Query 048339
Match_columns 386
No_of_seqs 201 out of 1504
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 08:36:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048339.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048339hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0123 AcuC Deacetylases, inc 100.0 4.2E-87 9.2E-92 659.6 33.0 314 14-349 1-315 (340)
2 PF00850 Hist_deacetyl: Histon 100.0 1.9E-84 4.2E-89 637.3 24.1 286 48-343 10-310 (311)
3 PTZ00346 histone deacetylase; 100.0 9E-83 1.9E-87 638.4 34.4 308 15-349 20-340 (429)
4 PTZ00063 histone deacetylase; 100.0 5.4E-82 1.2E-86 636.3 37.4 305 14-346 3-319 (436)
5 KOG1342 Histone deacetylase co 100.0 3E-67 6.6E-72 508.0 29.2 309 11-346 3-321 (425)
6 KOG1343 Histone deacetylase co 100.0 8.7E-57 1.9E-61 478.5 23.6 320 49-382 464-797 (797)
7 KOG1343 Histone deacetylase co 100.0 3.6E-44 7.8E-49 382.1 7.9 346 15-381 29-390 (797)
8 KOG1344 Predicted histone deac 100.0 3.1E-43 6.7E-48 321.9 11.9 279 35-331 20-306 (324)
9 cd01835 SGNH_hydrolase_like_3 81.7 9.7 0.00021 34.0 8.8 76 243-322 41-117 (193)
10 cd01828 sialate_O-acetylestera 79.5 12 0.00025 32.7 8.3 68 242-322 24-93 (169)
11 cd01841 NnaC_like NnaC (CMP-Ne 76.0 21 0.00045 31.2 8.9 68 242-321 26-95 (174)
12 cd01836 FeeA_FeeB_like SGNH_hy 74.2 14 0.00031 32.7 7.6 67 243-322 44-112 (191)
13 KOG0121 Nuclear cap-binding pr 74.1 2.7 5.8E-05 36.5 2.5 48 153-200 69-122 (153)
14 cd01833 XynB_like SGNH_hydrola 71.5 19 0.00041 30.8 7.5 37 242-283 15-51 (157)
15 cd04502 SGNH_hydrolase_like_7 69.1 24 0.00052 30.7 7.7 39 242-285 25-64 (171)
16 PF13472 Lipase_GDSL_2: GDSL-l 68.4 11 0.00024 32.0 5.3 79 243-328 34-113 (179)
17 cd01822 Lysophospholipase_L1_l 68.4 34 0.00074 29.6 8.5 68 242-322 39-107 (177)
18 COG3914 Spy Predicted O-linked 67.9 1.3E+02 0.0028 32.6 13.7 150 144-328 293-470 (620)
19 cd01825 SGNH_hydrolase_peri1 S 62.9 44 0.00095 29.3 8.2 75 242-323 27-103 (189)
20 cd04501 SGNH_hydrolase_like_4 62.9 54 0.0012 28.7 8.8 68 242-322 34-102 (183)
21 cd04237 AAK_NAGS-ABP AAK_NAGS- 61.9 24 0.00052 34.3 6.7 63 255-330 1-63 (280)
22 cd01832 SGNH_hydrolase_like_1 59.5 59 0.0013 28.4 8.4 45 270-322 65-111 (185)
23 TIGR03018 pepcterm_TyrKin exop 57.0 42 0.0009 30.7 7.2 23 259-281 135-157 (207)
24 cd01972 Nitrogenase_VnfE_like 54.3 73 0.0016 32.8 9.2 71 259-343 76-147 (426)
25 COG1891 Uncharacterized protei 54.1 17 0.00037 33.4 3.8 70 222-293 63-134 (235)
26 cd01967 Nitrogenase_MoFe_alpha 54.0 67 0.0014 32.6 8.7 72 259-344 74-150 (406)
27 PF00148 Oxidored_nitro: Nitro 54.0 64 0.0014 32.5 8.6 71 260-344 62-136 (398)
28 cd01838 Isoamyl_acetate_hydrol 52.0 69 0.0015 28.0 7.6 49 272-322 63-113 (199)
29 TIGR01283 nifE nitrogenase mol 49.8 93 0.002 32.3 9.2 71 260-345 109-184 (456)
30 PRK14476 nitrogenase molybdenu 49.7 88 0.0019 32.7 8.9 69 260-342 80-152 (455)
31 cd01844 SGNH_hydrolase_like_6 48.6 65 0.0014 28.3 6.8 49 266-322 51-99 (177)
32 cd00229 SGNH_hydrolase SGNH_hy 48.0 89 0.0019 25.8 7.4 57 266-327 59-117 (187)
33 cd00840 MPP_Mre11_N Mre11 nucl 46.6 1.3E+02 0.0029 27.0 8.8 66 253-329 23-88 (223)
34 cd01839 SGNH_arylesterase_like 46.0 97 0.0021 27.8 7.7 29 270-303 77-106 (208)
35 TIGR01285 nifN nitrogenase mol 45.5 1.4E+02 0.003 31.0 9.6 72 260-345 79-158 (432)
36 TIGR01969 minD_arch cell divis 44.7 24 0.00053 32.7 3.6 17 180-197 28-44 (251)
37 cd01821 Rhamnogalacturan_acety 44.2 1.1E+02 0.0024 27.3 7.7 47 272-321 65-112 (198)
38 PRK10528 multifunctional acyl- 43.1 1.2E+02 0.0027 27.1 7.9 61 242-314 46-107 (191)
39 TIGR03282 methan_mark_13 putat 42.4 1.1E+02 0.0023 31.1 7.7 68 260-345 63-132 (352)
40 PRK13236 nitrogenase reductase 42.4 27 0.00058 34.1 3.6 32 170-202 22-53 (296)
41 cd01820 PAF_acetylesterase_lik 42.3 60 0.0013 29.6 5.7 16 268-283 85-100 (214)
42 PF14606 Lipase_GDSL_3: GDSL-l 41.1 56 0.0012 29.8 5.2 58 261-329 48-106 (178)
43 cd01965 Nitrogenase_MoFe_beta_ 40.7 1.8E+02 0.0039 29.9 9.5 58 260-330 69-130 (428)
44 CHL00073 chlN photochlorophyll 40.7 86 0.0019 32.9 7.1 57 259-329 84-141 (457)
45 cd01966 Nitrogenase_NifN_1 Nit 40.7 1.8E+02 0.004 29.9 9.5 70 260-343 69-142 (417)
46 PF09754 PAC2: PAC2 family; I 40.1 74 0.0016 29.2 6.0 98 171-288 13-114 (219)
47 PRK05279 N-acetylglutamate syn 40.1 82 0.0018 32.5 6.9 64 254-330 7-70 (441)
48 cd01968 Nitrogenase_NifE_I Nit 39.3 1.7E+02 0.0037 29.8 9.1 72 260-345 74-149 (410)
49 cd01834 SGNH_hydrolase_like_2 38.5 1.1E+02 0.0024 26.5 6.7 53 267-322 56-110 (191)
50 TIGR02707 butyr_kinase butyrat 37.9 81 0.0018 31.8 6.3 63 148-214 124-201 (351)
51 PRK14478 nitrogenase molybdenu 37.3 1.7E+02 0.0036 30.8 8.7 72 260-345 107-182 (475)
52 cd01830 XynE_like SGNH_hydrola 36.9 2.8E+02 0.006 24.9 9.2 76 242-321 42-124 (204)
53 COG0420 SbcD DNA repair exonuc 36.7 1.5E+02 0.0032 30.0 8.0 68 252-330 21-88 (390)
54 cd01829 SGNH_hydrolase_peri2 S 36.7 1.8E+02 0.004 25.6 7.9 21 265-285 52-73 (200)
55 CHL00076 chlB photochlorophyll 36.6 1.5E+02 0.0032 31.6 8.3 73 259-345 72-148 (513)
56 TIGR01279 DPOR_bchN light-inde 36.1 1.5E+02 0.0033 30.4 8.0 71 259-344 71-142 (407)
57 PF06866 DUF1256: Protein of u 35.6 1.2E+02 0.0025 27.4 6.2 41 253-293 5-45 (163)
58 cd03466 Nitrogenase_NifN_2 Nit 35.5 2E+02 0.0043 29.7 8.9 71 259-343 71-144 (429)
59 cd01979 Pchlide_reductase_N Pc 35.2 1.7E+02 0.0038 29.7 8.3 71 260-345 75-146 (396)
60 cd00316 Oxidoreductase_nitroge 35.0 2.4E+02 0.0052 28.2 9.3 56 260-329 68-124 (399)
61 cd00984 DnaB_C DnaB helicase C 34.2 1.7E+02 0.0037 26.9 7.5 59 261-323 112-170 (242)
62 cd03110 Fer4_NifH_child This p 34.0 29 0.00062 30.7 2.1 15 183-197 25-39 (179)
63 cd01981 Pchlide_reductase_B Pc 34.0 1.5E+02 0.0033 30.3 7.8 57 260-330 73-130 (430)
64 PRK10818 cell division inhibit 33.6 47 0.001 31.5 3.6 16 183-198 32-47 (270)
65 PRK02842 light-independent pro 33.1 2.2E+02 0.0048 29.3 8.7 72 260-345 84-157 (427)
66 PF10609 ParA: ParA/MinD ATPas 33.0 68 0.0015 25.5 3.8 58 243-324 4-61 (81)
67 cd01971 Nitrogenase_VnfN_like 32.3 1.8E+02 0.0039 29.9 7.9 71 259-344 73-147 (427)
68 cd05781 DNA_polB_B3_exo DEDDy 32.1 2.2E+02 0.0048 25.8 7.7 73 184-288 4-76 (188)
69 COG1618 Predicted nucleotide k 31.9 1.7E+02 0.0037 26.7 6.6 52 259-324 85-138 (179)
70 PF02310 B12-binding: B12 bind 31.8 95 0.0021 25.2 4.8 19 263-281 42-60 (121)
71 PRK03011 butyrate kinase; Prov 31.7 3.4E+02 0.0073 27.5 9.6 172 11-213 10-202 (358)
72 TIGR01890 N-Ac-Glu-synth amino 31.5 73 0.0016 32.8 4.9 62 256-330 1-62 (429)
73 TIGR02931 anfK_nitrog Fe-only 30.7 2.5E+02 0.0053 29.4 8.7 71 260-344 80-159 (461)
74 TIGR02015 BchY chlorophyllide 30.2 2.2E+02 0.0049 29.4 8.2 68 258-343 73-146 (422)
75 TIGR02932 vnfK_nitrog V-contai 30.2 1.6E+02 0.0034 30.9 7.1 62 260-331 77-143 (457)
76 cd01974 Nitrogenase_MoFe_beta 30.1 3E+02 0.0065 28.4 9.2 71 259-343 72-146 (435)
77 cd02036 MinD Bacterial cell di 30.0 64 0.0014 28.0 3.7 17 183-199 29-45 (179)
78 CHL00175 minD septum-site dete 30.0 58 0.0013 31.1 3.7 19 180-199 43-61 (281)
79 PF02701 zf-Dof: Dof domain, z 29.9 18 0.00038 27.3 0.0 11 161-171 15-25 (63)
80 TIGR01284 alt_nitrog_alph nitr 29.4 2.9E+02 0.0062 28.8 8.9 73 260-345 112-190 (457)
81 COG3365 Uncharacterized protei 29.2 98 0.0021 26.0 4.2 36 307-343 23-58 (118)
82 TIGR01287 nifH nitrogenase iro 29.2 67 0.0015 30.5 3.9 18 180-199 27-44 (275)
83 TIGR01282 nifD nitrogenase mol 29.1 3E+02 0.0065 28.9 9.0 57 259-329 118-176 (466)
84 PRK14477 bifunctional nitrogen 28.8 2.8E+02 0.006 31.8 9.3 71 259-343 558-632 (917)
85 cd01973 Nitrogenase_VFe_beta_l 28.7 1.7E+02 0.0038 30.5 7.2 71 260-344 74-156 (454)
86 cd01976 Nitrogenase_MoFe_alpha 28.7 2.8E+02 0.0062 28.5 8.7 73 259-345 85-163 (421)
87 cd03111 CpaE_like This protein 28.4 1.2E+02 0.0025 24.7 4.7 15 182-196 29-43 (106)
88 PF02585 PIG-L: GlcNAc-PI de-N 28.4 1E+02 0.0022 25.6 4.5 26 259-284 87-112 (128)
89 PF02310 B12-binding: B12 bind 27.9 99 0.0022 25.1 4.3 74 169-282 16-89 (121)
90 TIGR01862 N2-ase-Ialpha nitrog 27.9 2.8E+02 0.006 28.8 8.5 73 259-345 104-182 (443)
91 COG1091 RfbD dTDP-4-dehydrorha 27.7 92 0.002 30.6 4.6 52 264-320 42-96 (281)
92 PF06925 MGDG_synth: Monogalac 27.6 67 0.0014 28.3 3.4 25 255-279 72-96 (169)
93 TIGR00734 hisAF_rel hisA/hisF 27.6 88 0.0019 29.3 4.3 36 164-199 32-67 (221)
94 KOG3147 6-phosphogluconolacton 27.4 2.9E+02 0.0062 26.7 7.6 84 197-288 70-158 (252)
95 TIGR02855 spore_yabG sporulati 27.2 2.4E+02 0.0052 27.7 7.2 61 262-326 143-207 (283)
96 cd01977 Nitrogenase_VFe_alpha 27.1 4E+02 0.0087 27.2 9.4 73 260-345 75-153 (415)
97 TIGR00619 sbcd exonuclease Sbc 26.9 3.7E+02 0.008 25.5 8.6 64 255-328 23-86 (253)
98 cd02068 radical_SAM_B12_BD B12 26.6 2.7E+02 0.0058 23.1 6.8 10 271-280 38-47 (127)
99 cd04723 HisA_HisF Phosphoribos 26.5 90 0.002 29.3 4.2 37 161-197 28-64 (233)
100 PF13277 YmdB: YmdB-like prote 26.3 1.4E+02 0.0029 29.0 5.3 59 257-330 12-70 (253)
101 PRK13232 nifH nitrogenase redu 25.1 69 0.0015 30.5 3.2 14 183-196 30-43 (273)
102 cd04506 SGNH_hydrolase_YpmR_li 24.6 1.5E+02 0.0032 26.5 5.1 42 242-285 40-82 (204)
103 CHL00202 argB acetylglutamate 24.4 2.7E+02 0.0059 27.0 7.3 63 255-329 6-68 (284)
104 KOG1495 Lactate dehydrogenase 23.8 7.2E+02 0.016 24.7 9.7 137 170-329 33-197 (332)
105 TIGR01278 DPOR_BchB light-inde 23.5 2.5E+02 0.0054 29.8 7.3 71 259-344 72-146 (511)
106 cd01827 sialate_O-acetylestera 23.4 3.6E+02 0.0079 23.4 7.4 17 270-286 65-82 (188)
107 PRK13230 nitrogenase reductase 23.4 93 0.002 29.7 3.8 18 183-201 30-47 (279)
108 TIGR01968 minD_bact septum sit 23.0 93 0.002 28.8 3.6 15 183-197 31-45 (261)
109 TIGR01860 VNFD nitrogenase van 23.0 4.7E+02 0.01 27.3 9.2 58 260-330 114-173 (461)
110 COG0126 Pgk 3-phosphoglycerate 22.7 4.5E+02 0.0098 27.1 8.5 118 241-379 21-141 (395)
111 cd08165 MPP_MPPE1 human MPPE1 22.5 4.7E+02 0.01 22.7 7.8 17 263-279 29-45 (156)
112 KOG4184 Predicted sugar kinase 22.4 75 0.0016 32.3 2.8 24 256-280 223-246 (478)
113 TIGR03878 thermo_KaiC_2 KaiC d 22.2 2.9E+02 0.0063 26.3 6.9 53 262-324 121-174 (259)
114 cd01122 GP4d_helicase GP4d_hel 21.9 2.1E+02 0.0045 26.9 5.8 50 264-323 132-188 (271)
115 cd02040 NifH NifH gene encodes 21.6 1E+02 0.0023 28.8 3.7 16 183-199 30-45 (270)
116 TIGR00665 DnaB replicative DNA 21.5 3E+02 0.0064 28.2 7.2 50 264-323 297-352 (434)
117 KOG2018 Predicted dinucleotide 21.3 69 0.0015 32.2 2.3 19 174-192 90-108 (430)
118 cd01826 acyloxyacyl_hydrolase_ 21.2 3.2E+02 0.007 27.2 7.0 44 270-313 120-165 (305)
119 KOG1610 Corticosteroid 11-beta 21.2 7.6E+02 0.017 24.8 9.5 130 250-384 84-237 (322)
120 COG1692 Calcineurin-like phosp 21.1 2.1E+02 0.0045 27.8 5.4 57 258-329 16-72 (266)
121 COG4012 Uncharacterized protei 20.7 68 0.0015 31.4 2.1 29 319-347 144-173 (342)
122 PF13941 MutL: MutL protein 20.6 6E+02 0.013 26.8 9.2 23 266-288 118-140 (457)
123 COG4671 Predicted glycosyl tra 20.5 1.5E+02 0.0032 30.4 4.4 30 251-280 85-114 (400)
124 TIGR01286 nifK nitrogenase mol 20.4 5.7E+02 0.012 27.3 9.2 73 259-344 129-208 (515)
No 1
>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=100.00 E-value=4.2e-87 Score=659.61 Aligned_cols=314 Identities=41% Similarity=0.714 Sum_probs=298.2
Q ss_pred CCcEEEEEcccccCccCCCCCCCCCCCCCcccccCCCCCCHHHHHHHHHHHHhCCCCCCceeecCCCCCHHHHhccCCHH
Q 048339 14 EGIINVFWDDGMLNHDTGKGLFDTGFDPGFLEVLEKHPENSDRIKNIVSILKRGPISPYISWHSGIPAQIPQLLSFHTPD 93 (386)
Q Consensus 14 ~~~~~ivyde~~l~H~~~~~~~~~~~~~~~~~~~~~Hpe~p~R~~~i~~~L~~~~l~~~~~~~~~~~as~e~l~~vH~~~ 93 (386)
++++.++||+.++.|.++.+ |||+|.|++.+.++|++.++...+++++|++++.++|++||+++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~----------------Hpe~p~R~~~~~~~l~~~~~~~~~~~~~p~~~~~~~l~~vH~~~ 64 (340)
T COG0123 1 MMKTALIYHPEFLEHEPPPG----------------HPENPDRLRLILELLESSGLPDSLELVEPRPATLEELLLVHSPD 64 (340)
T ss_pred CCcceEeeCHHHhcCCCCCC----------------CCCChHHHHHHHHHHHhcCccccccccCCCcCCHHHHHhhCCHH
Confidence 35688999999999999874 99999999999999999887777889999999999999999999
Q ss_pred HHHHHHHHhhcCC-ccccCCcccCcChHHHHHHHHHHHHHHHHHHHhcccceEEeecCCCCCCCCCCCCCCccccchHHH
Q 048339 94 YINELVEADKAGG-KMVCDGTVLNPGSWGAALLAVGTTLSAMKHVLDGHGKIAYALVRPPGHHAQPTMADGYCFLNNAGL 172 (386)
Q Consensus 94 Yl~~l~~~~~~~~-~~~~~~t~~~~~~~~~a~~aaG~~l~a~~~v~~g~~~~af~l~rppGHHA~~~~~~GFC~~NnvAi 172 (386)
||+.|++.+..+. ..++.||++++++|++|++++|++++|++.+++|+ +++||++|||||||++++++|||+|||+||
T Consensus 65 yv~~l~~~~~~~~~~~~d~d~~~s~~~~~~a~~a~G~al~A~~~v~~g~-~~~~~~~rppgHHA~~~~a~GFC~fNn~Ai 143 (340)
T COG0123 65 YVEFLESLSEEEGYGNLDGDTPVSPGTYEAARLAAGGALTAVDAVLEGE-DNAFALVRPPGHHAGRDRASGFCLFNNVAI 143 (340)
T ss_pred HHHHHHHhccccccccccCCCccChHHHHHHHHHhhHHHHHHHHHHcCc-cceEEECCCCcccccCCCCceeeeecHHHH
Confidence 9999999887743 47899999999999999999999999999999997 789999999999999999999999999999
Q ss_pred HHHHHHhcCCCeEEEEEecccCCCCceeCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCceeeecCCCCCCC
Q 048339 173 AVQLALNSGCGKVVVIDIDVHYGNGTAEGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGYNLNIPLPNGTG 252 (386)
Q Consensus 173 Aa~~~~~~g~~RV~IvD~DvHHGnGtq~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~~~NvpL~~g~~ 252 (386)
||++++++|.+||+|||||+|||||||+|||+|++|+++|+|++.. ++||+||..+|+|.|+ +|+++|||||+|++
T Consensus 144 aa~~l~~~~~~RVaIiD~DvHHGnGTqeify~~~~V~~~S~H~~~~---~~yPgtg~~~e~g~g~-~g~~vNiPLp~g~~ 219 (340)
T COG0123 144 AAKYLLKKGVKRVAIIDFDVHHGNGTQEIFYDDDDVLTVSLHQDGR---PFYPGTGGADEIGEGK-EGNNVNIPLPPGTG 219 (340)
T ss_pred HHHHHHHcCCCcEEEEEecCCCChhhHHHHccCCCeEEEeccCCCC---CCCCcCCCccccccCc-ccceEeeecCCCCC
Confidence 9999998899999999999999999999999999999999999743 6799999999999999 99999999999999
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcH
Q 048339 253 DRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYS 332 (386)
Q Consensus 253 d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~ 332 (386)
|++|+.+|+.+++|++++|+||+||||||||+|.+||++.|+||+++|.++++.|+++|.++ ++|+++||||||+..++
T Consensus 220 d~~y~~a~~~~v~~~~~~f~PdlvivsaG~D~h~~Dpl~~~~Lt~~~~~~~~~~v~~~a~~~-~~~~~~vleGGY~~~~l 298 (340)
T COG0123 220 DDSYLEALEEIVLPLLEEFKPDLVIVSAGFDAHRGDPLGRLNLTEEGYAKIGRAVRKLAEGY-GGPVVAVLEGGYNLDAL 298 (340)
T ss_pred cHHHHHHHHHHHHHHHHhcCCCEEEEecCcccCCCCccceeecCHHHHHHHHHHHHHHHHhc-CCCeEEEecCCCChHHH
Confidence 99999999999999999999999999999999999999999999999999999999999998 89999999999999999
Q ss_pred HHHHHHHHHHHhCCCcC
Q 048339 333 AYCLHATLEGVLNLPLA 349 (386)
Q Consensus 333 ~~~~~~~~~~l~~~~~~ 349 (386)
++++.+++.++.+...+
T Consensus 299 ~~~~~~~~~~l~~~~~~ 315 (340)
T COG0123 299 ARSLVAFLAGLAGLVEE 315 (340)
T ss_pred HHHHHHHHHHHcCCCcc
Confidence 99999999999987543
No 2
>PF00850 Hist_deacetyl: Histone deacetylase domain; InterPro: IPR023801 Regulation of transcription is, in part, modulated by reversible histone acetylation on several lysine. Histone deacetylases (HDA) catalyse the removal of the acetyl group. Histone deacetylases, acetoin utilization proteins and acetylpolyamine amidohydrolases are all members of this ancient protein superfamily []. HDAs function in multi-subunit complexes, reversing the acetylation of histones by histone acetyltransferases [, ], and are also believed to deacetylate general transcription factors such as TFIIF and sequence-specific transcription factors such as p53 []. Thus, HDAs contribute to the regulation of transcription, in particular transcriptional repression []. At N-terminal tails of histones, removal of the acetyl group from the epsilon-amino group of a lysine side chain will restore its positivecharge, which may stabilise the histone-DNA interaction and prevent activating transcription factors binding to promoter elements []. HDAs play important roles in the cell cycle and differentiation, and their deregulation can contribute to the development of cancer [, ]. This entry represents the structural domain found in histone deacetylases. It consists of a 3-layer(alpha-beta-alpha) sandwich.; PDB: 4A69_A 2VQV_A 2VQO_A 2VQJ_A 2VQQ_B 2VQM_A 2VQW_G 3MAX_C 3MEN_D 1T64_B ....
