340 (451)
.+..
T Consensus 129 Aiid 132 (352)
T TIGR03282 129 SAAE 132 (352)
T ss_pred HHHH
Confidence 4444
No 63
>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=31.21 E-value=1.9e+02 Score=30.78 Aligned_cols=49 Identities=14% Similarity=0.121 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHh
Q 013038 253 DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKK 309 (451)
Q Consensus 253 D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~ 309 (451)
..+...+|+.++.. +.+.+||+||++ ||=.-.-+-|.+...++.+.++.
T Consensus 24 ~~D~~~~f~eil~~-a~~~~vD~VLia-------GDLFd~~~Ps~~~~~~~~~~lr~ 72 (405)
T TIGR00583 24 GDDSWNTFEEVLQI-AKEQDVDMILLG-------GDLFHENKPSRKSLYQVLRSLRL 72 (405)
T ss_pred hhhHHHHHHHHHHH-HHHcCCCEEEEC-------CccCCCCCCCHHHHHHHHHHHHH
Confidence 35677889988754 567889999874 56555556677777777777764
No 64
>PF03437 BtpA: BtpA family; InterPro: IPR005137 Photosystem I (PSI) is a large protein complex embedded within the photosynthetic thylakoid membrane. It consists of 11 subunits, ~100 chlorophyll a molecules, 2 phylloquinones, and 3 Fe4S4-clusters. The three dimensional structure of the PSI complex has been resolved at 2.5 A [], which allows the precise localisation of each cofactor. PSI together with photosystem II (PSII) catalyses the light-induced steps in oxygenic photosynthesis - a process found in cyanobacteria, eukaryotic algae (e.g. red algae, green algae) and higher plants. To date, three thylakoid proteins involved in the stable accumulation of PSI have been identified: BtpA [], Ycf3 [, ], and Ycf4 (IPR003359 from INTERPRO) []. Because translation of the psaA and psaB mRNAs encoding the two reaction centre polypeptides, of PSI and PSII respectively, is not affected in mutant strains lacking functional ycf3 and ycf4, the products of these two genes appear to act at a post-translational step of PSI biosynthesis. These gene products are therefore involved either in the stabilisation or in the assembly of the PSI complex. However, their exact roles remain unknown. The BtpA protein appears to act at the level of PSI stabilisation []. It is an extrinsic membrane protein located on the cytoplasmic side of the thylakoid membrane [, ]. Homologs of BtpA are found in the crenarchaeota and euryarchaeota, where their function remains unknown. The Ycf4 protein is firmly associated with the thylakoid membrane, presumably through a transmembrane domain []. Ycf4 co-fractionates with a protein complex larger than PSI upon sucrose density gradient centrifugation of solubilised thylakoids []. The Ycf3 protein is loosely associated with the thylakoid membrane and can be released from the membrane with sodium carbonate. This suggests that Ycf3 is not part of a stable complex and that it probably interacts transiently with its partners []. Ycf3 contains a number of tetratrico peptide repeats (TPR, IPR001440 from INTERPRO); TPR is a structural motif present in a wide range of proteins, which mediates protein-protein interactions.
Probab=31.19 E-value=1.2e+02 Score=30.23 Aligned_cols=66 Identities=24% Similarity=0.364 Sum_probs=44.5
Q ss_pred HHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHh-cCCCEEEEcCCCCCcchhhhHHHHHHhhhhc
Q 013038 262 TIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKK-FNLPLLVTGGGGYTKENVARCWTVETGILLD 340 (451)
Q Consensus 262 ~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~-~~~p~l~lggGGY~~~~var~w~~~t~~llg 340 (451)
..+..+++.+.+|.|+++--.=+..-|+ +.++.+++ ...|++ .|+|=|..|+.+.+.+.=+++.|
T Consensus 162 ~~~~~a~~~~~aDaviVtG~~TG~~~~~------------~~l~~vr~~~~~PVl--vGSGvt~~Ni~~~l~~ADG~IVG 227 (254)
T PF03437_consen 162 EAAKDAVERGGADAVIVTGKATGEPPDP------------EKLKRVREAVPVPVL--VGSGVTPENIAEYLSYADGAIVG 227 (254)
T ss_pred HHHHHHHHhcCCCEEEECCcccCCCCCH------------HHHHHHHhcCCCCEE--EecCCCHHHHHHHHHhCCEEEEe
Confidence 3455677889999999874332233222 33444444 356665 69999999999988876677777
Q ss_pred C
Q 013038 341 T 341 (451)
Q Consensus 341 ~ 341 (451)
.
T Consensus 228 S 228 (254)
T PF03437_consen 228 S 228 (254)
T ss_pred e
Confidence 4
No 65
>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=30.75 E-value=2e+02 Score=28.03 Aligned_cols=52 Identities=19% Similarity=0.247 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcC
Q 013038 259 LFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGG 319 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lgg 319 (451)
+++.++. .+++-+||+||+. ||= ..+....+.+..+++.+..++.|+++|-|
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 3444443 3455689987753 453 23344577788888888888899988776
No 66
>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=30.74 E-value=1.8e+02 Score=27.46 Aligned_cols=57 Identities=11% Similarity=0.216 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHh-cCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcC
Q 013038 254 TSFTRLFKTIISKVVET-YAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGG 319 (451)
Q Consensus 254 ~~y~~~f~~ii~~~~~~-f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lgg 319 (451)
......|+.++..+.+. -+||+||+. ||=... -+.+.|..+.+.+..+++|++++.|
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 34456677777655443 389977653 342221 2345677777888888999888766
No 67
>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]
Probab=30.28 E-value=1.1e+02 Score=30.50 Aligned_cols=36 Identities=25% Similarity=0.384 Sum_probs=22.6
Q ss_pred CCCCCChHHHHHHHH----HHHHHHHHhcCCCEEEEeeCCCC
Q 013038 247 LKDGIDDTSFTRLFK----TIISKVVETYAPGAIVLQCGADS 284 (451)
Q Consensus 247 L~~g~~D~~y~~~f~----~ii~~~~~~f~Pd~Ivvq~G~D~ 284 (451)
||.+.+-+++..+.. .++..+.+.+ |+||+-||+..
T Consensus 85 ipg~~~~~~~~~~~~~~~~~~~~~l~~~~--D~iliD~~aGl 124 (262)
T COG0455 85 LPGGSGLEDLAKLDPEDLEDVIKELEELY--DYILIDTGAGL 124 (262)
T ss_pred eeCCCChHHHhhcCHHHHHHHHHHHHhcC--CEEEEeCCCCc
Confidence 455666666655433 3555544444 99999999654
No 68
>PLN02512 acetylglutamate kinase
Probab=29.91 E-value=1.5e+02 Score=30.19 Aligned_cols=65 Identities=14% Similarity=0.277 Sum_probs=45.4
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCc
Q 013038 253 DTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTK 324 (451)
Q Consensus 253 D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~ 324 (451)
...|...|++.. |-+..|+=..+|+=.|-.......+ .+.+.+-+..++..+.++++|.|||...
T Consensus 28 ~~~~~~~~r~~~-pyi~~~~~~tiVIKlGGs~i~d~~~------~~~~~~di~~l~~~g~~iVlVHGgG~~i 92 (309)
T PLN02512 28 NLSRVDILSEAL-PFIQRFRGKTVVVKYGGAAMKDPEL------KAGVIRDLVLLSCVGLRPVLVHGGGPEI 92 (309)
T ss_pred hHHHHHHHHHHh-HHHHHHCCCeEEEEECCeeccChhH------HHHHHHHHHHHHHCCCCEEEEECCcHHH
Confidence 347888898875 7889999999999999777644321 1112222335667788899999998754
No 69
>TIGR02931 anfK_nitrog Fe-only nitrogenase, beta subunit. Nitrogenase is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, AnfK, represents the beta subunit of the iron-only alternative nitrogenase. It is homologous to NifK and VnfK, of the molybdenum-containing and the vanadium (V)-containing types, respectively.
Probab=29.87 E-value=1.8e+02 Score=31.48 Aligned_cols=70 Identities=7% Similarity=0.202 Sum_probs=48.2
Q ss_pred HHHHHHHHHHhc-CCCEE-EEeeCCCCCCCCCCCccccCHHHHHHHHHHHHh---------cCCCEEEEcCCCCCcchhh
Q 013038 260 FKTIISKVVETY-APGAI-VLQCGADSLAGDRLGCFNLSIDGHAECVRFVKK---------FNLPLLVTGGGGYTKENVA 328 (451)
Q Consensus 260 f~~ii~~~~~~f-~Pd~I-vvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~---------~~~p~l~lggGGY~~~~va 328 (451)
+++.|..+.+.| +|++| |++++.....||-+.. +++.++. .+.|++.+--+||.- +..
