Query 029100
Match_columns 199
No_of_seqs 118 out of 1045
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 07:30:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029100.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029100hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01398 RPI_A RPI_A: Ribose 5- 100.0 1.4E-35 3.1E-40 249.2 18.0 158 33-197 1-158 (213)
2 PRK00702 ribose-5-phosphate is 100.0 2.6E-34 5.6E-39 242.8 17.6 160 29-196 2-161 (220)
3 TIGR00021 rpiA ribose 5-phosph 100.0 3.7E-34 7.9E-39 241.6 17.3 157 33-196 1-157 (218)
4 PLN02384 ribose-5-phosphate is 100.0 8.5E-32 1.9E-36 231.8 19.6 194 1-196 1-198 (264)
5 PRK13978 ribose-5-phosphate is 100.0 2E-29 4.4E-34 213.5 18.4 162 28-195 2-164 (228)
6 PF00455 DeoRC: DeoR C termina 100.0 1.7E-30 3.7E-35 209.5 8.9 137 30-182 2-159 (161)
7 COG0120 RpiA Ribose 5-phosphat 100.0 5.9E-29 1.3E-33 209.5 16.6 160 29-196 2-161 (227)
8 PRK10906 DNA-binding transcrip 100.0 3.4E-29 7.3E-34 215.2 10.1 142 26-183 70-232 (252)
9 PRK10681 DNA-binding transcrip 100.0 4.1E-29 8.8E-34 214.4 8.4 143 25-183 70-233 (252)
10 PRK13509 transcriptional repre 100.0 9.5E-29 2.1E-33 212.1 9.5 142 25-183 71-231 (251)
11 PRK09802 DNA-binding transcrip 100.0 8.2E-29 1.8E-33 214.6 8.8 142 25-182 84-246 (269)
12 PRK10434 srlR DNA-bindng trans 100.0 2.6E-28 5.7E-33 209.9 10.1 142 25-183 69-232 (256)
13 PRK10411 DNA-binding transcrip 100.0 3.5E-28 7.6E-33 207.6 9.8 140 26-182 72-232 (240)
14 COG1349 GlpR Transcriptional r 99.9 9E-28 1.9E-32 206.5 7.9 142 25-182 69-231 (253)
15 KOG3075 Ribose 5-phosphate iso 99.9 1.5E-22 3.3E-27 172.2 15.3 174 20-195 12-189 (261)
16 PF06026 Rib_5-P_isom_A: Ribos 99.8 9E-20 2E-24 149.1 9.7 115 78-197 1-115 (173)
17 COG1184 GCD2 Translation initi 98.2 1.8E-05 4E-10 70.0 12.4 154 28-191 100-288 (301)
18 TIGR00524 eIF-2B_rel eIF-2B al 98.0 9.3E-05 2E-09 65.6 12.4 133 31-169 102-258 (303)
19 PRK08335 translation initiatio 97.9 0.00033 7.1E-09 61.5 13.1 125 29-157 91-227 (275)
20 TIGR00511 ribulose_e2b2 ribose 97.8 0.00047 1E-08 61.1 13.1 123 31-157 99-233 (301)
21 PRK08535 translation initiatio 97.8 0.00045 9.7E-09 61.4 12.8 120 31-156 104-237 (310)
22 PRK05720 mtnA methylthioribose 97.7 0.00084 1.8E-08 60.6 12.5 132 32-170 131-287 (344)
23 TIGR00512 salvage_mtnA S-methy 97.7 0.0012 2.6E-08 59.3 13.3 133 31-170 126-287 (331)
24 KOG1466 Translation initiation 97.6 0.0013 2.8E-08 57.4 12.1 130 32-167 115-258 (313)
25 PRK05772 translation initiatio 97.5 0.0023 4.9E-08 58.3 13.0 121 31-157 150-296 (363)
26 PRK06371 translation initiatio 97.3 0.006 1.3E-07 54.8 12.8 115 34-154 123-262 (329)
27 PRK06036 translation initiatio 97.2 0.0093 2E-07 53.9 13.4 117 33-156 133-274 (339)
28 PF01008 IF-2B: Initiation fac 97.2 0.0028 6E-08 54.9 9.2 122 30-156 90-225 (282)
29 COG2057 AtoA Acyl CoA:acetate/ 97.1 0.00042 9E-09 59.0 3.1 109 32-153 6-151 (225)
30 PRK08334 translation initiatio 96.7 0.031 6.7E-07 50.8 12.4 130 32-169 145-299 (356)
31 TIGR02428 pcaJ_scoB_fam 3-oxoa 96.5 0.0082 1.8E-07 50.5 6.3 108 34-152 3-145 (207)
32 PRK06372 translation initiatio 96.1 0.11 2.4E-06 45.2 11.8 117 32-156 72-200 (253)
33 PRK09920 acetyl-CoA:acetoacety 95.5 0.073 1.6E-06 45.3 7.9 45 36-84 6-53 (219)
34 TIGR02429 pcaI_scoA_fam 3-oxoa 94.8 0.19 4.2E-06 42.8 8.3 46 103-149 148-193 (222)
35 PF02550 AcetylCoA_hydro: Acet 94.6 0.23 4.9E-06 41.1 8.4 45 105-151 123-167 (198)
36 TIGR03458 YgfH_subfam succinat 94.4 0.55 1.2E-05 44.4 11.4 113 38-152 5-160 (485)
37 PF04198 Sugar-bind: Putative 94.1 0.072 1.6E-06 45.9 4.4 86 31-120 32-158 (255)
38 COG1788 AtoD Acyl CoA:acetate/ 93.8 0.57 1.2E-05 40.0 9.1 112 33-149 3-190 (220)
39 COG2390 DeoR Transcriptional r 92.8 0.27 5.9E-06 44.1 5.9 41 29-69 92-136 (321)
40 KOG1467 Translation initiation 91.1 1.2 2.6E-05 42.2 8.3 116 36-157 348-477 (556)
41 cd00458 SugarP_isomerase Sugar 90.9 1.1 2.3E-05 36.2 7.0 50 36-85 7-58 (169)
42 TIGR01584 citF citrate lyase, 90.2 0.61 1.3E-05 44.2 5.6 163 19-196 218-432 (492)
43 PRK15418 transcriptional regul 88.6 0.66 1.4E-05 41.4 4.5 37 31-67 95-135 (318)
44 TIGR01584 citF citrate lyase, 88.1 1.9 4.1E-05 40.9 7.2 104 45-152 40-190 (492)
45 KOG1465 Translation initiation 84.3 11 0.00023 34.0 9.6 114 35-154 150-277 (353)
46 COG0182 Predicted translation 83.4 15 0.00032 33.4 10.1 132 33-171 135-291 (346)
47 PF01144 CoA_trans: Coenzyme A 81.4 3.1 6.7E-05 34.5 5.0 32 36-68 3-38 (217)
48 COG0427 ACH1 Acetyl-CoA hydrol 80.1 4.9 0.00011 38.2 6.2 121 27-150 6-171 (501)
49 TIGR01110 mdcA malonate decarb 73.2 30 0.00065 33.4 9.4 91 35-126 28-157 (543)
50 COG4670 Acyl CoA:acetate/3-ket 66.8 58 0.0013 31.2 9.7 49 34-82 4-56 (527)
51 PF08679 DsrD: Dissimilatory s 64.8 1.5 3.2E-05 30.6 -0.8 28 34-61 34-61 (67)
52 TIGR03458 YgfH_subfam succinat 63.1 15 0.00033 34.8 5.3 50 18-69 211-270 (485)
53 PF04223 CitF: Citrate lyase, 62.3 36 0.00078 32.1 7.4 44 103-150 114-165 (466)
54 PF02254 TrkA_N: TrkA-N domain 59.0 34 0.00075 24.7 5.7 45 50-99 1-45 (116)
55 PF04223 CitF: Citrate lyase, 57.9 77 0.0017 29.9 8.7 97 25-122 201-337 (466)
56 PF01488 Shikimate_DH: Shikima 54.5 33 0.00072 26.2 5.1 74 37-114 2-83 (135)
57 COG0373 HemA Glutamyl-tRNA red 54.0 1.7E+02 0.0038 27.3 10.5 83 33-119 164-251 (414)
58 cd01399 GlcN6P_deaminase GlcN6 48.7 21 0.00046 29.4 3.4 35 35-69 5-41 (232)
59 PRK00443 nagB glucosamine-6-ph 46.8 31 0.00068 29.1 4.2 22 47-68 33-54 (261)
60 KOG2828 Acetyl-CoA hydrolase [ 46.0 39 0.00084 31.5 4.8 111 39-151 30-174 (454)
61 TIGR01110 mdcA malonate decarb 43.1 55 0.0012 31.6 5.5 49 19-69 212-263 (543)
62 PF02824 TGS: TGS domain; Int 41.4 23 0.0005 23.6 2.1 25 45-69 5-29 (60)
63 PF00070 Pyr_redox: Pyridine n 35.3 63 0.0014 22.0 3.6 32 50-86 2-33 (80)
64 COG3051 CitF Citrate lyase, al 35.1 19 0.00041 33.5 1.1 97 45-150 62-210 (513)
65 PF02887 PK_C: Pyruvate kinase 34.9 42 0.00091 24.9 2.9 50 36-92 3-56 (117)
66 cd00423 Pterin_binding Pterin 28.9 2.9E+02 0.0063 23.5 7.4 61 35-99 24-100 (258)
67 PF02698 DUF218: DUF218 domain 25.8 1.7E+02 0.0037 22.2 5.0 56 34-89 56-112 (155)
68 PRK10669 putative cation:proto 25.1 2.1E+02 0.0045 27.2 6.4 49 47-100 417-465 (558)
69 PRK05928 hemD uroporphyrinogen 25.1 1.2E+02 0.0026 24.7 4.2 80 15-98 23-102 (249)
70 PRK10646 ADP-binding protein; 24.2 94 0.002 24.9 3.3 39 27-67 7-49 (153)
71 COG1102 Cmk Cytidylate kinase 23.3 49 0.0011 27.4 1.5 38 54-99 10-47 (179)
72 PRK00888 ftsB cell division pr 22.6 99 0.0022 23.1 3.0 22 31-52 64-85 (105)
73 COG2243 CobF Precorrin-2 methy 22.6 2.9E+02 0.0063 23.8 6.1 67 30-101 72-144 (234)
74 PF01555 N6_N4_Mtase: DNA meth 22.4 90 0.002 24.8 2.9 25 43-68 187-214 (231)
75 COG1412 Uncharacterized protei 22.3 2E+02 0.0042 22.8 4.7 28 77-104 99-126 (136)
76 PF07021 MetW: Methionine bios 22.1 4.4E+02 0.0095 22.1 7.0 66 40-113 6-82 (193)
77 PRK07239 bifunctional uroporph 22.1 1.7E+02 0.0036 26.3 4.9 56 43-98 195-257 (381)
78 cd02009 TPP_SHCHC_synthase Thi 22.0 1.6E+02 0.0034 23.4 4.2 32 37-68 6-37 (175)
79 PF02367 UPF0079: Uncharacteri 21.9 81 0.0017 24.3 2.4 32 35-68 2-37 (123)
80 COG0802 Predicted ATPase or ki 21.7 1.2E+02 0.0025 24.5 3.3 59 26-92 3-67 (149)
81 PF04977 DivIC: Septum formati 21.4 1.3E+02 0.0029 20.2 3.3 25 30-54 53-77 (80)
82 PRK10481 hypothetical protein; 21.2 1.9E+02 0.0042 24.6 4.8 51 36-92 170-221 (224)
83 PRK04017 hypothetical protein; 20.6 2.3E+02 0.0049 22.3 4.7 19 138-156 62-80 (132)
84 PF13738 Pyr_redox_3: Pyridine 20.5 1.2E+02 0.0026 23.7 3.3 37 44-85 164-200 (203)
85 TIGR00284 dihydropteroate synt 20.4 5E+02 0.011 24.8 7.9 62 35-100 165-233 (499)
86 PF00156 Pribosyltran: Phospho 20.4 90 0.002 22.6 2.4 18 52-69 97-114 (125)
No 1
>cd01398 RPI_A RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the conversion of phosphosugars into glycolysis intermediates, which are precursors for the synthesis of amino acids, vitamins, nucleotides, and cell wall components. In plants, RPI is part of the Calvin cycle as ribulose 5-phosphate is the carbon dioxide receptor in the first dark reaction of photosynthesis. There are two unrelated types of RPIs (A and B), which catalyze the same reaction, at least one type of RPI is present in an organism. RPI_A is more widely distributed than RPI_B in bacteria, eukaryotes, and archaea.
Probab=100.00 E-value=1.4e-35 Score=249.21 Aligned_cols=158 Identities=58% Similarity=0.916 Sum_probs=142.3
Q ss_pred HHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceEecCCCccccEEEE
Q 029100 33 LKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSDLDSYPVVDLAID 112 (199)
Q Consensus 33 ~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~~l~~~~~~D~aFi 112 (199)
.|++||++|+++|++||+||||+|||+.+++++|+++...+. .++|+||||+.++..+.+.+++++.+.+.+++|+||+
T Consensus 1 ~K~~IA~~A~~~I~~g~~I~ldsGST~~~l~~~L~~~~~~~~-~~itvVTnS~~~a~~l~~~~i~vi~lg~~~~~D~af~ 79 (213)
T cd01398 1 LKRAAARAAVDYVEDGMVIGLGTGSTVAYFIEALGERVREEG-LNIVGVPTSFQTEELARELGIPLTDLDEVPRLDLAID 79 (213)
T ss_pred CHHHHHHHHHHhCCCCCEEEECchHHHHHHHHHHHHhhhccC-CCEEEEeCcHHHHHHHHhCCCeEEeCCCccccCEEEE
Confidence 389999999999999999999999999999999976421111 2699999999999888777999999998999999999
Q ss_pred ccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccceEEecCCHHHHHHHHHhhhhccCCeeE
Q 029100 113 GADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAK 192 (199)
Q Consensus 113 g~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~piev~~~~~~~v~~~l~d~~~~~~~~~~ 192 (199)
||+|++.++++.++.+++.++++++.++|+++|+|+|||||+++++. +++|+||.|++|.+|.+.|.+| |+.++
T Consensus 80 Gad~id~~~~~~~~~~~a~~kek~i~~~a~~~illaD~sK~~~~l~~--~~lPvEV~p~~~~~v~~~l~~~----g~~~~ 153 (213)
T cd01398 80 GADEVDPDLNLIKGGGGALLREKIVASAAKKFIVIADESKLVERLGE--FPLPVEVVPFAWSYVARELEKL----GGKPV 153 (213)
T ss_pred CCCcCCCCcCcccChHHHHHHHHHHHHhcCeEEEEEecchhcccCCC--CCeeEEEChhhHHHHHHHHHHc----CCCcE
Confidence 99999988778888899999999887779999999999999988883 7999999999999999999997 99999
Q ss_pred EeccC
Q 029100 193 LRTTG 197 (199)
Q Consensus 193 ~r~~~ 197 (199)
||.+.
T Consensus 154 ~R~~~ 158 (213)
T cd01398 154 LREGS 158 (213)
T ss_pred EcccC
Confidence 99853
No 2
>PRK00702 ribose-5-phosphate isomerase A; Provisional
Probab=100.00 E-value=2.6e-34 Score=242.79 Aligned_cols=160 Identities=53% Similarity=0.827 Sum_probs=144.1
Q ss_pred ChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceEecCCCcccc
Q 029100 29 TQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSDLDSYPVVD 108 (199)
Q Consensus 29 ~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~~l~~~~~~D 108 (199)
.++++|++||++|+++|+||++||||+|||+.+++++|+++.+++ + +++++|||+.++..+...|+++..+.+--++|
T Consensus 2 ~~~~~K~~IA~~Aa~lI~dg~~IgLgsGST~~~l~~~L~~~~~~~-~-~itvVt~S~~~a~~l~~~gi~v~~l~~~~~iD 79 (220)
T PRK00702 2 TQDELKKAAAEAAAEYVEDGMIVGLGTGSTAAYFIDALGERVKEG-L-IIGGVPTSEASTELAKELGIPLFDLNEVDSLD 79 (220)
T ss_pred CHHHHHHHHHHHHHHhCCCCCEEEECCcHHHHHHHHHHHhhhccC-C-CEEEECCcHHHHHHHHhCCCeEEcHHHCCccC
Confidence 457889999999999999999999999999999999998642111 2 69999999999998887899999887423999
Q ss_pred EEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccceEEecCCHHHHHHHHHhhhhccC
Q 029100 109 LAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCG 188 (199)
Q Consensus 109 ~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~piev~~~~~~~v~~~l~d~~~~~~ 188 (199)
++|+|||+|+.++++.++.+++.+++++++++|+++|+|+|+|||..++|. +++|+||.|++|.++.+.|.++ |
T Consensus 80 ~afdGaD~vd~~~~~ikg~g~a~~~ekiva~~A~~~vil~D~sK~v~~lg~--~~lPvEV~p~~~~~v~~~l~~~----g 153 (220)
T PRK00702 80 LYVDGADEIDPHLNLIKGGGAALTREKIVAAAAKRFICIVDESKLVDVLGK--FPLPVEVIPFARSAVARELEKL----G 153 (220)
T ss_pred EEEECCCeECCCCCcEECcHHHHHHHHHHHHhcCcEEEEEEcchhhhhcCC--CCccEEECccHHHHHHHHHHHh----C
Confidence 999999999999999988999999999998889999999999999988883 8999999999999999999997 9
Q ss_pred CeeEEecc
Q 029100 189 CVAKLRTT 196 (199)
Q Consensus 189 ~~~~~r~~ 196 (199)
+.|+||.+
T Consensus 154 ~~~~~R~~ 161 (220)
T PRK00702 154 GQPELRMD 161 (220)
T ss_pred CcceEeCC
Confidence 99999963
No 3
>TIGR00021 rpiA ribose 5-phosphate isomerase. This model describes ribose 5-phosphate isomerase, an enzyme of the non-oxidative branch of the pentose phosphate pathway.
Probab=100.00 E-value=3.7e-34 Score=241.57 Aligned_cols=157 Identities=58% Similarity=0.917 Sum_probs=142.4
Q ss_pred HHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceEecCCCccccEEEE
Q 029100 33 LKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSDLDSYPVVDLAID 112 (199)
Q Consensus 33 ~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~~l~~~~~~D~aFi 112 (199)
.|++||++|+++|++|++||||+|||+.+++++|+++.+.+.+ ++++||||+.++..+.+.|++++++.+..++|+||+
T Consensus 1 ~K~~IA~~A~~~I~~g~~I~ldsGST~~~~~~~L~~~~~~~~l-~itvVt~S~~~a~~l~~~gi~v~~l~~~~~iDiafd 79 (218)
T TIGR00021 1 LKRAAAEAAAEYVEDGMVVGLGTGSTVAYFIEALGERVKQEGL-DIVGVPTSKQTAELARELGIPLSSLDEVPELDLAID 79 (218)
T ss_pred CHHHHHHHHHHhCCCCCEEEECCcHHHHHHHHHHHHhhhccCC-CEEEEeCCHHHHHHHHHCCCCEEcHhHCCccCEEEE
Confidence 3899999999999999999999999999999999865322334 699999999999999888999998875449999999
Q ss_pred ccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccceEEecCCHHHHHHHHHhhhhccCCeeE
Q 029100 113 GADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAK 192 (199)
Q Consensus 113 g~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~piev~~~~~~~v~~~l~d~~~~~~~~~~ 192 (199)
|||+|+.++++.++.+++.+++++++.+|+++|+|+|+|||++++| . +++|+||.|++|.++.+.|.+| |+.++
T Consensus 80 GaD~id~~~~~ikg~g~a~~~eKiia~~A~~~i~l~D~sK~~~~lg-~-~plPvEV~p~~~~~v~~~l~~~----g~~~~ 153 (218)
T TIGR00021 80 GADEVDPNLQLIKGGGGALLREKIVASASKRFIVIADESKLVDKLG-K-FPLPVEVVPFAWKAVARKLEKL----GGEPT 153 (218)
T ss_pred CCCeECCCCCEecccHHHHHHHHHHHHhhCcEEEEEEchhhhcccC-C-CCccEEECccHHHHHHHHHHHc----CCCcE
Confidence 9999999988899999999999999988999999999999998888 3 8999999999999999999996 99999
Q ss_pred Eecc
Q 029100 193 LRTT 196 (199)
Q Consensus 193 ~r~~ 196 (199)
+|.+
T Consensus 154 ~R~~ 157 (218)
T TIGR00021 154 LRQG 157 (218)
T ss_pred Eeec
Confidence 9963
No 4
>PLN02384 ribose-5-phosphate isomerase
Probab=100.00 E-value=8.5e-32 Score=231.77 Aligned_cols=194 Identities=88% Similarity=1.276 Sum_probs=167.8
Q ss_pred Ccee----ecccCCCccccCCCCCCCCCCcCCChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCC
Q 029100 1 MAIA----ISAEKPSSVETGLSPLSSPPPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLT 76 (199)
Q Consensus 1 ~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~ 76 (199)
|||| |..||. |.|.| |-||...|+++.+++.|+..|++|++||++|++|+|++|||+.+++++|.++.+.+.+.