Probab=100.00 E-value=1.9e-84 Score=637.33 Aligned_cols=286 Identities=44% Similarity=0.718 Sum_probs=245.0
Q ss_pred CCCCCCHHHHHHHHHHHHhC-CCCCCceeecCCCCCHHHHhccCCHHHHHHHHHHhhcCCccc------------cCCcc
Q 048339 48 EKHPENSDRIKNIVSILKRG-PISPYISWHSGIPAQIPQLLSFHTPDYINELVEADKAGGKMV------------CDGTV 114 (386)
Q Consensus 48 ~~Hpe~p~R~~~i~~~L~~~-~l~~~~~~~~~~~as~e~l~~vH~~~Yl~~l~~~~~~~~~~~------------~~~t~ 114 (386)
+.|||+|+|++.+.+.|++. ++.+. ++|+.++|++|||++||+.|++.+....... +.||+
T Consensus 10 ~~Hpe~p~R~~~i~~~L~~~~~l~~~------~~a~~~~L~~vH~~~Yv~~l~~~~~~~~~~~~~~~~~~~~~~~~~dt~ 83 (311)
T PF00850_consen 10 DGHPESPERLESIVEALKESYGLLPR------RPATDEELLRVHDPEYVDFLESASKEAKEEEEAGSPEFPNILDDGDTP 83 (311)
T ss_dssp TTSSSCTHHHHHHHHHHHHTTTGGGG----------HHHHTTTS-HHHHHHHHHHHHHTSGCTHHHHHHHCCBTSSSSSE
T ss_pred CCcCCCHHHHHHHHHHHHHhcCCCCC------CCCCHHHHHHcCCHHHHHHHHHhcccccccccccccccccccCCCCcc
Confidence 35999999999999999885 55432 9999999999999999999999886554322 67999
Q ss_pred cCcChHHHHHHHHHHHHHHHHHHHhcccceEEeecCCCCCCCCCCCCCCccccchHHHHHHHHHh-cCCCeEEEEEeccc
Q 048339 115 LNPGSWGAALLAVGTTLSAMKHVLDGHGKIAYALVRPPGHHAQPTMADGYCFLNNAGLAVQLALN-SGCGKVVVIDIDVH 193 (386)
Q Consensus 115 ~~~~~~~~a~~aaG~~l~a~~~v~~g~~~~af~l~rppGHHA~~~~~~GFC~~NnvAiAa~~~~~-~g~~RV~IvD~DvH 193 (386)
+++++|++|++++|++++|++.+++|+.+++||++|||||||.+++++|||+||||||||+++++ +|++||+|||||+|
T Consensus 84 ~~~~~~~~a~~a~g~~l~a~~~v~~g~~~~~~a~~rppgHHA~~~~a~GFC~~Nnvaiaa~~l~~~~~~~rV~iiD~DvH 163 (311)
T PF00850_consen 84 ISPGSWEAARLAAGGTLEAADAVLSGEIKNAFALVRPPGHHAERDRAMGFCYFNNVAIAAKYLRKKYGLKRVAIIDFDVH 163 (311)
T ss_dssp BCTTHHHHHHHHHHHHHHHHHHHHTTSSSEEEEEESS--TT-BTTBBBTTBSS-HHHHHHHHHHHTTTTSSEEEEE-SSS
T ss_pred eehHHHHHHHHHHHHHHHHHHhhhcccccceeeecCccccccCcCcCcceeeeccHHHHHHHHhhccccceEEEEEeCCC
Confidence 99999999999999999999999999889999999999999999999999999999999999998 58999999999999
Q ss_pred CCCCceeCceecCCEEEEeccCCCCCCCCCCC-CCCCCcccCCCCCCceeeecCCCCCCChHHHHHHHHHHHHHHHHhcC
Q 048339 194 YGNGTAEGFYRSNKVLTISLHMNHGSWGPSHP-QNGTVDELGEGEGFGYNLNIPLPNGTGDRGYVHAMTELVVPAIQKFE 272 (386)
Q Consensus 194 HGnGtq~if~~d~~Vl~iSiH~~~~~~~~~~P-~tg~~~e~G~g~g~g~~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~ 272 (386)
||||||+|||+||+|+|+|||+++. .+|| +||..+|+|.|+|+|+++|||||+|++|++|+.+|+++|.|++++|+
T Consensus 164 hGnGtq~if~~d~~V~~~SiH~~~~---~~yP~~tG~~~e~G~~~g~g~~~NipL~~g~~d~~y~~~~~~~l~~~~~~f~ 240 (311)
T PF00850_consen 164 HGNGTQEIFYDDPRVLYISIHQYPG---NFYPFGTGFPDEIGEGKGKGYNLNIPLPPGTGDDEYLEAFEEILLPALEEFR 240 (311)
T ss_dssp --HHHHHHTTT-SSEEEEEEEE-CT---TSTTTSS--TT--ESGGGTTSEEEEEE-TTEBHHHHHHHHHHHHHHHHHHHT
T ss_pred CcccchhheeCCCCEEecCcccccc---ccCCCcCCCccccCCCcccceeEecccccccchHHHHHHHhhccccchhccc
Confidence 9999999999999999999999754 5699 99999999999999999999999999999999999999999999999
Q ss_pred CCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHHHHHHHHHHHH
Q 048339 273 PNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSAYCLHATLEGV 343 (386)
Q Consensus 273 PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~~~~~~~~~~l 343 (386)
||+||||||||++++||+|.++||+++|.++++.|++++.++|. |+|++|||||++++++++|.+++++|
T Consensus 241 P~~ivvsaG~D~~~~Dplg~~~lt~~~~~~~~~~~~~~a~~~~~-~~v~vleGGY~~~~~~~~~~~~~~~L 310 (311)
T PF00850_consen 241 PDLIVVSAGFDAHAGDPLGGLNLTPEGYRELTRRLKSLAKRHCI-PVVSVLEGGYNPESLARSWAAVIAAL 310 (311)
T ss_dssp -SEEEEEE-STTBTTSTT-SEBB-HHHHHHHHHHHHTTHSHHSG-CEEEEE-S-SSHHHHHHHHHHHHHHH
T ss_pred CcEEEEccCcccchhccccCcCCCHHHHHHHHHHHHHHHHhcCC-cEEEEECCCCChhHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999986 99999999999999999999999887
No 3
>PTZ00346 histone deacetylase; Provisional
Probab=100.00 E-value=9e-83 Score=638.43 Aligned_cols=308 Identities=23% Similarity=0.332 Sum_probs=279.0
Q ss_pred CcEEEE----EcccccCccCCCCCCCCCCCCCcccccCCCCCCHHHHHHHHHHHHhCCCCCCceeecCCCCCHHHHhccC
Q 048339 15 GIINVF----WDDGMLNHDTGKGLFDTGFDPGFLEVLEKHPENSDRIKNIVSILKRGPISPYISWHSGIPAQIPQLLSFH 90 (386)
Q Consensus 15 ~~~~iv----yde~~l~H~~~~~~~~~~~~~~~~~~~~~Hpe~p~R~~~i~~~L~~~~l~~~~~~~~~~~as~e~l~~vH 90 (386)
+++.+| |-+++..+..+. .|||+|+|+++++++|++.++...+++++|++|+.++|++||
T Consensus 20 ~~~~~~~~~~y~~~~~~~~~~~----------------~HPe~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vH 83 (429)
T PTZ00346 20 GRVALIDTSGYASDMNISAFVP----------------QHAMKPYRVLAAMEIVRSLKIDAHCRTVVPPLVKVEELMAYH 83 (429)
T ss_pred ceeEEEecCccccccccccCCC----------------cCCCCHHHHHHHHHHHHhcCCcccCeeecCCCCCHHHHHHhC
Confidence 357888 555555555554 499999999999999999999888899999999999999999
Q ss_pred CHHHHHHHHHHhhc--------CCccccCCcccCcChHHHHHHHHHHHHHHHHHHHhcccceEEeecCCCC-CCCCCCCC
Q 048339 91 TPDYINELVEADKA--------GGKMVCDGTVLNPGSWGAALLAVGTTLSAMKHVLDGHGKIAYALVRPPG-HHAQPTMA 161 (386)
Q Consensus 91 ~~~Yl~~l~~~~~~--------~~~~~~~~t~~~~~~~~~a~~aaG~~l~a~~~v~~g~~~~af~l~rppG-HHA~~~~~ 161 (386)
+++||++|++.+.. +...++.||++++++|+++++++|++|.|++.+++|+.+ +++.+||| |||.++++
T Consensus 84 s~~YI~~l~~~~~~~~~~~~~~~~~~~d~Dtpv~~~~~~~a~laaGgsl~Aa~~v~~g~~~--~Ai~~pGG~HHA~~~~a 161 (429)
T PTZ00346 84 TDTYLANLGLHSCRSWLWNAETSKVFFSGDCPPVEGLMEHSIATASGTLMGAVLLNSGQVD--VAVHWGGGMHHSKCGEC 161 (429)
T ss_pred CHHHHHHHHHhcccccccccccccccccCCCCCChHHHHHHHHHHHHHHHHHHHHHcCCCC--EEEeCCCCcCcCCCCCC
Confidence 99999999874321 123467899999999999999999999999999998766 45556777 99999999
Q ss_pred CCccccchHHHHHHHHHhcCCCeEEEEEecccCCCCceeCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCce
Q 048339 162 DGYCFLNNAGLAVQLALNSGCGKVVVIDIDVHYGNGTAEGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGY 241 (386)
Q Consensus 162 ~GFC~~NnvAiAa~~~~~~g~~RV~IvD~DvHHGnGtq~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~ 241 (386)
+|||+|||+||||++|++. .+||+|||||||||||||+|||+||+|||+|+|++.. .+||+||..+|+|.|+|+||
T Consensus 162 ~GFC~fNdvAIAa~~ll~~-~~RVliID~DVHHGnGTqeiF~~dp~Vl~vSiHq~~~---~fyPgtG~~~e~G~g~G~g~ 237 (429)
T PTZ00346 162 SGFCYVNDIVLGILELLKC-HDRVLYVDIDMHHGDGVDEAFCTSDRVFTLSLHKFGE---SFFPGTGHPRDVGYGRGRYY 237 (429)
T ss_pred CcchHHhHHHHHHHHHHHc-CCeEEEEeCCCCCCchHHHHHcCCCCeEEEEecCCCC---CCCCCCCCccccCCCCCcee
Confidence 9999999999999999875 5799999999999999999999999999999999743 36999999999999999999
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEE
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLI 321 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~ 321 (386)
++|||||+|++|++|+.+|+++|.|++++|+||+||||||||+|.+||+|+|+||.+||.++++.++++ ++|+++
T Consensus 238 ~vNVPL~~G~~D~~Yl~~f~~ii~p~l~~F~PdlIvvsaG~Da~~~DpLg~l~LT~~g~~~~~~~l~~~-----~~plv~ 312 (429)
T PTZ00346 238 SMNLAVWDGITDFYYLGLFEHALHSIVRRYSPDAIVLQCGADSLAGDRLGLLNLSSFGHGQCVQAVRDL-----GIPMLA 312 (429)
T ss_pred EEeeeCCCCcCHHHHHHHHHHHHHHHHHhcCCCEEEEECCccCCCCCCCCCceeCHHHHHHHHHHHHhc-----CCCEEE
Confidence 999999999999999999999999999999999999999999999999999999999999999998864 579999
Q ss_pred EeCCCCCCCcHHHHHHHHHHHHhCCCcC
Q 048339 322 VQEGGYHVTYSAYCLHATLEGVLNLPLA 349 (386)
Q Consensus 322 vleGGY~~~~~~~~~~~~~~~l~~~~~~ 349 (386)
+|||||++.++++||..+++.++|.+.|
T Consensus 313 vleGGY~~~~lar~w~~~t~~l~g~~i~ 340 (429)
T PTZ00346 313 LGGGGYTIRNVAKLWAYETSILTGHPLP 340 (429)
T ss_pred EeCCcCCccHHHHHHHHHHHHHcCCCCC
Confidence 9999999999999999999999997644
No 4
>PTZ00063 histone deacetylase; Provisional
Probab=100.00 E-value=5.4e-82 Score=636.32 Aligned_cols=305 Identities=27% Similarity=0.439 Sum_probs=282.1
Q ss_pred CCcEEEEEcccccCccCCCCCCCCCCCCCcccccCCCCCCHHHHHHHHHHHHhCCCCCCceeecCCCCCHHHHhccCCHH
Q 048339 14 EGIINVFWDDGMLNHDTGKGLFDTGFDPGFLEVLEKHPENSDRIKNIVSILKRGPISPYISWHSGIPAQIPQLLSFHTPD 93 (386)
Q Consensus 14 ~~~~~ivyde~~l~H~~~~~~~~~~~~~~~~~~~~~Hpe~p~R~~~i~~~L~~~~l~~~~~~~~~~~as~e~l~~vH~~~ 93 (386)
++++.++||++++.|.++.+ |||+|.|++.+.++|++.++...+++++|++|+.++|++||+++
T Consensus 3 ~~~v~~~yd~~~~~h~~g~~----------------HP~~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~ 66 (436)
T PTZ00063 3 RKRVSYFYDPDIGSYYYGPG----------------HPMKPQRIRMAHALILSYDLYKHMEIYRPHKSVEPELVLFHDEE 66 (436)
T ss_pred CceEEEEECccccCcCCcCc----------------CCcChHHHHHHHHHHHhCCCcccCeEecCCCCCHHHHHHhCCHH
Confidence 45699999999999999874 99999999999999999999888999999999999999999999
Q ss_pred HHHHHHHHhhcCCc---------ccc--CCcccCcChHHHHHHHHHHHHHHHHHHHhcccceEEeecCCCC-CCCCCCCC
Q 048339 94 YINELVEADKAGGK---------MVC--DGTVLNPGSWGAALLAVGTTLSAMKHVLDGHGKIAYALVRPPG-HHAQPTMA 161 (386)
Q Consensus 94 Yl~~l~~~~~~~~~---------~~~--~~t~~~~~~~~~a~~aaG~~l~a~~~v~~g~~~~af~l~rppG-HHA~~~~~ 161 (386)
||++|++.+..... .++ .|||+++++|+++++++|++|.|++.+++|+. .||+.|||| |||.+++|
T Consensus 67 YI~~L~~~~~~~~~~~~~~~~~f~lg~~~D~pv~~gl~~~a~~aaGgsl~Aa~~l~~g~~--~iAin~~GG~HHA~~~~A 144 (436)
T PTZ00063 67 YVDFLSSISPENYRDFTYQLKRFNVGEATDCPVFDGLFEFQQSCAGASIDGAYKLNNHQA--DICVNWSGGLHHAKRSEA 144 (436)
T ss_pred HHHHHHHhChhhcccchhhhhhcccCCCCCCCcccHHHHHHHHHHhHHHHHHHHHHcCCC--CEEeeCCCCCCCCccCCC
Confidence 99999986654321 123 48999999999999999999999999999875 477888999 99999999
Q ss_pred CCccccchHHHHHHHHHhcCCCeEEEEEecccCCCCceeCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCce
Q 048339 162 DGYCFLNNAGLAVQLALNSGCGKVVVIDIDVHYGNGTAEGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGY 241 (386)
Q Consensus 162 ~GFC~~NnvAiAa~~~~~~g~~RV~IvD~DvHHGnGtq~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~ 241 (386)
+|||+||||||||++|++. .+||+|||||||||||||++||+|++|||+|+|++. .|||+||..+++|.|.|+||
T Consensus 145 ~GFC~~NdiaiAi~~L~~~-~~RVliID~DvHHGdGtqe~F~~~~~VltvS~H~~~----~ffPgtG~~~e~G~g~G~g~ 219 (436)
T PTZ00063 145 SGFCYINDIVLGILELLKY-HARVMYIDIDVHHGDGVEEAFYVTHRVMTVSFHKFG----DFFPGTGDVTDIGVAQGKYY 219 (436)
T ss_pred CceeeecHHHHHHHHHHHh-CCeEEEEeCCCCCCcchHHHhccCCCeEEEEeccCC----CcCCCCCCccccCCCCCCce
Confidence 9999999999999999875 479999999999999999999999999999999963 36999999999999999999
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEE
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLI 321 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~ 321 (386)
++|||||+|++|++|+.+|+++|.|++++|+||+||+|||+|++.+||+|.++||.+||.++.+.++++ ++|+++
T Consensus 220 ~vNvPL~~G~~D~~Y~~~f~~ii~~~i~~f~Pd~IvvqaG~D~~~~DpLg~l~Lt~~g~~~~~~~~~~~-----~~pil~ 294 (436)
T PTZ00063 220 SVNVPLNDGIDDDSFVDLFKPVISKCVEVYRPGAIVLQCGADSLTGDRLGRFNLTIKGHAACVEFVRSL-----NIPLLV 294 (436)
T ss_pred EEEeeCCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEECCccccCCCCCCCcccCHHHHHHHHHHHHhc-----CCCEEE
Confidence 999999999999999999999999999999999999999999999999999999999999988877664 689999
Q ss_pred EeCCCCCCCcHHHHHHHHHHHHhCC
Q 048339 322 VQEGGYHVTYSAYCLHATLEGVLNL 346 (386)
Q Consensus 322 vleGGY~~~~~~~~~~~~~~~l~~~ 346 (386)
++||||++.++++||...+..+++.
T Consensus 295 l~gGGY~~~~lar~w~~~t~~~~~~ 319 (436)
T PTZ00063 295 LGGGGYTIRNVARCWAYETGVILNK 319 (436)
T ss_pred EeCccCCchHHHHHHHHHHHHHhCC
Confidence 9999999999999999999988885
No 5
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]
Probab=100.00 E-value=3e-67 Score=507.97 Aligned_cols=309 Identities=29% Similarity=0.468 Sum_probs=285.1
Q ss_pred CCCCCcEEEEEcccccCccCCCCCCCCCCCCCcccccCCCCCCHHHHHHHHHHHHhCCCCCCceeecCCCCCHHHHhccC
Q 048339 11 PAAEGIINVFWDDGMLNHDTGKGLFDTGFDPGFLEVLEKHPENSDRIKNIVSILKRGPISPYISWHSGIPAQIPQLLSFH 90 (386)
Q Consensus 11 ~~~~~~~~ivyde~~l~H~~~~~~~~~~~~~~~~~~~~~Hpe~p~R~~~i~~~L~~~~l~~~~~~~~~~~as~e~l~~vH 90 (386)
++.++++.++|+++......+++ ||+.|.|++.+.+++...+|...+++.+|..|+.+|+.+||
T Consensus 3 ~~~k~~V~y~yd~~vg~~~Yg~~----------------hpmkP~R~~mth~Lv~~YgL~k~M~i~~p~~a~~~dm~~FH 66 (425)
T KOG1342|consen 3 SLIKRRVSYFYDPDVGNFHYGQG----------------HPMKPHRIRMTHSLVLNYGLYKKMEIYRPDKASAQDMTRFH 66 (425)
T ss_pred CcCCceEEEEecCccccccccCC----------------CCCCcceehhhhHHHHhcchhhceeeccCCCCCHHHHHhhc
Confidence 45567899999999999888874 99999999999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHhhcCCc---------cccCCcccCcChHHHHHHHHHHHHHHHHHHHhcccceEEeecCCCC-CCCCCCC
Q 048339 91 TPDYINELVEADKAGGK---------MVCDGTVLNPGSWGAALLAVGTTLSAMKHVLDGHGKIAYALVRPPG-HHAQPTM 160 (386)
Q Consensus 91 ~~~Yl~~l~~~~~~~~~---------~~~~~t~~~~~~~~~a~~aaG~~l~a~~~v~~g~~~~af~l~rppG-HHA~~~~ 160 (386)
|.+||++|++...+... .+..|+|++.++|+.+++.+||+|.||..+.+++++.|+++ .+| |||.+++
T Consensus 67 t~eYi~fL~~V~p~n~~~~~~~~~~fNvg~DCPvF~gL~~fC~~~~GgSl~aa~kLn~~~~dIaINW--~GGlHHAKK~e 144 (425)
T KOG1342|consen 67 TDEYINFLQSVTPENMETFNKELKQFNVGEDCPVFDGLYDYCQLYTGGSLNAAQKLNRGECDIAINW--AGGLHHAKKSE 144 (425)
T ss_pred hHHHHHHHhhCCcccccccchHHHhcCCCCCCccccCHHHHHHHhcccchHHHHHhCCCCceEEEec--Ccccccccccc
Confidence 99999999987755432 34579999999999999999999999999999988877776 355 9999999
Q ss_pred CCCccccchHHHHHHHHHhcCCCeEEEEEecccCCCCceeCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCc
Q 048339 161 ADGYCFLNNAGLAVQLALNSGCGKVVVIDIDVHYGNGTAEGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFG 240 (386)
Q Consensus 161 ~~GFC~~NnvAiAa~~~~~~g~~RV~IvD~DvHHGnGtq~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g 240 (386)
|+||||+||+++||..|++. .+||++||+|+|||||+|++||..+||+|+|+|.+.+ .||||||+..++|.|+|+.
T Consensus 145 ASGFCYvNDIVL~ILeLlK~-h~RVLYIDIDvHHGDGVEeAFy~TDRVmTvSfHKyg~---~fFPGTG~l~d~G~~kGky 220 (425)
T KOG1342|consen 145 ASGFCYVNDIVLGILELLKY-HKRVLYIDIDVHHGDGVEEAFYTTDRVMTVSFHKYGP---GFFPGTGDLSDIGAGKGKY 220 (425)
T ss_pred cCcceeehHHHHHHHHHHHh-CCceEEEEecccCCccHHHHHhccceeEEEEEEeccC---CCCCCCCcceeccCCCCce
Confidence 99999999999999999875 3599999999999999999999999999999998753 3699999999999999999
Q ss_pred eeeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEE
Q 048339 241 YNLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLL 320 (386)
Q Consensus 241 ~~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv 320 (386)
|.|||||..|++|+.|..+|+.+|.++++.|+|++||+|||.|++.+|++|.++||..|..++.+.|+++ +.|++
T Consensus 221 yavNVPL~dGidD~sy~~if~pIi~~v~e~f~P~AiVLQCGaDSL~gDRlgcFnLsi~Gh~~Cv~fvksf-----n~pll 295 (425)
T KOG1342|consen 221 YAVNVPLKDGIDDESYESIFKPIISKVMERFQPEAIVLQCGADSLAGDRLGCFNLSIKGHAECVKFVKSF-----NLPLL 295 (425)
T ss_pred EEEccchhccCCcHHHHHHHHHHHHHHHHHhCCceEEEEcCCccccCCccceeeecchhHHHHHHHHHHc-----CCcEE
Confidence 9999999999999999999999999999999999999999999999999999999999999999999887 57999
Q ss_pred EEeCCCCCCCcHHHHHHHHHHHHhCC
Q 048339 321 IVQEGGYHVTYSAYCLHATLEGVLNL 346 (386)
Q Consensus 321 ~vleGGY~~~~~~~~~~~~~~~l~~~ 346 (386)
++++|||++.++|+||..-...+++.
T Consensus 296 vlGGGGYT~rNVARcWtYeT~v~~~~ 321 (425)
T KOG1342|consen 296 VLGGGGYTLRNVARCWTYETGVLLDQ 321 (425)
T ss_pred EecCCccchhhhHHHHHHHhhhhcCc
Confidence 99999999999999998777666664
No 6
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=100.00 E-value=8.7e-57 Score=478.52 Aligned_cols=320 Identities=29% Similarity=0.496 Sum_probs=271.4
Q ss_pred CCCCCHHHHHHHHHHHHhCCCCCCceeecCCCCCHHHHhccCCHHHHHHHHHHhhcCC-------ccccCCcccCcChHH
Q 048339 49 KHPENSDRIKNIVSILKRGPISPYISWHSGIPAQIPQLLSFHTPDYINELVEADKAGG-------KMVCDGTVLNPGSWG 121 (386)
Q Consensus 49 ~Hpe~p~R~~~i~~~L~~~~l~~~~~~~~~~~as~e~l~~vH~~~Yl~~l~~~~~~~~-------~~~~~~t~~~~~~~~ 121 (386)
.||+.|.|. .-.+. .|+...|+.+ ||.++|+.||+..|+..+......+. ...+....+.+++|.
T Consensus 464 ~~~~~p~r~---~t~~~-~gl~~~c~r~----at~~el~~vHs~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~dt~~ 535 (797)
T KOG1343|consen 464 RSPESPARF---TTGLH-TGLLGKCERI----ATLEELQLVHSEAHVLLYGSRKLLGDLSLKFESRLPCGGIGVDSDTWW 535 (797)
T ss_pred CCcccchhh---hcccc-cccccccccc----cchhhhhhcccchhhcccchhhhcccccchhhhhccccceeecccHHH
Confidence 588999992 11121 4555566644 99999999999999998652221111 133456778889999
Q ss_pred HHHHHHHHHHHHHHHH--HhcccceEEeecCCCCCCCCCCCCCCccccchHHHHHHHHHhcC-CCeEEEEEecccCCCCc
Q 048339 122 AALLAVGTTLSAMKHV--LDGHGKIAYALVRPPGHHAQPTMADGYCFLNNAGLAVQLALNSG-CGKVVVIDIDVHYGNGT 198 (386)
Q Consensus 122 ~a~~aaG~~l~a~~~v--~~g~~~~af~l~rppGHHA~~~~~~GFC~~NnvAiAa~~~~~~g-~~RV~IvD~DvHHGnGt 198 (386)
....++|++..+++.+ +.++...+|+++|||||||.+..++|||+|||+|||+++++... ..||+||||||||||||
T Consensus 536 ~~~~ssga~~~av~~v~~~~~~~~~g~avvRppGHha~~~~a~gfc~fn~vaiaak~l~~~~~~~rilivdwDvhhgngt 615 (797)
T KOG1343|consen 536 NELHSSGAARLAVGCVIELAFKVASGFAVVRPPGHHAEASTAMGFCFFNSVAIAAKLLQQRSKASRILIVDWDVHHGNGT 615 (797)
T ss_pred HHHHHHHHHHHhcchhhhhhhhhhcceeEecCCccccccCCcceeeeecchhhhhHHhhhhhhhcceEEEeecccCCcce
Confidence 9999999999999988 44555567999999999999999999999999999999998764 89999999999999999
Q ss_pred eeCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCceeeecCCCCCC-ChHHHHHHHHHHHHHHHHhcCCCEEE
Q 048339 199 AEGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGYNLNIPLPNGT-GDRGYVHAMTELVVPAIQKFEPNMIV 277 (386)
Q Consensus 199 q~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~~~NvpL~~g~-~d~~y~~~~~~~l~p~~~~f~PdlIv 277 (386)
|++||.|++|+|+|+|+++++ ++||++|..+|+|.++|.|+|+||+++.+. +|.+|+.+|+++++|+.++|.||+|+
T Consensus 616 q~~f~~~~~vlyislhr~~~G--~~fp~~g~~~e~g~~~g~g~~vNv~~~~~~~~D~ey~~a~~~vv~Pia~~F~pd~Vl 693 (797)
T KOG1343|consen 616 QQAFYSDPSVLYISLHRHDDG--NFFPGSGAPDEVGKGEGVGFNVNVAWTGGLDPDAEYLAAFRTVVMPIAYEFNPDLVL 693 (797)
T ss_pred eeeeccCccccccccchhccC--CcCCCCCCchhcccccccceeecccccCCCCCCHHHHHHHHHhhHHHHHHhCCCeEE
Confidence 999999999999999998664 679999999999999999999999999654 46999999999999999999999999
Q ss_pred EeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHHHHHHHHHHHHhCCCcCCCCCCCCC
Q 048339 278 LVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSAYCLHATLEGVLNLPLALLSDPIAY 357 (386)
Q Consensus 278 vsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 357 (386)
+|+|||+..+||+|+..+|.++|..+++.++++| +||++.+|||||+.++...+..++++.|+|.+.|.+.....+
T Consensus 694 vSagfDaa~~dplg~~~vt~~~~~~lt~~l~~la----gGRvv~~LEggy~lt~is~s~~~~~~~llg~~~p~~~~~~~~ 769 (797)
T KOG1343|consen 694 VSAGFDAAEGDPLGGYKVTAECFGYLTQQLMGLA----GGRVVLALEGGYDLTAISDSAEACVRALLGDSLPPLSEAYLP 769 (797)
T ss_pred EeccccccccCccccccccHhHHHHHHHHHHHhc----CCcEEEEecCCcchhhhhHHHHHHHHhccCCCCCCccccccC
Confidence 9999999999999999999999999999999998 799999999999999999999999999999887764433333
Q ss_pred CCCCc---chHHHHHHHHHHHhhhhhcc
Q 048339 358 YPEDE---AFPVKVIESIKQYQNDVIPF 382 (386)
Q Consensus 358 ~~~~~---~~~~~~~~~~~~~~~~~~~~ 382 (386)
.+... ..++++++.++++|+|++.+
T Consensus 770 ~~~~~~a~~~l~~~~~~~~~~w~~~~~~ 797 (797)
T KOG1343|consen 770 QKPNSNAVATLEKVIEVQSKYWSCLQGL 797 (797)
T ss_pred CCcchHHHHHHHHHHHhhhcccccccCC
Confidence 33222 23577888889999998753
No 7
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=100.00 E-value=3.6e-44 Score=382.06 Aligned_cols=346 Identities=25% Similarity=0.330 Sum_probs=294.1
Q ss_pred CcEEEEEcccccCccCCCCCCCCCCCCCcccccCCCC-CCHHHHHHHHHHHHhCCCCCCceeecC-CCCCHHHHhccCCH
Q 048339 15 GIINVFWDDGMLNHDTGKGLFDTGFDPGFLEVLEKHP-ENSDRIKNIVSILKRGPISPYISWHSG-IPAQIPQLLSFHTP 92 (386)
Q Consensus 15 ~~~~ivyde~~l~H~~~~~~~~~~~~~~~~~~~~~Hp-e~p~R~~~i~~~L~~~~l~~~~~~~~~-~~as~e~l~~vH~~ 92 (386)
.++.++|++.+..|..... ..|+ +.++|++.+.+.+.+.++...+....+ +.++.++++.+|++
T Consensus 29 ~~~~l~~~~~~~~h~~~~~--------------~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~v~~k 94 (797)
T KOG1343|consen 29 IQKQLLFAEFQKQHENQQE--------------LLEKEEKLERLRQIEEELERHRLEQPLLILRNKREAKESAVASVHVK 94 (797)
T ss_pred hhhhhhhhhhhhhhhcccc--------------cccchhhhhHHHHHHHHhhccCCccccccccchhhcccchhcccccH
Confidence 4688999999999976432 1244 889999999999988776655555555 89999999999999
Q ss_pred HHHHHHHHHhhcCCcc-------ccCCcccCcChHHHHHHHHHHHHHHHHHHHhcccceEEeecCCCCCCCCCCCCCCcc
Q 048339 93 DYINELVEADKAGGKM-------VCDGTVLNPGSWGAALLAVGTTLSAMKHVLDGHGKIAYALVRPPGHHAQPTMADGYC 165 (386)
Q Consensus 93 ~Yl~~l~~~~~~~~~~-------~~~~t~~~~~~~~~a~~aaG~~l~a~~~v~~g~~~~af~l~rppGHHA~~~~~~GFC 165 (386)
+|++.+.......... ..+..+.++.++..+..+.|+.+...+.++.++.+++++.+|||||||.++...|||
T Consensus 95 e~~~~~~~t~~~~~e~~l~~~~~~~~~~~~~~~s~~~a~~a~~~~~~~~~~~~~~~~~n~~a~v~p~~hhsep~~~~~~c 174 (797)
T KOG1343|consen 95 EKLQEFLLSKKMTAEEGLNHSSSRYPSLYYTSASHSSADQASGSLSGSYKAVLAGKASNGKADFRPPGHHSEPNLKVGFC 174 (797)
T ss_pred HHHHHHHhhhhhcchhhhhcccCCCCcceecCCchhhhcccCcccccccccccCCcccCccCcCCCCCCccccchhcchh
Confidence 9999998766333221 234567889999999999999999999999998899999999999999999999999
Q ss_pred ccchHHHHHHHHHhcC-CCeEEEEEecccCCCCceeCcee--cCCEEEEeccCCCCCCCCCCCC--CCCCcccCCCCCCc
Q 048339 166 FLNNAGLAVQLALNSG-CGKVVVIDIDVHYGNGTAEGFYR--SNKVLTISLHMNHGSWGPSHPQ--NGTVDELGEGEGFG 240 (386)
Q Consensus 166 ~~NnvAiAa~~~~~~g-~~RV~IvD~DvHHGnGtq~if~~--d~~Vl~iSiH~~~~~~~~~~P~--tg~~~e~G~g~g~g 240 (386)
+|||||++++..+... .+||+|+|||+|||+|||..|++ |++|+++|+|+... .+|||. .|..+.+|.|.|.|
T Consensus 175 l~n~Va~~~~~~~~~~~~rri~i~d~dvh~g~Gtq~~~~~~~d~~vl~~s~~r~e~--~~f~P~~~~g~~~~~~~g~~~g 252 (797)
T KOG1343|consen 175 LFNNVAERRSSPLLRRKKRRILIVDWDVHHGPGTQPSSPNNGDQRVLYFSLHRLET--GPFLPNITLGLATLRGGGPGLG 252 (797)
T ss_pred HHHHHHHHhhccccccccceeEeecccccCCCCCCCccCCCcccccccccchhccc--CCcCCCCccchHHHhCcCCCcc
Confidence 9999999999876554 89999999999999999999999 99999999999632 245665 56678899999999
Q ss_pred eeeecCCC-CCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCC-CCCCcCCHHHHHHHHHHHHHHHhhcCCCc
Q 048339 241 YNLNIPLP-NGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDP-NGRQCLTMDGYREMGRIVRSLADRYSGGR 318 (386)
Q Consensus 241 ~~~NvpL~-~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dp-lg~~~lt~~gy~~~~~~l~~~a~~~~~g~ 318 (386)
+++|+|+. .|++|.+|..+|..+++|...+|+||++++++|||+..+|+ ++.|..|+.+|.++++..+ .+. +++
T Consensus 253 ~~~nl~~~~~g~~~~dy~~~~~~~~~~~~~efqp~Lv~~sag~dA~lg~~~~~~m~~tP~~~~~~~~~~~-~~~---r~~ 328 (797)
T KOG1343|consen 253 QTGNLPWNQVGMTDADYEAAFLHVLLPHASEFQPDLLLVSAGFDALLGDGPVGLMAQTPLGYAHRTSMHR-PLG---RGQ 328 (797)
T ss_pred eeeccchhhcCCcchhhhhhhhccCccchhhcCcceEEeeccccccccCcccCcccCCcccHHHHhcccc-ccc---cCc
Confidence 99999997 58999999999999999999999999999999999999997 6999999999999998833 321 378
Q ss_pred EEEEeCCCCCCCcHHHHHHHHHHHHhCCCcCCCCCCCCCCCCCcchHHHHHHHHHHHhhhhhc
Q 048339 319 LLIVQEGGYHVTYSAYCLHATLEGVLNLPLALLSDPIAYYPEDEAFPVKVIESIKQYQNDVIP 381 (386)
Q Consensus 319 vv~vleGGY~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 381 (386)
+++++||||+.+.++.+ ..++..+++.+.+.+..+..+.++....+..+.+.+.++|+++..