T Consensus 80 L~~ai~~~~~~~~~p~~i~v~ttc~~eiiGDDi~~----------v~~~~~~~~~~~~~p~~~~~ii~v~tpgF~g-s~~ 148 (461)
T TIGR02931 80 VEEAVDVLLTRYPDVKVVPIITTCSTEIIGDDVDG----------LISKLNEELLKEKFPDREVHLIPIHTPSFVG-SMI 148 (461)
T ss_pred HHHHHHHHHHhcCCCCEEEEECCchHHhhhcCHHH----------HHHHHHhhhcccccCCCCCeEEEeeCCCCCC-cHH
Confidence 566777888899 59986 6677777788886542 4444432 256899999999987 455
Q ss_pred hHHHHHHhhhhc
Q 013038 329 RCWTVETGILLD 340 (451)
Q Consensus 329 r~w~~~t~~llg 340 (451)
..|...+..++.
T Consensus 149 ~Gy~~a~~ali~ 160 (461)
T TIGR02931 149 TGYDVAVHDFVK 160 (461)
T ss_pred HHHHHHHHHHHH
Confidence 666666655554
No 70
>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=29.70 E-value=1.2e+02 Score=32.20 Aligned_cols=57 Identities=21% Similarity=0.188 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHhcCCCEEEEeeC-CCCCCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEcCCCCCcc
Q 013038 259 LFKTIISKVVETYAPGAIVLQCG-ADSLAGDRLGCFNLSIDGHAECVRFVK-KFNLPLLVTGGGGYTKE 325 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~G-~D~~~gDplG~~nLs~~g~~~~~~~l~-~~~~p~l~lggGGY~~~ 325 (451)
-++..|..+.+.|+|++|+|... .....||.+. .+++.++ ..+.|++.+--.||...
T Consensus 72 kL~~~I~~~~~~~~p~~I~v~~tC~~~iIGdDi~----------~v~~~~~~~~~~~vi~v~t~gf~g~ 130 (430)
T cd01981 72 KVVENITRKDKEEKPDLIVLTPTCTSSILQEDLQ----------NFVRAAGLSSKSPVLPLDVNHYRVN 130 (430)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCccHHHHhhCHH----------HHHHHhhhccCCCeEEecCCCccch
Confidence 44556667788899998777665 5666676543 3444443 35889999999999864
No 71
>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=28.99 E-value=1.1e+02 Score=32.62 Aligned_cols=58 Identities=17% Similarity=0.324 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHhcCCCEEEEe-eCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcch
Q 013038 259 LFKTIISKVVETYAPGAIVLQ-CGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKEN 326 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq-~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~ 326 (451)
-+++.|..+.++|+|++|+|. +......||.+. .+++.++..+.|++.+--.||....
T Consensus 73 kL~~~I~~~~~~~~p~~I~V~ttC~~~~IGdDi~----------~v~~~~~~~~~~vi~v~t~gf~g~~ 131 (427)
T cd01971 73 RLRELIKSTLSIIDADLFVVLTGCIAEIIGDDVG----------AVVSEFQEGGAPIVYLETGGFKGNN 131 (427)
T ss_pred HHHHHHHHHHHhCCCCEEEEEcCCcHHHhhcCHH----------HHHHHhhhcCCCEEEEECCCcCccc
Confidence 445566677888999976654 444556666533 3444446668899999888888744
No 72
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=28.93 E-value=37 Score=27.95 Aligned_cols=53 Identities=11% Similarity=0.211 Sum_probs=42.7
Q ss_pred eCCCCCCCCCCCc-cccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcchhhhHHH
Q 013038 280 CGADSLAGDRLGC-FNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWT 332 (451)
Q Consensus 280 ~G~D~~~gDplG~-~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~var~w~ 332 (451)
++-+.+.|+.++. +.+|-...++.++.|+..+.+|..+-+=||........+.
T Consensus 15 ~~~~~~SGe~La~~LgiSRtaVwK~Iq~Lr~~G~~I~s~~~kGY~L~~~~~ll~ 68 (79)
T COG1654 15 LTGNFVSGEKLAEELGISRTAVWKHIQQLREEGVDIESVRGKGYLLPQLPDLLP 68 (79)
T ss_pred cCCCcccHHHHHHHHCccHHHHHHHHHHHHHhCCceEecCCCceeccCccccCc
Confidence 4445667777774 7899999999999999999999999999999776655443
No 73
>CHL00175 minD septum-site determining protein; Validated
Probab=28.83 E-value=58 Score=32.04 Aligned_cols=21 Identities=24% Similarity=0.222 Sum_probs=16.4
Q ss_pred HHHhCCcEEEEEcccccCCCc
Q 013038 159 LLKYHARVLYIDIDVHHGDGV 179 (451)
Q Consensus 159 ll~~~~RVl~IDiDvHHGDGt 179 (451)
|.+...||++||.|.+.||-.
T Consensus 40 La~~g~~vlliD~D~~~~~l~ 60 (281)
T CHL00175 40 IARLGYRVALIDADIGLRNLD 60 (281)
T ss_pred HHhCCCeEEEEeCCCCCCChh
Confidence 334568999999999988744
No 74
>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=28.59 E-value=1.4e+02 Score=31.61 Aligned_cols=73 Identities=15% Similarity=0.314 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHhcCCCEEEEeeCC-CCCCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEcCCCCCcchhhhHHHHHH
Q 013038 258 RLFKTIISKVVETYAPGAIVLQCGA-DSLAGDRLGCFNLSIDGHAECVRFVK-KFNLPLLVTGGGGYTKENVARCWTVET 335 (451)
Q Consensus 258 ~~f~~ii~~~~~~f~Pd~Ivvq~G~-D~~~gDplG~~nLs~~g~~~~~~~l~-~~~~p~l~lggGGY~~~~var~w~~~t 335 (451)
.-+++.|..+.+.++|++|+|..+. ..+-||-+. .+++.++ +.+.|++.+--.||...+....|....
T Consensus 75 ~kL~~aI~~~~~~~~P~~I~V~ttC~~~iIGdDi~----------~v~~~~~~~~~~pvi~v~t~gf~g~~~~~G~~~a~ 144 (426)
T cd01972 75 KKLEDTIKEAYSRYKPKAIFVATSCATGIIGDDVE----------SVVEELEDEIGIPVVALHCEGFKGKHWRSGFDAAF 144 (426)
T ss_pred HHHHHHHHHHHHhCCCCEEEEECCChHHHhccCHH----------HHHHHHHHhhCCCEEEEeCCccCCccHhHHHHHHH
Confidence 3555667788889999987776553 344555432 3454444 458999999999998755555555555
Q ss_pred hhhhc
Q 013038 336 GILLD 340 (451)
Q Consensus 336 ~~llg 340 (451)
..++.
T Consensus 145 ~al~~ 149 (426)
T cd01972 145 HGILR 149 (426)
T ss_pred HHHHH
Confidence 44443
No 75
>PLN02825 amino-acid N-acetyltransferase
Probab=28.31 E-value=86 Score=34.55 Aligned_cols=63 Identities=13% Similarity=0.286 Sum_probs=48.0
Q ss_pred HHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcch
Q 013038 256 FTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKEN 326 (451)
Q Consensus 256 y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~ 326 (451)
|...|++.. |-+.+|+=..+||-.|-.+...+ . ...+..-+.++.+.++++++|-|||..+..
T Consensus 1 ~v~~fr~a~-pYI~~~rgktfVIk~gG~~l~~~---~----~~~l~~DialL~~lGi~~VlVHGggpqI~~ 63 (515)
T PLN02825 1 FVRWFREAW-PYIQGHRGSTFVVVISGEVVAGP---H----LDNILQDISLLHGLGIKFVLVPGTHVQIDK 63 (515)
T ss_pred ChhHHHhhh-HHHHHHCCCEEEEEECchhhcCc---h----HHHHHHHHHHHHHCCCCEEEEcCCCHHHHH
Confidence 456677764 77899999999999998887643 1 234455666788889999999999987653
No 76
>KOG4013 consensus Predicted Cu2+ homeostasis protein CutC [Inorganic ion transport and metabolism]
Probab=27.86 E-value=64 Score=31.33 Aligned_cols=43 Identities=26% Similarity=0.237 Sum_probs=32.3
Q ss_pred EEeeCCCCCCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEcCCCCCcchhhhH
Q 013038 277 VLQCGADSLAGDRLGCFNLSIDGHAECVRFVK-KFNLPLLVTGGGGYTKENVARC 330 (451)
Q Consensus 277 vvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~-~~~~p~l~lggGGY~~~~var~ 330 (451)
|+..|+|+.+-|-+ .|++.+. ...+++++.-|+|-+.+|+++.
T Consensus 154 vLtSG~~psAldGv-----------~~i~~lie~hkg~i~VmpG~Gi~~sNl~~i 197 (255)
T KOG4013|consen 154 VLTSGQEPSALDGV-----------YIIRELIELHKGKIDVMPGCGINSSNLANI 197 (255)
T ss_pred HhhcCCCcccccch-----------HHHHHHHHHhcCCEEEecCCCcchHHHHHH
Confidence 46788888887743 3444444 4478999999999999999874
No 77
>cd03466 Nitrogenase_NifN_2 Nitrogenase_nifN_2: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco). This group also contains the Clostidium fused NifN-NifB protein.