T Consensus 1 ~~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~m~~~~~K~~aA~~A~~~V~~gmvVGLGTGSTv~~~I~~La~r~~~~~l~ 78 (264)
T PLN02384 1 MAIAYPPFIGSEKD-SMEVG-SMLSPSSPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLK 78 (264)
T ss_pred CCCCCCcccccccc-chhhc-CcCCCCCCCCCCHHHHHHHHHHHHHHhccCCCEEEecchHHHHHHHHHHHHhhhhcccc
Confidence 5565 344554 45555 33444456778888899999999999999999999999999999999998765434454
Q ss_pred CEEEECCcHHHHHHHHhCCCceEecCCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCC
Q 029100 77 NIVGIPTSKKTHEQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPH 156 (199)
Q Consensus 77 ~ltVvTnSl~~a~~l~~~g~~v~~l~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~ 156 (199)
++++|+.|..++.++.+.|+++.++.+.-++|++|.|||.|+.++++.++.+.+++++|+++.+|+++|+++|++|+.++
T Consensus 79 ~I~~VpTS~~T~~~a~~~GIpl~~l~~v~~iDiaiDGADEId~~lnlIKGGGgallrEKivA~~A~~~IiI~DesK~V~~ 158 (264)
T PLN02384 79 NIIGIPTSKKTHEQAVSLGIPLSDLDSHPVVDLAIDGADEVDPNLNLVKGRGGSLLREKMIEGACKKFVVIVDESKLVKH 158 (264)
T ss_pred ceEEEcCcHHHHHHHHHcCCcEeccccCCcccEEEECCceeCCCCCEEEeCcHHHHHHHHHHHhcCeEEEEEeCcceecc
Confidence 59999999999999998999999998777999999999999999999999999999999999999999999999999988
Q ss_pred cCCCCcccceEEecCCHHHHHHHHHhhhhccCCeeEEecc
Q 029100 157 LGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLRTT 196 (199)
Q Consensus 157 ~g~~~~~~piev~~~~~~~v~~~l~d~~~~~~~~~~~r~~ 196 (199)
+|.+.+++|+||.|++|.++.+.|++||+..|+.+++|.+
T Consensus 159 Lg~~~~plPVEV~p~a~~~v~~~L~~l~~~~g~~~~lR~~ 198 (264)
T PLN02384 159 IGGSGLAMPVEVVPFCWKFTAEKLQSLFEYAGCVAKLRTK 198 (264)
T ss_pred cCCCCCCEEEEECccHHHHHHHHHHHHhhccCCceEEecc
Confidence 8852279999999999999999999999877899999964
No 5
>PRK13978 ribose-5-phosphate isomerase A; Provisional
Probab=99.97 E-value=2e-29 Score=213.52 Aligned_cols=162 Identities=36% Similarity=0.624 Sum_probs=147.6
Q ss_pred CChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceEecCCCccc
Q 029100 28 LTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSDLDSYPVV 107 (199)
Q Consensus 28 ~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~~l~~~~~~ 107 (199)
+++++.|+..|++|++||++|++|+|++|||+.+++++|.++.+.+.+ +++.|+.|..++..+.+.|+++.++.+.-++
T Consensus 2 m~~~~~K~~aa~~A~~~V~~gmvvGLGTGSTv~~~i~~L~~~~~~~~l-~i~~VptS~~t~~~a~~~Gipl~~l~~~~~i 80 (228)
T PRK13978 2 KDVKALKLMTLNDVLSQINGDMTLGIGTGSTMELLLPQMAQLIKERGY-NITGVCTSNKIAFLAKELGIKICEINDVDHI 80 (228)
T ss_pred CCHHHHHHHHHHHHHHhCCCCCEEEeCchHHHHHHHHHHHHHhhccCc-cEEEEeCcHHHHHHHHHcCCcEechhhCCce
Confidence 567788999999999999999999999999999999999876543444 6899999999999999899999999877799
Q ss_pred cEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccceEEecCCHHHHHHHHHhhhhcc
Q 029100 108 DLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDC 187 (199)
Q Consensus 108 D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~piev~~~~~~~v~~~l~d~~~~~ 187 (199)
|++|.|||.||.++.+.++.+.+.+++|+++.+|+++|+++|++|+.+++|.+ +++|+||.|++|+++.+.|.++
T Consensus 81 DiaiDGADevd~~lnlIKGgGgal~rEKiva~~A~~~iii~D~sK~v~~Lg~~-~plPVEV~p~~~~~v~~~l~~l---- 155 (228)
T PRK13978 81 DLAIDGADEVDPSLNIIKGGGGALFREKVIDEMASRFVVVVDETKIVQYLGET-FKLPVEVDKFNWYHILRKIESY---- 155 (228)
T ss_pred eEEEecCceecCCccEEecCcHHHHHHHHHHHhcCcEEEEEeCcceecccCCC-CCeEEEEcccHHHHHHHHHHHc----
Confidence 99999999999999999999999999999999999999999999999888854 7999999999999999999996
Q ss_pred CC-eeEEec
Q 029100 188 GC-VAKLRT 195 (199)
Q Consensus 188 ~~-~~~~r~ 195 (199)
|+ .+.+|.
T Consensus 156 g~~~~~~R~ 164 (228)
T PRK13978 156 ADIKVERRV 164 (228)
T ss_pred CCCCcEEEe
Confidence 76 666664
No 6
>PF00455 DeoRC: DeoR C terminal sensor domain; InterPro: IPR014036 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after Escherichia coli deoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerization domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].
Probab=99.97 E-value=1.7e-30 Score=209.50 Aligned_cols=137 Identities=18% Similarity=0.133 Sum_probs=114.9
Q ss_pred hHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhC-CCceE---------
Q 029100 30 QDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSL-GIPLS--------- 99 (199)
Q Consensus 30 ~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~-g~~v~--------- 99 (199)
+.++|++||++|+++|+|||+||||+|||+++++++|+++. ++||||||+.++..+... +.+++
T Consensus 2 n~~~K~~IA~~A~~~I~~~~~Ifld~GtT~~~la~~L~~~~------~ltVvTnsl~ia~~l~~~~~~~vi~~GG~~~~~ 75 (161)
T PF00455_consen 2 NAEEKRAIARKAASLIEDGDTIFLDSGTTTLELAKYLPDKK------NLTVVTNSLPIANELSENPNIEVILLGGEVNPK 75 (161)
T ss_pred CHHHHHHHHHHHHHhCCCCCEEEEECchHHHHHHHHhhcCC------ceEEEECCHHHHHHHHhcCceEEEEeCCEEEcC
Confidence 35679999999999999999999999999999999998762 799999999999988764 33332
Q ss_pred ----------ecCCCccccEEEEccCcccCCCC-cccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccceEE
Q 029100 100 ----------DLDSYPVVDLAIDGADEVDPFMN-LVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPVEV 168 (199)
Q Consensus 100 ----------~l~~~~~~D~aFig~~gi~~~~~-~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~piev 168 (199)
...+++++|++|+||+|++.+++ +..+.+++.+|++++. +|+++|+|+|||||+ +.+..
T Consensus 76 ~~~~~G~~a~~~l~~~~~d~afi~~~gi~~~~G~~~~~~~~a~vk~~~~~-~s~~~ill~D~sKf~-~~~~~-------- 145 (161)
T PF00455_consen 76 SLSFVGPIALEALRQFRFDKAFIGADGISEEGGLTTSDEEEAEVKRAMIE-NSKQVILLADSSKFG-RNSFY-------- 145 (161)
T ss_pred CCcEECchHHHHHHhhccceEEecccEecCCCccccchHHHHHHHHHHHH-hcCeEEEEeChhhcC-CeeeE--------
Confidence 23478999999999999999755 5678889999988776 589999999999996 44432
Q ss_pred ecCCHHHHHHHHHh
Q 029100 169 VPYCWKFTAKRLQD 182 (199)
Q Consensus 169 ~~~~~~~v~~~l~d 182 (199)
.-.+|++++..|||
T Consensus 146 ~~~~l~~id~iITD 159 (161)
T PF00455_consen 146 KIADLSDIDYIITD 159 (161)
T ss_pred EEECHHHCCEEEeC
Confidence 55689999888887
No 7
>COG0120 RpiA Ribose 5-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=99.96 E-value=5.9e-29 Score=209.53 Aligned_cols=160 Identities=54% Similarity=0.831 Sum_probs=147.8
Q ss_pred ChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceEecCCCcccc
Q 029100 29 TQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSDLDSYPVVD 108 (199)
Q Consensus 29 ~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~~l~~~~~~D 108 (199)
.+++.|+..|++|+++|++|++|+|++|||+.+++++|.++.+.. + +++.|+.|..++..+.+.|+++.++.+.-++|
T Consensus 2 ~~~~~K~~aa~~A~~~v~~gmviGlGTGST~~~fI~~Lg~~~~~e-~-~i~~V~TS~~t~~l~~~~GI~v~~l~~~~~lD 79 (227)
T COG0120 2 DQDELKKAAAKAALEYVKDGMVIGLGTGSTAAYFIEALGRRVKGE-L-DIGGVPTSFQTEELARELGIPVSSLNEVDSLD 79 (227)
T ss_pred chHHHHHHHHHHHHHHhcCCCEEEEcCcHHHHHHHHHHHHhhccC-c-cEEEEeCCHHHHHHHHHcCCeecCccccCccc
Confidence 577899999999999999999999999999999999998632222 3 79999999999999999999999998766899
Q ss_pred EEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccceEEecCCHHHHHHHHHhhhhccC
Q 029100 109 LAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCG 188 (199)
Q Consensus 109 ~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~piev~~~~~~~v~~~l~d~~~~~~ 188 (199)
++|.|+|.|++++.+.++.+.|++++|+++.+|+++|+++|+||+.+++| . +|+|+||.|++|.+|.+.+..| |
T Consensus 80 l~iDGADEvd~~~~lIKGGGgAl~rEKIva~~ak~~IvIvDesKlV~~LG-~-fplPVEVip~a~~~v~r~l~~~----g 153 (227)
T COG0120 80 LAIDGADEVDPNLNLIKGGGGALLREKIVASAAKRFIVIVDESKLVEVLG-K-FPLPVEVIPFARSAVLRKLEKL----G 153 (227)
T ss_pred eEeecccccCCCCCEEccChHHHHHHHHHHHhcCeEEEEEeCccchhhcC-C-CCcCEEEchhHHHHHHHHHHHh----C
Confidence 99999999999999999999999999999999999999999999999999 3 8999999999999999998886 9
Q ss_pred CeeEEecc
Q 029100 189 CVAKLRTT 196 (199)
Q Consensus 189 ~~~~~r~~ 196 (199)
+.+.||++
T Consensus 154 ~~~~lR~~ 161 (227)
T COG0120 154 GKPTLREG 161 (227)
T ss_pred CCcccccc
Confidence 99999963
No 8
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=99.96 E-value=3.4e-29 Score=215.20 Aligned_cols=142 Identities=17% Similarity=0.121 Sum_probs=117.5
Q ss_pred cCCChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHh-CCCceE-----
Q 029100 26 VILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVS-LGIPLS----- 99 (199)
Q Consensus 26 ~~~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~-~g~~v~----- 99 (199)
|...+.++|++||++|+++|+|||+||||+|||+++++++|++. .++||+|||+.++..+.. .+++++
T Consensus 70 r~~~~~~~K~~IA~~Aa~~I~~g~tIflD~GtT~~~la~~L~~~------~~ltVvTNsl~ia~~l~~~~~~~villGG~ 143 (252)
T PRK10906 70 RKATQTEEKERIARKVASQIPNGATLFIDIGTTPEAVAHALLNH------SNLRIVTNNLNVANTLMAKEDFRIILAGGE 143 (252)
T ss_pred HhhhcHHHHHHHHHHHHhhCCCCCEEEEcCcHHHHHHHHHhcCC------CCcEEEECcHHHHHHHhhCCCCEEEEECCE
Confidence 55667788999999999999999999999999999999999764 279999999999988763 344433
Q ss_pred --------------ecCCCccccEEEEccCcccCCCC-cccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCccc
Q 029100 100 --------------DLDSYPVVDLAIDGADEVDPFMN-LVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAM 164 (199)
Q Consensus 100 --------------~l~~~~~~D~aFig~~gi~~~~~-~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~ 164 (199)
...+++++|+||+||+||+.++| ++.+..++.+|++|+. +|+++|+|||||||+ +.+..
T Consensus 144 ~~~~~~~~~G~~a~~~l~~~~~d~afi~~~Gi~~~~G~t~~~~~ea~~k~~~~~-~a~~~illaD~sKf~-~~~~~---- 217 (252)
T PRK10906 144 LRSRDGGIIGEATLDFISQFRLDFGILGISGIDSDGSLLEFDYHEVRTKRAIIE-NSRHVMLVVDHSKFG-RNAMV---- 217 (252)
T ss_pred EecCCCccCCHHHHHHHHhccCCEEEEcCCEECCCCCcCCCCHHHHHHHHHHHH-hcCcEEEEEccchhC-Cccee----
Confidence 22468999999999999998755 5678889999988876 589999999999996 44432
Q ss_pred ceEEecCCHHHHHHHHHhh
Q 029100 165 PVEVVPYCWKFTAKRLQDL 183 (199)
Q Consensus 165 piev~~~~~~~v~~~l~d~ 183 (199)
...+|+++++.|||-
T Consensus 218 ----~~~~l~~id~iITD~ 232 (252)
T PRK10906 218 ----NMGSISMVDAVYTDQ 232 (252)
T ss_pred ----EecCHHHCCEEEECC
Confidence 556888888888873
No 9
>PRK10681 DNA-binding transcriptional repressor DeoR; Provisional
Probab=99.96 E-value=4.1e-29 Score=214.41 Aligned_cols=143 Identities=17% Similarity=0.021 Sum_probs=117.6
Q ss_pred CcCCChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHh-CCCceE----
Q 029100 25 PVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVS-LGIPLS---- 99 (199)
Q Consensus 25 ~~~~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~-~g~~v~---- 99 (199)
.|...+.++|++||++|+++|+|||+||||+|||++++|++|++. .++||||||+.++..+.. .+++++
T Consensus 70 ~r~~~~~~~K~~IA~~Aa~lI~~g~tIflD~GtT~~~la~~L~~~------~~ltvvTnsl~i~~~l~~~~~~~villGG 143 (252)
T PRK10681 70 DQKSRLVEEKRRAAQLAATLVEPNQTLFFDCGTTTPWIIEAIDNE------LPFTAVCYSLNTFLALQEKPHCRAILCGG 143 (252)
T ss_pred HHHHhCHHHHHHHHHHHHhhcCCCCEEEEECCccHHHHHHhcCCC------CCeEEEECCHHHHHHHhhCCCCEEEEECc
Confidence 466677788999999999999999999999999999999999764 269999999999988764 334332
Q ss_pred ---------------ecCCCccccEEEEccCcccCCCC-cccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcc
Q 029100 100 ---------------DLDSYPVVDLAIDGADEVDPFMN-LVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLA 163 (199)
Q Consensus 100 ---------------~l~~~~~~D~aFig~~gi~~~~~-~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~ 163 (199)
..+++|++|+||+||+||+.++| ++.+.+++.+|++++. +|+++|+|+||+||+ +.+..
T Consensus 144 ~~~~~~~~~~G~~~~~~l~~~~~D~afig~~gi~~~~G~~~~~~~ea~vk~~~~~-~a~~~illaD~sKf~-~~~~~--- 218 (252)
T PRK10681 144 EFHASNAIFKPLDFQQTLDNICPDIAFYSAAGVHVSKGATCFNLEELPVKHWAMA-MAQKHVLVVDHSKFG-KVRPA--- 218 (252)
T ss_pred EEecCcceeeCHHHHHHHHhhCCCEEEEeCceecCCCCcCCCCHHHHHHHHHHHH-hhCcEEEEEcccccC-ceeee---
Confidence 23467999999999999998755 5678889999988776 589999999999996 44432
Q ss_pred cceEEecCCHHHHHHHHHhh
Q 029100 164 MPVEVVPYCWKFTAKRLQDL 183 (199)
Q Consensus 164 ~piev~~~~~~~v~~~l~d~ 183 (199)
...+|.++++.|||-
T Consensus 219 -----~~~~l~~id~lITD~ 233 (252)
T PRK10681 219 -----RMGDLTRFDTVVSDR 233 (252)
T ss_pred -----EeeCHHHCCEEEeCC
Confidence 556788888888873
No 10
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=99.95 E-value=9.5e-29 Score=212.13 Aligned_cols=142 Identities=14% Similarity=0.004 Sum_probs=115.4
Q ss_pred CcCCChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHh-CCCceE----
Q 029100 25 PVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVS-LGIPLS---- 99 (199)
Q Consensus 25 ~~~~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~-~g~~v~---- 99 (199)
.|...+.++|++||++|+++|+|||+||||+|||+++++++|++. ++||+|||+.++..+.+ .+.+++
T Consensus 71 ~r~~~~~~~K~~IA~~Aa~~I~~g~~Ifld~GsT~~~la~~L~~~-------~ltVvTnsl~ia~~l~~~~~~~v~l~GG 143 (251)
T PRK13509 71 IHQAQNHDEKVRIAKAASQLCNPGESVVINCGSTAFLLGRELCGK-------PVQIITNYLPLANYLIDQEHDSVIIMGG 143 (251)
T ss_pred HHHHhCHHHHHHHHHHHHHhCCCCCEEEECCcHHHHHHHHHhCCC-------CeEEEeCCHHHHHHHHhCCCCEEEEECC
Confidence 345556678999999999999999999999999999999999753 69999999999988764 333332
Q ss_pred --------------ecCCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccc
Q 029100 100 --------------DLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMP 165 (199)
Q Consensus 100 --------------~l~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~p 165 (199)
...++|++|+||+||+||+.+|.++.+..++.+|++++. +|+++|+|+||+||+. .+..
T Consensus 144 ~~~~~~~~~~G~~~~~l~~~~~d~aFig~~gi~~~G~~~~~~~e~~~k~~~~~-~s~~~illaDssKfg~-~~~~----- 216 (251)
T PRK13509 144 QYNKSQSITLSPQGSENSLYAGHWMFTSGKGLTADGLYKTDMLTAMAEQKMLS-VVGKLVVLVDSSKIGE-RAGM----- 216 (251)
T ss_pred eEcCCcceeECHHHHHHHhCcCCEEEECCCcCCCCcCCCCCHHHHHHHHHHHH-HhCcEEEEEcccccCc-eeeE-----
Confidence 234689999999999999976656678889999988876 5899999999999963 3321
Q ss_pred eEEecCCHHHHHHHHHhh
Q 029100 166 VEVVPYCWKFTAKRLQDL 183 (199)
Q Consensus 166 iev~~~~~~~v~~~l~d~ 183 (199)
.-.+|+++++.|||-
T Consensus 217 ---~~~~l~~id~iITD~ 231 (251)
T PRK13509 217 ---LFSRADQIDMLITGK 231 (251)
T ss_pred ---EecCHHHCCEEEeCc
Confidence 455788888877774
No 11
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=99.95 E-value=8.2e-29 Score=214.62 Aligned_cols=142 Identities=17% Similarity=0.182 Sum_probs=115.3
Q ss_pred CcCCChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHh-CCCceE----
Q 029100 25 PVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVS-LGIPLS---- 99 (199)
Q Consensus 25 ~~~~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~-~g~~v~---- 99 (199)
.|...+.++|++||++|+++|+|||+||||+|||+++++++|++. .++||||||+.++..+.. .+++++
T Consensus 84 ~r~~~~~~~K~~IA~~Aa~~I~dgd~Ifld~GtT~~~la~~L~~~------~~ltVvTnsl~ia~~l~~~~~~~v~llGG 157 (269)
T PRK09802 84 DKSALNTAMKRSVAKAAVELIQPGHRVILDSGTTTFEIARLMRKH------TDVIAMTNGMNVANALLEAEGVELLMTGG 157 (269)
T ss_pred HHHHhCHHHHHHHHHHHHhhCCCCCEEEECCchHHHHHHHhcCcC------CCeEEEeCCHHHHHHHHhCCCCEEEEECC
Confidence 345566788999999999999999999999999999999999764 269999999999988764 344443
Q ss_pred ---------------ecCCCccccEEEEccCcccCCCC-cccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcc
Q 029100 100 ---------------DLDSYPVVDLAIDGADEVDPFMN-LVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLA 163 (199)
Q Consensus 100 ---------------~l~~~~~~D~aFig~~gi~~~~~-~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~ 163 (199)
..+++|++|+||+||+||+.+++ ++.+..++.+|++|+. +|+++|+|+||+||+ +.+..
T Consensus 158 ~~~~~~~~~~G~~a~~~l~~~~~d~afig~~gi~~~~G~t~~~~~ea~~kr~~i~-~s~~~ill~D~sKf~-~~~~~--- 232 (269)
T PRK09802 158 HLRRQSQSFYGDQAEQSLQNYHFDMLFLGVDAIDLERGVSTHNEDEARLNRRMCE-VAERIIVVTDSSKFN-RSSLH--- 232 (269)
T ss_pred EEecCCCceECHHHHHHHHhccCCEEEEcCceecCCCCcCCCCHHHHHHHHHHHH-HcCcEEEEEeccccC-CcceE---
Confidence 22468999999999999998765 5678889999988776 589999999999996 44432
Q ss_pred cceEEecCCHHHHHHHHHh
Q 029100 164 MPVEVVPYCWKFTAKRLQD 182 (199)
Q Consensus 164 ~piev~~~~~~~v~~~l~d 182 (199)
...+|++++..|||
T Consensus 233 -----~~~~l~~id~iITD 246 (269)
T PRK09802 233 -----KIIDTQRIDMIIVD 246 (269)
T ss_pred -----EecCHHHCCEEEEC
Confidence 45567777766666
No 12
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=99.95 E-value=2.6e-28 Score=209.93 Aligned_cols=142 Identities=18% Similarity=0.153 Sum_probs=113.2
Q ss_pred CcCCChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHh-CC-CceEe--
Q 029100 25 PVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVS-LG-IPLSD-- 100 (199)
Q Consensus 25 ~~~~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~-~g-~~v~~-- 100 (199)
.|...+.++|++||++|+++|+|||+||||+|||+++++++|++. .++||+|||+.++..+.. .+ ++++.
T Consensus 69 ~r~~~~~~~K~~IA~~Aa~~I~~g~tIfld~GtT~~~la~~L~~~------~~ltVvTnsl~ia~~l~~~~~~~~v~l~G 142 (256)
T PRK10434 69 HKTLINTHKKELIAEAAVSLIHDGDSIILDAGSTVLQMVPLLSRF------NNITVMTNSLHIVNALSELDNEQTILMPG 142 (256)
T ss_pred HHHHhhHHHHHHHHHHHHhhCCCCCEEEEcCcHHHHHHHHHhccC------CCeEEEECCHHHHHHHhhCCCCCEEEEEC
Confidence 355566788999999999999999999999999999999999864 169999999999988764 22 34431
Q ss_pred -----------------cCCCccccEEEEccCcccCCCCcc-cCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCc
Q 029100 101 -----------------LDSYPVVDLAIDGADEVDPFMNLV-KGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGL 162 (199)
Q Consensus 101 -----------------l~~~~~~D~aFig~~gi~~~~~~~-~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~ 162 (199)
.+++|++|+||+||+||+.++|++ .+. ++.+|++++. +|+++|+|+||+||+ +.++.
T Consensus 143 G~~~~~~~~~~G~~a~~~l~~~~~D~afi~~~gi~~~~G~t~~~~-~~~~k~~~~~-~a~~~illaD~sKf~-~~~~~-- 217 (256)
T PRK10434 143 GTFRKKSASFHGQLAENAFEHFTFDKLFIGTDGIDLNAGVTTFNE-VYTVSKAMCN-AAREIILMADSSKFG-RKSPN-- 217 (256)
T ss_pred CEEeCCCCeEECHHHHHHHHhCcCCEEEEcCceecCCCCcCCCCH-HHHHHHHHHH-HcCcEEEEECCcccC-CceeE--
Confidence 246899999999999999886654 454 5889877765 689999999999996 44421
Q ss_pred ccceEEecCCHHHHHHHHHhh
Q 029100 163 AMPVEVVPYCWKFTAKRLQDL 183 (199)
Q Consensus 163 ~~piev~~~~~~~v~~~l~d~ 183 (199)
...+|++++..|+|.