T Consensus 329 l~v~~e~gy~le~l~~~-~~~~~~llg~~~~~~~~~~~p~~~~~e~~~~~~~~~~~~w~~~~~ 390 (797)
T KOG1343|consen 329 LVVVLEGGYFLEKLAQS-QLVLNKLLGKPIEQLRQPGSPKEEAEEELQSVQAVQEDRWPCEGG 390 (797)
T ss_pred cceecchhHHHHHHHHh-hhhHHhhcCCCccccccCCCchHHHHHHhhhhHHHhhcccccccC
Confidence 99999999999999888 788899999988877777664444445566778888899998865
No 8
>KOG1344 consensus Predicted histone deacetylase [Chromatin structure and dynamics]
Probab=100.00 E-value=3.1e-43 Score=321.93 Aligned_cols=279 Identities=21% Similarity=0.336 Sum_probs=234.8
Q ss_pred CCCCCCCCcccccCCCCCCHHHHHHHHHHHHhCCCCCCceeecCCCCCHHHHhccCCHHHHHHHHHHhhcCCc------c
Q 048339 35 FDTGFDPGFLEVLEKHPENSDRIKNIVSILKRGPISPYISWHSGIPAQIPQLLSFHTPDYINELVEADKAGGK------M 108 (386)
Q Consensus 35 ~~~~~~~~~~~~~~~Hpe~p~R~~~i~~~L~~~~l~~~~~~~~~~~as~e~l~~vH~~~Yl~~l~~~~~~~~~------~ 108 (386)
|+.+|++.|.+..+.||++..+...+.+.|.+.++...-.+++|.++|.+||++|||.+|++.++...+.... .
T Consensus 20 yS~~Y~i~FmGlEkLHPFDa~Kwg~v~kfL~~~~~l~d~~lvEp~e~t~e~L~rvHtr~YLkslr~s~~vA~I~EiP~v~ 99 (324)
T KOG1344|consen 20 YSRNYAIRFMGLEKLHPFDAAKWGHVHKFLCAMNLLTDETLVEPNEATKEDLLRVHTRKYLKSLRWSIKVAQITEIPFVG 99 (324)
T ss_pred ecCccceeecchhhcCcCcccchhHHHHHHHHhccccccccccCcccCHHHHHhHhhHHHHHHhhccceeeEEEeccccc
Confidence 5555667777778889999999999999999987766667899999999999999999999999876443221 1
Q ss_pred ccCCcccCcChHHHHHHHHHHHHHHHHHHHhcccceEEeecCCCC-CCCCCCCCCCccccchHHHHHHHHHhc-CCCeEE
Q 048339 109 VCDGTVLNPGSWGAALLAVGTTLSAMKHVLDGHGKIAYALVRPPG-HHAQPTMADGYCFLNNAGLAVQLALNS-GCGKVV 186 (386)
Q Consensus 109 ~~~~t~~~~~~~~~a~~aaG~~l~a~~~v~~g~~~~af~l~rppG-HHA~~~~~~GFC~~NnvAiAa~~~~~~-g~~RV~ 186 (386)
+-+...+-.......++.+|+++.|++.+++. ++++.-++| |||..+++.|||.+.|+.+||..+-++ .+.|++
T Consensus 100 flPn~~iqrk~LrPlR~QagGtilA~kLAle~----GWAINvGGGFHHcss~rGGGFC~yADItl~I~~lFer~~isr~m 175 (324)
T KOG1344|consen 100 FLPNCIIQRKLLRPLRLQAGGTILAAKLALER----GWAINVGGGFHHCSSSRGGGFCAYADITLAIFFLFERKAISRAM 175 (324)
T ss_pred cCchhhhhhhhccceeeccCceeehhhhhhhc----CeEEeecCccceeccCCCCceeehhhHHHHHHHHHhhhhhhheE
Confidence 22334455566677888999999999999873 444443455 999999999999999999999998765 589999
Q ss_pred EEEecccCCCCceeCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCceeeecCCCCCCChHHHHHHHHHHHHH
Q 048339 187 VIDIDVHYGNGTAEGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGYNLNIPLPNGTGDRGYVHAMTELVVP 266 (386)
Q Consensus 187 IvD~DvHHGnGtq~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~~~NvpL~~g~~d~~y~~~~~~~l~p 266 (386)
|||+|+|+|||.+.-|.+| .|..+.+... -.||+.-...+. ....|.|..||.|++|+..+++.+..
T Consensus 176 ivDLDAHQGNghErdf~~~-~vyi~d~ynr-----~iyp~D~~Ak~~-------Ir~kVEl~~gTeddeYLrkl~r~l~~ 242 (324)
T KOG1344|consen 176 IVDLDAHQGNGHERDFEDD-AVYIFDMYNR-----FIYPRDHVAKES-------IRCKVELRNGTEDDEYLRKLKRCLMQ 242 (324)
T ss_pred EEecccccCCccccccccc-eeehhhhhhh-----hccchhHHHHHH-------hhheeeeecCCCchHHHHHHHHHHHH
Confidence 9999999999999999888 7777776543 358875543332 24667888999999999999999999
Q ss_pred HHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCc
Q 048339 267 AIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTY 331 (386)
Q Consensus 267 ~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~ 331 (386)
.+.+|+||+||+.||.|...+||+|.+.+|++|.-+++++|.++++.. +.|+|+++.|||...+
T Consensus 243 sl~ef~Pd~VvYNAGTDiLeGDpLG~L~ISp~Gi~~RDelVFr~~R~~-~iPvvMltSGGY~K~s 306 (324)
T KOG1344|consen 243 SLAEFRPDMVVYNAGTDILEGDPLGNLAISPEGIIERDELVFRTFRAL-GIPVVMLTSGGYLKAS 306 (324)
T ss_pred HHHhhCCcEEEEeCCCccccCCCCCCeeecccccchhhHHHHHHHHHc-CCcEEEEecCceehhh
Confidence 999999999999999999999999999999999999999999999887 6899999999999753
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=81.65 E-value=9.7 Score=33.96 Aligned_cols=76 Identities=20% Similarity=0.117 Sum_probs=44.3
Q ss_pred eecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEE
Q 048339 243 LNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLI 321 (386)
Q Consensus 243 ~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~ 321 (386)
+|...+. .+-.+++..+++.+.+.+..++||+|+|..|. |....+.. ....+.+.|...-+.+...+++ +.++++
T Consensus 41 ~N~gi~G-~t~~~~~~r~~~~~~~~~~~~~pd~V~i~~G~ND~~~~~~~-~~~~~~~~~~~~~~~ii~~~~~--~~~vi~ 116 (193)
T cd01835 41 YNLGVRG-DGSEDVAARWRAEWSRRGELNVPNRLVLSVGLNDTARGGRK-RPQLSARAFLFGLNQLLEEAKR--LVPVLV 116 (193)
T ss_pred EeecCCC-CCHHHHHHHHHHHHHhhcccCCCCEEEEEecCcccccccCc-ccccCHHHHHHHHHHHHHHHhc--CCcEEE
Confidence 4666544 34456677776666555555899999999999 65544211 2235667776544444433332 345554
Q ss_pred E
Q 048339 322 V 322 (386)
Q Consensus 322 v 322 (386)
+
T Consensus 117 ~ 117 (193)
T cd01835 117 V 117 (193)
T ss_pred E
Confidence 4
No 10
>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=79.49 E-value=12 Score=32.66 Aligned_cols=68 Identities=16% Similarity=0.341 Sum_probs=36.2
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHH-HHHHHHHHHhhcCCCcE
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYRE-MGRIVRSLADRYSGGRL 319 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~-~~~~l~~~a~~~~~g~v 319 (386)
.+|..++..+ -..+...+++ .+ .++||+||++.|. |... ..+.+.|.+ +..++..+-+...+.++
T Consensus 24 v~n~g~~G~~-~~~~~~~l~~----~~-~~~pd~vvl~~G~ND~~~-------~~~~~~~~~~l~~li~~~~~~~~~~~v 90 (169)
T cd01828 24 VANRGISGDT-TRGLLARLDE----DV-ALQPKAIFIMIGINDLAQ-------GTSDEDIVANYRTILEKLRKHFPNIKI 90 (169)
T ss_pred eEecCccccc-HHHHHHHHHH----Hh-ccCCCEEEEEeeccCCCC-------CCCHHHHHHHHHHHHHHHHHHCCCCeE
Confidence 4555554433 2334444433 23 6799999999997 4432 235555544 44444444333334565
Q ss_pred EEE
Q 048339 320 LIV 322 (386)
Q Consensus 320 v~v 322 (386)
+++
T Consensus 91 i~~ 93 (169)
T cd01828 91 VVQ 93 (169)
T ss_pred EEE
Confidence 553
No 11
>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=76.04 E-value=21 Score=31.16 Aligned_cols=68 Identities=13% Similarity=0.369 Sum_probs=37.3
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHH-HHHHHHHHHhhcCCCcE
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYRE-MGRIVRSLADRYSGGRL 319 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~-~~~~l~~~a~~~~~g~v 319 (386)
.+|..+...+ -..++..+ .+.+...+||+|+|..|. |...+ .+.+.|.+ +.+++..+.....+.++
T Consensus 26 v~n~g~~G~t-~~~~~~~~----~~~~~~~~pd~v~i~~G~ND~~~~-------~~~~~~~~~~~~l~~~~~~~~p~~~v 93 (174)
T cd01841 26 VNNLGIAGIS-SRQYLEHI----EPQLIQKNPSKVFLFLGTNDIGKE-------VSSNQFIKWYRDIIEQIREEFPNTKI 93 (174)
T ss_pred EEeccccccc-HHHHHHHH----HHHHHhcCCCEEEEEeccccCCCC-------CCHHHHHHHHHHHHHHHHHHCCCCEE
Confidence 5777765543 33444443 345567899999999998 55432 25555443 33444444333333444
Q ss_pred EE
Q 048339 320 LI 321 (386)
Q Consensus 320 v~ 321 (386)
++
T Consensus 94 i~ 95 (174)
T cd01841 94 YL 95 (174)
T ss_pred EE
Confidence 43
No 12
>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=74.18 E-value=14 Score=32.71 Aligned_cols=67 Identities=12% Similarity=0.360 Sum_probs=37.7
Q ss_pred eecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHH-HHHHHHHHHhhcCCCcEE
Q 048339 243 LNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYRE-MGRIVRSLADRYSGGRLL 320 (386)
Q Consensus 243 ~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~-~~~~l~~~a~~~~~g~vv 320 (386)
.|+..+. ....+++..+++ +..++||+|+|..|. |.... .+.+.|.+ +.+++..+-.+..+.+++
T Consensus 44 ~n~g~~G-~t~~~~~~~l~~-----~~~~~pd~Vii~~G~ND~~~~-------~~~~~~~~~l~~li~~i~~~~~~~~ii 110 (191)
T cd01836 44 RLFAKTG-ATSADLLRQLAP-----LPETRFDVAVISIGVNDVTHL-------TSIARWRKQLAELVDALRAKFPGARVV 110 (191)
T ss_pred EEEecCC-cCHHHHHHHHHh-----cccCCCCEEEEEecccCcCCC-------CCHHHHHHHHHHHHHHHHhhCCCCEEE
Confidence 5555533 344556555544 557899999999998 54432 34455543 444444444333445555
Q ss_pred EE
Q 048339 321 IV 322 (386)
Q Consensus 321 ~v 322 (386)
++
T Consensus 111 v~ 112 (191)
T cd01836 111 VT 112 (191)
T ss_pred EE
Confidence 44
No 13
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=74.13 E-value=2.7 Score=36.52 Aligned_cols=48 Identities=21% Similarity=0.356 Sum_probs=35.0
Q ss_pred CCCCCCCCCCCcccc-----chHHHHHHHHHhcC-CCeEEEEEecccCCCCcee
Q 048339 153 GHHAQPTMADGYCFL-----NNAGLAVQLALNSG-CGKVVVIDIDVHYGNGTAE 200 (386)
Q Consensus 153 GHHA~~~~~~GFC~~-----NnvAiAa~~~~~~g-~~RV~IvD~DvHHGnGtq~ 200 (386)
|---....++|||++ .++-.|++|+-... -+|++-+|||.-.=+|-|.
T Consensus 69 GLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF~eGRQy 122 (153)
T KOG0121|consen 69 GLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGFVEGRQY 122 (153)
T ss_pred ccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccccchhhhhh
Confidence 545566789999987 34456677764322 4899999999988888873
No 14
>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=71.51 E-value=19 Score=30.79 Aligned_cols=37 Identities=11% Similarity=0.072 Sum_probs=22.3
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecCC
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQD 283 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D 283 (386)
.+|..++..+ -.+....+. ..+..++||+|+|+.|..
T Consensus 15 ~~n~g~~G~~-~~~~~~~~~----~~~~~~~pd~vvi~~G~N 51 (157)
T cd01833 15 KDHEGHSGYL-IDQIAAAAA----DWVLAAKPDVVLLHLGTN 51 (157)
T ss_pred CCCCCCCCcc-HHHHHHHhh----hccccCCCCEEEEeccCc
Confidence 3444443333 333444433 445678999999999983
No 15
>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=69.08 E-value=24 Score=30.74 Aligned_cols=39 Identities=21% Similarity=0.325 Sum_probs=24.4
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCC
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSS 285 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~ 285 (386)
.+|..+...+ -.+.+..+. ..+..++||+|++..|. |..
T Consensus 25 v~N~Gi~G~~-~~~~~~~~~----~~~~~~~p~~vvi~~G~ND~~ 64 (171)
T cd04502 25 VVNRGFGGST-LADCLHYFD----RLVLPYQPRRVVLYAGDNDLA 64 (171)
T ss_pred eeecCcccch-HHHHHHHHH----hhhccCCCCEEEEEEecCccc
Confidence 4666654433 233443333 34457899999999998 654
No 16
>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=68.44 E-value=11 Score=31.98 Aligned_cols=79 Identities=14% Similarity=0.235 Sum_probs=41.1
Q ss_pred eecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEE
Q 048339 243 LNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLI 321 (386)
Q Consensus 243 ~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~ 321 (386)
.|...+ |.+-..++..++..+++ +...+||+|||+.|. |...+ .....+.+.|....+.+.+.+.. .+++++
T Consensus 34 ~n~~~~-G~~~~~~~~~~~~~~~~-~~~~~~d~vvi~~G~ND~~~~---~~~~~~~~~~~~~l~~~i~~~~~--~~~vi~ 106 (179)
T PF13472_consen 34 YNLGVS-GATSSDFLARLQRDVLR-FKDPKPDLVVISFGTNDVLNG---DENDTSPEQYEQNLRRIIEQLRP--HGPVIL 106 (179)
T ss_dssp EEEE-T-T-BHHHHHHHHHHHCHH-HCGTTCSEEEEE--HHHHCTC---TTCHHHHHHHHHHHHHHHHHHHT--TSEEEE
T ss_pred EEEeec-CccHhHHHHHHHHHHhh-hccCCCCEEEEEccccccccc---ccccccHHHHHHHHHHHHHhhcc--cCcEEE
Confidence 455543 34445566666665555 689999999999997 55442 12233445555433333333333 347766
Q ss_pred EeCCCCC
Q 048339 322 VQEGGYH 328 (386)
Q Consensus 322 vleGGY~ 328 (386)
+.-=.+.
T Consensus 107 ~~~~~~~ 113 (179)
T PF13472_consen 107 VSPPPRG 113 (179)
T ss_dssp EE-SCSS
T ss_pred ecCCCcc
Confidence 6553333
No 17
>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=68.39 E-value=34 Score=29.59 Aligned_cols=68 Identities=21% Similarity=0.318 Sum_probs=36.1
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEE
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLL 320 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv 320 (386)
.+|..+...+. ...+..+++ .+..++||+|+|..|. |... ..+.+.|..-.+.+.+.+++. +.+++
T Consensus 39 v~n~g~~G~~~-~~~~~~l~~----~~~~~~pd~v~i~~G~ND~~~-------~~~~~~~~~~l~~li~~~~~~-~~~vi 105 (177)
T cd01822 39 VINAGVSGDTT-AGGLARLPA----LLAQHKPDLVILELGGNDGLR-------GIPPDQTRANLRQMIETAQAR-GAPVL 105 (177)
T ss_pred EEecCcCCccc-HHHHHHHHH----HHHhcCCCEEEEeccCccccc-------CCCHHHHHHHHHHHHHHHHHC-CCeEE
Confidence 35655553333 333444433 4456899999999997 3322 245566655333333334333 44554
Q ss_pred EE
Q 048339 321 IV 322 (386)
Q Consensus 321 ~v 322 (386)
++
T Consensus 106 l~ 107 (177)
T cd01822 106 LV 107 (177)
T ss_pred EE
Confidence 44
No 18
>COG3914 Spy Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]
Probab=67.92 E-value=1.3e+02 Score=32.61 Aligned_cols=150 Identities=18% Similarity=0.310 Sum_probs=90.0
Q ss_pred eEEeecCCCCCCCCC----CCCCCccccc--hHHHHHHHHHhcCCCeEEEEEecccCCCCceeCceecCCEEEEeccCCC
Q 048339 144 IAYALVRPPGHHAQP----TMADGYCFLN--NAGLAVQLALNSGCGKVVVIDIDVHYGNGTAEGFYRSNKVLTISLHMNH 217 (386)
Q Consensus 144 ~af~l~rppGHHA~~----~~~~GFC~~N--nvAiAa~~~~~~g~~RV~IvD~DvHHGnGtq~if~~d~~Vl~iSiH~~~ 217 (386)
++|-+. ||+--|.. ....++|-++ +-+=+|+..++.|++ ..||+|.|-=|++..+|...|--+-||--+
T Consensus 293 fay~~g-~~~~dal~~rI~a~~~~~~~~~~~dd~e~a~~I~~d~Id--ILvDl~g~T~d~r~~v~A~RpAPiqvswlG-- 367 (620)
T COG3914 293 FAYSLG-PPHTDALQERISAAVEKWYPIGRMDDAEIANAIRTDGID--ILVDLDGHTVDTRCQVFAHRPAPIQVSWLG-- 367 (620)
T ss_pred EEEecC-CCCchhHHHHHHHhhhheeccCCcCHHHHHHHHHhcCCe--EEEeccCceeccchhhhhcCCCceEEeecc--
Confidence 455444 55533332 3556788888 333344444555664 568999999999999999999888888654
Q ss_pred CCCCCCCCCCCCCcccCCCCCCceeeecC--CCCCCChHHHHHHHHHHHHHHHHhcC--------------------CCE
Q 048339 218 GSWGPSHPQNGTVDELGEGEGFGYNLNIP--LPNGTGDRGYVHAMTELVVPAIQKFE--------------------PNM 275 (386)
Q Consensus 218 ~~~~~~~P~tg~~~e~G~g~g~g~~~Nvp--L~~g~~d~~y~~~~~~~l~p~~~~f~--------------------Pdl 275 (386)
||+|+...+. .|-|-=| +|+ +...-|-+.+.+ +| ..|+ +|.
T Consensus 368 ------y~aT~g~p~~------DY~I~D~y~vPp-~ae~yysEkl~R--Lp--~cy~p~d~~~~v~p~~sR~~lglp~~a 430 (620)
T COG3914 368 ------YPATTGSPNM------DYFISDPYTVPP-TAEEYYSEKLWR--LP--QCYQPVDGFEPVTPPPSRAQLGLPEDA 430 (620)
T ss_pred ------cccccCCCcc------eEEeeCceecCc-hHHHHHHHHHHh--cc--cccCCCCCcccCCCCcchhhcCCCCCe
Confidence 5776542111 1222212 133 233445555544 24 3333 256
Q ss_pred EEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCC
Q 048339 276 IVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYH 328 (386)
Q Consensus 276 IvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~ 328 (386)
+|+.|| .+.++.+++-+..=.+.|+.. .+-+++++.||=+
T Consensus 431 vVf~c~--------~n~~K~~pev~~~wmqIL~~v-----P~Svl~L~~~~~~ 470 (620)
T COG3914 431 VVFCCF--------NNYFKITPEVFALWMQILSAV-----PNSVLLLKAGGDD 470 (620)
T ss_pred EEEEec--------CCcccCCHHHHHHHHHHHHhC-----CCcEEEEecCCCc
Confidence 777766 345667888887666666644 3458899999944
No 19
>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=62.93 E-value=44 Score=29.25 Aligned_cols=75 Identities=15% Similarity=0.331 Sum_probs=38.2
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHH-HHHHHHHHHhhcCCCcE
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYRE-MGRIVRSLADRYSGGRL 319 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~-~~~~l~~~a~~~~~g~v 319 (386)
-.|..+...+.. .+...-...+.+.+...+||+|+|+.|. |... ...+.+.|.+ +..++..+-+...+.+|
T Consensus 27 v~N~g~~G~t~~-~~~~~~~~~~~~~l~~~~pd~Vii~~G~ND~~~------~~~~~~~~~~~~~~li~~i~~~~~~~~i 99 (189)
T cd01825 27 YDNLGVNGASAS-LLLKWDAEFLQAQLAALPPDLVILSYGTNEAFN------KQLNASEYRQQLREFIKRLRQILPNASI 99 (189)
T ss_pred EecCccCchhhh-hhhccCHHHHHHHHhhCCCCEEEEECCCccccc------CCCCHHHHHHHHHHHHHHHHHHCCCCeE
Confidence 355555443332 2322112233346778999999999997 4322 2244555554 34444443332234455
Q ss_pred EEEe
Q 048339 320 LIVQ 323 (386)
Q Consensus 320 v~vl 323 (386)
+++.
