Query gi|254780554|ref|YP_003064967.1| Holliday junction resolvase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 169
No_of_seqs 124 out of 1248
Neff 6.5
Searched_HMMs 39220
Date Sun May 29 22:29:07 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780554.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00039 ruvC Holliday junctio 100.0 0 0 396.0 20.1 161 4-164 1-162 (169)
2 COG0817 RuvC Holliday junction 100.0 0 0 374.5 15.8 151 8-158 1-151 (160)
3 cd00529 RuvC_resolvase Hollida 100.0 0 0 369.0 19.6 153 6-158 1-154 (154)
4 pfam02075 RuvC Crossover junct 100.0 0 0 366.8 18.0 147 7-154 1-148 (148)
5 TIGR00228 ruvC crossover junct 100.0 0 0 323.2 6.0 154 7-161 1-156 (158)
6 pfam03652 UPF0081 Uncharacteri 98.2 5.5E-05 1.4E-09 51.7 12.3 101 5-115 1-105 (134)
7 pfam04848 Pox_A22 Poxvirus A22 98.1 5.2E-05 1.3E-09 51.9 9.6 130 5-155 1-140 (143)
8 PRK00109 Holliday junction res 97.8 0.00035 9E-09 46.7 10.3 94 3-106 2-95 (141)
9 smart00732 YqgFc Likely ribonu 97.8 0.00022 5.7E-09 47.9 9.0 89 6-106 2-90 (99)
10 COG0816 Predicted endonuclease 97.6 0.0014 3.6E-08 43.0 10.1 128 4-153 1-129 (141)
11 pfam07066 Phage_Lacto_M3 Lacto 97.5 8.4E-05 2.2E-09 50.5 3.3 142 6-150 3-156 (162)
12 pfam04312 DUF460 Protein of un 97.4 0.00021 5.5E-09 48.0 4.3 108 4-151 31-138 (138)
13 COG2433 Uncharacterized conser 97.3 0.0012 3.1E-08 43.4 6.9 113 5-159 244-358 (652)
14 pfam09159 Ydc2-catalyt Mitocho 96.7 0.061 1.6E-06 32.9 14.2 112 7-118 1-147 (253)
15 pfam11215 DUF3010 Protein of u 96.6 0.029 7.3E-07 34.9 9.3 109 5-119 1-113 (138)
16 TIGR01865 cas_Csn1 CRISPR-asso 96.2 0.0032 8.1E-08 40.8 2.6 30 6-35 2-34 (1140)
17 COG1214 Inactive homolog of me 96.2 0.021 5.4E-07 35.7 6.8 98 5-111 1-100 (220)
18 COG2410 Predicted nuclease (RN 95.3 0.16 4.2E-06 30.3 8.1 62 89-158 88-150 (178)
19 COG2183 Tex Transcriptional ac 95.2 0.079 2E-06 32.2 6.5 58 6-70 331-390 (780)
20 pfam03237 Terminase_6 Terminas 94.7 0.4 1E-05 27.9 14.9 65 5-76 224-293 (380)
21 PRK05082 N-acetylmannosamine k 93.9 0.39 9.8E-06 28.0 7.4 52 5-63 1-52 (291)
22 COG1940 NagC Transcriptional r 93.4 0.74 1.9E-05 26.2 8.7 66 2-70 3-70 (314)
23 COG3513 Predicted CRISPR-assoc 93.4 0.076 1.9E-06 32.3 3.0 31 6-36 5-37 (1088)
24 PRK09698 D-allose kinase; Prov 92.3 0.95 2.4E-05 25.6 7.5 64 3-70 2-67 (302)
25 PRK09604 putative DNA-binding/ 91.6 1.3 3.2E-05 24.8 8.3 94 5-107 1-110 (335)
26 PTZ00340 O-sialoglycoprotein e 91.1 1.4 3.6E-05 24.5 9.2 94 3-107 6-115 (348)
27 COG1548 Predicted transcriptio 90.3 0.61 1.6E-05 26.7 4.8 59 4-71 2-60 (330)
28 TIGR00250 TIGR00250 conserved 90.3 0.27 6.9E-06 28.9 3.0 90 8-106 1-92 (133)
29 pfam07318 DUF1464 Protein of u 90.2 0.37 9.3E-06 28.1 3.6 108 9-128 1-133 (336)
30 COG1703 ArgK Putative periplas 89.1 0.53 1.3E-05 27.1 3.7 74 5-78 82-157 (323)
31 TIGR00750 lao LAO/AO transport 87.0 0.51 1.3E-05 27.2 2.5 73 6-78 70-150 (333)
32 pfam03308 ArgK ArgK protein. T 86.9 0.49 1.2E-05 27.3 2.4 78 3-80 58-137 (267)
33 TIGR02350 prok_dnaK chaperone 82.7 1.3 3.3E-05 24.8 3.0 47 107-153 322-370 (598)
34 pfam01869 BcrAD_BadFG BadF/Bad 82.7 3.9 0.0001 21.7 5.5 58 8-66 1-58 (288)
35 TIGR02991 ectoine_eutB ectoine 82.1 1.8 4.7E-05 23.8 3.6 73 82-159 197-271 (318)
36 PRK03011 butyrate kinase; Prov 81.6 1.5 3.8E-05 24.3 3.0 56 4-59 2-62 (356)
37 PRK09605 O-sialoglycoprotein e 81.0 5 0.00013 21.1 7.5 96 4-107 1-108 (536)
38 cd03114 ArgK-like The function 79.8 2.7 7E-05 22.7 3.9 72 3-77 28-104 (148)
39 PRK09557 fructokinase; Reviewe 78.9 5.9 0.00015 20.7 7.6 54 5-63 1-54 (301)
40 PRK09435 arginine/ornithine tr 78.8 1.5 3.9E-05 24.3 2.3 77 3-79 78-156 (325)
41 PRK13310 N-acetyl-D-glucosamin 75.7 7.3 0.00019 20.1 7.7 54 7-64 2-55 (302)
42 PRK00025 lpxB lipid-A-disaccha 74.0 8 0.00021 19.8 5.6 72 47-133 68-140 (382)
43 COG1924 Activator of 2-hydroxy 73.5 8.2 0.00021 19.8 6.7 39 3-45 133-171 (396)
44 PRK10331 L-fuculokinase; Provi 72.8 8.6 0.00022 19.7 6.9 62 6-67 3-71 (470)
45 pfam00370 FGGY_N FGGY family o 69.8 10 0.00026 19.2 7.4 55 7-64 2-64 (245)
46 TIGR02390 RNA_pol_rpoA1 DNA-di 68.5 5 0.00013 21.1 2.8 65 5-73 199-272 (901)
47 PRK00180 acetate kinase; Revie 67.6 8.3 0.00021 19.7 3.8 23 5-27 1-23 (399)
48 COG3426 Butyrate kinase [Energ 67.5 4.8 0.00012 21.2 2.6 22 5-26 3-24 (358)
49 TIGR03446 mycothiol_Mca mycoth 66.9 3.5 8.9E-05 22.1 1.8 84 2-102 67-156 (283)
50 pfam04250 DUF429 Protein of un 66.2 3.8 9.7E-05 21.8 1.9 59 98-156 109-182 (202)
51 PRK10854 exopolyphosphatase; P 63.3 13 0.00034 18.4 8.1 65 3-67 9-83 (513)
52 PRK00047 glpK glycerol kinase; 62.4 14 0.00036 18.3 6.4 59 6-64 6-69 (498)
53 COG0381 WecB UDP-N-acetylgluco 60.8 15 0.00038 18.2 6.7 67 40-118 68-144 (383)
54 COG0533 QRI7 Metal-dependent p 60.2 15 0.00039 18.1 6.9 22 5-26 1-22 (342)
55 PTZ00186 heat shock 70 kDa pre 58.0 7.7 0.0002 19.9 2.2 25 6-30 213-237 (657)
56 pfam00480 ROK ROK family. 57.6 17 0.00043 17.8 6.1 52 9-64 1-52 (181)
57 COG1070 XylB Sugar (pentulose 57.0 17 0.00044 17.8 7.8 64 4-69 3-76 (502)
58 TIGR00340 zpr1_rel zinc finger 55.9 2.7 6.9E-05 22.8 -0.4 63 8-74 82-153 (168)
59 TIGR03192 benz_CoA_bzdQ benzoy 54.1 19 0.00049 17.5 6.9 82 3-94 30-121 (293)
60 cd01981 Pchlide_reductase_B Pc 54.1 19 0.00049 17.5 4.6 77 50-131 71-148 (430)
61 pfam01963 TraB TraB family. pA 53.1 11 0.00029 18.9 2.4 20 53-72 19-38 (225)
62 PTZ00317 malic enzyme; Provisi 52.9 15 0.00039 18.1 3.1 122 6-128 156-315 (570)
63 TIGR02707 butyr_kinase butyrat 52.8 20 0.00051 17.4 3.6 116 6-129 1-154 (353)
64 TIGR02855 spore_yabG sporulati 52.2 11 0.00028 19.0 2.2 17 56-72 154-170 (292)
65 pfam01548 Transposase_9 Transp 51.9 17 0.00042 17.9 3.1 27 97-123 2-28 (96)
66 pfam02684 LpxB Lipid-A-disacch 51.3 21 0.00055 17.2 4.3 70 47-133 65-137 (373)
67 PRK13311 N-acetyl-D-glucosamin 51.2 21 0.00055 17.2 6.5 43 7-53 2-44 (256)
68 PTZ00294 glycerol kinase; Prov 48.6 24 0.0006 16.9 5.6 24 6-29 3-26 (510)
69 PRK09585 anmK anhydro-N-acetyl 48.3 24 0.00061 16.9 7.0 70 3-72 2-98 (366)
70 PRK10939 autoinducer-2 (AI-2) 47.2 25 0.00063 16.8 7.5 59 6-64 4-69 (521)
71 pfam03702 UPF0075 Uncharacteri 45.9 26 0.00066 16.7 3.7 35 5-39 1-37 (363)
72 PRK13529 malate dehydrogenase; 45.1 26 0.00067 16.7 3.3 77 46-123 220-308 (563)
73 PRK00976 hypothetical protein; 44.9 27 0.00069 16.6 3.8 20 5-24 1-20 (324)
74 COG0248 GppA Exopolyphosphatas 44.8 27 0.00069 16.6 4.9 22 4-25 2-23 (492)
75 COG0145 HyuA N-methylhydantoin 44.7 27 0.00069 16.6 5.5 60 4-71 1-64 (674)
76 PRK08620 DNA topoisomerase III 44.3 28 0.0007 16.5 3.5 17 101-117 130-146 (726)
77 PRK07058 acetate kinase; Provi 44.0 28 0.00071 16.5 6.4 37 1-38 1-37 (393)
78 TIGR01016 sucCoAbeta succinyl- 43.7 22 0.00055 17.2 2.7 40 118-157 290-337 (389)
79 pfam00479 G6PD_N Glucose-6-pho 41.7 30 0.00077 16.3 5.0 19 138-156 144-164 (183)
80 PRK13318 pantothenate kinase; 40.7 31 0.0008 16.2 6.1 34 7-44 2-35 (258)
81 PRK13321 pantothenate kinase; 40.0 32 0.00082 16.1 4.8 34 7-44 2-35 (256)
82 TIGR01283 nifE nitrogenase MoF 39.7 30 0.00077 16.3 2.9 87 50-146 112-201 (470)
83 PRK11678 putative chaperone; P 38.8 21 0.00055 17.2 2.0 24 7-32 2-25 (450)
84 PRK13319 consensus 38.6 34 0.00086 16.0 4.9 35 7-45 2-36 (258)
85 COG1521 Pantothenate kinase ty 38.6 34 0.00086 16.0 4.4 35 6-44 1-35 (251)
86 pfam03228 Adeno_VII Adenoviral 37.1 13 0.00034 18.5 0.7 15 5-21 1-15 (117)
87 TIGR01007 eps_fam capsular exo 36.8 32 0.00082 16.1 2.7 81 27-133 97-178 (207)
88 pfam00871 Acetate_kinase Aceto 36.5 36 0.00093 15.8 6.1 52 6-59 1-73 (387)
89 COG2403 Predicted GTPase [Gene 36.5 36 0.00093 15.8 6.1 75 53-136 71-153 (449)
90 TIGR01312 XylB xylulokinase; I 36.0 37 0.00095 15.7 6.7 63 8-72 1-71 (494)
91 TIGR03568 NeuC_NnaA UDP-N-acet 35.4 38 0.00097 15.7 8.2 75 40-132 69-143 (365)
92 PRK13928 rod shape-determining 35.1 38 0.00098 15.6 3.4 13 6-18 4-16 (325)
93 TIGR00649 MG423 conserved hypo 35.0 24 0.00062 16.9 1.8 97 36-142 321-418 (593)
94 COG2120 Uncharacterized protei 34.2 8.4 0.00022 19.7 -0.7 52 49-103 94-145 (237)
95 TIGR00963 secA preprotein tran 30.9 22 0.00056 17.1 1.0 67 18-85 628-708 (904)
96 PRK11031 guanosine pentaphosph 30.7 45 0.0012 15.2 6.6 33 7-39 134-167 (494)
97 PRK13330 consensus 30.3 46 0.0012 15.2 5.7 60 7-72 2-61 (257)
98 COG4972 PilM Tfp pilus assembl 30.0 47 0.0012 15.1 6.0 64 2-65 6-73 (354)
99 COG1916 Uncharacterized homolo 29.2 47 0.0012 15.1 2.5 18 54-71 28-45 (388)
100 pfam06723 MreB_Mbl MreB/Mbl pr 28.8 34 0.00087 16.0 1.7 14 6-19 2-15 (327)
101 PRK13930 rod shape-determining 28.2 36 0.00093 15.8 1.8 16 6-21 10-25 (336)
102 TIGR02354 thiF_fam2 thiamine b 28.0 50 0.0013 14.9 3.6 40 27-66 46-89 (200)
103 PRK13324 pantothenate kinase; 28.0 51 0.0013 14.9 5.5 34 7-44 2-35 (258)
104 TIGR00744 ROK_glcA_fam ROK fam 28.0 51 0.0013 14.9 4.5 45 8-55 1-46 (326)
105 COG2971 Predicted N-acetylgluc 27.7 51 0.0013 14.9 6.4 68 1-69 1-70 (301)
106 KOG2517 consensus 27.6 51 0.0013 14.9 6.7 60 6-65 7-72 (516)
107 COG0554 GlpK Glycerol kinase [ 27.4 52 0.0013 14.8 3.6 27 1-27 1-27 (499)
108 cd00938 HisRS_RNA HisRS_RNA bi 26.6 21 0.00054 17.2 0.3 23 119-141 20-42 (45)
109 COG1779 C4-type Zn-finger prot 26.0 9 0.00023 19.5 -1.7 64 8-75 96-164 (201)
110 pfam00349 Hexokinase_1 Hexokin 25.9 55 0.0014 14.7 7.9 62 5-66 62-126 (205)
111 cd01966 Nitrogenase_NifN_1 Nit 25.6 56 0.0014 14.6 3.1 20 51-70 68-87 (417)
112 pfam02025 IL5 Interleukin 5. 25.0 48 0.0012 15.0 1.9 39 37-76 29-67 (108)
113 TIGR00871 zwf glucose-6-phosph 24.6 58 0.0015 14.5 4.2 39 49-88 123-168 (498)
114 cd00936 WEPRS_RNA WEPRS_RNA bi 24.4 37 0.00094 15.7 1.2 20 118-137 17-36 (50)
115 PRK12861 malic enzyme; Reviewe 23.7 60 0.0015 14.4 5.8 84 2-89 569-656 (762)
116 TIGR00419 tim triosephosphate 23.3 44 0.0011 15.3 1.5 16 59-74 158-173 (244)
117 TIGR01214 rmlD dTDP-4-dehydror 23.2 62 0.0016 14.4 4.1 49 52-107 48-109 (317)
118 KOG1468 consensus 23.0 62 0.0016 14.3 4.7 94 13-111 166-278 (354)
119 pfam05582 Peptidase_U57 YabG p 22.7 63 0.0016 14.3 2.2 22 93-114 122-149 (287)
120 PRK13927 rod shape-determining 22.3 54 0.0014 14.7 1.7 16 6-21 9-24 (338)
121 PRK04123 ribulokinase; Provisi 22.0 65 0.0017 14.2 6.7 57 6-64 4-74 (542)
122 cd03112 CobW_like The function 21.9 66 0.0017 14.2 4.1 47 28-76 52-98 (158)
123 pfam01385 Transposase_2 Probab 21.8 66 0.0017 14.2 2.8 11 6-16 124-134 (226)
124 pfam06925 MGDG_synth Monogalac 21.2 68 0.0017 14.1 3.4 33 45-77 69-102 (169)
125 pfam02350 Epimerase_2 UDP-N-ac 20.8 69 0.0018 14.1 6.9 29 43-71 46-74 (346)
126 PRK07035 short chain dehydroge 20.7 70 0.0018 14.0 2.5 54 96-150 176-230 (252)
127 COG4328 Predicted nuclease (RN 20.6 70 0.0018 14.0 5.5 59 5-73 1-62 (266)
128 TIGR02445 fadA acetyl-CoA C-ac 20.6 34 0.00086 16.0 0.4 60 56-120 33-93 (385)
129 TIGR01315 5C_CHO_kinase FGGY-f 20.4 54 0.0014 14.7 1.4 15 105-119 451-465 (574)
130 PRK13929 rod-share determining 20.2 40 0.001 15.5 0.7 12 6-17 5-16 (335)
No 1
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=100.00 E-value=0 Score=396.02 Aligned_cols=161 Identities=51% Similarity=0.804 Sum_probs=155.2
Q ss_pred CCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHH
Q ss_conf 80699997888720589999719968999833687388999888999999989998622796277885033202412478
Q gi|254780554|r 4 SIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATL 83 (169)
Q Consensus 4 ~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~ 83 (169)
.|||||||||+++|||||||.++++++++++|+|+|++++++++||.+|++.|.++|++|+||.+|||++||++|++|++
T Consensus 1 mMrILGIDPGl~~tG~gvie~~~~~~~~i~~G~I~t~~~~~~~~RL~~I~~~l~~li~~~~P~~~AiE~~F~~kN~~tai 80 (169)
T PRK00039 1 MMRILGIDPGLRRTGYGVIEVEGRKLSYVASGVIRTTSDDDLPERLKQIFDGLSEVIDQYQPDEAAIEQVFVNKNPQSTL 80 (169)
T ss_pred CCEEEEECCCCCCEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEHHHHHHCCCHHHHH
T ss_conf 95899988366860899999769968999988995799999899999999999999996599656453788733688999
Q ss_pred HHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCC-CCCCCHHHHHHHHHHHHHHCCCHH
Q ss_conf 8999999999999860161775260677765316888899999999999628899-999556789999999764168756
Q gi|254780554|r 84 KLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPESF-FKGKDAADALAIAVCHAYHANSGY 162 (169)
Q Consensus 84 ~lg~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~-~~~~D~aDAlAiAl~h~~~~~~~~ 162 (169)
+||||||++++++.++++|++||+|++|||++||||+|+|+||++||+++|++++ |+|+|++|||||||||+|+.++..
T Consensus 81 ~lgqARGvillaa~~~~i~v~eysP~~VK~aitG~G~A~K~QV~~MV~~~L~l~~~p~p~D~aDAlAiAicH~~~~~~~~ 160 (169)
T PRK00039 81 KLGQARGVAILAAARRGLPVAEYTPLQVKKAVVGYGRADKEQVQHMVKRLLNLPAKPKPADAADALAIAICHAHRRQSLA 160 (169)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999999838975888707445533189977899999999998299989997548999999999996776799
Q ss_pred HH
Q ss_conf 86
Q gi|254780554|r 163 YK 164 (169)
Q Consensus 163 ~~ 164 (169)
..
T Consensus 161 ~~ 162 (169)
T PRK00039 161 GL 162 (169)
T ss_pred HH
T ss_conf 98
No 2
>COG0817 RuvC Holliday junction resolvasome, endonuclease subunit [DNA replication, recombination, and repair]
Probab=100.00 E-value=0 Score=374.48 Aligned_cols=151 Identities=52% Similarity=0.823 Sum_probs=149.3
Q ss_pred EEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHHH
Q ss_conf 99978887205899997199689998336873889998889999999899986227962778850332024124788999
Q gi|254780554|r 8 IGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLGQ 87 (169)
Q Consensus 8 LGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg~ 87 (169)
||||||+++|||||||.++++.+++++|+|+|+++.++++||..|++.+++++++|+||.+|||++||++|++|++||||
T Consensus 1 lGIDPGl~~~G~gvI~~~~~~l~~v~~G~I~t~~~~~l~~RL~~l~~~l~~vl~~~~P~~~AIE~~F~~kN~~s~lklgQ 80 (160)
T COG0817 1 LGIDPGLRRTGYGVIEVEGRQLSYLASGVIRTSSDAPLAERLKQLYDGLSEVLDEYQPDEVAIEQVFVNKNADSALKLGQ 80 (160)
T ss_pred CCCCCCCCCCCEEEEECCCCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHCCHHHHHHHHH
T ss_conf 99587754101589982698489986438965887627999999999999999974988465417777128089999999
Q ss_pred HHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf 99999999986016177526067776531688889999999999962889999955678999999976416
Q gi|254780554|r 88 ARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPESFFKGKDAADALAIAVCHAYHA 158 (169)
Q Consensus 88 arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~~~~~D~aDAlAiAl~h~~~~ 158 (169)
|||++++++.++++|++||+|++|||++||+|+|+|+||+.||+++|+++.++++|++|||||||||+|+.
T Consensus 81 ARGv~~la~~~~~l~v~eY~p~~VKkavvG~G~A~K~QVq~MV~~lL~~~~~~~~DaADALAiAitHa~~~ 151 (160)
T COG0817 81 ARGVALLAAARRGLPVFEYTPNQVKKAVVGNGKADKEQVQHMVKRLLGLEEPPPADAADALAIAITHAHRA 151 (160)
T ss_pred HHHHHHHHHHHCCCCHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf 98899999998499762326888788851077256999999999982788999744788999999999887
No 3
>cd00529 RuvC_resolvase Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes only the bacterial and mitochondrial HJR's. These are referred to as the RuvC family of Holliday junction resolvases, RuvC being the E.coli HJR. RuvC and its orthologs are homodimers and are structurely similar to RNase H and Hsp70.
Probab=100.00 E-value=0 Score=368.96 Aligned_cols=153 Identities=46% Similarity=0.726 Sum_probs=148.7
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHH
Q ss_conf 69999788872058999971996899983368738899988899999998999862279627788503320241247889
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKL 85 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~l 85 (169)
||||||||+++|||||+|.++++++++++|+|+|++++++++||..|++.+.++|++|+||.++||++||++|++|++++
T Consensus 1 RILGIDPGl~~~G~aiie~~~~~~~~l~~g~I~t~~~~~~~~RL~~I~~~l~~li~~~~P~~vaiE~~f~~~n~~tal~l 80 (154)
T cd00529 1 RILGIDPGSRNTGYGVIEQEGRKLIYLASGVIRTSSDAPLPSRLKTIYDGLNEVIDQFQPDVVAIERVFFAKNPDSALKL 80 (154)
T ss_pred CEEEECCCCCCCEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEHHHHHCCHHHHHHH
T ss_conf 96998756687159999957997899998889669999989999999999999998349978986546560188889999
Q ss_pred HHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCC-CCCCCHHHHHHHHHHHHHHC
Q ss_conf 99999999999860161775260677765316888899999999999628899-99955678999999976416
Q gi|254780554|r 86 GQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPESF-FKGKDAADALAIAVCHAYHA 158 (169)
Q Consensus 86 g~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~-~~~~D~aDAlAiAl~h~~~~ 158 (169)
||+||++++++.++++|++||+|++|||++||+|+|+|+||++||+++|+++. |+|+|++||+|+|+||+|+.
T Consensus 81 g~arGvi~~~~~~~~i~v~ey~P~~VK~~vtG~G~A~K~qV~~mV~~~l~l~~~~~~~D~aDAlAiAl~h~~~~ 154 (154)
T cd00529 81 GQARGALILALANRNLPVFEYTPNQVKKAVTGYGKADKDQVQHMVKRLLNLSEIPKPDDAADALAVAITHAHWL 154 (154)
T ss_pred HHHHHHHHHHHHHHCCCCEEECHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf 99999999999981798616888998899867973759999999999819998999866899999999842719
No 4
>pfam02075 RuvC Crossover junction endodeoxyribonuclease RuvC.
Probab=100.00 E-value=0 Score=366.84 Aligned_cols=147 Identities=42% Similarity=0.688 Sum_probs=142.4
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHH
Q ss_conf 99997888720589999719968999833687388999888999999989998622796277885033202412478899
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLG 86 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg 86 (169)
|||||||+++|||||+|..+++++++++|+|+|++ +++++||..|+++|+++|++|+|+.++||++||++|++|+++||
T Consensus 1 ILGIDPGl~~tG~avi~~~~~~~~~v~~G~I~t~~-~~~~~RL~~I~~~l~~ii~~~~P~~~aiE~~F~~~N~~ta~~lg 79 (148)
T pfam02075 1 ILGIDPGSRVTGYGVIEHRGRQLSYLTSGVIRTQS-DPLPERLLAIFDAVEEVLDTHQPNAVAIEQVFFAKNVDSALKLA 79 (148)
T ss_pred CEEECCCCCCEEEEEEEEECCEEEEEEEEEEECCC-CCHHHHHHHHHHHHHHHHHHCCCCEEEHHHHHHHCCHHHHHHHH
T ss_conf 98878886860799999759847999951597899-88799999999999999996499867475877712869999999
Q ss_pred HHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCC-CCCCCHHHHHHHHHHH
Q ss_conf 9999999999860161775260677765316888899999999999628899-9995567899999997
Q gi|254780554|r 87 QARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPESF-FKGKDAADALAIAVCH 154 (169)
Q Consensus 87 ~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~-~~~~D~aDAlAiAl~h 154 (169)
||||++++++.++++|++||+|++|||++||+|+|+|+||++||+++|++++ |+|+|++||||+||||
T Consensus 80 qaRGvill~~~~~~i~v~ey~P~~VKk~itG~G~A~KeQV~~mV~~ll~l~~~~~~~D~aDAlAiAicH 148 (148)
T pfam02075 80 QARGVAILAAAERGISVFEYTPSQVKKAVTGNGSADKRQVQHMVKRLLNLTAKPQPADAADALALAITH 148 (148)
T ss_pred HHHHHHHHHHHHHCCCEEEECHHHHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHC
T ss_conf 999999999998079805788899888873798587999999999980989899986689999999849
No 5
>TIGR00228 ruvC crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination . RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo . RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices .; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination.