T Consensus 218 ------~~~~~~~id~lITD~ 232 (256)
T PRK10434 218 ------VVCSLEKVDKLITDA 232 (256)
T ss_pred ------EEecHHHCCEEEECc
Confidence 345778877777763
No 13
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=99.95 E-value=3.5e-28 Score=207.55 Aligned_cols=140 Identities=17% Similarity=0.150 Sum_probs=116.2
Q ss_pred cCCChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHh-CCCceE-----
Q 029100 26 VILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVS-LGIPLS----- 99 (199)
Q Consensus 26 ~~~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~-~g~~v~----- 99 (199)
|...+.++|++||++|+++|+|||+||||+|||+.+++++|++. ++||||||+.++..+.. .+++++
T Consensus 72 r~~~~~~~K~~IA~~Aa~lI~~gd~Ifld~GtT~~~l~~~L~~~-------~ltVvTNs~~ia~~l~~~~~~~vil~GG~ 144 (240)
T PRK10411 72 RLKSHYAHKADIAREALAWIEEGMVIALDASSTCWYLARQLPDI-------NIQVFTNSHPICQELGKRERIQLISSGGT 144 (240)
T ss_pred HHHhHHHHHHHHHHHHHHhCCCCCEEEEcCcHHHHHHHHhhCCC-------CeEEEeCCHHHHHHHhcCCCCEEEEECCE
Confidence 45566788999999999999999999999999999999999754 69999999999988763 344443
Q ss_pred --------------ecCCCccccEEEEccCcccCCCC-cccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCccc
Q 029100 100 --------------DLDSYPVVDLAIDGADEVDPFMN-LVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAM 164 (199)
Q Consensus 100 --------------~l~~~~~~D~aFig~~gi~~~~~-~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~ 164 (199)
+.++++++|+||+||+|++.++| +..+.+++.+|++++. +|+++|+|+||+||+ +.+..
T Consensus 145 ~~~~~~~~~G~~a~~~l~~~~~d~afis~~gi~~~~G~~~~~~~ea~~k~~~~~-~a~~~ill~D~sKf~-~~~~~---- 218 (240)
T PRK10411 145 LERKYGCYVNPSLISQLKSLEIDLFIFSCEGIDSSGALWDSNAINADYKSMLLK-RAAQSLLLIDKSKFN-RSGEA---- 218 (240)
T ss_pred EeCCCCceECHHHHHHHHhcCCCEEEEeceeECCCCCcccCCHHHHHHHHHHHH-HhCcEEEEEeccccC-Cccce----
Confidence 12467999999999999998755 5678889999988776 589999999999996 34421
Q ss_pred ceEEecCCHHHHHHHHHh
Q 029100 165 PVEVVPYCWKFTAKRLQD 182 (199)
Q Consensus 165 piev~~~~~~~v~~~l~d 182 (199)
...++++++..|||
T Consensus 219 ----~~~~l~~id~lITD 232 (240)
T PRK10411 219 ----RIGHLDEVTHIISD 232 (240)
T ss_pred ----EecCHHHCCEEEEC
Confidence 55678999988888
No 14
>COG1349 GlpR Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]
Probab=99.94 E-value=9e-28 Score=206.48 Aligned_cols=142 Identities=18% Similarity=0.141 Sum_probs=115.6
Q ss_pred CcCCChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhC-CCceE----
Q 029100 25 PVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSL-GIPLS---- 99 (199)
Q Consensus 25 ~~~~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~-g~~v~---- 99 (199)
.|...+.++|++||++|+++|+|||+||||+|||++++|++|++.. ++||+|||+.++..+... +..++
T Consensus 69 ~r~~~~~~eK~~IA~~Aa~lI~~g~~ifld~GTT~~~la~~L~~~~------~ltviTNsl~ia~~l~~~~~~~vi~~GG 142 (253)
T COG1349 69 ERKALNTEEKRAIAKAAATLIEDGDTIFLDAGTTTLALARALPDDN------NLTVITNSLNIAAALLEKPNIEVILLGG 142 (253)
T ss_pred HHHHhhHHHHHHHHHHHHhhCCCCCEEEECCCcHHHHHHHHhCcCC------CeEEEeCCHHHHHHHHhCCCCeEEEeCc
Confidence 4556677789999999999999999999999999999999998752 599999999998877643 33332
Q ss_pred ---------------ecCCCccccEEEEccCcccCCCC-cccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcc
Q 029100 100 ---------------DLDSYPVVDLAIDGADEVDPFMN-LVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLA 163 (199)
Q Consensus 100 ---------------~l~~~~~~D~aFig~~gi~~~~~-~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~ 163 (199)
+.+++|++|++|+||+|++.+++ ++++.+++.+|++|+. +|+++|+|+|||||++ .++.
T Consensus 143 ~~~~~~~~~~G~~a~~~l~~~~~d~aFig~~gi~~~~g~~~~~~~ea~~k~~~~~-~a~~~~ll~D~sKf~~-~~~~--- 217 (253)
T COG1349 143 TVRKKSGSFVGPLAEEFLRQFNFDKAFIGADGIDLEGGLTTFNEEEAEVKRAMIE-AAREVILLADSSKFGR-VAPA--- 217 (253)
T ss_pred EEEcCCCeEEcHHHHHHHHhCcccEEEEeccccCCCCCcCcCCHHHHHHHHHHHH-hhCcEEEEEcCCccCC-ceeE---
Confidence 23478999999999999998754 6788899999988776 5899999999999964 4431
Q ss_pred cceEEecCCHHHHHHHHHh
Q 029100 164 MPVEVVPYCWKFTAKRLQD 182 (199)
Q Consensus 164 ~piev~~~~~~~v~~~l~d 182 (199)
.-.+++.++..++|
T Consensus 218 -----~~~~l~~i~~iiTD 231 (253)
T COG1349 218 -----RVAPLSEIDTIITD 231 (253)
T ss_pred -----EeeCHHHCcEEEeC
Confidence 44577777777776
No 15
>KOG3075 consensus Ribose 5-phosphate isomerase [Carbohydrate transport and metabolism]
Probab=99.89 E-value=1.5e-22 Score=172.25 Aligned_cols=174 Identities=57% Similarity=0.886 Sum_probs=156.1
Q ss_pred CCCCC--CcCCChHHHHHHHHHHHHhc-CcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCC
Q 029100 20 LSSPP--PVILTQDELKKIAAYKAVEF-VESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGI 96 (199)
Q Consensus 20 ~~~~~--~~~~~~~e~K~~IA~~Aa~l-I~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~ 96 (199)
-++|+ .+...+++.|++-|++|.+. +++|++|+|++|||+.+.+++|.+.+..+.+.++..|+.|.+.++++.+.|+
T Consensus 12 s~~~~~~~~~~~~e~~kr~Aa~~avd~~~k~g~ViGiGsGstv~~~v~~i~q~l~~~~l~~vvgVPts~~s~q~~~~~gi 91 (261)
T KOG3075|consen 12 STSPRAVESLSPQEEAKRLAAYKAVDNYVKNGMVIGIGSGSTVVYAVDRIGQLLFDGDLGNVVGVPTSFRSAQLALEYGI 91 (261)
T ss_pred cCCCCcccccCchHHHHHHHHhhhhhhhccCCeEEEecCccHHHHHHHHHHHHhcCCCcCceEecccchhhHHHHHhcCC
Confidence 45666 56999999999999999996 5558999999999999999999876544556689999999999999999999
Q ss_pred ceEecCCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcc-cceEEecCCHHH
Q 029100 97 PLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLA-MPVEVVPYCWKF 175 (199)
Q Consensus 97 ~v~~l~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~-~piev~~~~~~~ 175 (199)
++..+.+...+|++|.|+|.++.+.++..+.+....+++++.-+++++|+++|++|+.+.++.++.. +|+||+|++|..
T Consensus 92 ~l~~~d~hp~iDlaidgADEvd~nln~ikggGg~l~qEk~v~~~akkfiviad~~k~~~~lg~~~~~gvPvEvvpl~~~~ 171 (261)
T KOG3075|consen 92 PLSDLDSHPVIDLAIDGADEVDENLNLIKGGGGCLLQEKDVEGAAKKFIVIADSRKGSKGLGGSGKQGVPVEVVPLAWLK 171 (261)
T ss_pred ccccCCCCceeEEEecCchhhCcCcceEEeccchhhHHHHHHHhhhceEEEeeccccchhhcccccCceeeeehhhHHHH
Confidence 9999999999999999999999999999999999999999998899999999999998777765344 999999999999
Q ss_pred HHHHHHhhhhccCCeeEEec
Q 029100 176 TAKRLQDLFEDCGCVAKLRT 195 (199)
Q Consensus 176 v~~~l~d~~~~~~~~~~~r~ 195 (199)
+.+.+.+ | ..|+.++||.
T Consensus 172 l~~~l~~-~-~~g~~~~lR~ 189 (261)
T KOG3075|consen 172 LLENLSE-F-SFGCEAKLRM 189 (261)
T ss_pred HHHhhhh-h-hccchheecc
Confidence 9999999 2 3699999994
No 16
>PF06026 Rib_5-P_isom_A: Ribose 5-phosphate isomerase A (phosphoriboisomerase A); InterPro: IPR004788 Ribose 5-phosphate isomerase, also known as phosphoriboisomerase, catalyses the reversible conversion of D-ribose 5-phosphate to D-ribulose 5-phosphate, the first step in the non-oxidative branch of the pentose phosphate pathway []. This reaction enables ribose to be synthesized from sugars, as well as the recycling of sugars during the degradation of nucleotides. There are two unrelated types of ribose 5-phosphate isomerases: type A (RpiA) is the most common and is found in most organisms, while type B (RpiB) is restricted to specific eukaryotic and prokaryotic species. Escherichia coli produces both RpiA and RpiB (also known as AlsB), although RpiA accounts for 99% of total RPI enzymes []. This entry represents type A (RpiA) enzymes found in eukaryotes (plants, Metazoa and fungi), bacteria and archaea.; GO: 0004751 ribose-5-phosphate isomerase activity, 0009052 pentose-phosphate shunt, non-oxidative branch; PDB: 1M0S_B 3HHE_B 1LKZ_B 1KS2_A 1O8B_A 3UW1_A 3U7J_A 3L7O_A 1XTZ_A 1UJ6_A ....
Probab=99.81 E-value=9e-20 Score=149.12 Aligned_cols=115 Identities=57% Similarity=0.945 Sum_probs=98.1
Q ss_pred EEEECCcHHHHHHHHhCCCceEecCCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCc
Q 029100 78 IVGIPTSKKTHEQAVSLGIPLSDLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHL 157 (199)
Q Consensus 78 ltVvTnSl~~a~~l~~~g~~v~~l~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~ 157 (199)
+++|+.|..++..+.+.|+++.++.+.-++|++|.|||.++.++.+.++.+++.+++|+++.+|+++|+++|++|+.+++
T Consensus 1 I~~V~tS~~T~~~a~~~Gi~l~~~~~~~~iDl~iDGaDevd~~l~lIKGgGgallrEKiva~~a~~~I~i~DesK~v~~L 80 (173)
T PF06026_consen 1 IVGVPTSEATELLARKLGIPLVDLDEVDRIDLAIDGADEVDPDLNLIKGGGGALLREKIVASAAKRFIIIVDESKLVEKL 80 (173)
T ss_dssp EEEEESSHHHHHHHHHTT-EBE-GGGSSSEEEEEEE-SEEETTSEEE--TTS-HHHHHHHHHTEEEEEEEEEGGGBESSB
T ss_pred CEEECChHHHHHHHHHcCCcEEccccCCcceEEEECchhhcCCCCEEECCCccchhhhhHHHhhceEEEEECCCcEeeEc
Confidence 57899999999999999999999987679999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccceEEecCCHHHHHHHHHhhhhccCCeeEEeccC
Q 029100 158 GGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLRTTG 197 (199)
Q Consensus 158 g~~~~~~piev~~~~~~~v~~~l~d~~~~~~~~~~~r~~~ 197 (199)
| . +++|+||.|++|.+|.+.|+++ +|+.++||.+.
T Consensus 81 g-~-~plPvEV~p~a~~~v~~~l~~~---~G~~~~lR~~~ 115 (173)
T PF06026_consen 81 G-K-FPLPVEVVPFAWSYVLRRLKEL---LGGKPVLRMAS 115 (173)
T ss_dssp T-S-S-EEEEE-GGGHHHHHHHHHHT---TT-EEEE-EET
T ss_pred C-C-CceeEEEcHHHHHHHHHHHHHh---cCCCceEccCC
Confidence 8 4 8999999999999999999992 39999999864
No 17
>COG1184 GCD2 Translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=98.25 E-value=1.8e-05 Score=69.97 Aligned_cols=154 Identities=19% Similarity=0.158 Sum_probs=106.4
Q ss_pred CChHHHHHHHHHHHHhcCcCCCEEE-ECcChhHHHHHHHHhchhhcCCCCCEE-EECCcHH------HHHHHHhCCCceE
Q 029100 28 LTQDELKKIAAYKAVEFVESGMVLG-LGTGSTAKHAVDRIGELLRQGKLTNIV-GIPTSKK------THEQAVSLGIPLS 99 (199)
Q Consensus 28 ~~~~e~K~~IA~~Aa~lI~dgdtIf-LdsGTT~~~la~~L~~~~~~~~l~~lt-VvTnSl~------~a~~l~~~g~~v~ 99 (199)
...+..++.||..++++|+||++|. .+.++|++.+...-.++. .+++ +||-|-+ .+..|.+.|+++.
T Consensus 100 ~~~~~a~~~ia~~~a~~i~dg~~IlTh~~S~~v~~~l~~A~~~~-----k~~~V~VtESRP~~eG~~~ak~L~~~gI~~~ 174 (301)
T COG1184 100 DRVEKAKERIAEIGAERIHDGDVILTHSFSKTVLEVLKTAADRG-----KRFKVIVTESRPRGEGRIMAKELRQSGIPVT 174 (301)
T ss_pred HHHHHHHHHHHHHHHhhccCCCEEEEecCcHHHHHHHHHhhhcC-----CceEEEEEcCCCcchHHHHHHHHHHcCCceE
Confidence 3456778999999999999999987 577888888888776542 1233 4554433 4566778898765
Q ss_pred ecC----CC--ccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCc-----ccceE-
Q 029100 100 DLD----SY--PVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGL-----AMPVE- 167 (199)
Q Consensus 100 ~l~----~~--~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~-----~~pie- 167 (199)
-+. .. -.+|+.|+|+++|..+|++..--+...+- ....+...-+++++++-||..+.-+.-. .-|.|
T Consensus 175 ~I~Dsa~~~~~~~vd~VivGad~I~~nG~lvnkiGT~~lA-~~A~e~~~Pf~v~aesyKf~p~~~~~~~~~~~~~~~~e~ 253 (301)
T COG1184 175 VIVDSAVGAFMSRVDKVLVGADAILANGALVNKIGTSPLA-LAARELRVPFYVVAESYKFVPKTLLDTLVEIELRDPLEV 253 (301)
T ss_pred EEechHHHHHHHhCCEEEECccceecCCcEEeccchHHHH-HHHHHhCCCEEEEeeeecccccccCCCcceeeccChhhc
Confidence 432 11 26999999999999998776555555553 3345567789999999999864321001 11223
Q ss_pred ---------------EecCCHHHHHHHHHhhhhccCCee
Q 029100 168 ---------------VVPYCWKFTAKRLQDLFEDCGCVA 191 (199)
Q Consensus 168 ---------------v~~~~~~~v~~~l~d~~~~~~~~~ 191 (199)
....+|++|+..|||+ |+-|
T Consensus 254 ~~~~~~~~~~v~Np~fD~TP~~~Id~iITe~----G~~p 288 (301)
T COG1184 254 AREEPLGNLKVRNPAFDVTPPEYIDAIITEL----GIIP 288 (301)
T ss_pred cccCcccCccccccccCCCcHHHhheeeecC----CCCC
Confidence 2556899999999997 8744
No 18
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=98.03 E-value=9.3e-05 Score=65.64 Aligned_cols=133 Identities=15% Similarity=0.100 Sum_probs=87.3
Q ss_pred HHHHHHHHHHHHhcCcCCCEEEECcCh---------hHHHHHHHHhchhhcCCCCCEEEECCc-------HHHHHHHHhC
Q 029100 31 DELKKIAAYKAVEFVESGMVLGLGTGS---------TAKHAVDRIGELLRQGKLTNIVGIPTS-------KKTHEQAVSL 94 (199)
Q Consensus 31 ~e~K~~IA~~Aa~lI~dgdtIfLdsGT---------T~~~la~~L~~~~~~~~l~~ltVvTnS-------l~~a~~l~~~ 94 (199)
.+..+.||+.|+++|++|++|.--+.| |++.+.+...+.. .++ .+. ++-| ...+.+|.+.
T Consensus 102 ~~~~~~Ia~~a~~~I~~g~~ILT~~~Sg~lat~~~~tv~~~l~~A~~~g--~~~-~V~-v~EsrP~~~G~~~~a~~L~~~ 177 (303)
T TIGR00524 102 LETNRKIGENGAKLIKDGDTVLTHCNAGALATSDYGTALGVIRSAWEDG--KRI-RVI-ACETRPRNQGSRLTAWELMQD 177 (303)
T ss_pred HHHHHHHHHHHHHHccCCCEEEEecCCccccccCcchHHHHHHHHHHcC--Cce-EEE-ECCCCCccchHHHHHHHHHHC
Confidence 344578999999999999987776544 7777777664321 111 233 3321 3356777788
Q ss_pred CCceEec--------CCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccce
Q 029100 95 GIPLSDL--------DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPV 166 (199)
Q Consensus 95 g~~v~~l--------~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~pi 166 (199)
|+++.-+ .+...+|+.|+|+++|..+|++..-.+...+- .+.......+|++|++.||...... +..+|+
T Consensus 178 gI~vtlI~Dsa~~~~m~~~~vd~VlvGAd~v~~nG~v~nk~GT~~lA-~~Ak~~~vPv~V~a~s~K~~~~~~~-g~~i~~ 255 (303)
T TIGR00524 178 GIDVTLITDSMAAYFMQKGEIDAVIVGADRIARNGDVANKIGTYQLA-VLAKEFRIPFFVAAPLSTFDTKTSC-GEDIVI 255 (303)
T ss_pred CCCEEEEChhHHHHHccccCCCEEEEcccEEecCCCEeEhhhHHHHH-HHHHHhCCCEEEecccccccCCCCC-cccccc
Confidence 9876532 23347999999999999998765444444442 3334557889999999999755332 245666
Q ss_pred EEe
Q 029100 167 EVV 169 (199)
Q Consensus 167 ev~ 169 (199)
|..
T Consensus 256 e~~ 258 (303)
T TIGR00524 256 EER 258 (303)
T ss_pred ccC
Confidence 544
No 19
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=97.89 E-value=0.00033 Score=61.48 Aligned_cols=125 Identities=19% Similarity=0.188 Sum_probs=81.9
Q ss_pred ChHHHHHHHHHHHHhcCcCCCEEEECc-ChhHHHHHHHHhchhhcCCCCCEEEECC-----cHHHHHHHHhCCCceEecC
Q 029100 29 TQDELKKIAAYKAVEFVESGMVLGLGT-GSTAKHAVDRIGELLRQGKLTNIVGIPT-----SKKTHEQAVSLGIPLSDLD 102 (199)
Q Consensus 29 ~~~e~K~~IA~~Aa~lI~dgdtIfLds-GTT~~~la~~L~~~~~~~~l~~ltVvTn-----Sl~~a~~l~~~g~~v~~l~ 102 (199)
...+.+++||+.++++|++|++|.--+ ++|++.+.+...+.. .++ .+.+.-. ....+.+|.+.|+++.-+.
T Consensus 91 ~~~~~~~~I~~~a~~~I~~g~~ILTh~~S~tv~~~l~~A~~~g--k~~-~V~v~EsrP~~qG~~la~eL~~~GI~vtlI~ 167 (275)
T PRK08335 91 LMEEAKREIGNIGSELIDDGDVIITHSFSSAVLEILKTAKRKG--KRF-KVILTESAPDYEGLALANELEFLGIEFEVIT 167 (275)
T ss_pred HHHHHHHHHHHHHHHHcCCCCEEEEECCcHHHHHHHHHHHHcC--Cce-EEEEecCCCchhHHHHHHHHHHCCCCEEEEe
Confidence 345667889999999999999877655 557777776664321 111 2333221 1235667777898765332
Q ss_pred CC------ccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCc
Q 029100 103 SY------PVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHL 157 (199)
Q Consensus 103 ~~------~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~ 157 (199)
.. -++|+.++|+++|..+|++..--+...+- .+......-+|++++++||....
T Consensus 168 Dsa~~~~m~~vd~VivGAD~I~~nG~v~NKiGT~~lA-~~Ak~~~vPfyV~a~~~k~~~~~ 227 (275)
T PRK08335 168 DAQLGLFAKEATLALVGADNVTRDGYVVNKAGTYLLA-LACHDNGVPFYVAAETFKFHPEL 227 (275)
T ss_pred ccHHHHHHHhCCEEEECccEEecCCCEeehhhHHHHH-HHHHHcCCCEEEECccceecccC
Confidence 11 25999999999999988765333333332 33345578899999999997553
No 20
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=97.82 E-value=0.00047 Score=61.09 Aligned_cols=123 Identities=20% Similarity=0.205 Sum_probs=81.3
Q ss_pred HHHHHHHHHHHHhcCcCCCEEEECc-ChhHHHHHHHHhchhhcCCCCCEEEECCc-----HHHHHHHHhCCCceEecCC-
Q 029100 31 DELKKIAAYKAVEFVESGMVLGLGT-GSTAKHAVDRIGELLRQGKLTNIVGIPTS-----KKTHEQAVSLGIPLSDLDS- 103 (199)
Q Consensus 31 ~e~K~~IA~~Aa~lI~dgdtIfLds-GTT~~~la~~L~~~~~~~~l~~ltVvTnS-----l~~a~~l~~~g~~v~~l~~- 103 (199)
....++|++.|+++|++|++|.-=+ ++|++.+.+...+.. .++ .+.|+=+. ...+..|.+.|+++.-...
T Consensus 99 ~~a~~~I~~~a~~~i~~g~~ILT~~~S~tv~~~l~~a~~~~--~~f-~V~v~EsrP~~~G~~~a~~L~~~gI~vtlI~Ds 175 (301)
T TIGR00511 99 DKAQERIGEIGAKRIRDGDVVMTHCNSEAALSVIKTAFEQG--KDI-EVIATETRPRKQGHITAKELRDYGIPVTLIVDS 175 (301)
T ss_pred HHHHHHHHHHHHHHcCCCCEEEEECCcHHHHHHHHHHHHcC--CcE-EEEEecCCCcchHHHHHHHHHHCCCCEEEEehh
Confidence 5567789999999999999887555 567777776664321 112 33332221 2356777778987653210
Q ss_pred -----CccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCc
Q 029100 104 -----YPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHL 157 (199)
Q Consensus 104 -----~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~ 157 (199)
--++|+.|+|+++|..+|++..--+...+- .+..+....+|++|++.||....