Probab=27.79 E-value=2.3e+02 Score=30.20 Aligned_cols=71 Identities=14% Similarity=0.254 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHhcCCCEEEE-eeCCCCCCCCCCCccccCHHHHHHHHHHHHh----cCCCEEEEcCCCCCcchhhhHHHH
Q 013038 259 LFKTIISKVVETYAPGAIVL-QCGADSLAGDRLGCFNLSIDGHAECVRFVKK----FNLPLLVTGGGGYTKENVARCWTV 333 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivv-q~G~D~~~gDplG~~nLs~~g~~~~~~~l~~----~~~p~l~lggGGY~~~~var~w~~ 333 (451)
-+++.|..+.+.++|++|+| ++......||.+. .+++.++. .+.|++.+--.||.- +....|..
T Consensus 71 kL~~aI~~~~~~~~P~~I~V~ttc~~~iiGdDi~----------~v~~~~~~~~~~~~~~vi~v~t~gF~g-~~~~G~~~ 139 (429)
T cd03466 71 NLKKGLKNVIEQYNPEVIGIATTCLSETIGEDVP----------RIIREFREEVDDSEPKIIPASTPGYGG-THVEGYDT 139 (429)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCchHHHhhcCHH----------HHHHHHhhcccCCCCcEEEEECCCCcc-cHHHHHHH
Confidence 45566778888899997655 4445556666532 35555544 367999999999974 44466665
Q ss_pred HHhhhhc
Q 013038 334 ETGILLD 340 (451)
Q Consensus 334 ~t~~llg 340 (451)
....++.
T Consensus 140 a~~al~~ 146 (429)
T cd03466 140 AVRSIVK 146 (429)
T ss_pred HHHHHHH
Confidence 5555553
No 78
>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=27.00 E-value=1.4e+02 Score=25.66 Aligned_cols=38 Identities=11% Similarity=0.107 Sum_probs=24.0
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCC
Q 013038 247 LKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADS 284 (451)
Q Consensus 247 L~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~ 284 (451)
+|++.-...-...+...|..++++++|++|+.-...|.
T Consensus 75 ~~D~~~~~~~~~~~~~~l~~~i~~~~p~~V~t~~~~~~ 112 (128)
T PF02585_consen 75 FPDGQLPGWSWEELVRDLEDLIREFRPDVVFTPDPDDG 112 (128)
T ss_dssp ECTTSCTCHHHHHHHHHHHHHHHHH-ESEEEEE-STTS
T ss_pred cCCCCcccccHHHHHHHHHHHHHHcCCCEEEECCCCCC
Confidence 44443333233444456778889999999999888877
No 79
>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=26.83 E-value=1.7e+02 Score=24.80 Aligned_cols=47 Identities=19% Similarity=0.130 Sum_probs=28.5
Q ss_pred HHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC--CEEEEcCCCCC
Q 013038 266 KVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNL--PLLVTGGGGYT 323 (451)
Q Consensus 266 ~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~--p~l~lggGGY~ 323 (451)
..+.+.+|++|.+|+-.+. +.....++++.+++.+. ..+++||...+
T Consensus 44 ~~~~~~~pdvV~iS~~~~~-----------~~~~~~~~i~~l~~~~~~~~~i~vGG~~~~ 92 (119)
T cd02067 44 EAAKEEDADAIGLSGLLTT-----------HMTLMKEVIEELKEAGLDDIPVLVGGAIVT 92 (119)
T ss_pred HHHHHcCCCEEEEeccccc-----------cHHHHHHHHHHHHHcCCCCCeEEEECCCCC
Confidence 4567889999999775222 22334467778887743 34455544444
No 80
>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=26.81 E-value=1e+02 Score=24.99 Aligned_cols=18 Identities=22% Similarity=0.445 Sum_probs=14.1
Q ss_pred HHHhcCCCEEEEcCCCCC
Q 013038 306 FVKKFNLPLLVTGGGGYT 323 (451)
Q Consensus 306 ~l~~~~~p~l~lggGGY~ 323 (451)
.++.++.+=+.++.|||.
T Consensus 91 ~l~~~g~~~v~~l~GG~~ 108 (113)
T PF00581_consen 91 ILKKLGFKNVYILDGGFE 108 (113)
T ss_dssp HHHHTTTSSEEEETTHHH
T ss_pred HHHHcCCCCEEEecChHH
Confidence 366677777889999986
No 81
>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=26.79 E-value=2e+02 Score=30.39 Aligned_cols=69 Identities=9% Similarity=0.219 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHhcCCCEEEE-eeCCCCCCCCCCCccccCHHHHHHHHHHHHh-----cCCCEEEEcCCCCCcchhhhHHH
Q 013038 259 LFKTIISKVVETYAPGAIVL-QCGADSLAGDRLGCFNLSIDGHAECVRFVKK-----FNLPLLVTGGGGYTKENVARCWT 332 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivv-q~G~D~~~gDplG~~nLs~~g~~~~~~~l~~-----~~~p~l~lggGGY~~~~var~w~ 332 (451)
.+.+.|..+.+.++|++|+| ++.....-||.+- .+++.++. .+.|++.+--.||... ....|.
T Consensus 68 ~L~~~i~~~~~~~~p~~I~v~~tC~~~liGdDi~----------~v~~~~~~~~~~~~~~~vi~v~tpgf~g~-~~~G~~ 136 (428)
T cd01965 68 NLIEALKNLLSRYKPDVIGVLTTCLTETIGDDVA----------GFIKEFRAEGPEPADFPVVYASTPSFKGS-HETGYD 136 (428)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCcchhhcCCCHH----------HHHHHHHhhccCCCCCeEEEeeCCCCCCc-HHHHHH
Confidence 44456677888899996554 4445556666532 34444443 4778888877787752 334444
Q ss_pred HHHhhh
Q 013038 333 VETGIL 338 (451)
Q Consensus 333 ~~t~~l 338 (451)
.....|
T Consensus 137 ~a~~al 142 (428)
T cd01965 137 NAVKAI 142 (428)
T ss_pred HHHHHH
Confidence 444333
No 82
>PRK10818 cell division inhibitor MinD; Provisional
Probab=26.14 E-value=72 Score=31.06 Aligned_cols=17 Identities=18% Similarity=0.323 Sum_probs=14.4
Q ss_pred HhCCcEEEEEcccccCC
Q 013038 161 KYHARVLYIDIDVHHGD 177 (451)
Q Consensus 161 ~~~~RVl~IDiDvHHGD 177 (451)
+..+||++||+|.+.||
T Consensus 29 ~~g~~vllvD~D~~~~~ 45 (270)
T PRK10818 29 QKGKKTVVIDFDIGLRN 45 (270)
T ss_pred HCCCeEEEEECCCCCCC
Confidence 45689999999998776
No 83
>COG3172 NadR Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]
Probab=26.03 E-value=2e+02 Score=27.30 Aligned_cols=63 Identities=14% Similarity=0.240 Sum_probs=45.1
Q ss_pred HHHHHHHhcCCCEEEEeeCCCCCCCCCCCcccc---CHHHHHHHHHHHHhcCCCEEEEcCCCCCcc
Q 013038 263 IISKVVETYAPGAIVLQCGADSLAGDRLGCFNL---SIDGHAECVRFVKKFNLPLLVTGGGGYTKE 325 (451)
Q Consensus 263 ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nL---s~~g~~~~~~~l~~~~~p~l~lggGGY~~~ 325 (451)
.+.+.+.+++-|++++-.--=....|-+-++.- .-+++..|.++|...+.|.+.+=|-||-.+
T Consensus 105 ~~~~~i~~~r~DL~lLl~p~t~wvaDG~R~~~~~~~R~~F~~~l~~~L~~~~~~~v~i~~~~y~eR 170 (187)
T COG3172 105 FLQALIAEYRFDLTLLLEPNTPWVADGLRSLGSSVQRQEFQNLLEQMLEENNIPFVVIEGEDYLER 170 (187)
T ss_pred hHHHHHhhcccceEEEcCCCCceeCCCccccccHhHHHHHHHHHHHHHHHhCCcEEEEcCCCHHHH
Confidence 467888899999998876544444444333322 235677899999999999998877799754
No 84
>cd05785 DNA_polB_like2_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. 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. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are involved in metal binding and catalysis. The exonuclease domain of family-B DNA polymerases has a fundamental role in proofreading activity. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Family-B DNA polymerases are predominantly involved in DNA replication and DNA repair.