Probab=100.00 E-value=0 Score=323.15 Aligned_cols=154 Identities=45% Similarity=0.725 Sum_probs=146.6
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHH
Q ss_conf 99997888720589999719968999833687388999888999999989998622796277885033202412478899
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLG 86 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg 86 (169)
|||||||+|.||||||...++++.++.+|+|++.. +++++||..|++.+.+++++|+|+.+|||++||++|++|++|||
T Consensus 1 ILGIDPGSR~~GY~vI~~~~~~L~~l~~G~I~~~~-~~L~~~l~~~~~~~~~~~~~f~~n~~AIE~vF~a~N~~S~lKL~ 79 (158)
T TIGR00228 1 ILGIDPGSRVTGYGVIRQAGKKLSYLGSGFIRIKV-TDLPERLKDIYAGVTEIITQFQPNEFAIEQVFMAKNADSALKLG 79 (158)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHCCEEEEEH-HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCHHHHHHHH
T ss_conf 97768987511258988753443334245003303-46889999999999999843066600121243202725788876
Q ss_pred HHHHHHHHHHHHCCCCEE-EECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCC-CCCCCCHHHHHHHHHHHHHHCCCH
Q ss_conf 999999999986016177-526067776531688889999999999962889-999955678999999976416875
Q gi|254780554|r 87 QARAIAILSPALARIPVS-EYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPES-FFKGKDAADALAIAVCHAYHANSG 161 (169)
Q Consensus 87 ~arGvi~l~~~~~~i~v~-ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~-~~~~~D~aDAlAiAl~h~~~~~~~ 161 (169)
|+||+.+.+.....+|+| ||+|.+|||++||+|+|+|+||++||++||++. +|+|.|.+|||||||||+++..++
T Consensus 80 Q~RG~A~~~~v~~~l~~FsEY~~~~VK~~~~G~G~A~K~QV~~MV~~lL~l~~~~~P~D~~DAlA~AITHa~~~~~~ 156 (158)
T TIGR00228 80 QARGVAIVAAVNERLPVFSEYAARQVKKTVVGIGSAAKEQVQFMVKRLLKLTSEPKPADAADALAIAITHAHRLKNA 156 (158)
T ss_pred HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHH
T ss_conf 44469999999862687310557766565305773003889999999860556788455777999999999999863
No 6
>pfam03652 UPF0081 Uncharacterized protein family (UPF0081).
Probab=98.22 E-value=5.5e-05 Score=51.68 Aligned_cols=101 Identities=23% Similarity=0.257 Sum_probs=64.0
Q ss_pred CEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHH
Q ss_conf 06999978887205899997199689998336873889998889999999899986227962778850332024124788
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLK 84 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~ 84 (169)
|||||||.|+.++|.|+-|..+.-.. -.++|..+.. ....+.|.+++.+|+|+.++|=-|+-..+..+. .
T Consensus 1 ~riLgiD~G~kriGvAisd~~~~~a~--Pl~~i~~~~~-------~~~~~~i~~ii~e~~i~~iVvGlP~~~dG~~~~-~ 70 (134)
T pfam03652 1 GRILGLDVGTKRIGVAISDPLGILAS--PLETIERKNG-------KPDLEELAELIKEWQPDGIVVGLPLNMDGSEGE-Q 70 (134)
T ss_pred CCEEEEECCCCEEEEEEECCCCCEEE--CEEEEECCCC-------HHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCH-H
T ss_conf 97999980899799999359998250--2488985885-------589999999999839998999558999988088-9
Q ss_pred HHHHHHHHHHHHHHCCCCEEEE----CHHHHHHHH
Q ss_conf 9999999999998601617752----606777653
Q gi|254780554|r 85 LGQARAIAILSPALARIPVSEY----APNTIKKAV 115 (169)
Q Consensus 85 lg~arGvi~l~~~~~~i~v~ey----~P~~vKkav 115 (169)
.-+++--+-....+.++||+.+ +..+.++..
T Consensus 71 ~~~v~~f~~~L~~~~~i~v~~~DEr~TS~~A~~~l 105 (134)
T pfam03652 71 TKRVRKFARRLKKRFGLPVELVDERLTTVEAERIL 105 (134)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHH
T ss_conf 99999999999986199868863432799999999
No 7
>pfam04848 Pox_A22 Poxvirus A22 protein.
Probab=98.06 E-value=5.2e-05 Score=51.85 Aligned_cols=130 Identities=15% Similarity=0.148 Sum_probs=78.4
Q ss_pred CEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHC-CCHHHHH
Q ss_conf 069999788872058999971996899983368738899988899999998999862279627788503320-2412478
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVN-KDAVATL 83 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~-~n~~t~~ 83 (169)
|.||+||.|+.+.+++++|.++++++.++.. +.+-+.+...+ + +.++. +++||.|.||+++-. .+.+-
T Consensus 1 miIlSiDiGiKNlA~c~~e~~~n~I~~~~v~--~~d~~~d~~~~---v---~~d~~-~~~~d~VLiEkQp~r~~~~k~-- 69 (143)
T pfam04848 1 MIICAIDIGTKNPARTIIEIKDNKIKLIDIS--KLDWSSDWEYR---V---ARDLY-NYNYDVVLLERQGRRSPNIKF-- 69 (143)
T ss_pred CEEEEEECCCCCCEEEEEECCCCEEEEEEEE--CCCCCCCHHHH---H---HHHHH-CCCCCEEEEEECCCCCCCEEE--
T ss_conf 9799984277770158997379849999860--48988527999---9---99974-358998999607999984764--
Q ss_pred HHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHC-CCCCCCHHHHHHHHHHHC---CCC-----CCCCCCHHHHHHHHHHH
Q ss_conf 899999999999986016177526067776531-688889999999999962---889-----99995567899999997
Q gi|254780554|r 84 KLGQARAIAILSPALARIPVSEYAPNTIKKAVI-GVGHGDKKQIHMMLKMLM---PES-----FFKGKDAADALAIAVCH 154 (169)
Q Consensus 84 ~lg~arGvi~l~~~~~~i~v~ey~P~~vKkavt-G~G~A~KeqV~~mV~~ll---~~~-----~~~~~D~aDAlAiAl~h 154 (169)
+.-.+|. .....-.+.-+.|. +. |.=+.-|.+=..+-+.++ +.. ..+-||.||++-.|+.-
T Consensus 70 -i~fi~g~----fy~~~~kvi~~~p~-----~~g~~Y~~RKk~SI~~~~~~l~~~~~~~~~~k~kKkDDlADs~~~Al~Y 139 (143)
T pfam04848 70 -IYFIKGF----LYNKQTKVICVNPV-----MNGGSYRDRKKRSVNIFLNWMSVFGINDILPKYKKLDDVADSFNLALRY 139 (143)
T ss_pred -HHHHHHH----HCCCCCCEEEECCC-----CCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf -1335658----21677757870843-----4576688888999999999999759932121112213589999999998
Q ss_pred H
Q ss_conf 6
Q gi|254780554|r 155 A 155 (169)
Q Consensus 155 ~ 155 (169)
.
T Consensus 140 ~ 140 (143)
T pfam04848 140 L 140 (143)
T ss_pred H
T ss_conf 7
No 8
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=97.82 E-value=0.00035 Score=46.69 Aligned_cols=94 Identities=24% Similarity=0.258 Sum_probs=59.7
Q ss_pred CCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHH
Q ss_conf 88069999788872058999971996899983368738899988899999998999862279627788503320241247
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVAT 82 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~ 82 (169)
.+.||||||.|..++|.|+=|..+.-... .++|..... ....+.|.+++++|+|+.++|=-|.-..+..+.
T Consensus 2 ~~griLgiD~G~kriGlAisD~~~~~a~P--l~~i~~~~~-------~~~~~~l~~ii~e~~i~~iViGlP~~~~g~~~~ 72 (141)
T PRK00109 2 MSGRILGFDVGTKRIGVAIGDPLGGTARP--LETIKAQNG-------EPDWDALEKLLKEWQPDLLVVGLPLNMDGTEGP 72 (141)
T ss_pred CCCCEEEEEECCCEEEEEEECCCCCEEEC--CEEEECCCC-------HHHHHHHHHHHHHHCCCEEEEECCCCCCCCCCH
T ss_conf 98888999818997999994699984744--143772770-------689999999999839998999447999988448
Q ss_pred HHHHHHHHHHHHHHHHCCCCEEEE
Q ss_conf 889999999999998601617752
Q gi|254780554|r 83 LKLGQARAIAILSPALARIPVSEY 106 (169)
Q Consensus 83 ~~lg~arGvi~l~~~~~~i~v~ey 106 (169)
..-+++.-+-....+.++||+.+
T Consensus 73 -~~~~v~~F~~~L~~~~~l~v~~~ 95 (141)
T PRK00109 73 -MTERARKFANRLEGRFGLPVELV 95 (141)
T ss_pred -HHHHHHHHHHHHHHHHCCCEEEE
T ss_conf -89999999999999729987986
No 9
>smart00732 YqgFc Likely ribonuclease with RNase H fold. YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.
Probab=97.80 E-value=0.00022 Score=47.91 Aligned_cols=89 Identities=21% Similarity=0.274 Sum_probs=55.1
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHH
Q ss_conf 69999788872058999971996899983368738899988899999998999862279627788503320241247889
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKL 85 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~l 85 (169)
||||||+|..++|.|+.|..+.-...+ .++... +.....+.|.+++++|+|+.++|=-|.-..+..+...
T Consensus 2 rvLgiD~G~kriG~Ai~D~~~~~a~pl--~~i~~~-------~~~~~~~~l~~~i~~~~~~~iviG~P~~~~g~~~~~~- 71 (99)
T smart00732 2 RVLGLDPGRKGIGVAVVDETGKLADPL--EVIPRT-------NKEADAARLKKLIKKYQPDLIVIGLPLNMNGTASRET- 71 (99)
T ss_pred CEEEEEECCCCEEEEEEECCCCEECCC--EEEECC-------CCHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCHHH-
T ss_conf 799992178969999998999732131--899859-------8269999999999984998899747524899819999-
Q ss_pred HHHHHHHHHHHHHCCCCEEEE
Q ss_conf 999999999998601617752
Q gi|254780554|r 86 GQARAIAILSPALARIPVSEY 106 (169)
Q Consensus 86 g~arGvi~l~~~~~~i~v~ey 106 (169)
+ +-..-..-...++||+-+
T Consensus 72 -~-~~f~~~l~~~~~i~v~~~ 90 (99)
T smart00732 72 -E-EAFAELLKERFNLPVVLV 90 (99)
T ss_pred -H-HHHHHHHHHCCCCCEEEE
T ss_conf -9-999999851789988999
No 10
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=97.55 E-value=0.0014 Score=43.02 Aligned_cols=128 Identities=21% Similarity=0.241 Sum_probs=73.6
Q ss_pred CCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHH-HCCCHHHH
Q ss_conf 80699997888720589999719968999833687388999888999999989998622796277885033-20241247
Q gi|254780554|r 4 SIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVF-VNKDAVAT 82 (169)
Q Consensus 4 ~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F-~~~n~~t~ 82 (169)
.|++||+|.|+.++|+|+-|..+.-..-+ .+|+-..... ..++.+.+++++|+|+.++|=-|+ +......
T Consensus 1 ~~~ilalD~G~KrIGvA~sd~~~~~A~pl--~~i~~~~~~~------~~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~- 71 (141)
T COG0816 1 GMRILALDVGTKRIGVAVSDILGSLASPL--ETIKRKNGKP------QDFNALLKLVKEYQVDTVVVGLPLNMDGTEGP- 71 (141)
T ss_pred CCEEEEEECCCCEEEEEEECCCCCCCCCH--HHEEECCCCH------HHHHHHHHHHHHHCCCEEEEECCCCCCCCCCH-
T ss_conf 96499996278748899764777521241--4302033537------56999999999838887999667688887134-
Q ss_pred HHHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHH
Q ss_conf 88999999999999860161775260677765316888899999999999628899999556789999999
Q gi|254780554|r 83 LKLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPESFFKGKDAADALAIAVC 153 (169)
Q Consensus 83 ~~lg~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~~~~~D~aDAlAiAl~ 153 (169)
.--+++--+-....+.++||...-++- +-.+...|+.. .+.+..+....-|++|-.+.
T Consensus 72 -~~~~~~~f~~~L~~r~~lpv~l~DERl-----------tTv~A~~~L~~-~~~~~~~rk~~iD~~AA~~I 129 (141)
T COG0816 72 -RAELARKFAERLKKRFNLPVVLWDERL-----------STVEAERMLIE-AGVSRKKRKGVIDSLAAVLI 129 (141)
T ss_pred -HHHHHHHHHHHHHHHCCCCEEEECCCC-----------CHHHHHHHHHH-CCCCHHHHCCHHHHHHHHHH
T ss_conf -699999999999876498789981865-----------79999999997-58734443414389999999
No 11
>pfam07066 Phage_Lacto_M3 Lactococcus phage M3 protein. This family consists of several Lactococcus phage middle-3 (M3) proteins of around 160 residues in length. The function of this family is unknown.
Probab=97.50 E-value=8.4e-05 Score=50.53 Aligned_cols=142 Identities=18% Similarity=0.174 Sum_probs=90.6
Q ss_pred EEEEECCCCCE-----EEEEEEEEECCEEEEEEEEEEEC-CCCCCHHHHHHHHHHHHHHHHHCCCCC--EEEEEHHHHCC
Q ss_conf 69999788872-----05899997199689998336873-889998889999999899986227962--77885033202
Q gi|254780554|r 6 RIIGIDPGLRR-----TGWGIVDVAGDNLCFVSSGTIVS-CVRQSLAFRLCQLYEGLTDVIKNWRPE--EAAVEQVFVNK 77 (169)
Q Consensus 6 rILGIDPGl~~-----tG~avie~~~~~~~li~~g~I~t-~~~~~~~~Rl~~I~~~l~~ii~~~~Pd--~vaiE~~F~~~ 77 (169)
++|.||-++.+ ||||.-.--.++ +..|.|+. .++++.-+|-..|.+.+.++|++|.-. .++||+|..+.
T Consensus 3 k~laidfstankkgegtgyafr~pl~~e---~~vgsika~~~kk~~~era~~i~d~i~diid~fdl~~y~i~ie~pii~~ 79 (162)
T pfam07066 3 KALAIDFSTANKKGEGTGYAFRKPLDGE---VVVGSIKAGGKKKDALERAFDIADAIKDIIDEFDLFDYFIAIEEPIIGF 79 (162)
T ss_pred CEEEEEEECCCCCCCCCCEEEECCCCCC---EEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHCHHHHEEEECCCEEEC
T ss_conf 1388863125667876523760478886---8999874078566889999989999999987632233215641634310
Q ss_pred CHHHHHHHHHHHHHHHHHH-HHCCCCEEEECHHHHHHH--HCCCCCCCHHHHHHHHHHHCCC-CCCCCCCHHHHHHH
Q ss_conf 4124788999999999999-860161775260677765--3168888999999999996288-99999556789999
Q gi|254780554|r 78 DAVATLKLGQARAIAILSP-ALARIPVSEYAPNTIKKA--VIGVGHGDKKQIHMMLKMLMPE-SFFKGKDAADALAI 150 (169)
Q Consensus 78 n~~t~~~lg~arGvi~l~~-~~~~i~v~ey~P~~vKka--vtG~G~A~KeqV~~mV~~ll~~-~~~~~~D~aDAlAi 150 (169)
+.+..+.|..+-|--+-+. .+++|-...+.-+.+=-+ +.|+-.-.|+|-....+.-.-. +.-.++|.+||..+
T Consensus 80 ~~k~nisl~~~ng~fig~i~~~~nigy~~i~nskwc~yhli~gk~~~rk~esieilka~~iv~~n~~dddiadaf~i 156 (162)
T pfam07066 80 KRKGNISLANANGSFIGAIDGLHNIGYTDIDNSKWCGYHLIKGKRALRKEESIEILKATGIVDDNCIDDDIADAFCI 156 (162)
T ss_pred CCCCCEEEEECCCEEEEEECCCCCCCEEECCCCCCEEEEEECCHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHE
T ss_conf 24685778805865775442642246266256532521454260666456768999982997722246115655230
No 12
>pfam04312 DUF460 Protein of unknown function (DUF460). Archaeal protein of unknown function.
Probab=97.39 E-value=0.00021 Score=48.03 Aligned_cols=108 Identities=21% Similarity=0.286 Sum_probs=61.3
Q ss_pred CCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHH
Q ss_conf 80699997888720589999719968999833687388999888999999989998622796277885033202412478
Q gi|254780554|r 4 SIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATL 83 (169)
Q Consensus 4 ~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~ 83 (169)
.--|.|||||+ .||+|++|.+|+- ++ +..++..+.+ +-++.+++.-+|-.||--- ..-+.+.-
T Consensus 31 ~~lIVGIDPG~-ttgiAildLdG~~---l~---~~S~R~~~~~-------evi~~I~~~G~PviVAtDV---~p~P~~V~ 93 (138)
T pfam04312 31 RYLIVGIDPGI-TTGIAILDLDGEV---LD---LYSSRNMDRG-------EVIELIYELGKPVIVATDV---SPPPETVK 93 (138)
T ss_pred CCEEEEECCCC-EEEEEEEECCCCE---EE---EEECCCCCHH-------HHHHHHHHCCCEEEEEECC---CCCCHHHH
T ss_conf 76799978991-4378898258849---98---7703679989-------9999999749769998269---89828999
Q ss_pred HHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHH
Q ss_conf 89999999999998601617752606777653168888999999999996288999995567899999
Q gi|254780554|r 84 KLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPESFFKGKDAADALAIA 151 (169)
Q Consensus 84 ~lg~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~~~~~D~aDAlAiA 151 (169)
|+...-++ ..|+|.+- =+-++=...++.+ +. ...++|+-||||-|
T Consensus 94 Kia~~f~A------------~ly~P~~d---------l~veEK~~l~~~~-~~-~~~n~HeRDALaAA 138 (138)
T pfam04312 94 KIARSFGA------------VLYTPERD---------LSVEEKRELARKY-SW-KYDDDHERDALAAA 138 (138)
T ss_pred HHHHHHCC------------EEECCCCC---------CCHHHHHHHHHHH-CC-CCCCCHHHHHHHCC
T ss_conf 99997198------------11578876---------7689999999871-77-67994366564239
No 13
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=97.27 E-value=0.0012 Score=43.42 Aligned_cols=113 Identities=22% Similarity=0.268 Sum_probs=62.1
Q ss_pred CEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCC-CCCEEEEEHHHHCCCHHHHH
Q ss_conf 06999978887205899997199689998336873889998889999999899986227-96277885033202412478
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNW-RPEEAAVEQVFVNKDAVATL 83 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~-~Pd~vaiE~~F~~~n~~t~~ 83 (169)
--|.|||||+ .||.|+|+.+|. +++ ....+..+.++ +.++|.++ +|-.||.-- .--|.++-
T Consensus 244 ~lIVGIDPGi-ttgiAvldldGe---vl~---~~S~r~~~~~e--------Vve~I~~lG~PvvVAtDV---tp~P~~V~ 305 (652)
T COG2433 244 SLIVGIDPGI-TTGIAVLDLDGE---VLD---LESRRGIDRSE--------VVEFISELGKPVVVATDV---TPAPETVK 305 (652)
T ss_pred CEEEEECCCC-EEEEEEEECCCC---EEE---EECCCCCCHHH--------HHHHHHHCCCCEEEEECC---CCCCHHHH
T ss_conf 4489737985-335789714881---887---53216788899--------999999839836998068---89807899
Q ss_pred HHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCC-CCCCCCCCHHHHHHHHHHHHHHCC
Q ss_conf 8999999999999860161775260677765316888899999999999628-899999556789999999764168
Q gi|254780554|r 84 KLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMP-ESFFKGKDAADALAIAVCHAYHAN 159 (169)
Q Consensus 84 ~lg~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~-~~~~~~~D~aDAlAiAl~h~~~~~ 159 (169)
|++. .+|-+ .|+|..== +.+..|- .+.+ ...+.++|+-||+|-|+--.....
T Consensus 306 KiAa----------sf~A~--ly~P~~dL-------sveEK~~-----~~r~~~~~~~ddH~RDALAAA~kAY~~yk 358 (652)
T COG2433 306 KIAA----------SFNAV--LYTPDRDL-------SVEEKQE-----ALRTLKISVSDDHERDALAAAYKAYLAYK 358 (652)
T ss_pred HHHH----------HCCCC--CCCCCCCC-------CHHHHHH-----HHHHCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 9999----------73984--23785547-------8788899-----88516888899447789999999999989
No 14
>pfam09159 Ydc2-catalyt Mitochondrial resolvase Ydc2, catalytic. Members of this family adopt a secondary structure consisting of two beta sheets and one alpha helix, arranged as a beta-alpha-beta motif. Each beta sheet has five strands, arranged in a 32145 order, with the second strand being antiparallel to the rest. They are capable of resolving Holliday junctions and cleave DNA after 5'-CT-3' and 5'-TT-3' sequences.
Probab=96.69 E-value=0.061 Score=32.89 Aligned_cols=112 Identities=13% Similarity=0.148 Sum_probs=70.8
Q ss_pred EEEECCCCCEEEEEEEEEECC-----EEEEEEEEEEECCCC--------------CCH-HHHHHHH-HHHHHHHHHCCCC
Q ss_conf 999978887205899997199-----689998336873889--------------998-8899999-9989998622796
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGD-----NLCFVSSGTIVSCVR--------------QSL-AFRLCQL-YEGLTDVIKNWRP 65 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~-----~~~li~~g~I~t~~~--------------~~~-~~Rl~~I-~~~l~~ii~~~~P 65 (169)
||+||.|+.+.-||-+..... .+.+.++..+..... .++ +.=+..+ +.-++.++..|+|
T Consensus 1 ILsIDmGIkNfAf~~l~~~~~~~~~~~p~L~~W~kl~L~~~~~~~~~~~~~~~~~~~fsp~~~a~~Ay~Lv~~ll~~~~P 80 (253)
T pfam09159 1 ILSIDMGIKNFSYCKLLLPPDSKLKSPPILTAWRKLDLSEKFGSDNLDLTNEKDSLDFSPRYLATLAYNLVSTLLLPYKP 80 (253)
T ss_pred CCEEECCCCCEEEEEEECCCCCCCCCCCEEEECCEEECCHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCC
T ss_conf 91363274200114663378766789976330000102011054456643343444459899999999999998434799
Q ss_pred CEEEEEHHHHCCCHH-----HHHHHHHHHHHHHHHHH---H------CCCCEEEECHHHHHHHHCCC
Q ss_conf 277885033202412-----47889999999999998---6------01617752606777653168
Q gi|254780554|r 66 EEAAVEQVFVNKDAV-----ATLKLGQARAIAILSPA---L------ARIPVSEYAPNTIKKAVIGV 118 (169)
Q Consensus 66 d~vaiE~~F~~~n~~-----t~~~lg~arGvi~l~~~---~------~~i~v~ey~P~~vKkavtG~ 118 (169)
++|.||.+=|.-+.. -++.++..-|.+..++. . ....|+...|..|-.+-+..
T Consensus 81 t~ilIERQRfRS~g~saVlEwtLrvn~lE~ML~A~L~~l~~~~~~~~~~~~V~~v~P~rv~~yW~~~ 147 (253)
T pfam09159 81 THVLIERQRFRSGGSSAVLEWTLRVNMLESMLYATLYALKQNSEEGVWPGVVIPVDPKRVVNYWVDR 147 (253)
T ss_pred CEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEECHHHHHHHHHCC
T ss_conf 8899976311468986544047888589999999999998725457778579972868889974165
No 15
>pfam11215 DUF3010 Protein of unknown function (DUF3010). This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=96.60 E-value=0.029 Score=34.93 Aligned_cols=109 Identities=15% Similarity=0.157 Sum_probs=77.3
Q ss_pred CEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCC-CHHHHHHHHHHHHHHHHHCCCCCEEEEEH-HHHCCCHHH-
Q ss_conf 069999788872058999971996899983368738899-98889999999899986227962778850-332024124-
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQ-SLAFRLCQLYEGLTDVIKNWRPEEAAVEQ-VFVNKDAVA- 81 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~-~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~-~F~~~n~~t- 81 (169)
|||-|+.---+-.=.++++.+++...++++-+-+..-.+ +..+-+..-...+.+++++|+.|.|+|-+ .-=|+.+-+
T Consensus 1 M~vCGVELKgnEaii~lls~~~~~~~~p~~r~~k~~l~~~~~~~~vr~F~~~f~kl~~dy~Vd~VvIk~R~~KGKfAGga 80 (138)
T pfam11215 1 MRVCGVELKGNEAIICLLSLDDGLFDLPDCRTRKFTLSDSDSAENVKEFQFAFKKLMEDYKVDKVVIKERAKKGKFAGGA 80 (138)
T ss_pred CEEEEEEEECCEEEEEEEECCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCCCCC
T ss_conf 91799997667799999954898315675311578706995678999999999999998497789996424578736773
Q ss_pred -HHHHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCC
Q ss_conf -78899999999999986016177526067776531688
Q gi|254780554|r 82 -TLKLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVG 119 (169)
Q Consensus 82 -~~~lg~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G 119 (169)
..|+ -|+|.+. .+++|.-++|..+|...--|.
T Consensus 81 ~sFKm---EaaIQLi---~~~~V~lvsp~~ik~~lKr~p 113 (138)
T pfam11215 81 TSFKL---EAAIQLI---ADLEVTLVSPATIKAQLKRNP 113 (138)
T ss_pred HHHHH---HHHHHHC---CCCCEEEECHHHHHHHHHCCC
T ss_conf 41799---9999863---697389978899998861399
No 16
>TIGR01865 cas_Csn1 CRISPR-associated protein, Csn1 family; InterPro: IPR010145 CRISPR loci appear to be mobile elements with a wide host range. This entry represents proteins found only in CRISPR-containing species, near other CRISPR-associated proteins (cas). The species range so far for these proteins is pathogenic bacteria only..
Probab=96.24 E-value=0.0032 Score=40.82 Aligned_cols=30 Identities=27% Similarity=0.645 Sum_probs=25.9
Q ss_pred EEEEECCCCCEEEEEEEEEECC---EEEEEEEE
Q ss_conf 6999978887205899997199---68999833
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGD---NLCFVSSG 35 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~---~~~li~~g 35 (169)
++||+|-|+++.||||+|.+.+ ...+|++|
T Consensus 2 y~lGLDiGi~SVGWA~~e~d~~~~~~~~~id~g 34 (1140)
T TIGR01865 2 YILGLDIGIASVGWAVVEDDYKVEAKKRLIDGG 34 (1140)
T ss_pred CEEEEEECCCCEEEEEEECCCCCCCCCCEEECC
T ss_conf 348887020123405775464740124144048
No 17
>COG1214 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=96.22 E-value=0.021 Score=35.72 Aligned_cols=98 Identities=15% Similarity=0.204 Sum_probs=60.8
Q ss_pred CEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCC--CHHHH
Q ss_conf 0699997888720589999719968999833687388999888999999989998622796277885033202--41247
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNK--DAVAT 82 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~--n~~t~ 82 (169)
|+||.||.++..+..+|++.++++. +. .+..+.+..+.+||..+. .+++.+.....--++.+.+++ ..-|.