T Consensus 100 v~~~ 103 (189)
T cd01825 100 LLVG 103 (189)
T ss_pred EEEc
Confidence 5543
No 20
>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=62.90 E-value=54 Score=28.74 Aligned_cols=68 Identities=13% Similarity=0.227 Sum_probs=36.3
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEE
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLL 320 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv 320 (386)
.+|..++. .+-.+++..+++. +...+||+|+++.|. |...+ .+.+.|.+-.+.+.+.+++. +.+++
T Consensus 34 v~n~g~~G-~~~~~~l~~l~~~----~~~~~~d~v~i~~G~ND~~~~-------~~~~~~~~~~~~li~~~~~~-~~~~i 100 (183)
T cd04501 34 VINRGING-DTTSQMLVRFYED----VIALKPAVVIIMGGTNDIIVN-------TSLEMIKDNIRSMVELAEAN-GIKVI 100 (183)
T ss_pred EEecCcCC-ccHHHHHHHHHHH----HHhcCCCEEEEEeccCccccC-------CCHHHHHHHHHHHHHHHHHC-CCcEE
Confidence 45554443 3334555555433 456799999999998 44332 24455554433333444443 34554
Q ss_pred EE
Q 048339 321 IV 322 (386)
Q Consensus 321 ~v 322 (386)
++
T Consensus 101 l~ 102 (183)
T cd04501 101 LA 102 (183)
T ss_pred EE
Confidence 44
No 21
>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=61.90 E-value=24 Score=34.34 Aligned_cols=63 Identities=19% Similarity=0.309 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCC
Q 048339 255 GYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVT 330 (386)
Q Consensus 255 ~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~ 330 (386)
+|...|++. +|.+..|+-..+||-.|=.+..+| .+..+.+.|..+.+. +.++|+|.+||....
T Consensus 1 ~~~~~~~~~-~~yi~~~~~~~~VIKlGG~ai~~~----------~l~~~~~~ia~l~~~--g~~~ViVHGggp~i~ 63 (280)
T cd04237 1 QFVDWFREA-APYINAHRGKTFVIAFGGEAVAHP----------NFDNIVHDIALLHSL--GIRLVLVHGARPQID 63 (280)
T ss_pred ChHHHHHHH-hHHHHHhCCCEEEEEEChHHhcCc----------hHHHHHHHHHHHHHC--CCcEEEEeCCCHHHH
Confidence 367788876 699999999999999987776543 223344445554332 458999999987744
No 22
>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=59.50 E-value=59 Score=28.42 Aligned_cols=45 Identities=27% Similarity=0.531 Sum_probs=25.8
Q ss_pred hcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHH-HHHHHHHHHhhcCCCcEEEE
Q 048339 270 KFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYRE-MGRIVRSLADRYSGGRLLIV 322 (386)
Q Consensus 270 ~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~-~~~~l~~~a~~~~~g~vv~v 322 (386)
.++||+|||..|. |+.. -..+.+.|.+ +..+|..+. . .+.+++++
T Consensus 65 ~~~~d~vii~~G~ND~~~------~~~~~~~~~~~~~~~i~~i~-~-~~~~vil~ 111 (185)
T cd01832 65 ALRPDLVTLLAGGNDILR------PGTDPDTYRADLEEAVRRLR-A-AGARVVVF 111 (185)
T ss_pred hcCCCEEEEecccccccc------CCCCHHHHHHHHHHHHHHHH-h-CCCEEEEe
Confidence 4799999999998 4432 1345555554 344444443 2 24455444
No 23
>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=56.97 E-value=42 Score=30.70 Aligned_cols=23 Identities=13% Similarity=0.310 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHhcCCCEEEEeec
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVG 281 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG 281 (386)
.+++.+..+.++|++|+|||=++
T Consensus 135 ~l~~~l~~l~~~y~~D~IiiD~p 157 (207)
T TIGR03018 135 RMRSLLHELARRYPDRIIIIDTP 157 (207)
T ss_pred HHHHHHHHHHhhCCCCEEEEECC
Confidence 45555555556787899999775
No 24
>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=54.32 E-value=73 Score=32.78 Aligned_cols=71 Identities=15% Similarity=0.282 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHHHHHH
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSAYCLH 337 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~~~~~ 337 (386)
.+++.|..+.++++|++|+|.++. ....+|. +...++++.++. +.|++.+--.||...+...+..
T Consensus 76 kL~~aI~~~~~~~~P~~I~V~ttC~~~iIGdD-------------i~~v~~~~~~~~-~~pvi~v~t~gf~g~~~~~G~~ 141 (426)
T cd01972 76 KLEDTIKEAYSRYKPKAIFVATSCATGIIGDD-------------VESVVEELEDEI-GIPVVALHCEGFKGKHWRSGFD 141 (426)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCChHHHhccC-------------HHHHHHHHHHhh-CCCEEEEeCCccCCccHhHHHH
Confidence 455566677889999988777654 4444443 222334443343 6799999999999844444443
Q ss_pred HHHHHH
Q 048339 338 ATLEGV 343 (386)
Q Consensus 338 ~~~~~l 343 (386)
..++.+
T Consensus 142 ~a~~al 147 (426)
T cd01972 142 AAFHGI 147 (426)
T ss_pred HHHHHH
Confidence 334333
No 25
>COG1891 Uncharacterized protein conserved in archaea [Function unknown]
Probab=54.10 E-value=17 Score=33.36 Aligned_cols=70 Identities=21% Similarity=0.438 Sum_probs=45.2
Q ss_pred CCCCCCCCCcccCCC-CCCceeeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCC
Q 048339 222 PSHPQNGTVDELGEG-EGFGYNLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQ 293 (386)
Q Consensus 222 ~~~P~tg~~~e~G~g-~g~g~~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~ 293 (386)
|+-|||-...-.|.. .|..| +.|.|-.--+.++-+..+..+ ..++++|+|+-++|.||+ |+|+--....|
T Consensus 63 pYKPGT~slAalGaav~GaDY-iKVGLYg~kn~~eA~e~m~~v-vrAVkd~d~~k~VVAaGYaDa~Rvgsv~Pl 134 (235)
T COG1891 63 PYKPGTASLAALGAAVAGADY-IKVGLYGTKNEEEALEVMKNV-VRAVKDFDPSKKVVAAGYADAHRVGSVSPL 134 (235)
T ss_pred CCCCchHHHHHHHhHhhCCce-EEEeecccccHHHHHHHHHHH-HHHHhccCCCceEEeccccchhhccCcCcc
Confidence 556777554444432 12223 566665444555666677665 478899999999999998 88876544443
No 26
>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=54.03 E-value=67 Score=32.58 Aligned_cols=72 Identities=14% Similarity=0.221 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHHHHH-
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSAYCL- 336 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~~~~- 336 (386)
.+++.|..+.++++|++|+|..+. ....+|. +...+.++.++. +.|++.+--.||...+...++
T Consensus 74 ~L~~~i~~~~~~~~P~~i~v~~tC~~~~iGdD-------------i~~v~~~~~~~~-~~~vi~v~t~gf~g~~~~~G~~ 139 (406)
T cd01967 74 KLKKAIKEAYERFPPKAIFVYSTCPTGLIGDD-------------IEAVAKEASKEL-GIPVIPVNCEGFRGVSQSLGHH 139 (406)
T ss_pred HHHHHHHHHHHhCCCCEEEEECCCchhhhccC-------------HHHHHHHHHHhh-CCCEEEEeCCCeeCCcccHHHH
Confidence 455666677889999987766553 4445553 223344444344 579999999999873333333
Q ss_pred ---HHHHHHHh
Q 048339 337 ---HATLEGVL 344 (386)
Q Consensus 337 ---~~~~~~l~ 344 (386)
.++++.+.
T Consensus 140 ~a~~al~~~l~ 150 (406)
T cd01967 140 IANDAILDHLV 150 (406)
T ss_pred HHHHHHHHHhc
Confidence 44444443
No 27
>PF00148 Oxidored_nitro: Nitrogenase component 1 type Oxidoreductase; InterPro: IPR000510 Enzymes belonging to this family include cofactor-requiring nitrogenases and protochlorophyllide reductase. The key enzymatic reactions in nitrogen fixation are catalysed by the nitrogenase complex, which has two components, the iron protein (component 2), and a component (component 1) which is either a molybdenum-iron, vanadium-iron or iron-iron protein. The enzyme (1.18.6.1 from EC) forms a hexamer of two alpha, two beta and two delta chains. Protochlorophyllide reductase (1.3.1.33 from EC) is involved in the light-dependent accumulation of chlorophyll, probably at the step of reduction of protochlorophyllide to chlorophyllide.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QH1_C 1QH8_A 1H1L_C 1QGU_A 3AEK_C 3AET_C 3AER_C 3AEU_A 3AES_C 3AEQ_C ....
Probab=54.03 E-value=64 Score=32.52 Aligned_cols=71 Identities=23% Similarity=0.379 Sum_probs=41.3
Q ss_pred HHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCc---HHHH
Q 048339 260 MTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTY---SAYC 335 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~---~~~~ 335 (386)
+++.|..+.++++|++|+|.... ....+|. +...+.++.++. +.|++.+--.||..+. ...+
T Consensus 62 L~~~i~~~~~~~~P~~i~v~~sC~~~iIGdD-------------~~~v~~~~~~~~-~~~vi~v~~~gf~~~~~~G~~~a 127 (398)
T PF00148_consen 62 LREAIKEIAEKYKPKAIFVVTSCVPEIIGDD-------------IEAVARELQEEY-GIPVIPVHTPGFSGSYSQGYDAA 127 (398)
T ss_dssp HHHHHHHHHHHHSTSEEEEEE-HHHHHTTTT-------------HHHHHHHHHHHH-SSEEEEEE--TTSSSHHHHHHHH
T ss_pred HHHHHHHHHhcCCCcEEEEECCCCHHHhCCC-------------HHHHHHHhhccc-CCcEEEEECCCccCCccchHHHH
Confidence 44556677789999998876653 4444443 333445555555 4699999999995443 2233
Q ss_pred HHHHHHHHh
Q 048339 336 LHATLEGVL 344 (386)
Q Consensus 336 ~~~~~~~l~ 344 (386)
+.++++.++
T Consensus 128 ~~~l~~~~~ 136 (398)
T PF00148_consen 128 LRALAEQLV 136 (398)
T ss_dssp HHHHHHHHT
T ss_pred HHHHHhhcc
Confidence 445555553
No 28
>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=52.04 E-value=69 Score=28.04 Aligned_cols=49 Identities=18% Similarity=0.394 Sum_probs=26.7
Q ss_pred CCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhh-cCCCcEEEE
Q 048339 272 EPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADR-YSGGRLLIV 322 (386)
Q Consensus 272 ~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~-~~~g~vv~v 322 (386)
+||+|+|..|. |...... ....+.+.|....+.+.+.+++ ..+.+++++
T Consensus 63 ~pd~vii~~G~ND~~~~~~--~~~~~~~~~~~~~~~~i~~~~~~~~~~~ii~~ 113 (199)
T cd01838 63 QPDLVTIFFGANDAALPGQ--PQHVPLDEYKENLRKIVSHLKSLSPKTKVILI 113 (199)
T ss_pred CceEEEEEecCccccCCCC--CCcccHHHHHHHHHHHHHHHHhhCCCCeEEEe
Confidence 89999999998 5443211 0235566666544333333333 234455444
No 29
>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=49.75 E-value=93 Score=32.34 Aligned_cols=71 Identities=13% Similarity=0.204 Sum_probs=42.0
Q ss_pred HHHHHHHHHHhcCCCEEEEeec-CCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHHHHH--
Q 048339 260 MTELVVPAIQKFEPNMIVLVVG-QDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSAYCL-- 336 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG-~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~~~~-- 336 (386)
+.+.|..++++|+|++|+|.+. .....+|.+ ...+.++.++. +.|++.+--.||..+ ...+.
T Consensus 109 L~~~I~e~~~~~~P~~I~V~ttC~~~lIGdDi-------------~~v~~e~~~~~-~~~vi~v~t~gf~g~-~~~G~~~ 173 (456)
T TIGR01283 109 LFHAIREIVERYHPPAVFVYSTCVPGLIGDDL-------------EAVCKAAAEKT-GIPVIPVDSEGFYGS-KNLGNKL 173 (456)
T ss_pred HHHHHHHHHHhCCCCEEEEECCChHHHhcCCH-------------HHHHHHHHHHh-CCCEEEEECCCCccc-hhHHHHH
Confidence 4455667778899998766654 355555543 22233333333 579999999998764 33333
Q ss_pred --HHHHHHHhC
Q 048339 337 --HATLEGVLN 345 (386)
Q Consensus 337 --~~~~~~l~~ 345 (386)
.++++.+.+
T Consensus 174 a~~al~~~~~~ 184 (456)
T TIGR01283 174 ACDALLKHVIG 184 (456)
T ss_pred HHHHHHHHHhc
Confidence 344544443
No 30
>PRK14476 nitrogenase molybdenum-cofactor biosynthesis protein NifN; Provisional
Probab=49.66 E-value=88 Score=32.66 Aligned_cols=69 Identities=14% Similarity=0.182 Sum_probs=40.8
Q ss_pred HHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhc---CCCcEEEEeCCCCCCCcHHHH
Q 048339 260 MTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRY---SGGRLLIVQEGGYHVTYSAYC 335 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~---~~g~vv~vleGGY~~~~~~~~ 335 (386)
+++.|..+.++|+|++|+|.++. ....+|.+ ...+.++-++. .+.|++.+--.||..+ ...+
T Consensus 80 L~~aI~~~~~~~~P~~I~V~ttC~~eiIGDDi-------------~~v~~~~~~~~p~~~~~pvi~v~tpgF~g~-~~~G 145 (455)
T PRK14476 80 VEEAILNICKKAKPKIIGLCTTGLTETRGDDV-------------AGALKEIRARHPELADTPIVYVSTPDFKGA-LEDG 145 (455)
T ss_pred HHHHHHHHHHhhCCCEEEEeCcchHhhhhccH-------------HHHHHHHHhhccccCCCeEEEecCCCCCCc-HHHH
Confidence 44555667788999988766554 55566642 22233332332 2568999999999864 3344
Q ss_pred HHHHHHH
Q 048339 336 LHATLEG 342 (386)
Q Consensus 336 ~~~~~~~ 342 (386)
+...+.+
T Consensus 146 ~~~a~~a 152 (455)
T PRK14476 146 WAAAVEA 152 (455)
T ss_pred HHHHHHH
Confidence 4333333
No 31
>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=48.58 E-value=65 Score=28.28 Aligned_cols=49 Identities=12% Similarity=0.287 Sum_probs=27.4
Q ss_pred HHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEE
Q 048339 266 PAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIV 322 (386)
Q Consensus 266 p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~v 322 (386)
..+...+||+||+..|..=...+ .+-...+..++..+-+.....|++++
T Consensus 51 ~~~~~~~pd~vii~~G~ND~~~~--------~~~~~~~~~~i~~i~~~~p~~~iil~ 99 (177)
T cd01844 51 ELLRDVPADLYIIDCGPNIVGAE--------AMVRERLGPLVKGLRETHPDTPILLV 99 (177)
T ss_pred HHHHhcCCCEEEEEeccCCCccH--------HHHHHHHHHHHHHHHHHCcCCCEEEE
Confidence 44566899999999998521111 13333444555555444434566544
No 32
>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=47.97 E-value=89 Score=25.85 Aligned_cols=57 Identities=16% Similarity=0.405 Sum_probs=31.1
Q ss_pred HHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHH-HHHHHHHHHHhhcCCCcEEEEeCCCC
Q 048339 266 PAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYR-EMGRIVRSLADRYSGGRLLIVQEGGY 327 (386)
Q Consensus 266 p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~-~~~~~l~~~a~~~~~g~vv~vleGGY 327 (386)
......+||+|+++.|. |..... ..+...+. .+.+.+..+.+...+.+++++.---+
T Consensus 59 ~~~~~~~~d~vil~~G~ND~~~~~-----~~~~~~~~~~~~~~i~~~~~~~~~~~vv~~~~~~~ 117 (187)
T cd00229 59 LALLKDKPDLVIIELGTNDLGRGG-----DTSIDEFKANLEELLDALRERAPGAKVILITPPPP 117 (187)
T ss_pred hhhccCCCCEEEEEeccccccccc-----ccCHHHHHHHHHHHHHHHHHHCCCCcEEEEeCCCC
Confidence 45678899999999997 443321 22333333 34444444443334455655554433
No 33
>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=46.65 E-value=1.3e+02 Score=26.96 Aligned_cols=66 Identities=14% Similarity=0.203 Sum_probs=38.6
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCC
Q 048339 253 DRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHV 329 (386)
Q Consensus 253 d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~ 329 (386)
..+.+.+|+++ ...+.+.+||+||+ +| |-+.....+...+..+.+.+.++.. .+.|+ .++-|--+.
T Consensus 23 ~~~~~~~~~~~-~~~~~~~~~d~i~~-~G------D~~~~~~~~~~~~~~~~~~~~~~~~--~~~~v-~~~~GNHD~ 88 (223)
T cd00840 23 REDQFEAFEEI-VELAIEEKVDFVLI-AG------DLFDSNNPSPEALELLIEALRRLKE--AGIPV-FIIAGNHDS 88 (223)
T ss_pred hHHHHHHHHHH-HHHHHhcCCCEEEE-CC------cccCCCCCCHHHHHHHHHHHHHHHH--CCCCE-EEecCCCCC
Confidence 45677788776 47788889998665 44 4333323445556666666666542 14565 445554443
No 34
>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=46.00 E-value=97 Score=27.85 Aligned_cols=29 Identities=10% Similarity=0.200 Sum_probs=19.4
Q ss_pred hcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHH
Q 048339 270 KFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREM 303 (386)
Q Consensus 270 ~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~ 303 (386)
..+||+|+|..|. |+.. ...++.+.|.+-
T Consensus 77 ~~~pd~vii~lGtND~~~-----~~~~~~~~~~~~ 106 (208)
T cd01839 77 HSPLDLVIIMLGTNDLKS-----YFNLSAAEIAQG 106 (208)
T ss_pred CCCCCEEEEecccccccc-----ccCCCHHHHHHH
Confidence 3799999999998 6543 223455666543
No 35
>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=45.49 E-value=1.4e+02 Score=30.97 Aligned_cols=72 Identities=15% Similarity=0.230 Sum_probs=43.0
Q ss_pred HHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhc---CCCcEEEEeCCCCCCCcHHHH
Q 048339 260 MTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRY---SGGRLLIVQEGGYHVTYSAYC 335 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~---~~g~vv~vleGGY~~~~~~~~ 335 (386)
+++.|..+.++|+|++|+|.+.. ....+|... ..++++-+++ .+.|++.+-..||..+. ..+
T Consensus 79 L~~~I~~~~~~~~P~~I~V~ttC~~eiIGDDi~-------------~v~~~~~~e~p~~~~~pvi~v~tpgf~g~~-~~G 144 (432)
T TIGR01285 79 IEEAIDTLCQRNKPKAIGLLSTGLTETRGEDIA-------------RVVRQFREKHPQHKGTAVVTVNTPDFKGSL-EDG 144 (432)
T ss_pred HHHHHHHHHHhcCCCEEEEeCCCcccccccCHH-------------HHHHHHHhhcccccCCeEEEecCCCcCCch-HHH
Confidence 45556677889999988776653 445555432 2233332222 25689999999999743 334
Q ss_pred H----HHHHHHHhC
Q 048339 336 L----HATLEGVLN 345 (386)
Q Consensus 336 ~----~~~~~~l~~ 345 (386)
. .++++.+..
T Consensus 145 ~~~a~~al~~~~~~ 158 (432)
T TIGR01285 145 YAAAVESIIEAWVP 158 (432)
T ss_pred HHHHHHHHHHHHcc
Confidence 3 444544443
No 36
>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=44.66 E-value=24 Score=32.66 Aligned_cols=17 Identities=35% Similarity=0.507 Sum_probs=14.2
Q ss_pred cCCCeEEEEEecccCCCC
Q 048339 180 SGCGKVVVIDIDVHYGNG 197 (386)
Q Consensus 180 ~g~~RV~IvD~DvHHGnG 197 (386)
.| .||++||+|.++||=
T Consensus 28 ~g-~~VlliD~D~~~~~~ 44 (251)
T TIGR01969 28 LG-KKVLALDADITMANL 44 (251)
T ss_pred CC-CeEEEEeCCCCCccc
Confidence 35 699999999998873
No 37
>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=44.24 E-value=1.1e+02 Score=27.25 Aligned_cols=47 Identities=19% Similarity=0.280 Sum_probs=26.2
Q ss_pred CCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEE
Q 048339 272 EPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLI 321 (386)
Q Consensus 272 ~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~ 321 (386)
+||+|+|+.|. |+....+. ...+.+.|.+-.+.+.+.+++. +.++++
T Consensus 65 ~pdlVii~~G~ND~~~~~~~--~~~~~~~~~~nl~~ii~~~~~~-~~~~il 112 (198)
T cd01821 65 PGDYVLIQFGHNDQKPKDPE--YTEPYTTYKEYLRRYIAEARAK-GATPIL 112 (198)
T ss_pred CCCEEEEECCCCCCCCCCCC--CCCcHHHHHHHHHHHHHHHHHC-CCeEEE
Confidence 79999999998 65443211 2345566665444444444443 344433
No 38
>PRK10528 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1; Provisional
Probab=43.12 E-value=1.2e+02 Score=27.08 Aligned_cols=61 Identities=10% Similarity=0.150 Sum_probs=33.9
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhc
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRY 314 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~ 314 (386)
.+|..++..+.. ..+..++ ..+..++||+|||..|. |... .++.+.|..--+.+.+.+++.
T Consensus 46 v~N~Gi~G~tt~-~~~~rl~----~~l~~~~pd~Vii~~GtND~~~-------~~~~~~~~~~l~~li~~~~~~ 107 (191)
T PRK10528 46 VVNASISGDTSQ-QGLARLP----ALLKQHQPRWVLVELGGNDGLR-------GFPPQQTEQTLRQIIQDVKAA 107 (191)
T ss_pred EEecCcCcccHH-HHHHHHH----HHHHhcCCCEEEEEeccCcCcc-------CCCHHHHHHHHHHHHHHHHHc
Confidence 566666544432 2233333 34556799999999998 5432 356666654333333444443
No 39
>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=42.43 E-value=1.1e+02 Score=31.07 Aligned_cols=68 Identities=19% Similarity=0.197 Sum_probs=40.2
Q ss_pred HHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeC-CCCCCCcHHHHHH
Q 048339 260 MTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQE-GGYHVTYSAYCLH 337 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vle-GGY~~~~~~~~~~ 337 (386)
+++.|..+.+.|+|++|+|..+. -...+|.+ ...+.++ + .+.|++.|=- ||+ . +...++.
T Consensus 63 L~eaI~ea~e~y~P~lI~VvTTCvseIIGDDI-------------eaVvkE~--~-~giPVI~V~t~GGf-G-dn~~G~~ 124 (352)
T TIGR03282 63 LVKVIRYAEEKFKPELIGVVGTCASMIIGEDL-------------KEAVDEA--D-VDAEVIAVEVHAGF-G-DNTEGVI 124 (352)
T ss_pred HHHHHHHHHHhcCCCEEEEECCCchhhccCCH-------------HHHHHHh--C-CCCCEEEEECCCCC-c-cHHHHHH
Confidence 45556667899999998887763 33444432 2223332 1 2568888865 888 3 3445555
Q ss_pred HHHHHHhC
Q 048339 338 ATLEGVLN 345 (386)
Q Consensus 338 ~~~~~l~~ 345 (386)
..++++..
T Consensus 125 ~aLeAiid 132 (352)
T TIGR03282 125 ATLESAAE 132 (352)
T ss_pred HHHHHHHH
Confidence 55555543
No 40
>PRK13236 nitrogenase reductase; Reviewed
Probab=42.39 E-value=27 Score=34.14 Aligned_cols=32 Identities=9% Similarity=0.081 Sum_probs=21.0
Q ss_pred HHHHHHHHHhcCCCeEEEEEecccCCCCceeCc
Q 048339 170 AGLAVQLALNSGCGKVVVIDIDVHYGNGTAEGF 202 (386)
Q Consensus 170 vAiAa~~~~~~g~~RV~IvD~DvHHGnGtq~if 202 (386)
+|+-+.+++.+--+||++||.|.+.+| |.-+|
T Consensus 22 ~a~NLA~~La~~G~rVLliD~D~q~~~-~~~l~ 53 (296)
T PRK13236 22 TSQNTLAAMAEMGQRILIVGCDPKADS-TRLML 53 (296)
T ss_pred HHHHHHHHHHHCCCcEEEEEccCCCCc-cchhc
Confidence 344444444433469999999999888 44444
No 41
>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=42.30 E-value=60 Score=29.58 Aligned_cols=16 Identities=25% Similarity=0.787 Sum_probs=13.5
Q ss_pred HHhcCCCEEEEeecCC
Q 048339 268 IQKFEPNMIVLVVGQD 283 (386)
Q Consensus 268 ~~~f~PdlIvvsaG~D 283 (386)
+..++||+|||..|..
T Consensus 85 l~~~~pd~VvI~~G~N 100 (214)
T cd01820 85 LDGVNPKVVVLLIGTN 100 (214)
T ss_pred ccCCCCCEEEEEeccc
Confidence 4567999999999983
No 42
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=41.08 E-value=56 Score=29.85 Aligned_cols=58 Identities=21% Similarity=0.409 Sum_probs=35.6
Q ss_pred HHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHH-HHHHHHHHHhhcCCCcEEEEeCCCCCC
Q 048339 261 TELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYRE-MGRIVRSLADRYSGGRLLIVQEGGYHV 329 (386)
Q Consensus 261 ~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~-~~~~l~~~a~~~~~g~vv~vleGGY~~ 329 (386)
+..+...+.+-++|++++.+|.. .+.+.|.+ +...|..+.+++...|||++--=+|..
T Consensus 48 e~~~a~~ia~~~a~~~~ld~~~N-----------~~~~~~~~~~~~fv~~iR~~hP~tPIllv~~~~~~~ 106 (178)
T PF14606_consen 48 EPEVADLIAEIDADLIVLDCGPN-----------MSPEEFRERLDGFVKTIREAHPDTPILLVSPIPYPA 106 (178)
T ss_dssp -HHHHHHHHHS--SEEEEEESHH-----------CCTTTHHHHHHHHHHHHHTT-SSS-EEEEE----TT
T ss_pred CHHHHHHHhcCCCCEEEEEeecC-----------CCHHHHHHHHHHHHHHHHHhCCCCCEEEEecCCccc
Confidence 34455677788999999999976 45555554 667777888888788988776444443
No 43
>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=40.68 E-value=1.8e+02 Score=29.86 Aligned_cols=58 Identities=7% Similarity=0.179 Sum_probs=35.2
Q ss_pred HHHHHHHHHHhcCCCEEEEeec-CCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhh---cCCCcEEEEeCCCCCCC
Q 048339 260 MTELVVPAIQKFEPNMIVLVVG-QDSSAFDPNGRQCLTMDGYREMGRIVRSLADR---YSGGRLLIVQEGGYHVT 330 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG-~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~---~~~g~vv~vleGGY~~~ 330 (386)
+.+.|..+.++++|++|+|... .....+|.+ ...+.++.++ ..+.|++.+--.||..+
T Consensus 69 L~~~i~~~~~~~~p~~I~v~~tC~~~liGdDi-------------~~v~~~~~~~~~~~~~~~vi~v~tpgf~g~ 130 (428)
T cd01965 69 LIEALKNLLSRYKPDVIGVLTTCLTETIGDDV-------------AGFIKEFRAEGPEPADFPVVYASTPSFKGS 130 (428)
T ss_pred HHHHHHHHHHhcCCCEEEEECCcchhhcCCCH-------------HHHHHHHHhhccCCCCCeEEEeeCCCCCCc
Confidence 4455666778899997666544 455555542 2233444332 23568888888888864
No 44
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=40.67 E-value=86 Score=32.94 Aligned_cols=57 Identities=12% Similarity=0.191 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHhcCCCEEEEeecCC-CCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCC
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVGQD-SSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHV 329 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG~D-~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~ 329 (386)
-+.+.+..++++|+|++|||.++.= ...+|. +.....++.+++ +.|||.+-..|+..