Probab=25.82 E-value=3.4e+02 Score=25.87 Aligned_cols=70 Identities=13% Similarity=0.307 Sum_probs=38.8
Q ss_pred hccCCCceEEEEeeeccC--CCCCCCCCC----CCccCCCCCcceEEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEE
Q 013038 203 LVTYPDVKVMTVSFHKFG--DLFFPGTGD----VKEIGEREGKFYAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAI 276 (451)
Q Consensus 203 ~~~~~~~~VltiSiH~~~--~~ffPgtG~----~~~~G~g~G~~~~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~I 276 (451)
+.+.|+.+++.+.|=.+. ..|||+... +--||.-...++..-+- ....++.+.+..|...+ ..++||+|
T Consensus 3 ~~~~~~lkilsfDIE~~~~~~~~~p~p~~~~d~Ii~Is~~~~~~~~~~~~-~~~~~E~~lL~~f~~~i----~~~dPdii 77 (207)
T cd05785 3 GMTFDDLRRLQLDIETYSLPGFFFSNPDRGDDRIIIVALRDNRGWEEVLH-AEDAAEKELLEELVAII----RERDPDVI 77 (207)
T ss_pred CCCCCCceEEEEEEEecCCCCccCCCCCCCCCeEEEEecccCCCceeeec-cCCCCHHHHHHHHHHHH----HHhCCCEE
Confidence 345666778888887663 246676322 22244322222221121 23567888888776554 55899976
Q ss_pred E
Q 013038 277 V 277 (451)
Q Consensus 277 v 277 (451)
+
T Consensus 78 ~ 78 (207)
T cd05785 78 E 78 (207)
T ss_pred e
Confidence 4
No 85
>KOG2733 consensus Uncharacterized membrane protein [Function unknown]
Probab=25.78 E-value=1.5e+02 Score=31.41 Aligned_cols=49 Identities=22% Similarity=0.286 Sum_probs=34.9
Q ss_pred CChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHH
Q 013038 251 IDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHA 301 (451)
Q Consensus 251 ~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~ 301 (451)
.++..|++..+.--...+ +-+=-+||-+||||+.--| +|..-+.-...+
T Consensus 116 SGEP~f~E~mq~kYhd~A-~ekGVYIVsaCGfDSIPaD-lGv~f~~k~fdg 164 (423)
T KOG2733|consen 116 SGEPQFMERMQLKYHDLA-KEKGVYIVSACGFDSIPAD-LGVMFLRKNFDG 164 (423)
T ss_pred CCCHHHHHHHHHHHHHHH-HhcCeEEEeecccCCCCcc-ceeeeehhhccc
Confidence 567888888776555433 3455699999999999987 787655544444
No 86
>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=25.60 E-value=78 Score=26.63 Aligned_cols=15 Identities=47% Similarity=0.879 Sum_probs=14.1
Q ss_pred CCcEEEEEcccccCC
Q 013038 163 HARVLYIDIDVHHGD 177 (451)
Q Consensus 163 ~~RVl~IDiDvHHGD 177 (451)
..+|++||.|.++|+
T Consensus 29 ~~~~~l~d~d~~~~~ 43 (106)
T cd03111 29 GRRVLLVDLDLQFGD 43 (106)
T ss_pred CCcEEEEECCCCCCC
Confidence 789999999999987
No 87
>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=25.59 E-value=2.3e+02 Score=26.16 Aligned_cols=36 Identities=22% Similarity=0.289 Sum_probs=23.0
Q ss_pred hcCCCEEEEeeCC-CCCCCCCCCccccCHHHHH----HHHHHHHhc
Q 013038 270 TYAPGAIVLQCGA-DSLAGDRLGCFNLSIDGHA----ECVRFVKKF 310 (451)
Q Consensus 270 ~f~Pd~Ivvq~G~-D~~~gDplG~~nLs~~g~~----~~~~~l~~~ 310 (451)
..+||+||+..|. |... .++++..-|. ++++.+++.
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 2344554444 456666654
No 88
>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=25.47 E-value=1.8e+02 Score=26.70 Aligned_cols=45 Identities=4% Similarity=0.037 Sum_probs=25.9
Q ss_pred CCCEEEEeeCCCCCCCCCCCccccCHHHHH----HHHHHHHhcCCCEEEE
Q 013038 272 APGAIVLQCGADSLAGDRLGCFNLSIDGHA----ECVRFVKKFNLPLLVT 317 (451)
Q Consensus 272 ~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~----~~~~~l~~~~~p~l~l 317 (451)
+||+||++.|..=..... .....+.+.|. ++++.+++.+.+++++
T Consensus 65 ~pdlVii~~G~ND~~~~~-~~~~~~~~~~~~nl~~ii~~~~~~~~~~il~ 113 (198)
T cd01821 65 PGDYVLIQFGHNDQKPKD-PEYTEPYTTYKEYLRRYIAEARAKGATPILV 113 (198)
T ss_pred CCCEEEEECCCCCCCCCC-CCCCCcHHHHHHHHHHHHHHHHHCCCeEEEE
Confidence 799999999974432211 00134444444 4566666666665553
No 89
>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=25.33 E-value=3.2e+02 Score=27.94 Aligned_cols=98 Identities=15% Similarity=0.272 Sum_probs=61.3
Q ss_pred ChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCC-------------------Cc--cc--cCHHHHHHHHHHHH
Q 013038 252 DDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRL-------------------GC--FN--LSIDGHAECVRFVK 308 (451)
Q Consensus 252 ~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDpl-------------------G~--~n--Ls~~g~~~~~~~l~ 308 (451)
+-...-.+++.++..+.+ .+-+++-+.-|+.++..+.+ |. ++ .+.+.+.++.+.++
T Consensus 10 ~apG~Na~i~~vv~~a~~-~g~~v~G~~~G~~GL~~~~~~~l~~~~v~~~~~~gGt~LgtsR~~~~~~~~~~~~~~~~l~ 88 (301)
T TIGR02482 10 DAPGMNAAIRAVVRTAIY-HGFEVYGIRRGYKGLINGEIKPLESKNVSGIIHRGGTILGTARCPEFKTEEGRQKAVENLK 88 (301)
T ss_pred CcHHHHHHHHHHHHHHHH-CCCEEEEEecCHHHhcCCCeEeCCHHHHhhHHhCCCceeccCCCCccCCHHHHHHHHHHHH
Confidence 334455566666665544 36788888888888765521 21 11 14567788999999
Q ss_pred hcCCCEEEEcCCCCCcchhhhHHHHH-HhhhhcCC--CCCCCCCch
Q 013038 309 KFNLPLLVTGGGGYTKENVARCWTVE-TGILLDTE--LPNEIPENE 351 (451)
Q Consensus 309 ~~~~p~l~lggGGY~~~~var~w~~~-t~~llg~~--~~~~iP~~~ 351 (451)
.+++..|++.||-=+.+...+.+.+. +. +.|.| +.++||..|
T Consensus 89 ~~~Id~Li~IGGdgs~~~a~~L~e~~~i~-vigiPkTIDNDl~~td 133 (301)
T TIGR02482 89 KLGIEGLVVIGGDGSYTGAQKLYEEGGIP-VIGLPGTIDNDIPGTD 133 (301)
T ss_pred HcCCCEEEEeCCchHHHHHHHHHHhhCCC-EEeecccccCCCcCcc
Confidence 99999999998887776665554421 11 12322 456666544
No 90
>PRK15005 universal stress protein F; Provisional
Probab=25.21 E-value=1.8e+02 Score=24.82 Aligned_cols=45 Identities=11% Similarity=0.180 Sum_probs=26.7
Q ss_pred HHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHH-HHHHHHHhcCCCEEEE
Q 013038 263 IISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHA-ECVRFVKKFNLPLLVT 317 (451)
Q Consensus 263 ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~-~~~~~l~~~~~p~l~l 317 (451)
.|...+++.++|+||+.+. .+ .+..+ .++ -..+.++....|++++
T Consensus 98 ~I~~~a~~~~~DLIV~Gs~----~~-~~~~~-----llGS~a~~vl~~a~cpVlvV 143 (144)
T PRK15005 98 RILELAKKIPADMIIIASH----RP-DITTY-----LLGSNAAAVVRHAECSVLVV 143 (144)
T ss_pred HHHHHHHHcCCCEEEEeCC----CC-Cchhe-----eecchHHHHHHhCCCCEEEe
Confidence 3445678899999999432 11 11111 111 3445667778899886
No 91
>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=24.90 E-value=1.5e+02 Score=32.28 Aligned_cols=46 Identities=13% Similarity=0.195 Sum_probs=27.8
Q ss_pred HHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCC
Q 013038 265 SKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGY 322 (451)
Q Consensus 265 ~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY 322 (451)
...+.+++||+|.+++ +..+...-.++++.+|+....+.+|+||..
T Consensus 56 ~~~l~~~~pdvVgis~------------~t~~~~~a~~~~~~~k~~~P~~~iV~GG~h 101 (497)
T TIGR02026 56 VERLRAHCPDLVLITA------------ITPAIYIACETLKFARERLPNAIIVLGGIH 101 (497)
T ss_pred HHHHHhcCcCEEEEec------------CcccHHHHHHHHHHHHHHCCCCEEEEcCCC
Confidence 3556779999999974 112333444567777776444445555543
No 92
>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=24.14 E-value=22 Score=28.18 Aligned_cols=51 Identities=14% Similarity=0.415 Sum_probs=40.7
Q ss_pred HHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCH----HHHHHHHHHHHhcCC
Q 013038 262 TIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSI----DGHAECVRFVKKFNL 312 (451)
Q Consensus 262 ~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~----~g~~~~~~~l~~~~~ 312 (451)
+++..+..+|+-++=|++++.|...+.|+|.+-+.. ....+...++++.+.