T Consensus 1 m~iLaiDTs~~~~s~ai~~~~~~~v--l~--~~~~~~~r~hse~l~~~i---~~ll~~~~~~~~dld~Iav~~GPGSFTG 73 (220)
T COG1214 1 MKILAIDTSTSALSVALYLADDGKV--LA--EHTEKLKRNHAERLMPMI---DELLKEAGLSLQDLDAIAVAKGPGSFTG 73 (220)
T ss_pred CCEEEEECCCHHHHHHHEECCCCCE--EE--EEEEECCCCHHHHHHHHH---HHHHHHCCCCHHHCCEEEEECCCCCCHH
T ss_conf 9189998673453166142478958--89--999715832889999999---9999875999778488999308974223
Q ss_pred HHHHHHHHHHHHHHHHCCCCEEEECHHHH
Q ss_conf 88999999999999860161775260677
Q gi|254780554|r 83 LKLGQARAIAILSPALARIPVSEYAPNTI 111 (169)
Q Consensus 83 ~~lg~arGvi~l~~~~~~i~v~ey~P~~v 111 (169)
+.+|.+-+-- .+.-.++|++-++.-+.
T Consensus 74 lRIG~~~Akg--LA~~l~iplvgvssL~~ 100 (220)
T COG1214 74 LRIGVAFAKG--LALALNIPLVGVSSLEA 100 (220)
T ss_pred HHHHHHHHHH--HHHHCCCCEEEECHHHH
T ss_conf 8899999999--98752986899576999
No 18
>COG2410 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=95.26 E-value=0.16 Score=30.27 Aligned_cols=62 Identities=21% Similarity=0.251 Sum_probs=39.3
Q ss_pred HHHHHHH-HHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf 9999999-986016177526067776531688889999999999962889999955678999999976416
Q gi|254780554|r 89 RAIAILS-PALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPESFFKGKDAADALAIAVCHAYHA 158 (169)
Q Consensus 89 rGvi~l~-~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~~~~~D~aDAlAiAl~h~~~~ 158 (169)
||.-+.- ....|+||+|.-|+..-+...|-++.+-+.....+. ...|..||++.|+||..+.
T Consensus 88 Rg~~i~r~l~~~gv~ViEthP~aa~~~~~~l~r~~l~~~ie~~~--------~~~~~~dAv~ag~~a~~y~ 150 (178)
T COG2410 88 RGMSIARLLESEGVPVIETHPRAALAKAAGLRRHDLDRIIEDVA--------VSEDAVDAVLAGLAALLYS 150 (178)
T ss_pred HHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHC
T ss_conf 89999999985597489954417888787653004665411334--------1145899999888898707
No 19
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=95.24 E-value=0.079 Score=32.23 Aligned_cols=58 Identities=29% Similarity=0.491 Sum_probs=34.8
Q ss_pred EEEEECCCCCEEE--EEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEE
Q ss_conf 6999978887205--8999971996899983368738899988899999998999862279627788
Q gi|254780554|r 6 RIIGIDPGLRRTG--WGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAV 70 (169)
Q Consensus 6 rILGIDPGl~~tG--~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vai 70 (169)
.+||+|||. +|| .||+|..| .+++..+|-..+..... ......|..++..|+.+.+||
T Consensus 331 ~~lglDPg~-rtG~k~Avvd~tG---k~l~~~~Iyp~~p~~~~---~~~~~~l~~l~~~~~Ve~iaI 390 (780)
T COG2183 331 ATLGLDPGF-RTGCKVAVVDDTG---KLLDTATIYPHPPVNQS---DKAEATLKDLIRKYKVELIAI 390 (780)
T ss_pred CEEECCCCC-CCCCEEEEECCCC---CEECEEEEECCCCCCCH---HHHHHHHHHHHHHHCCEEEEE
T ss_conf 012048763-0130799983788---55531699727975415---789999999999837107987
No 20
>pfam03237 Terminase_6 Terminase-like family. This family represents a group of terminase proteins.
Probab=94.72 E-value=0.4 Score=27.86 Aligned_cols=65 Identities=12% Similarity=0.104 Sum_probs=40.3
Q ss_pred CEEEEECCCCC----EEEEEEE-EEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHC
Q ss_conf 06999978887----2058999-971996899983368738899988899999998999862279627788503320
Q gi|254780554|r 5 IRIIGIDPGLR----RTGWGIV-DVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVN 76 (169)
Q Consensus 5 MrILGIDPGl~----~tG~avi-e~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~ 76 (169)
-++.|+|||.. .|+..|+ +..++...+++- .+ ....+. ....+.+.+++..|.|..+.+|.-..+
T Consensus 224 ~~~~g~D~~~~~~~D~t~~~v~~~~~~~~~~~~~~--~~-~~~~~~----~~~a~~i~~~~~~~~~~~i~id~~~~G 293 (380)
T pfam03237 224 EVIGGVDPAASRGGDYAALVVIAEVDGDKFYVLAR--EH-ERGLSP----AEQAAIIKKLAERYNVIYIYIDDTGGG 293 (380)
T ss_pred EEEEEECCCCCCCCCCEEEEEEEECCCCEEEEEEE--EE-ECCCCH----HHHHHHHHHHHHHCCCEEEEEECCCCC
T ss_conf 59999867888889966999999657985999999--98-368899----999999999986438759998378643
No 21
>PRK05082 N-acetylmannosamine kinase; Provisional
Probab=93.92 E-value=0.39 Score=27.96 Aligned_cols=52 Identities=17% Similarity=0.241 Sum_probs=35.4
Q ss_pred CEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf 06999978887205899997199689998336873889998889999999899986227
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNW 63 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~ 63 (169)
|.+||||-|=++.=++++|.++. +++...+.|+...... . +.+.+.++++++
T Consensus 1 M~~lgiDiGGT~ik~~lvd~~G~---i~~~~~~~t~~~~~~~-~---~~~~i~~~~~~~ 52 (291)
T PRK05082 1 MTTLAIDIGGTKIAAALVGEDGQ---ISQRRQIPTPASQTPE-A---LRDALEALVSPL 52 (291)
T ss_pred CCEEEEEECCCEEEEEEECCCCC---EEEEEEEECCCCCCHH-H---HHHHHHHHHHHH
T ss_conf 96999995734099999959995---9999999799988999-9---999999999998
No 22
>COG1940 NagC Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=93.38 E-value=0.74 Score=26.23 Aligned_cols=66 Identities=17% Similarity=0.236 Sum_probs=46.4
Q ss_pred CCCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCC--CCCEEEE
Q ss_conf 98806999978887205899997199689998336873889998889999999899986227--9627788
Q gi|254780554|r 2 RKSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNW--RPEEAAV 70 (169)
Q Consensus 2 ~~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~--~Pd~vai 70 (169)
...|.++|||.|-+.+=++++|..++. +....+.++...+...-+..|.+.+.+++..+ +++.+.|
T Consensus 3 ~~~~~~lgidIggt~i~~~l~d~~g~~---l~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iGI 70 (314)
T COG1940 3 PEAMTVLGIDIGGTKIKVALVDLDGEI---LLRERIPTPTPDPEEAILEAILALVAELLKQAQGRVAIIGI 70 (314)
T ss_pred CCCEEEEEEEECCCEEEEEEEECCCCE---EEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCCEEEE
T ss_conf 876299999988978999999379978---98899877888845679999999999998752767756999
No 23
>COG3513 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]
Probab=93.38 E-value=0.076 Score=32.33 Aligned_cols=31 Identities=29% Similarity=0.663 Sum_probs=24.5
Q ss_pred EEEEECCCCCEEEEEEEEEECC--EEEEEEEEE
Q ss_conf 6999978887205899997199--689998336
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGD--NLCFVSSGT 36 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~--~~~li~~g~ 36 (169)
+|||+|-|+++.||||++.+.+ ...+.++|+
T Consensus 5 yilglDIGi~SVGWAvve~de~~~~~~lkd~Gv 37 (1088)
T COG3513 5 YILGLDIGINSVGWAVVEDDEDEVPIKLKDLGV 37 (1088)
T ss_pred EEEEEECCCCCEEEEEEECCCCCCCHHHHHHHH
T ss_conf 378751034520258862233356327887433
No 24
>PRK09698 D-allose kinase; Provisional
Probab=92.33 E-value=0.95 Score=25.56 Aligned_cols=64 Identities=13% Similarity=0.225 Sum_probs=42.5
Q ss_pred CCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCC--CEEEE
Q ss_conf 880699997888720589999719968999833687388999888999999989998622796--27788
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRP--EEAAV 70 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~P--d~vai 70 (169)
.++.|||||-|-+++=++++|.++. ++.....+|. ....++-+..|.+.+.+++.++.. ..+.|
T Consensus 2 ~~~~viGIDiGGT~i~~~l~d~~g~---i~~~~~~~t~-~~~~~~~~~~i~~~i~e~~~~~~~~i~gIgi 67 (302)
T PRK09698 2 QHNVVAGIDMGATHIRFCLVDAEGE---ILHCEKRRTA-EVIAPDLVSGISEMIDEQLRRFNARCHGLVM 67 (302)
T ss_pred CCCEEEEEEECCCEEEEEEECCCCC---EEEEEEECCC-CCCHHHHHHHHHHHHHHHHHHCCCCCCEEEE
T ss_conf 7768999998732499999969997---9999996698-7676799999999999997651885246999
No 25
>PRK09604 putative DNA-binding/iron metalloprotein/AP endonuclease; Reviewed
Probab=91.61 E-value=1.3 Score=24.81 Aligned_cols=94 Identities=19% Similarity=0.187 Sum_probs=45.6
Q ss_pred CEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCC-CCCH---------HHHHHHHHHHHHHHHHCC-----CCCEEE
Q ss_conf 0699997888720589999719968999833687388-9998---------889999999899986227-----962778
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCV-RQSL---------AFRLCQLYEGLTDVIKNW-----RPEEAA 69 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~-~~~~---------~~Rl~~I~~~l~~ii~~~-----~Pd~va 69 (169)
|.|||||-+-.-|+.||+|..+. ++..-+++..+ +..+ .+-+..|..-+++.+++. ++|.||
T Consensus 1 m~iLgIETSCDdTsvaiv~~~~~---il~~~~~sq~~~h~~~GGvvPe~Asr~H~~~i~~lv~~al~~a~i~~~~id~IA 77 (335)
T PRK09604 1 MLILGIESSCDETGVAIVDNGRK---ILANVVASQIEEHARYGGVVPELASRHHVEALPPLLEEALKEAGLSLEDIDAIA 77 (335)
T ss_pred CEEEEEECCCCCEEEEEEECCCC---EEEEEEEECHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHCCEEE
T ss_conf 94999987720017999979891---889877601332268799990999999999999999999986599987897899
Q ss_pred EEH-HHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEC
Q ss_conf 850-33202412478899999999999986016177526
Q gi|254780554|r 70 VEQ-VFVNKDAVATLKLGQARAIAILSPALARIPVSEYA 107 (169)
Q Consensus 70 iE~-~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~ 107 (169)
+-. | + ---.+.+|..- ....+...++|++.+.
T Consensus 78 vT~gP--G--L~g~L~VG~~~--Ak~La~~~~~Pli~Vn 110 (335)
T PRK09604 78 VTAGP--G--LVGALLVGATA--AKALALALNKPLIGVN 110 (335)
T ss_pred EECCC--C--CCHHHHHHHHH--HHHHHHHCCCCEEECC
T ss_conf 94799--9--61139999999--9999998099824112
No 26
>PTZ00340 O-sialoglycoprotein endopeptidase; Provisional
Probab=91.07 E-value=1.4 Score=24.47 Aligned_cols=94 Identities=18% Similarity=0.189 Sum_probs=47.4
Q ss_pred CCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCH-------H--HHHHHHHHHHHHHHHCCC-----CCEE
Q ss_conf 8806999978887205899997199689998336873889998-------8--899999998999862279-----6277
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSL-------A--FRLCQLYEGLTDVIKNWR-----PEEA 68 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~-------~--~Rl~~I~~~l~~ii~~~~-----Pd~v 68 (169)
|.|.||||+-+-.-|+.||++..+. ++ +.+..+-..... . .-+..|..-+++.+++.+ +|.|
T Consensus 6 k~mliLgIETSCDdTsvAiv~~~~~---il-~~~~~s~~~~~~gGVvPe~Asr~H~~~i~~lv~~aL~~a~i~~~did~I 81 (348)
T PTZ00340 6 KRFLALGIEGSANKIGVGIVDGDGE---VL-SNVRETYITPPGEGFLPRETAQHHRQHILSLVQEALEEAGITLSDISLI 81 (348)
T ss_pred CCCEEEEEECCCCCCEEEEEECCCE---EE-EEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHCCCEE
T ss_conf 1377999985550106899979891---88-8652105668889858299999999999999999999859984118579
Q ss_pred EEEHHHHCCCHH--HHHHHHHHHHHHHHHHHHCCCCEEEEC
Q ss_conf 885033202412--478899999999999986016177526
Q gi|254780554|r 69 AVEQVFVNKDAV--ATLKLGQARAIAILSPALARIPVSEYA 107 (169)
Q Consensus 69 aiE~~F~~~n~~--t~~~lg~arGvi~l~~~~~~i~v~ey~ 107 (169)
|+- +.|- ..+.+|..- ....+...++|++.+.
T Consensus 82 AvT-----~gPGL~g~L~VG~~~--AK~La~~~~~Pli~Vn 115 (348)
T PTZ00340 82 CYT-----KGPGMGAPLAVGATV--AKTLSLLWGKPLVGVN 115 (348)
T ss_pred EEC-----CCCCCHHHHHHHHHH--HHHHHHHCCCCEEECC
T ss_conf 972-----799851658999999--9999998099835213
No 27
>COG1548 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=90.27 E-value=0.61 Score=26.74 Aligned_cols=59 Identities=19% Similarity=0.184 Sum_probs=35.6
Q ss_pred CCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf 80699997888720589999719968999833687388999888999999989998622796277885
Q gi|254780554|r 4 SIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVE 71 (169)
Q Consensus 4 ~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE 71 (169)
.|+|||||-|-.+|-.+..|...-+..++..-.. .+++ ++.+.|.++..+|+|+.|++=
T Consensus 2 ~~kilGiDIGGAntk~a~~DG~~~~~d~~YlPMW--k~k~-------rL~~~Lkei~~k~~~~~vgvv 60 (330)
T COG1548 2 KMKILGIDIGGANTKIASSDGDNYKIDHIYLPMW--KKKD-------RLEETLKEIVHKDNVDYVGVV 60 (330)
T ss_pred CCEEEEEECCCCCCHHHHCCCCEEEEEEEEECCC--CCHH-------HHHHHHHHHHCCCCCCEEEEE
T ss_conf 7337775216754301320587014667872000--1155-------789999998503785506888
No 28
>TIGR00250 TIGR00250 conserved hypothetical protein TIGR00250; InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VIIcolicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma urealyticum (Q9PQY7 from SWISSPROT, ). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase . This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC . ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0004518 nuclease activity, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus.
Probab=90.26 E-value=0.27 Score=28.89 Aligned_cols=90 Identities=16% Similarity=0.179 Sum_probs=55.5
Q ss_pred EEECCCCCEEEEEEEEE-ECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHH-CCCHHHHHHH
Q ss_conf 99978887205899997-199689998336873889998889999999899986227962778850332-0241247889
Q gi|254780554|r 8 IGIDPGLRRTGWGIVDV-AGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFV-NKDAVATLKL 85 (169)
Q Consensus 8 LGIDPGl~~tG~avie~-~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~-~~n~~t~~~l 85 (169)
||+|-|+-+.|.||... .|=..+-+. +|+.+...+.- - .+.+++++++|+||.+++==|.- .-..++ ..
T Consensus 1 LglD~GtK~iGvA~g~~~tG~tA~gi~--tik~~~~~~d~-G----l~~i~~l~ke~~~d~~vvGlP~nM~Gt~g~--~~ 71 (133)
T TIGR00250 1 LGLDLGTKSIGVAVGQDITGLTAQGIP--TIKAQDGEPDW-G----LSRIEELLKEWKVDKIVVGLPLNMDGTVGP--LT 71 (133)
T ss_pred CCCCCCCCEEEEEECCCCCCCEECCCH--HHHHCCCCCCC-C----HHHHHHHHHHCCCCEEEECCCCCCCCCCCH--HH
T ss_conf 963246413546763667552104403--11210488862-1----799999873158897886178787887250--26
Q ss_pred HHHHHHHHHHHHHCCCCEEEE
Q ss_conf 999999999998601617752
Q gi|254780554|r 86 GQARAIAILSPALARIPVSEY 106 (169)
Q Consensus 86 g~arGvi~l~~~~~~i~v~ey 106 (169)
-++|-=+.-...+.++||.-.
T Consensus 72 ~~~~kFA~r~~~~~~v~v~l~ 92 (133)
T TIGR00250 72 KRAQKFAKRLEGRFGVPVELM 92 (133)
T ss_pred HHHHHHHHHHHHHHCCCEEEE
T ss_conf 888999988655406643786
No 29
>pfam07318 DUF1464 Protein of unknown function (DUF1464). This family consists of several hypothetical archaeal proteins of around 350 residues in length. The function of this family is unknown.
Probab=90.23 E-value=0.37 Score=28.10 Aligned_cols=108 Identities=23% Similarity=0.189 Sum_probs=57.9
Q ss_pred EECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEH----HHHCCC------
Q ss_conf 9978887205899997199689998336873889998889999999899986227962778850----332024------
Q gi|254780554|r 9 GIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQ----VFVNKD------ 78 (169)
Q Consensus 9 GIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~----~F~~~n------ 78 (169)
|||||+.+...+.+|. ++. +..-.|.|..- .+=-..+-+++.+++||.+|.-. ||..-.
T Consensus 1 GIDPGT~S~dv~g~~d--G~v--~~~~sipt~~v-------~~~p~~iv~~i~e~~~d~IagPSGYGlPlk~~~eltd~e 69 (336)
T pfam07318 1 GIDPGTGSYDVAGVDD--GNV--ILDKSIPTDEV-------TKDPRSLVRLIEEARPDAIAGPSGYGLPLKRARELTERE 69 (336)
T ss_pred CCCCCCCCEEEEEEEC--CEE--EEEEECCHHHH-------HHCHHHHHHHHHHCCCCEEECCCCCCCCCCCHHHCCHHH
T ss_conf 9798986167999728--859--99875278987-------558699999999649988964776786302456578675
Q ss_pred -------HHHHHHHHHHHHHHHHHHHHCCCCEEEE--------CHHHHHHHHCCCCCCCHHHHHH
Q ss_conf -------1247889999999999998601617752--------6067776531688889999999
Q gi|254780554|r 79 -------AVATLKLGQARAIAILSPALARIPVSEY--------APNTIKKAVIGVGHGDKKQIHM 128 (169)
Q Consensus 79 -------~~t~~~lg~arGvi~l~~~~~~i~v~ey--------~P~~vKkavtG~G~A~KeqV~~ 128 (169)
...-.+++-.|..+. ..+..++|++-. -|..-|-..-.-|-|||-.+..
T Consensus 70 i~L~Tl~~~~~~g~~gL~~~~~-~~~~~~ln~~fiPgVIhLpTVP~~RK~NkIDmGTADKvasa~ 133 (336)
T pfam07318 70 IFLATLADPSEEGLGGLRNLMR-LMASKDLNVFFIPGVIHLPTVPAWRKVNRIDMGTADKVASAV 133 (336)
T ss_pred HHHEEECCCCCCCCHHHHHHHH-HHHHCCCCEEEECCEEECCCCCHHHHCCCCCCCCHHHHHHHH
T ss_conf 7562414544433034999999-998568986775755776888045431741365167899999
No 30
>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]
Probab=89.11 E-value=0.53 Score=27.13 Aligned_cols=74 Identities=19% Similarity=0.141 Sum_probs=44.8
Q ss_pred CEEEEECCCCCEEEEEEEEEECC-EEEEEEEEE-EECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCC
Q ss_conf 06999978887205899997199-689998336-873889998889999999899986227962778850332024
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGD-NLCFVSSGT-IVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKD 78 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~-~~~li~~g~-I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n 78 (169)
.-||.|||++..||=+++-..-+ +-...+.|+ |+..+....---+..=-..+-.+++.+--|.|.||.+=.+++
T Consensus 82 VaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGGlS~at~~~i~~ldAaG~DvIIVETVGvGQs 157 (323)
T COG1703 82 VAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGGLSRATREAIKLLDAAGYDVIIVETVGVGQS 157 (323)
T ss_pred EEEEEECCCCCCCCCCCCCCHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCC
T ss_conf 8999988999987853012076677644699817842687765101668899999999861898899981478841
No 31
>TIGR00750 lao LAO/AO transport system ATPase; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components. In Escherichia coli K-12, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase..
Probab=86.98 E-value=0.51 Score=27.23 Aligned_cols=73 Identities=22% Similarity=0.201 Sum_probs=50.7
Q ss_pred EEEEECCCCCEEEEEEEEE-------ECCEEEEEEEEE-EECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCC
Q ss_conf 6999978887205899997-------199689998336-87388999888999999989998622796277885033202
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDV-------AGDNLCFVSSGT-IVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNK 77 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~-------~~~~~~li~~g~-I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~ 77 (169)
=|+.|||++..||=+++-. ..++..+.+=|+ |+..+....--=+..=.+.+-.+++.|--|.|.||.+=+|+
T Consensus 70 aViAvDP~SPfTGGsiLGDr~Rm~~~asrkqlW~dPg~FIRs~ptrG~lGGls~at~~~~~lldA~G~DVI~vETVGVGQ 149 (333)
T TIGR00750 70 AVIAVDPSSPFTGGSILGDRLRMQRLASRKQLWTDPGVFIRSMPTRGSLGGLSKATRELVKLLDAAGYDVILVETVGVGQ 149 (333)
T ss_pred EEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCH
T ss_conf 99988797597551454568877544222233228985676776667525787999999999986389879998415752
Q ss_pred C
Q ss_conf 4
Q gi|254780554|r 78 D 78 (169)
Q Consensus 78 n 78 (169)
.
T Consensus 150 S 150 (333)
T TIGR00750 150 S 150 (333)
T ss_pred H
T ss_conf 4
No 32
>pfam03308 ArgK ArgK protein. The ArgK protein acts as an ATPase enzyme and as a kinase, and phosphorylates periplasmic binding proteins involved in the LAO (lysine, arginine, ornithine)/AO transport systems.
Probab=86.91 E-value=0.49 Score=27.34 Aligned_cols=78 Identities=18% Similarity=0.122 Sum_probs=47.5
Q ss_pred CCCEEEEECCCCCEEEEEEEEEECCEE-EEEEEE-EEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHH
Q ss_conf 880699997888720589999719968-999833-687388999888999999989998622796277885033202412
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGWGIVDVAGDNL-CFVSSG-TIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAV 80 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~avie~~~~~~-~li~~g-~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~ 80 (169)
+..=||.|||++..+|=+++-..-+=. ...+.+ .|+..+....---+..--...-.+++.+.-|.|.||.+=++++--
T Consensus 58 ~~vaVlAvDPSS~~sgGaiLGDr~RM~~~~~~~~vfiRs~~srg~lGGls~~t~~~i~lleaaGfD~IivETVGVGQsE~ 137 (267)
T pfam03308 58 HRVAVLAVDPSSPFTGGSILGDRTRMQRLAVDPGAFIRSSPSRGALGGLSRATREAILLLDAAGFDVIIIETVGVGQSEV 137 (267)
T ss_pred CEEEEEEECCCCCCCCCCCCCCHHHHHHHCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCH
T ss_conf 86899997899988886300107777650589985886457788888714769999999997799999992477775303
No 33
>TIGR02350 prok_dnaK chaperone protein DnaK; InterPro: IPR012725 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes, the grpE protein is a co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold . DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. Members of this family are the chaperone DnaK, of the DnaK-DnaJ-GrpE chaperone system. All members of the seed alignment were taken from completely sequenced bacterial or archaeal genomes and (except for the Mycoplasma sequence) found clustered with other genes of this systems. This entry excludes DnaK homologues that are not DnaK itself, such as the heat shock cognate protein HscA (IPR010236 from INTERPRO). However, it is not designed to distinguish among DnaK paralogs in eukaryotes. Note that a number of DnaK genes have shadow ORFs in the same reverse (relative to dnaK) reading frame, a few of which have been assigned glutamate dehydrogenase activity. The significance of this observation is unclear; the lengths of such shadow ORFs are highly variable as if the presumptive protein product is not conserved.; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding.
Probab=82.75 E-value=1.3 Score=24.76 Aligned_cols=47 Identities=15% Similarity=0.193 Sum_probs=22.4
Q ss_pred CHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCCCC--CCCHHHHHHHHHH
Q ss_conf 6067776531688889999999999962889999--9556789999999
Q gi|254780554|r 107 APNTIKKAVIGVGHGDKKQIHMMLKMLMPESFFK--GKDAADALAIAVC 153 (169)
Q Consensus 107 ~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~~~--~~D~aDAlAiAl~ 153 (169)
++..|-+.+.==|.--=-.|+..|+.+++.+.-+ +.||+=||+-|+=
T Consensus 322 ~~~~I~~v~LVGG~TRiP~V~~~V~~~~GK~p~~~vNPDEvVAiGAAiQ 370 (598)
T TIGR02350 322 SASDIDEVILVGGSTRIPAVQELVKEFFGKEPNKSVNPDEVVAIGAAIQ 370 (598)
T ss_pred CHHHCCEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHH
T ss_conf 8436666898558841248999999872988788888058888878887
No 34
>pfam01869 BcrAD_BadFG BadF/BadG/BcrA/BcrD ATPase family. This family includes the BadF and BadG proteins, which are two subunits of Benzoyl-CoA reductase, that may be involved in ATP hydrolysis. The family also includes an activase subunit from the enzyme 2-hydroxyglutaryl-CoA dehydratase. A member from Aquifex aeolicus contains two copies of this region suggesting that the family may structurally dimerize. This family appears to be related to pfam00370.
Probab=82.74 E-value=3.9 Score=21.75 Aligned_cols=58 Identities=21% Similarity=0.256 Sum_probs=37.9
Q ss_pred EEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 99978887205899997199689998336873889998889999999899986227962
Q gi|254780554|r 8 IGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPE 66 (169)
Q Consensus 8 LGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd 66 (169)
||||-|.++|=|.++|.+++-+.....+.-. ........-...|.+.+.+++++..++
T Consensus 1 lGID~GgTkt~~vl~d~~g~il~~~~~~~~n-~~~~~~~~~~~~l~~~i~~~l~~~g~~ 58 (288)
T pfam01869 1 LGIDGGSTSTKAVLMDDDGEVLGRAKSGSAN-IESVGVEAAVRNLKDAISEALKEAGLD 58 (288)
T ss_pred CEEEECHHHEEEEEEECCCCEEEEEECCCCC-CCCCCHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 9699672347999992999899999757888-666899999999999999999974998
No 35
>TIGR02991 ectoine_eutB ectoine utilization protein EutB; InterPro: IPR014333 Members of this entry are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Mesorhizobium loti, Silicibacter pomeroyi, Agrobacterium tumefaciens, Pseudomonas putida and Sinorhizobium meliloti 1021, where it is known to be induced by ectoine. Members resemble threonine dehydratases. .