T Consensus 84 ~L~~~i~ei~~~~~p~~ifv~~TC~t~iIGdD-------------le~va~~~~~~~-gipVV~v~~~Gf~~ 141 (457)
T CHL00073 84 ELKRLCLQIKKDRNPSVIVWIGTCTTEIIKMD-------------LEGMAPKLEAEI-GIPIVVARANGLDY 141 (457)
T ss_pred HHHHHHHHHHHhCCCCEEEEEccCcHHhhccC-------------HHHHHHHHHHhh-CCCEEEEeCCCccC
Confidence 3455677889999999999988751 122222 233344444455 78999999999883
No 45
>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=40.66 E-value=1.8e+02 Score=29.89 Aligned_cols=70 Identities=10% Similarity=0.150 Sum_probs=40.3
Q ss_pred HHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhc---CCCcEEEEeCCCCCCCcHHHH
Q 048339 260 MTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRY---SGGRLLIVQEGGYHVTYSAYC 335 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~---~~g~vv~vleGGY~~~~~~~~ 335 (386)
+++.|..+.++|+|++|+|.++. =...+|. +...++++-+++ .+.|++.+--.||..+ ...+
T Consensus 69 L~~~i~~~~~~~~p~~I~V~ttc~~eiIGdD-------------i~~v~~~~~~~~p~~~~~~vi~v~t~gf~g~-~~~G 134 (417)
T cd01966 69 LEEALDTLAERAKPKVIGLLSTGLTETRGED-------------IAGALKQFRAEHPELADVPVVYVSTPDFEGS-LEDG 134 (417)
T ss_pred HHHHHHHHHHhcCCCEEEEECCCcccccccC-------------HHHHHHHHHhhccccCCCeEEEecCCCCCCc-HHHH
Confidence 44555667788999988877653 2223332 222233332332 2578999999999974 3344
Q ss_pred HHHHHHHH
Q 048339 336 LHATLEGV 343 (386)
Q Consensus 336 ~~~~~~~l 343 (386)
+...++++
T Consensus 135 ~~~a~~al 142 (417)
T cd01966 135 WAAAVEAI 142 (417)
T ss_pred HHHHHHHH
Confidence 44444433
No 46
>PF09754 PAC2: PAC2 family; InterPro: IPR019151 This PAC2 (Proteasome assembly chaperone) family of proteins is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 247 and 307 amino acids in length. These proteins function as a chaperone for the 26S proteasome, which is about 2000 kilodaltons (kDa) in molecular mass and contains one 20S core particle structure and two 19S regulatory caps. The 26S proteasome mediates ubiquitin-dependent proteolysis in eukaryotic cells. A number of studies including very recent ones have revealed that assembly of its 20S catalytic core particle is an ordered process that involves several conserved proteasome assembly chaperones (PACs). Two heterodimeric chaperones, PAC1-PAC2 and PAC3-PAC4, promote the assembly of rings composed of seven alpha subunits [, , , ].; PDB: 3MNF_A 2P90_B 3E35_A 3GAA_D 2WAM_C.
Probab=40.08 E-value=74 Score=29.18 Aligned_cols=98 Identities=19% Similarity=0.212 Sum_probs=50.3
Q ss_pred HHHHHHHHhc-CCCeEEEEEecccCC-CCce-eCceecC-CEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCceeeecC
Q 048339 171 GLAVQLALNS-GCGKVVVIDIDVHYG-NGTA-EGFYRSN-KVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGYNLNIP 246 (386)
Q Consensus 171 AiAa~~~~~~-g~~RV~IvD~DvHHG-nGtq-~if~~d~-~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~~~Nvp 246 (386)
-+|+.|+.+. +.++|..||-|-+.- .|.- .+..++. +.+.-.+- +|=.++. .+ .=..-++|
T Consensus 13 ~la~d~Li~~l~~~~vg~i~~~~~~P~~~~~p~~~~~~g~~~~~~~~~--------iy~~~~~--~i-----~vl~~~~p 77 (219)
T PF09754_consen 13 QLAVDHLIESLNLEKVGYIDSDPLFPYVGPRPYVVVDDGSNILSPPLE--------IYYSEDS--KI-----LVLQGRSP 77 (219)
T ss_dssp HHHHHHHHHHSCEEEEEEE-HHHHSBTTTS--EEEEETTEEEEB-SEE--------EEEEECT--TE-----EEEEESSE
T ss_pred HHHHHHHHHhCCCEEEEEEeccccCCCccCCCeEEeccccceeccceE--------EEEECCC--CE-----EEEEecCC
Confidence 3788898765 899999999955443 2221 1111221 11111110 0100000 00 00112335
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCC
Q 048339 247 LPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFD 288 (386)
Q Consensus 247 L~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~D 288 (386)
.|++ +...|-+.|+..+++++..-||+-.|+++....
T Consensus 78 ~~~~-----~~~~f~~~l~~~~~~~g~~~vi~l~g~~~~~~~ 114 (219)
T PF09754_consen 78 IPPG-----RWYEFAEELLDWIKSFGVKEVIVLGGLPAMEPH 114 (219)
T ss_dssp --SC-----GHHHHHHHHHHHHHHTTECEEEEEEEEEESS-T
T ss_pred CCch-----HHHHHHHHHHHHHHHcCCCEEEEEeCCcCCCCc
Confidence 5543 233444557899999999999999999988754
No 47
>PRK05279 N-acetylglutamate synthase; Validated
Probab=40.08 E-value=82 Score=32.50 Aligned_cols=64 Identities=17% Similarity=0.299 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCC
Q 048339 254 RGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVT 330 (386)
Q Consensus 254 ~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~ 330 (386)
.+|...|++. +|.+.+|+=..+||-.|-.+..++ .+..+.+.|..+... +.++|+|.+||...+
T Consensus 7 ~~~~~~~~~~-~~~i~~~~~~~~VIk~GG~~l~~~----------~~~~~~~~i~~l~~~--g~~~VlVHGgg~~i~ 70 (441)
T PRK05279 7 TEFVDWFRHS-APYINAHRGKTFVIMLGGEAIAHG----------NFSNIVHDIALLHSL--GIRLVLVHGARPQIE 70 (441)
T ss_pred hHHHHHHHHH-hHHHHHhCCCEEEEEECchhccCh----------hHHHHHHHHHHHHHC--CCeEEEECCCCHHHH
Confidence 3578888876 699999999999999987776432 133455555555432 458999999998754
No 48
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=39.25 E-value=1.7e+02 Score=29.80 Aligned_cols=72 Identities=13% Similarity=0.275 Sum_probs=41.2
Q ss_pred HHHHHHHHHHhcCCCEEEEeec-CCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcH---HHH
Q 048339 260 MTELVVPAIQKFEPNMIVLVVG-QDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYS---AYC 335 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG-~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~---~~~ 335 (386)
+.+.|..+.++|+|++|+|... .....+|.+ ...+.++-++. +.|++.+--.||..+.. ..+
T Consensus 74 L~~~i~~~~~~~~P~~i~v~~tC~~~~iGdDi-------------~~v~~~~~~~~-~~~vi~v~t~gf~g~~~~G~~~a 139 (410)
T cd01968 74 LYKAILEIIERYHPKAVFVYSTCVVALIGDDI-------------DAVCKTASEKF-GIPVIPVHSPGFVGNKNLGNKLA 139 (410)
T ss_pred HHHHHHHHHHhCCCCEEEEECCCchhhhccCH-------------HHHHHHHHHhh-CCCEEEEECCCcccChhHHHHHH
Confidence 4455566778899998766554 344444432 22233333333 57899999999876421 123
Q ss_pred HHHHHHHHhC
Q 048339 336 LHATLEGVLN 345 (386)
Q Consensus 336 ~~~~~~~l~~ 345 (386)
+.++++.+..
T Consensus 140 ~~~l~~~l~~ 149 (410)
T cd01968 140 CEALLDHVIG 149 (410)
T ss_pred HHHHHHHhcC
Confidence 3455555543
No 49
>cd01834 SGNH_hydrolase_like_2 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=38.52 E-value=1.1e+02 Score=26.54 Aligned_cols=53 Identities=17% Similarity=0.380 Sum_probs=28.3
Q ss_pred HHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHH-HHHHHHHHHhhcCCCcEEEE
Q 048339 267 AIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYRE-MGRIVRSLADRYSGGRLLIV 322 (386)
Q Consensus 267 ~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~-~~~~l~~~a~~~~~g~vv~v 322 (386)
.+...+||+|+++.|. |.....+ -..+.+.|.. +.++|..+.+...+.+|+++
T Consensus 56 ~~~~~~~d~v~l~~G~ND~~~~~~---~~~~~~~~~~~l~~~v~~~~~~~~~~~ii~~ 110 (191)
T cd01834 56 DVLPAKPDVVSIMFGINDSFRGFD---DPVGLEKFKTNLRRLIDRLKNKESAPRIVLV 110 (191)
T ss_pred ccccCCCCEEEEEeecchHhhccc---ccccHHHHHHHHHHHHHHHHcccCCCcEEEE
Confidence 3455789999999998 5554321 1234555543 44444444222333444443
No 50
>TIGR02707 butyr_kinase butyrate kinase. This model represents an enzyme family in which members are designated either butryate kinase or branched-chain carboxylic acid kinase. The EC designation 2.7.2.7 describes an enzyme with relatively broad specificity; gene products whose context suggests a role in metabolism of aliphatic amino acids are likely to act as branched-chain carboxylic acid kinase. The gene typically found adjacent, ptb (phosphate butyryltransferase), likewise encodes an enzyme that may have a broad specificity that includes a role in aliphatic amino acid cabolism.
Probab=37.91 E-value=81 Score=31.83 Aligned_cols=63 Identities=19% Similarity=0.287 Sum_probs=47.4
Q ss_pred ecCCCCCCCCCC-----------CCCCccccchHHHHHHHHHhcC--CC--eEEEEEecccCCCCceeCceecCCEEEEe
Q 048339 148 LVRPPGHHAQPT-----------MADGYCFLNNAGLAVQLALNSG--CG--KVVVIDIDVHYGNGTAEGFYRSNKVLTIS 212 (386)
Q Consensus 148 l~rppGHHA~~~-----------~~~GFC~~NnvAiAa~~~~~~g--~~--RV~IvD~DvHHGnGtq~if~~d~~Vl~iS 212 (386)
+..++.|+-.+. |-.||--+|--.|+.+++...| .+ +++++=+ |+|.--....|.+++--|
T Consensus 124 vfDt~fh~~~~~~a~~~alpe~~RrygfHgls~~~v~~~~~~~~g~~~~~~~~I~~hL----GtGig~~ai~~Gk~vdgs 199 (351)
T TIGR02707 124 IVDPVVVDEMEDVARISGLPEIERKSIFHALNQKAVARRIAKELGKRYEEMNLIVAHM----GGGISVAAHRKGRVIDVN 199 (351)
T ss_pred EcCChhhhcChHHHHHhccchhhhhhchhhhhHHHHHHHHHHHcCCCcccCCEEEEEe----CCCceeeeEECCEEEEcC
Confidence 456667775443 5668888999999988876543 34 7888766 999999888998887766
Q ss_pred cc
Q 048339 213 LH 214 (386)
Q Consensus 213 iH 214 (386)
.-
T Consensus 200 ~G 201 (351)
T TIGR02707 200 NA 201 (351)
T ss_pred CC
Confidence 54
No 51
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=37.29 E-value=1.7e+02 Score=30.78 Aligned_cols=72 Identities=15% Similarity=0.224 Sum_probs=42.5
Q ss_pred HHHHHHHHHHhcCCCEEEEeec-CCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCc---HHHH
Q 048339 260 MTELVVPAIQKFEPNMIVLVVG-QDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTY---SAYC 335 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG-~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~---~~~~ 335 (386)
+.+.|..+.++|+|++|+|... .....+|.+ ...+.++.++. +.|++.|--.||..+. ...+
T Consensus 107 L~~~I~ei~~~~~P~~I~V~tTC~~~lIGdDi-------------~~v~~~~~~~~-~~pvi~v~t~Gf~g~~~~G~~~a 172 (475)
T PRK14478 107 LFKAIDEIIEKYAPPAVFVYQTCVVALIGDDI-------------DAVCKRAAEKF-GIPVIPVNSPGFVGNKNLGNKLA 172 (475)
T ss_pred HHHHHHHHHHhcCCCEEEEeCCChHHHhccCH-------------HHHHHHHHHhh-CCCEEEEECCCcccchhhhHHHH
Confidence 4445566778899998877654 344444432 22333333333 5799999988887642 2233
Q ss_pred HHHHHHHHhC
Q 048339 336 LHATLEGVLN 345 (386)
Q Consensus 336 ~~~~~~~l~~ 345 (386)
+.++++.+.+
T Consensus 173 ~~al~~~l~~ 182 (475)
T PRK14478 173 GEALLDHVIG 182 (475)
T ss_pred HHHHHHHHhc
Confidence 4556665554
No 52
>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=36.86 E-value=2.8e+02 Score=24.87 Aligned_cols=76 Identities=13% Similarity=0.047 Sum_probs=38.4
Q ss_pred eeecCCCCCCCh-----HHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCC-CCCcCCHHHHHHHHHHHHHHHhhc
Q 048339 242 NLNIPLPNGTGD-----RGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPN-GRQCLTMDGYREMGRIVRSLADRY 314 (386)
Q Consensus 242 ~~NvpL~~g~~d-----~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dpl-g~~~lt~~gy~~~~~~l~~~a~~~ 314 (386)
.+|..+...+.. .+.+..|.+.+ +..-+||.|+|..|. |....... +.-.++.+.|..--+.+.+.+++.
T Consensus 42 v~N~Gi~G~t~~~~~~~~~~l~r~~~~v---~~~~~p~~vii~~G~ND~~~~~~~~~~~~~~~~~~~~~l~~ii~~~~~~ 118 (204)
T cd01830 42 VLNAGIGGNRLLADGLGPSALARFDRDV---LSQPGVRTVIILEGVNDIGASGTDFAAAPVTAEELIAGYRQLIRRAHAR 118 (204)
T ss_pred EEECCccCcccccCCCChHHHHHHHHHH---hcCCCCCEEEEecccccccccccccccCCCCHHHHHHHHHHHHHHHHHC
Confidence 455555443321 24444444332 334479999999999 55433211 122356666665444444444443
Q ss_pred CCCcEEE
Q 048339 315 SGGRLLI 321 (386)
Q Consensus 315 ~~g~vv~ 321 (386)
+.++++
T Consensus 119 -~~~vil 124 (204)
T cd01830 119 -GIKVIG 124 (204)
T ss_pred -CCeEEE
Confidence 445443
No 53
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=36.73 E-value=1.5e+02 Score=29.97 Aligned_cols=68 Identities=15% Similarity=0.139 Sum_probs=49.9
Q ss_pred ChHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCC
Q 048339 252 GDRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVT 330 (386)
Q Consensus 252 ~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~ 330 (386)
-.+++..+|.++ +..+.+-++|+||++ ||-+=.-+.+.+.-..+.+.++++.. .++|+ +++.|--+..
T Consensus 21 r~~d~~~~f~~~-l~~a~~~~vD~vliA-------GDlFd~~~Ps~~a~~~~~~~l~~l~~--~~Ipv-~~I~GNHD~~ 88 (390)
T COG0420 21 RLEDQKKAFDEL-LEIAKEEKVDFVLIA-------GDLFDTNNPSPRALKLFLEALRRLKD--AGIPV-VVIAGNHDSP 88 (390)
T ss_pred chHHHHHHHHHH-HHHHHHccCCEEEEc-------cccccCCCCCHHHHHHHHHHHHHhcc--CCCcE-EEecCCCCch
Confidence 456788888876 578889999999875 46665667788888888888887754 35675 6677766643
No 54
>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=36.72 E-value=1.8e+02 Score=25.61 Aligned_cols=21 Identities=24% Similarity=0.502 Sum_probs=16.7
Q ss_pred HHHHHhcCCCEEEEeecC-CCC
Q 048339 265 VPAIQKFEPNMIVLVVGQ-DSS 285 (386)
Q Consensus 265 ~p~~~~f~PdlIvvsaG~-D~~ 285 (386)
...+.+.+||+|+++.|. |..
T Consensus 52 ~~~l~~~~pd~vii~~G~ND~~ 73 (200)
T cd01829 52 KELIAEEKPDVVVVFLGANDRQ 73 (200)
T ss_pred HHHHhcCCCCEEEEEecCCCCc
Confidence 445678899999999998 553
No 55
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=36.62 E-value=1.5e+02 Score=31.57 Aligned_cols=73 Identities=15% Similarity=0.162 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHhcCCCEEEEeecCC-CCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcH---HH
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVGQD-SSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYS---AY 334 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG~D-~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~---~~ 334 (386)
.+.+.|..+.++|+|++|+|.++.= ...+|. +...+.++..+ .+.||+.+--.||..+.. ..
T Consensus 72 kL~~~I~~~~~~~~P~~I~V~tTC~~eiIGDD-------------i~~v~~~~~~~-~~~pVi~v~t~~f~g~~~~g~~~ 137 (513)
T CHL00076 72 KVVDNITRKDKEERPDLIVLTPTCTSSILQED-------------LQNFVDRASIE-SDSDVILADVNHYRVNELQAADR 137 (513)
T ss_pred HHHHHHHHHHHhcCCCEEEECCCCchhhhhcC-------------HHHHHHHhhcc-cCCCEEEeCCCCCcccHHHHHHH
Confidence 3455566678899999999988741 122222 22223333222 357899999999997643 22
Q ss_pred HHHHHHHHHhC
Q 048339 335 CLHATLEGVLN 345 (386)
Q Consensus 335 ~~~~~~~~l~~ 345 (386)
.+.++++.+..
T Consensus 138 ~l~~lv~~~~~ 148 (513)
T CHL00076 138 TLEQIVRFYLE 148 (513)
T ss_pred HHHHHHHHHhh
Confidence 34566666554
No 56
>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=36.11 E-value=1.5e+02 Score=30.36 Aligned_cols=71 Identities=14% Similarity=0.180 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHHHHHH
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSAYCLH 337 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~~~~~ 337 (386)
.+++.|..+.++|+|++|+|.+.. ....+|.+ ...++++.++. +.|++.+---||..+ ...+..
T Consensus 71 ~L~~aI~~i~~~~~P~~I~V~tTC~se~IGDDi-------------~~v~~~~~~~~-~~pVi~v~tpgf~g~-~~~G~~ 135 (407)
T TIGR01279 71 ELDRVVEQIKRDRNPSVIFLLSSCTPEVIKMDL-------------EGLAERLSTNF-GVPVLFAPASGLDYT-FTQGED 135 (407)
T ss_pred HHHHHHHHHHhhcCCCEEEEECCchHHHHHhhH-------------HHHHHHHHHhh-CCCEEEeeCCCcccc-HHHHHH
Confidence 455666677899999999887753 33333321 22233332222 567888888888653 223344
Q ss_pred HHHHHHh
Q 048339 338 ATLEGVL 344 (386)
Q Consensus 338 ~~~~~l~ 344 (386)
..++.+.
T Consensus 136 ~~~~alv 142 (407)
T TIGR01279 136 TVLAALV 142 (407)
T ss_pred HHHHHHH
Confidence 4444444
No 57
>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=35.65 E-value=1.2e+02 Score=27.45 Aligned_cols=41 Identities=22% Similarity=0.371 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCC
Q 048339 253 DRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQ 293 (386)
Q Consensus 253 d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~ 293 (386)
|..-...+.+.|...+....-++||++-|.|-.-+|-||.+
T Consensus 5 ~~~a~~~l~~~L~~~~~~~~~~iv~lCIGTDRstGDsLGPL 45 (163)
T PF06866_consen 5 DKNAPEKLANFLYSLIPKHNREIVFLCIGTDRSTGDSLGPL 45 (163)
T ss_pred CHHHHHHHHHHHHHHHhhcCCCEEEEEECCCCCccccccch
Confidence 33334444555555555557899999999999999998876
No 58
>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=35.48 E-value=2e+02 Score=29.67 Aligned_cols=71 Identities=14% Similarity=0.258 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHhcCCCEEEEeec-CCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhh--cCCCcEEEEeCCCCCCCcHHHH
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVG-QDSSAFDPNGRQCLTMDGYREMGRIVRSLADR--YSGGRLLIVQEGGYHVTYSAYC 335 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG-~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~--~~~g~vv~vleGGY~~~~~~~~ 335 (386)
.+++.|..+.++++|++|+|... .....+|.. ...++++-++ ..+.|++.+--.||..+ ...+
T Consensus 71 kL~~aI~~~~~~~~P~~I~V~ttc~~~iiGdDi-------------~~v~~~~~~~~~~~~~~vi~v~t~gF~g~-~~~G 136 (429)
T cd03466 71 NLKKGLKNVIEQYNPEVIGIATTCLSETIGEDV-------------PRIIREFREEVDDSEPKIIPASTPGYGGT-HVEG 136 (429)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCchHHHhhcCH-------------HHHHHHHhhcccCCCCcEEEEECCCCccc-HHHH
Confidence 35556667888999998766554 355555532 1222332222 12457888888888753 3344
Q ss_pred HHHHHHHH
Q 048339 336 LHATLEGV 343 (386)
Q Consensus 336 ~~~~~~~l 343 (386)
+...++++
T Consensus 137 ~~~a~~al 144 (429)
T cd03466 137 YDTAVRSI 144 (429)
T ss_pred HHHHHHHH
Confidence 43334333
No 59
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=35.15 E-value=1.7e+02 Score=29.70 Aligned_cols=71 Identities=14% Similarity=0.143 Sum_probs=41.5
Q ss_pred HHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHHHHHHH
Q 048339 260 MTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSAYCLHA 338 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~~~~~~ 338 (386)
+++.|..+.++|+|++|+|.+.. ....+|.+ ...++++.++ .+.|++.+--.||..+ ...++..
T Consensus 75 L~~aI~ei~~~~~P~~I~V~sTCv~e~IGDDi-------------~~v~~~~~~~-~~~pvi~v~t~gf~g~-~~~G~~~ 139 (396)
T cd01979 75 LDRVVTQIKRDRNPSVIFLIGSCTTEVIKMDL-------------EGAAPRLSAE-IGVPILVASASGLDYT-FTQGEDT 139 (396)
T ss_pred HHHHHHHHHHhcCCCEEEEECCCHHHHHhcCH-------------HHHHHHHhhc-CCCcEEEeeCCCcccc-HHHHHHH
Confidence 45556678899999988776643 44444432 2223333223 2567888888888643 3345555
Q ss_pred HHHHHhC
Q 048339 339 TLEGVLN 345 (386)
Q Consensus 339 ~~~~l~~ 345 (386)
.++.+.+
T Consensus 140 ~~~alv~ 146 (396)
T cd01979 140 VLAALVP 146 (396)
T ss_pred HHHHHhh
Confidence 5555543
No 60
>cd00316 Oxidoreductase_nitrogenase The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase) and, both subunits of Protochlorophyllide (Pchlide) reductase and chlorophyllide (chlide) reductase. The nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized nitrogenase is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers whose alpha and beta subunits are similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molec
Probab=35.01 E-value=2.4e+02 Score=28.17 Aligned_cols=56 Identities=11% Similarity=0.243 Sum_probs=34.8
Q ss_pred HHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCC
Q 048339 260 MTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHV 329 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~ 329 (386)
+.+.+...+++++|++|+|..+. ....+|.+ ...+.++.++ .+.|++.+-..||..
T Consensus 68 l~~~i~~~~~~~~p~~i~v~~tc~~~liGdDi-------------~~v~~~~~~~-~~~~vv~~~~~gf~~ 124 (399)
T cd00316 68 LLEAIINELKRYKPKVIFVYTTCTTELIGDDI-------------EAVAKEASKE-IGIPVVPASTPGFRG 124 (399)
T ss_pred HHHHHHHHHHHcCCCEEEEecCchhhhhccCH-------------HHHHHHHHHh-hCCceEEeeCCCCcc
Confidence 33445567789999988777653 44444432 2223333222 367999999999994
No 61
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=34.18 E-value=1.7e+02 Score=26.91 Aligned_cols=59 Identities=10% Similarity=0.057 Sum_probs=32.7
Q ss_pred HHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEe
Q 048339 261 TELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQ 323 (386)
Q Consensus 261 ~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vl 323 (386)
.+.+.....+++|++|||=. ........ .-.-..+....+.+.|+++|+++ +.+++++-
T Consensus 112 ~~~i~~~~~~~~~~~vvID~-l~~l~~~~--~~~~~~~~~~~~~~~L~~la~~~-~~~ii~~~ 170 (242)
T cd00984 112 RSRARRLKKEHGLGLIVIDY-LQLMSGSK--KKGNRQQEVAEISRSLKLLAKEL-NVPVIALS 170 (242)
T ss_pred HHHHHHHHHhcCCCEEEEcC-chhcCCCC--CCCCHHHHHHHHHHHHHHHHHHh-CCeEEEec
Confidence 33444556778999999832 22221110 00011234556778888999887 56666655
No 62
>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=34.02 E-value=29 Score=30.67 Aligned_cols=15 Identities=40% Similarity=0.339 Sum_probs=13.2
Q ss_pred CeEEEEEecccCCCC
Q 048339 183 GKVVVIDIDVHYGNG 197 (386)
Q Consensus 183 ~RV~IvD~DvHHGnG 197 (386)
+||++||.|.+.+|-
T Consensus 25 ~~vlliD~D~~~~~~ 39 (179)
T cd03110 25 KNVVLADCDVDAPNL 39 (179)
T ss_pred hCcEEEECCCCCCch
Confidence 699999999998774
No 63
>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=34.01 E-value=1.5e+02 Score=30.34 Aligned_cols=57 Identities=19% Similarity=0.200 Sum_probs=36.2
Q ss_pred HHHHHHHHHHhcCCCEEEEeec-CCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCC
Q 048339 260 MTELVVPAIQKFEPNMIVLVVG-QDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVT 330 (386)
Q Consensus 260 ~~~~l~p~~~~f~PdlIvvsaG-~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~ 330 (386)
+++.|..+.++|+|++|+|.+. .....+|.+ ...++++.++. +.|++.+--.||..+
T Consensus 73 L~~~I~~~~~~~~p~~I~v~~tC~~~iIGdDi-------------~~v~~~~~~~~-~~~vi~v~t~gf~g~ 130 (430)
T cd01981 73 VVENITRKDKEEKPDLIVLTPTCTSSILQEDL-------------QNFVRAAGLSS-KSPVLPLDVNHYRVN 130 (430)
T ss_pred HHHHHHHHHHhcCCCEEEEeCCccHHHHhhCH-------------HHHHHHhhhcc-CCCeEEecCCCccch
Confidence 4455566778899998877776 455555533 12223332232 678999999999875
No 64
>PRK10818 cell division inhibitor MinD; Provisional
Probab=33.56 E-value=47 Score=31.47 Aligned_cols=16 Identities=44% Similarity=0.488 Sum_probs=13.7
Q ss_pred CeEEEEEecccCCCCc
Q 048339 183 GKVVVIDIDVHYGNGT 198 (386)
Q Consensus 183 ~RV~IvD~DvHHGnGt 198 (386)
+||++||+|.+.+|-+
T Consensus 32 ~~vllvD~D~~~~~~~ 47 (270)
T PRK10818 32 KKTVVIDFDIGLRNLD 47 (270)
T ss_pred CeEEEEECCCCCCChh
Confidence 7999999999888743
No 65
>PRK02842 light-independent protochlorophyllide reductase subunit N; Provisional
Probab=33.07 E-value=2.2e+02 Score=29.33 Aligned_cols=72 Identities=15% Similarity=0.147 Sum_probs=40.3
Q ss_pred HHHHHHHHHHhc-CCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHHHHHH
Q 048339 260 MTELVVPAIQKF-EPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSAYCLH 337 (386)
Q Consensus 260 ~~~~l~p~~~~f-~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~~~~~ 337 (386)
+++.+..+++++ +|++|+|.+.. -...+|.+ ...++++.++..+.|++.+--.||..+ ...+..