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 578899999999999999999999999999876654 445567777776554
No 93
>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=24.13 E-value=1.7e+02 Score=27.66 Aligned_cols=37 Identities=11% Similarity=0.049 Sum_probs=27.1
Q ss_pred HHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCC
Q 013038 265 SKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNL 312 (451)
Q Consensus 265 ~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~ 312 (451)
...+++.+||+|.+|+-... +.....+.++.+++.+.
T Consensus 128 v~~~~~~~pd~v~lS~~~~~-----------~~~~~~~~i~~l~~~~~ 164 (197)
T TIGR02370 128 VEKVKKEKPLMLTGSALMTT-----------TMYGQKDINDKLKEEGY 164 (197)
T ss_pred HHHHHHcCCCEEEEcccccc-----------CHHHHHHHHHHHHHcCC
Confidence 35678899999999986333 34556778888888744
No 94
>COG0434 SgcQ Predicted TIM-barrel enzyme [General function prediction only]
Probab=23.80 E-value=4.3e+02 Score=26.53 Aligned_cols=68 Identities=21% Similarity=0.380 Sum_probs=47.3
Q ss_pred HHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhc-CCCEEEEcCCCCCcchhhhHHHHHHhhh
Q 013038 260 FKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKF-NLPLLVTGGGGYTKENVARCWTVETGIL 338 (451)
Q Consensus 260 f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~-~~p~l~lggGGY~~~~var~w~~~t~~l 338 (451)
|.+.+...++++-||+||++-=.-+..-|+ +-++.++.. ..|++ -|-|=+.+|+...|.+.-+.+
T Consensus 165 ~~~~v~dtver~~aDaVI~tG~~TG~~~d~------------~el~~a~~~~~~pvl--vGSGv~~eN~~~~l~~adG~I 230 (263)
T COG0434 165 LEEAVKDTVERGLADAVIVTGSRTGSPPDL------------EELKLAKEAVDTPVL--VGSGVNPENIEELLKIADGVI 230 (263)
T ss_pred HHHHHHHHHHccCCCEEEEecccCCCCCCH------------HHHHHHHhccCCCEE--EecCCCHHHHHHHHHHcCceE
Confidence 345666778899999999975444444442 334444443 45554 599999999999999877777
Q ss_pred hcC
Q 013038 339 LDT 341 (451)
Q Consensus 339 lg~ 341 (451)
.|.
T Consensus 231 vgT 233 (263)
T COG0434 231 VGT 233 (263)
T ss_pred EEE
Confidence 774
No 95
>KOG3363 consensus Uncharacterized conserved nuclear protein [Function unknown]
Probab=23.77 E-value=1.1e+02 Score=28.84 Aligned_cols=60 Identities=18% Similarity=0.337 Sum_probs=42.4
Q ss_pred eEEeecCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEE
Q 013038 241 YAINVPLKDGIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVT 317 (451)
Q Consensus 241 ~~vNvPL~~g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~l 317 (451)
-++|++-.+.++.++ +++|. .++| +||++|+-||=+.+-. .+.. ++.+++|+.++.+=.+
T Consensus 87 lSW~v~~fedIt~dS-LslF~-tleP-----kidlLIvG~Gd~~~p~-~v~~---------~V~~F~k~~ki~lEi~ 146 (196)
T KOG3363|consen 87 LSWSVRTFEDITTDS-LSLFQ-TLEP-----KIDLLIVGCGDKKHPD-KVRP---------SVRQFVKSHKIKLEIV 146 (196)
T ss_pred eeccCCChhhcCcch-HhHhh-hcCC-----CccEEEEecCCcCCch-hcCH---------HHHHHHHHhCcceEEe
Confidence 468888888887655 56664 3445 5899999999777652 2332 7888999987766443
No 96
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=23.62 E-value=74 Score=31.96 Aligned_cols=24 Identities=13% Similarity=0.259 Sum_probs=17.3
Q ss_pred HHHhCCcEEEEEcccccCCCccccc
Q 013038 159 LLKYHARVLYIDIDVHHGDGVEEAF 183 (451)
Q Consensus 159 ll~~~~RVl~IDiDvHHGDGtqe~F 183 (451)
|.+..+|||+||.|.++.+ +.-.|
T Consensus 28 la~~g~kVLliD~D~q~~~-~~~~~ 51 (295)
T PRK13234 28 LVEMGQKILIVGCDPKADS-TRLIL 51 (295)
T ss_pred HHHCCCeEEEEeccccccc-ccccc
Confidence 4456799999999998655 44333
No 97
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=23.14 E-value=73 Score=31.22 Aligned_cols=16 Identities=13% Similarity=0.113 Sum_probs=13.3
Q ss_pred hCCcEEEEEcccccCC
Q 013038 162 YHARVLYIDIDVHHGD 177 (451)
Q Consensus 162 ~~~RVl~IDiDvHHGD 177 (451)
..+|||+||+|.++..
T Consensus 30 ~G~rvLliD~Dpq~~~ 45 (275)
T PRK13233 30 HDKKVFIHGCDPKADS 45 (275)
T ss_pred cCCeEEEeccCcCcCh
Confidence 4789999999998643
No 98
>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=23.13 E-value=60 Score=29.45 Aligned_cols=14 Identities=29% Similarity=0.387 Sum_probs=12.6
Q ss_pred CcEEEEEcccccCC
Q 013038 164 ARVLYIDIDVHHGD 177 (451)
Q Consensus 164 ~RVl~IDiDvHHGD 177 (451)
+||++||.|.+.++
T Consensus 25 ~~vlliD~D~~~~~ 38 (179)
T cd03110 25 KNVVLADCDVDAPN 38 (179)
T ss_pred hCcEEEECCCCCCc
Confidence 79999999999766
No 99
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=23.02 E-value=38 Score=35.92 Aligned_cols=41 Identities=24% Similarity=0.434 Sum_probs=28.6
Q ss_pred ccCCCccccccccccchhhhcccccchhhhccCCCceEEEEeeec
Q 013038 174 HHGDGVEEAFYFTDRLLQTCRYNLTKYLILVTYPDVKVMTVSFHK 218 (451)
Q Consensus 174 HHGDGtqe~F~~~~r~~~~~~~~~~~~~~~~~~~~~~VltiSiH~ 218 (451)
|||||++.+....-|-|-+.|++.+-.+-- +. +|||++||.
T Consensus 167 h~~DGasQ~LssCqrDFRNkPyPvRarItY--~~--nvLtv~inn 207 (497)
T KOG3838|consen 167 HPGDGASQGLSSCQRDFRNKPYPVRARITY--YG--NVLTVMINN 207 (497)
T ss_pred CCCccHHHHHHHhhHHhccCCCCceEEEEE--ec--cEEEEEEcC
Confidence 899999999877666666777775432100 12 499999984
No 100
>cd00363 PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases. Some members evolved by gene duplication and thus have a large C-terminal/N-terminal extension comprising a second PFK domain. Generally, ATP-PFKs are allosteric homotetramers, and PPi-PFKs are dimeric and nonallosteric except for plant PPi-PFKs which are allosteric heterotetramers.
Probab=22.93 E-value=4.6e+02 Score=27.11 Aligned_cols=81 Identities=15% Similarity=0.167 Sum_probs=56.7
Q ss_pred ChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCC-------------------C--cccc--CHHHHHHHHHHHH
Q 013038 252 DDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRL-------------------G--CFNL--SIDGHAECVRFVK 308 (451)
Q Consensus 252 ~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDpl-------------------G--~~nL--s~~g~~~~~~~l~ 308 (451)
.-...-.++..++..+.. ...+++-+.-|+.++..+.+ | ++.. +.+.+.++++.++
T Consensus 11 ~apG~N~~i~~~v~~~~~-~g~~v~G~~~G~~GL~~~~~~~l~~~~v~~~~~~gGs~LgtsR~~~~~~~~~~~~~~~~l~ 89 (338)
T cd00363 11 DAPGMNAAIRGVVRSAIA-EGLEVYGIYEGYAGLVEGDIKELDWESVSDIINRGGTIIGSARCKEFRTEEGRAKAAENLK 89 (338)
T ss_pred CchhHHHHHHHHHHHHHH-CCCEEEEEecChHHhCCCCeEeCCHHHhcchhhCCCeecccCCCCccCCHHHHHHHHHHHH
Confidence 334455666667766544 46788888889998876622 2 2333 5677888999999
Q ss_pred hcCCCEEEEcCCCCCcchhhhHHHH
Q 013038 309 KFNLPLLVTGGGGYTKENVARCWTV 333 (451)
Q Consensus 309 ~~~~p~l~lggGGY~~~~var~w~~ 333 (451)
+.++..|++.||-=+.+.+.+...+
T Consensus 90 ~~~I~~Lv~IGGd~s~~~a~~L~e~ 114 (338)
T cd00363 90 KHGIDALVVIGGDGSYTGADLLTEE 114 (338)
T ss_pred HhCCCEEEEeCCHHHHHHHHHHHHH
Confidence 9999999999888776666555444
No 101
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=22.80 E-value=2.1e+02 Score=30.59 Aligned_cols=63 Identities=21% Similarity=0.305 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHhcCCCEEEEe-eCCCCCCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEcCCCCCcchhhhHHH
Q 013038 259 LFKTIISKVVETYAPGAIVLQ-CGADSLAGDRLGCFNLSIDGHAECVRFVK-KFNLPLLVTGGGGYTKENVARCWT 332 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq-~G~D~~~gDplG~~nLs~~g~~~~~~~l~-~~~~p~l~lggGGY~~~~var~w~ 332 (451)
-+...|..+.++|+|++|+|. +....+-||.+. .+++.++ ..+.|++.+--.||.-. ....|.