Probab=82.06 E-value=1.8 Score=23.78 Aligned_cols=73 Identities=25% Similarity=0.368 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEC-HHHHHHHHCCCCCCCHHHHHH-HHHHHCCCCCCCCCCHHHHHHHHHHHHHHCC
Q ss_conf 78899999999999986016177526-067776531688889999999-9999628899999556789999999764168
Q gi|254780554|r 82 TLKLGQARAIAILSPALARIPVSEYA-PNTIKKAVIGVGHGDKKQIHM-MLKMLMPESFFKGKDAADALAIAVCHAYHAN 159 (169)
Q Consensus 82 ~~~lg~arGvi~l~~~~~~i~v~ey~-P~~vKkavtG~G~A~KeqV~~-mV~~ll~~~~~~~~D~aDAlAiAl~h~~~~~ 159 (169)
.+.+.+.||+.|.++...|=|+.--- |+-- -+ .|-|=-=...+-+ |-+.|+..--.-.+| -||-++||+|.-.
T Consensus 197 VIG~sMeRGAAM~~s~~AGrPv~V~E~ptLA-DS-LGGGIGLdNr~TF~~c~~llDeivL~sE~---EIAagi~HAy~eE 271 (318)
T TIGR02991 197 VIGVSMERGAAMKASLKAGRPVLVEELPTLA-DS-LGGGIGLDNRVTFAMCKELLDEIVLVSED---EIAAGIRHAYAEE 271 (318)
T ss_pred EEEEECCHHHHHHHHHHCCCCEEECCCCHHH-HH-CCCCCCHHHHHHHHHHHHHHHHEEEECHH---HHHHHHHHHHHHH
T ss_conf 8874110137999998458963542451125-45-16761313468999999872115642347---8888987522321
No 36
>PRK03011 butyrate kinase; Provisional
Probab=81.57 E-value=1.5 Score=24.33 Aligned_cols=56 Identities=18% Similarity=0.145 Sum_probs=31.9
Q ss_pred CCEEEEECCCCCEEEEEEEEEECCEE-EEEEEEEEECCCC----CCHHHHHHHHHHHHHHH
Q ss_conf 80699997888720589999719968-9998336873889----99888999999989998
Q gi|254780554|r 4 SIRIIGIDPGLRRTGWGIVDVAGDNL-CFVSSGTIVSCVR----QSLAFRLCQLYEGLTDV 59 (169)
Q Consensus 4 ~MrILGIDPGl~~tG~avie~~~~~~-~li~~g~I~t~~~----~~~~~Rl~~I~~~l~~i 59 (169)
+|+||-|-||++++=|+++|.+.... ..+++..-+.... +..+.|...|.+.|.+-
T Consensus 2 mmkILviN~GSSS~K~alf~~~~~~~~~~i~h~~~~~~~~~~~~~q~~~~~~~i~~~L~~~ 62 (356)
T PRK03011 2 MMRILVINPGSTSTKIAVFEDEKPVFEETLRHSEEELEKFKTIIDQYEFRKQAILEFLEEH 62 (356)
T ss_pred CCEEEEECCCHHHHHHEEEECCCHHHHHHCCCCHHHHCCCCCCHHHHHHHHHHHHHHHHHC
T ss_conf 8649998678065620477088463432144454553344540003889999999999975
No 37
>PRK09605 O-sialoglycoprotein endopeptidase/protein kinase; Reviewed
Probab=81.02 E-value=5 Score=21.08 Aligned_cols=96 Identities=18% Similarity=0.151 Sum_probs=47.8
Q ss_pred CCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHH-----HHHHHHHHHHHHHHHCCC-----CCEEEEEHH
Q ss_conf 8069999788872058999971996899983368738899988-----899999998999862279-----627788503
Q gi|254780554|r 4 SIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLA-----FRLCQLYEGLTDVIKNWR-----PEEAAVEQV 73 (169)
Q Consensus 4 ~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~-----~Rl~~I~~~l~~ii~~~~-----Pd~vaiE~~ 73 (169)
.|.||||--+-..||.||++.+++-+.-. ..+..++..-=.| .-...|..-+++.+++-+ .|.||+-.
T Consensus 1 ~m~vLGIE~Sa~~~gv~ivd~~g~il~n~-~~~~~p~~GGvvPe~Aar~H~~~i~~vv~~aL~~A~i~~~dIdaIA~T~- 78 (536)
T PRK09605 1 DMIVLGIEGTAWKTSAGIVDEDGEILANV-SDPYKPEVGGIHPREAAEHHAEAIPKVIKEALEEAGIKKGDIDLVAFSQ- 78 (536)
T ss_pred CCEEEEEECCCCCCEEEEECCCCCEEEEE-EEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHCCEEEECC-
T ss_conf 93899998675661799992899885642-1311599999990899999999999999999998499988898999906-
Q ss_pred HHCCCHHH--HHHHHHHHHHHHHHHHHCCCCEEEEC
Q ss_conf 32024124--78899999999999986016177526
Q gi|254780554|r 74 FVNKDAVA--TLKLGQARAIAILSPALARIPVSEYA 107 (169)
Q Consensus 74 F~~~n~~t--~~~lg~arGvi~l~~~~~~i~v~ey~ 107 (169)
.|-- .+.+|- -.....+...++|+..+-
T Consensus 79 ----GPGL~g~L~VG~--~~Ak~La~~~~~PligVn 108 (536)
T PRK09605 79 ----GPGLGPCLRVVA--TAARALALSLDVPLIGVN 108 (536)
T ss_pred ----CCCCHHHHHHHH--HHHHHHHHHHCCCEEECC
T ss_conf ----998178689999--999999998499850034
No 38
>cd03114 ArgK-like The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.
Probab=79.84 E-value=2.7 Score=22.72 Aligned_cols=72 Identities=22% Similarity=0.238 Sum_probs=41.9
Q ss_pred CCCEEEEECCCCCEEEEEEEEEECCEEEEEEE----E-EEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCC
Q ss_conf 88069999788872058999971996899983----3-687388999888999999989998622796277885033202
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSS----G-TIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNK 77 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~avie~~~~~~~li~~----g-~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~ 77 (169)
+.+=||.+||++..+|=+++- .+.+..+. + .|+..+......-+..-......+++....|.+.||.+=.+.
T Consensus 28 ~~VaVlavDPsS~~sgGalLG---DRiRm~~~~~~~~vfiRs~atrg~~ggla~~~~~~i~~l~~~g~D~IiIETvGvGQ 104 (148)
T cd03114 28 KRVAVLAIDPSSPFSGGAILG---DRIRMERHASDPGVFIRSLATRGFLGGLSRATPEVIRVLDAAGFDVIIVETVGVGQ 104 (148)
T ss_pred CEEEEEEECCCCCCCCCCCHH---HHHHHHHHCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCC
T ss_conf 837999968887866862032---35453441579983686346666542046889999999997599989997487775
No 39
>PRK09557 fructokinase; Reviewed
Probab=78.88 E-value=5.9 Score=20.65 Aligned_cols=54 Identities=17% Similarity=0.081 Sum_probs=34.4
Q ss_pred CEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf 06999978887205899997199689998336873889998889999999899986227
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNW 63 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~ 63 (169)
||| |||-|-+++=++++|.++. ++....+.|+.. ..++-+..|.+-+.+....+
T Consensus 1 m~i-GiDIGGT~i~~~lvd~~G~---il~~~~~~t~~~-~~~~~~~~i~~li~~~~~~~ 54 (301)
T PRK09557 1 MRI-GIDLGGTKIEVIALDDAGE---ELFRKRLPTPRD-DYQQTIEAIATLVDMAEQAT 54 (301)
T ss_pred CEE-EEEECCCEEEEEEEECCCC---EEEEEEEECCCC-CHHHHHHHHHHHHHHHHHHH
T ss_conf 989-9998732099999979997---999999879998-87999999999999988763
No 40
>PRK09435 arginine/ornithine transport system ATPase; Provisional
Probab=78.76 E-value=1.5 Score=24.31 Aligned_cols=77 Identities=14% Similarity=0.064 Sum_probs=45.0
Q ss_pred CCCEEEEECCCCCEEEEEEEEEECC-EEEEEEEE-EEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCH
Q ss_conf 8806999978887205899997199-68999833-68738899988899999998999862279627788503320241
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGWGIVDVAGD-NLCFVSSG-TIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDA 79 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~avie~~~~-~~~li~~g-~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~ 79 (169)
+..-||.|||++..+|=+++-..-+ +....+-+ .|+..+.....--+..--...-.+++.+.-|.|.||.+=.+++-
T Consensus 78 ~~v~vlavDPsS~~sgGaiLGDr~Rm~~~~~~~~~fiRs~~srg~lgg~~~~~~~~~~~~~a~g~d~i~iETvGvGQ~e 156 (325)
T PRK09435 78 HKVAVLAVDPSSTRTGGSILGDKTRMERLSRHPNAFIRPSPSSGTLGGVARKTRETMLLCEAAGFDVILVETVGVGQSE 156 (325)
T ss_pred CEEEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEEECCCCHHH
T ss_conf 8589999789999888610103888876147998488406778886773354999999999779998999706777148
No 41
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=75.73 E-value=7.3 Score=20.10 Aligned_cols=54 Identities=15% Similarity=0.122 Sum_probs=36.4
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCC
Q ss_conf 9999788872058999971996899983368738899988899999998999862279
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWR 64 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~ 64 (169)
.||||-|=+++=++++|.++. ++....+.|+. .+..+-+..|.+-+.+...++.
T Consensus 2 ~lGiDIGGT~i~~~l~d~~g~---i~~~~~~~Tp~-~~~~~~~~~i~~~i~~~~~~~~ 55 (302)
T PRK13310 2 YYGFDIGGTKIELGVFDEKLE---LQWEKRVPTPR-DSYDAFLDAVCELVAEADQRFG 55 (302)
T ss_pred EEEEEECCHHEEEEEEECCCC---EEEEEEEECCC-CCHHHHHHHHHHHHHHHHHHCC
T ss_conf 999991700499999978997---99999987999-9999999999999999876558
No 42
>PRK00025 lpxB lipid-A-disaccharide synthase; Reviewed
Probab=73.98 E-value=8 Score=19.83 Aligned_cols=72 Identities=22% Similarity=0.273 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHCCCCCEEEEEH-HHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCHHH
Q ss_conf 89999999899986227962778850-33202412478899999999999986016177526067776531688889999
Q gi|254780554|r 47 FRLCQLYEGLTDVIKNWRPEEAAVEQ-VFVNKDAVATLKLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDKKQ 125 (169)
Q Consensus 47 ~Rl~~I~~~l~~ii~~~~Pd~vaiE~-~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~Keq 125 (169)
-++..+.+.+.+.+.+++||.+..=+ +=|+ +.++.. +-....++|++.|-|=|||-. +.|++.|
T Consensus 68 ~~~~~~~~~~~~~i~~~~Pd~vi~ID~pgFn------lrlak~-----lkk~~~~ipvi~yv~PqvWAW--r~~R~k~-- 132 (382)
T PRK00025 68 PRLLKIRKELKRLLLAEPPDVFILIDAPDFN------LRLAKK-----LKKALPGIPIIHYVSPSVWAW--RPGRAKK-- 132 (382)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEECCCHHH------HHHHHH-----HHHHCCCCCEEEEECCHHHHC--CCCHHHH--
T ss_conf 9999999999999986499999997783065------999999-----997169998899947156540--6418999--
Q ss_pred HHHHHHHH
Q ss_conf 99999996
Q gi|254780554|r 126 IHMMLKML 133 (169)
Q Consensus 126 V~~mV~~l 133 (169)
+.+.+-.+
T Consensus 133 ~~~~~D~l 140 (382)
T PRK00025 133 IAKATDHV 140 (382)
T ss_pred HHHHHHHH
T ss_conf 99999876
No 43
>COG1924 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]
Probab=73.53 E-value=8.2 Score=19.76 Aligned_cols=39 Identities=21% Similarity=0.247 Sum_probs=28.6
Q ss_pred CCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCH
Q ss_conf 8806999978887205899997199689998336873889998
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSL 45 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~ 45 (169)
..|..||||-|++.|=-.+++..+ .+.++.+.+++..+.
T Consensus 133 ~~~~~LGID~GSTtTK~VLm~d~~----~I~~~~~~~t~g~p~ 171 (396)
T COG1924 133 QGMYTLGIDSGSTTTKAVLMEDGK----EILYGFYVSTKGRPI 171 (396)
T ss_pred CCCEEEEEECCCCCEEEEEEECCC----EEEEEEEECCCCCHH
T ss_conf 286799762387413599983797----578889975788766
No 44
>PRK10331 L-fuculokinase; Provisional
Probab=72.78 E-value=8.6 Score=19.65 Aligned_cols=62 Identities=18% Similarity=0.098 Sum_probs=35.2
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEEEE--EEEEECCCCC-----CHHHHHHHHHHHHHHHHHCCCCCE
Q ss_conf 6999978887205899997199689998--3368738899-----988899999998999862279627
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVS--SGTIVSCVRQ-----SLAFRLCQLYEGLTDVIKNWRPEE 67 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~li~--~g~I~t~~~~-----~~~~Rl~~I~~~l~~ii~~~~Pd~ 67 (169)
-|||||-|++++=-+++|.+|+.+..-. +......++. +..+=...+.+.+++++.+.+++.
T Consensus 3 ~iLgID~GTts~Ka~l~d~~G~ila~~~~~~~~~~~~~~~~~~e~d~e~~w~~~~~~~~~~~~~~~~~~ 71 (470)
T PRK10331 3 VILVLDCGATNVRAIAVDRQGKIVARASTPNATDIAAENSDWHQWSLDAILQRFADCCRQINSELSECH 71 (470)
T ss_pred EEEEEECCCCCEEEEEECCCCCEEEEEEECCCCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHHCCHHC
T ss_conf 899994463210356983999999999844667788999987357899999999999999985367314
No 45
>pfam00370 FGGY_N FGGY family of carbohydrate kinases, N-terminal domain. This domain adopts a ribonuclease H-like fold and is structurally related to the C-terminal domain.
Probab=69.82 E-value=10 Score=19.24 Aligned_cols=55 Identities=18% Similarity=0.221 Sum_probs=35.8
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCC---C-----CCHHHHHHHHHHHHHHHHHCCC
Q ss_conf 99997888720589999719968999833687388---9-----9988899999998999862279
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCV---R-----QSLAFRLCQLYEGLTDVIKNWR 64 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~---~-----~~~~~Rl~~I~~~l~~ii~~~~ 64 (169)
+||||-|++++=.+++|.+++. +..+....+. . .+..+=...+.+.+.+++++.+
T Consensus 2 ~lgIDiGTt~iKa~l~d~~g~~---i~~~~~~~~~~~~~~g~~eqdp~~~~~~~~~~~~~~~~~~~ 64 (245)
T pfam00370 2 VLGIDCGTTSTKAIVFNKQGKV---VASASAPYALISPKPGWAEQDPEEIWQALAQAIRKILQQSG 64 (245)
T ss_pred EEEEEHHHCCEEEEEECCCCCE---EEEEEEECCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHCC
T ss_conf 9999803002100078599999---99999857721589990799999999999999999998739
No 46
>TIGR02390 RNA_pol_rpoA1 DNA-directed RNA polymerase subunit A'; InterPro: IPR012758 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme . The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length . The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kD, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of the archaeal A' subunit of the DNA-directed RNA polymerase. The example from Methanococcus jannaschii contains an intein.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0008270 zinc ion binding, 0006350 transcription.
Probab=68.48 E-value=5 Score=21.11 Aligned_cols=65 Identities=20% Similarity=0.455 Sum_probs=49.6
Q ss_pred CEEEEECCCCCEEEEEEEEEE---CC--EEEE-EEEEEEECCCCCCHHHHHHHH---HHHHHHHHHCCCCCEEEEEHH
Q ss_conf 069999788872058999971---99--6899-983368738899988899999---998999862279627788503
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVA---GD--NLCF-VSSGTIVSCVRQSLAFRLCQL---YEGLTDVIKNWRPEEAAVEQV 73 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~---~~--~~~l-i~~g~I~t~~~~~~~~Rl~~I---~~~l~~ii~~~~Pd~vaiE~~ 73 (169)
.++|||||...+==|.|+-+= .= ++++ +++|. .+.|++..+|..| .++|++.++.-.|+.+ ||++
T Consensus 199 ~~llG~~Pk~aRPEWmvLTVLpVPPvtVRPSItLEtG~---RSEDDLTHKLVDIiRiN~RL~e~~~~GAP~lI-iEdL 272 (901)
T TIGR02390 199 LELLGINPKVARPEWMVLTVLPVPPVTVRPSITLETGE---RSEDDLTHKLVDIIRINQRLKENIEAGAPQLI-IEDL 272 (901)
T ss_pred HHHCCCCCCCCCCHHEEEECCCCCCCCCCCCEEECCCC---CCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCH-HHHH
T ss_conf 44106678878730100010478118547641003667---52124677899998650799999753787304-6655
No 47
>PRK00180 acetate kinase; Reviewed
Probab=67.61 E-value=8.3 Score=19.74 Aligned_cols=23 Identities=13% Similarity=0.475 Sum_probs=20.8
Q ss_pred CEEEEECCCCCEEEEEEEEEECC
Q ss_conf 06999978887205899997199
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGD 27 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~ 27 (169)
|+||-|-||++++=|+++|.++.
T Consensus 1 MkILviN~GSSS~K~alf~~~~~ 23 (399)
T PRK00180 1 MKILVLNAGSSSLKFQLIDMPEE 23 (399)
T ss_pred CEEEEECCCHHHHEEEEEECCCC
T ss_conf 95999847817561589976998
No 48
>COG3426 Butyrate kinase [Energy production and conversion]
Probab=67.47 E-value=4.8 Score=21.21 Aligned_cols=22 Identities=27% Similarity=0.466 Sum_probs=19.0
Q ss_pred CEEEEECCCCCEEEEEEEEEEC
Q ss_conf 0699997888720589999719
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAG 26 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~ 26 (169)
-|||-|.||+++|-.||++.+.
T Consensus 3 yriltINPGststKlaVfe~ek 24 (358)
T COG3426 3 YRILTINPGSTSTKLAVFEDEK 24 (358)
T ss_pred EEEEEECCCCCCCEEEEECCCH
T ss_conf 2479856998641578961835
No 49
>TIGR03446 mycothiol_Mca mycothiol conjugate amidase Mca. Mycobacterium tuberculosis, Corynebacterium glutamicum, and related species use the thiol mycothiol in place of glutathione. This enzyme, homologous to the (dispensible) MshB enzyme of mycothiol biosynthesis, is described as an amidase that acts on conjugates to mycothiol. It is a detoxification enzyme.
Probab=66.93 E-value=3.5 Score=22.08 Aligned_cols=84 Identities=20% Similarity=0.194 Sum_probs=47.9
Q ss_pred CCCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCC-----CHH-HHHHHHHHHHHHHHHCCCCCEEEEEHHHH
Q ss_conf 988069999788872058999971996899983368738899-----988-89999999899986227962778850332
Q gi|254780554|r 2 RKSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQ-----SLA-FRLCQLYEGLTDVIKNWRPEEAAVEQVFV 75 (169)
Q Consensus 2 ~~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~-----~~~-~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~ 75 (169)
.+++++||+++ +-.|| .|+|.-.-.+.. .+. .-+.+..+.|.++|++++|++|.-=+.+=
T Consensus 67 ~~A~~~LGv~~--~~Lgy------------~DSGm~~~~~~~~~p~~~f~~~~~~eaa~~L~~~ir~~rP~Vvvtyd~~G 132 (283)
T TIGR03446 67 AEAAEILGVEH--RWLGF------------VDSGLPEGDPLPPLPEGCFALEPLEEAAEPLVRVIREFRPHVITTYDENG 132 (283)
T ss_pred HHHHHHHCCCC--EECCC------------CCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHHHHHCCCEEEECCCCC
T ss_conf 99998628841--45342------------47778678999999820444099899999999999986899899438998
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 024124788999999999999860161
Q gi|254780554|r 76 NKDAVATLKLGQARAIAILSPALARIP 102 (169)
Q Consensus 76 ~~n~~t~~~lg~arGvi~l~~~~~~i~ 102 (169)
+..-.--+...++ .+.+....+-|
T Consensus 133 gYgHPDHi~~H~v---t~~A~~~A~dp 156 (283)
T TIGR03446 133 GYPHPDHIMCHEV---SVEAFEAAGDP 156 (283)
T ss_pred CCCCCHHHHHHHH---HHHHHHHCCCC
T ss_conf 8999059999999---99999970893
No 50
>pfam04250 DUF429 Protein of unknown function (DUF429).
Probab=66.18 E-value=3.8 Score=21.83 Aligned_cols=59 Identities=22% Similarity=0.081 Sum_probs=39.8
Q ss_pred HCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHH--C-------------CCCCCCCCCHHHHHHHHHHHHH
Q ss_conf 601617752606777653168888999999999996--2-------------8899999556789999999764
Q gi|254780554|r 98 LARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKML--M-------------PESFFKGKDAADALAIAVCHAY 156 (169)
Q Consensus 98 ~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~l--l-------------~~~~~~~~D~aDAlAiAl~h~~ 156 (169)
..+..++|.-|--.=++..|+-..+|.--....+++ | .......||.-||+++|++-..
T Consensus 109 ~~~~~v~E~HPE~~F~~l~g~~~~~Kkt~~G~~eR~~lL~~~~~~~~~~~~~~~~~~~~DD~lDA~~~a~tA~~ 182 (202)
T pfam04250 109 ELGLEVIETHPEASFKALGGSPVASKKTKEGRAERRALLARLGIDEWALEAYRRRGVAADDELDAAAAALTARA 182 (202)
T ss_pred CCCCHHHHHCHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf 00230556485999999659966678886899999999998198488886235568983019999999999799
No 51
>PRK10854 exopolyphosphatase; Provisional
Probab=63.30 E-value=13 Score=18.45 Aligned_cols=65 Identities=11% Similarity=0.044 Sum_probs=36.9
Q ss_pred CCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECC--------CCCCH--HHHHHHHHHHHHHHHHCCCCCE
Q ss_conf 88069999788872058999971996899983368738--------89998--8899999998999862279627
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSC--------VRQSL--AFRLCQLYEGLTDVIKNWRPEE 67 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~--------~~~~~--~~Rl~~I~~~l~~ii~~~~Pd~ 67 (169)
++.++=.||-|+++.=.-|.+..++.++.++.-.-.+. ...+. -+|....-..+.++++.|.++.
T Consensus 9 ~p~~~AaIDIGSNS~rL~Ia~~~~g~~~~l~~~k~~vRLg~gl~~~g~Ls~eai~R~l~~L~~F~~~~~~~~~~~ 83 (513)
T PRK10854 9 RPQEFAAVDLGSNSFHMVIARVVDGAMQIIGRLKQRVHLADGLGPDNMLSEEAMERGLNCLSLFAERLQGFSPAS 83 (513)
T ss_pred CCCEEEEEEECCCCEEEEEEEECCCCEEEEHHEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCE
T ss_conf 987699998747726589999649962250011689606477566798099999999999999999997479977
No 52
>PRK00047 glpK glycerol kinase; Provisional
Probab=62.39 E-value=14 Score=18.35 Aligned_cols=59 Identities=12% Similarity=0.066 Sum_probs=35.1
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEE--EEEEEEECCCC---CCHHHHHHHHHHHHHHHHHCCC
Q ss_conf 69999788872058999971996899--98336873889---9988899999998999862279
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCF--VSSGTIVSCVR---QSLAFRLCQLYEGLTDVIKNWR 64 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~l--i~~g~I~t~~~---~~~~~Rl~~I~~~l~~ii~~~~ 64 (169)
-|||||-|++++=-+++|.+|+.+.. .++..+.+.+. .+..+=...+.+.+++++.+..
T Consensus 6 yvlgiD~GTts~Ka~l~d~~G~~~a~~~~~~~~~~p~~g~~EqDp~~~W~~~~~~i~~~~~~~~ 69 (498)
T PRK00047 6 YILALDQGTTSSRAIIFDHKGNIVSVAQKEFTQIFPQPGWVEHDPNEIWASQLSVIAEALAKAG 69 (498)
T ss_pred EEEEEECCCCEEEEEEECCCCCEEEEEEECCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHHCC
T ss_conf 7999974633035669969999999998525620599985778899999999999999999749
No 53
>COG0381 WecB UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]
Probab=60.83 E-value=15 Score=18.18 Aligned_cols=67 Identities=24% Similarity=0.315 Sum_probs=45.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEE----------CHH
Q ss_conf 8899988899999998999862279627788503320241247889999999999998601617752----------606
Q gi|254780554|r 40 CVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSEY----------APN 109 (169)
Q Consensus 40 ~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey----------~P~ 109 (169)
.++.++.+-...+...+++++.+.+||.|.|-.- ..|+ ++ .-++|....|||... .|-
T Consensus 68 ~~~~tl~~~t~~~i~~~~~vl~~~kPD~VlVhGD-----T~t~--lA-----~alaa~~~~IpV~HvEAGlRt~~~~~PE 135 (383)
T COG0381 68 KPGQTLGEITGNIIEGLSKVLEEEKPDLVLVHGD-----TNTT--LA-----GALAAFYLKIPVGHVEAGLRTGDLYFPE 135 (383)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHCCCEEEEECC-----CCHH--HH-----HHHHHHHHCCCEEEEECCCCCCCCCCCH
T ss_conf 6688889999999999999998629998999178-----5368--89-----9999998689368874254447877837
Q ss_pred HHHHHHCCC
Q ss_conf 777653168
Q gi|254780554|r 110 TIKKAVIGV 118 (169)
Q Consensus 110 ~vKkavtG~ 118 (169)
++-.-+||+
T Consensus 136 E~NR~l~~~ 144 (383)
T COG0381 136 EINRRLTSH 144 (383)
T ss_pred HHHHHHHHH
T ss_conf 987878877
No 54
>COG0533 QRI7 Metal-dependent proteases with possible chaperone activity [Posttranslational modification, protein turnover, chaperones]
Probab=60.21 E-value=15 Score=18.11 Aligned_cols=22 Identities=36% Similarity=0.537 Sum_probs=19.7
Q ss_pred CEEEEECCCCCEEEEEEEEEEC
Q ss_conf 0699997888720589999719
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAG 26 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~ 26 (169)
|+||||.-+-.-||.||++.++
T Consensus 1 m~iLGIEtScDeT~vaIv~~~~ 22 (342)
T COG0533 1 MIILGIETSCDETGVAIVDEEK 22 (342)
T ss_pred CEEEEEECCCCCCEEEEEECCC
T ss_conf 9689987465652368984467
No 55
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=58.03 E-value=7.7 Score=19.94 Aligned_cols=25 Identities=20% Similarity=0.182 Sum_probs=11.4
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEE
Q ss_conf 6999978887205899997199689
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLC 30 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~ 30 (169)
+||=+|-|-..+-.+|++..++.+.