T Consensus 176 a~~~~m~~vd~VivGad~v~~nG~v~nkiGT~~lA-~~Ak~~~vPv~V~a~~~K~~~~~ 233 (301)
T TIGR00511 176 AVRYFMKEVDHVVVGADAITANGALINKIGTSQLA-LAAREARVPFMVAAETYKFHPKT 233 (301)
T ss_pred HHHHHHHhCCEEEECccEEecCCCEEEHHhHHHHH-HHHHHhCCCEEEEcccceecCCC
Confidence 125999999999999998765433333332 33345578899999999997543
No 21
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=97.80 E-value=0.00045 Score=61.40 Aligned_cols=120 Identities=20% Similarity=0.229 Sum_probs=80.0
Q ss_pred HHHHHHHHHHHHhcCcCCCEEEECc-ChhHHHHHHHHhchhhcCCCCCEEE-ECCc------HHHHHHHHhCCCceEecC
Q 029100 31 DELKKIAAYKAVEFVESGMVLGLGT-GSTAKHAVDRIGELLRQGKLTNIVG-IPTS------KKTHEQAVSLGIPLSDLD 102 (199)
Q Consensus 31 ~e~K~~IA~~Aa~lI~dgdtIfLds-GTT~~~la~~L~~~~~~~~l~~ltV-vTnS------l~~a~~l~~~g~~v~~l~ 102 (199)
....+.||+.++++|++|++|.-=+ ++|++.+.+...+. ++ +++| ++-| ...+..+.+.|+++.-+.
T Consensus 104 ~~~~~~I~~~a~~~i~~g~~ILT~~~S~tv~~~l~~A~~~---~k--~~~V~v~EsrP~~~G~~~a~~L~~~GI~vtlI~ 178 (310)
T PRK08535 104 ENAVEKIGEIGAKRIRDGDVIMTHCNSSAALSVIKTAHEQ---GK--DIEVIATETRPRNQGHITAKELAEYGIPVTLIV 178 (310)
T ss_pred HHHHHHHHHHHHHHcCCCCEEEEeCCcHHHHHHHHHHHHC---CC--eEEEEEecCCchhhHHHHHHHHHHCCCCEEEEe
Confidence 4456789999999999999887655 56777777666432 11 2332 3322 235667777898765321
Q ss_pred C------CccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCC
Q 029100 103 S------YPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPH 156 (199)
Q Consensus 103 ~------~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~ 156 (199)
. --++|+.|+|+++|..+|++..-.+...+ ..+......-+|++|+..||...
T Consensus 179 Dsav~~~m~~vd~VivGAd~v~~nG~v~nkiGT~~~-A~~Ak~~~vPv~V~a~~~K~~~~ 237 (310)
T PRK08535 179 DSAVRYFMKDVDKVVVGADAITANGAVINKIGTSQI-ALAAHEARVPFMVAAETYKFSPK 237 (310)
T ss_pred hhHHHHHHHhCCEEEECccEEecCCCEEeHHhHHHH-HHHHHHhCCCEEEecccceecCC
Confidence 0 02599999999999998876533333333 23344557889999999999744
No 22
>PRK05720 mtnA methylthioribose-1-phosphate isomerase; Reviewed
Probab=97.67 E-value=0.00084 Score=60.63 Aligned_cols=132 Identities=19% Similarity=0.175 Sum_probs=83.6
Q ss_pred HHHHHHHHHHHhcCcCCCEEEEC--cCh-------hHHHHHHHHhchhhcCCCCCEEE-ECCcH-------HHHHHHHhC
Q 029100 32 ELKKIAAYKAVEFVESGMVLGLG--TGS-------TAKHAVDRIGELLRQGKLTNIVG-IPTSK-------KTHEQAVSL 94 (199)
Q Consensus 32 e~K~~IA~~Aa~lI~dgdtIfLd--sGT-------T~~~la~~L~~~~~~~~l~~ltV-vTnSl-------~~a~~l~~~ 94 (199)
+..+.|++.++++|++|++|.-- +|+ |++.+.+...+. ++ +++| ++-|- ..+.+|.+.
T Consensus 131 ~~~~~I~~~g~~~I~~g~~ILThc~sg~lat~~~gTal~~i~~A~~~---gk--~~~V~v~EsRP~~qG~~lta~eL~~~ 205 (344)
T PRK05720 131 EINRAIGEHGLTLIRKGQGILTHCNAGWLATAGYGTALAPIYAAKEK---GI--DIHVYADETRPRLQGARLTAWELYQA 205 (344)
T ss_pred HHHHHHHHHHHHHccCCCEEEEecCCCcceecchhHHHHHHHHHHHc---CC--ceEEEEcCCCChhhhHHHHHHHHHHC
Confidence 34567999999999999987753 343 456666665432 11 2333 33221 236667778
Q ss_pred CCceEec--------CCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccce
Q 029100 95 GIPLSDL--------DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPV 166 (199)
Q Consensus 95 g~~v~~l--------~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~pi 166 (199)
|+++.-+ .++-.+|+.|+|+++|..+|++..--+...+- .+..+....+|+++.++||...... +..+|+
T Consensus 206 GI~vtlI~Dsa~~~~M~~~~vd~VivGAd~I~~nG~v~NkiGT~~lA-l~Ak~~~vPfyV~a~~~kfd~~~~~-g~~i~i 283 (344)
T PRK05720 206 GIDVTVITDNMAAHLMQTGKIDAVIVGADRIAANGDVANKIGTYQLA-IAAKYHGVPFYVAAPSSTIDLTLAD-GKEIPI 283 (344)
T ss_pred CCCEEEEcccHHHHHhcccCCCEEEEcccEEecCCCEeehhhHHHHH-HHHHHhCCCEEEeccccccCcCCCC-Cccccc
Confidence 9876532 23346999999999999988765433333332 3334557889999999999744322 245666
Q ss_pred EEec
Q 029100 167 EVVP 170 (199)
Q Consensus 167 ev~~ 170 (199)
|-..
T Consensus 284 E~r~ 287 (344)
T PRK05720 284 EERD 287 (344)
T ss_pred ccCC
Confidence 5543
No 23
>TIGR00512 salvage_mtnA S-methyl-5-thioribose-1-phosphate isomerase. The delineation of this family was based in part on a discussion and neighbor-joining phylogenetic study, by Kyrpides and Woese, of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. This clade is now recognized to include the methionine salvage pathway enzyme MtnA.
Probab=97.66 E-value=0.0012 Score=59.35 Aligned_cols=133 Identities=21% Similarity=0.185 Sum_probs=85.9
Q ss_pred HHHHHHHHHHHHhcCcCCC----EEEEC--cC-------hhHHHHHHHHhchhhcCCCCCEEE-ECCcH-------HHHH
Q 029100 31 DELKKIAAYKAVEFVESGM----VLGLG--TG-------STAKHAVDRIGELLRQGKLTNIVG-IPTSK-------KTHE 89 (199)
Q Consensus 31 ~e~K~~IA~~Aa~lI~dgd----tIfLd--sG-------TT~~~la~~L~~~~~~~~l~~ltV-vTnSl-------~~a~ 89 (199)
.+..+.|++.++++|+||+ +|.-- +| +|++.+.+...+. +. +++| ++-|- ..+.
T Consensus 126 ~~~~~~I~~~g~~~I~dg~~~~~~ILThcnsg~lat~~~gtal~~l~~A~~~---g~--~~~V~v~EsrP~~qG~rlta~ 200 (331)
T TIGR00512 126 LEDNRAIGENGAALIKKGVAAPLRVLTHCNTGSLATAGYGTALGVIRSAHEK---GR--LEHVYADETRPRLQGARLTAW 200 (331)
T ss_pred HHHHHHHHHHHHHHhcCCCCCCceEEeecCCccccccccchHHHHHHHHHHc---CC--ceEEEECCCCchhhHHHHHHH
Confidence 3446679999999999999 87774 33 2677777766533 11 2333 33222 1356
Q ss_pred HHHhCCCceEec--------CCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCC
Q 029100 90 QAVSLGIPLSDL--------DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSG 161 (199)
Q Consensus 90 ~l~~~g~~v~~l--------~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~ 161 (199)
+|.+.|+++.-+ .++-.+|+.++|+++|..+|++..--+...+- .+..+....+|++|+.+||...... +
T Consensus 201 ~L~~~GI~vtlI~Dsav~~~m~~~~vd~VivGAd~v~~nG~v~nkiGT~~lA-~~Ak~~~vPfyV~a~~~kfd~~~~~-~ 278 (331)
T TIGR00512 201 ELVQEGIPATLITDSMAAHLMKHGEVDAVIVGADRIAANGDTANKIGTYQLA-VLAKHHGVPFYVAAPTSTIDLETKD-G 278 (331)
T ss_pred HHHHCCCCEEEEcccHHHHHhcccCCCEEEEcccEEecCCCEeehhhHHHHH-HHHHHhCCCEEEeccccccccCCCC-c
Confidence 677789876532 23347999999999999998765433333332 3334557789999999999744221 2
Q ss_pred cccceEEec
Q 029100 162 LAMPVEVVP 170 (199)
Q Consensus 162 ~~~piev~~ 170 (199)
..+|+|-..
T Consensus 279 ~~i~iE~r~ 287 (331)
T TIGR00512 279 AEIPIEERP 287 (331)
T ss_pred cccccccCC
Confidence 456776554
No 24
>KOG1466 consensus Translation initiation factor 2B, alpha subunit (eIF-2Balpha/GCN3) [Translation, ribosomal structure and biogenesis]
Probab=97.60 E-value=0.0013 Score=57.36 Aligned_cols=130 Identities=19% Similarity=0.217 Sum_probs=81.9
Q ss_pred HHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEE-ECCc------HHHHHHHHhCCCceEecCC-
Q 029100 32 ELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVG-IPTS------KKTHEQAVSLGIPLSDLDS- 103 (199)
Q Consensus 32 e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltV-vTnS------l~~a~~l~~~g~~v~~l~~- 103 (199)
..+++||..+-.+|.||++|..-+=|-+ +.+.|....+ +. ....| ||-| ...+..+.+.|+++.....
T Consensus 115 ~sR~~IA~l~~~Fi~dg~~ILtHg~SRv--Vl~~L~~Aa~-~~-~~F~V~vTEsrPd~sG~lm~~~L~~~~IPvtlvlDS 190 (313)
T KOG1466|consen 115 KSRQKIAMLAQDFITDGCTILTHGYSRV--VLEVLLTAAQ-NK-KRFRVYVTESRPDGSGKLMAKELKKLGIPVTLVLDS 190 (313)
T ss_pred HHHHHHHHHhhhHhhCCCEEEEcchhHH--HHHHHHHHHh-cC-ceEEEEEecCCCCCchhHHHHHHHhcCCCeEEEehh
Confidence 3467899999999999999988776654 3333422111 11 13443 5522 2255667778988764421
Q ss_pred -----CccccEEEEccCcccCCCCcccCcchHHHHHHHHH-HhcCcEEEEEeCCCCCCCcCCCCcccceE
Q 029100 104 -----YPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVE-GACKKFVVIVDESKLVPHLGGSGLAMPVE 167 (199)
Q Consensus 104 -----~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~-~~a~k~IlLaD~sKf~~~~g~~~~~~pie 167 (199)
--++|+.|.|+.|+-+.||...-.+...+ .+++ ++-+-+|++|++-||.+-.-++-..+|-+
T Consensus 191 aVgyvMe~vD~VlVGAEGVvEsGGIIN~iGTyq~--~v~Ak~~~kPfYV~AES~KFvRlfPLnQ~Dlp~~ 258 (313)
T KOG1466|consen 191 AVGYVMERVDLVLVGAEGVVESGGIINKIGTYQV--AVCAKSMNKPFYVVAESHKFVRLFPLNQKDLPPA 258 (313)
T ss_pred hHHHHHhhccEEEEccceeeecCceeeecccchh--hhhHHhcCCCeEEEeeccceeeeccCcccccccc
Confidence 12799999999999988876543333222 2232 33467999999999975444443455555
No 25
>PRK05772 translation initiation factor IF-2B subunit alpha; Provisional
Probab=97.50 E-value=0.0023 Score=58.25 Aligned_cols=121 Identities=16% Similarity=0.093 Sum_probs=78.7
Q ss_pred HHHHHHHHHHHHhcCcCCCEEEECcCh----------hHHHHHHHHhchhhcCCCCCEEEE-CCcH-------HHHHHHH
Q 029100 31 DELKKIAAYKAVEFVESGMVLGLGTGS----------TAKHAVDRIGELLRQGKLTNIVGI-PTSK-------KTHEQAV 92 (199)
Q Consensus 31 ~e~K~~IA~~Aa~lI~dgdtIfLdsGT----------T~~~la~~L~~~~~~~~l~~ltVv-TnSl-------~~a~~l~ 92 (199)
.+..++|++.++++|+||++|.--+-| |++.+.+...+. + ++++|+ +-|- ..+.+|.
T Consensus 150 ~~~~~~I~~~g~~~I~dg~~ILThcnsg~Lat~~g~gtal~~i~~a~~~---g--k~f~V~v~EsRP~~qG~rlta~eL~ 224 (363)
T PRK05772 150 YDAEIQMGLYGLEKLNDGDTVLTQCNAGGLATGTGLGTALAPVKLAKAL---G--MSVSVIAPETRPWLQGSRLTVYELM 224 (363)
T ss_pred HHHHHHHHHHHHhhcCCCCEEEEecCCcchhhccccccHHHHHHHHHHC---C--CeEEEEECCCCccchhHHHHHHHHH
Confidence 345677999999999999987765422 455565655432 1 134443 3222 2356777
Q ss_pred hCCCceEec--------CCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCc
Q 029100 93 SLGIPLSDL--------DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHL 157 (199)
Q Consensus 93 ~~g~~v~~l--------~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~ 157 (199)
+.|+++.-+ .++-.+|+.|+|+++|..+|++..--+...+ ..+..+...-+|++|.++||....
T Consensus 225 ~~GIpvtlI~Dsa~~~~m~~~~Vd~VivGAD~I~~NG~v~NKiGTy~l-A~~Ak~~~vPfyV~ap~~k~d~~~ 296 (363)
T PRK05772 225 EEGIKVTLITDTAVGLVMYKDMVNNVMVGADRILRDGHVFNKIGTFKE-AVIAHELGIPFYALAPTSTFDLKS 296 (363)
T ss_pred HCCCCEEEEehhHHHHHHhhcCCCEEEECccEEecCCCEeehhhhHHH-HHHHHHhCCCEEEEccccccCccc
Confidence 789876532 2333699999999999998876433333333 233345567899999999997554
No 26
>PRK06371 translation initiation factor IF-2B subunit alpha; Provisional
Probab=97.29 E-value=0.006 Score=54.84 Aligned_cols=115 Identities=19% Similarity=0.140 Sum_probs=74.8
Q ss_pred HHHHHHHHHhcCcCCCEEEECc--Ch-------hHHHHHHHHhchhhcCCCCCEEEE-CCc------HH-HHHHHHhCCC
Q 029100 34 KKIAAYKAVEFVESGMVLGLGT--GS-------TAKHAVDRIGELLRQGKLTNIVGI-PTS------KK-THEQAVSLGI 96 (199)
Q Consensus 34 K~~IA~~Aa~lI~dgdtIfLds--GT-------T~~~la~~L~~~~~~~~l~~ltVv-TnS------l~-~a~~l~~~g~ 96 (199)
-++|++.++++|++|++|.--+ |+ |++.+.+...+. + ++++|+ +-| .+ .+.+|.+.|+
T Consensus 123 ~~~I~~~g~~~I~~g~~ILThcnsg~la~~~~gTal~~l~~A~~~---g--k~f~V~v~EsRP~~qG~rlta~eL~~~GI 197 (329)
T PRK06371 123 SKKIGEYGNELIKNGARILTHCNAGALAVVDWGTALAPIRIAHRN---G--KNIFVFVDETRPRLQGARLTAWELAQEGI 197 (329)
T ss_pred HHHHHHHHHHHcCCCCEEEEeCCCCcceeccchhHHHHHHHHHHc---C--CeeEEEECCCCCcchHHHHHHHHHHHCCC
Confidence 3679999999999999887754 43 345666666432 1 134443 322 12 3667777898
Q ss_pred ceEec--------CCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCC
Q 029100 97 PLSDL--------DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLV 154 (199)
Q Consensus 97 ~v~~l--------~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~ 154 (199)
++.-+ .++-.+|+.|+|+++|..+|++..--+...+ ..+..+...-+|++|..++|.
T Consensus 198 ~vtlI~Dsa~~~~M~~~~Vd~VivGAd~I~aNG~v~NKiGT~~l-Al~Ak~~~VPfyV~a~~~t~d 262 (329)
T PRK06371 198 DHAIIADNAAGYFMRKKEIDLVIVGADRIASNGDFANKIGTYEK-AVLAKVNGIPFYVAAPGSTFD 262 (329)
T ss_pred CEEEEcccHHHHHhhhcCCCEEEECccEEecCCCEeehhhHHHH-HHHHHHcCCCEEEeccccccC
Confidence 76532 2334699999999999998876543333333 233345567788999988885
No 27
>PRK06036 translation initiation factor IF-2B subunit alpha; Provisional
Probab=97.23 E-value=0.0093 Score=53.85 Aligned_cols=117 Identities=19% Similarity=0.158 Sum_probs=75.4
Q ss_pred HHHHHHHHHHhcCcCCCEEEECc--Ch-------hHHHHHHHHhchhhcCCCCCEEE-ECCcH------H-HHHHHHhCC
Q 029100 33 LKKIAAYKAVEFVESGMVLGLGT--GS-------TAKHAVDRIGELLRQGKLTNIVG-IPTSK------K-THEQAVSLG 95 (199)
Q Consensus 33 ~K~~IA~~Aa~lI~dgdtIfLds--GT-------T~~~la~~L~~~~~~~~l~~ltV-vTnSl------~-~a~~l~~~g 95 (199)
..++||+.++++|++|++|.--+ |+ |++.+.+...+. + ++++| ++-+- + ++.+|.+.|
T Consensus 133 ~~~~I~~~g~~~I~~g~~ILThc~sg~lat~~~gTal~~l~~A~~~---g--k~~~V~v~EtRP~~qG~rlta~eL~~~G 207 (339)
T PRK06036 133 RNKLIGKHGAKLLEDGDTVLTHCNAGRLACVDWGTALGVIRSAVEQ---G--KEIKVIACETRPLNQGSRLTTWELMQDN 207 (339)
T ss_pred HHHHHHHHHHHHccCCCEEEEecCCccccccccchHHHHHHHHHHc---C--CceEEEEcCCCchhhHHHHHHHHHHHcC
Confidence 45678899999999999887754 32 566666666432 1 13443 33222 2 356777789
Q ss_pred CceEec--------CCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCC
Q 029100 96 IPLSDL--------DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPH 156 (199)
Q Consensus 96 ~~v~~l--------~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~ 156 (199)
+++.-+ .++-.+|+.|+|+++|..+| + .+.-+......+..+...-+|++|..+||...
T Consensus 208 I~vtlI~Dsa~~~~M~~~~Vd~VivGAd~I~anG-v-~NKiGT~~lA~~Ak~~~vPfyV~ap~s~~d~~ 274 (339)
T PRK06036 208 IPVTLITDSMAGIVMRQGMVDKVIVGADRITRDA-V-FNKIGTYTHSVLAKEHEIPFYVAAPLSTFDFE 274 (339)
T ss_pred CCEEEEehhHHHHHhccCCCCEEEECccchhhcC-e-ehhhhHHHHHHHHHHhCCCEEEEeecCccCCC
Confidence 876532 33345999999999998884 3 33333333323334556788999999999643
No 28
>PF01008 IF-2B: Initiation factor 2 subunit family; InterPro: IPR000649 Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. The eukaryotic translation initiation factor EIF-2B is a complex made up of five different subunits, alpha, beta, gamma, delta and epsilon, and catalyses the exchange of EIF-2-bound GDP for GTP. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes; related proteins from archaebacteria and IF-2 from prokaryotes and also contains a subfamily of proteins in eukaryotes, archaeae (e.g. Pyrococcus furiosus), or eubacteria such as Bacillus subtilis and Thermotoga maritima. Many of these proteins were initially annotated as putative translation initiation factors despite the fact that there is no evidence for the requirement of an IF2 recycling factor in prokaryotic translation initiation. Recently, one of these proteins from B. subtilis has been functionally characterised as a 5-methylthioribose-1-phosphate isomerase (MTNA) []. This enzyme participates in the methionine salvage pathway catalysing the isomerisation of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate []. The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species.; GO: 0044237 cellular metabolic process; PDB: 1VB5_A 1T5O_D 3A11_E 3VM6_C 1W2W_A 1T9K_A 3ECS_B 2YRF_A 2YVK_B 2A0U_A ....
Probab=97.17 E-value=0.0028 Score=54.90 Aligned_cols=122 Identities=19% Similarity=0.188 Sum_probs=72.5
Q ss_pred hHHHHHHHHHHHHhcCcCCCEEE-ECcChhHHHHHHHHhchhhcCCCCCEEEECCc-----HHHHHHHHhCCCceEec--
Q 029100 30 QDELKKIAAYKAVEFVESGMVLG-LGTGSTAKHAVDRIGELLRQGKLTNIVGIPTS-----KKTHEQAVSLGIPLSDL-- 101 (199)
Q Consensus 30 ~~e~K~~IA~~Aa~lI~dgdtIf-LdsGTT~~~la~~L~~~~~~~~l~~ltVvTnS-----l~~a~~l~~~g~~v~~l-- 101 (199)
.....+.|++.+.++|++|++|. .+.++|+..+.....+.. .++ .+.|+=.. ...+..+.+.|+++.-+
T Consensus 90 ~~~~~~~I~~~~~~~I~~~~~ILT~~~S~~v~~~l~~a~~~~--~~~-~V~v~es~P~~eG~~~a~~L~~~gi~v~~i~d 166 (282)
T PF01008_consen 90 IEQAREKIADHASELINDGDTILTHGYSSTVERFLLSAKKKG--KKF-RVIVLESRPYNEGRLMAKELAEAGIPVTLIPD 166 (282)
T ss_dssp HHHHHHHHHHHHHCCC-TTEEEEEES--SHHHHHHHHHHHTT--EEE-EEEEE--TTTTHHHTHHHHHHHTT-EEEEE-G
T ss_pred HHHHHHHHHHHHHHhccCCeEEEEeCCchHHHHHHHHHHHcC--CeE-EEEEccCCcchhhhhHHHHhhhcceeEEEEec
Confidence 45567889999999999999886 567777777766654321 011 33333222 13566677788876532
Q ss_pred ------CCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCC
Q 029100 102 ------DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPH 156 (199)
Q Consensus 102 ------~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~ 156 (199)
.++ .+|+.++|+++|-.+|++..-.+...+- .+..+...-+|+++++.||...