T Consensus 84 L~~ai~ei~~~~~~P~~I~V~tTC~~e~IGDDi-------------~~v~~e~~~~~~~~pvv~v~t~Gf~g~-~~~G~~ 149 (427)
T PRK02842 84 LDRVVEELIKRRPNISVLFLVGSCPSEVIKLDL-------------EGLAERLSTEFAGVPVLNYSGSGLETT-FTQGED 149 (427)
T ss_pred HHHHHHHHHhccCCCCEEEEECCChHHhhcCCH-------------HHHHHHhhcccCCCeEEEeeCCCcccc-HHHHHH
Confidence 444555555566 89998887764 33444432 223344333333567888888888653 234444
Q ss_pred HHHHHHhC
Q 048339 338 ATLEGVLN 345 (386)
Q Consensus 338 ~~~~~l~~ 345 (386)
..++.+..
T Consensus 150 ~~~~alv~ 157 (427)
T PRK02842 150 AVLAALVP 157 (427)
T ss_pred HHHHHHhh
Confidence 45555543
No 66
>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=32.98 E-value=68 Score=25.51 Aligned_cols=58 Identities=33% Similarity=0.420 Sum_probs=28.6
Q ss_pred eecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEE
Q 048339 243 LNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIV 322 (386)
Q Consensus 243 ~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~v 322 (386)
+=|-+||||+|.. +..++.+ | ....|+|..-.+ ++...-.+- .+++++. +.|++.+
T Consensus 4 LiiD~PPGTgD~~-l~~~~~~--~-----~~g~ivVTTPq~-----------la~~dv~r~----~~~~~~~-~vpilGv 59 (81)
T PF10609_consen 4 LIIDLPPGTGDEH-LTLMQYL--P-----IDGAIVVTTPQE-----------LALADVRRA----IDMFRKL-NVPILGV 59 (81)
T ss_dssp EEEE--SCSSSHH-HHHHHHH---------SEEEEEE-CCC-------------HHHHHHH----HHHHHCT-T-EEEEE
T ss_pred EEEeCCCCCCcHH-HHHHHhC--C-----CCeEEEEeCCHH-----------HHHHHHHHH----HHHHHhc-CCCcEEE
Confidence 3456899999874 4444332 2 224777777432 444444443 3444444 5788887
Q ss_pred eC
Q 048339 323 QE 324 (386)
Q Consensus 323 le 324 (386)
.|
T Consensus 60 VE 61 (81)
T PF10609_consen 60 VE 61 (81)
T ss_dssp EE
T ss_pred EE
Confidence 76
No 67
>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=32.27 E-value=1.8e+02 Score=29.93 Aligned_cols=71 Identities=17% Similarity=0.365 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHhcCCCEEEEeec-CCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcH---HH
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVG-QDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYS---AY 334 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG-~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~---~~ 334 (386)
.+++.|..+.++|+|++|+|... .....+|.+ ...+.++ ++. +.|++.+--.||..+.. ..
T Consensus 73 kL~~~I~~~~~~~~p~~I~V~ttC~~~~IGdDi-------------~~v~~~~-~~~-~~~vi~v~t~gf~g~~~~G~~~ 137 (427)
T cd01971 73 RLRELIKSTLSIIDADLFVVLTGCIAEIIGDDV-------------GAVVSEF-QEG-GAPIVYLETGGFKGNNYAGHEI 137 (427)
T ss_pred HHHHHHHHHHHhCCCCEEEEEcCCcHHHhhcCH-------------HHHHHHh-hhc-CCCEEEEECCCcCcccccHHHH
Confidence 34555666788899998776654 355555532 2223333 232 57899999999997542 22
Q ss_pred HHHHHHHHHh
Q 048339 335 CLHATLEGVL 344 (386)
Q Consensus 335 ~~~~~~~~l~ 344 (386)
++.++++.+.
T Consensus 138 a~~al~~~~~ 147 (427)
T cd01971 138 VLKAIIDQYV 147 (427)
T ss_pred HHHHHHHHhc
Confidence 3344454443
No 68
>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=32.13 E-value=2.2e+02 Score=25.80 Aligned_cols=73 Identities=33% Similarity=0.576 Sum_probs=44.8
Q ss_pred eEEEEEecccCCCCceeCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCceeeecCCCCCCChHHHHHHHHHH
Q 048339 184 KVVVIDIDVHYGNGTAEGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGYNLNIPLPNGTGDRGYVHAMTEL 263 (386)
Q Consensus 184 RV~IvD~DvHHGnGtq~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~~~NvpL~~g~~d~~y~~~~~~~ 263 (386)
|++-+|+-+.-..|... .+.+.|+.||+...++ .. .-+. ..+.+..+.+..|
T Consensus 4 ~~l~fDIEt~~~~gfp~--~~~d~Ii~Is~~~~~g----------~~----------~~~~---~~~~~E~~lL~~F--- 55 (188)
T cd05781 4 KTLAFDIEVYSKYGTPN--PRRDPIIVISLATSNG----------DV----------EFIL---AEGLDDRKIIREF--- 55 (188)
T ss_pred eEEEEEEEecCCCCCCC--CCCCCEEEEEEEeCCC----------CE----------EEEE---ecCCCHHHHHHHH---
Confidence 78999998874445321 2347899999875322 10 0111 1234555666665
Q ss_pred HHHHHHhcCCCEEEEeecCCCCCCC
Q 048339 264 VVPAIQKFEPNMIVLVVGQDSSAFD 288 (386)
Q Consensus 264 l~p~~~~f~PdlIvvsaG~D~~~~D 288 (386)
...+++++||+|+ |+.....|
T Consensus 56 -~~~i~~~dPd~i~---gyN~~~FD 76 (188)
T cd05781 56 -VKYVKEYDPDIIV---GYNSNAFD 76 (188)
T ss_pred -HHHHHHcCCCEEE---ecCCCcCc
Confidence 4567899999887 66666555
No 69
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=31.93 E-value=1.7e+02 Score=26.74 Aligned_cols=52 Identities=27% Similarity=0.479 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHh-c-CCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeC
Q 048339 259 AMTELVVPAIQK-F-EPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQE 324 (386)
Q Consensus 259 ~~~~~l~p~~~~-f-~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vle 324 (386)
.++++..|.+++ + .-|+|+| |-.|.|-+.+..|.+..+.+.. |+.|+++++-
T Consensus 85 ~le~i~~~al~rA~~~aDvIII---------DEIGpMElks~~f~~~ve~vl~-----~~kpliatlH 138 (179)
T COG1618 85 GLEEIAIPALRRALEEADVIII---------DEIGPMELKSKKFREAVEEVLK-----SGKPLIATLH 138 (179)
T ss_pred HHHHHhHHHHHHHhhcCCEEEE---------ecccchhhccHHHHHHHHHHhc-----CCCcEEEEEe
Confidence 356666677764 3 3588887 8999999999998876555543 3567777764
No 70
>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=31.76 E-value=95 Score=25.24 Aligned_cols=19 Identities=21% Similarity=0.378 Sum_probs=15.4
Q ss_pred HHHHHHHhcCCCEEEEeec
Q 048339 263 LVVPAIQKFEPNMIVLVVG 281 (386)
Q Consensus 263 ~l~p~~~~f~PdlIvvsaG 281 (386)
.+...+.+++||+|.+|+-
T Consensus 42 ~l~~~~~~~~pd~V~iS~~ 60 (121)
T PF02310_consen 42 ELVEALRAERPDVVGISVS 60 (121)
T ss_dssp HHHHHHHHTTCSEEEEEES
T ss_pred HHHHHHhcCCCcEEEEEcc
Confidence 3456788899999999884
No 71
>PRK03011 butyrate kinase; Provisional
Probab=31.75 E-value=3.4e+02 Score=27.51 Aligned_cols=172 Identities=17% Similarity=0.171 Sum_probs=94.0
Q ss_pred CCCCCcEEEEEcccccCccCCCCCCCCCCCCCcccccCCCCCCHHHHHHHHHHHHhCCCC-CCceeecCC-----CCCHH
Q 048339 11 PAAEGIINVFWDDGMLNHDTGKGLFDTGFDPGFLEVLEKHPENSDRIKNIVSILKRGPIS-PYISWHSGI-----PAQIP 84 (386)
Q Consensus 11 ~~~~~~~~ivyde~~l~H~~~~~~~~~~~~~~~~~~~~~Hpe~p~R~~~i~~~L~~~~l~-~~~~~~~~~-----~as~e 84 (386)
+|+.+|+++|=++..+.-.+-.. +...-..|..+.+ -.+-|.+.+.+.|++.++. ..+.-+-.| +..--
T Consensus 10 gststk~a~~~~~~~~~~~~~~h--~~~~~~~~~~~~~---q~~~r~~~i~~~l~~~g~~~~~l~av~~RgG~~~~v~gG 84 (358)
T PRK03011 10 GSTSTKIAVFEDEKPIFEETLRH--SAEELEKFKTIID---QYEFRKQAILDFLKEHGIDLSELDAVVGRGGLLKPIPGG 84 (358)
T ss_pred CCchheEEEEcCCceeeeecccc--CHHHHhcCCCccc---hHHHHHHHHHHHHHHcCCChhcceEEEEcCCCCcccCCC
Confidence 45556899987777654433221 0000000100100 1257999999999987642 122222222 11000
Q ss_pred HHhccCCHHHHHHHHHHhhcCCccccCCcccCcChHHHHHHHHHHHHHHHHHHHhcccceEEeecCCCCCCCCCC-----
Q 048339 85 QLLSFHTPDYINELVEADKAGGKMVCDGTVLNPGSWGAALLAVGTTLSAMKHVLDGHGKIAYALVRPPGHHAQPT----- 159 (386)
Q Consensus 85 ~l~~vH~~~Yl~~l~~~~~~~~~~~~~~t~~~~~~~~~a~~aaG~~l~a~~~v~~g~~~~af~l~rppGHHA~~~----- 159 (386)
.. .=+++-++.|++..... -.-|+ +.+.|.+...+-.+. ++ ++.|+.|+-.++
T Consensus 85 ~~--~v~~~~~~~l~~~~~~~-------~~~nl-----------~~~~a~~~~~~~~~p-~~-v~D~~~~~~~~~~a~~~ 142 (358)
T PRK03011 85 TY--RVNEAMLEDLKNGKYGE-------HASNL-----------GAIIAYEIAKELGIP-AF-IVDPVVVDEMEPVARIS 142 (358)
T ss_pred CE--EcCHHHHHHHHhcCCCC-------CCCCH-----------HHHHHHHHHHhcCCC-EE-EECCcccccCCHHHHHc
Confidence 00 12445566666542110 00111 233333433332333 44 567888887554
Q ss_pred ------CCCCccccchHHHHHHHHHhcC----CCeEEEEEecccCCCCceeCceecCCEEEEec
Q 048339 160 ------MADGYCFLNNAGLAVQLALNSG----CGKVVVIDIDVHYGNGTAEGFYRSNKVLTISL 213 (386)
Q Consensus 160 ------~~~GFC~~NnvAiAa~~~~~~g----~~RV~IvD~DvHHGnGtq~if~~d~~Vl~iSi 213 (386)
|-.||--+|--+||-+++...| -.+++++-+ |+|+--....|.+++--|.
T Consensus 143 ~lp~i~R~~gfHgln~~~va~~~a~~~g~~~~~~n~I~~hL----GtGig~gai~~Gk~idgs~ 202 (358)
T PRK03011 143 GLPEIERKSIFHALNQKAVARRVAKELGKKYEELNLIVAHL----GGGISVGAHRKGRVIDVNN 202 (358)
T ss_pred CCCCcceeecchHHhHHHHHHHHHHHhCCCcccCcEEEEEe----CCCceeeEEECCEEEecCC
Confidence 5789999999999999987653 338888877 9999888888888776654
No 72
>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=31.52 E-value=73 Score=32.82 Aligned_cols=62 Identities=18% Similarity=0.191 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCC
Q 048339 256 YVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVT 330 (386)
Q Consensus 256 y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~ 330 (386)
|...|++. +|.+.+|+=..+||=.|=.+..++-+ ..+.+.|..+... +.++|+|.+||...+
T Consensus 1 ~~~~~~~~-~~~i~~~~~~~~ViK~GG~~~~~~~~----------~~~~~~i~~l~~~--g~~~vlVHGgg~~i~ 62 (429)
T TIGR01890 1 FVAWFREA-APYINAHRGKTFVVGLGGELVEGGNL----------GNIVADIALLHSL--GVRLVLVHGARPQIE 62 (429)
T ss_pred ChhHHhhh-hHHHHHhCCCEEEEEEChhhccCccH----------HHHHHHHHHHHHC--CCcEEEEcCCCHHHH
Confidence 45667776 69999999999999998666543211 1344444444321 458999999996643
No 73
>TIGR02931 anfK_nitrog Fe-only nitrogenase, beta subunit. Nitrogenase is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, AnfK, represents the beta subunit of the iron-only alternative nitrogenase. It is homologous to NifK and VnfK, of the molybdenum-containing and the vanadium (V)-containing types, respectively.
Probab=30.69 E-value=2.5e+02 Score=29.41 Aligned_cols=71 Identities=7% Similarity=0.154 Sum_probs=40.9
Q ss_pred HHHHHHHHHHhc-CCCEE-EEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhc-------CCCcEEEEeCCCCCCC
Q 048339 260 MTELVVPAIQKF-EPNMI-VLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRY-------SGGRLLIVQEGGYHVT 330 (386)
Q Consensus 260 ~~~~l~p~~~~f-~PdlI-vvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~-------~~g~vv~vleGGY~~~ 330 (386)
+++.|..+.+.| +|++| |++++.....+|... ..+.++-++. .+.|++.+-.+||..+
T Consensus 80 L~~ai~~~~~~~~~p~~i~v~ttc~~eiiGDDi~-------------~v~~~~~~~~~~~~~p~~~~~ii~v~tpgF~gs 146 (461)
T TIGR02931 80 VEEAVDVLLTRYPDVKVVPIITTCSTEIIGDDVD-------------GLISKLNEELLKEKFPDREVHLIPIHTPSFVGS 146 (461)
T ss_pred HHHHHHHHHHhcCCCCEEEEECCchHHhhhcCHH-------------HHHHHHHhhhcccccCCCCCeEEEeeCCCCCCc
Confidence 455666778889 59987 555555666666432 2233332222 1357888988999874
Q ss_pred cHHHHHHHHHHHHh
Q 048339 331 YSAYCLHATLEGVL 344 (386)
Q Consensus 331 ~~~~~~~~~~~~l~ 344 (386)
...+....+++++
T Consensus 147 -~~~Gy~~a~~ali 159 (461)
T TIGR02931 147 -MITGYDVAVHDFV 159 (461)
T ss_pred -HHHHHHHHHHHHH
Confidence 3344444444443
No 74
>TIGR02015 BchY chlorophyllide reductase subunit Y. This model represents the Y subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase.
Probab=30.23 E-value=2.2e+02 Score=29.36 Aligned_cols=68 Identities=18% Similarity=0.140 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHhcCCCEEEEeecC--CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHHHH
Q 048339 258 HAMTELVVPAIQKFEPNMIVLVVGQ--DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSAYC 335 (386)
Q Consensus 258 ~~~~~~l~p~~~~f~PdlIvvsaG~--D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~~~ 335 (386)
..+++.+..+.++++|++|+|.++. +.-.+| +...+++ ..+.||+.+---||...+-..+
T Consensus 73 ~~L~~~i~~~~~~~~P~~I~V~tTC~se~IGdD--------------i~~~~~~----~~~~pVi~v~tpgF~~~s~~~G 134 (422)
T TIGR02015 73 EDVRCSVHKLADPASYDAIVVINLCVPTASGVP--------------LELLPKR----INGVRVLGIDVPGFGVPTHAEA 134 (422)
T ss_pred HHHHHHHHHHhhcCCCCEEEEECCCcHHHhcCc--------------HHHHHHh----cCCCCeEEEeCCCCCCchHHHH
Confidence 4556666667788999999999872 222222 1222222 1256899999999955433333
Q ss_pred ----HHHHHHHH
Q 048339 336 ----LHATLEGV 343 (386)
Q Consensus 336 ----~~~~~~~l 343 (386)
+.++++.+
T Consensus 135 ~d~a~~ai~~~l 146 (422)
T TIGR02015 135 KDVLVSAMLKYA 146 (422)
T ss_pred HHHHHHHHHHHH
Confidence 34455443
No 75
>TIGR02932 vnfK_nitrog V-containing nitrogenase, beta subunit. Nitrogenase is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, VnfK, represents the beta subunit of the vanadium (V)-containing alternative nitrogenase. It is homologous to NifK and AnfK, of the molybdenum-containing and the iron (Fe)-only types, respectively.
Probab=30.21 E-value=1.6e+02 Score=30.88 Aligned_cols=62 Identities=15% Similarity=0.170 Sum_probs=35.2
Q ss_pred HHHHHHHHHHhc-CCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHH-HHHhhc--CCCcEEEEeCCCCCCCc
Q 048339 260 MTELVVPAIQKF-EPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVR-SLADRY--SGGRLLIVQEGGYHVTY 331 (386)
Q Consensus 260 ~~~~l~p~~~~f-~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~-~~a~~~--~~g~vv~vleGGY~~~~ 331 (386)
+++.|..+.++| +|++|+|.++. =...+|... .+.+.+. ++.++. .+.|++.|-.+||..+.
T Consensus 77 L~~aI~~~~~~~~~p~~I~V~ttC~~eiIGDDi~----------~v~~~~~~~~~~e~~~~~~~vv~v~tpgF~gs~ 143 (457)
T TIGR02932 77 IEEGVLTLARRYPNLRVIPIITTCSTETIGDDIE----------GSIRKVNRALKKEFPDRKIKLVPVHTPSFKGSQ 143 (457)
T ss_pred HHHHHHHHHHhCCCCCEEEEECCchHHhhcCCHH----------HHHHHHHhhhhhhcCCCCCeEEEeeCCCCcCcH
Confidence 445556677888 69988886653 333444321 1222221 111222 14689999999999753
No 76
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=30.09 E-value=3e+02 Score=28.38 Aligned_cols=71 Identities=8% Similarity=0.128 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHhcCCCEEEEeec-CCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhc---CCCcEEEEeCCCCCCCcHHH
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVG-QDSSAFDPNGRQCLTMDGYREMGRIVRSLADRY---SGGRLLIVQEGGYHVTYSAY 334 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG-~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~---~~g~vv~vleGGY~~~~~~~ 334 (386)
.+++.|..+.++++|++|+|..+ .....+|.+. ..+.++-++. .+.|++.+--.||..+ ...
T Consensus 72 ~L~~ai~~~~~~~~p~~I~v~ttC~~~iiGdDi~-------------~v~~~~~~~~~~~~~~~vi~v~tpgf~gs-~~~ 137 (435)
T cd01974 72 NLIDGLKNAYAVYKPDMIAVSTTCMAEVIGDDLN-------------AFIKNAKNKGSIPADFPVPFANTPSFVGS-HIT 137 (435)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCchHhhhhccHH-------------HHHHHHHHhccCCCCCeEEEecCCCCccC-HHH
Confidence 35556667788999998766654 3444444321 1222222221 1357777777788754 334
Q ss_pred HHHHHHHHH
Q 048339 335 CLHATLEGV 343 (386)
Q Consensus 335 ~~~~~~~~l 343 (386)
+....++.+
T Consensus 138 G~~~a~~al 146 (435)
T cd01974 138 GYDNMVKGI 146 (435)
T ss_pred HHHHHHHHH
Confidence 443333333
No 77
>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=29.98 E-value=64 Score=27.96 Aligned_cols=17 Identities=41% Similarity=0.354 Sum_probs=14.1
Q ss_pred CeEEEEEecccCCCCce
Q 048339 183 GKVVVIDIDVHYGNGTA 199 (386)
Q Consensus 183 ~RV~IvD~DvHHGnGtq 199 (386)
.||++||.|...||-+.
T Consensus 29 ~~vllvD~D~~~~~~~~ 45 (179)
T cd02036 29 YKVVLIDADLGLRNLDL 45 (179)
T ss_pred CeEEEEeCCCCCCCchh
Confidence 69999999998877543
No 78
>CHL00175 minD septum-site determining protein; Validated
Probab=29.96 E-value=58 Score=31.09 Aligned_cols=19 Identities=32% Similarity=0.352 Sum_probs=15.5
Q ss_pred cCCCeEEEEEecccCCCCce
Q 048339 180 SGCGKVVVIDIDVHYGNGTA 199 (386)
Q Consensus 180 ~g~~RV~IvD~DvHHGnGtq 199 (386)
.| +||++||.|..+||-+.
T Consensus 43 ~g-~~vlliD~D~~~~~l~~ 61 (281)
T CHL00175 43 LG-YRVALIDADIGLRNLDL 61 (281)
T ss_pred CC-CeEEEEeCCCCCCChhh
Confidence 35 68999999999988553
No 79
>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=29.89 E-value=18 Score=27.34 Aligned_cols=11 Identities=27% Similarity=0.791 Sum_probs=8.2
Q ss_pred CCCccccchHH
Q 048339 161 ADGYCFLNNAG 171 (386)
Q Consensus 161 ~~GFC~~NnvA 171 (386)
-.-||||||--
T Consensus 15 nTKFcYyNNy~ 25 (63)
T PF02701_consen 15 NTKFCYYNNYN 25 (63)
T ss_pred CCEEEeecCCC
Confidence 35699999964
No 80
>TIGR01284 alt_nitrog_alph nitrogenase alpha chain. This model represents the alpha chains of various forms of the nitrogen-fixing enzyme nitrogenase: vanadium-iron, iron-iron, and molybdenum-iron. Most examples of NifD, the molybdenum-iron type nitrogenase alpha chain, are excluded from this model and described instead by equivalog model TIGR01282. It appears by phylogenetic and UPGMA trees that this model represents a distinct clade of NifD homologs, in which arose several molybdenum-independent forms.
Probab=29.41 E-value=2.9e+02 Score=28.84 Aligned_cols=73 Identities=10% Similarity=0.135 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhc-CCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCc----HH
Q 048339 260 MTELVVPAIQKF-EPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTY----SA 333 (386)
Q Consensus 260 ~~~~l~p~~~~f-~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~----~~ 333 (386)
+.+.|..+.+.| +|++|+|.+.. ....+|. +...++++.+++.+.|++.+--.||.... ..
T Consensus 112 L~~aI~e~~~~~p~p~~I~V~stC~~~lIGDD-------------i~~v~~e~~~~~~~~pvv~v~t~gf~g~s~~~G~~ 178 (457)
T TIGR01284 112 LKRCILEAFREFPEIKRMYTYATCTTALIGDD-------------IDAIAREVMEEIPDVDVFAINAPGFAGPSQSKGHH 178 (457)
T ss_pred HHHHHHHHHHhCCCCceEEEECCChHHhhccC-------------HHHHHHHHHHhcCCCeEEEeeCCCcCCcccchHHH
Confidence 444455666788 79877766553 4445553 23334555555534789999888888632 22
Q ss_pred HHHHHHHHHHhC
Q 048339 334 YCLHATLEGVLN 345 (386)
Q Consensus 334 ~~~~~~~~~l~~ 345 (386)
.+..++++.+.+
T Consensus 179 ~a~~al~~~l~~ 190 (457)
T TIGR01284 179 VANITWINDKVG 190 (457)
T ss_pred HHHHHHHHHHhC
Confidence 233455666654
No 81
>COG3365 Uncharacterized protein conserved in archaea [Function unknown]
Probab=29.19 E-value=98 Score=26.03 Aligned_cols=36 Identities=28% Similarity=0.449 Sum_probs=26.9
Q ss_pred HHHHHhhcCCCcEEEEeCCCCCCCcHHHHHHHHHHHH
Q 048339 307 VRSLADRYSGGRLLIVQEGGYHVTYSAYCLHATLEGV 343 (386)
Q Consensus 307 l~~~a~~~~~g~vv~vleGGY~~~~~~~~~~~~~~~l 343 (386)
|+-+.++..+|. ++|||||-+++..++.+..+++.+
T Consensus 23 vr~Iid~vr~G~-IlVLE~gL~P~eeaklIe~TM~eI 58 (118)
T COG3365 23 VRYIIDKVREGD-ILVLEGGLTPEEEAKLIEMTMSEI 58 (118)
T ss_pred HHHHHHhccCCc-EEEEeCCCChHHHHHHHHHHHHhc
Confidence 344444444666 589999999999998888888765
No 82
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=29.16 E-value=67 Score=30.55 Aligned_cols=18 Identities=28% Similarity=0.433 Sum_probs=13.3
Q ss_pred cCCCeEEEEEecccCCCCce
Q 048339 180 SGCGKVVVIDIDVHYGNGTA 199 (386)
Q Consensus 180 ~g~~RV~IvD~DvHHGnGtq 199 (386)
.| +||++||+|.+. |.|.
T Consensus 27 ~G-~~VlliD~D~q~-~~~~ 44 (275)
T TIGR01287 27 MG-KKVMIVGCDPKA-DSTR 44 (275)
T ss_pred CC-CeEEEEeCCCCC-Cccc
Confidence 35 699999999884 4443
No 83
>TIGR01282 nifD nitrogenase molybdenum-iron protein alpha chain. Nitrogenase consists of alpha (NifD) and beta (NifK) subunits of the molybdenum-iron protein and an ATP-binding iron-sulfur protein (NifH). This model describes a large clade of NifD proteins, but excludes a lineage that contains putative NifD and NifD homologs from species with vanadium-dependent nitrogenases.