T Consensus 213 ~vlVyDLGGGTfDVSIl~~~~g~fe 237 (657)
T PTZ00186 213 LIAVYDLGGGTFDISVLEIAGGVFE 237 (657)
T ss_pred EEEEEECCCCEEEEEEEEEECCEEE
T ss_conf 7999987996178899999788689
No 56
>pfam00480 ROK ROK family.
Probab=57.57 E-value=17 Score=17.83 Aligned_cols=52 Identities=19% Similarity=0.259 Sum_probs=36.8
Q ss_pred EECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCC
Q ss_conf 99788872058999971996899983368738899988899999998999862279
Q gi|254780554|r 9 GIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWR 64 (169)
Q Consensus 9 GIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~ 64 (169)
|||-|-+++=++++|..+. ++....+.++. .+..+-+..|.+.++++..++.
T Consensus 1 GiDiGgt~i~~~l~d~~G~---i~~~~~~~~~~-~~~~~~~~~l~~~i~~~~~~~~ 52 (181)
T pfam00480 1 GIDLGGTKIELALFDEDGE---ILDRERIPTPE-TTPEETLDALVDFVEEAITQYG 52 (181)
T ss_pred CEEECCCEEEEEEECCCCC---EEEEEEEECCC-CCHHHHHHHHHHHHHHHHHHCC
T ss_conf 9997885899999949997---99999998999-9999999999999999887519
No 57
>COG1070 XylB Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]
Probab=57.02 E-value=17 Score=17.78 Aligned_cols=64 Identities=20% Similarity=0.232 Sum_probs=39.9
Q ss_pred CCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCC--------CCCHHHHHHHHHHHHHHHHHCC--CCCEEE
Q ss_conf 80699997888720589999719968999833687388--------9998889999999899986227--962778
Q gi|254780554|r 4 SIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCV--------RQSLAFRLCQLYEGLTDVIKNW--RPEEAA 69 (169)
Q Consensus 4 ~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~--------~~~~~~Rl~~I~~~l~~ii~~~--~Pd~va 69 (169)
.+-+||||-|++++=-.++|.++. ..+......... ..+..+=...+.+.+++++++. .++.|.
T Consensus 3 ~~~~lgIDiGTt~~Kavl~d~~~~--~~~~~~~~~~~~~~~~~g~~e~d~~~~w~~~~~ai~~l~~~~~~~~~~I~ 76 (502)
T COG1070 3 MKYVLGIDIGTTSVKAVLFDEDGG--EVVATARFENPVSTPQPGWAEQDPDELWQAILEALRQLLEESKIDPDAIA 76 (502)
T ss_pred CCEEEEEECCCCCEEEEEEECCCC--EEEEEEECCCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHHCCCCCCCEE
T ss_conf 877999981578558999988998--49999840467556899970338999999999999999985378811067
No 58
>TIGR00340 zpr1_rel zinc finger protein ZPR1 homolog; InterPro: IPR004470 Zinc finger (Znf) domains are relatively small protein motifs that bind one or more zinc atoms, and which usually contain multiple finger-like protrusions that make tandem contacts with their target molecule. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis, 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. (Note that in certain cases, some Znf domains have diverged such that they still maintain their core structure, but have lost their ability to bind zinc, using other means such as salt bridges or binding to other metals to stabilise the finger-like folds. These domains can show strong sequence identity to zinc-binding motifs, and may therefore be included in Znf entries). This entry represents ZPR1-type zinc finger domains. ZPR1 was shown experimentally to bind approximately two moles of zinc, and has two copies of a domain homologous to this protein, each containing a putative zinc finger of the form CXXCX(25)CXXC. ZPR1 binds the tyrosine kinase domain of epidermal growth factor receptor but is displaced by receptor activation and autophosphorylation after which it redistributes in part to the nucleus. The proteins described by this family by analogy may be suggested to play a role in signal transduction as proven for other Z-finger binding proteins. Deficiencies in ZPR1 may contribute to neurodegenerative disorders. ZPR1 appears to be down-regulated in patients with spinal muscular atrophy (SMA), a disease characterised by degeneration of the alpha-motor neurons in the spinal cord that can arise from mutations affecting the expression of Survival Motor Neurons (SMN) . ZPR1 interacts with complexes formed by SMN , and may act as a modifier that effects the severity of SMA. More information about these proteins can be found at Protein of the Month: Zinc Fingers .; GO: 0008270 zinc ion binding.
Probab=55.88 E-value=2.7 Score=22.76 Aligned_cols=63 Identities=17% Similarity=0.285 Sum_probs=46.1
Q ss_pred EEECCCCCEEEE-----EEEEEECCEEEEEEEEEEECCCCC---CHHHHHHHHHHHHHHHHHCCCC-CEEEEEHHH
Q ss_conf 999788872058-----999971996899983368738899---9888999999989998622796-277885033
Q gi|254780554|r 8 IGIDPGLRRTGW-----GIVDVAGDNLCFVSSGTIVSCVRQ---SLAFRLCQLYEGLTDVIKNWRP-EEAAVEQVF 74 (169)
Q Consensus 8 LGIDPGl~~tG~-----avie~~~~~~~li~~g~I~t~~~~---~~~~Rl~~I~~~l~~ii~~~~P-d~vaiE~~F 74 (169)
+-||||-..-|| ||||.-..++.... .....+ .--.|...|-+.++++++-+.+ --+.||++|
T Consensus 82 ~~IEPgp~s~G~IsniEGvleR~~~~l~~~~----~~~e~d~dEE~v~~~~~il~~I~~~~eG~~~s~TlII~Dpf 153 (168)
T TIGR00340 82 IKIEPGPASQGYISNIEGVLERVEEVLKTAL----DLEEEDRDEEKVKKVEEILKKIREVIEGKKKSLTLIIEDPF 153 (168)
T ss_pred EEECCCCCCCCEEEHHHHHHHHHHHHHHHHH----HCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCC
T ss_conf 5779734456035214677788999998863----00132210477899999998754653587540579987688
No 59
>TIGR03192 benz_CoA_bzdQ benzoyl-CoA reductase, bzd-type, Q subunit. Members of this family are the Q subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=54.08 E-value=19 Score=17.48 Aligned_cols=82 Identities=15% Similarity=0.072 Sum_probs=44.2
Q ss_pred CCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCC---CCEEEEEHHHHCCC-
Q ss_conf 88069999788872058999971996899983368738899988899999998999862279---62778850332024-
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWR---PEEAAVEQVFVNKD- 78 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~---Pd~vaiE~~F~~~n- 78 (169)
..|-.+|||-|++.|=..+++ ++ +++.+..+.|...-..+ .. +.+.+++++.. ++.-.+=..=|+|+
T Consensus 30 ~~mit~GIDiGSTttK~Vll~-d~---~ii~~~~~~tg~~~~~a--a~---~~l~~~l~~~g~~~~~i~~iv~TGYGR~~ 100 (293)
T TIGR03192 30 AKIITCGIDVGSVSSQAVLVC-DG---ELYGYNSMRTGNNSPDS--AK---NALQGIMDKIGMKLEDINYVVGTGYGRVN 100 (293)
T ss_pred CCEEEEEEECCCHHEEEEEEE-CC---CEEEEEEEECCCCHHHH--HH---HHHHHHHHHCCCCHHHCEEEEECCCCHHH
T ss_conf 657999787180266899994-89---29999986069982899--99---99999999859986676389843864221
Q ss_pred ------HHHHHHHHHHHHHHHH
Q ss_conf ------1247889999999999
Q gi|254780554|r 79 ------AVATLKLGQARAIAIL 94 (169)
Q Consensus 79 ------~~t~~~lg~arGvi~l 94 (169)
.-+ -...+++|+..+
T Consensus 101 i~~a~~~it-EIt~Ha~GA~~l 121 (293)
T TIGR03192 101 VPFAHKAIT-EIACHARGANYM 121 (293)
T ss_pred CCCCCCCEE-EEHHHHHHHHHH
T ss_conf 221135567-706789999974
No 60
>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=54.06 E-value=19 Score=17.48 Aligned_cols=77 Identities=8% Similarity=0.073 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEC-HHHHHHHHCCCCCCCHHHHHH
Q ss_conf 9999989998622796277885033202412478899999999999986016177526-067776531688889999999
Q gi|254780554|r 50 CQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSEYA-PNTIKKAVIGVGHGDKKQIHM 128 (169)
Q Consensus 50 ~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~-P~~vKkavtG~G~A~KeqV~~ 128 (169)
..+.+.+.++.+.|+|+.++|=.- -.+.+.---..+++.-+....++||..+. |.-.....+|+-++-+.-|..
T Consensus 71 ~kL~~~I~~~~~~y~P~~I~V~tT-----C~~eiIGDDi~~v~~~~~~~~~~pvi~v~tpgf~gs~~~G~~~~~~~lv~~ 145 (430)
T cd01981 71 EKVVENITRKDKEEKPDLIVLTPT-----CTSSILQEDLQNFVRAAGLSSKSPVLPLDVNHYRVNELQAADETFEQLVRF 145 (430)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEEC-----CHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHH
T ss_conf 999999999998439976899714-----438876314888987643057996797518984555058999999999999
Q ss_pred HHH
Q ss_conf 999
Q gi|254780554|r 129 MLK 131 (169)
Q Consensus 129 mV~ 131 (169)
+++
T Consensus 146 ~~~ 148 (430)
T cd01981 146 YAE 148 (430)
T ss_pred HHH
T ss_conf 851
No 61
>pfam01963 TraB TraB family. pAD1 is a hemolysin/bacteriocin plasmid originally identified in Enterococcus faecalis DS16. It encodes a mating response to a peptide sex pheromone, cAD1, secreted by recipient bacteria. Once the plasmid pAD1 is acquired, production of the pheromone ceases--a trait related in part to a determinant designated traB. However a related protein is found in C. elegans, suggesting that members of the TraB family have some more general function.
Probab=53.06 E-value=11 Score=18.93 Aligned_cols=20 Identities=40% Similarity=0.519 Sum_probs=16.9
Q ss_pred HHHHHHHHHCCCCCEEEEEH
Q ss_conf 99899986227962778850
Q gi|254780554|r 53 YEGLTDVIKNWRPEEAAVEQ 72 (169)
Q Consensus 53 ~~~l~~ii~~~~Pd~vaiE~ 72 (169)
.+.++++|++.+||.|+||=
T Consensus 19 ~~~V~~~I~~~~PD~V~VEL 38 (225)
T pfam01963 19 VEEVRRVIEEERPDAVAVEL 38 (225)
T ss_pred HHHHHHHHHHCCCCEEEEEE
T ss_conf 99999999861999799756
No 62
>PTZ00317 malic enzyme; Provisional
Probab=52.94 E-value=15 Score=18.08 Aligned_cols=122 Identities=20% Similarity=0.237 Sum_probs=65.8
Q ss_pred EEEEE-CCCCCEEEEEEEE---------EECCE--EEEEEEEEE-----------ECCCCCCHHHHHHHHH-HHHHHHHH
Q ss_conf 69999-7888720589999---------71996--899983368-----------7388999888999999-98999862
Q gi|254780554|r 6 RIIGI-DPGLRRTGWGIVD---------VAGDN--LCFVSSGTI-----------VSCVRQSLAFRLCQLY-EGLTDVIK 61 (169)
Q Consensus 6 rILGI-DPGl~~tG~avie---------~~~~~--~~li~~g~I-----------~t~~~~~~~~Rl~~I~-~~l~~ii~ 61 (169)
||||| |-|.+.+|..|=. +...+ +-.+|.|+= -.+.+.-..+.+-... +.+..+-+
T Consensus 156 rILGlGDlG~~GmgI~iGKl~lYta~~Gi~P~~~LPV~LDvGTnN~~LL~Dp~YlG~r~~R~~g~~Y~~fvdefv~av~~ 235 (570)
T PTZ00317 156 RILGLGDLGANGIGISIGKCSLYVAGAGIKPSRVLPVVLDVGTNNEKYLNDPLYLGLREKRLGDEEFYALLDEFMEAASA 235 (570)
T ss_pred CEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHCCCCEEEECCCCHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf 11202666678544008889999871588830058768756888388736974467678888767899999999999998
Q ss_pred CCCCCEEEEEHHHHCCCHHHHHHHH-----------HHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCCCCH---HHHH
Q ss_conf 2796277885033202412478899-----------9999999999860161775260677765316888899---9999
Q gi|254780554|r 62 NWRPEEAAVEQVFVNKDAVATLKLG-----------QARAIAILSPALARIPVSEYAPNTIKKAVIGVGHGDK---KQIH 127 (169)
Q Consensus 62 ~~~Pd~vaiE~~F~~~n~~t~~~lg-----------~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~A~K---eqV~ 127 (169)
.| |..+.=-+-|-..|....+.-= |-.|++.+++....+.+..-.-...|-.+.|-|.|.= +++.
T Consensus 236 ~~-P~~liqfEDF~~~nA~~lL~~Yr~~~~~FNDDiQGTaaV~LAgll~Alritg~~l~d~riv~~GAGsAg~GIA~~l~ 314 (570)
T PTZ00317 236 TW-PSAVVQFEDFSNNHCFDMLERYQKKYRCFNDDIQGTGAVIAAGFLNAVKLSGVPPLEQRIVFFGAGSAATGVAENIA 314 (570)
T ss_pred HC-CCEEEEECCCCCHHHHHHHHHHHHCCCEECCCCHHHHHHHHHHHHHHHHHHCCCHHHCEEEEECCCHHHHHHHHHHH
T ss_conf 78-98289724489544899999998537642144213889999999999998499864617999778818999999999
Q ss_pred H
Q ss_conf 9
Q gi|254780554|r 128 M 128 (169)
Q Consensus 128 ~ 128 (169)
.
T Consensus 315 ~ 315 (570)
T PTZ00317 315 D 315 (570)
T ss_pred H
T ss_conf 9
No 63
>TIGR02707 butyr_kinase butyrate kinase; InterPro: IPR011245 This group represents bacterial butyrate kinase, an enzyme that facilitates the formation of butyryl-CoA by phosphorylating butyrate in the presence of ATP to form butyryl phosphate . The final steps in butyrate synthesis by anaerobic bacteria can occur via butyrate kinase and phosphotransbutyrylase or via butyryl-CoA:acetate CoA-transferase, the latter providing the dominant route for butyrate formation in human colonic bacteria .; GO: 0005524 ATP binding, 0047761 butyrate kinase activity, 0016310 phosphorylation, 0005737 cytoplasm.
Probab=52.75 E-value=20 Score=17.40 Aligned_cols=116 Identities=18% Similarity=0.199 Sum_probs=64.0
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEEEEEEEEE-----CC----CCCCHHHHHHHHHHHHHHH-HHCCCCCEEEEE----
Q ss_conf 699997888720589999719968999833687-----38----8999888999999989998-622796277885----
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIV-----SC----VRQSLAFRLCQLYEGLTDV-IKNWRPEEAAVE---- 71 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~li~~g~I~-----t~----~~~~~~~Rl~~I~~~l~~i-i~~~~Pd~vaiE---- 71 (169)
+||=|-||+|+|=.||.+.+.- |--.+++ +. --+-++.|...|.+.|++- |+--+-|.|+--
T Consensus 1 ~iLvINPGSTSTK~avf~de~~----~~~~tlrH~~eEL~~f~~v~dQfeFR~~~i~~~L~e~Gi~~~~l~AvVgRGGLL 76 (353)
T TIGR02707 1 KILVINPGSTSTKLAVFEDEKP----LFEETLRHSVEELAKFKNVIDQFEFRKQVILEVLEEKGINISKLDAVVGRGGLL 76 (353)
T ss_pred CCEEECCCCCCEEEEEEECCEE----EEEECCCCCHHHHHCCCCEEECHHHHHHHHHHHHHHCCCCHHHEEEEEECCCCC
T ss_conf 9227679860000335657806----786446258787305664021126899999999874088712431579727702
Q ss_pred ----------------HHHHCCCHHHHHHHHHHHHHHHHH--HHHCC-CCEEEECHHHH-----HHHHCCCCCCCHHHHH
Q ss_conf ----------------033202412478899999999999--98601-61775260677-----7653168888999999
Q gi|254780554|r 72 ----------------QVFVNKDAVATLKLGQARAIAILS--PALAR-IPVSEYAPNTI-----KKAVIGVGHGDKKQIH 127 (169)
Q Consensus 72 ----------------~~F~~~n~~t~~~lg~arGvi~l~--~~~~~-i~v~ey~P~~v-----KkavtG~G~A~KeqV~ 127 (169)
++=-+++...+=.| |+|+.. |...+ ||.|-.=|--| =--|+|.-.-.|.-+.
T Consensus 77 kPi~GGTY~Vn~~MleDLk~~~~GeHASNL----GaIIA~~lA~~~~diPafIVDPVVVDEledvARISG~P~i~RkSIf 152 (353)
T TIGR02707 77 KPIEGGTYLVNEKMLEDLKEGKRGEHASNL----GAIIARELADELNDIPAFIVDPVVVDELEDVARISGLPEIERKSIF 152 (353)
T ss_pred CCCCCCEEEECHHHHHHHHHCCCCCCCCCH----HHHHHHHHHHHCCCCCEEEECCCEECCCCCHHHHCCCCCCCCEEHH
T ss_conf 333896047765568888510588784336----8999999876518943588268335055101321388986411044
Q ss_pred HH
Q ss_conf 99
Q gi|254780554|r 128 MM 129 (169)
Q Consensus 128 ~m 129 (169)
++
T Consensus 153 HA 154 (353)
T TIGR02707 153 HA 154 (353)
T ss_pred HH
T ss_conf 44
No 64
>TIGR02855 spore_yabG sporulation peptidase YabG; InterPro: IPR008764 Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of Bacillus subtilis ..
Probab=52.21 E-value=11 Score=18.98 Aligned_cols=17 Identities=24% Similarity=0.466 Sum_probs=10.2
Q ss_pred HHHHHHCCCCCEEEEEH
Q ss_conf 99986227962778850
Q gi|254780554|r 56 LTDVIKNWRPEEAAVEQ 72 (169)
Q Consensus 56 l~~ii~~~~Pd~vaiE~ 72 (169)
+.+|+++|+||.++|=.
T Consensus 154 v~~L~~~~~PDIlViTG 170 (292)
T TIGR02855 154 VLDLIEEVRPDILVITG 170 (292)
T ss_pred HHHHHHHHCCCEEEEEC
T ss_conf 99999730997899946
No 65
>pfam01548 Transposase_9 Transposase. Transposase proteins are necessary for efficient DNA transposition. This family includes an amino-terminal region of the pilin gene inverting protein (PIVML) and members of the IS111A/IS1328/IS1533 family of transposases.
Probab=51.86 E-value=17 Score=17.89 Aligned_cols=27 Identities=26% Similarity=0.319 Sum_probs=20.0
Q ss_pred HHCCCCEEEECHHHHHHHHCCCCCCCH
Q ss_conf 860161775260677765316888899
Q gi|254780554|r 97 ALARIPVSEYAPNTIKKAVIGVGHGDK 123 (169)
Q Consensus 97 ~~~~i~v~ey~P~~vKkavtG~G~A~K 123 (169)
...|++|+.+.|..+|.+.--.|+-.|
T Consensus 2 ~~~G~~V~~vnp~~~~~~~~~~~~~~K 28 (96)
T pfam01548 2 EDAGLPVVVVNPRQVKAFRKALGRRAK 28 (96)
T ss_pred CCCCCEEEEECHHHHHHHHHHCCCCCC
T ss_conf 306792799887998999986578888
No 66
>pfam02684 LpxB Lipid-A-disaccharide synthetase. This is a family of lipid-A-disaccharide synthetases, EC:2.4.2.128. These enzymes catalyse the reaction: UDP-2,3-bis(3-hydroxytetradecanoyl) glucosamine + 2,3-bis(3-hydroxytetradecanoyl)-beta-D-glucosaminyl 1-phosphate <= UDP + 2,3-bis(3-hydroxytetradecanoyl)-D-glucosaminyl-1,6 -beta-D-2,3-bis(3-hydroxytetradecanoyl)-beta-D-glucosaminyl 1-phosphate. These enzymes catalyse the fist disaccharide step in the synthesis of lipid-A-disaccharide.
Probab=51.32 E-value=21 Score=17.21 Aligned_cols=70 Identities=14% Similarity=0.228 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHCCCCCEEEEEH-HHHCCCHHHHHHHHHHHHHHHHHHHHC--CCCEEEECHHHHHHHHCCCCCCCH
Q ss_conf 89999999899986227962778850-332024124788999999999999860--161775260677765316888899
Q gi|254780554|r 47 FRLCQLYEGLTDVIKNWRPEEAAVEQ-VFVNKDAVATLKLGQARAIAILSPALA--RIPVSEYAPNTIKKAVIGVGHGDK 123 (169)
Q Consensus 47 ~Rl~~I~~~l~~ii~~~~Pd~vaiE~-~F~~~n~~t~~~lg~arGvi~l~~~~~--~i~v~ey~P~~vKkavtG~G~A~K 123 (169)
-++..+.+.+.+.+.+++||.+..=+ +-|+. .+++ .+.+. ++|++.|-+=|||-. +.|++.|
T Consensus 65 ~~l~~~~~~~~~~i~~~~PD~vIlID~pgFNl------rlak-------~lkk~g~~ipvi~yV~PqvWAW--r~~R~k~ 129 (373)
T pfam02684 65 FKLLKIYQKVVKNILKKKPDTLILIDAPDFNL------RLAK-------KLRKLGPKLKIIHYVSPSVWAW--RPKRAKI 129 (373)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEEEECCCCHHH------HHHH-------HHHHCCCCCCEEEEECCCEEEE--CHHHHHH
T ss_conf 99999999999987426998899971761559------9999-------9997199987899968842212--7158999
Q ss_pred HHHHHHHHHH
Q ss_conf 9999999996
Q gi|254780554|r 124 KQIHMMLKML 133 (169)
Q Consensus 124 eqV~~mV~~l 133 (169)
+.+.+-.+
T Consensus 130 --i~~~~D~l 137 (373)
T pfam02684 130 --IAKYTDLL 137 (373)
T ss_pred --HHHHHHHH
T ss_conf --99999873
No 67
>PRK13311 N-acetyl-D-glucosamine kinase; Provisional
Probab=51.22 E-value=21 Score=17.20 Aligned_cols=43 Identities=16% Similarity=0.097 Sum_probs=28.3
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHH
Q ss_conf 99997888720589999719968999833687388999888999999
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLY 53 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~ 53 (169)
.||||-|-+++=++++|..+. .+....+.|++ ++.++-+..|.
T Consensus 2 ylGiDIGGTki~~~l~d~~g~---~~~~~~~~T~~-~~~~~~~~~i~ 44 (256)
T PRK13311 2 YYGFDMGGTKIELGVFDENLQ---RIWHKRVPTPR-EDYPQLLQILR 44 (256)
T ss_pred EEEEECCCHHEEEEEEECCCC---EEEEEEECCCC-CCHHHHHHHHH
T ss_conf 999993410110289969998---99999974998-57999999999
No 68
>PTZ00294 glycerol kinase; Provisional
Probab=48.55 E-value=24 Score=16.94 Aligned_cols=24 Identities=33% Similarity=0.259 Sum_probs=19.9
Q ss_pred EEEEECCCCCEEEEEEEEEECCEE
Q ss_conf 699997888720589999719968
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNL 29 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~ 29 (169)
=+||||-|++++=-+++|.+|+..
T Consensus 3 YvlgID~GTts~Ka~l~d~~G~~l 26 (510)
T PTZ00294 3 YIGSIDQGTTSTRFIIFDEKQRIL 26 (510)
T ss_pred EEEEEECCCCCEEEEEECCCCCEE
T ss_conf 999997165214776995999999
No 69
>PRK09585 anmK anhydro-N-acetylmuramic acid kinase; Reviewed
Probab=48.30 E-value=24 Score=16.92 Aligned_cols=70 Identities=21% Similarity=0.287 Sum_probs=45.1
Q ss_pred CCCEEEEECCCCCEEEE--EEEEEECCEEEEEEEEEEECCCCC------------CHHHHHHHHH--------HHHHHHH
Q ss_conf 88069999788872058--999971996899983368738899------------9888999999--------9899986
Q gi|254780554|r 3 KSIRIIGIDPGLRRTGW--GIVDVAGDNLCFVSSGTIVSCVRQ------------SLAFRLCQLY--------EGLTDVI 60 (169)
Q Consensus 3 ~~MrILGIDPGl~~tG~--avie~~~~~~~li~~g~I~t~~~~------------~~~~Rl~~I~--------~~l~~ii 60 (169)
++||+||+=-|++-=|. ++++.++.+++++.+.++..++.. .....+.++. +.+.+++
T Consensus 2 ~~~~~iGlMSGTSlDGiD~alv~~~g~~~~~i~~~~~~y~~~lr~~i~~~~~~~~~~~~~~~~l~~~~~~~~~~~i~~~i 81 (366)
T PRK09585 2 KSMRYIGLMSGTSLDGVDAALVEIDGERVELLASATVPYPDALRAELLALCQGGPLELARLAELDRALGRLFAEAVNALL 81 (366)
T ss_pred CCEEEEEEECCCCHHHHEEEEEEECCCEEEEEEEEEEECCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 73389999657773767289999739848998505564899999999998535899999999999999999999999999
Q ss_pred HCCC-----CCEEEEEH
Q ss_conf 2279-----62778850
Q gi|254780554|r 61 KNWR-----PEEAAVEQ 72 (169)
Q Consensus 61 ~~~~-----Pd~vaiE~ 72 (169)
++++ .|.|+.-.
T Consensus 82 ~~~~~~~~~id~Ig~HG 98 (366)
T PRK09585 82 AEAGLSPEDIDAIGSHG 98 (366)
T ss_pred HHCCCCCCCEEEEECCC
T ss_conf 98499803632897588
No 70
>PRK10939 autoinducer-2 (AI-2) kinase; Provisional
Probab=47.23 E-value=25 Score=16.81 Aligned_cols=59 Identities=10% Similarity=0.123 Sum_probs=28.3
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEEEEEE--EEECCC-----CCCHHHHHHHHHHHHHHHHHCCC
Q ss_conf 699997888720589999719968999833--687388-----99988899999998999862279
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSG--TIVSCV-----RQSLAFRLCQLYEGLTDVIKNWR 64 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~li~~g--~I~t~~-----~~~~~~Rl~~I~~~l~~ii~~~~ 64 (169)
-|||||-|++++=-+++|.+|+.+..-... ....+. ..+..+=...+.+.+++++.+..