T Consensus 167 ~~~~~~m~~-~vd~VliGad~v~~nG~v~nk~Gt~~~a-~~Ak~~~vPv~v~~~~~K~~~~ 225 (282)
T PF01008_consen 167 SAVGYVMPR-DVDKVLIGADAVLANGGVVNKVGTLQLA-LAAKEFNVPVYVLAESYKFSPR 225 (282)
T ss_dssp GGHHHHHHC-TESEEEEE-SEEETTS-EEEETTHHHHH-HHHHHTT-EEEEE--GGGBETT
T ss_pred hHHHHHHHH-hCCeeEEeeeEEecCCCEeehhhHHHHH-HHHHhhCCCEEEEccccccccc
Confidence 222 4999999999999998765433333332 3334557889999999999644
No 29
>COG2057 AtoA Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]
Probab=97.08 E-value=0.00042 Score=58.99 Aligned_cols=109 Identities=24% Similarity=0.344 Sum_probs=72.5
Q ss_pred HHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHH-------------HhCC-Cc
Q 029100 32 ELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQA-------------VSLG-IP 97 (199)
Q Consensus 32 e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l-------------~~~g-~~ 97 (199)
..|+.||++|+..++||+.|+|+.| --..+|.++++. +.+++.|.+...-+ .+.| ..
T Consensus 6 ~~~e~ia~r~A~el~dG~~VnlGIG-lPtlvan~~~~~--------~~~~~~seng~Lg~g~~p~~~~~d~~linaG~~~ 76 (225)
T COG2057 6 TEREMIAKRAARELKDGDYVNLGIG-LPTLVANYAPEG--------MNVLLQSENGLLGVGPAPLPGEEDADLINAGKQP 76 (225)
T ss_pred hhHHHHHHHHHHhccCCCEEEecCC-chHHhHhhcccc--------cceEEecCceeEEecCCCCCCCCCcchhhCCCce
Confidence 4589999999999999999999999 444689999853 34444443322111 1111 11
Q ss_pred eE--------------ecCCCccccEEEEccCcccCCCCc---------ccCcchHHHHHHHHHHhcCcEEEEEeCCCC
Q 029100 98 LS--------------DLDSYPVVDLAIDGADEVDPFMNL---------VKGRGGSLLREKMVEGACKKFVVIVDESKL 153 (199)
Q Consensus 98 v~--------------~l~~~~~~D~aFig~~gi~~~~~~---------~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf 153 (199)
+. .+++.-|+|++|+|+.-||..|.+ .++..+|- -+...++++|++.+|+|-
T Consensus 77 vt~~pg~~~f~sa~sf~~irGGhidv~vLGa~QVd~~Gnlanw~Ipgk~vpGmGGAm----dl~~gakkvii~m~H~~k 151 (225)
T COG2057 77 VTALPGASVFDSADSFAMIRGGHIDVAVLGAAQVDEYGNLANWMIPGKMVPGMGGAM----DLVTGAKKVIVVMEHTKK 151 (225)
T ss_pred eEecCCceEEchHHHHHHHhCCceEEEEecceeecccCceeeeeECCccccCCccch----hhhcCCcEEEEEeeeecc
Confidence 11 134667999999999999986543 12322222 123458999999999986
No 30
>PRK08334 translation initiation factor IF-2B subunit beta; Validated
Probab=96.74 E-value=0.031 Score=50.82 Aligned_cols=130 Identities=18% Similarity=0.121 Sum_probs=82.3
Q ss_pred HHHHHHHHHHHhcCcCCCEEEECc---------ChhHHHHHHHHhchhhcCCCCCEE-EECCc------HH-HHHHHHhC
Q 029100 32 ELKKIAAYKAVEFVESGMVLGLGT---------GSTAKHAVDRIGELLRQGKLTNIV-GIPTS------KK-THEQAVSL 94 (199)
Q Consensus 32 e~K~~IA~~Aa~lI~dgdtIfLds---------GTT~~~la~~L~~~~~~~~l~~lt-VvTnS------l~-~a~~l~~~ 94 (199)
+..++|++.++++|.+|+ |.--+ .-|++.+++...+. +. .+. +++=+ .+ ++.+|.+.
T Consensus 145 ~~~~~Ig~~g~~li~dg~-ILTHcnaG~LAt~~~gTal~vi~~A~~~---gk--~~~V~v~EtRP~~qG~rlta~eL~~~ 218 (356)
T PRK08334 145 EANLRMGHYGAEVLPEGN-VLTHCNAGSLATVHLGTVGAVLRVMHKD---GT--LKLLWVDETRPVLQGARLSAWEYHYD 218 (356)
T ss_pred HHHHHHHHHHHhhcCCCC-EEEecCcchhhhcccchHHHHHHHHHHc---CC--eEEEEECCCCchhhHHHHHHHHHHHC
Confidence 446789999999999999 65444 24677777777543 21 233 44422 22 25667778
Q ss_pred CCceEec--------CCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccce
Q 029100 95 GIPLSDL--------DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPV 166 (199)
Q Consensus 95 g~~v~~l--------~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~pi 166 (199)
|+++.-+ .++-.+|+.|+|+++|..+|++..--+...+ ..+..+...-+|++|..+||...... +..+|+
T Consensus 219 GI~vtlI~Dsav~~~M~~~~Vd~VivGAd~I~~nG~v~NKiGTy~l-A~~Ak~~~vPfyV~Ap~~t~d~~~~~-~~~i~i 296 (356)
T PRK08334 219 GIPLKLISDNMAGFVMQQGKVDAIIVGADRIVANGDFANKIGTYTL-AVLAKEHGIPFFTVAPLSTIDMSLKS-GKEIPI 296 (356)
T ss_pred CCCEEEEehhHHHHHhhhcCCCEEEECccEEecCCCEeehhhHHHH-HHHHHHhCCCEEEEcccCccCCCCCC-Cccccc
Confidence 9876532 3334799999999999998876533333333 23334556789999999999633321 134555
Q ss_pred EEe
Q 029100 167 EVV 169 (199)
Q Consensus 167 ev~ 169 (199)
|..
T Consensus 297 E~r 299 (356)
T PRK08334 297 EER 299 (356)
T ss_pred ccC
Confidence 543
No 31
>TIGR02428 pcaJ_scoB_fam 3-oxoacid CoA-transferase, B subunit. Various members of this family are characterized as the B subunits of succinyl-CoA:3-ketoacid-CoA transferase (EC 2.8.3.5), beta-ketoadipate:succinyl-CoA transferase (EC 2.8.3.6), acetyl-CoA:acetoacetate CoA transferase (EC 2.8.3.8), and butyrate-acetoacetate CoA-transferase (EC 2.8.3.9). This represents a very distinct clade with strong sequence conservation within the larger family defined by Pfam model pfam01144. The A subunit represents a different clade in pfam01144.
Probab=96.45 E-value=0.0082 Score=50.48 Aligned_cols=108 Identities=19% Similarity=0.238 Sum_probs=68.7
Q ss_pred HHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHH-----------HHHHhC--------
Q 029100 34 KKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTH-----------EQAVSL-------- 94 (199)
Q Consensus 34 K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a-----------~~l~~~-------- 94 (199)
++.||+.|+.+|+||++|+++.| .-..++.+|.+. .++++.|-+=-+- -.+.+.
T Consensus 3 ~~~Ia~~aA~~i~dg~~v~lGiG-iP~~va~~l~~~------~~l~l~~E~G~~g~~p~p~~~~~~~~l~~~g~~~~~~~ 75 (207)
T TIGR02428 3 RDQIAARAAQELKDGDYVNLGIG-IPTLVANYLPEG------IEVFLQSENGILGMGPAPEPGEEDPDLINAGKQPVTLL 75 (207)
T ss_pred HHHHHHHHHHhcCCCCEEEEeec-HHHHHHHHHhcC------CeEEEEEeCceecCccCCCCCCcCHHHHhCCCCceeec
Confidence 78999999999999999999999 666788888653 2566655432110 012222
Q ss_pred -CCce------EecCCCccccEEEEccCcccCCCCccc---------CcchHHHHHHHHHHhcCcEEEEEeCCC
Q 029100 95 -GIPL------SDLDSYPVVDLAIDGADEVDPFMNLVK---------GRGGSLLREKMVEGACKKFVVIVDESK 152 (199)
Q Consensus 95 -g~~v------~~l~~~~~~D~aFig~~gi~~~~~~~~---------~~~~a~ik~~~i~~~a~k~IlLaD~sK 152 (199)
+..+ ..+.+.-++|++|+|+..||..|.+.. +..++. -+.+.++++|+...|++
T Consensus 76 ~g~~~~~~~~~f~~~~~G~~dv~~lga~qvD~~GnvN~~~~~~~~~~G~GG~~----d~~~~a~~~i~~~~~t~ 145 (207)
T TIGR02428 76 PGASYFDSADSFAMIRGGHVDVAVLGALQVSENGDLANWMIPGKLVPGMGGAM----DLVAGAKRVIVAMEHTT 145 (207)
T ss_pred cCcEEecChhheeeEcCCceeEEEechHHhCCCCcccccccCCccccccCchh----hhhcCCCEEEEEEeeEC
Confidence 1112 233455689999999999998665421 111111 12345788877776643
No 32
>PRK06372 translation initiation factor IF-2B subunit delta; Provisional
Probab=96.14 E-value=0.11 Score=45.17 Aligned_cols=117 Identities=20% Similarity=0.137 Sum_probs=71.1
Q ss_pred HHHHHHHHHHHhcCcCCCEEE-ECcChhHHHHHHHHhchhhcCCCCCEEEECCc-----HHHHHHHHhCCCceEecCC--
Q 029100 32 ELKKIAAYKAVEFVESGMVLG-LGTGSTAKHAVDRIGELLRQGKLTNIVGIPTS-----KKTHEQAVSLGIPLSDLDS-- 103 (199)
Q Consensus 32 e~K~~IA~~Aa~lI~dgdtIf-LdsGTT~~~la~~L~~~~~~~~l~~ltVvTnS-----l~~a~~l~~~g~~v~~l~~-- 103 (199)
..=+.|++.|++.| +||+|. +++|+++..+...- +. .+ .+.|+-.- ...+..|.+.|+++.-+..
T Consensus 72 ~~~~~~~~~A~~~i-~~dvILT~s~S~~v~~~l~~~-~~----~~-~V~v~ESrP~~eG~~~a~~L~~~GI~vtli~Dsa 144 (253)
T PRK06372 72 KHEKMAIEHAKPLF-NDSVIGTISSSQVLKAFISSS-EK----IK-SVYILESRPMLEGIDMAKLLVKSGIDVVLLTDAS 144 (253)
T ss_pred HHHHHHHHHHHhhc-CCCEEEEeCCcHHHHHHHHhc-CC----CC-EEEEecCCCchHHHHHHHHHHHCCCCEEEEehhH
Confidence 34456888899999 556555 44455555444321 11 01 33333322 2345667778887653210
Q ss_pred ----CccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCC
Q 029100 104 ----YPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPH 156 (199)
Q Consensus 104 ----~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~ 156 (199)
--++|+.|+|+++|..+|++..--+...+- .+..+...-+|+++.+.||...
T Consensus 145 ~~~~m~~vd~VlvGAd~V~~nG~v~nkvGT~~~A-l~A~~~~vPv~V~~~s~Kf~~~ 200 (253)
T PRK06372 145 MCEAVLNVDAVIVGSDSVLYDGGLIHKNGTFPLA-LCARYLKKPFYSLTISMKIERN 200 (253)
T ss_pred HHHHHHhCCEEEECccEEecCCCEeehhhHHHHH-HHHHHcCCCEEEEeeccccCCC
Confidence 125999999999999888765444444442 3344557889999999999643
No 33
>PRK09920 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional
Probab=95.51 E-value=0.073 Score=45.27 Aligned_cols=45 Identities=22% Similarity=0.294 Sum_probs=32.7
Q ss_pred HHHHHHHhcCcCCCEEEECcCh---hHHHHHHHHhchhhcCCCCCEEEECCc
Q 029100 36 IAAYKAVEFVESGMVLGLGTGS---TAKHAVDRIGELLRQGKLTNIVGIPTS 84 (199)
Q Consensus 36 ~IA~~Aa~lI~dgdtIfLdsGT---T~~~la~~L~~~~~~~~l~~ltVvTnS 84 (199)
.=++.|+++|+|||+|++++-. +-..+++.|.++ ++ +++|++.|+
T Consensus 6 ~s~~eAv~~I~DG~ti~~gGf~~~~~P~ali~al~r~---~~-~dLtli~~~ 53 (219)
T PRK09920 6 MTLQDATGFFRDGMTIMVGGFMGIGTPSRLVEALLES---GV-RDLTLIAND 53 (219)
T ss_pred CcHHHHHhcCCCCCEEEECcccCcCCHHHHHHHHHhc---CC-CceEEEEeC
Confidence 3356788899999999988754 577788887543 11 378998754
No 34
>TIGR02429 pcaI_scoA_fam 3-oxoacid CoA-transferase, A subunit. Various members of this family are characterized as the A subunits of succinyl-CoA:3-ketoacid-CoA transferase (EC 2.8.3.5), beta-ketoadipate:succinyl-CoA transferase (EC 2.8.3.6), acetyl-CoA:acetoacetate CoA transferase (EC 2.8.3.8), and butyrate-acetoacetate CoA-transferase (EC 2.8.3.9). This represents a very distinct clade with strong sequence conservation within the larger family defined by Pfam model pfam01144. The B subunit represents a different clade in pfam01144, described by TIGR02428. The two are found in general as tandem genes and occasionally as a fusion.
Probab=94.75 E-value=0.19 Score=42.75 Aligned_cols=46 Identities=20% Similarity=0.158 Sum_probs=30.7
Q ss_pred CCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEe
Q 029100 103 SYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVD 149 (199)
Q Consensus 103 ~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD 149 (199)
..+++|+|||=+.--|..|++....+...... .|+.+|+++|+-++
T Consensus 148 ~a~~~DvAlIha~~AD~~GN~~~~~~~~~~~~-~~A~AAk~vIv~vE 193 (222)
T TIGR02429 148 YPLPADFALIKAHKADRWGNLTYRKAARNFGP-IMAMAAKTTIAQVS 193 (222)
T ss_pred cCCCCcEEEEEecccCCCCcEEEECccccCCH-HHHhhcCcEEEEEE
Confidence 45789999999999999998754433222222 35556777666444
No 35
>PF02550 AcetylCoA_hydro: Acetyl-CoA hydrolase/transferase N-terminal domain; InterPro: IPR003702 This family contains several enzymes which take part in pathways involving acetyl-CoA. Acetyl-CoA hydrolase 3.1.2.1 from EC from yeast catalyses the formation of acetate from acetyl-CoA, CoA transferase (CAT1) 2.8.3 from EC produces succinyl-CoA, and acetate-CoA transferase 2.8.3.8 from EC utilises acyl-CoA and acetate to form acetyl-CoA.; GO: 0003824 catalytic activity, 0006084 acetyl-CoA metabolic process; PDB: 2NVV_C 2G39_A 3D3U_A 3S8D_B 3QLI_B 3QLK_B 3GK7_B 3QDQ_A 3EH7_A 2OAS_A ....
Probab=94.63 E-value=0.23 Score=41.09 Aligned_cols=45 Identities=22% Similarity=0.236 Sum_probs=30.2
Q ss_pred ccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCC
Q 029100 105 PVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDES 151 (199)
Q Consensus 105 ~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~s 151 (199)
+.+|+|++.++..|.+|.++.+.. ....+.++. .|+++|+-+...
T Consensus 123 ~~~Dvaii~vSp~De~Gy~slG~s-~~~~~~~ie-~A~~vI~eVN~~ 167 (198)
T PF02550_consen 123 IPIDVAIIQVSPMDEHGYFSLGTS-VDYTKAAIE-QAKKVIVEVNPN 167 (198)
T ss_dssp SH-SEEEEEECEE-TTSEEECTTB-HBTHHHHHH-HTSEEEEEEETT
T ss_pred CCCCEEEEEecCcCCCCCEeecHH-HHhHHHHHh-cCCeEEEEcCCC
Confidence 348999999999999987776644 333334454 588888877643
No 36
>TIGR03458 YgfH_subfam succinate CoA transferases. A closely related clade not included in this family are the Ach1p proteins of fungi which are acetyl-CoA hydrolases. This name has been applied to many of the proteins detected by this model, possibly erroneously.
Probab=94.45 E-value=0.55 Score=44.42 Aligned_cols=113 Identities=15% Similarity=0.152 Sum_probs=66.3
Q ss_pred HHHHHhcCcCCCEEEECcC---hhHHHHHHHHhchhhc----CCCCCEEEECCcHH---HHH------------------
Q 029100 38 AYKAVEFVESGMVLGLGTG---STAKHAVDRIGELLRQ----GKLTNIVGIPTSKK---THE------------------ 89 (199)
Q Consensus 38 A~~Aa~lI~dgdtIfLdsG---TT~~~la~~L~~~~~~----~~l~~ltVvTnSl~---~a~------------------ 89 (199)
++.|+++|+|||+|+++.. .+-..|.++|.++.+. +.-.++++++.... ...
T Consensus 5 aeEAv~lIkDGdtI~iGgftg~~~P~aLl~ALa~r~~~~~~~g~p~~vtll~~~~~g~~~~~~l~~~g~v~~~is~~~sp 84 (485)
T TIGR03458 5 ADEAAALIKDGMTVGMSGFTPAGYPKAVPAALAKRAKAAHAAGEPFKITLLTGASTGPELDGVLAEADAIARRLPYQSDP 84 (485)
T ss_pred HHHHHHhCCCCCEEEECCCCCCCCHHHHHHHHHHHHHhhhccCCCccEEEEEecccCCcccccccccCCEEEEecccCCH
Confidence 5678899999999999974 5677788888654211 11125565552221 000
Q ss_pred ---HHHhCC-CceEe--------cC-CCc--cccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCC
Q 029100 90 ---QAVSLG-IPLSD--------LD-SYP--VVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESK 152 (199)
Q Consensus 90 ---~l~~~g-~~v~~--------l~-~~~--~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sK 152 (199)
.+.+.| +.... +. ..+ ++|++++-++-.|.+|.+..+.... ..+.++ ++|+++|+-++..-
T Consensus 85 ~~Rkai~~G~i~y~P~~ls~ip~~lrag~~g~~DValI~VSp~D~~Gn~slg~s~~-~~~~aa-~aAk~VIvEVN~~m 160 (485)
T TIGR03458 85 TLRKKINAGEVMYVDMHLSHVAQQLRYGFLGKVDVAVIEAAAITEDGRIIPTSSVG-NNPTFL-ELADKVIVEVNTWQ 160 (485)
T ss_pred HHHHHHHcCCCEEEeccHHHHHHHHHhcCCCCCCEEEEEEEeCCCCceEEEecccc-hHHHHH-HhCCEEEEEECCCC
Confidence 011111 11111 11 223 7999999999999988876554333 333444 45888877776544
No 37
>PF04198 Sugar-bind: Putative sugar-binding domain; InterPro: IPR007324 This probable domain is found in bacterial transcriptional regulators such as DeoR and SorC. One of these proteins, Q8U7I7 from SWISSPROT, has an N-terminal helix-turn-helix IPR000792 from INTERPRO that binds to DNA. This domain is probably the ligand regulator binding region. SorC is regulated by sorbose and other members of this family are likely to be regulated by other sugar substrates.; GO: 0030246 carbohydrate binding; PDB: 3KV1_A 3EFB_C 2W48_A 3BXH_A 3BXE_A 2OKG_A 3BXF_A 3BXG_A 2R5F_A 2O0M_A ....
Probab=94.10 E-value=0.072 Score=45.91 Aligned_cols=86 Identities=21% Similarity=0.290 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHhc----CcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEEC-----------CcHHHHHHHH-hC
Q 029100 31 DELKKIAAYKAVEF----VESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIP-----------TSKKTHEQAV-SL 94 (199)
Q Consensus 31 ~e~K~~IA~~Aa~l----I~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvT-----------nSl~~a~~l~-~~ 94 (199)
++.++.+|+.|++| +++|++|++.-|+|+.+++++|+... ..+++||. ++..++..+. ..
T Consensus 32 ~~~~~~l~~~aA~~L~~~l~~~~~iGv~wG~Tl~~~~~~l~~~~----~~~~~vV~l~Gg~~~~~~~~~~~i~~~lA~~~ 107 (255)
T PF04198_consen 32 EDILESLGEAAAEYLSELLKDGDVIGVGWGRTLYAVANHLPPKS----LPNVTVVPLIGGVGNSNSYQANEIARRLAEKL 107 (255)
T ss_dssp HHHHHHHHHHHHHHHHHH--TTEEEEE-TSHHHHHHHHTS--SS----SSCEEEEESBSBTTTSSGGSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhCCCCCEEEEcchHHHHHHHHhcCccC----CCCcEEEECCCCCCCCCCcCHHHHHHHHHHHh
Confidence 67799999999986 58999999999999999999997631 13677764 2333344332 23
Q ss_pred CCceEec-------------------------CCCccccEEEEccCcccCC
Q 029100 95 GIPLSDL-------------------------DSYPVVDLAIDGADEVDPF 120 (199)
Q Consensus 95 g~~v~~l-------------------------~~~~~~D~aFig~~gi~~~ 120 (199)
|.+...+ ..--+.|+||+|...++..
T Consensus 108 g~~~~~l~aP~~~~s~~~~~~l~~~~~i~~~l~~~~~~dial~giG~~~~~ 158 (255)
T PF04198_consen 108 GGKYYFLPAPAFVDSPELRDALLAEPSIREVLDLARKADIALVGIGSPSSD 158 (255)
T ss_dssp TSEEE---SBSB-SSHHHHHHHHTSHHHHHHHHHHCT-SEEEEEEEEHHHH
T ss_pred CCcEEEEeCCccCCCHHHHHHHHhChHHHHHHHHHHhCCEEEEecCCCCCc
Confidence 3322110 1123799999999999763
No 38
>COG1788 AtoD Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]
Probab=93.80 E-value=0.57 Score=39.96 Aligned_cols=112 Identities=20% Similarity=0.201 Sum_probs=71.2
Q ss_pred HHHHHHHHHHhcCcCCCEEEECcCh---hHHHHHHHHhchhhcCCCCCEEEECCcH---HH-HHHHHhC-----------
Q 029100 33 LKKIAAYKAVEFVESGMVLGLGTGS---TAKHAVDRIGELLRQGKLTNIVGIPTSK---KT-HEQAVSL----------- 94 (199)
Q Consensus 33 ~K~~IA~~Aa~lI~dgdtIfLdsGT---T~~~la~~L~~~~~~~~l~~ltVvTnSl---~~-a~~l~~~----------- 94 (199)
.|...++.|++.++|||||++++=. +-..++++|.+. + .+++|+|+|+- .. ...+...