Probab=29.13 E-value=3e+02 Score=28.86 Aligned_cols=57 Identities=11% Similarity=0.070 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhcCC-CEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCC
Q 048339 259 AMTELVVPAIQKFEP-NMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHV 329 (386)
Q Consensus 259 ~~~~~l~p~~~~f~P-dlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~ 329 (386)
.|.+.|..+.+.|+| ++|+|.+.. ....+|.+ ...++++.++. +.||+.+--.||..
T Consensus 118 kL~~aI~e~~~~~~P~~~I~V~tTC~~~lIGDDi-------------~av~~~~~~~~-~~pVi~v~t~gf~G 176 (466)
T TIGR01282 118 KLKKAIDEIEELFPLNKGISIQSECPVGLIGDDI-------------EAVAKKASKEL-GKPVVPVRCEGFRG 176 (466)
T ss_pred HHHHHHHHHHHhCCcccEEEEeCCChHHHhccCH-------------HHHHHHHhhhc-CCcEEEEeCCCcCC
Confidence 455667778899999 887776653 44555532 23344444444 67999999999974
No 84
>PRK14477 bifunctional nitrogenase molybdenum-cofactor biosynthesis protein NifE/NifN; Provisional
Probab=28.82 E-value=2.8e+02 Score=31.84 Aligned_cols=71 Identities=13% Similarity=0.199 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhc---CCCcEEEEeCCCCCCCcHHH
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRY---SGGRLLIVQEGGYHVTYSAY 334 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~---~~g~vv~vleGGY~~~~~~~ 334 (386)
.+++.|..+++.|+|++|+|.++. =...+|. +...+.++.++. .+.|++.+--.||..+ ...
T Consensus 558 ~L~~~I~~~~~~~~p~~I~V~tTc~~eiIGDD-------------i~~vi~~~~~~~~~~~~~pvi~v~tpgF~Gs-~~~ 623 (917)
T PRK14477 558 NLKQGILRVIEKFKPKVIGVMTTGLTETMGDD-------------VRSAIVQFREEHPELDDVPVVWASTPDYCGS-LQE 623 (917)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCchHhhhhcC-------------HHHHHHHHHhhccccCCCeEEEeeCCCCccC-HHH
Confidence 456667778889999988887753 2223332 222233333322 2467888888888764 334
Q ss_pred HHHHHHHHH
Q 048339 335 CLHATLEGV 343 (386)
Q Consensus 335 ~~~~~~~~l 343 (386)
++...++++
T Consensus 624 G~~~a~~ai 632 (917)
T PRK14477 624 GYAAAVEAI 632 (917)
T ss_pred HHHHHHHHH
Confidence 444333333
No 85
>cd01973 Nitrogenase_VFe_beta_like Nitrogenase_VFe_beta -like: Nitrogenase VFe protein, beta subunit like. This group contains proteins similar to the beta subunits of the VFe protein of the vanadium-dependent (V-) nitrogenase. Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V-nitrogenase there is a molybdenum (Mo)-dependent nitrogenase and an iron only (Fe-) nitrogenase. The Mo-nitrogenase is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe p
Probab=28.72 E-value=1.7e+02 Score=30.47 Aligned_cols=71 Identities=11% Similarity=0.195 Sum_probs=39.4
Q ss_pred HHHHHHHHHHhc-CCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhh----c--CCCcEEEEeCCCCCCCc
Q 048339 260 MTELVVPAIQKF-EPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADR----Y--SGGRLLIVQEGGYHVTY 331 (386)
Q Consensus 260 ~~~~l~p~~~~f-~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~----~--~~g~vv~vleGGY~~~~ 331 (386)
+++.|..+.++| +|++|+|.++. =...+|.. ...++++.++ + .+.|++.+-.+||..+.
T Consensus 74 L~~~I~~~~~~~~~p~~I~V~tTC~~eiIGDDi-------------~~vv~~~~~~~~~e~~~~~~~vi~v~tpgF~Gs~ 140 (454)
T cd01973 74 VEEGVLVLARRYPDLRVIPIITTCSTEIIGDDI-------------EGVIRKLNEALKEEFPDREVHLIPVHTPSFKGSM 140 (454)
T ss_pred HHHHHHHHHHhcCCCCEEEEECCchHhhhccCH-------------HHHHHHHHhhhhhccCCCCCeEEEeeCCCcCCCH
Confidence 445566777889 69988777653 33344432 1222222111 1 14689999999998743
Q ss_pred HHHHH----HHHHHHHh
Q 048339 332 SAYCL----HATLEGVL 344 (386)
Q Consensus 332 ~~~~~----~~~~~~l~ 344 (386)
..+. .++++.+.
T Consensus 141 -~~G~~~a~~ali~~~~ 156 (454)
T cd01973 141 -VTGYDEAVRSVVKTIA 156 (454)
T ss_pred -HHHHHHHHHHHHHHhc
Confidence 2333 44454443
No 86
>cd01976 Nitrogenase_MoFe_alpha Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Mo-nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=28.67 E-value=2.8e+02 Score=28.50 Aligned_cols=73 Identities=14% Similarity=0.083 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHhcCC-CEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCc----H
Q 048339 259 AMTELVVPAIQKFEP-NMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTY----S 332 (386)
Q Consensus 259 ~~~~~l~p~~~~f~P-dlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~----~ 332 (386)
.+++.|..+.++|+| ++|+|.+.. ....+|.+ ...+.++.++. +.|++.+--.||...+ .
T Consensus 85 kL~~~I~~~~~~~~p~~~I~V~tTC~~~iIGdDi-------------~~v~~~~~~~~-~~pvi~v~t~gf~g~s~~~G~ 150 (421)
T cd01976 85 KLAKAIDEAYELFPLNKGISVQSECPVGLIGDDI-------------EAVARKASKEL-GIPVVPVRCEGFRGVSQSLGH 150 (421)
T ss_pred HHHHHHHHHHHhCCCccEEEEECCChHHHhccCH-------------HHHHHHHHHhh-CCCEEEEeCCCccCCcccHHH
Confidence 456667778899999 987776543 44444432 22333433333 6799999999987522 1
Q ss_pred HHHHHHHHHHHhC
Q 048339 333 AYCLHATLEGVLN 345 (386)
Q Consensus 333 ~~~~~~~~~~l~~ 345 (386)
..+..++++.+.+
T Consensus 151 ~~a~~ai~~~l~~ 163 (421)
T cd01976 151 HIANDAIRDHILG 163 (421)
T ss_pred HHHHHHHHHHHhc
Confidence 2234456665554
No 87
>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=28.41 E-value=1.2e+02 Score=24.67 Aligned_cols=15 Identities=27% Similarity=0.864 Sum_probs=13.6
Q ss_pred CCeEEEEEecccCCC
Q 048339 182 CGKVVVIDIDVHYGN 196 (386)
Q Consensus 182 ~~RV~IvD~DvHHGn 196 (386)
-++|+++|.|.++++
T Consensus 29 ~~~~~l~d~d~~~~~ 43 (106)
T cd03111 29 GRRVLLVDLDLQFGD 43 (106)
T ss_pred CCcEEEEECCCCCCC
Confidence 479999999999987
No 88
>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=28.40 E-value=1e+02 Score=25.55 Aligned_cols=26 Identities=15% Similarity=0.313 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhcCCCEEEEeecCCC
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVGQDS 284 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG~D~ 284 (386)
.+.+.|..++++++||+|+.-...|.
T Consensus 87 ~~~~~l~~~i~~~~p~~V~t~~~~~~ 112 (128)
T PF02585_consen 87 ELVRDLEDLIREFRPDVVFTPDPDDG 112 (128)
T ss_dssp HHHHHHHHHHHHH-ESEEEEE-STTS
T ss_pred HHHHHHHHHHHHcCCCEEEECCCCCC
Confidence 34445678889999999999888777
No 89
>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=27.95 E-value=99 Score=25.12 Aligned_cols=74 Identities=19% Similarity=0.184 Sum_probs=50.4
Q ss_pred hHHHHHHHHHhcCCCeEEEEEecccCCCCceeCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCceeeecCCC
Q 048339 169 NAGLAVQLALNSGCGKVVVIDIDVHYGNGTAEGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGYNLNIPLP 248 (386)
Q Consensus 169 nvAiAa~~~~~~g~~RV~IvD~DvHHGnGtq~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~~~NvpL~ 248 (386)
.+.+.+.++++.|. .|-++|.+++..+-.+.+-..+++++.+|.+...
T Consensus 16 Gl~~la~~l~~~G~-~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~------------------------------- 63 (121)
T PF02310_consen 16 GLLYLAAYLRKAGH-EVDILDANVPPEELVEALRAERPDVVGISVSMTP------------------------------- 63 (121)
T ss_dssp HHHHHHHHHHHTTB-EEEEEESSB-HHHHHHHHHHTTCSEEEEEESSST-------------------------------
T ss_pred HHHHHHHHHHHCCC-eEEEECCCCCHHHHHHHHhcCCCcEEEEEccCcC-------------------------------
Confidence 34455566667776 7889999998866666666778999999975320
Q ss_pred CCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC
Q 048339 249 NGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ 282 (386)
Q Consensus 249 ~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~ 282 (386)
.+. .+.+ +...+++..|+.+++.-|.
T Consensus 64 ------~~~-~~~~-l~~~~k~~~p~~~iv~GG~ 89 (121)
T PF02310_consen 64 ------NLP-EAKR-LARAIKERNPNIPIVVGGP 89 (121)
T ss_dssp ------HHH-HHHH-HHHHHHTTCTTSEEEEEES
T ss_pred ------cHH-HHHH-HHHHHHhcCCCCEEEEECC
Confidence 011 1223 3456899999999999983
No 90
>TIGR01862 N2-ase-Ialpha nitrogenase component I, alpha chain. This model represents the alpha chain of all three varieties (Mo-Fe, V-Fe, and Fe-Fe) of component I of nitrogenase.
Probab=27.85 E-value=2.8e+02 Score=28.79 Aligned_cols=73 Identities=12% Similarity=0.174 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHhcCC-CEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCc----H
Q 048339 259 AMTELVVPAIQKFEP-NMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTY----S 332 (386)
Q Consensus 259 ~~~~~l~p~~~~f~P-dlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~----~ 332 (386)
.+.+.|..+.++++| ++|+|.... ....+|. +...+.++.++. +.||+.+--.||.... .
T Consensus 104 ~L~~aI~~~~~~~~p~~~I~V~~tC~~~liGdD-------------i~~v~~~~~~~~-~~pvi~v~t~gf~g~~~~~G~ 169 (443)
T TIGR01862 104 KLKKLIHEAFTEFPLIKAISVYATCPTGLIGDD-------------IEAVAKEVSKEI-GKDVVAVNCPGFAGVSQSKGH 169 (443)
T ss_pred HHHHHHHHHHHhCCccceEEEECCChHHHhccC-------------HHHHHHHHHHhc-CCCEEEEecCCccCCccchHH
Confidence 345556677889999 977766543 3334442 223344444444 4689999998887633 2
Q ss_pred HHHHHHHHHHHhC
Q 048339 333 AYCLHATLEGVLN 345 (386)
Q Consensus 333 ~~~~~~~~~~l~~ 345 (386)
..++.++++.+..
T Consensus 170 ~~a~~al~~~l~~ 182 (443)
T TIGR01862 170 HIANIAVINDKVG 182 (443)
T ss_pred HHHHHHHHHHHhC
Confidence 3334556666654
No 91
>COG1091 RfbD dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]
Probab=27.66 E-value=92 Score=30.57 Aligned_cols=52 Identities=19% Similarity=0.358 Sum_probs=36.2
Q ss_pred HHHHHHhcCCCEEEEeecC---CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEE
Q 048339 264 VVPAIQKFEPNMIVLVVGQ---DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLL 320 (386)
Q Consensus 264 l~p~~~~f~PdlIvvsaG~---D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv 320 (386)
+..++++.+||+||-+|.+ |..+.+|...+.+...+ ...|.+.|.+. +.++|
T Consensus 42 v~~~i~~~~PDvVIn~AAyt~vD~aE~~~e~A~~vNa~~----~~~lA~aa~~~-ga~lV 96 (281)
T COG1091 42 VLEVIRETRPDVVINAAAYTAVDKAESEPELAFAVNATG----AENLARAAAEV-GARLV 96 (281)
T ss_pred HHHHHHhhCCCEEEECccccccccccCCHHHHHHhHHHH----HHHHHHHHHHh-CCeEE
Confidence 5677888899999999987 77777776655555544 34456666655 45544
No 92
>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=27.59 E-value=67 Score=28.34 Aligned_cols=25 Identities=12% Similarity=0.453 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEe
Q 048339 255 GYVHAMTELVVPAIQKFEPNMIVLV 279 (386)
Q Consensus 255 ~y~~~~~~~l~p~~~~f~PdlIvvs 279 (386)
.+...+.+.+.+.+++++||+||--
T Consensus 72 ~~~~~~~~~l~~~l~~~~PD~IIsT 96 (169)
T PF06925_consen 72 ALSRLFARRLIRLLREFQPDLIIST 96 (169)
T ss_pred HHHHHHHHHHHHHHhhcCCCEEEEC
Confidence 3455566677889999999988753
No 93
>TIGR00734 hisAF_rel hisA/hisF family protein. This alignment models a family of proteins found so far in three archaeal species: Methanobacterium thermoautotrophicum, Methanococcus jannaschii, and Archaeoglobus fulgidus. This protein is homologous to phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (HisA) and, with lower similarity, to the cyclase HisF, both of which are enzymes of histidine biosynthesis. Each species with this protein also encodes HisA. The function of this protein is unknown.
Probab=27.56 E-value=88 Score=29.28 Aligned_cols=36 Identities=17% Similarity=0.180 Sum_probs=28.8
Q ss_pred ccccchHHHHHHHHHhcCCCeEEEEEecccCCCCce
Q 048339 164 YCFLNNAGLAVQLALNSGCGKVVVIDIDVHYGNGTA 199 (386)
Q Consensus 164 FC~~NnvAiAa~~~~~~g~~RV~IvD~DvHHGnGtq 199 (386)
.|+..|..-.|+...+.|++++-|+|+|..-|.+.+
T Consensus 32 ~~~~~dP~~~a~~~~~~g~~~l~ivDLd~~~~~~~n 67 (221)
T TIGR00734 32 SRLSSSPDDAAKVIEEIGARFIYIADLDRIVGLGDN 67 (221)
T ss_pred eecCCCHHHHHHHHHHcCCCEEEEEEcccccCCcch
Confidence 588888777777777889999999999997665544
No 94
>KOG3147 consensus 6-phosphogluconolactonase - like protein [Carbohydrate transport and metabolism]
Probab=27.37 E-value=2.9e+02 Score=26.74 Aligned_cols=84 Identities=12% Similarity=0.110 Sum_probs=45.5
Q ss_pred CceeCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCceeeecCCCC--CCChHHHHHHHHHHHHHHHHh---c
Q 048339 197 GTAEGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGYNLNIPLPN--GTGDRGYVHAMTELVVPAIQK---F 271 (386)
Q Consensus 197 Gtq~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~~~NvpL~~--g~~d~~y~~~~~~~l~p~~~~---f 271 (386)
+-..||+-|.|+.=++ |.+ ++|..| ..+..+++-.-...=|.+|-.|.. ...-+.|...+.+. +.. =
T Consensus 70 ~kW~if~~DER~Vp~~-~~d--SNyg~~-~~~~l~~v~~~~~~i~~id~~L~~~~~~~a~~ye~~l~~~----v~~~s~p 141 (252)
T KOG3147|consen 70 SKWHIFFVDERVVPLD-DPD--SNYGLA-KRHFLSKVPIPHYNIYPIDESLIADAEEAADLYEKELKAL----VANDSFP 141 (252)
T ss_pred cceEEEEEeccccCCC-CCc--ccHHHH-HHhhhhhCCCCcCcEEECChhhccCHHHHHHHHHHHHHHH----hccCCCc
Confidence 7889999999998877 332 222211 122222221111123566666663 12223344343332 222 1
Q ss_pred CCCEEEEeecCCCCCCC
Q 048339 272 EPNMIVLVVGQDSSAFD 288 (386)
Q Consensus 272 ~PdlIvvsaG~D~~~~D 288 (386)
+.|++++-+|-|+|.-.
T Consensus 142 ~FDL~LLG~GpDGHtaS 158 (252)
T KOG3147|consen 142 VFDLLLLGMGPDGHTAS 158 (252)
T ss_pred ceeEEEeccCCCCCeee
Confidence 46999999999999654
No 95
>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=27.18 E-value=2.4e+02 Score=27.68 Aligned_cols=61 Identities=26% Similarity=0.458 Sum_probs=35.1
Q ss_pred HHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHH---HHHHHHHHHHhhcCCCc-EEEEeCCC
Q 048339 262 ELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYR---EMGRIVRSLADRYSGGR-LLIVQEGG 326 (386)
Q Consensus 262 ~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~---~~~~~l~~~a~~~~~g~-vv~vleGG 326 (386)
+.|.+++++++||++|+ +|-|+...+.-....| ..|+ .+.+.|+. |+++-..+ -|++..|.
T Consensus 143 ~~i~~Ll~~~~PDIlVi-TGHD~~~K~~~d~~dl--~~YrnSkyFVeaVk~-aR~y~~~~D~LVIFAGA 207 (283)
T TIGR02855 143 EKVLDLIEEVRPDILVI-TGHDAYSKNKGNYMDL--NAYRHSKYFVETVRE-ARKYVPSLDQLVIFAGA 207 (283)
T ss_pred HHHHHHHHHhCCCEEEE-eCchhhhcCCCChhhh--hhhhhhHHHHHHHHH-HHhcCCCcccEEEEcch
Confidence 45678999999997765 7999986543322222 2333 24555543 34442112 46667663
No 96
>cd01977 Nitrogenase_VFe_alpha Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V- and Fe- nitrogenases there is a molybdenum (Mo)-dependent nitrogenase which is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha sub
Probab=27.08 E-value=4e+02 Score=27.21 Aligned_cols=73 Identities=7% Similarity=0.125 Sum_probs=41.8
Q ss_pred HHHHHHHHHHhc-CCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcHH----
Q 048339 260 MTELVVPAIQKF-EPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYSA---- 333 (386)
Q Consensus 260 ~~~~l~p~~~~f-~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~~---- 333 (386)
+.+.|..+.++| +|++|+|.... ....+|.+ ...+.++-++..+.|++.+--.||....-.
T Consensus 75 L~~aI~~~~~~~p~p~~i~V~~tc~~~liGdDi-------------~~v~~~~~~~~~~~~vi~v~tpgf~g~~~~~G~~ 141 (415)
T cd01977 75 LKKNIIEAFKEFPDIKRMTVYTTCTTALIGDDI-------------KAVAKEVMEELPDVDIFVCNAPGFAGPSQSKGHH 141 (415)
T ss_pred HHHHHHHHHHhCCCCcEEEEECCCchhhhcCCH-------------HHHHHHHHHhcCCCeEEEEeCCCcCCcchhHHHH
Confidence 344455566788 78877766543 44444432 233444444543378999988888754322
Q ss_pred HHHHHHHHHHhC
Q 048339 334 YCLHATLEGVLN 345 (386)
Q Consensus 334 ~~~~~~~~~l~~ 345 (386)
.++.++++.+..
T Consensus 142 ~a~~al~~~l~~ 153 (415)
T cd01977 142 VLNIAWINQKVG 153 (415)
T ss_pred HHHHHHHHHhhC
Confidence 223456666654
No 97
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.94 E-value=3.7e+02 Score=25.47 Aligned_cols=64 Identities=9% Similarity=0.082 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCC
Q 048339 255 GYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYH 328 (386)
Q Consensus 255 ~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~ 328 (386)
+....|+++ ...+.+.+||+|+++- |-+-...-+......+.+.+.++.+.. ..|+++ .-|--+
T Consensus 23 ~~~~~l~~l-~~~~~~~~~D~lli~G-------Di~d~~~p~~~~~~~~~~~l~~l~~~~-~i~v~~-i~GNHD 86 (253)
T TIGR00619 23 EQKAFLDDL-LEFAKAEQIDALLVAG-------DVFDTANPPAEAQELFNAFFRNLSDAN-PIPIVV-ISGNHD 86 (253)
T ss_pred HHHHHHHHH-HHHHHHcCCCEEEECC-------ccCCCCCCCHHHHHHHHHHHHHHHhcC-CceEEE-EccCCC
Confidence 345566654 5777888999988763 433332233333333455666665432 146544 555444
No 98
>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=26.62 E-value=2.7e+02 Score=23.08 Aligned_cols=10 Identities=10% Similarity=0.600 Sum_probs=9.2
Q ss_pred cCCCEEEEee
Q 048339 271 FEPNMIVLVV 280 (386)
Q Consensus 271 f~PdlIvvsa 280 (386)
++||+|.+|+
T Consensus 38 ~~pdiv~~S~ 47 (127)
T cd02068 38 LKPDVVGISL 47 (127)
T ss_pred cCCCEEEEee
Confidence 9999999985
No 99
>cd04723 HisA_HisF Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene. The Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and pl
Probab=26.48 E-value=90 Score=29.34 Aligned_cols=37 Identities=16% Similarity=0.263 Sum_probs=29.4
Q ss_pred CCCccccchHHHHHHHHHhcCCCeEEEEEecccCCCC
Q 048339 161 ADGYCFLNNAGLAVQLALNSGCGKVVVIDIDVHYGNG 197 (386)
Q Consensus 161 ~~GFC~~NnvAiAa~~~~~~g~~RV~IvD~DvHHGnG 197 (386)
.+.||+..|..=.|+...+.|++++.|+|+|.--|.+
T Consensus 28 ~~~~~~~~dp~~~a~~~~~~g~~~l~i~DLd~~~~~~ 64 (233)
T cd04723 28 TSNLCSTSDPLDVARAYKELGFRGLYIADLDAIMGRG 64 (233)
T ss_pred ccCcccCCCHHHHHHHHHHCCCCEEEEEeCccccCCC
Confidence 3678988787777777777799999999999765444
No 100
>PF13277 YmdB: YmdB-like protein; PDB: 2CV9_B 2Z06_C.
Probab=26.32 E-value=1.4e+02 Score=28.97 Aligned_cols=59 Identities=10% Similarity=0.073 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCC
Q 048339 257 VHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVT 330 (386)
Q Consensus 257 ~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~ 330 (386)
+.++++.|..+.+++++|+||+.+ ..--+++.+|.+.|.++ .+. +.-++..+.-=|+..
T Consensus 12 r~~v~~~Lp~L~~~~~~DfVIaNg------ENaa~G~Git~~~~~~L----~~~-----GvDviT~GNH~wdkk 70 (253)
T PF13277_consen 12 RRAVKEHLPELKEEYGIDFVIANG------ENAAGGFGITPKIAEEL----FKA-----GVDVITMGNHIWDKK 70 (253)
T ss_dssp HHHHHHHHHHHGG--G-SEEEEE-------TTTTTTSS--HHHHHHH----HHH-----T-SEEE--TTTTSST
T ss_pred HHHHHHHHHHHHhhcCCCEEEECC------cccCCCCCCCHHHHHHH----Hhc-----CCCEEecCcccccCc
Confidence 345666655555789999999887 45567788998888764 332 334555555555554
No 101
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=25.13 E-value=69 Score=30.54 Aligned_cols=14 Identities=14% Similarity=0.351 Sum_probs=12.5
Q ss_pred CeEEEEEecccCCC
Q 048339 183 GKVVVIDIDVHYGN 196 (386)
Q Consensus 183 ~RV~IvD~DvHHGn 196 (386)
+||++||.|.+..+
T Consensus 30 ~rVllvD~Dpq~~~ 43 (273)
T PRK13232 30 NKILLVGCDPKADS 43 (273)
T ss_pred CCeEEEeccccccc
Confidence 69999999999765
No 102
>cd04506 SGNH_hydrolase_YpmR_like 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. This subfamily contains sequences similar to Bacillus YpmR.
Probab=24.59 E-value=1.5e+02 Score=26.47 Aligned_cols=42 Identities=12% Similarity=0.170 Sum_probs=22.8
Q ss_pred eeecCCCCCCChHHHHHHHHHHHHHHHHhcCCCEEEEeecC-CCC
Q 048339 242 NLNIPLPNGTGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQ-DSS 285 (386)
Q Consensus 242 ~~NvpL~~g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~-D~~ 285 (386)
-+|......+. .+.+..+++.+.. -...+||+|+|..|. |..
T Consensus 40 ~~N~g~~G~t~-~~~~~r~~~~~~~-~~~~~~d~V~i~~G~ND~~ 82 (204)
T cd04506 40 VQNFGVSGDRS-DQLLKRLKTKKVQ-KELKKADVITITIGGNDLM 82 (204)
T ss_pred EEeecccchhH-HHHHHHHhcchhh-hhcccCCEEEEEecchhHH
Confidence 35555544333 3344444432211 123589999999998 543
No 103
>CHL00202 argB acetylglutamate kinase; Provisional
Probab=24.41 E-value=2.7e+02 Score=26.98 Aligned_cols=63 Identities=22% Similarity=0.305 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCC
Q 048339 255 GYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHV 329 (386)
Q Consensus 255 ~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~ 329 (386)
.....|++. +|.+.+|+=..+||=.|-++..++.+ ...+.+.|..+.. .+.++|+|.+||...