T Consensus 4 Y~lgiD~GTss~Ka~l~d~~G~~la~~~~~~~~~~~~~~pg~~E~D~~~~W~~~~~~i~~~~~~a~ 69 (521)
T PRK10939 4 YLMALDAGTGSIRAVIFDLNGNQIAVGQAEWTHLAVPDVPGSMEFDLEKNWQLACQCIRQALQKAN 69 (521)
T ss_pred EEEEEECCCCCHHHEEEECCCCEEEEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCC
T ss_conf 899998610210020698999999999840445678999997300999999999999999999829
No 71
>pfam03702 UPF0075 Uncharacterized protein family (UPF0075). The proteins is this family are about 370 amino acids long and have no known function.
Probab=45.93 E-value=26 Score=16.69 Aligned_cols=35 Identities=23% Similarity=0.359 Sum_probs=22.2
Q ss_pred CEEEEECCCCCEEEE--EEEEEECCEEEEEEEEEEEC
Q ss_conf 069999788872058--99997199689998336873
Q gi|254780554|r 5 IRIIGIDPGLRRTGW--GIVDVAGDNLCFVSSGTIVS 39 (169)
Q Consensus 5 MrILGIDPGl~~tG~--avie~~~~~~~li~~g~I~t 39 (169)
||+||+=-|++.=|. ++++.++.+++++.+.++.-
T Consensus 1 m~vIGlMSGTS~DGID~alv~~~~~~~~~i~~~~~~y 37 (363)
T pfam03702 1 MRYIGLMSGTSLDGVDAALVDIGLTKIELLASHSSPM 37 (363)
T ss_pred CEEEEEECCCCHHHHEEEEEEECCCCEEEECCCCCCC
T ss_conf 9699995465737571689998898289960603249
No 72
>PRK13529 malate dehydrogenase; Provisional
Probab=45.07 E-value=26 Score=16.66 Aligned_cols=77 Identities=18% Similarity=0.186 Sum_probs=49.2
Q ss_pred HHHHHH-HHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHH-----------HHHHHHHHHHHHHCCCCEEEECHHHHHH
Q ss_conf 889999-9998999862279627788503320241247889-----------9999999999986016177526067776
Q gi|254780554|r 46 AFRLCQ-LYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKL-----------GQARAIAILSPALARIPVSEYAPNTIKK 113 (169)
Q Consensus 46 ~~Rl~~-I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~l-----------g~arGvi~l~~~~~~i~v~ey~P~~vKk 113 (169)
.+.+-. +.+.+..+-+.| |..+.=-+-|-+.|....+.- -|-.|++.+++....+.+..-...+.|-
T Consensus 220 g~~Y~~fidefv~av~~~f-P~~liqfEDF~~~nA~~lL~rYr~~~~~FNDDiQGTaaV~LAgll~Alri~g~~l~d~ri 298 (563)
T PRK13529 220 GEEYDEFVDEFVQAVKRRF-PNALLQFEDFAQKNAMRLLERYRDEICTFNDDIQGTAAVTLAGLLAALKIAGEPLSDQRV 298 (563)
T ss_pred HHHHHHHHHHHHHHHHHHC-CCCEEEHHCCCCHHHHHHHHHHHHCCCEECCCCCHHHHHHHHHHHHHHHHHCCCHHHCEE
T ss_conf 6889999999999999978-982785010796138999999865064224531037799999999999982998778479
Q ss_pred HHCCCCCCCH
Q ss_conf 5316888899
Q gi|254780554|r 114 AVIGVGHGDK 123 (169)
Q Consensus 114 avtG~G~A~K 123 (169)
.+.|-|.|.=
T Consensus 299 v~~GAGsAg~ 308 (563)
T PRK13529 299 VFLGAGSAGC 308 (563)
T ss_pred EEECCCHHHH
T ss_conf 9965774878
No 73
>PRK00976 hypothetical protein; Provisional
Probab=44.90 E-value=27 Score=16.59 Aligned_cols=20 Identities=25% Similarity=0.537 Sum_probs=14.7
Q ss_pred CEEEEECCCCCEEEEEEEEE
Q ss_conf 06999978887205899997
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDV 24 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~ 24 (169)
|-.+|||-|++..-||+.+.
T Consensus 1 m~fvGiDHGTtgirfa~~~~ 20 (324)
T PRK00976 1 MMFVGIDHGTTGIRFAIIEG 20 (324)
T ss_pred CEEEEECCCCCEEEEEEECC
T ss_conf 95886447875179997269
No 74
>COG0248 GppA Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]
Probab=44.83 E-value=27 Score=16.58 Aligned_cols=22 Identities=18% Similarity=0.299 Sum_probs=10.9
Q ss_pred CCEEEEECCCCCEEEEEEEEEE
Q ss_conf 8069999788872058999971
Q gi|254780554|r 4 SIRIIGIDPGLRRTGWGIVDVA 25 (169)
Q Consensus 4 ~MrILGIDPGl~~tG~avie~~ 25 (169)
.|++-.||-|++++=.-|.+..
T Consensus 2 ~~~~A~IDiGSNS~rlvV~~~~ 23 (492)
T COG0248 2 ARRVAAIDLGSNSFRLVVAEIT 23 (492)
T ss_pred CCEEEEEEECCCEEEEEEEECC
T ss_conf 8647999704874899999646
No 75
>COG0145 HyuA N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=44.71 E-value=27 Score=16.57 Aligned_cols=60 Identities=17% Similarity=0.034 Sum_probs=35.3
Q ss_pred CCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCC----CCEEEEE
Q ss_conf 8069999788872058999971996899983368738899988899999998999862279----6277885
Q gi|254780554|r 4 SIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWR----PEEAAVE 71 (169)
Q Consensus 4 ~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~----Pd~vaiE 71 (169)
+|..+|||-|-+.|=..+++..++. +. +.|..+. ++.+..+......++..+. .+.|.+=
T Consensus 1 ~~~~iGID~GGTfTDaV~~~~~~g~---~~--~~K~lTt---P~~~~~~~~~~~~~~~~~~~~~~i~~v~~g 64 (674)
T COG0145 1 MMLRIGIDVGGTFTDAVLLDEDGGV---LA--TIKVLTT---PDLPSGIVNAGIRLALELLEGSEVDLVVHG 64 (674)
T ss_pred CCEEEEEECCCCCEEEEEEECCCCE---EE--EEECCCC---CCCHHHHHHHHHHHHHHCCCCCCCCEEEEE
T ss_conf 9569999728770869999589977---99--8771689---876456799999887631465664589993
No 76
>PRK08620 DNA topoisomerase III; Provisional
Probab=44.26 E-value=28 Score=16.53 Aligned_cols=17 Identities=18% Similarity=0.200 Sum_probs=7.9
Q ss_pred CCEEEECHHHHHHHHCC
Q ss_conf 61775260677765316
Q gi|254780554|r 101 IPVSEYAPNTIKKAVIG 117 (169)
Q Consensus 101 i~v~ey~P~~vKkavtG 117 (169)
+.+.++++..|++++-.
T Consensus 130 l~fseiT~~aI~~A~~n 146 (726)
T PRK08620 130 LWISSVTDKAIKDGFKN 146 (726)
T ss_pred EEEECCCHHHHHHHHHC
T ss_conf 99602899999999974
No 77
>PRK07058 acetate kinase; Provisional
Probab=44.01 E-value=28 Score=16.51 Aligned_cols=37 Identities=22% Similarity=0.408 Sum_probs=28.6
Q ss_pred CCCCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEE
Q ss_conf 99880699997888720589999719968999833687
Q gi|254780554|r 1 MRKSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIV 38 (169)
Q Consensus 1 ~~~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~ 38 (169)
|.++| ||-|-+|+++.=|+++|.++.....+..|.+.
T Consensus 1 M~~~~-ILviNaGSSSlKf~lf~~~~~~~~~~~~g~i~ 37 (393)
T PRK07058 1 MSKPL-LLTFNAGSSTVKIGLFSVDGGEARRIGKGDID 37 (393)
T ss_pred CCCCE-EEEEECCHHHHEEEEEECCCCCEEEEEEEEEE
T ss_conf 99998-99993771625138897899750203578874
No 78
>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit; InterPro: IPR005809 There are four different enzymes that share a similar catalytic mechanism which involves the phosphorylation by ATP (or GTP) of a specific histidine residue in the active site. These enzymes are: ATP citrate-lyase (4.1.3.8 from EC) , the primary enzyme responsible for the synthesis of cytosolic acetyl-CoA in many tissues, catalyzes the formation of acetyl-CoA and oxaloacetate from citrate and CoA with the concomitant hydrolysis of ATP to ADP and phosphate. ATP-citrate lyase is a tetramer of identical subunits; Succinyl-CoA ligase (GDP-forming) (6.2.1.4 from EC) is a mitochondrial enzyme that catalyzes the substrate level phosphorylation step of the tricarboxylic acid cycle: the formation of succinyl-CoA from succinate with a concomitant hydrolysis of GTP to GDP and phosphate. This enzyme is a dimer composed of an alpha and a beta subunits; Succinyl-CoA ligase (ADP-forming) (6.2.1.5 from EC) is a bacterial enzyme that during aerobic metabolism functions in the citric acid cycle, coupling the hydrolysis of succinyl-CoA to the synthesis of ATP. It can also function in the other direction for anabolic purposes. This enzyme is a tetramer composed of two alpha and two beta subunits; and Malate-CoA ligase (6.2.1.9 from EC) (malyl-CoA synthetase) , is a bacterial enzyme that forms malyl-CoA from malate and CoA with the concomitant hydrolysis of ATP to ADP and phosphate. Malate-CoA ligase is composed of two different subunits. This entry corresponds to a conserved region located in the first half of ATP citrate lyase and in the beta subunits of succinyl-CoA ligases and malate-CoA ligase. ; GO: 0003824 catalytic activity, 0008152 metabolic process.
Probab=43.75 E-value=22 Score=17.18 Aligned_cols=40 Identities=18% Similarity=0.296 Sum_probs=26.0
Q ss_pred CCCCCHHHHHHHHHHHCCCCCCCC--CC------HHHHHHHHHHHHHH
Q ss_conf 888899999999999628899999--55------67899999997641
Q gi|254780554|r 118 VGHGDKKQIHMMLKMLMPESFFKG--KD------AADALAIAVCHAYH 157 (169)
Q Consensus 118 ~G~A~KeqV~~mV~~ll~~~~~~~--~D------~aDAlAiAl~h~~~ 157 (169)
=|.|++|||+.+++.+|..+..|- -+ -.|-+|=+|.-+..
T Consensus 290 GGGA~~e~v~eA~~~vLsD~~VKvvfiNIFGGI~RCD~vA~G~v~A~~ 337 (389)
T TIGR01016 290 GGGASEERVKEALKLVLSDKSVKVVFINIFGGITRCDEVAKGLVEALK 337 (389)
T ss_pred CCCCCHHHHHHHHHHHHCCCCCEEEEEEECCCEECHHHHHHHHHHHHH
T ss_conf 878898999999898735998208999706860018788788999983
No 79
>pfam00479 G6PD_N Glucose-6-phosphate dehydrogenase, NAD binding domain.
Probab=41.68 E-value=30 Score=16.28 Aligned_cols=19 Identities=21% Similarity=0.167 Sum_probs=7.3
Q ss_pred CCCCCCH--HHHHHHHHHHHH
Q ss_conf 9999556--789999999764
Q gi|254780554|r 138 FFKGKDA--ADALAIAVCHAY 156 (169)
Q Consensus 138 ~~~~~D~--aDAlAiAl~h~~ 156 (169)
+|-..|. |.+|--.+...|
T Consensus 144 KPfG~Dl~Sa~~ln~~l~~~f 164 (183)
T pfam00479 144 KPFGHDLESARELNDQLASVF 164 (183)
T ss_pred CCCCCCHHHHHHHHHHHHHHC
T ss_conf 788897788999999999447
No 80
>PRK13318 pantothenate kinase; Reviewed
Probab=40.71 E-value=31 Score=16.19 Aligned_cols=34 Identities=29% Similarity=0.504 Sum_probs=23.7
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCC
Q ss_conf 99997888720589999719968999833687388999
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQS 44 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~ 44 (169)
+|-||-|-+++=||+.+ +++ ++....+.+.+...
T Consensus 2 ~L~IDiGNT~ik~~l~~--~~~--~~~~~~~~~~~~~~ 35 (258)
T PRK13318 2 LLAIDVGNTNTVFGLFD--GGK--LVAHWRISTDSRRT 35 (258)
T ss_pred EEEEEECCCCEEEEEEE--CCE--EEEEEEECCCCCCC
T ss_conf 89999888714999998--999--99999953787668
No 81
>PRK13321 pantothenate kinase; Reviewed
Probab=40.02 E-value=32 Score=16.12 Aligned_cols=34 Identities=24% Similarity=0.276 Sum_probs=23.7
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCC
Q ss_conf 99997888720589999719968999833687388999
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQS 44 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~ 44 (169)
+|-||-|-+++=||+.|. + +++....+.+....+
T Consensus 2 ~L~IDiGNT~ik~g~~~~--~--~~~~~~~~~t~~~~~ 35 (256)
T PRK13321 2 LLCIDVGNTNIVLGIFDG--D--QLVHNWRLPTDTTRT 35 (256)
T ss_pred EEEEEECCHHEEEEEEEC--C--EEEEEEEECCCCCCC
T ss_conf 899998731519999989--9--999999965886558
No 82
>TIGR01283 nifE nitrogenase MoFe cofactor biosynthesis protein NifE; InterPro: IPR005973 The enzyme responsible for nitrogen fixation, the nitrogenase, shows a high degree of conservation of structure, function, and amino acid sequence across wide phylogenetic ranges. All known Mo-nitrogenases consist of two components, component I (also called dinitrogenase, or Fe-Mo protein), an alpha2beta2 tetramer encoded by the nifD and nifK genes, and component II (dinitrogenase reductase, or Fe protein) a homodimer encoded by the nifH gene. Two operons, nifDK and nifEN, encode a tetrameric (alpha2beta2 and N2E2) enzymatic complex. Nitrogenase contains two unusual rare metal clusters; one of them is the iron molybdenum cofactor (FeMo-co), which is considered to be the site of dinitrogen reduction and whose biosynthesis requires the products of nifNE and of some other nif genes. It has been proposed that NifNE might serve as a scaffold upon which FeMo-co is built and then inserted into component I. ; GO: 0005515 protein binding, 0006461 protein complex assembly, 0009399 nitrogen fixation.
Probab=39.66 E-value=30 Score=16.29 Aligned_cols=87 Identities=13% Similarity=0.182 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEC-HHHHHHHHCCCCCCCHHHH--
Q ss_conf 9999989998622796277885033202412478899999999999986016177526-0677765316888899999--
Q gi|254780554|r 50 CQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSEYA-PNTIKKAVIGVGHGDKKQI-- 126 (169)
Q Consensus 50 ~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~-P~~vKkavtG~G~A~KeqV-- 126 (169)
.+||+.+.++++.|+|..|.|=..= + +++.--=.-.|...|..+.|+||..+. |. .-|+-+-.=.+.
T Consensus 112 KKL~~aI~e~v~~Y~P~AvFVYsTC----v-~alIGDD~~AVCk~A~~k~G~~ViPV~s~G-----F~G~NK~lGnk~Ac 181 (470)
T TIGR01283 112 KKLFHAIREIVERYHPAAVFVYSTC----V-VALIGDDLEAVCKAAAEKYGIPVIPVDSEG-----FYGSNKNLGNKLAC 181 (470)
T ss_pred HHHHHHHHHHHHHCCCCEEEEECCE----E-CCEECCCHHHHHHHHHHCCCCCEEEECCCC-----CCCCCCCCCHHHHH
T ss_conf 7899999999863299748994571----3-102448889999999723586067515788-----77777550027899
Q ss_pred HHHHHHHCCCCCCCCCCHHH
Q ss_conf 99999962889999955678
Q gi|254780554|r 127 HMMLKMLMPESFFKGKDAAD 146 (169)
Q Consensus 127 ~~mV~~ll~~~~~~~~D~aD 146 (169)
-.|++.+.+..+|.+.+.++
T Consensus 182 dALl~~vig~~ep~~~~~~~ 201 (470)
T TIGR01283 182 DALLKHVIGTREPEPIPKSA 201 (470)
T ss_pred HHHHHHCCCCCCCCCCCCCC
T ss_conf 99998638988866576544
No 83
>PRK11678 putative chaperone; Provisional
Probab=38.84 E-value=21 Score=17.21 Aligned_cols=24 Identities=17% Similarity=0.300 Sum_probs=18.8
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEE
Q ss_conf 99997888720589999719968999
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFV 32 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li 32 (169)
.+|||-|++++-.|+++ +++++++
T Consensus 2 ~IGIDfGTTNS~VAv~~--~g~~~vi 25 (450)
T PRK11678 2 FIGFDYGTANCSVAVMR--DGKPQLL 25 (450)
T ss_pred EEEEEECHHHEEEEEEE--CCEEEEE
T ss_conf 69998471323328998--9988999
No 84
>PRK13319 consensus
Probab=38.65 E-value=34 Score=15.99 Aligned_cols=35 Identities=17% Similarity=0.252 Sum_probs=24.6
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCH
Q ss_conf 999978887205899997199689998336873889998
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSL 45 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~ 45 (169)
+|-||-|-+++=||+.+ ++ +++....+.++.....
T Consensus 2 ~L~iDIGNT~ik~gl~~--~~--~l~~~~r~~t~~~~~~ 36 (258)
T PRK13319 2 ILVLDVGNTNIVLGVYE--GK--ELIAHWRISTDRHKTS 36 (258)
T ss_pred EEEEEECCCCEEEEEEE--CC--EEEEEEEEECCCCCCH
T ss_conf 89999874416999998--99--9999999705754677
No 85
>COG1521 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]
Probab=38.58 E-value=34 Score=15.99 Aligned_cols=35 Identities=17% Similarity=0.187 Sum_probs=26.1
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCC
Q ss_conf 699997888720589999719968999833687388999
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQS 44 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~ 44 (169)
++|.||-|-+++=||+.+ ++ ++.....++|.....
T Consensus 1 ~~L~iDiGNT~~~~a~~~--~~--~~~~~~r~~t~~~~~ 35 (251)
T COG1521 1 MLLLIDIGNTRIVFALYE--GG--KVVQTWRLATEDLLT 35 (251)
T ss_pred CEEEEEECCCEEEEEEEC--CC--EEEEEEEECCCCCCC
T ss_conf 958998179707899803--98--578877604451102
No 86
>pfam03228 Adeno_VII Adenoviral core protein VII. The function of this protein is unknown. It has a conserved amino terminus of 50 residues followed by a positively charged tail, suggesting it may interact with nucleic acid. The major core protein of the adenovirus, protein VII, was found to be associated with viral DNA throughout infection. The precursor to protein VII were shown to be in vivo and in vitro acceptors of ADP-ribose. The ADP-ribosylated core proteins were assembled into mature virus particles. ADP-ribosylation of adenovirus core proteins may have a role in virus decapsidation.
Probab=37.11 E-value=13 Score=18.48 Aligned_cols=15 Identities=47% Similarity=1.218 Sum_probs=11.1
Q ss_pred CEEEEECCCCCEEEEEE
Q ss_conf 06999978887205899
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGI 21 (169)
Q Consensus 5 MrILGIDPGl~~tG~av 21 (169)
|-|| |-|+ ++|||++
T Consensus 1 m~il-isps-nntgwgl 15 (117)
T pfam03228 1 MSIL-ISPS-NNTGWGL 15 (117)
T ss_pred CCEE-ECCC-CCCCCCC
T ss_conf 9537-6788-8876464
No 87
>TIGR01007 eps_fam capsular exopolysaccharide family; InterPro: IPR005702 This family describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis (EPS). At least 13 genes EpsA to EpsM in streptococcus species seem to direct the EPS proteins and share high homology. ; GO: 0030234 enzyme regulator activity, 0045227 capsule polysaccharide biosynthetic process.
Probab=36.78 E-value=32 Score=16.10 Aligned_cols=81 Identities=19% Similarity=0.183 Sum_probs=44.6
Q ss_pred CEEEEEEEEEEECCCCCCH-HHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEE
Q ss_conf 9689998336873889998-889999999899986227962778850332024124788999999999999860161775
Q gi|254780554|r 27 DNLCFVSSGTIVSCVRQSL-AFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSE 105 (169)
Q Consensus 27 ~~~~li~~g~I~t~~~~~~-~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~e 105 (169)
.++.+|.+|.+-++|..=+ +.++..|.+.+++ . =|.|.|-.|=.+-=..++ |+...... -|
T Consensus 97 enL~vi~sG~vPPNPt~LL~s~~F~~l~e~~~~---~--fD~iiiDTPPig~V~DAa---------i~a~~~d~--~~-- 158 (207)
T TIGR01007 97 ENLDVITSGPVPPNPTELLQSSNFKTLIETLRK---Y--FDYIIIDTPPIGTVIDAA---------IIARAVDA--SI-- 158 (207)
T ss_pred CCCEEECCCCCCCCHHHHHHHHHHHHHHHHHHC---C--CCEEEEEECCCCHHHHHH---------HHHHHHCC--EE--
T ss_conf 787275178878775478888999999999871---6--888999518866678899---------99987297--79--
Q ss_pred ECHHHHHHHHCCCCCCCHHHHHHHHHHH
Q ss_conf 2606777653168888999999999996
Q gi|254780554|r 106 YAPNTIKKAVIGVGHGDKKQIHMMLKML 133 (169)
Q Consensus 106 y~P~~vKkavtG~G~A~KeqV~~mV~~l 133 (169)
-||--|+-+|++|+++.+.|
T Consensus 159 --------LV~~A~~~~k~~v~KAK~~L 178 (207)
T TIGR01007 159 --------LVTDAGKIKKREVKKAKEQL 178 (207)
T ss_pred --------EEEECCCCCHHHHHHHHHHH
T ss_conf --------88722532646789999999
No 88
>pfam00871 Acetate_kinase Acetokinase family. This family includes acetate kinase, butyrate kinase and 2-methylpropanoate kinase.
Probab=36.46 E-value=36 Score=15.78 Aligned_cols=52 Identities=12% Similarity=0.169 Sum_probs=33.5
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEEEEEEEEE------------C---------CCCCCHHHHHHHHHHHHHHH
Q ss_conf 699997888720589999719968999833687------------3---------88999888999999989998
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIV------------S---------CVRQSLAFRLCQLYEGLTDV 59 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~li~~g~I~------------t---------~~~~~~~~Rl~~I~~~l~~i 59 (169)
|||-|-||++++=|+++|.+..+ .+..|.+. . ..-.++..++..|.+.|.+-
T Consensus 1 KILviN~GSSS~K~alf~~~~~~--~~~~g~~e~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~il~~L~~~ 73 (387)
T pfam00871 1 KVLVINAGSSSLKFQLYEGTNGE--VLASGLAERIGIPNAFILKKENGGKKNEELTAYADHEEALKVILNTLKEH 73 (387)
T ss_pred CEEEEECCHHHHEEEEEECCCCC--EEEEEEEEEECCCCCEEEEECCCCEEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf 98999588062540789898987--67886677605898648995279634541367789999999999999877
No 89
>COG2403 Predicted GTPase [General function prediction only]
Probab=36.46 E-value=36 Score=15.78 Aligned_cols=75 Identities=16% Similarity=0.142 Sum_probs=50.3
Q ss_pred HHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHHHH-------HHCCCC-CCCHH
Q ss_conf 9989998622796277885033202412478899999999999986016177526067776-------531688-88999
Q gi|254780554|r 53 YEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSEYAPNTIKK-------AVIGVG-HGDKK 124 (169)
Q Consensus 53 ~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~P~~vKk-------avtG~G-~A~Ke 124 (169)
++.|.++|+++..|.+++-= +- -|- +-|+-|.......|....++.|.+.-. ++||.| ++.|.
T Consensus 71 ~~~lek~ire~~VD~~Vlay---SD--vs~----e~v~~IaS~vLs~GA~f~~~gP~et~~~~ekPviaV~atrtg~GKs 141 (449)
T COG2403 71 YDDLEKIIREKDVDIVVLAY---SD--VSY----EHVFRIASRVLSAGADFKELGPKETMLKLEKPVIAVTATRTGVGKS 141 (449)
T ss_pred HHHHHHHHHHHCCCEEEEEC---CC--CCH----HHHHHHHHHHHHCCCEEEEECCCHHHHHHCCCEEEEEEECCCCCHH
T ss_conf 89999999870766168770---12--898----9987899999747853687275277665148559999723665567
Q ss_pred HHHHHHHHHCCC
Q ss_conf 999999996288
Q gi|254780554|r 125 QIHMMLKMLMPE 136 (169)
Q Consensus 125 qV~~mV~~ll~~ 136 (169)
||...+.++++.
T Consensus 142 aVS~~v~r~l~e 153 (449)
T COG2403 142 AVSRYVARLLRE 153 (449)
T ss_pred HHHHHHHHHHHH
T ss_conf 888999999986
No 90
>TIGR01312 XylB xylulokinase; InterPro: IPR006000 The ability to metabolise xylose, one of the most abundant sugars in nature, is dependent on its conversion to xylulose-5-phosphate, which then enters the non-oxidative pentose phosphate pathway . Xylulose-5-phosphate is produced from xylose by the sequential action of two enzymes; xylose isomerase, which converts xylose to xylulose, and xylulokinase, which subsequently phosphorylates xylulose. This entry represents bacterial xylulokinase. In addition to its role in xylose metabolism this enzyme may also have a biosynthetic role. 1-deoxy-D-xylulose 5-phosphate serves as a precursor for the biosynthesis of the vitamins thiamine and pyridoxal and for the formation of isopentenyl pyrophosphate and dimethylallyl pyrophosphate via the nonmevalonate pathway of terpenoid biosynthesis. Xylulokinase catalyses the phosphorylation of 1-deoxy-D-xylulose at the hydroxy group of C-5 . This reaction therefore constitutes a potential salvage pathway for the generation of 1-deoxy-D-xylulose 5-phosphate from exogenous or endogenous 1-deoxy-D-xylulose as starting material for the biosynthesis of terpenoids, thiamine and pyridoxal. ; GO: 0004856 xylulokinase activity, 0005997 xylulose metabolic process.