T Consensus 3 ~k~~s~~ea~~~~~dG~ti~~gGFg~~g~P~alI~ali~~---G-vkdLt~I~n~~g~~d~glg~li~~~~vkk~i~S~i 78 (220)
T COG1788 3 KKLSSAEEAVANVKDGDTIMIGGFGTCGIPEALIHALIRQ---G-VKDLTVISNNAGFPDLGLGKLIGNGQVKKMIASYI 78 (220)
T ss_pred chhhhHHHHHhhCCCCCEEEEccccccCChHHHHHHHHHc---C-CcceEEEecCCCCCcccHHHHhhcCcEEEEEEecc
Confidence 3667788999999999999987532 345677777543 1 24899999983 21 1112110
Q ss_pred ----------------------------------CCc------------------------eEecCCCccccEEEEccCc
Q 029100 95 ----------------------------------GIP------------------------LSDLDSYPVVDLAIDGADE 116 (199)
Q Consensus 95 ----------------------------------g~~------------------------v~~l~~~~~~D~aFig~~g 116 (199)
|+. .+-+....++|+||+-+.-
T Consensus 79 g~n~~~~r~~~~geleve~~pqgtLaerirAgg~Glp~~~t~tg~Gt~v~~gk~~~~~~G~~yvle~~lraDvAiI~a~k 158 (220)
T COG1788 79 GSNPEFGRQMLAGELEVELVPQGTLAERIRAGGAGLPGFPTRTGVGTLVAEGKVTRPFDGEPYVLEPALRADVALIHAHK 158 (220)
T ss_pred CCCHHHHHHhhcceEEEEECCchHHHHHHHhhhcCCCcceeccccCceeecCcEEEeeCCeEEEEecccCcceEEEEeee
Confidence 000 0112356799999999999
Q ss_pred ccCCCCcccCcchHHHHHHHHHHhcCcEEEEEe
Q 029100 117 VDPFMNLVKGRGGSLLREKMVEGACKKFVVIVD 149 (199)
Q Consensus 117 i~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD 149 (199)
-|..|++......-.+.. .|+-+|+++|+=++
T Consensus 159 aD~~GNl~y~~t~~nfn~-~~A~AAk~~IvevE 190 (220)
T COG1788 159 ADSHGNLTYRGTARNFNP-LMAMAAKRTIVEVE 190 (220)
T ss_pred cCCcCCEEEEcccccCCH-HHHhhcCeEEEEEE
Confidence 999888765544444443 34445788776544
No 39
>COG2390 DeoR Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]
Probab=92.77 E-value=0.27 Score=44.14 Aligned_cols=41 Identities=24% Similarity=0.436 Sum_probs=34.1
Q ss_pred ChHHHHHHHHHHHHhc----CcCCCEEEECcChhHHHHHHHHhch
Q 029100 29 TQDELKKIAAYKAVEF----VESGMVLGLGTGSTAKHAVDRIGEL 69 (199)
Q Consensus 29 ~~~e~K~~IA~~Aa~l----I~dgdtIfLdsGTT~~~la~~L~~~ 69 (199)
..+..++.||+.|+.+ |++||+|+++-|+|+..++++|+..
T Consensus 92 ~~~~~~~~lg~aaA~~l~~~l~~gdvigV~wGrTv~a~~~~l~~~ 136 (321)
T COG2390 92 ADDSILRRLGRAAAQYLESLLKPGDVIGVGWGRTLSAVVDNLPPA 136 (321)
T ss_pred CchHHHHHHHHHHHHHHHHhCCCCCEEEEeccHHHHHHHHhcCcC
Confidence 4455566688888874 7999999999999999999999654
No 40
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=91.08 E-value=1.2 Score=42.22 Aligned_cols=116 Identities=19% Similarity=0.164 Sum_probs=69.9
Q ss_pred HHHHHHHhcCcCCCEEE-ECcChhHHHHHHHHhchhhcCCCCCEEEECCcHH-----HHHHHHhCCCceE-------ecC
Q 029100 36 IAAYKAVEFVESGMVLG-LGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKK-----THEQAVSLGIPLS-------DLD 102 (199)
Q Consensus 36 ~IA~~Aa~lI~dgdtIf-LdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~-----~a~~l~~~g~~v~-------~l~ 102 (199)
+|-+.|.+-|+|||+|. .|+++++.++.-+=.+. ..++ ++.||-.... ....+...|++.. ++.
T Consensus 348 aI~q~a~~KI~dgdviltyg~s~vV~~ill~A~~~--~k~f-rVvVVDSRP~~EG~~~lr~Lv~~GinctYv~I~a~syi 424 (556)
T KOG1467|consen 348 AISQHAVTKIQDGDVLLTYGSSSVVNMILLEAKEL--GKKF-RVVVVDSRPNLEGRKLLRRLVDRGINCTYVLINAASYI 424 (556)
T ss_pred HHHHHHHHHhhcCCEEEEecchHHHHHHHHHHHHh--Ccce-EEEEEeCCCCcchHHHHHHHHHcCCCeEEEEehhHHHH
Confidence 45556667899999986 46666666665553322 1122 4555543332 2334556787642 222
Q ss_pred CCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHh-cCcEEEEEeCCCCCCCc
Q 029100 103 SYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGA-CKKFVVIVDESKLVPHL 157 (199)
Q Consensus 103 ~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~-a~k~IlLaD~sKf~~~~ 157 (199)
- .-+++.|+||.++=.+|.+..--+.+.+ +|++.+ .=-+++.|++-||.++.
T Consensus 425 m-~evtkvfLGahailsNG~vysR~GTa~v--alvAna~nVPVlVCCE~yKF~eRv 477 (556)
T KOG1467|consen 425 M-LEVTKVFLGAHAILSNGAVYSRVGTACV--ALVANAFNVPVLVCCEAYKFHERV 477 (556)
T ss_pred H-HhcceeeechhhhhcCcchhhhcchHHH--HHHhcccCCCEEEEechhhhhhhh
Confidence 1 3689999999999877765544444444 345432 33478889999997554
No 41
>cd00458 SugarP_isomerase SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium, the last step of the metabolic pathway of N-acetyl-D-glucosamine-6-phosphate. 6PGL converts 6-phosphoglucono-1,5-lactone to 6-phosphogluconate, the second step of the oxidative phase of the pentose phosphate pathway.
Probab=90.89 E-value=1.1 Score=36.16 Aligned_cols=50 Identities=38% Similarity=0.662 Sum_probs=32.8
Q ss_pred HHHHHHHhcC--cCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcH
Q 029100 36 IAAYKAVEFV--ESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSK 85 (199)
Q Consensus 36 ~IA~~Aa~lI--~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl 85 (199)
.|+....+.+ ++..+|.|.+|+|...+.+.|.+....++..+++++..+.
T Consensus 7 ~i~~~i~~~~~~~~~~~i~lsgGsTp~~~y~~L~~~~~~~~w~~v~~f~~DE 58 (169)
T cd00458 7 FIEDKXEKLLEEKDDMVIGLGTGSTPAYFYKLLGEKLKRGEISDIVGFPTDE 58 (169)
T ss_pred HHHHHHHHHHHhCCCEEEEECCCccHHHHHHHHHhhhhhCCccceEEEECcc
Confidence 3444444444 3457899999999999999997542211234677776666
No 42
>TIGR01584 citF citrate lyase, alpha subunit. This is a model of the alpha subunit of the holoenzyme citrate lyase (EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC 4.1.3.34), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The seed contains an experimentally characterized member from Lactococcus lactis subsp. lactis. The model covers both Gram positive and Gram negative bacteria. It is quite robust with queries scoring either quite well or quite poorly against the model. There are currently no hits in between the noise cutoff and trusted cutoff.
Probab=90.16 E-value=0.61 Score=44.16 Aligned_cols=163 Identities=16% Similarity=0.168 Sum_probs=92.2
Q ss_pred CCCCCCCcCCChHHHHHHHHHHHHhcC------cCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEE------ECCcHH
Q 029100 19 PLSSPPPVILTQDELKKIAAYKAVEFV------ESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVG------IPTSKK 86 (199)
Q Consensus 19 ~~~~~~~~~~~~~e~K~~IA~~Aa~lI------~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltV------vTnSl~ 86 (199)
++.+.|+|+-. .+..++||+.++++| +||.++=++.|.....++++|.++.+.. +++- +|.++-
T Consensus 218 ~i~~g~~r~t~-~p~e~~IA~~vA~lI~~s~~~~DG~tlQ~GiGgip~AV~~~L~~~mkdl---GIht~f~~g~iTd~~v 293 (492)
T TIGR01584 218 KIGSGATRFTK-DPKELLIAKMANDVIVNSGYFKDGFSFQTGTGGAALAVTRFLKEKMIDH---NIKASFGLGGITKQMV 293 (492)
T ss_pred hcccCCCCCCC-CHHHHHHHHHHHHHHhhcCCCCCCCEEEccCCHHHHHHHHHHHHHHHhC---CCcccccCccccHHHH
Confidence 35666677544 445899999999998 8999999999999999999997652110 2222 333221
Q ss_pred HHH-------------------HHHhCCCceEec-----CC-------CccccEEEEccCcccCCCCcc--c-------C
Q 029100 87 THE-------------------QAVSLGIPLSDL-----DS-------YPVVDLAIDGADEVDPFMNLV--K-------G 126 (199)
Q Consensus 87 ~a~-------------------~l~~~g~~v~~l-----~~-------~~~~D~aFig~~gi~~~~~~~--~-------~ 126 (199)
-.. .....+.....+ .+ .-+.|+++.|+-.||..|.+. . +
T Consensus 294 dL~e~G~vt~~~dV~~F~lGs~~~i~~Np~~~~~~a~~y~nP~~~~~i~~~~dvsInsAlEVDl~gqVnv~t~s~G~~~s 373 (492)
T TIGR01584 294 DLHEEGLIDKLFDVQSFDLGAAESIALNPNHQEIDASWYANPANKGAMVNKLDVVILSALEIDTKFNVNVMTGSDGVIRG 373 (492)
T ss_pred HHHHCCCcccceeEEEeecchHHHHhcCCCeEEeccccccCCCchHHHhhCCCeEEEeeEEEecCCeeeEeecCCCeEEe
Confidence 110 000111111110 00 124569999999998765432 1 1
Q ss_pred cchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccceEEecCCHHHHHHHHHhhhhccCCeeEEecc
Q 029100 127 RGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPVEVVPYCWKFTAKRLQDLFEDCGCVAKLRTT 196 (199)
Q Consensus 127 ~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~piev~~~~~~~v~~~l~d~~~~~~~~~~~r~~ 196 (199)
..+-+.. .++ -|+..|+++-+. +++... ..--+-.+....+.|++.+|+- |...-+|+.
T Consensus 374 g~GGq~D--fa~-GA~~SII~~ps~--~Gris~--IV~~v~~VtTpr~~Vd~VVTEy----GIAvnlrg~ 432 (492)
T TIGR01584 374 ASGGHQD--TAA-GAKLSIIVAPLV--RGRIPT--VVEKVTTVITPGESIDVLVTEI----GIAINPKRK 432 (492)
T ss_pred cCchHHH--HHh-hhcceEEEEEcC--CCCcCe--EeCCCCCEECChhhCCEEEccC----EEecCCCCC
Confidence 1122221 222 234456655553 333332 1111123677899999999995 877666653
No 43
>PRK15418 transcriptional regulator LsrR; Provisional
Probab=88.63 E-value=0.66 Score=41.37 Aligned_cols=37 Identities=11% Similarity=0.289 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHhc----CcCCCEEEECcChhHHHHHHHHh
Q 029100 31 DELKKIAAYKAVEF----VESGMVLGLGTGSTAKHAVDRIG 67 (199)
Q Consensus 31 ~e~K~~IA~~Aa~l----I~dgdtIfLdsGTT~~~la~~L~ 67 (199)
++..+.+|+.|++| +++|++|+++-|.|+.++++++.
T Consensus 95 ~~~~~~vg~~aA~~L~~~l~~~~~IGvswG~Tl~~~~~~l~ 135 (318)
T PRK15418 95 ADIGGRLGIGAAHMLMSLLQPQQLLAVGFGEATMNTLQHLS 135 (318)
T ss_pred ccHHHHHHHHHHHHHHHhcCCCCEEEEcchHHHHHHHHhcc
Confidence 44567788888775 57999999999999999999996
No 44
>TIGR01584 citF citrate lyase, alpha subunit. This is a model of the alpha subunit of the holoenzyme citrate lyase (EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC 4.1.3.34), and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The seed contains an experimentally characterized member from Lactococcus lactis subsp. lactis. The model covers both Gram positive and Gram negative bacteria. It is quite robust with queries scoring either quite well or quite poorly against the model. There are currently no hits in between the noise cutoff and trusted cutoff.
Probab=88.09 E-value=1.9 Score=40.92 Aligned_cols=104 Identities=21% Similarity=0.278 Sum_probs=62.4
Q ss_pred CcCCCEEEEC-----cChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHH-HH---hCCC-------------------
Q 029100 45 VESGMVLGLG-----TGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQ-AV---SLGI------------------- 96 (199)
Q Consensus 45 I~dgdtIfLd-----sGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~-l~---~~g~------------------- 96 (199)
++||+||-+- +--..-.+.+.+.+. + ++++|+...|+.-++. +. +.|.
T Consensus 40 l~dgmtisfhhh~r~gd~v~n~v~~~~~~~---g-~k~l~~~~ssl~~~h~~lv~~i~~g~vt~i~~sg~~g~~~~~is~ 115 (492)
T TIGR01584 40 LKDGMTISFHHHFREGDYVVNMVMRIIADM---G-FKDLTLAPSSLTSVHDPLVEHIKKGVVTGITSSGLRGTLGDEISK 115 (492)
T ss_pred CcCCcEEEeeccccCccHHHHHHHHHHHHc---C-cCCcEEecccCcchhHHHHHHHhcCeEEEEEeCCcCchHHHHHhc
Confidence 8999999763 334444555666543 1 3489999999875543 22 2221
Q ss_pred -----ceE---------ec-CCCccccEEEEccCcccCCCCccc--C--cchHHHHHHHHHHhcCcEEEEEeCCC
Q 029100 97 -----PLS---------DL-DSYPVVDLAIDGADEVDPFMNLVK--G--RGGSLLREKMVEGACKKFVVIVDESK 152 (199)
Q Consensus 97 -----~v~---------~l-~~~~~~D~aFig~~gi~~~~~~~~--~--~~~a~ik~~~i~~~a~k~IlLaD~sK 152 (199)
+++ .+ ..+.++|+||+++.-.|..|.+.. + .....-.....+++|+++|+.+|.-=
T Consensus 116 g~l~~p~~~~shggr~r~i~~g~l~iDVAfI~Vsp~D~~Gn~sg~~G~s~~gslgya~~dA~~A~kVIaevn~~v 190 (492)
T TIGR01584 116 GILKKPVIIRSHGGRARAIETGELHIDVAFLGVPCCDEMGNANGMTGKSPCGSLGYAIVDAQYADKVVAITDSLV 190 (492)
T ss_pred CCCCCCeEEecCCcHHHHHhcCCCCCCEEEEeCCCcccCCCCcccCCCcccCccchhHHHHHhCCEEEEEECCCC
Confidence 111 11 145789999999999998876541 1 11111112334556899988888643
No 45
>KOG1465 consensus Translation initiation factor 2B, beta subunit (eIF-2Bbeta/GCD7) [Translation, ribosomal structure and biogenesis]
Probab=84.33 E-value=11 Score=34.04 Aligned_cols=114 Identities=18% Similarity=0.157 Sum_probs=74.6
Q ss_pred HHHHHHHHhcCcCCCEEE-ECcChhHHHHHHHHhchhhcCCCCCEE--E---ECCcH--HHHHHHHhCCCceEecC----
Q 029100 35 KIAAYKAVEFVESGMVLG-LGTGSTAKHAVDRIGELLRQGKLTNIV--G---IPTSK--KTHEQAVSLGIPLSDLD---- 102 (199)
Q Consensus 35 ~~IA~~Aa~lI~dgdtIf-LdsGTT~~~la~~L~~~~~~~~l~~lt--V---vTnSl--~~a~~l~~~g~~v~~l~---- 102 (199)
+.||..|.++|+++++|. ++++-|++.+.++=.++.+ ..+ | ..|.- ..|..+.+.|+++.-+.
T Consensus 150 E~Ia~Qa~ehihsnEviLT~g~SrTV~~FL~~A~kk~R-----kf~viVaE~~p~~qgH~~Ak~la~~giettVI~daaV 224 (353)
T KOG1465|consen 150 ENIAVQAIEHIHSNEVILTLGSSRTVENFLKHAAKKGR-----KFRVIVAEGAPNNQGHELAKPLAQAGIETTVIPDAAV 224 (353)
T ss_pred HhHHHHHHHHhccCceEEecCccHHHHHHHHHHHhccC-----ceEEEEeecCCcccchHhhHHHHHcCCeeEEeccHHH
Confidence 459999999999999886 5677788777776654311 233 2 22332 23445566888743211
Q ss_pred --CCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCC
Q 029100 103 --SYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLV 154 (199)
Q Consensus 103 --~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~ 154 (199)
---++++.+||+.++=.+|++....+ +..-..+..+.+--+|++|..-|+.
T Consensus 225 fA~MsrVnKVIigt~avl~NGgl~~~~G-~~~vAlaAk~h~vPv~VlAp~yKLs 277 (353)
T KOG1465|consen 225 FAMMSRVNKVIIGTHAVLANGGLRAPSG-VHTVALAAKHHSVPVIVLAPMYKLS 277 (353)
T ss_pred HHHhhhcceEEEEeeeEecCCCeeccch-HHHHHHHHHhcCCcEEEecchhhcC
Confidence 11379999999999999988654333 3333233445577899999999984
No 46
>COG0182 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]
Probab=83.39 E-value=15 Score=33.38 Aligned_cols=132 Identities=20% Similarity=0.208 Sum_probs=84.0
Q ss_pred HHHHHHHHHHhcCcCCCEEE--ECcCh-------hHHHHHHHHhchhhcCCCCCEEEEC--------CcHHHHHHHHhCC
Q 029100 33 LKKIAAYKAVEFVESGMVLG--LGTGS-------TAKHAVDRIGELLRQGKLTNIVGIP--------TSKKTHEQAVSLG 95 (199)
Q Consensus 33 ~K~~IA~~Aa~lI~dgdtIf--LdsGT-------T~~~la~~L~~~~~~~~l~~ltVvT--------nSl~~a~~l~~~g 95 (199)
.-++|++.-++++++|++|. .++|+ |++-+++...+. + +++.|+. ++--++.+|.+.|
T Consensus 135 ~n~~iG~~G~~ll~~~~~VLThCNaGaLAt~~~GTAlgviR~a~~~---g--k~i~v~a~ETRP~lQGARLTawEL~~~G 209 (346)
T COG0182 135 ANRAIGENGAELLPDGDTVLTHCNAGALATVGYGTALGVIRSAHEE---G--KDIRVFADETRPYLQGARLTAWELVQDG 209 (346)
T ss_pred HHHHHHHHHHHhhccCCeEEeeecCCceeecCccchHHHHHHHHHC---C--CeeEEEeCCCccccccceeeHHHHhhcC
Confidence 34668999999999999986 34443 345566666432 2 2566655 3444677888888
Q ss_pred CceEec--------CCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCCCCCCCcCCCCcccceE
Q 029100 96 IPLSDL--------DSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDESKLVPHLGGSGLAMPVE 167 (199)
Q Consensus 96 ~~v~~l--------~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~sKf~~~~g~~~~~~pie 167 (199)
+++... .++-.+|..+.|+|-|..+|-+. +--+-....-+..+.--.+++.|..|-|.....- |..+|||
T Consensus 210 IpvtLItD~aag~~M~~g~Id~viVGADRI~~nGdva-NKIGTY~lAvlAk~~gIPFyVaAP~sTiD~~~~~-G~~I~IE 287 (346)
T COG0182 210 IPVTLITDNAAGHLMQQGMIDAVIVGADRIAANGDVA-NKIGTYQLAVLAKHHGIPFYVAAPLSTIDFELKS-GEDIPIE 287 (346)
T ss_pred CceEEEeccHHHHHHHhCCCcEEEEccceeecCCcch-hhhhHHHHHHHHHHcCCCeEEEcccCccccccCC-CCcccee
Confidence 876432 34557999999999999887432 1112222222234456778999999999744332 2478887
Q ss_pred EecC
Q 029100 168 VVPY 171 (199)
Q Consensus 168 v~~~ 171 (199)
-++.
T Consensus 288 ER~p 291 (346)
T COG0182 288 ERDP 291 (346)
T ss_pred ecCH
Confidence 6654
No 47
>PF01144 CoA_trans: Coenzyme A transferase; InterPro: IPR004165 Coenzyme A (CoA) transferases belong to an evolutionary conserved [, ] family of enzymes catalyzing the reversible transfer of CoA from one carboxylic acid to another. They have been identified in many prokaryotes and in mammalian tissues. The bacterial enzymes are heterodimer of two subunits (A and B) of about 25 Kd each while eukaryotic SCOT consist of a single chain which is colinear with the two bacterial subunits.; GO: 0008410 CoA-transferase activity, 0008152 metabolic process; PDB: 3DLX_C 1K6D_A 3OXO_H 1M3E_D 3K6M_C 2NRC_A 1OOY_B 1O9L_C 1OOZ_A 1OPE_B ....
Probab=81.44 E-value=3.1 Score=34.48 Aligned_cols=32 Identities=16% Similarity=0.302 Sum_probs=20.1
Q ss_pred HHHHHHHhcCcCCCEEEEC----cChhHHHHHHHHhc
Q 029100 36 IAAYKAVEFVESGMVLGLG----TGSTAKHAVDRIGE 68 (199)
Q Consensus 36 ~IA~~Aa~lI~dgdtIfLd----sGTT~~~la~~L~~ 68 (199)
.++++++++|+|||+|+++ .| .-..++.+|.+
T Consensus 3 s~~eAva~~I~dG~~v~~GG~~~~~-~P~al~~~l~r 38 (217)
T PF01144_consen 3 SLAEAVARLIRDGDTVAVGGFGSSG-IPMALVRELAR 38 (217)
T ss_dssp HHHHHHTCT--TTEEEEE-SBTTBT-HHHHHHHHHHH
T ss_pred CHHHHHhccCCCCCEEEECCCcccC-cHHHHHHHHHh
Confidence 3555666699999999999 66 33466667754
No 48
>COG0427 ACH1 Acetyl-CoA hydrolase [Energy production and conversion]
Probab=80.13 E-value=4.9 Score=38.18 Aligned_cols=121 Identities=16% Similarity=0.213 Sum_probs=66.9
Q ss_pred CCChHHHHHHH--HHHHHhcCcCCCEEEEC--cChhHHHHHHHHhchhhc-----CCCCCEEEEC-CcHH--HHHHHHhC
Q 029100 27 ILTQDELKKIA--AYKAVEFVESGMVLGLG--TGSTAKHAVDRIGELLRQ-----GKLTNIVGIP-TSKK--THEQAVSL 94 (199)
Q Consensus 27 ~~~~~e~K~~I--A~~Aa~lI~dgdtIfLd--sGTT~~~la~~L~~~~~~-----~~l~~ltVvT-nSl~--~a~~l~~~ 94 (199)
....+..++++ +..|+.+|++|++|++. ++-+-..+-++|.++-+. +++ .++.+| -|.. .-..+.+.