T Consensus 6 ~~~~~~~~~-~pyi~~~~~~~~VIk~gG~~~~~~~l---------~~~~~~di~~l~~--~g~~~VlVHGgg~~i 68 (284)
T CHL00202 6 ERVQVLSEA-LPYIQKFRGRIMVIKYGGAAMKNLIL---------KADIIKDILFLSC--IGLKIVVVHGGGPEI 68 (284)
T ss_pred HHHHHHHHH-HHHHHHHcCCeEEEEEChHHhcCcch---------HHHHHHHHHHHHH--CCCcEEEEeCCcHHH
Confidence 446677776 69999999999999998766543321 1123344444432 356899999999854
No 104
>KOG1495 consensus Lactate dehydrogenase [Energy production and conversion]
Probab=23.82 E-value=7.2e+02 Score=24.69 Aligned_cols=137 Identities=16% Similarity=0.206 Sum_probs=72.6
Q ss_pred HHHHHHHHHhcCCCeEEEEEecccCCCCce------eCceecCCEEEEeccCCCCCCCCCCCCCCCCcccCCCCCCceee
Q 048339 170 AGLAVQLALNSGCGKVVVIDIDVHYGNGTA------EGFYRSNKVLTISLHMNHGSWGPSHPQNGTVDELGEGEGFGYNL 243 (386)
Q Consensus 170 vAiAa~~~~~~g~~RV~IvD~DvHHGnGtq------~if~~d~~Vl~iSiH~~~~~~~~~~P~tg~~~e~G~g~g~g~~~ 243 (386)
.|+|+.-+++.-.+++++||++.----|-. ..|..+|+|..- - + |--+.. .++
T Consensus 33 mAca~siL~k~Ladel~lvDv~~dklkGE~MDLqH~s~f~~~~~V~~~-~---D------y~~sa~-----------S~l 91 (332)
T KOG1495|consen 33 MACAISILLKGLADELVLVDVNEDKLKGEMMDLQHGSAFLSTPNVVAS-K---D------YSVSAN-----------SKL 91 (332)
T ss_pred HHHHHHHHHhhhhhceEEEecCcchhhhhhhhhccccccccCCceEec-C---c------ccccCC-----------CcE
Confidence 344444444433789999998654322211 246677776541 0 0 111111 111
Q ss_pred ecCC--CCCCChHHHHHHHHH------HHHHHHHhcCCCEEEE--eecCCCCCC-------CC-----CCCCcCCHHHHH
Q 048339 244 NIPL--PNGTGDRGYVHAMTE------LVVPAIQKFEPNMIVL--VVGQDSSAF-------DP-----NGRQCLTMDGYR 301 (386)
Q Consensus 244 NvpL--~~g~~d~~y~~~~~~------~l~p~~~~f~PdlIvv--saG~D~~~~-------Dp-----lg~~~lt~~gy~ 301 (386)
-|-- -++..++.++.++++ .+.|.+-+|.||.+++ |-=+|..-. =| -.+.+|.+.-|+
T Consensus 92 vIiTAGarq~~gesRL~lvQrNV~ifK~iip~lv~ySpd~~llvvSNPVDilTYv~wKLSgfP~nRViGsGcnLDsaRFr 171 (332)
T KOG1495|consen 92 VIITAGARQSEGESRLDLVQRNVDIFKAIIPALVKYSPDCILLVVSNPVDILTYVTWKLSGFPKNRVIGSGCNLDSARFR 171 (332)
T ss_pred EEEecCCCCCCCcHHHHHHHHHHHHHHHHHHHHhhcCCCeEEEEecCchHHHHHHHHHHcCCcccceeccCcCccHHHHH
Confidence 1111 123345566654432 3469999999996544 444444311 11 135788888888
Q ss_pred HHHHHHHHHHhhcCCCcEEEEeCCCCCC
Q 048339 302 EMGRIVRSLADRYSGGRLLIVQEGGYHV 329 (386)
Q Consensus 302 ~~~~~l~~~a~~~~~g~vv~vleGGY~~ 329 (386)
.+......+.-+-|. --+++|-|-+.
T Consensus 172 yLi~~~Lg~~pss~h--gwIiGEHGdSs 197 (332)
T KOG1495|consen 172 YLIGNRLGVHPSSCH--GWIIGEHGDSS 197 (332)
T ss_pred HHHHHHhCCCcccce--EEEeeccCCcc
Confidence 875555556555454 35677877663
No 105
>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=23.51 E-value=2.5e+02 Score=29.78 Aligned_cols=71 Identities=13% Similarity=0.215 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCCcH---HH
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVTYS---AY 334 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~~~---~~ 334 (386)
.+++.|..+.++|+|++|+|..+. ....+|.+.. .+.++..+ +.|++.+--.||..... ..
T Consensus 72 ~L~~aI~~~~~~~~P~~I~V~sTC~selIGdDi~~-------------~~~~~~~~--~~pvi~v~t~gf~g~~~~g~~~ 136 (511)
T TIGR01278 72 RLVDTVRRVDDRFKPDLIVVTPSCTSSLLQEDLGN-------------LAAAAGLD--KSKVIVADVNAYRRKENQAADR 136 (511)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCChHHHhccCHHH-------------HHHHhccC--CCcEEEecCCCcccchhHHHHH
Confidence 455556677789999988887765 5555554332 23333222 46899888888887532 22
Q ss_pred HHHHHHHHHh
Q 048339 335 CLHATLEGVL 344 (386)
Q Consensus 335 ~~~~~~~~l~ 344 (386)
.+.++++.++
T Consensus 137 al~~lv~~~~ 146 (511)
T TIGR01278 137 TLTQLVRRFA 146 (511)
T ss_pred HHHHHHHHHH
Confidence 3445555444
No 106
>cd01827 sialate_O-acetylesterase_like1 sialate O-acetylesterase_like family of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=23.40 E-value=3.6e+02 Score=23.37 Aligned_cols=17 Identities=29% Similarity=0.849 Sum_probs=14.1
Q ss_pred hcCCCEEEEeecC-CCCC
Q 048339 270 KFEPNMIVLVVGQ-DSSA 286 (386)
Q Consensus 270 ~f~PdlIvvsaG~-D~~~ 286 (386)
.++||+|+|+.|. |+..
T Consensus 65 ~~~pd~Vii~~G~ND~~~ 82 (188)
T cd01827 65 AFNPNIVIIKLGTNDAKP 82 (188)
T ss_pred ccCCCEEEEEcccCCCCC
Confidence 5799999999998 5543
No 107
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=23.35 E-value=93 Score=29.72 Aligned_cols=18 Identities=28% Similarity=0.287 Sum_probs=14.0
Q ss_pred CeEEEEEecccCCCCceeC
Q 048339 183 GKVVVIDIDVHYGNGTAEG 201 (386)
Q Consensus 183 ~RV~IvD~DvHHGnGtq~i 201 (386)
+||++||+|.. ||=|+..
T Consensus 30 ~rVLliD~Dpq-~n~t~~l 47 (279)
T PRK13230 30 KKVLVVGCDPK-ADCTRNL 47 (279)
T ss_pred CEEEEEeeCCc-ccccccc
Confidence 59999999994 6666644
No 108
>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=23.03 E-value=93 Score=28.84 Aligned_cols=15 Identities=47% Similarity=0.521 Sum_probs=12.8
Q ss_pred CeEEEEEecccCCCC
Q 048339 183 GKVVVIDIDVHYGNG 197 (386)
Q Consensus 183 ~RV~IvD~DvHHGnG 197 (386)
.||++||.|...||-
T Consensus 31 ~~vlliD~D~~~~~~ 45 (261)
T TIGR01968 31 KKVVLIDADIGLRNL 45 (261)
T ss_pred CeEEEEECCCCCCCe
Confidence 699999999987763
No 109
>TIGR01860 VNFD nitrogenase vanadium-iron protein, alpha chain. This model represents the alpha chain of the vanadium-containing component of the vanadium-iron nitrogenase compound I. The complex also includes a second alpha chain, two beta chains and two delta chains. Compount I interacts with compound II also known as the iron-protein which transfers electrons to compound I where the catalysis occurs.
Probab=23.03 E-value=4.7e+02 Score=27.29 Aligned_cols=58 Identities=10% Similarity=0.163 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhc-CCCEE-EEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCCC
Q 048339 260 MTELVVPAIQKF-EPNMI-VLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHVT 330 (386)
Q Consensus 260 ~~~~l~p~~~~f-~PdlI-vvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~~ 330 (386)
+.+.|..+.++| +|++| |++++.....+|.+ ...++++.+++.+.|++.|--.||...
T Consensus 114 L~~aI~~~~~~~~~p~~I~V~tTC~~elIGDDi-------------~~v~~~~~~~~~~~~vi~v~tpgf~g~ 173 (461)
T TIGR01860 114 LEKSIHEAFDEFPDIKRMIVYTTCPTALIGDDI-------------KAVAKKVQKELPDVDIFTVECPGFAGV 173 (461)
T ss_pred HHHHHHHHHHhCCCCCEEEEEccCchhhhcCCH-------------HHHHHHHHHhcCCCcEEEEeCCCcCCc
Confidence 344455667778 58854 44555566666643 233444444443568999999999863
No 110
>COG0126 Pgk 3-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=22.71 E-value=4.5e+02 Score=27.10 Aligned_cols=118 Identities=14% Similarity=0.232 Sum_probs=60.9
Q ss_pred eeeecCCCCC--CChHHHHHHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCC-CCcCCHHHHHHHHHHHHHHHhhcCCC
Q 048339 241 YNLNIPLPNG--TGDRGYVHAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNG-RQCLTMDGYREMGRIVRSLADRYSGG 317 (386)
Q Consensus 241 ~~~NvpL~~g--~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg-~~~lt~~gy~~~~~~l~~~a~~~~~g 317 (386)
..+|+|+..| ++|....+++-.+ ..+.+-.+-+|+. +|.+-|-+ .=..|.+-. .+.|.++ -+.
T Consensus 21 vD~NvP~~dG~I~dd~RI~a~lpTI--k~l~~~ga~Vvl~-----SHlGRPk~~~~~~SL~pv---a~~Ls~l----l~~ 86 (395)
T COG0126 21 VDFNVPVDDGKITDDTRIRAALPTI--KYLLEKGAKVVLL-----SHLGRPKEYSDKTSLEPV---AKRLSEL----LGK 86 (395)
T ss_pred eccCCcccCCeeCCcHHHHHhhHHH--HHHHhCCCeEEEE-----ecCCCCCCCCCcccHHHH---HHHHHHh----cCC
Confidence 4689999877 5677666666543 5666777775555 37777765 112232222 2223332 234
Q ss_pred cEEEEeCCCCCCCcHHHHHHHHHHHHhCCCcCCCCCCCCCCCCCcchHHHHHHHHHHHhhhh
Q 048339 318 RLLIVQEGGYHVTYSAYCLHATLEGVLNLPLALLSDPIAYYPEDEAFPVKVIESIKQYQNDV 379 (386)
Q Consensus 318 ~vv~vleGGY~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 379 (386)
+|.++- -.+. ..+...++.|...+.-.| +-..++++++..-.+....+.+.|-.+
T Consensus 87 ~V~f~~-d~~g-----~~a~~~v~~l~~GevlLL-EN~RF~~~E~~~d~~~~~~l~k~la~l 141 (395)
T COG0126 87 EVKFVD-DCVG-----PEARQAVAELKDGEVLLL-ENVRFYSEEEKNDEEARTELVKKLASL 141 (395)
T ss_pred ceEecc-cccC-----HHHHHHHhccCCCcEEEE-eeccccccccCcchhhHHHHHHHHHhh
Confidence 554443 2222 223444555544333222 333455555544455556666666554
No 111
>cd08165 MPP_MPPE1 human MPPE1 and related proteins, metallophosphatase domain. MPPE1 is a functionally uncharacterized metallophosphatase domain-containing protein. The MPPE1 gene is located on chromosome 18 and is a candidate susceptibility gene for Bipolar disorder. MPPE1 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
Probab=22.51 E-value=4.7e+02 Score=22.74 Aligned_cols=17 Identities=6% Similarity=0.346 Sum_probs=12.4
Q ss_pred HHHHHHHhcCCCEEEEe
Q 048339 263 LVVPAIQKFEPNMIVLV 279 (386)
Q Consensus 263 ~l~p~~~~f~PdlIvvs 279 (386)
.+..++++++||+|++.
T Consensus 29 ~~~~~i~~~~pd~vv~~ 45 (156)
T cd08165 29 SFQTSLWLLQPDVVFVL 45 (156)
T ss_pred HHHHHHHhcCCCEEEEC
Confidence 34456788999988764
No 112
>KOG4184 consensus Predicted sugar kinase [Carbohydrate transport and metabolism; General function prediction only]
Probab=22.42 E-value=75 Score=32.33 Aligned_cols=24 Identities=21% Similarity=0.495 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHhcCCCEEEEee
Q 048339 256 YVHAMTELVVPAIQKFEPNMIVLVV 280 (386)
Q Consensus 256 y~~~~~~~l~p~~~~f~PdlIvvsa 280 (386)
-+.+++. +..+++.||||++||+-
T Consensus 223 ~m~~~E~-f~~Al~~fqPdLvVvsG 246 (478)
T KOG4184|consen 223 HMRAVEQ-FTDALKMFQPDLVVVSG 246 (478)
T ss_pred HHHHHHH-HHHHHHHhCCCEEEEec
Confidence 3555554 46899999999999873
No 113
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=22.20 E-value=2.9e+02 Score=26.28 Aligned_cols=53 Identities=17% Similarity=0.142 Sum_probs=31.6
Q ss_pred HHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcC-CHHHHHHHHHHHHHHHhhcCCCcEEEEeC
Q 048339 262 ELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCL-TMDGYREMGRIVRSLADRYSGGRLLIVQE 324 (386)
Q Consensus 262 ~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~l-t~~gy~~~~~~l~~~a~~~~~g~vv~vle 324 (386)
..+...+++++|++||| |++..+.. ....+.++...+..++++. +..++++-+
T Consensus 121 ~~l~~~i~~~~~~~vVI---------DSls~l~~~~~~~~r~~~~~L~~~lk~~-~~t~ll~~e 174 (259)
T TIGR03878 121 ATLAYAIKEYKVKNTVI---------DSITGLYEAKEMMAREIVRQLFNFMKKW-YQTALFVSQ 174 (259)
T ss_pred HHHHHHHHhhCCCEEEE---------cCchHhcccchHHHHHHHHHHHHHHHHc-CCeEEEEec
Confidence 34456778899999887 55544322 2344455555566676665 445555543
No 114
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=21.88 E-value=2.1e+02 Score=26.94 Aligned_cols=50 Identities=16% Similarity=0.111 Sum_probs=30.4
Q ss_pred HHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCC-------HHHHHHHHHHHHHHHhhcCCCcEEEEe
Q 048339 264 VVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLT-------MDGYREMGRIVRSLADRYSGGRLLIVQ 323 (386)
Q Consensus 264 l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt-------~~gy~~~~~~l~~~a~~~~~g~vv~vl 323 (386)
+...+.+++|++||| |++..+.-. ...+.++...|+.+|+++ +.+++++-
T Consensus 132 i~~~~~~~~~~~vvI---------D~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~~~-~vtvll~s 188 (271)
T cd01122 132 VRYMAVSHGIQHIII---------DNLSIMVSDERASGDERKALDEIMTKLRGFATEH-GIHITLVS 188 (271)
T ss_pred HHHHHhcCCceEEEE---------CCHHHHhccCCCchhHHHHHHHHHHHHHHHHHHh-CCEEEEEe
Confidence 344566789999887 444333211 123456677788888887 45655554
No 115
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=21.55 E-value=1e+02 Score=28.84 Aligned_cols=16 Identities=25% Similarity=0.378 Sum_probs=12.8
Q ss_pred CeEEEEEecccCCCCce
Q 048339 183 GKVVVIDIDVHYGNGTA 199 (386)
Q Consensus 183 ~RV~IvD~DvHHGnGtq 199 (386)
+||++||+|. +||-+.
T Consensus 30 ~kVlliD~Dp-q~n~~~ 45 (270)
T cd02040 30 KKVMIVGCDP-KADSTR 45 (270)
T ss_pred CeEEEEEcCC-CCCchh
Confidence 6999999998 466554
No 116
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=21.51 E-value=3e+02 Score=28.18 Aligned_cols=50 Identities=14% Similarity=0.127 Sum_probs=32.3
Q ss_pred HHHHHHhcCCCEEEEeecCCCCCCCCCCCCcC------CHHHHHHHHHHHHHHHhhcCCCcEEEEe
Q 048339 264 VVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCL------TMDGYREMGRIVRSLADRYSGGRLLIVQ 323 (386)
Q Consensus 264 l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~l------t~~gy~~~~~~l~~~a~~~~~g~vv~vl 323 (386)
+....+++++++||| |.+..+.. ......++.+.|+.+|+++ +.||+++-
T Consensus 297 i~~~~~~~~~~~vvI---------D~l~~i~~~~~~~~r~~~i~~i~~~Lk~lA~e~-~i~vi~ls 352 (434)
T TIGR00665 297 ARRLKREHGLGLIVI---------DYLQLMSGSGRSENRQQEVSEISRSLKALAKEL-NVPVIALS 352 (434)
T ss_pred HHHHHHhcCCCEEEE---------cchHhcCCCCCCCCHHHHHHHHHHHHHHHHHHh-CCeEEEEe
Confidence 334556788998887 33332221 1233567888899999988 57876665
No 117
>KOG2018 consensus Predicted dinucleotide-utilizing enzyme involved in molybdopterin and thiamine biosynthesis [Posttranslational modification, protein turnover, chaperones]
Probab=21.34 E-value=69 Score=32.16 Aligned_cols=19 Identities=32% Similarity=0.595 Sum_probs=15.4
Q ss_pred HHHHHhcCCCeEEEEEecc
Q 048339 174 VQLALNSGCGKVVVIDIDV 192 (386)
Q Consensus 174 a~~~~~~g~~RV~IvD~Dv 192 (386)
+..+.+.|.+||.|||||-
T Consensus 90 ~nmL~RSG~qKi~iVDfdq 108 (430)
T KOG2018|consen 90 ANMLLRSGVQKIRIVDFDQ 108 (430)
T ss_pred HHHHHHhcCceEEEechhh
Confidence 4456677999999999984
No 118
>cd01826 acyloxyacyl_hydrolase_like Acyloxyacyl-hydrolase like subfamily of the SGNH-hydrolase family. Acyloxyacyl-hydrolase is a leukocyte-secreted enzyme that deacetylates bacterial lipopolysaccharides.
Probab=21.21 E-value=3.2e+02 Score=27.16 Aligned_cols=44 Identities=11% Similarity=0.133 Sum_probs=28.5
Q ss_pred hcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHH-HHHHHHHHHhh
Q 048339 270 KFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYRE-MGRIVRSLADR 313 (386)
Q Consensus 270 ~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~-~~~~l~~~a~~ 313 (386)
.-+|.+|+|..|. |+..+.....-.++.+.|++ +.+.|..+-..
T Consensus 120 ~~~P~lVtI~lGgND~C~g~~d~~~~tp~eefr~NL~~~L~~Lr~~ 165 (305)
T cd01826 120 TDKPALVIYSMIGNDVCNGPNDTINHTTPEEFYENVMEALKYLDTK 165 (305)
T ss_pred cCCCeEEEEEeccchhhcCCCccccCcCHHHHHHHHHHHHHHHHhc
Confidence 3469999998776 88876332232478887765 55555555443
No 119
>KOG1610 consensus Corticosteroid 11-beta-dehydrogenase and related short chain-type dehydrogenases [Secondary metabolites biosynthesis, transport and catabolism; General function prediction only]
Probab=21.16 E-value=7.6e+02 Score=24.78 Aligned_cols=130 Identities=15% Similarity=0.146 Sum_probs=0.0
Q ss_pred CCChHHHHHHHHHHHHHHHHhcCCCEEEEeec-CCCCCCCCC-------CCCcCCHHHHHHHHHHHHHHHhhcCCCcEEE
Q 048339 250 GTGDRGYVHAMTELVVPAIQKFEPNMIVLVVG-QDSSAFDPN-------GRQCLTMDGYREMGRIVRSLADRYSGGRLLI 321 (386)
Q Consensus 250 g~~d~~y~~~~~~~l~p~~~~f~PdlIvvsaG-~D~~~~Dpl-------g~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~ 321 (386)
..++++=+...-+.|-..+.+-.==-+|-.|| +=.+..|.. ..+++..=|--++|+.+.-+.++- .||||.
T Consensus 84 DVT~~esi~~a~~~V~~~l~~~gLwglVNNAGi~~~~g~~ewl~~~d~~~~l~vNllG~irvT~~~lpLlr~a-rGRvVn 162 (322)
T KOG1610|consen 84 DVTKPESVKEAAQWVKKHLGEDGLWGLVNNAGISGFLGPDEWLTVEDYRKVLNVNLLGTIRVTKAFLPLLRRA-RGRVVN 162 (322)
T ss_pred ccCCHHHHHHHHHHHHHhcccccceeEEeccccccccCccccccHHHHHHHHhhhhhhHHHHHHHHHHHHHhc-cCeEEE
Q ss_pred E----------eCCCCCCCcHHHHHHHHHHHH------hCCCcCCCCCCCCCCCCCcchHHHHHHHHHHHhhhhhcccC
Q 048339 322 V----------QEGGYHVTYSAYCLHATLEGV------LNLPLALLSDPIAYYPEDEAFPVKVIESIKQYQNDVIPFLK 384 (386)
Q Consensus 322 v----------leGGY~~~~~~~~~~~~~~~l------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 384 (386)
| ..|+|. .+-.++.++.+.| .|.....+.+- .+.+......++.+++++.|+.+++..+
T Consensus 163 vsS~~GR~~~p~~g~Y~--~SK~aVeaf~D~lR~EL~~fGV~VsiiePG--~f~T~l~~~~~~~~~~~~~w~~l~~e~k 237 (322)
T KOG1610|consen 163 VSSVLGRVALPALGPYC--VSKFAVEAFSDSLRRELRPFGVKVSIIEPG--FFKTNLANPEKLEKRMKEIWERLPQETK 237 (322)
T ss_pred ecccccCccCcccccch--hhHHHHHHHHHHHHHHHHhcCcEEEEeccC--ccccccCChHHHHHHHHHHHhcCCHHHH
No 120
>COG1692 Calcineurin-like phosphoesterase [General function prediction only]
Probab=21.08 E-value=2.1e+02 Score=27.76 Aligned_cols=57 Identities=14% Similarity=0.245 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHhcCCCEEEEeecCCCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhcCCCcEEEEeCCCCCC
Q 048339 258 HAMTELVVPAIQKFEPNMIVLVVGQDSSAFDPNGRQCLTMDGYREMGRIVRSLADRYSGGRLLIVQEGGYHV 329 (386)
Q Consensus 258 ~~~~~~l~p~~~~f~PdlIvvsaG~D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~~~g~vv~vleGGY~~ 329 (386)
.++++.|..+-.+|++|++++.+ ...-+++.+|.+-|..+ .+. +.-++.++.--|..
T Consensus 16 ~~v~~~Lp~lk~kyk~dfvI~N~------ENaa~G~Git~k~y~~l----~~~-----G~dviT~GNH~wd~ 72 (266)
T COG1692 16 KAVKEHLPQLKSKYKIDFVIVNG------ENAAGGFGITEKIYKEL----LEA-----GADVITLGNHTWDQ 72 (266)
T ss_pred HHHHHHhHHHHHhhcCcEEEEcC------ccccCCcCCCHHHHHHH----HHh-----CCCEEecccccccc
Confidence 45666666666789999999987 45566778888888654 332 34455555555543
No 121
>COG4012 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.71 E-value=68 Score=31.41 Aligned_cols=29 Identities=28% Similarity=0.495 Sum_probs=21.4
Q ss_pred EEEEeCCCCCCCcHHHHH-HHHHHHHhCCC
Q 048339 319 LLIVQEGGYHVTYSAYCL-HATLEGVLNLP 347 (386)
Q Consensus 319 vv~vleGGY~~~~~~~~~-~~~~~~l~~~~ 347 (386)
+++|.--||.++.+-+.. ...++.+++.+
T Consensus 144 vvaVQDHG~~pd~snRvfRFelfrelL~~n 173 (342)
T COG4012 144 VVAVQDHGYHPDYSNRVFRFELFRELLGAN 173 (342)
T ss_pred EEEEeccCCCCcccchhhHHHHHHHHHcCC
Confidence 688999999998755543 35777887754
No 122
>PF13941 MutL: MutL protein
Probab=20.56 E-value=6e+02 Score=26.79 Aligned_cols=23 Identities=26% Similarity=0.547 Sum_probs=18.7
Q ss_pred HHHHhcCCCEEEEeecCCCCCCC
Q 048339 266 PAIQKFEPNMIVLVVGQDSSAFD 288 (386)
Q Consensus 266 p~~~~f~PdlIvvsaG~D~~~~D 288 (386)
..+++-+||+|+++-|.|.-..+
T Consensus 118 ~~i~~~~PDiILLaGGtDgG~~~ 140 (457)
T PF13941_consen 118 EEIREIRPDIILLAGGTDGGNKE 140 (457)
T ss_pred HHHhccCCCEEEEeCCccCCchH
Confidence 55778899999999999975443
No 123
>COG4671 Predicted glycosyl transferase [General function prediction only]
Probab=20.47 E-value=1.5e+02 Score=30.39 Aligned_cols=30 Identities=10% Similarity=0.275 Sum_probs=24.9
Q ss_pred CChHHHHHHHHHHHHHHHHhcCCCEEEEee
Q 048339 251 TGDRGYVHAMTELVVPAIQKFEPNMIVLVV 280 (386)
Q Consensus 251 ~~d~~y~~~~~~~l~p~~~~f~PdlIvvsa 280 (386)
.++++++..=+++|+..++.||||++||-.
T Consensus 85 ~~l~e~~~~Rs~lil~t~~~fkPDi~IVd~ 114 (400)
T COG4671 85 GDLEETKKLRSQLILSTAETFKPDIFIVDK 114 (400)
T ss_pred CCHHHHHHHHHHHHHHHHHhcCCCEEEEec
Confidence 346777777778889999999999999865
No 124
>TIGR01286 nifK nitrogenase molybdenum-iron protein beta chain. This model represents the majority of known sequences of the nitrogenase molybdenum-iron protein beta subunit. A distinct clade in a phylogenetic tree contains molybdenum-iron, vanadium-iron, and iron-iron forms of nitrogenase beta subunit and is excluded from this model. Nitrogenase, also called dinitrogenase, is responsible for nitrogen fixation. Note: the trusted cutoff score has recently been lowered to include an additional family in which the beta subunit is shorter by about 50 amino acids at the N-terminus. In species with the shorter form of the beta subunit, the alpha subunit has a novel insert of similar length.
Probab=20.44 E-value=5.7e+02 Score=27.26 Aligned_cols=73 Identities=10% Similarity=0.035 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHhcCCCEEEEeecC-CCCCCCCCCCCcCCHHHHHHHHHHHHHHHhhc---CCCcEEEEeCCCCCCCcH--
Q 048339 259 AMTELVVPAIQKFEPNMIVLVVGQ-DSSAFDPNGRQCLTMDGYREMGRIVRSLADRY---SGGRLLIVQEGGYHVTYS-- 332 (386)
Q Consensus 259 ~~~~~l~p~~~~f~PdlIvvsaG~-D~~~~Dplg~~~lt~~gy~~~~~~l~~~a~~~---~~g~vv~vleGGY~~~~~-- 332 (386)
.+.+.|..+.+.|+|++|+|.+.. =...+|.+ ...+.++-++. .+.||+.+--.||..+..
T Consensus 129 ~L~e~I~~~~~~y~P~~I~V~tTC~~evIGDDi-------------~a~i~~~~~~~~~p~~~pVi~v~TpgF~Gs~~~G 195 (515)
T TIGR01286 129 NMVDGLQNCYALYKPKMIAVSTTCMAEVIGDDL-------------NAFIGNAKKEGFIPDDFPVPFAHTPSFVGSHITG 195 (515)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCcHHHHhhccH-------------HHHHHHHHHhcCCCCCCceEEeeCCCCcccHHHH
Confidence 344556667888999999988763 22233322 22233322221 134799999999986532
Q ss_pred -HHHHHHHHHHHh
Q 048339 333 -AYCLHATLEGVL 344 (386)
Q Consensus 333 -~~~~~~~~~~l~ 344 (386)
..++.++++.+.
T Consensus 196 yd~a~~ail~~l~ 208 (515)
T TIGR01286 196 YDNMFKGILEYFT 208 (515)
T ss_pred HHHHHHHHHHHHh
Confidence 123345555444
Done!