Probab=35.99 E-value=37 Score=15.73 Aligned_cols=63 Identities=17% Similarity=0.236 Sum_probs=25.4
Q ss_pred EEECCCCCEEEEEEEEEECCEEEEEEEEE-----EECC---CCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEH
Q ss_conf 99978887205899997199689998336-----8738---89998889999999899986227962778850
Q gi|254780554|r 8 IGIDPGLRRTGWGIVDVAGDNLCFVSSGT-----IVSC---VRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQ 72 (169)
Q Consensus 8 LGIDPGl~~tG~avie~~~~~~~li~~g~-----I~t~---~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~ 72 (169)
||||-||+.+=.=|||.+.++ .|.++. ++.. ++.+...=+..+.+.+.+++++++-+--.|+-
T Consensus 1 lGIDlGTs~~K~llvd~e~g~--Vi~~~~~~~~~~~p~pg~sEQdP~~W~~A~~~a~~~l~~~~~~~~~~i~g 71 (494)
T TIGR01312 1 LGIDLGTSGVKALLVDAEKGE--VIASGSASYTVISPHPGWSEQDPEDWWEATEEAIKELLEEAKEDGKDIKG 71 (494)
T ss_pred CCEECCCCEEEEEEEECCCCE--EEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf 921112331468899736771--77753034232058788564596999999999999999851568015224
No 91
>TIGR03568 NeuC_NnaA UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing. This family of enzymes catalyzes the combined epimerization and UDP-hydrolysis of UDP-N-acetylglucosamine to N-acetylmannosamine. This is in contrast to the related enzyme WecB (TIGR00236) which retains the UDP moiety. NeuC acts in concert with NeuA and NeuB to synthesize CMP-N5-acetyl-neuraminate.
Probab=35.36 E-value=38 Score=15.67 Aligned_cols=75 Identities=19% Similarity=0.268 Sum_probs=47.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCC
Q ss_conf 88999888999999989998622796277885033202412478899999999999986016177526067776531688
Q gi|254780554|r 40 CVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVG 119 (169)
Q Consensus 40 ~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G 119 (169)
.+..+..+-+..+-..+.+++.+++||.|.+=. ...|+ ++ ..++|...+|||..+-.... | .|
T Consensus 69 ~~~~~~~~~~~~~~~~~~~~l~~~kPD~VlV~G-----Dt~st--la-----~alaA~~~~Ipv~HveaGlr----s-~~ 131 (365)
T TIGR03568 69 DSNAGMAKSMGLTIIGFSDAFERLKPDLVVVLG-----DRFEM--LA-----AAIAAALLNIPIAHIHGGEV----T-EG 131 (365)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEC-----CCCHH--HH-----HHHHHHHHCCEEEEEECCCC----C-CC
T ss_conf 985339999999999999998543998999948-----98607--79-----99999981981899967864----5-89
Q ss_pred CCCHHHHHHHHHH
Q ss_conf 8899999999999
Q gi|254780554|r 120 HGDKKQIHMMLKM 132 (169)
Q Consensus 120 ~A~KeqV~~mV~~ 132 (169)
.. -|+...++..
T Consensus 132 ~~-dE~~R~~i~~ 143 (365)
T TIGR03568 132 AI-DESIRHAITK 143 (365)
T ss_pred CC-CHHHHHHHHH
T ss_conf 88-6588889899
No 92
>PRK13928 rod shape-determining protein Mbl; Provisional
Probab=35.14 E-value=38 Score=15.65 Aligned_cols=13 Identities=46% Similarity=0.475 Sum_probs=6.4
Q ss_pred EEEEECCCCCEEE
Q ss_conf 6999978887205
Q gi|254780554|r 6 RIIGIDPGLRRTG 18 (169)
Q Consensus 6 rILGIDPGl~~tG 18 (169)
|.+|||.|++++-
T Consensus 4 ~~iGIDLGTtn~~ 16 (325)
T PRK13928 4 RDIGIDLGTANVL 16 (325)
T ss_pred CEEEEECCHHCEE
T ss_conf 7448998602589
No 93
>TIGR00649 MG423 conserved hypothetical protein; InterPro: IPR004613 This is a family of conserved hypothetical proteins, the members of which contain an ATP-binding domain at the N-terminal end of the protein. It is possibly part of a superfamily of beta-lactmases..
Probab=35.04 E-value=24 Score=16.88 Aligned_cols=97 Identities=13% Similarity=0.166 Sum_probs=57.1
Q ss_pred EEECCCCCCHHHHHHHHHHHHHHHHHCCCC-CEEEEEHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHHHHH
Q ss_conf 687388999888999999989998622796-2778850332024124788999999999999860161775260677765
Q gi|254780554|r 36 TIVSCVRQSLAFRLCQLYEGLTDVIKNWRP-EEAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSEYAPNTIKKA 114 (169)
Q Consensus 36 ~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~P-d~vaiE~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~P~~vKka 114 (169)
.|.|.+......-|..|.+.=.+-+ +|+| |.|++=..-.-.|- -+ .+|-++-..+.+.|..++. .+ ++-
T Consensus 321 ii~TGsQGEp~A~L~RiAn~~h~~~-~i~~~DtVVfSa~~IPG~~----n~-~~~~~~~~~L~~~ga~v~~-~~---~~~ 390 (593)
T TIGR00649 321 IITTGSQGEPLAALTRIANGEHEQI-RIRKGDTVVFSAPPIPGNE----NI-AVSNTLDVRLARAGARVIK-GE---LDD 390 (593)
T ss_pred EEEECCCCCHHHHHHHCCCCCCCCE-EECCCCEEEEECCCCCCHH----HH-HHHHHHHHHHHHHHHHHHH-HC---CCC
T ss_conf 9985598941255501007887631-0048734898568998737----79-9999999999987778741-11---187
Q ss_pred HCCCCCCCHHHHHHHHHHHCCCCCCCCC
Q ss_conf 3168888999999999996288999995
Q gi|254780554|r 115 VIGVGHGDKKQIHMMLKMLMPESFFKGK 142 (169)
Q Consensus 115 vtG~G~A~KeqV~~mV~~ll~~~~~~~~ 142 (169)
+-=+|||++|+...|++.|-+.-.+|..
T Consensus 391 ~HvSGHAs~Ed~k~llrllkPkyiiP~h 418 (593)
T TIGR00649 391 IHVSGHASQEDHKLLLRLLKPKYIIPVH 418 (593)
T ss_pred EEEECCCCCHHHHHHHHHHCCCEEECCC
T ss_conf 1671326734699999862985551178
No 94
>COG2120 Uncharacterized proteins, LmbE homologs [Function unknown]
Probab=34.20 E-value=8.4 Score=19.70 Aligned_cols=52 Identities=17% Similarity=0.098 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHCCCCCEEEEEHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCE
Q ss_conf 9999998999862279627788503320241247889999999999998601617
Q gi|254780554|r 49 LCQLYEGLTDVIKNWRPEEAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPV 103 (169)
Q Consensus 49 l~~I~~~l~~ii~~~~Pd~vaiE~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v 103 (169)
...+...|.+++++++|+.|.+=..+=+.+..--+..+++ ++.+....+++-
T Consensus 94 ~~~~~~~L~~ii~~~~P~~V~t~~~~d~~~HpDH~~~~~~---~~~a~~~~~~~~ 145 (237)
T COG2120 94 PEEITGALVAIIRRLRPDVVFTPYPDDGYGHPDHRATHEA---AKAAVRTAGIPL 145 (237)
T ss_pred HHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCHHHHHHH---HHHHHHHCCCCC
T ss_conf 7999999999998539977998258888899887999999---999999621211
No 95
>TIGR00963 secA preprotein translocase, SecA subunit; InterPro: IPR000185 Secretion across the inner membrane in some Gram-negative bacteria occurs via the preprotein translocase pathway. Proteins are produced in the cytoplasm as precursors, and require a chaperone subunit to direct them to the translocase component. . From there, the mature proteins are either targeted to the outer membrane, or remain as periplasmic proteins. The translocase protein subunits are encoded on the bacterial chromosome. The translocase itself comprises 7 proteins, including a chaperone protein (SecB), an ATPase (SecA), an integral membrane complex (SecCY, SecE and SecG), and two additional membrane proteins that promote the release of the mature peptide into the periplasm (SecD and SecF) . The chaperone protein SecB is a highly acidic homotetrameric protein that exists as a "dimer of dimers" in the bacterial cytoplasm. SecB maintains preproteins in an unfolded state after translation, and targets these to the peripheral membrane protein ATPase SecA for secretion . SecA is a cytoplasmic protein of 800 to 960 amino acid residues. Homologs of secA are also encoded in the chloroplast genome of some algae as well as in the nuclear genome of plants . It could be involved in the intraorganellar protein transport into thylakoids.; GO: 0005524 ATP binding, 0006605 protein targeting, 0006886 intracellular protein transport.
Probab=30.92 E-value=22 Score=17.13 Aligned_cols=67 Identities=13% Similarity=0.212 Sum_probs=46.7
Q ss_pred EEEEEEEECCEEEEEEEEEEECCC-----------CCCHHHHHHHHHHH--HHHHHHCCCC-CEEEEEHHHHCCCHHHHH
Q ss_conf 589999719968999833687388-----------99988899999998--9998622796-277885033202412478
Q gi|254780554|r 18 GWGIVDVAGDNLCFVSSGTIVSCV-----------RQSLAFRLCQLYEG--LTDVIKNWRP-EEAAVEQVFVNKDAVATL 83 (169)
Q Consensus 18 G~avie~~~~~~~li~~g~I~t~~-----------~~~~~~Rl~~I~~~--l~~ii~~~~P-d~vaiE~~F~~~n~~t~~ 83 (169)
|..||-.+...-+-||-. +|-++ =.|+.++|..||.+ |..+|+++++ |-..||..+++|-..+|.
T Consensus 628 GLyVIGTERHESRRIDNQ-LRGRsGRQGDPG~SrFfLSleD~LmR~Fg~drl~~~m~~lg~~dd~Pies~~v~r~le~AQ 706 (904)
T TIGR00963 628 GLYVIGTERHESRRIDNQ-LRGRSGRQGDPGSSRFFLSLEDNLMRIFGGDRLKGLMRRLGLEDDEPIESKMVTRALESAQ 706 (904)
T ss_pred CCEEEECCCCCCCCCCCC-CCCCCCCCCCCCCCCEEECHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHH
T ss_conf 965773034643231111-0232436384987311200101477651877899999863888889665267889999988
Q ss_pred HH
Q ss_conf 89
Q gi|254780554|r 84 KL 85 (169)
Q Consensus 84 ~l 85 (169)
|=
T Consensus 707 Kr 708 (904)
T TIGR00963 707 KR 708 (904)
T ss_pred HH
T ss_conf 89
No 96
>PRK11031 guanosine pentaphosphate phosphohydrolase; Provisional
Probab=30.75 E-value=45 Score=15.20 Aligned_cols=33 Identities=21% Similarity=0.057 Sum_probs=18.9
Q ss_pred EEEECCCCCEEEEEEEEEEC-CEEEEEEEEEEEC
Q ss_conf 99997888720589999719-9689998336873
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAG-DNLCFVSSGTIVS 39 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~-~~~~li~~g~I~t 39 (169)
.|=||-|-.+|-+.+.+... .....+..|+++.
T Consensus 134 ~LvvDIGGGSTEli~g~~~~~~~~~Sl~lG~Vrl 167 (494)
T PRK11031 134 RLVVDIGGASTELVTGTGAQATSLFSLSMGCVTW 167 (494)
T ss_pred EEEEEECCCCEEEEEEECCCEEEEEEECCCEEEH
T ss_conf 5999957983689985088403776503433763
No 97
>PRK13330 consensus
Probab=30.31 E-value=46 Score=15.16 Aligned_cols=60 Identities=17% Similarity=0.278 Sum_probs=31.0
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEH
Q ss_conf 999978887205899997199689998336873889998889999999899986227962778850
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQ 72 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~ 72 (169)
+|-||-|-+++=||+.+. ++...+... ...+.+... ++ ++.-.++.++.+++.+.-.++.
T Consensus 2 ~L~iDIGNT~i~~glf~~-~~~i~~~~~-~~~t~~~~t-~d---e~~~~~~~~l~~~~~~~~~i~~ 61 (257)
T PRK13330 2 LLVVDVGNTNTVFGIFEN-GKKIPLFHK-RTVTRKDRT-SD---ELGLFFRGFLREFKIENEAITG 61 (257)
T ss_pred EEEEEECCCCEEEEEEEC-CEEEEEEEE-EEECCCCCC-HH---HHHHHHHHHHHHCCCCHHHCCC
T ss_conf 799997788069999989-979999998-630584205-78---9999999999883995322014
No 98
>COG4972 PilM Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=29.97 E-value=47 Score=15.12 Aligned_cols=64 Identities=11% Similarity=0.060 Sum_probs=42.1
Q ss_pred CCCCE-EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCC---CCHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 98806-999978887205899997199689998336873889---99888999999989998622796
Q gi|254780554|r 2 RKSIR-IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVR---QSLAFRLCQLYEGLTDVIKNWRP 65 (169)
Q Consensus 2 ~~~Mr-ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~---~~~~~Rl~~I~~~l~~ii~~~~P 65 (169)
.|..+ ++|||-|..+.-...+...++.+++-.|....++.. +..-.-+..+.+.|++++.+...
T Consensus 6 ~k~~~~~vGIdI~~~sVKvvqLs~~g~~~kLe~y~~~~lp~~iv~dg~ivd~~av~~~Lk~ala~~gi 73 (354)
T COG4972 6 GKKLNAAVGIDIGSHSVKVVQLSRSGNRYKLEKYASEPLPENIVADGKIVDYDAVASALKRALAKLGI 73 (354)
T ss_pred CCCCCCEEEEEECCCEEEEEEECCCCCCEEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCC
T ss_conf 35545145575056458899971568960143436404672400368713689999999999986596
No 99
>COG1916 Uncharacterized homolog of PrgY (pheromone shutdown protein) [Function unknown]
Probab=29.20 E-value=47 Score=15.08 Aligned_cols=18 Identities=33% Similarity=0.523 Sum_probs=15.1
Q ss_pred HHHHHHHHCCCCCEEEEE
Q ss_conf 989998622796277885
Q gi|254780554|r 54 EGLTDVIKNWRPEEAAVE 71 (169)
Q Consensus 54 ~~l~~ii~~~~Pd~vaiE 71 (169)
++++.+|.+-+||.||+|
T Consensus 28 eeVrr~I~~~~PDaVAVE 45 (388)
T COG1916 28 EEVRRIILEEKPDAVAVE 45 (388)
T ss_pred HHHHHHHHHCCCCEEEEE
T ss_conf 999999982199869998
No 100
>pfam06723 MreB_Mbl MreB/Mbl protein. This family consists of bacterial MreB and Mbl proteins as well as two related archaeal sequences. MreB is known to be a rod shape-determining protein in bacteria and goes to make up the bacterial cytoskeleton. Genes coding for MreB/Mbl are only found in elongated bacteria, not in coccoid forms. It has been speculated that constituents of the eukaryotic cytoskeleton (tubulin, actin) may have evolved from prokaryotic precursor proteins closely related to today's bacterial proteins FtsZ and MreB/Mbl.
Probab=28.83 E-value=34 Score=15.96 Aligned_cols=14 Identities=43% Similarity=0.392 Sum_probs=6.9
Q ss_pred EEEEECCCCCEEEE
Q ss_conf 69999788872058
Q gi|254780554|r 6 RIIGIDPGLRRTGW 19 (169)
Q Consensus 6 rILGIDPGl~~tG~ 19 (169)
+.+|||.|++++-.
T Consensus 2 ~~iGIDLGTtnS~i 15 (327)
T pfam06723 2 KDIGIDLGTANTLV 15 (327)
T ss_pred CEEEEECCHHHEEE
T ss_conf 76899875540899
No 101
>PRK13930 rod shape-determining protein MreB; Provisional
Probab=28.22 E-value=36 Score=15.78 Aligned_cols=16 Identities=38% Similarity=0.324 Sum_probs=12.7
Q ss_pred EEEEECCCCCEEEEEE
Q ss_conf 6999978887205899
Q gi|254780554|r 6 RIIGIDPGLRRTGWGI 21 (169)
Q Consensus 6 rILGIDPGl~~tG~av 21 (169)
+.+|||.|++++-.++
T Consensus 10 ~~iGIDLGTtns~i~~ 25 (336)
T PRK13930 10 KDIGIDLGTANTLVYV 25 (336)
T ss_pred CEEEEECCHHCEEEEE
T ss_conf 7669998635389999
No 102
>TIGR02354 thiF_fam2 thiamine biosynthesis protein ThiF; InterPro: IPR012729 Members of the HesA/MoeB/ThiF family of proteins (IPR000594 from INTERPRO) include a number of members encoded in the midst of thiamine biosynthetic operons. This mix of known and putative ThiF proteins shows a deep split in phylogenetic trees. The Escherichia coli ThiF and MoeB proteins are seemingly more closely related than the E. coli ThiF and Campylobacter (for example) ThiF. This entry represents the divergent clade of putative ThiF proteins as found in Campylobacter..
Probab=28.03 E-value=50 Score=14.91 Aligned_cols=40 Identities=15% Similarity=0.257 Sum_probs=32.6
Q ss_pred CEEEEEEEEEEECCCCCCHHHHHHHH----HHHHHHHHHCCCCC
Q ss_conf 96899983368738899988899999----99899986227962
Q gi|254780554|r 27 DNLCFVSSGTIVSCVRQSLAFRLCQL----YEGLTDVIKNWRPE 66 (169)
Q Consensus 27 ~~~~li~~g~I~t~~~~~~~~Rl~~I----~~~l~~ii~~~~Pd 66 (169)
+++.||||.+|+++--..-.+|...| .+.|.+.|++-+|-
T Consensus 46 gkLiLvDfDvvepsNLnRQqY~~s~~G~~KteAlke~i~einPy 89 (200)
T TIGR02354 46 GKLILVDFDVVEPSNLNRQQYKVSDVGKKKTEALKENISEINPY 89 (200)
T ss_pred CCEEEEEECEECCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCC
T ss_conf 20256640432366561325787624862179999878650884
No 103
>PRK13324 pantothenate kinase; Reviewed
Probab=27.97 E-value=51 Score=14.91 Aligned_cols=34 Identities=21% Similarity=0.215 Sum_probs=22.4
Q ss_pred EEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCC
Q ss_conf 99997888720589999719968999833687388999
Q gi|254780554|r 7 IIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQS 44 (169)
Q Consensus 7 ILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~ 44 (169)
+|-||-|-+++=||+.|.+ + ++....+.+...+.
T Consensus 2 ~L~IDIGNT~ik~g~~~~~--~--~~~~~~~~t~~~~~ 35 (258)
T PRK13324 2 LLVMDMGNSHIHIGVFDGD--R--IVSQIRYATSSVDS 35 (258)
T ss_pred EEEEEECCCCEEEEEEECC--E--EEEEEEEECCCCCC
T ss_conf 8999987333599999999--9--99999997787553
No 104
>TIGR00744 ROK_glcA_fam ROK family protein (putative glucokinase); InterPro: IPR004654 This family describes one branch of the ROK superfamily of proteins that may have activity as glucokinase although many proteins are as yet uncharacterised.; GO: 0004340 glucokinase activity, 0006096 glycolysis, 0005737 cytoplasm.
Probab=27.96 E-value=51 Score=14.90 Aligned_cols=45 Identities=18% Similarity=0.337 Sum_probs=24.5
Q ss_pred EEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCH-HHHHHHHHHH
Q ss_conf 99978887205899997199689998336873889998-8899999998
Q gi|254780554|r 8 IGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSL-AFRLCQLYEG 55 (169)
Q Consensus 8 LGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~-~~Rl~~I~~~ 55 (169)
+|+|-|=|.+-.+++|.+++.+. .| .|.|++..+. ..-+..+.+.
T Consensus 1 ~g~DiGGT~iklg~~de~gnils--kw-~vpTd~t~~ti~~~ia~~~ds 46 (326)
T TIGR00744 1 LGVDIGGTTIKLGVVDEEGNILS--KW-KVPTDTTDETIVVAIAKIVDS 46 (326)
T ss_pred CEEECCCCEEEEEEEECCCCCCC--CE-ECCCCCCCHHHHHHHHHHHHH
T ss_conf 91214564689888705556032--10-059878843899999987412
No 105
>COG2971 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]
Probab=27.75 E-value=51 Score=14.88 Aligned_cols=68 Identities=19% Similarity=0.222 Sum_probs=38.4
Q ss_pred CCCCCEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHC--CCCCEEE
Q ss_conf 99880699997888720589999719968999833687388999888999999989998622--7962778
Q gi|254780554|r 1 MRKSIRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKN--WRPEEAA 69 (169)
Q Consensus 1 ~~~~MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~--~~Pd~va 69 (169)
|..+|-+||||-|-++|=+.+.+.+++-+---.+|--.+. ..+...-+..|-+.+++.+.+ .+|+.+.
T Consensus 1 ~~~~~~~lGVDGGGTkt~a~l~~~~g~vlg~g~sGpAN~~-~~~~e~A~~ni~~ai~~A~~~aG~~~~~i~ 70 (301)
T COG2971 1 MEPMPYFLGVDGGGTKTRAVLADEDGNVLGRGKSGPANIQ-LVGKEEAVRNIKDAIREALDEAGLKPDEIA 70 (301)
T ss_pred CCCCCEEEEECCCCCCEEEEEECCCCCEEEEECCCCCEEC-CCCHHHHHHHHHHHHHHHHHHCCCCHHHHC
T ss_conf 9875279998568763689997589758977516885213-563678999999999999876289977817
No 106
>KOG2517 consensus
Probab=27.64 E-value=51 Score=14.87 Aligned_cols=60 Identities=12% Similarity=0.078 Sum_probs=31.4
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCC------CCHHHHHHHHHHHHHHHHHCCCC
Q ss_conf 6999978887205899997199689998336873889------99888999999989998622796
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVR------QSLAFRLCQLYEGLTDVIKNWRP 65 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~------~~~~~Rl~~I~~~l~~ii~~~~P 65 (169)
-++|||-|++++=++|++...+++.-.+--.++.... .+..+.+..+.+-++...+.-.+
T Consensus 7 ~~~gIDvGTtSaR~~v~~~~~~e~l~~~~~~i~~~~~~~~~~eq~p~eI~~~V~~ci~~~~e~l~~ 72 (516)
T KOG2517 7 VVLGIDVGTTSARALVFNAKNGELLSLAQKEITQEFPKEGWVEQDPKEIWQAVCRCIEKACEKLGV 72 (516)
T ss_pred EEEEEECCCCCEEEEEEECCCCCCCCCEEEEEEEECCCCCEEEECHHHHHHHHHHHHHHHHHHHCC
T ss_conf 489997178726889994578750000134444314888717758899999999999999975134
No 107
>COG0554 GlpK Glycerol kinase [Energy production and conversion]
Probab=27.38 E-value=52 Score=14.84 Aligned_cols=27 Identities=26% Similarity=0.321 Sum_probs=22.0
Q ss_pred CCCCCEEEEECCCCCEEEEEEEEEECC
Q ss_conf 998806999978887205899997199
Q gi|254780554|r 1 MRKSIRIIGIDPGLRRTGWGIVDVAGD 27 (169)
Q Consensus 1 ~~~~MrILGIDPGl~~tG~avie~~~~ 27 (169)
|.+.+.||.||-|++++=--++|..++
T Consensus 1 ~~~~~yIlAiDqGTTssRaivfd~~g~ 27 (499)
T COG0554 1 MLADKYILAIDQGTTSSRAIVFDEDGN 27 (499)
T ss_pred CCCCCEEEEEECCCCCEEEEEECCCCC
T ss_conf 976667999815876204899878888
No 108
>cd00938 HisRS_RNA HisRS_RNA binding domain. This short RNA-binding domain is found at the N-terminus of HisRS in several higher eukaryote aminoacyl-tRNA synthetases (aaRSs). This domain consists of a helix- turn- helix structure, which is similar to other RNA-binding proteins. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions, which are important for the formation of aaRSs into multienzyme complexes.
Probab=26.56 E-value=21 Score=17.21 Aligned_cols=23 Identities=22% Similarity=0.151 Sum_probs=17.3
Q ss_pred CCCCHHHHHHHHHHHCCCCCCCC
Q ss_conf 88899999999999628899999
Q gi|254780554|r 119 GHGDKKQIHMMLKMLMPESFFKG 141 (169)
Q Consensus 119 G~A~KeqV~~mV~~ll~~~~~~~ 141 (169)
-+|+|+|+..-|.+|+.+..-..
T Consensus 20 ~Ka~~e~I~eEVaKLL~LKaqLg 42 (45)
T cd00938 20 EKASKEQIAEEVAKLLELKAQLG 42 (45)
T ss_pred HHCCHHHHHHHHHHHHHHHHHHC
T ss_conf 13579989999999999998747
No 109
>COG1779 C4-type Zn-finger protein [General function prediction only]
Probab=26.04 E-value=9 Score=19.54 Aligned_cols=64 Identities=17% Similarity=0.267 Sum_probs=38.1
Q ss_pred EEECCCCCEEEE-----EEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHH
Q ss_conf 999788872058-----99997199689998336873889998889999999899986227962778850332
Q gi|254780554|r 8 IGIDPGLRRTGW-----GIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFV 75 (169)
Q Consensus 8 LGIDPGl~~tG~-----avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~ 75 (169)
+-|+||...-|| |||+.-...+ ...++....+.--.|...+...+.+.++.....-+.||++|=
T Consensus 96 ~~iePG~~s~G~ITtIEGvL~rv~e~l----~~a~~~~~~dE~~~k~~e~~~~i~~~ieg~~~fTlIieDp~G 164 (201)
T COG1779 96 LEIEPGPASEGFITTIEGVLERVYEVL----ETAIKLAEDDESKKKAEELLKRIDEAIEGKRKFTLIIEDPLG 164 (201)
T ss_pred EEECCCCCCCCEEEHHHHHHHHHHHHH----HHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCC
T ss_conf 076126666754761899999999999----887751333088899999999999986067507999988888
No 110
>pfam00349 Hexokinase_1 Hexokinase. Hexokinase (EC:2.7.1.1) contains two structurally similar domains represented by this family and pfam03727. Some members of the family have two copies of each of these domains.
Probab=25.93 E-value=55 Score=14.68 Aligned_cols=62 Identities=11% Similarity=0.024 Sum_probs=39.2
Q ss_pred CEEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECCCC---CCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 06999978887205899997199689998336873889---998889999999899986227962
Q gi|254780554|r 5 IRIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSCVR---QSLAFRLCQLYEGLTDVIKNWRPE 66 (169)
Q Consensus 5 MrILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~~~---~~~~~Rl~~I~~~l~~ii~~~~Pd 66 (169)
=+.|+||-|-++.=.+.++..|+...-+.......+.. .+-.+-...|.+.+.++++++.++
T Consensus 62 G~~lAlDlGGTN~RV~~V~L~g~~~~~~~~~~~~ip~~~~~~t~~eLFd~iA~~i~~fv~~~~~~ 126 (205)
T pfam00349 62 GDFLALDLGGTNFRVLLVKLTGNGKVEMTQSKYRLPEELMTGTGEQLFDFIADCLKDFMDEQFPL 126 (205)
T ss_pred CEEEEEEECCCEEEEEEEEECCCCCEEEEEEEEECCHHHHCCCHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 23999960685489999997699848999998888967714988999999999999999983677
No 111
>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=25.61 E-value=56 Score=14.64 Aligned_cols=20 Identities=20% Similarity=0.336 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHCCCCCEEEE
Q ss_conf 99998999862279627788
Q gi|254780554|r 51 QLYEGLTDVIKNWRPEEAAV 70 (169)
Q Consensus 51 ~I~~~l~~ii~~~~Pd~vai 70 (169)
.+.+.+.++++.|+|+.++|
T Consensus 68 ~L~~~I~~~~~~y~P~~I~V 87 (417)
T cd01966 68 NLEEALDTLAERAKPKVIGL 87 (417)
T ss_pred HHHHHHHHHHHHCCCCEEEE
T ss_conf 99999999998529877999
No 112
>pfam02025 IL5 Interleukin 5.