T Consensus 6 ~~~~~~~~k~~~t~~Eaa~~i~~g~~lg~sft~ag~pkalp~aLA~r~~~~~~~~~~l-~i~~~~gas~~~~~~~~~~~a 84 (501)
T COG0427 6 MRLRELYKKKLITPEEAASLIKDGDHLGMSFTGAGEPKALPEALARRAEANHGELKDL-RVLLFTGASIGADEDLKLAEA 84 (501)
T ss_pred hhhHHHhhhhcCCHHHHHHhhcCCCEEeecccCCCCchhhHHHHHHHHHhcccccCce-EEEEEeccccCcchhhhhhcc
Confidence 34445555665 89999999999999998 334455666666553211 122 344433 3333 11112211
Q ss_pred C----------------------CceE---------ecCC-Cc-cccEEEEccCcccCCCCcccCcchHHHHHHHHHHhc
Q 029100 95 G----------------------IPLS---------DLDS-YP-VVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGAC 141 (199)
Q Consensus 95 g----------------------~~v~---------~l~~-~~-~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a 141 (199)
| .... .+.+ .+ .+|+|++-+..++.+|.+..+..-...+. ....|
T Consensus 85 ~~~~~r~p~q~~~~~Rk~iN~g~~~f~d~~ls~~~~~~~~~~~~~iDia~ie~s~i~~~G~~i~g~svg~~~~--~~~~A 162 (501)
T COG0427 85 GEVIRRAPYQVYSPVRKAINEGGVDFVDQHLSEVPQLLRKGFLGDIDIALIEASAIDEHGYIIPGTSVGNSKS--WAEGA 162 (501)
T ss_pred cchhhhCccccCHHHHHHHhccCcchhhhhHhhhhHhhcccccCCCcEEEEEeccccCCceEeeccccCCcHH--HHhhc
Confidence 1 0000 0111 22 38999999999999876654433333332 33457
Q ss_pred CcEEEEEeC
Q 029100 142 KKFVVIVDE 150 (199)
Q Consensus 142 ~k~IlLaD~ 150 (199)
+|+|+-+..
T Consensus 163 ~kVIveVN~ 171 (501)
T COG0427 163 EKVIVEVNK 171 (501)
T ss_pred cEEEEEhhc
Confidence 888776543
No 49
>TIGR01110 mdcA malonate decarboxylase, alpha subunit. This model describes malonate decarboxylase alpha subunit, from both the water-soluble form as found in Klebsiella pneumoniae and the form couple to sodium ion pumping in Malonomonas rubra. Malonate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases. Essentially, it couples the energy derived from decarboxylation of a carboxylic acid substrate to move Na+ ion across the bilayer. Functional malonate decarboylase is a multi subunit protein. The alpha subunit enzymatically performs the transfer of malonate (substrate) to an acyl carrier protein subunit for subsequent decarboxylation, hence the name: acetyl-S-acyl carrier protein:malonate carrier protein-SH transferase.
Probab=73.21 E-value=30 Score=33.36 Aligned_cols=91 Identities=15% Similarity=0.085 Sum_probs=52.4
Q ss_pred HHHHHHHHhcCcCCCEEEECcChh--HHHHHHHHhchhhcCCCCCEEEECCcHH--HHHHHHhCCC--------------
Q 029100 35 KIAAYKAVEFVESGMVLGLGTGST--AKHAVDRIGELLRQGKLTNIVGIPTSKK--THEQAVSLGI-------------- 96 (199)
Q Consensus 35 ~~IA~~Aa~lI~dgdtIfLdsGTT--~~~la~~L~~~~~~~~l~~ltVvTnSl~--~a~~l~~~g~-------------- 96 (199)
+.+......+|+|||+|.|.+-+. ...+++.|.+.. ...+.++++|-.++. ....+...|+
T Consensus 28 ~~~~~~l~~~i~~Gdrv~leg~~q~~a~~l~~~l~~~~-~~~~~dLh~v~~~~~~~~~~~l~~~G~a~kl~fs~~g~~~~ 106 (543)
T TIGR01110 28 QNGVELLEAVIAPGDRVVLEGNNQKQADFLSRCLASCD-PEKINDLHMVQSSVPLPEHLDLFEKGIARKLDFSFAGPQSL 106 (543)
T ss_pred HHHHHHHHHhCCCCCEEEECCccccchHHHHhhHHhhC-ccccCCcEEEEecCCchhHHHHHhcCceeeEEEeecCcchH
Confidence 345566678999999999987632 334444332211 112236777665333 3333333332
Q ss_pred -----------ceEe----------cCCCccccEEEEccCcccCCCCcccC
Q 029100 97 -----------PLSD----------LDSYPVVDLAIDGADEVDPFMNLVKG 126 (199)
Q Consensus 97 -----------~v~~----------l~~~~~~D~aFig~~gi~~~~~~~~~ 126 (199)
.+.. +.....+|++++-++-.|.+|++..+
T Consensus 107 R~~~av~~G~id~iPih~~lse~pRlf~~L~pDVALI~aSpAD~~GN~slG 157 (543)
T TIGR01110 107 RIAQLLEDGKLEIGAIHTYLELYSRYFVDLTPNVSLIAAYEADRDGNLYTG 157 (543)
T ss_pred HHHHHHHcCCeeEeehhchHhhhhhhhhccCCcEEEEECCcCCCCCeEEec
Confidence 1111 11245799999999999998877543
No 50
>COG4670 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]
Probab=66.77 E-value=58 Score=31.17 Aligned_cols=49 Identities=18% Similarity=0.302 Sum_probs=31.6
Q ss_pred HHHHHHHHHhcCcCCCEEEECcChh---HHHHHHHHhchh-hcCCCCCEEEEC
Q 029100 34 KKIAAYKAVEFVESGMVLGLGTGST---AKHAVDRIGELL-RQGKLTNIVGIP 82 (199)
Q Consensus 34 K~~IA~~Aa~lI~dgdtIfLdsGTT---~~~la~~L~~~~-~~~~l~~ltVvT 82 (199)
|..=|..|+.+|+||++|.+.+-.- -.++.+.|.++. .++-.+++|++-
T Consensus 4 K~isa~ea~~~I~DG~~vavsgf~~a~~Pe~ll~al~~r~~~tghPr~Lt~i~ 56 (527)
T COG4670 4 KVISAQEAAALIKDGATVAVSGFNGAGCPEELLKALGERYLETGHPRDLTFIS 56 (527)
T ss_pred ccccHHHHHhhCCCCCEEEeccccccCCHHHHHHHHHHHHHhhCCCCceEEEc
Confidence 4555889999999999999986543 345666665442 222223566553
No 51
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=64.80 E-value=1.5 Score=30.65 Aligned_cols=28 Identities=21% Similarity=0.152 Sum_probs=23.9
Q ss_pred HHHHHHHHHhcCcCCCEEEECcChhHHH
Q 029100 34 KKIAAYKAVEFVESGMVLGLGTGSTAKH 61 (199)
Q Consensus 34 K~~IA~~Aa~lI~dgdtIfLdsGTT~~~ 61 (199)
+|.+-+.+-+||.+|-..|--+|||+++
T Consensus 34 ~R~vKKi~~~LV~Eg~l~yWSSGSTTmY 61 (67)
T PF08679_consen 34 PREVKKIVNELVNEGKLEYWSSGSTTMY 61 (67)
T ss_dssp HHHHHHHHHHHHHTTSEEEEEETTEEEE
T ss_pred HHHHHHHHHHHHhhCeEEEEcCCCcEEe
Confidence 5667777778999999999999999864
No 52
>TIGR03458 YgfH_subfam succinate CoA transferases. A closely related clade not included in this family are the Ach1p proteins of fungi which are acetyl-CoA hydrolases. This name has been applied to many of the proteins detected by this model, possibly erroneously.
Probab=63.11 E-value=15 Score=34.84 Aligned_cols=50 Identities=24% Similarity=0.432 Sum_probs=39.0
Q ss_pred CCCCCCCCcCCChHHHHHHHHHHHHhcCc----CC------CEEEECcChhHHHHHHHHhch
Q 029100 18 SPLSSPPPVILTQDELKKIAAYKAVEFVE----SG------MVLGLGTGSTAKHAVDRIGEL 69 (199)
Q Consensus 18 ~~~~~~~~~~~~~~e~K~~IA~~Aa~lI~----dg------dtIfLdsGTT~~~la~~L~~~ 69 (199)
.|+...|+... .+.-++||+.++++|. || +||=++-|..--.++..|.++
T Consensus 211 ~pl~~~~~~~~--~~~~~~Ia~~va~~i~~~~~dG~~~~~~~tlQ~GiG~ipnAv~~~L~~~ 270 (485)
T TIGR03458 211 APDRNSPFTPP--DEVSQKIAGHLIDFLDHEVKAGRLPKNLLPLQSGVGNIANAVLAGLGDS 270 (485)
T ss_pred CCCccCCCCCc--CHHHHHHHHHHHHHHHHHHhcCCCCCCCCceeecCChHHHHHHHHHhcC
Confidence 34444444332 4556899999999976 88 999999999999999999754
No 53
>PF04223 CitF: Citrate lyase, alpha subunit (CitF); InterPro: IPR006472 These sequences, from both Gram-positive and Gram-negative bacteria, represent the alpha subunit of the holoenzyme citrate lyase composed of alpha (2.8.3.10 from EC), beta, and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The protein from Lactococcus lactis subsp. lactis (Streptococcus lactis) has been experimentally characterised [].; GO: 0008814 citrate CoA-transferase activity, 0006084 acetyl-CoA metabolic process, 0005737 cytoplasm, 0009346 citrate lyase complex; PDB: 2HJ0_B 1XR4_B.
Probab=62.26 E-value=36 Score=32.07 Aligned_cols=44 Identities=25% Similarity=0.280 Sum_probs=26.3
Q ss_pred CCccccEEEEccCcccCCCCccc-------C-cchHHHHHHHHHHhcCcEEEEEeC
Q 029100 103 SYPVVDLAIDGADEVDPFMNLVK-------G-RGGSLLREKMVEGACKKFVVIVDE 150 (199)
Q Consensus 103 ~~~~~D~aFig~~gi~~~~~~~~-------~-~~~a~ik~~~i~~~a~k~IlLaD~ 150 (199)
-+.++|+||+|+...|.-|++.- + .+-+... ++.|+++|++.|+
T Consensus 114 Ge~~IDVAFi~AP~~D~~GN~nG~~G~saCGsLGYa~~D----A~yA~~VV~iTD~ 165 (466)
T PF04223_consen 114 GELHIDVAFIAAPSCDEYGNANGVGGKSACGSLGYAMVD----AQYADKVVAITDN 165 (466)
T ss_dssp TSS--SEEEEEESEEETTS-EESSSSSS--S--CCHHHH----HHH-SEEEEEESS
T ss_pred CCcceEEEEEcCCccccccCcCCCcCCccccccccchhh----HHhcCcEEEEecC
Confidence 35899999999999987554321 1 1223332 3458999999986
No 54
>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....
Probab=58.99 E-value=34 Score=24.70 Aligned_cols=45 Identities=18% Similarity=0.247 Sum_probs=36.6
Q ss_pred EEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceE
Q 029100 50 VLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLS 99 (199)
Q Consensus 50 tIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~ 99 (199)
+|.+|.|.....+++.|.+.. .+++++..+......+...|..++
T Consensus 1 vvI~G~g~~~~~i~~~L~~~~-----~~vvvid~d~~~~~~~~~~~~~~i 45 (116)
T PF02254_consen 1 VVIIGYGRIGREIAEQLKEGG-----IDVVVIDRDPERVEELREEGVEVI 45 (116)
T ss_dssp EEEES-SHHHHHHHHHHHHTT-----SEEEEEESSHHHHHHHHHTTSEEE
T ss_pred eEEEcCCHHHHHHHHHHHhCC-----CEEEEEECCcHHHHHHHhcccccc
Confidence 578999999999999997641 269999999999888887886655
No 55
>PF04223 CitF: Citrate lyase, alpha subunit (CitF); InterPro: IPR006472 These sequences, from both Gram-positive and Gram-negative bacteria, represent the alpha subunit of the holoenzyme citrate lyase composed of alpha (2.8.3.10 from EC), beta, and acyl carrier protein subunits in a stoichiometric relationship of 6:6:6. Citrate lyase is an enzyme which converts citrate to oxaloacetate. In bacteria, this reaction is involved in citrate fermentation. The alpha subunit catalyzes the reaction Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The protein from Lactococcus lactis subsp. lactis (Streptococcus lactis) has been experimentally characterised [].; GO: 0008814 citrate CoA-transferase activity, 0006084 acetyl-CoA metabolic process, 0005737 cytoplasm, 0009346 citrate lyase complex; PDB: 2HJ0_B 1XR4_B.
Probab=57.88 E-value=77 Score=29.95 Aligned_cols=97 Identities=19% Similarity=0.223 Sum_probs=51.5
Q ss_pred CcCCChHHHHHHHHHHHHh------cCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCC--
Q 029100 25 PVILTQDELKKIAAYKAVE------FVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGI-- 96 (199)
Q Consensus 25 ~~~~~~~e~K~~IA~~Aa~------lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~-- 96 (199)
+|+-... ..-.||+.|++ |++||-+.=-++|-+.+.++++|.+..+..+++.-..+.+--...-.+.+.|+
T Consensus 201 tr~T~~P-~~L~IA~~aa~vI~asg~~kdGFSfQtGaGGaSLAv~~~l~~~M~~~~Ik~sFa~GGIT~~~v~mleeGL~~ 279 (466)
T PF04223_consen 201 TRITKDP-RELLIAEYAAKVIEASGYFKDGFSFQTGAGGASLAVARFLREKMREKGIKGSFALGGITGYMVDMLEEGLFR 279 (466)
T ss_dssp ------H-HHHHHHHHHHHHHHCTTT-STTEEEE--SSHHHHHHHHHHHHHHHHTT--EEEEECEE-HHHHHHHHTTSEC
T ss_pred ccccCCh-HHHHHHHHHHHHHHhCcceecCceEEcCCchHHHHHHHHHHHHHHHcCcEEEEECCcccHHHHHHHHcccch
Confidence 4443333 36789998887 57999999999999999999999876433333222233333333334444553
Q ss_pred ce---Eec--------------------------C---CCccccEEEEccCcccCCCC
Q 029100 97 PL---SDL--------------------------D---SYPVVDLAIDGADEVDPFMN 122 (199)
Q Consensus 97 ~v---~~l--------------------------~---~~~~~D~aFig~~gi~~~~~ 122 (199)
.+ ..+ . ---+.|..++|+..||.+++
T Consensus 280 ~l~DvQ~FDl~Av~S~~~np~H~eisas~YAnP~nkg~~vn~LD~viLgAlEvD~dFN 337 (466)
T PF04223_consen 280 KLLDVQCFDLDAVESIRENPNHQEISASEYANPHNKGAVVNQLDVVILGALEVDTDFN 337 (466)
T ss_dssp EEEECEESSHHHHHHHHHTTTEEE--HHHHC-TTSS--GGGG-SEEEE--SEEETT--
T ss_pred hheecccCCHHHHHHHHhCCCcEEEcHHHhcCCCCCCcccccccEEEEeeeeeccccc
Confidence 11 111 0 11369999999999997654
No 56
>PF01488 Shikimate_DH: Shikimate / quinate 5-dehydrogenase; InterPro: IPR006151 This entry represents a domain found in shikimate and quinate dehydrogenases, as well as glutamyl-tRNA reductases. Shikimate 5-dehydrogenase (1.1.1.25 from EC) catalyses the conversion of shikimate to 5-dehydroshikimate [, ]. This reaction is part of the shikimate pathway which is involved in the biosynthesis of aromatic amino acids []. Quinate 5-dehydrogenase catalyses the conversion of quinate to 5-dehydroquinate. This reaction is part of the quinate pathway where quinic acid is exploited as a source of carbon in prokaryotes and microbial eukaryotes. Both the shikimate and quinate pathways share two common pathway metabolites, 3-dehydroquinate and dehydroshikimate. Glutamyl-tRNA reductase (1.2.1.70 from EC) catalyzes the first step of tetrapyrrole biosynthesis in plants, archaea and most bacteria. The dimeric enzyme has an unusual V-shaped architecture where each monomer consists of three domains linked by a long 'spinal' alpha-helix. The central catalytic domain specifically recognises the glutamate moiety of the substrate []. ; PDB: 2EV9_B 2CY0_B 1WXD_A 2D5C_A 1NVT_B 2EGG_A 3PWZ_A 3DOO_A 3DON_A 3FBT_C ....
Probab=54.45 E-value=33 Score=26.23 Aligned_cols=74 Identities=19% Similarity=0.239 Sum_probs=51.0
Q ss_pred HHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHh-C---CCceEecCCC----cccc
Q 029100 37 AAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVS-L---GIPLSDLDSY----PVVD 108 (199)
Q Consensus 37 IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~-~---g~~v~~l~~~----~~~D 108 (199)
+|++...-++...++.||+|-+...++.+|.+.. ..+++++.-+..-+..+.+ . .+....+.+. ..+|
T Consensus 2 la~~~~~~l~~~~vlviGaGg~ar~v~~~L~~~g----~~~i~i~nRt~~ra~~l~~~~~~~~~~~~~~~~~~~~~~~~D 77 (135)
T PF01488_consen 2 LAKKKFGDLKGKRVLVIGAGGAARAVAAALAALG----AKEITIVNRTPERAEALAEEFGGVNIEAIPLEDLEEALQEAD 77 (135)
T ss_dssp HHCTHHSTGTTSEEEEESSSHHHHHHHHHHHHTT----SSEEEEEESSHHHHHHHHHHHTGCSEEEEEGGGHCHHHHTES
T ss_pred hhHHhcCCcCCCEEEEECCHHHHHHHHHHHHHcC----CCEEEEEECCHHHHHHHHHHcCccccceeeHHHHHHHHhhCC
Confidence 5667777789999999999999999999997641 2369999999887665532 2 3345554322 1577
Q ss_pred EEEEcc
Q 029100 109 LAIDGA 114 (199)
Q Consensus 109 ~aFig~ 114 (199)
+.|-.+
T Consensus 78 ivI~aT 83 (135)
T PF01488_consen 78 IVINAT 83 (135)
T ss_dssp EEEE-S
T ss_pred eEEEec
Confidence 655443
No 57
>COG0373 HemA Glutamyl-tRNA reductase [Coenzyme metabolism]
Probab=54.00 E-value=1.7e+02 Score=27.31 Aligned_cols=83 Identities=17% Similarity=0.194 Sum_probs=60.2
Q ss_pred HHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHH-HhCCCceEecCC----Cccc
Q 029100 33 LKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQA-VSLGIPLSDLDS----YPVV 107 (199)
Q Consensus 33 ~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l-~~~g~~v~~l~~----~~~~ 107 (199)
.--.+|+....-+++-.+++||+|-+...+|++|.... ..+++|+--...-|..+ .+.|..+..+.+ --.+
T Consensus 164 aAv~lA~~~~~~L~~~~vlvIGAGem~~lva~~L~~~g----~~~i~IaNRT~erA~~La~~~~~~~~~l~el~~~l~~~ 239 (414)
T COG0373 164 AAVELAKRIFGSLKDKKVLVIGAGEMGELVAKHLAEKG----VKKITIANRTLERAEELAKKLGAEAVALEELLEALAEA 239 (414)
T ss_pred HHHHHHHHHhcccccCeEEEEcccHHHHHHHHHHHhCC----CCEEEEEcCCHHHHHHHHHHhCCeeecHHHHHHhhhhC
Confidence 34566777777778888999999999999999997541 23789999898877755 446755554431 1268
Q ss_pred cEEEEccCcccC
Q 029100 108 DLAIDGADEVDP 119 (199)
Q Consensus 108 D~aFig~~gi~~ 119 (199)
|+.|.++++-.+
T Consensus 240 DvVissTsa~~~ 251 (414)
T COG0373 240 DVVISSTSAPHP 251 (414)
T ss_pred CEEEEecCCCcc
Confidence 999888776543
No 58
>cd01399 GlcN6P_deaminase GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or deamination. It is the last step of the metabolic pathway of N-acetyl-D-glucosamine-6-phosphate (GlcNAc6P). GlcN6P deaminase is a hexameric enzyme that is allosterically activated by GlcNAc6P.
Probab=48.72 E-value=21 Score=29.40 Aligned_cols=35 Identities=37% Similarity=0.418 Sum_probs=28.5
Q ss_pred HHHHHHHHhcCcC--CCEEEECcChhHHHHHHHHhch
Q 029100 35 KIAAYKAVEFVES--GMVLGLGTGSTAKHAVDRIGEL 69 (199)
Q Consensus 35 ~~IA~~Aa~lI~d--gdtIfLdsGTT~~~la~~L~~~ 69 (199)
+.+|+...+.|++ +.+|.|-.|+|...+.+.|...
T Consensus 5 ~~~a~~l~~~i~~~~~~~i~lsgG~T~~~~~~~l~~~ 41 (232)
T cd01399 5 EAAAELIAELIREKPPAVLGLATGSTPLGVYEELIEL 41 (232)
T ss_pred HHHHHHHHHHHHhCCCcEEEEcCCCCHHHHHHHHHHH
Confidence 4566666667777 7899999999999999999643
No 59
>PRK00443 nagB glucosamine-6-phosphate deaminase; Provisional
Probab=46.81 E-value=31 Score=29.10 Aligned_cols=22 Identities=36% Similarity=0.471 Sum_probs=20.0
Q ss_pred CCCEEEECcChhHHHHHHHHhc
Q 029100 47 SGMVLGLGTGSTAKHAVDRIGE 68 (199)
Q Consensus 47 dgdtIfLdsGTT~~~la~~L~~ 68 (199)
++.+|+|..|+|...+.+.|.+
T Consensus 33 ~~~~iglsgG~T~~~~~~~L~~ 54 (261)
T PRK00443 33 RPFVLGLATGSSPLETYKALIE 54 (261)
T ss_pred CceEEEecCCCCHHHHHHHHHH
Confidence 6788999999999999999984
No 60
>KOG2828 consensus Acetyl-CoA hydrolase [Energy production and conversion]
Probab=46.01 E-value=39 Score=31.48 Aligned_cols=111 Identities=17% Similarity=0.114 Sum_probs=66.1
Q ss_pred HHHHhcCcCCCEEEECc-ChhHHHHHHHHhchhhcCCCCCEEEECCcHHH---H---H--HHHhCC----------Cce-
Q 029100 39 YKAVEFVESGMVLGLGT-GSTAKHAVDRIGELLRQGKLTNIVGIPTSKKT---H---E--QAVSLG----------IPL- 98 (199)
Q Consensus 39 ~~Aa~lI~dgdtIfLds-GTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~---a---~--~l~~~g----------~~v- 98 (199)
.+|..+|+-++.+|++. -+|-..|++++.++...++|..++++.-+..- + + ..++.. ++.