T Consensus 108 kL~~~I~e~~~~~~P~~I~V~ttC~~~lIGdDi~----------~v~~e~~~~~~~~vi~v~t~gf~g~-~~~G~~ 172 (456)
T TIGR01283 108 KLFHAIREIVERYHPPAVFVYSTCVPGLIGDDLE----------AVCKAAAEKTGIPVIPVDSEGFYGS-KNLGNK 172 (456)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCChHHHhcCCHH----------HHHHHHHHHhCCCEEEEECCCCccc-hhHHHH
Confidence 444566677888999977654 444556666543 3444443 35889999999998653 444444
No 102
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=22.59 E-value=3.9e+02 Score=26.20 Aligned_cols=62 Identities=15% Similarity=0.321 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHH---HHHHHHHHHhcC-CCEEEEcCCCCCcchh
Q 013038 255 SFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDG---HAECVRFVKKFN-LPLLVTGGGGYTKENV 327 (451)
Q Consensus 255 ~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g---~~~~~~~l~~~~-~p~l~lggGGY~~~~v 327 (451)
+....|+.++. .+.+.+||+||++ ||=.-..+-+... +.+..+.+++.+ +|++++.| |....
T Consensus 23 ~~~~~l~~l~~-~~~~~~~D~lli~-------GDi~d~~~p~~~~~~~~~~~l~~l~~~~~i~v~~i~G---NHD~~ 88 (253)
T TIGR00619 23 EQKAFLDDLLE-FAKAEQIDALLVA-------GDVFDTANPPAEAQELFNAFFRNLSDANPIPIVVISG---NHDSA 88 (253)
T ss_pred HHHHHHHHHHH-HHHHcCCCEEEEC-------CccCCCCCCCHHHHHHHHHHHHHHHhcCCceEEEEcc---CCCCh
Confidence 34556666654 4566799998764 4433333333332 334444555555 78888776 54443
No 103
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=22.53 E-value=77 Score=28.25 Aligned_cols=20 Identities=25% Similarity=0.350 Sum_probs=15.4
Q ss_pred HHHHhCCcEEEEEcccccCC
Q 013038 158 ELLKYHARVLYIDIDVHHGD 177 (451)
Q Consensus 158 ~ll~~~~RVl~IDiDvHHGD 177 (451)
.|.++..||++||.|...|+
T Consensus 23 ~l~~~g~~vllvD~D~~~~~ 42 (179)
T cd02036 23 ALAQLGYKVVLIDADLGLRN 42 (179)
T ss_pred HHHhCCCeEEEEeCCCCCCC
Confidence 34455789999999998665
No 104
>COG2047 Uncharacterized protein (ATP-grasp superfamily) [General function prediction only]
Probab=22.38 E-value=1.1e+02 Score=30.27 Aligned_cols=44 Identities=27% Similarity=0.437 Sum_probs=30.0
Q ss_pred CCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCC
Q 013038 273 PGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYT 323 (451)
Q Consensus 273 Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~ 323 (451)
+|+||+. -|.-+.++.|++.|+. .+.+.++.++.+.+..+| ||.
T Consensus 84 ~Dliil~--Gd~Q~~~~~gqyel~~----~~Ld~a~e~g~~~IyTLG-Gy~ 127 (258)
T COG2047 84 RDLIILV--GDTQATSSEGQYELTG----KILDIAKEFGARMIYTLG-GYG 127 (258)
T ss_pred CcEEEEe--ccccccCcchhHHHHH----HHHHHHHHcCCcEEEEec-Ccc
Confidence 5777664 3555567777776664 567778888888888775 454
No 105
>PRK12756 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional
Probab=22.16 E-value=3.6e+02 Score=28.33 Aligned_cols=27 Identities=19% Similarity=0.433 Sum_probs=16.2
Q ss_pred cchHHHHHHHHHHhC--CcEEEEEcccccCCC
Q 013038 149 INDLVLGILELLKYH--ARVLYIDIDVHHGDG 178 (451)
Q Consensus 149 vNdvaiai~~ll~~~--~RVl~IDiDvHHGDG 178 (451)
..+|+-|...|.+.. .||+ +|.-|||-
T Consensus 242 ~~~v~~a~~~l~~~~l~~~im---VDcSH~NS 270 (348)
T PRK12756 242 AEDIAAACDTLREFDLPEHLV---VDFSHGNC 270 (348)
T ss_pred HHHHHHHHHHHHHCCCCCcEE---EECCCccc
Confidence 345666665555543 5554 46789984
No 106
>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=21.93 E-value=4.9e+02 Score=24.35 Aligned_cols=47 Identities=34% Similarity=0.454 Sum_probs=30.0
Q ss_pred CCChHHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCE
Q 013038 250 GIDDTSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPL 314 (451)
Q Consensus 250 g~~D~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~ 314 (451)
+.+..+.+..|.. .+++++||+|+ |+.+..-| ..-+.+.++.+++++
T Consensus 45 ~~~E~~lL~~F~~----~i~~~dPd~i~---gyN~~~FD-----------lpyl~~Ra~~~gi~~ 91 (188)
T cd05781 45 GLDDRKIIREFVK----YVKEYDPDIIV---GYNSNAFD-----------WPYLVERARVLGVKL 91 (188)
T ss_pred CCCHHHHHHHHHH----HHHHcCCCEEE---ecCCCcCc-----------HHHHHHHHHHhCCCc
Confidence 4677777777765 45668999876 65544444 234566666666664
No 107
>PRK07428 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=21.80 E-value=85 Score=31.93 Aligned_cols=47 Identities=23% Similarity=0.355 Sum_probs=36.9
Q ss_pred eCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcchhhhHH
Q 013038 280 CGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCW 331 (451)
Q Consensus 280 ~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~var~w 331 (451)
+|+|...-| |++++...++++.+++.+..+.+.--||=|..|++...
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 455555555 78889999999998876667778888999999998754
No 108
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=21.67 E-value=92 Score=30.57 Aligned_cols=17 Identities=12% Similarity=0.264 Sum_probs=14.3
Q ss_pred HhCCcEEEEEcccccCC
Q 013038 161 KYHARVLYIDIDVHHGD 177 (451)
Q Consensus 161 ~~~~RVl~IDiDvHHGD 177 (451)
+..+||++||.|.+..+
T Consensus 27 ~~G~rVllvD~Dpq~~~ 43 (273)
T PRK13232 27 TMGNKILLVGCDPKADS 43 (273)
T ss_pred hhCCCeEEEeccccccc
Confidence 45789999999998765
No 109
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=21.67 E-value=98 Score=29.52 Aligned_cols=20 Identities=25% Similarity=0.421 Sum_probs=15.4
Q ss_pred HHHHhCCcEEEEEcccccCC
Q 013038 158 ELLKYHARVLYIDIDVHHGD 177 (451)
Q Consensus 158 ~ll~~~~RVl~IDiDvHHGD 177 (451)
.|.+...||++||.|...||
T Consensus 25 ~la~~g~~vlliD~D~~~~~ 44 (261)
T TIGR01968 25 ALARLGKKVVLIDADIGLRN 44 (261)
T ss_pred HHHHcCCeEEEEECCCCCCC
Confidence 34455789999999997665
No 110
>KOG0782 consensus Predicted diacylglycerol kinase [Signal transduction mechanisms]
Probab=21.45 E-value=3e+02 Score=30.92 Aligned_cols=78 Identities=27% Similarity=0.498 Sum_probs=45.5
Q ss_pred CCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcC----CCEEEE-------------cCCCCCcchhhhHHHHHH
Q 013038 273 PGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFN----LPLLVT-------------GGGGYTKENVARCWTVET 335 (451)
Q Consensus 273 Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~----~p~l~l-------------ggGGY~~~~var~w~~~t 335 (451)
+.+=|+.||-|+-.| ++...|-.++ .||.++ -||||+.+.|++..+.+.