Probab=25.00 E-value=48 Score=15.02 Aligned_cols=39 Identities=18% Similarity=0.316 Sum_probs=29.9
Q ss_pred EECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHC
Q ss_conf 8738899988899999998999862279627788503320
Q gi|254780554|r 37 IVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVN 76 (169)
Q Consensus 37 I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~ 76 (169)
|.++..+++.-.+.+||+++..+=++--... ++|.+|-+
T Consensus 29 I~~P~hknhqLCieEiFQGidtLkNqT~~g~-~veklFqn 67 (108)
T pfam02025 29 IPVPEHKNHQLCIEEIFQGIDTLKNQTVQGD-AVEKLFQN 67 (108)
T ss_pred ECCCCCCCCHHHHHHHHHHHHHHHCCCCCCC-HHHHHHHH
T ss_conf 4588867642459999957878740445530-59999986
No 113
>TIGR00871 zwf glucose-6-phosphate 1-dehydrogenase; InterPro: IPR001282 Glucose-6-phosphate dehydrogenase (1.1.1.49 from EC) (G6PDH) is a ubiquitous protein, present in bacteria and all eukaryotic cell types . The enzyme catalyses the the first step in the pentose pathway, i.e. the conversion of glucose-6-phosphate to gluconolactone 6-phosphate in the presence of NADP, producing NADPH. The ubiquitous expression of the enzyme gives it a major role in the production of NADPH for the many NADPH-mediated reductive processes in all cells . Deficiency of G6PDH is a common genetic abnormality affecting millions of people worldwide. Many sequence variants, most caused by single point mutations, are known, exhibiting a wide variety of phenotypes .; GO: 0004345 glucose-6-phosphate dehydrogenase activity, 0006006 glucose metabolic process.
Probab=24.59 E-value=58 Score=14.52 Aligned_cols=39 Identities=15% Similarity=0.203 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHCC----CC---CEEEEEHHHHCCCHHHHHHHHHH
Q ss_conf 999999899986227----96---27788503320241247889999
Q gi|254780554|r 49 LCQLYEGLTDVIKNW----RP---EEAAVEQVFVNKDAVATLKLGQA 88 (169)
Q Consensus 49 l~~I~~~l~~ii~~~----~P---d~vaiE~~F~~~n~~t~~~lg~a 88 (169)
+..|.+.|.+..-.. ++ .-|+||+|| |++-+||..|-..
T Consensus 123 F~~i~~~L~~~~l~~~nq~~~~~w~Rvv~EKPF-G~DL~SA~~Ln~~ 168 (498)
T TIGR00871 123 FGTIIKQLKKHGLNERNQEQGKTWSRVVIEKPF-GHDLASAQELNKQ 168 (498)
T ss_pred CHHHHHHHHHHHCCCCCCCCCCCEEEEEEECCC-CCCHHHHHHHHHH
T ss_conf 026788776531000135578844799987889-9987899999999
No 114
>cd00936 WEPRS_RNA WEPRS_RNA binding domain. This short RNA-binding domain is found in several higher eukaryote aminoacyl-tRNA synthetases (aaRSs). It is found in multiple copies in eukaryotic bifunctional glutamyl-prolyl-tRNA synthetases (EPRS) in a region that separates the N-terminal glutamyl-tRNA synthetase (GluRS) from the C-terminal prolyl-tRNA synthetase (ProRS). It is also found at the N-terminus of vertebrate tryptophanyl-tRNA synthetases (TrpRS). This domain consists of a helix-turn-helix structure, which is similar to other RNA-binding proteins. It is involved in both protein-RNA interactions by binding tRNA and protein-protein interactions, which are important for the formation of aaRSs into multienzyme complexes.
Probab=24.38 E-value=37 Score=15.74 Aligned_cols=20 Identities=20% Similarity=0.277 Sum_probs=16.0
Q ss_pred CCCCCHHHHHHHHHHHCCCC
Q ss_conf 88889999999999962889
Q gi|254780554|r 118 VGHGDKKQIHMMLKMLMPES 137 (169)
Q Consensus 118 ~G~A~KeqV~~mV~~ll~~~ 137 (169)
..+|+|++|...|+.||.+.
T Consensus 17 a~Ka~K~~id~aV~~LL~LK 36 (50)
T cd00936 17 AKKAPKEEIDAAVKKLLALK 36 (50)
T ss_pred CCCCCHHHHHHHHHHHHHHH
T ss_conf 14687889999999999999
No 115
>PRK12861 malic enzyme; Reviewed
Probab=23.75 E-value=60 Score=14.43 Aligned_cols=84 Identities=15% Similarity=0.160 Sum_probs=54.5
Q ss_pred CCCCEEEEECCCCCEE-EEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCC--CCCEEEEEHHHHC-C
Q ss_conf 9880699997888720-5899997199689998336873889998889999999899986227--9627788503320-2
Q gi|254780554|r 2 RKSIRIIGIDPGLRRT-GWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNW--RPEEAAVEQVFVN-K 77 (169)
Q Consensus 2 ~~~MrILGIDPGl~~t-G~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~--~Pd~vaiE~~F~~-~ 77 (169)
+..++|+|..||.+.. |..++-..++.+.+-|+.+.. ++.++.|..|.-.-.+..+.| .|...-+--.=|+ .
T Consensus 569 rpalqVIG~~pg~~~vs~~~lmi~~~~~lF~ADT~Vn~----~PtAEqLAeIAi~aA~~ar~fGiePRVAmLSfSnFGS~ 644 (762)
T PRK12861 569 RFVDEVIGRKPGASTYAAMNILLLDQRTVALVDTHVND----NPDAEQIAEFTIAAARQMEWLNLTPKVALLSRSNFGSG 644 (762)
T ss_pred HHHHHHCCCCCCCCEEEEEEEEECCCCCEEEEECCCCC----CCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCC
T ss_conf 99999618899984478888998389628997262545----87999999999999999998399973899805789999
Q ss_pred CHHHHHHHHHHH
Q ss_conf 412478899999
Q gi|254780554|r 78 DAVATLKLGQAR 89 (169)
Q Consensus 78 n~~t~~~lg~ar 89 (169)
+..++.|+-+|.
T Consensus 645 ~~~~~~KVreAv 656 (762)
T PRK12861 645 SAASGVKMRRAL 656 (762)
T ss_pred CCCCHHHHHHHH
T ss_conf 997157999999
No 116
>TIGR00419 tim triosephosphate isomerase; InterPro: IPR000652 Triosephosphate isomerase () (TIM) is the glycolytic enzyme that catalyzes the reversible interconversion of glyceraldehyde 3-phosphate and dihydroxyacetone phosphate. TIM plays an important role in several metabolic pathways and is essential for efficient energy production. It is a dimer of identical subunits, each of which is made up of about 250 amino-acid residues. A glutamic acid residue is involved in the catalytic mechanism . The sequence around the active site residue is perfectly conserved in all known TIM's. Deficiencies in TIM are associated with haemolytic anaemia coupled with a progressive, severe neurological disorder .; GO: 0004807 triose-phosphate isomerase activity, 0008152 metabolic process.
Probab=23.34 E-value=44 Score=15.26 Aligned_cols=16 Identities=38% Similarity=0.405 Sum_probs=9.2
Q ss_pred HHHCCCCCEEEEEHHH
Q ss_conf 8622796277885033
Q gi|254780554|r 59 VIKNWRPEEAAVEQVF 74 (169)
Q Consensus 59 ii~~~~Pd~vaiE~~F 74 (169)
-|++|.||.||+|-|-
T Consensus 158 kikDl~p~~vAvEPpe 173 (244)
T TIGR00419 158 KIKDLEPDVVAVEPPE 173 (244)
T ss_pred HHHCCCCCEEEEECCC
T ss_conf 7441589789982750
No 117
>TIGR01214 rmlD dTDP-4-dehydrorhamnose reductase; InterPro: IPR005913 dTDP-4-dehydrorhamnose reductase (1.1.1.133 from EC) catalyzes the last of 4 steps in making dTDP-rhamnose, a precursor of LPS molecules such as core antigen and O-antigen. dTDP-6-deoxy-L-mannose + NADP+ = dTDP-4-dehydro-6-deoxy-L-mannose + NADPH ; GO: 0008831 dTDP-4-dehydrorhamnose reductase activity, 0045226 extracellular polysaccharide biosynthetic process.
Probab=23.24 E-value=62 Score=14.36 Aligned_cols=49 Identities=16% Similarity=0.169 Sum_probs=28.7
Q ss_pred HHHHHHHHHHCCCCCEEEE----------E---HHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEC
Q ss_conf 9998999862279627788----------5---033202412478899999999999986016177526
Q gi|254780554|r 52 LYEGLTDVIKNWRPEEAAV----------E---QVFVNKDAVATLKLGQARAIAILSPALARIPVSEYA 107 (169)
Q Consensus 52 I~~~l~~ii~~~~Pd~vai----------E---~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~ 107 (169)
.-+.|.+++++++||.|+= | +.-|.-|...... +-.+|.+.|..+..|+
T Consensus 48 dP~~l~~~~r~~~Pd~vvntAAYT~VD~AE~~~~~AyavNa~A~~~-------lA~~A~~~Ga~~vh~S 109 (317)
T TIGR01214 48 DPEALEELLRAIRPDAVVNTAAYTDVDGAESDPEKAYAVNALAPQN-------LARAAARVGARLVHIS 109 (317)
T ss_pred CHHHHHHHHHHHCCCEEEECCHHCCCCCCCCCHHHHHHHHHHHHHH-------HHHHHHHCCCEEEEEE
T ss_conf 4688999998528753762301101000037777876574078999-------9999986691599986
No 118
>KOG1468 consensus
Probab=23.03 E-value=62 Score=14.34 Aligned_cols=94 Identities=19% Similarity=0.208 Sum_probs=57.5
Q ss_pred CCCEEEEE----EEEE--ECCEEEEEEEEEEECCCCCCHHHHHHH------------HHH-HHHHHHHCCCCCEEEEEHH
Q ss_conf 88720589----9997--199689998336873889998889999------------999-8999862279627788503
Q gi|254780554|r 13 GLRRTGWG----IVDV--AGDNLCFVSSGTIVSCVRQSLAFRLCQ------------LYE-GLTDVIKNWRPEEAAVEQV 73 (169)
Q Consensus 13 Gl~~tG~a----vie~--~~~~~~li~~g~I~t~~~~~~~~Rl~~------------I~~-~l~~ii~~~~Pd~vaiE~~ 73 (169)
++...||| ||.. +.+++.++. |.+|++-.. +-||.. |-+ .+..+++.++.|.|.+---
T Consensus 166 SLATagyGTALGVIRsLh~~grLehvy--ctETRPyNQ-GsRLTA~ELvhekiPatLItDS~vA~~m~~~~vdavvvGAD 242 (354)
T KOG1468 166 SLATAGYGTALGVIRSLHSLGRLEHVY--CTETRPYNQ-GSRLTAFELVHEKIPATLITDSMVAAAMKNHQVDAVVVGAD 242 (354)
T ss_pred CHHHCCCCHHHHHHHHHHHCCCCCEEE--ECCCCCCCC-CCCHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCEEEECCC
T ss_conf 402114436889999987657740477--636666776-53013588775007601216679999986389777997641
Q ss_pred HHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHH
Q ss_conf 32024124788999999999999860161775260677
Q gi|254780554|r 74 FVNKDAVATLKLGQARAIAILSPALARIPVSEYAPNTI 111 (169)
Q Consensus 74 F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~P~~v 111 (169)
=+.+|..|+-|+|--.=+ ..|..+|||.|-.+|.+-
T Consensus 243 rVarNGDTANKIGTy~LA--v~aKhhgipFyvaaP~ts 278 (354)
T KOG1468 243 RVARNGDTANKIGTYQLA--VLAKHHGIPFYVAAPFTS 278 (354)
T ss_pred CEECCCCCHHHHHHHHHH--HHHHHCCCCEEEECCCCC
T ss_conf 011268622221255799--999864986388546430
No 119
>pfam05582 Peptidase_U57 YabG peptidase U57. YabG is a protease involved in the proteolysis and maturation of SpoIVA and YrbA proteins, conserved with the cortex and/or coat assembly by Bacillus subtilis.
Probab=22.71 E-value=63 Score=14.30 Aligned_cols=22 Identities=14% Similarity=0.191 Sum_probs=13.3
Q ss_pred HHHHHHCCCCEEEE------CHHHHHHH
Q ss_conf 99998601617752------60677765
Q gi|254780554|r 93 ILSPALARIPVSEY------APNTIKKA 114 (169)
Q Consensus 93 ~l~~~~~~i~v~ey------~P~~vKka 114 (169)
+-+=.+.++|++.| .|..|+..
T Consensus 122 l~~Ykql~i~a~G~~i~E~eqP~~i~~L 149 (287)
T pfam05582 122 LKVYKQLGLPAVGVHISEKEQPEKIESL 149 (287)
T ss_pred HHHHHHCCCCEEEEEECCHHCHHHHHHH
T ss_conf 9999971984589983601252999999
No 120
>PRK13927 rod shape-determining protein MreB; Provisional
Probab=22.31 E-value=54 Score=14.72 Aligned_cols=16 Identities=31% Similarity=0.266 Sum_probs=12.3
Q ss_pred EEEEECCCCCEEEEEE
Q ss_conf 6999978887205899
Q gi|254780554|r 6 RIIGIDPGLRRTGWGI 21 (169)
Q Consensus 6 rILGIDPGl~~tG~av 21 (169)
+.+|||.|++++-.++
T Consensus 9 ~~iGIDLGTtns~v~~ 24 (338)
T PRK13927 9 NDLGIDLGTANTLIYV 24 (338)
T ss_pred CEEEEECCHHCEEEEE
T ss_conf 6228976634089998
No 121
>PRK04123 ribulokinase; Provisional
Probab=22.01 E-value=65 Score=14.21 Aligned_cols=57 Identities=19% Similarity=0.097 Sum_probs=31.2
Q ss_pred EEEEECCCCCEEEEEEEEEECCEEEEEEEEEEECC---------CC-----CCHHHHHHHHHHHHHHHHHCCC
Q ss_conf 69999788872058999971996899983368738---------89-----9988899999998999862279
Q gi|254780554|r 6 RIIGIDPGLRRTGWGIVDVAGDNLCFVSSGTIVSC---------VR-----QSLAFRLCQLYEGLTDVIKNWR 64 (169)
Q Consensus 6 rILGIDPGl~~tG~avie~~~~~~~li~~g~I~t~---------~~-----~~~~~Rl~~I~~~l~~ii~~~~ 64 (169)
=+||||-|++.+=-.++|.+.++ .+.......+ +. .+..+=...+.+.+++++++..
T Consensus 4 Y~lgID~GTts~Ka~l~D~~~G~--~~a~~~~~yp~~~~~~~~~p~~gw~Eqdp~~~w~a~~~~i~~~~~~~~ 74 (542)
T PRK04123 4 YAIGLDFGTDSVRALLVDCATGE--EIATSVEEYPRWVKGLYLDLPNNQFLQHPLDYIESLEEAVKAVLAESG 74 (542)
T ss_pred EEEEEEECCCCEEEEEEECCCCC--EEEEEEEECCCCCCCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHHCC
T ss_conf 79999716611277899889996--999998623554455545799893678999999999999999999759
No 122
>cd03112 CobW_like The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.
Probab=21.92 E-value=66 Score=14.20 Aligned_cols=47 Identities=21% Similarity=0.224 Sum_probs=32.4
Q ss_pred EEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHHHHC
Q ss_conf 6899983368738899988899999998999862279627788503320
Q gi|254780554|r 28 NLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQVFVN 76 (169)
Q Consensus 28 ~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~F~~ 76 (169)
...-+..|||-.+.+.++...|..+.+.+.. .+.+||.+.||..=.+
T Consensus 52 ~v~el~~GCiCCs~~~dl~~~l~~l~~~~~~--~~~~~d~iiIE~SGla 98 (158)
T cd03112 52 EIIEMNNGCICCTVRGDLIRALLDLLERLDA--GKIAFDRIVIETTGLA 98 (158)
T ss_pred EEEEECCCEEEEECCCHHHHHHHHHHHHHHC--CCCCCCEEEEECCCCC
T ss_conf 4999338714652251589999999997651--5788788999636878
No 123
>pfam01385 Transposase_2 Probable transposase. This family includes IS891, IS1136 and IS1341. DUF1225, pfam06774, has now been merged into this family.
Probab=21.83 E-value=66 Score=14.19 Aligned_cols=11 Identities=36% Similarity=0.730 Sum_probs=6.4
Q ss_pred EEEEECCCCCE
Q ss_conf 69999788872
Q gi|254780554|r 6 RIIGIDPGLRR 16 (169)
Q Consensus 6 rILGIDPGl~~ 16 (169)
.++|||+|+..
T Consensus 124 ~~~GIDlGi~~ 134 (226)
T pfam01385 124 KAAGIDLGINN 134 (226)
T ss_pred CEEEEECCCCE
T ss_conf 35899527765
No 124
>pfam06925 MGDG_synth Monogalactosyldiacylglycerol (MGDG) synthase. This family represents a conserved region of approximately 180 residues within plant and bacterial monogalactosyldiacylglycerol (MGDG) synthase (EC:2.4.1.46). In Arabidopsis, there are two types of MGDG synthase which differ in their N-terminal portion: type A and type B.
Probab=21.21 E-value=68 Score=14.11 Aligned_cols=33 Identities=12% Similarity=0.282 Sum_probs=23.4
Q ss_pred HHHHHHHH-HHHHHHHHHCCCCCEEEEEHHHHCC
Q ss_conf 88899999-9989998622796277885033202
Q gi|254780554|r 45 LAFRLCQL-YEGLTDVIKNWRPEEAAVEQVFVNK 77 (169)
Q Consensus 45 ~~~Rl~~I-~~~l~~ii~~~~Pd~vaiE~~F~~~ 77 (169)
...++..+ .+.|.++|++++||.|+.=-+|...
T Consensus 69 ~~~~~~~~~~~~l~~~i~~~~PD~IV~Thp~~~~ 102 (169)
T pfam06925 69 ILAKLATFFARELAALLKEFQPDIIISTHPLPAA 102 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCEEEECCHHHHH
T ss_conf 9999999999999999998493999999762667
No 125
>pfam02350 Epimerase_2 UDP-N-acetylglucosamine 2-epimerase. This family consists of UDP-N-acetylglucosamine 2-epimerases EC:5.1.3.14 this enzyme catalyses the production of UDP-ManNAc from UDP-GlcNAc. Note that some of the enzymes is this family are bifunctional, in this instance Pfam matches only the N-terminal half of the protein suggesting that the additional C-terminal part (when compared to mono-functional members of this family) is responsible for the UPD-N-acetylmannosamine kinase activity of these enzymes. This hypothesis is further supported by the assumption that the C-terminal part of rat bifunctional UDP-N-acetylglucosamine 2-epimerase/N-acetylmannosamine kinase is the kinase domain.
Probab=20.77 E-value=69 Score=14.05 Aligned_cols=29 Identities=34% Similarity=0.404 Sum_probs=18.4
Q ss_pred CCHHHHHHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf 99888999999989998622796277885
Q gi|254780554|r 43 QSLAFRLCQLYEGLTDVIKNWRPEEAAVE 71 (169)
Q Consensus 43 ~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE 71 (169)
.+..+-+..+-..+.+++.+++||.|.|-
T Consensus 46 ~~~~~~~~~~i~~~~~~l~~~~PD~vlv~ 74 (346)
T pfam02350 46 QSLAKSTGRILIGLEDVLEEEKPDLVLVL 74 (346)
T ss_pred CCHHHHHHHHHHHHHHHHHHHCCCEEEEE
T ss_conf 98999999999999999998299999996
No 126
>PRK07035 short chain dehydrogenase; Provisional
Probab=20.66 E-value=70 Score=14.04 Aligned_cols=54 Identities=15% Similarity=0.084 Sum_probs=33.1
Q ss_pred HHHCCCCEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHCCCCC-CCCCCHHHHHHH
Q ss_conf 9860161775260677765316888899999999999628899-999556789999
Q gi|254780554|r 96 PALARIPVSEYAPNTIKKAVIGVGHGDKKQIHMMLKMLMPESF-FKGKDAADALAI 150 (169)
Q Consensus 96 ~~~~~i~v~ey~P~~vKkavtG~G~A~KeqV~~mV~~ll~~~~-~~~~D~aDAlAi 150 (169)
...+||.|.-+.|.-++--.+..-..+++....+.+.. ++.+ -.|+|.+++++-
T Consensus 176 la~~gIrVN~V~PG~i~T~~~~~~~~~~~~~~~~~~~~-Pl~R~g~pedia~~v~f 230 (252)
T PRK07035 176 CAPFGIRVNALLPGLTDTKFASALFKNDAILKQALAHI-PLRRHAEPSEMAGAVLY 230 (252)
T ss_pred HHHHCEEEEEEEECCCCCHHHHCCCCCHHHHHHHHHCC-CCCCCCCHHHHHHHHHH
T ss_conf 60329599999628788742430248999999998569-99998299999999999
No 127
>COG4328 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=20.64 E-value=70 Score=14.04 Aligned_cols=59 Identities=15% Similarity=0.112 Sum_probs=28.6
Q ss_pred CEEEEECCCCC---EEEEEEEEEECCEEEEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCEEEEEHH
Q ss_conf 06999978887---2058999971996899983368738899988899999998999862279627788503
Q gi|254780554|r 5 IRIIGIDPGLR---RTGWGIVDVAGDNLCFVSSGTIVSCVRQSLAFRLCQLYEGLTDVIKNWRPEEAAVEQV 73 (169)
Q Consensus 5 MrILGIDPGl~---~tG~avie~~~~~~~li~~g~I~t~~~~~~~~Rl~~I~~~l~~ii~~~~Pd~vaiE~~ 73 (169)
|.++|||-|-+ ..+.+++..+|+- . + -.....++ +.+|+..+.....+.++-.|++..+
T Consensus 1 m~fvGiDlaW~~~ppg~~cl~~~dg~~-~-i----~~~~rr~s----~aei~a~id~~v~eae~clVavDaP 62 (266)
T COG4328 1 MKFVGIDLAWASRPPGLCCLQLADGGL-L-I----GDLARRDS----AAEIFAWIDYVVGEAEDCLVAVDAP 62 (266)
T ss_pred CCEEEEEEECCCCCCCEEEEEECCCCC-E-E----EECHHHHH----HHHHHHHHHHHHCCCCCEEEEECCC
T ss_conf 915775420256998648999747872-4-7----43333554----8999998887634665638970486
No 128
>TIGR02445 fadA acetyl-CoA C-acyltransferase FadA; InterPro: IPR012805 This subunit of the FadBA complex has acetyl-CoA C-acyltransferase (2.3.1.16 from EC) activity, and is also known as beta-ketothiolase and fatty oxidation complex, beta subunit. This protein is almost always located adjacent to FadB (IPR012799 from INTERPRO). The FadBA complex is the major complex active for beta-oxidation of fatty acids in Escherichia coli.; GO: 0003988 acetyl-CoA C-acyltransferase activity, 0006631 fatty acid metabolic process, 0016042 lipid catabolic process.
Probab=20.55 E-value=34 Score=15.98 Aligned_cols=60 Identities=22% Similarity=0.276 Sum_probs=26.6
Q ss_pred HHHHHHCC-CCCEEEEEHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHHHHHHCCCCC
Q ss_conf 99986227-962778850332024124788999999999999860161775260677765316888
Q gi|254780554|r 56 LTDVIKNW-RPEEAAVEQVFVNKDAVATLKLGQARAIAILSPALARIPVSEYAPNTIKKAVIGVGH 120 (169)
Q Consensus 56 l~~ii~~~-~Pd~vaiE~~F~~~n~~t~~~lg~arGvi~l~~~~~~i~v~ey~P~~vKkavtG~G~ 120 (169)
++.++.+. +.+...+|+++++--.+| +. |-.-+...++....+|.. ....+| .-++|+.-
T Consensus 33 ~~~~l~rn~~~~~~~~~d~~WGCv~qt-le--qG~n~ar~a~ll~~~P~~-~~a~tv-~rlCGssm 93 (385)
T TIGR02445 33 IKKLLARNPKVDPAEVEDIYWGCVQQT-LE--QGFNIARNAALLAEVPHE-VAAVTV-NRLCGSSM 93 (385)
T ss_pred HHHHHHHCCCCCHHHHHHHHHHHHHHH-HH--HHHHHHHHHHHHHHCCHH-HHHHHH-HHHHHHHH
T ss_conf 999985133557234434545546777-75--347888888898734302-222455-54420358
No 129
>TIGR01315 5C_CHO_kinase FGGY-family pentulose kinase; InterPro: IPR006003 The enzymes for catabolism of the pentitols D-arabinitol and ribitol include NAD-dependent pentose dehydrogenase (dalD and rbtD), ATP-dependent pentulose kinases (dalK and rbtK) and a pentose-specific ion symporter (dalT and rbtT). Of the two kinases (19.3 0dentity), DalK (487 aa) belongs to the family of short D-xylulokinases and RbtK (D-ribulokinase; 535 aa) to the family of long kinases . .
Probab=20.39 E-value=54 Score=14.70 Aligned_cols=15 Identities=27% Similarity=0.512 Sum_probs=4.8
Q ss_pred EECHHHHHHHHCCCC
Q ss_conf 526067776531688
Q gi|254780554|r 105 EYAPNTIKKAVIGVG 119 (169)
Q Consensus 105 ey~P~~vKkavtG~G 119 (169)
-|.-++|=-+.+-+|
T Consensus 451 aygtRqI~ea~~~~G 465 (574)
T TIGR01315 451 AYGTRQIVEALTAAG 465 (574)
T ss_pred HHHHHHHHHHHHHCC
T ss_conf 643889999986268
No 130
>PRK13929 rod-share determining protein MreBH; Provisional
Probab=20.24 E-value=40 Score=15.52 Aligned_cols=12 Identities=42% Similarity=0.515 Sum_probs=6.1
Q ss_pred EEEEECCCCCEE
Q ss_conf 699997888720
Q gi|254780554|r 6 RIIGIDPGLRRT 17 (169)
Q Consensus 6 rILGIDPGl~~t 17 (169)
+.+|||-|++++
T Consensus 5 ~~iGIDLGTtns 16 (335)
T PRK13929 5 TEIGIDLGTANI 16 (335)
T ss_pred CEEEEECCHHHE
T ss_conf 816898753528
Done!