T Consensus 416 ~nLRILaCGGDGTVG--------------WiLStLD~L~l~p~PPvailPLGTGNDLARtlnWGGgytDEPvSkil~~ve 481 (1004)
T KOG0782|consen 416 VNLRILACGGDGTVG--------------WILSTLDNLNLPPYPPVAILPLGTGNDLARTLNWGGGYTDEPVSKILQAVE 481 (1004)
T ss_pred cceEEEEecCCCcee--------------ehhhhhhhcCCCCCCCeeEeecCCcchHHHhcccCCCcCcchHHHHHHHHh
Confidence 789999999887655 2333333332 233322 389999999988765543
Q ss_pred h---hhhcC-----C-CC------------CCCCCchhhhhhcCCCCCCC
Q 013038 336 G---ILLDT-----E-LP------------NEIPENEYIKYFAPECSLRI 364 (451)
Q Consensus 336 ~---~llg~-----~-~~------------~~iP~~~~~~~~~p~~~l~~ 364 (451)
. +-|++ + -| ..||-+-|-.||.-.|.-|+
T Consensus 482 ~gtvVqLDRW~lhvEpNp~~~pEe~ddG~~~~LPL~VfnNYFSlGfDAHV 531 (1004)
T KOG0782|consen 482 HGTVVQLDRWRLHVEPNPSCNPEEEDDGMQSALPLTVFNNYFSLGFDAHV 531 (1004)
T ss_pred cCcEEeeeeeeecccCCCCCChhhhcccchhccchhHhhccccccccceE
Confidence 2 11111 1 11 23666667788876665554
No 111
>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=21.07 E-value=31 Score=27.22 Aligned_cols=10 Identities=40% Similarity=0.992 Sum_probs=7.3
Q ss_pred CCccccchHH
Q 013038 144 SGFCYINDLV 153 (451)
Q Consensus 144 sGFC~vNdva 153 (451)
-=|||+||--
T Consensus 16 TKFcYyNNy~ 25 (63)
T PF02701_consen 16 TKFCYYNNYN 25 (63)
T ss_pred CEEEeecCCC
Confidence 4589998854
No 112
>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=20.94 E-value=1e+02 Score=28.02 Aligned_cols=25 Identities=20% Similarity=0.571 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHhcCCCEEEE
Q 013038 254 TSFTRLFKTIISKVVETYAPGAIVL 278 (451)
Q Consensus 254 ~~y~~~f~~ii~~~~~~f~Pd~Ivv 278 (451)
.-+...+.+-+.+.+++++||+||-
T Consensus 71 ~~~~~~~~~~l~~~l~~~~PD~IIs 95 (169)
T PF06925_consen 71 SALSRLFARRLIRLLREFQPDLIIS 95 (169)
T ss_pred HHHHHHHHHHHHHHHhhcCCCEEEE
Confidence 3456666677888999999999885
No 113
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=20.70 E-value=2.1e+02 Score=30.29 Aligned_cols=56 Identities=14% Similarity=0.280 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHhcCCCEEEEeeCC-CCCCCCCCCccccCHHHHHHHHHHHH-hcCCCEEEEcCCCCCc
Q 013038 259 LFKTIISKVVETYAPGAIVLQCGA-DSLAGDRLGCFNLSIDGHAECVRFVK-KFNLPLLVTGGGGYTK 324 (451)
Q Consensus 259 ~f~~ii~~~~~~f~Pd~Ivvq~G~-D~~~gDplG~~nLs~~g~~~~~~~l~-~~~~p~l~lggGGY~~ 324 (451)
-++..|..+.+.|+|++|+|.... -..-||.+. .+++.++ ..+.|++.+--.||.-
T Consensus 71 ~L~~aI~~i~~~~~P~~I~V~tTC~se~IGDDi~----------~v~~~~~~~~~~pVi~v~tpgf~g 128 (407)
T TIGR01279 71 ELDRVVEQIKRDRNPSVIFLLSSCTPEVIKMDLE----------GLAERLSTNFGVPVLFAPASGLDY 128 (407)
T ss_pred HHHHHHHHHHhhcCCCEEEEECCchHHHHHhhHH----------HHHHHHHHhhCCCEEEeeCCCccc
Confidence 556677788899999998887653 334444332 2333332 2366777777667653
No 114
>PRK07896 nicotinate-nucleotide pyrophosphorylase; Provisional
Probab=20.61 E-value=85 Score=32.01 Aligned_cols=47 Identities=26% Similarity=0.279 Sum_probs=40.4
Q ss_pred EeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcchhhh
Q 013038 278 LQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVAR 329 (451)
Q Consensus 278 vq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~var 329 (451)
+.+|+|...-| |+|++...++++.+++.+.++++---||=|++|++.
T Consensus 216 l~~gaDiI~LD-----nm~~e~vk~av~~~~~~~~~v~ieaSGGI~~~ni~~ 262 (289)
T PRK07896 216 LAEGAELVLLD-----NFPVWQTQEAVQRRDARAPTVLLESSGGLTLDTAAA 262 (289)
T ss_pred HHcCCCEEEeC-----CCCHHHHHHHHHHHhccCCCEEEEEECCCCHHHHHH
Confidence 35788888878 888999999999988888888899999999999875
No 115
>cd01139 TroA_f Periplasmic binding protein TroA_f. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind their ligands in the cleft between these domains.
Probab=20.60 E-value=2.7e+02 Score=27.98 Aligned_cols=62 Identities=16% Similarity=0.144 Sum_probs=36.4
Q ss_pred HHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcchhhhHHHHHHhhhhcCC
Q 013038 268 VETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTE 342 (451)
Q Consensus 268 ~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~var~w~~~t~~llg~~ 342 (451)
+-.-+||+||.+.+.... +.-....+.+++.++|++++-...-+..++.+ |...++.++|++
T Consensus 87 l~~l~PDLIi~~~~~~~~------------~~~~~~~~~l~~~gipvv~~~~~~~~~~~~~~-~i~~lg~i~g~~ 148 (342)
T cd01139 87 VLTLKPDLVILNIWAKTT------------AEESGILEKLEQAGIPVVFVDFRQKPLKNTTP-SMRLLGKALGRE 148 (342)
T ss_pred HhhcCCCEEEEecccccc------------chhhHHHHHHHHcCCcEEEEeCCCchhhhHHH-HHHHHHHHhCCH
Confidence 456799999987553211 01125777888889999988532213333322 444556666653
No 116
>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=20.56 E-value=2.6e+02 Score=23.34 Aligned_cols=15 Identities=7% Similarity=-0.022 Sum_probs=11.6
Q ss_pred HHHhcCCCEEEEeeC
Q 013038 267 VVETYAPGAIVLQCG 281 (451)
Q Consensus 267 ~~~~f~Pd~Ivvq~G 281 (451)
.+.+.+||+|.+|+-
T Consensus 45 ~i~~~~pdiV~iS~~ 59 (125)
T cd02065 45 AAKEEDADVVGLSAL 59 (125)
T ss_pred HHHHcCCCEEEEecc
Confidence 344589999999884
No 117
>PRK00942 acetylglutamate kinase; Provisional
Probab=20.56 E-value=3.6e+02 Score=26.79 Aligned_cols=63 Identities=16% Similarity=0.375 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCC
Q 013038 254 TSFTRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYT 323 (451)
Q Consensus 254 ~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~ 323 (451)
-++...|++.. |-+..|+=..+|+-.|-.++..... .....+.+..+++.+.++++|-|||-.
T Consensus 5 ~~~~~~~r~~~-~yi~~~~~~~iViK~GGs~l~~~~~------~~~l~~~i~~l~~~g~~vVlVhGgg~~ 67 (283)
T PRK00942 5 LEKAEVLSEAL-PYIQRFMGKTIVIKYGGNAMTDEEL------KEAFARDIVLLKQVGINPVVVHGGGPQ 67 (283)
T ss_pred HHHHHHHHHHH-HHHHHHcCCeEEEEEChHHhcCcch------HHHHHHHHHHHHHCCCCEEEEeCChHH
Confidence 35667777764 7788899889999999887755421 233444555666778777777777643
No 118
>PRK11411 fecB iron-dicitrate transporter substrate-binding subunit; Provisional
Probab=20.53 E-value=5.3e+02 Score=25.55 Aligned_cols=57 Identities=16% Similarity=0.167 Sum_probs=31.1
Q ss_pred HHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcCCCCCcchhhhHHHHHHhhhhcCC
Q 013038 267 VVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTE 342 (451)
Q Consensus 267 ~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lggGGY~~~~var~w~~~t~~llg~~ 342 (451)
.+-..+||+||...+.+ ....+.+++. +|++++-.+.-+.+..- .+...++.++|++
T Consensus 96 ~I~al~PDLIi~~~~~~-----------------~~~~~~L~~~-~pv~~~~~~~~~~~~~~-~~i~~lg~i~g~e 152 (303)
T PRK11411 96 AIAALKPDLIIADSSRH-----------------AGVYIALQKI-APTLLLKSRNETYQENL-QSAAIIGEVLGKK 152 (303)
T ss_pred HHHhCCCCEEEeccccc-----------------HHHHHHHHHh-CCEEEecCCCCCHHHHH-HHHHHHHHHhCCH
Confidence 34568999999743211 1234555666 69998754332322221 1334567777743
No 119
>KOG1615 consensus Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=20.53 E-value=2e+02 Score=28.13 Aligned_cols=79 Identities=10% Similarity=0.021 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHhcCCCEEEEcCCCCCcchhhhHHHHHHhhhhcCCCCCCCCCchhhhhhcCCCCCCCCCCCCCCCCcHHH
Q 013038 298 DGHAECVRFVKKFNLPLLVTGGGGYTKENVARCWTVETGILLDTELPNEIPENEYIKYFAPECSLRIPNGHIENLNSKSY 377 (451)
Q Consensus 298 ~g~~~~~~~l~~~~~p~l~lggGGY~~~~var~w~~~t~~llg~~~~~~iP~~~~~~~~~p~~~l~~~~~~~~~~n~~~~ 377 (451)
.|..++++.|+..|. -+.|..||+ |+....++-.||.+..+.-...=-|.+.|.--............-..+-
T Consensus 91 ~Gi~eLv~~L~~~~~-~v~liSGGF------~~~i~~Va~~Lgi~~~n~yAN~l~fd~~Gk~~gfd~~~ptsdsggKa~~ 163 (227)
T KOG1615|consen 91 PGIRELVSRLHARGT-QVYLISGGF------RQLIEPVAEQLGIPKSNIYANELLFDKDGKYLGFDTNEPTSDSGGKAEV 163 (227)
T ss_pred CCHHHHHHHHHHcCC-eEEEEcCCh------HHHHHHHHHHhCCcHhhhhhheeeeccCCcccccccCCccccCCccHHH
Confidence 366788888888777 556678888 4666677778884433211111124444433333333334555566666
Q ss_pred HHHHHH
Q 013038 378 LSTIKM 383 (451)
Q Consensus 378 l~~~~~ 383 (451)
|..+|+
T Consensus 164 i~~lrk 169 (227)
T KOG1615|consen 164 IALLRK 169 (227)
T ss_pred HHHHHh
Confidence 666664
No 120
>cd07396 MPP_Nbla03831 Homo sapiens Nbla03831 and related proteins, metallophosphatase domain. Nbla03831 (also known as LOC56985) is an uncharacterized Homo sapiens protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=20.28 E-value=3.2e+02 Score=26.74 Aligned_cols=56 Identities=14% Similarity=0.200 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcC
Q 013038 257 TRLFKTIISKVVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGG 319 (451)
Q Consensus 257 ~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lgg 319 (451)
...++.++..+ .+.+||+|| .+| |...+. .. -+.+.|..+.+.+..+++|++++.|
T Consensus 26 ~~~l~~~i~~i-~~~~~d~vv-~~G-Dlv~~~---~~-~~~~~~~~~~~~l~~l~~p~~~v~G 81 (267)
T cd07396 26 LEKLEEAVEEW-NRESLDFVV-QLG-DIIDGD---NA-RAEEALDAVLAILDRLKGPVHHVLG 81 (267)
T ss_pred HHHHHHHHHHH-HcCCCCEEE-ECC-CeecCC---Cc-hHHHHHHHHHHHHHhcCCCEEEecC
Confidence 35666666655 445799755 444 322111 11 1446777888888888999988876
No 121
>cd01148 TroA_a Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains.
Probab=20.10 E-value=2.3e+02 Score=27.63 Aligned_cols=63 Identities=14% Similarity=0.092 Sum_probs=36.5
Q ss_pred HHHhcCCCEEEEeeCCCCCCCCCCCccccCHHHHHHHHHHHHhcCCCEEEEcC------CCCCcchhhhHHHHHHhhhhc
Q 013038 267 VVETYAPGAIVLQCGADSLAGDRLGCFNLSIDGHAECVRFVKKFNLPLLVTGG------GGYTKENVARCWTVETGILLD 340 (451)
Q Consensus 267 ~~~~f~Pd~Ivvq~G~D~~~gDplG~~nLs~~g~~~~~~~l~~~~~p~l~lgg------GGY~~~~var~w~~~t~~llg 340 (451)
.+-+.+||+||...+...-..+ . +..+.+++.++|++++-. |--+..++.+ +...++.++|
T Consensus 74 ~I~~l~PDlIi~~~~~~~~~~~---~---------~~~~~L~~~gipv~~~~~~~~~~~~~~~~~~~~~-~~~~lg~~~g 140 (284)
T cd01148 74 TVLAARPDLVFGGWSYGFDKGG---L---------GTPDSLAELGIKTYILPESCGQRRGEATLDDVYN-DIRNLGKIFD 140 (284)
T ss_pred HHhcCCCCEEEEecccccCCCC---C---------CCHHHHHHCCCeEEECchhccCCCCCCCHHHHHH-HHHHHHHHhC
Confidence 3556899999986543221111 1 345677888899988753 2223333333 4555666777
Q ss_pred CC
Q 013038 341 TE 342 (451)
Q Consensus 341 ~~ 342 (451)
.+
T Consensus 141 ~e 142 (284)
T cd01148 141 VE 142 (284)
T ss_pred CH
Confidence 53
No 122
>PLN02905 beta-amylase
Probab=20.05 E-value=1.3e+02 Score=33.99 Aligned_cols=58 Identities=21% Similarity=0.391 Sum_probs=0.0
Q ss_pred EEEEeeeccCCCCCCCCCCCCccCCCCCcceEEeecCCCCCCh-------------------------------------
Q 013038 211 VMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDD------------------------------------- 253 (451)
Q Consensus 211 VltiSiH~~~~~ffPgtG~~~~~G~g~G~~~~vNvPL~~g~~D------------------------------------- 253 (451)
...+|||+.| |++.+. +|||||.++-+
T Consensus 340 qvVMSFHqCG-------GNVGD~---------~~IPLP~WV~e~g~~nPDifftDrsG~rn~EyLSlg~D~~pvl~GRTp 403 (702)
T PLN02905 340 QVVMSFHECG-------GNVGDD---------VCIPLPHWVAEIGRSNPDIFFTDREGRRNPECLSWGIDKERILRGRTA 403 (702)
T ss_pred EEEEEecccC-------CCCCCc---------ccccCCHHHHHhhhcCCCceEecCCCCccCceeeeecccccccCCCCH
Q ss_pred ----HHHHHHHHHHHHHHHHhcCCCEEEEeeCCCC
Q 013038 254 ----TSFTRLFKTIISKVVETYAPGAIVLQCGADS 284 (451)
Q Consensus 254 ----~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~ 284 (451)
.+|+..|+.-+...+..=--.-|-|.+|..+
T Consensus 404 lq~Y~DFM~SFr~~F~~fl~~g~I~eI~VGLGPaG 438 (702)
T PLN02905 404 LEVYFDYMRSFRVEFDEFFEDGVISMVEVGLGPCG 438 (702)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCceEEEEeccCCCc
No 123
>PLN02705 beta-amylase
Probab=20.00 E-value=1.3e+02 Score=33.85 Aligned_cols=58 Identities=19% Similarity=0.364 Sum_probs=0.0
Q ss_pred EEEEeeeccCCCCCCCCCCCCccCCCCCcceEEeecCCCCCCh-------------------------------------
Q 013038 211 VMTVSFHKFGDLFFPGTGDVKEIGEREGKFYAINVPLKDGIDD------------------------------------- 253 (451)
Q Consensus 211 VltiSiH~~~~~ffPgtG~~~~~G~g~G~~~~vNvPL~~g~~D------------------------------------- 253 (451)
...+|||+.| |++.+. +|||||.++-+
T Consensus 322 qvVmSFHqCG-------GNVGD~---------~~IPLP~WV~e~g~~nPDifftDr~G~rn~EyLSlg~D~~pvl~GRTp 385 (681)
T PLN02705 322 QVVMAFHEYG-------GNASGN---------VMISLPQWVLEIGKDNQDIFFTDREGRRNTECLSWSIDKERVLKGRTG 385 (681)
T ss_pred EEEEEeeccC-------CCCCCc---------ccccCCHHHHHhcccCCCceeecCCCCcccceeeeecCcccccCCCCH
Q ss_pred ----HHHHHHHHHHHHHHHHhcCCCEEEEeeCCCC
Q 013038 254 ----TSFTRLFKTIISKVVETYAPGAIVLQCGADS 284 (451)
Q Consensus 254 ----~~y~~~f~~ii~~~~~~f~Pd~Ivvq~G~D~ 284 (451)
.+|+..|+.-+...+..=--.-|-|.+|..+
T Consensus 386 lq~Y~DFM~SFr~~F~~fl~~g~I~eI~VGLGP~G 420 (681)
T PLN02705 386 IEVYFDFMRSFRSEFDDLFVEGLITAVEIGLGASG 420 (681)
T ss_pred HHHHHHHHHHHHHHHHHhccCCceeEEEeccCCCc
Done!