T Consensus 30 ~ea~~~vks~~f~~vg~~aa~PnaLl~a~~~~~~s~nLn~~~~~h~~~~g~e~~~pe~~~~iq~ns~fvg~~irK~Vn~G 109 (454)
T KOG2828|consen 30 FEAGAYVKSSGFTGVGGPAATPNALLEAVEKNNLSGNLNFILFVHASLGGEENAWPEYDMIIQRNSHFVGKPIRKAVNLG 109 (454)
T ss_pred hhcccccccCCceeecccccCcHHHHHHHHHhccccccceeEEeeeccCCccccChhhhhhhhcCccccCcchHHHhhcC
Confidence 35677888888888875 45667889999765444666445555433322 1 0 111110 000
Q ss_pred -E-------------ecCCCccccEEEEccCcccCCCCcccCcchHHHHHHHHHHhcCcEEEEEeCC
Q 029100 99 -S-------------DLDSYPVVDLAIDGADEVDPFMNLVKGRGGSLLREKMVEGACKKFVVIVDES 151 (199)
Q Consensus 99 -~-------------~l~~~~~~D~aFig~~gi~~~~~~~~~~~~a~ik~~~i~~~a~k~IlLaD~s 151 (199)
. -+-..+.+|.+||-++..+++|.++.+-.-... .+++. .|+++|..+...
T Consensus 110 radf~pifLsevP~l~t~G~~~~d~alI~vSppde~Gfc~lG~sVdts-~aa~t-~skkIIa~VNt~ 174 (454)
T KOG2828|consen 110 RADFFPIFLSEVPQLLTYGTYTLDFALIEVSPPDEDGFCVLGTSVDTS-PAAAT-NSKKIIAEVNTA 174 (454)
T ss_pred ccccchhHHHhchHHHhcceeeceeEEEEecCCccCCceeccCCccch-HHHHh-ccchheehhccC
Confidence 0 012356899999999999999887765432222 34443 578887776643
No 61
>TIGR01110 mdcA malonate decarboxylase, alpha subunit. This model describes malonate decarboxylase alpha subunit, from both the water-soluble form as found in Klebsiella pneumoniae and the form couple to sodium ion pumping in Malonomonas rubra. Malonate decarboxylase Na+ pump is the paradigm of the family of Na+ transport decarboxylases. Essentially, it couples the energy derived from decarboxylation of a carboxylic acid substrate to move Na+ ion across the bilayer. Functional malonate decarboylase is a multi subunit protein. The alpha subunit enzymatically performs the transfer of malonate (substrate) to an acyl carrier protein subunit for subsequent decarboxylation, hence the name: acetyl-S-acyl carrier protein:malonate carrier protein-SH transferase.
Probab=43.12 E-value=55 Score=31.60 Aligned_cols=49 Identities=16% Similarity=0.174 Sum_probs=40.0
Q ss_pred CCCCCCCcCCChHHHHHHHHHHHHhcCcCCC---EEEECcChhHHHHHHHHhch
Q 029100 19 PLSSPPPVILTQDELKKIAAYKAVEFVESGM---VLGLGTGSTAKHAVDRIGEL 69 (199)
Q Consensus 19 ~~~~~~~~~~~~~e~K~~IA~~Aa~lI~dgd---tIfLdsGTT~~~la~~L~~~ 69 (199)
|+...|+ ....+..+.||..++++|.||. ++=++-|.-...+...|+.+
T Consensus 212 pL~e~D~--a~ise~~~~ia~~v~~~I~dg~~v~tLq~GIG~~p~AI~~~L~~~ 263 (543)
T TIGR01110 212 PLFTRDP--ANITDVQVLMAMMAIKGIYAEYQVQRLNHGIGFNTAAIELLLPTY 263 (543)
T ss_pred cccCCCc--ccCCHHHHHHHHHHHhhCcCCCcCceeeeccCcCHHHHHHHhccc
Confidence 4544444 3345567899999999999999 99999999999999999765
No 62
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=41.41 E-value=23 Score=23.57 Aligned_cols=25 Identities=24% Similarity=0.230 Sum_probs=22.5
Q ss_pred CcCCCEEEECcChhHHHHHHHHhch
Q 029100 45 VESGMVLGLGTGSTAKHAVDRIGEL 69 (199)
Q Consensus 45 I~dgdtIfLdsGTT~~~la~~L~~~ 69 (199)
..||+..-+..|+|+..+|+.+...
T Consensus 5 lpdG~~~~~~~g~T~~d~A~~I~~~ 29 (60)
T PF02824_consen 5 LPDGSIKELPEGSTVLDVAYSIHSS 29 (60)
T ss_dssp ETTSCEEEEETTBBHHHHHHHHSHH
T ss_pred CCCCCeeeCCCCCCHHHHHHHHCHH
Confidence 4789999999999999999999754
No 63
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=35.32 E-value=63 Score=21.97 Aligned_cols=32 Identities=22% Similarity=0.294 Sum_probs=25.1
Q ss_pred EEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHH
Q 029100 50 VLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKK 86 (199)
Q Consensus 50 tIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~ 86 (199)
++++++|-+-.++|.+|.+.- .++|++..+..
T Consensus 2 vvViGgG~ig~E~A~~l~~~g-----~~vtli~~~~~ 33 (80)
T PF00070_consen 2 VVVIGGGFIGIELAEALAELG-----KEVTLIERSDR 33 (80)
T ss_dssp EEEESSSHHHHHHHHHHHHTT-----SEEEEEESSSS
T ss_pred EEEECcCHHHHHHHHHHHHhC-----cEEEEEeccch
Confidence 688999999999999997642 26888876543
No 64
>COG3051 CitF Citrate lyase, alpha subunit [Energy production and conversion]
Probab=35.09 E-value=19 Score=33.47 Aligned_cols=97 Identities=23% Similarity=0.409 Sum_probs=57.8
Q ss_pred CcCCCEEEE-----CcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHH-H---HhCCC-------------------
Q 029100 45 VESGMVLGL-----GTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQ-A---VSLGI------------------- 96 (199)
Q Consensus 45 I~dgdtIfL-----dsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~-l---~~~g~------------------- 96 (199)
++||+||-+ ++-.++-.+.+.+.+. + ++++|+-+.|+.-.+. + .+.|+
T Consensus 62 lkdGMTiSFHH~fR~GD~vvN~Vm~~Ia~m---G-fKnLtlA~SSl~~~h~pliehIknGVVt~I~sSGlRg~lg~~IS~ 137 (513)
T COG3051 62 LKDGMTISFHHAFRGGDLVVNMVMDVIAKM---G-FKNLTLASSSLSDCHAPLVEHIKNGVVTRIYSSGLRGPLGEEISR 137 (513)
T ss_pred ccCCeEEEeeehhcCCceeHHHHHHHHHHh---C-ccceeeccchhhhhhHHHHHHHhcCEeeeEeeccccchHHHHHhh
Confidence 899999965 4556666666666654 1 3488998888875432 2 11221
Q ss_pred -----c-----------eEecCCCccccEEEEccCcccCCCC---cc-c---C-cchHHHHHHHHHHhcCcEEEEEeC
Q 029100 97 -----P-----------LSDLDSYPVVDLAIDGADEVDPFMN---LV-K---G-RGGSLLREKMVEGACKKFVVIVDE 150 (199)
Q Consensus 97 -----~-----------v~~l~~~~~~D~aFig~~gi~~~~~---~~-~---~-~~~a~ik~~~i~~~a~k~IlLaD~ 150 (199)
+ ++. .-+.|+|+||+|+-.+|+-|+ ++ + + .+-|.+. ++.|+++++|.|.
T Consensus 138 Gll~~PV~i~SHGGRv~~i~-sGel~IDvAFlgvP~cDe~GNaNG~~GKa~cGSlGYA~vD----A~yAd~VV~lTe~ 210 (513)
T COG3051 138 GLLAEPVQIHSHGGRVHLVQ-SGELHIDVAFLGVPSCDEFGNANGFTGKACCGSLGYAMVD----AQYADQVVMLTEE 210 (513)
T ss_pred hHhhCCeEEeccCceEEEee-cCceeEEEEEecCCChhhhcCcCCCcCccccccccceeec----hhhcceEEEehhh
Confidence 0 111 135899999999887775322 11 1 1 2222222 4568888888775
No 65
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=34.86 E-value=42 Score=24.93 Aligned_cols=50 Identities=22% Similarity=0.215 Sum_probs=34.1
Q ss_pred HHHHHHHhcCcCC----CEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHH
Q 029100 36 IAAYKAVEFVESG----MVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAV 92 (199)
Q Consensus 36 ~IA~~Aa~lI~dg----dtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~ 92 (199)
+||..|+++-++- -+++=.+|.|...++++=+.. .+.++|++..++..+.
T Consensus 3 aia~aa~~~A~~~~ak~Ivv~T~sG~ta~~isk~RP~~-------pIiavt~~~~~~r~l~ 56 (117)
T PF02887_consen 3 AIARAAVELAEDLNAKAIVVFTESGRTARLISKYRPKV-------PIIAVTPNESVARQLS 56 (117)
T ss_dssp HHHHHHHHHHHHHTESEEEEE-SSSHHHHHHHHT-TSS-------EEEEEESSHHHHHHGG
T ss_pred HHHHHHHHHHHhcCCCEEEEECCCchHHHHHHhhCCCC-------eEEEEcCcHHHHhhhh
Confidence 4555555544332 345667888998888877654 6999999999988765
No 66
>cd00423 Pterin_binding Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and protein biosynthesis. Prokaryotes (and some lower eukaryotes) must synthesize folate de novo, while higher eukaryotes are able to utilize dietary folate and therefore lack DHPS. Sulfonamide drugs, which are substrate analogs of pABA, target DHPS. Cobalamin-dependent methyltransferases catalyze the transfer of a methyl group via a methyl- cob(III)amide intermediate. These include MeTr, a functional heterodimer, and the folate binding domain of MetH.
Probab=28.86 E-value=2.9e+02 Score=23.49 Aligned_cols=61 Identities=20% Similarity=0.186 Sum_probs=43.3
Q ss_pred HHHHHHHHhcCcCC-CEEEECcChh---------------HHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCce
Q 029100 35 KIAAYKAVEFVESG-MVLGLGTGST---------------AKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPL 98 (199)
Q Consensus 35 ~~IA~~Aa~lI~dg-dtIfLdsGTT---------------~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v 98 (199)
+.+.+.|.+++++| |.|=+++++| ...+++.|.+. .+. .+.|=|.+..++..+.+.|..+
T Consensus 24 ~~~~~~a~~~~~~GAdiIDvG~~st~p~~~~~~~~~E~~rl~~~v~~l~~~---~~~-piSIDT~~~~v~~aaL~~g~~i 99 (258)
T cd00423 24 DKALEHARRMVEEGADIIDIGGESTRPGAEPVSVEEELERVIPVLRALAGE---PDV-PISVDTFNAEVAEAALKAGADI 99 (258)
T ss_pred HHHHHHHHHHHHCCCCEEEECCCcCCCCCCcCCHHHHHHHHHHHHHHHHhc---CCC-eEEEeCCcHHHHHHHHHhCCCE
Confidence 56778899999998 8888999998 33444444321 122 5888899999888777677554
Q ss_pred E
Q 029100 99 S 99 (199)
Q Consensus 99 ~ 99 (199)
+
T Consensus 100 I 100 (258)
T cd00423 100 I 100 (258)
T ss_pred E
Confidence 4
No 67
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=25.77 E-value=1.7e+02 Score=22.24 Aligned_cols=56 Identities=9% Similarity=0.070 Sum_probs=27.0
Q ss_pred HHHHHHHHHhc-CcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHH
Q 029100 34 KKIAAYKAVEF-VESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHE 89 (199)
Q Consensus 34 K~~IA~~Aa~l-I~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~ 89 (199)
-+.+++.+.+. |.+..++.-+.+++|.+=+.++.+..+...++++.+||+......
T Consensus 56 a~~~~~~l~~~gvp~~~I~~e~~s~~T~ena~~~~~~~~~~~~~~iilVT~~~H~~R 112 (155)
T PF02698_consen 56 AEAMRDYLIELGVPEERIILEPKSTNTYENARFSKRLLKERGWQSIILVTSPYHMRR 112 (155)
T ss_dssp HHHHHHHHHHT---GGGEEEE----SHHHHHHHHHHHHHT-SSS-EEEE--CCCHHH
T ss_pred HHHHHHHHHhcccchheeEccCCCCCHHHHHHHHHHHHHhhcCCeEEEECCHHHHHH
Confidence 44555555555 666677777777777766666654432222346778887776543
No 68
>PRK10669 putative cation:proton antiport protein; Provisional
Probab=25.14 E-value=2.1e+02 Score=27.20 Aligned_cols=49 Identities=18% Similarity=0.118 Sum_probs=40.5
Q ss_pred CCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceEe
Q 029100 47 SGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSD 100 (199)
Q Consensus 47 dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~~ 100 (199)
++.+|.+|.|..-..+++.|.++. .+++++-++......+++.|.+++.
T Consensus 417 ~~hiiI~G~G~~G~~la~~L~~~g-----~~vvvId~d~~~~~~~~~~g~~~i~ 465 (558)
T PRK10669 417 CNHALLVGYGRVGSLLGEKLLAAG-----IPLVVIETSRTRVDELRERGIRAVL 465 (558)
T ss_pred CCCEEEECCChHHHHHHHHHHHCC-----CCEEEEECCHHHHHHHHHCCCeEEE
Confidence 488999999999999999997541 2799999999888888877776653
No 69
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=25.06 E-value=1.2e+02 Score=24.67 Aligned_cols=80 Identities=14% Similarity=-0.006 Sum_probs=54.1
Q ss_pred cCCCCCCCCCCcCCChHHHHHHHHHHHHhcCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhC
Q 029100 15 TGLSPLSSPPPVILTQDELKKIAAYKAVEFVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSL 94 (199)
Q Consensus 15 ~~~~~~~~~~~~~~~~~e~K~~IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~ 94 (199)
-|..+..-|.-++........ ......+.+.|.|.+-++..+..+.+++.+.. ...+.+..++.-...++..+.+.
T Consensus 23 ~G~~v~~~p~~~~~~~~~~~~---~~~~~~~~~~d~iiftS~~av~~~~~~~~~~~-~~~~~~~~~~avG~~Ta~~l~~~ 98 (249)
T PRK05928 23 LGFVALHFPLIEIEPGRQLPQ---LAAQLAALGADWVIFTSKNAVEFLLSALKKKK-LKWPKNKKYAAIGEKTALALKKL 98 (249)
T ss_pred cCCCEEEeccEEEecCCCcCh---HHHHhhCCCCCEEEEECHHHHHHHHHHHHhcC-cCCCCCCEEEEECHHHHHHHHHc
Confidence 477777777666544333222 45556788899999999999999999986210 01112567777777788888877
Q ss_pred CCce
Q 029100 95 GIPL 98 (199)
Q Consensus 95 g~~v 98 (199)
|+..
T Consensus 99 G~~~ 102 (249)
T PRK05928 99 GGKV 102 (249)
T ss_pred CCCc
Confidence 7654
No 70
>PRK10646 ADP-binding protein; Provisional
Probab=24.18 E-value=94 Score=24.91 Aligned_cols=39 Identities=15% Similarity=0.147 Sum_probs=29.5
Q ss_pred CCChHHHHHHHHHHHHhcCcCCCEEEE----CcChhHHHHHHHHh
Q 029100 27 ILTQDELKKIAAYKAVEFVESGMVLGL----GTGSTAKHAVDRIG 67 (199)
Q Consensus 27 ~~~~~e~K~~IA~~Aa~lI~dgdtIfL----dsGTT~~~la~~L~ 67 (199)
..+.+++=+++|++-+..+++|++|+| ++|-|+ +++.|.
T Consensus 7 ~~~s~~~t~~l~~~la~~l~~g~vi~L~GdLGaGKTt--f~rgl~ 49 (153)
T PRK10646 7 PLPDEQATLDLGARVAKACDGATVIYLYGDLGAGKTT--FSRGFL 49 (153)
T ss_pred ECCCHHHHHHHHHHHHHhCCCCcEEEEECCCCCCHHH--HHHHHH
Confidence 345566678899999999999999996 567776 344443
No 71
>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]
Probab=23.27 E-value=49 Score=27.41 Aligned_cols=38 Identities=24% Similarity=0.351 Sum_probs=23.6
Q ss_pred CcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceE
Q 029100 54 GTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLS 99 (199)
Q Consensus 54 dsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~ 99 (199)
|+|+|+ +++.|.++. ++.++....---..+.+.|..+.
T Consensus 10 GsG~TT--va~~lAe~~------gl~~vsaG~iFR~~A~e~gmsl~ 47 (179)
T COG1102 10 GSGKTT--VARELAEHL------GLKLVSAGTIFREMARERGMSLE 47 (179)
T ss_pred CCChhH--HHHHHHHHh------CCceeeccHHHHHHHHHcCCCHH
Confidence 567776 577777653 67777765554455555665543
No 72
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=22.58 E-value=99 Score=23.09 Aligned_cols=22 Identities=18% Similarity=0.164 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHhcCcCCCEEE
Q 029100 31 DELKKIAAYKAVEFVESGMVLG 52 (199)
Q Consensus 31 ~e~K~~IA~~Aa~lI~dgdtIf 52 (199)
.+.-+++|+.-..|+++|+++|
T Consensus 64 ~dyiEe~AR~~Lg~vk~gEivy 85 (105)
T PRK00888 64 QEAIEERARNELGMVKPGETFY 85 (105)
T ss_pred HHHHHHHHHHHcCCCCCCCEEE
Confidence 3567778999999999999987
No 73
>COG2243 CobF Precorrin-2 methylase [Coenzyme metabolism]
Probab=22.56 E-value=2.9e+02 Score=23.81 Aligned_cols=67 Identities=27% Similarity=0.297 Sum_probs=46.8
Q ss_pred hHHHHHHHHHHHHhcCcCC-CEEEECcC-----hhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceEec
Q 029100 30 QDELKKIAAYKAVEFVESG-MVLGLGTG-----STAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSDL 101 (199)
Q Consensus 30 ~~e~K~~IA~~Aa~lI~dg-dtIfLdsG-----TT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~~l 101 (199)
.++.-+++|+..++.+.+| ++-|+-=| ||-.++.++|+.+ + + .+.+|++=-.....+...|.++..-
T Consensus 72 ~~~~~~e~a~~va~~l~~G~~VAf~~lGDP~~YsTf~~l~~~l~~~---~-~-e~e~VPGVsS~~a~aa~~~~pL~~g 144 (234)
T COG2243 72 LEDAWEEAAAEVAAELEAGRDVAFLTLGDPTFYSTFMYLLERLRER---G-F-EVEVVPGVSSFSACAARLGVPLVEG 144 (234)
T ss_pred HHHHHHHHHHHHHHHHHcCCeEEEEEccCccHHHHHHHHHHHhhcc---C-C-ceEEeCCcchHHHHHHHhCCceecc
Confidence 3344556777788888999 88888877 6777888888764 1 2 5788887666655555577766543
No 74
>PF01555 N6_N4_Mtase: DNA methylase; InterPro: IPR002941 This domain is found in DNA methylases. In prokaryotes, the major role of DNA methylation is to protect host DNA against degradation by restriction enzymes. This family contains both N-4 cytosine-specific DNA methylases and N-6 Adenine-specific DNA methylases. N-4 cytosine-specific DNA methylases (2.1.1.113 from EC) [] are enzymes that specifically methylate the amino group at the C-4 position of cytosines in DNA. Such enzymes are found as components of type II restriction-modification systems in prokaryotes. Such enzymes recognise a specific sequence in DNA and methylate a cytosine in that sequence. By this action they protect DNA from cleavage by type II restriction enzymes that recognise the same sequence. N-6 adenine-specific DNA methylases (2.1.1.72 from EC) (A-Mtase) are enzymes that specifically methylate the amino group at the C-6 position of adenines in DNA. Such enzymes are found in the three existing types of bacterial restriction-modification systems (in type I system the A-Mtase is the product of the hsdM gene, and in type III it is the product of the mod gene). All of these enzymes recognise a specific sequence in DNA and methylate an adenine in that sequence.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2ZIF_A 2ZIE_A 2ZIG_A 1NW6_A 1NW8_A 1NW7_A 1NW5_A 1EG2_A 1BOO_A 1G60_B ....
Probab=22.44 E-value=90 Score=24.77 Aligned_cols=25 Identities=28% Similarity=0.473 Sum_probs=15.0
Q ss_pred hcCcCCCEE---EECcChhHHHHHHHHhc
Q 029100 43 EFVESGMVL---GLGTGSTAKHAVDRIGE 68 (199)
Q Consensus 43 ~lI~dgdtI---fLdsGTT~~~la~~L~~ 68 (199)
.+-.+||+| |.|+|||.. .|..|..
T Consensus 187 ~~t~~gdiVlDpF~GSGTT~~-aa~~l~R 214 (231)
T PF01555_consen 187 ASTNPGDIVLDPFAGSGTTAV-AAEELGR 214 (231)
T ss_dssp HHS-TT-EEEETT-TTTHHHH-HHHHTT-
T ss_pred hhhccceeeehhhhccChHHH-HHHHcCC
Confidence 345889998 578888885 6666653
No 75
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=22.32 E-value=2e+02 Score=22.76 Aligned_cols=28 Identities=18% Similarity=0.235 Sum_probs=24.4
Q ss_pred CEEEECCcHHHHHHHHhCCCceEecCCC
Q 029100 77 NIVGIPTSKKTHEQAVSLGIPLSDLDSY 104 (199)
Q Consensus 77 ~ltVvTnSl~~a~~l~~~g~~v~~l~~~ 104 (199)
+..|.||.......+...|++++.+-++
T Consensus 99 ~~iVaTnD~eLk~rlr~~GIPvi~lr~r 126 (136)
T COG1412 99 RYIVATNDKELKRRLRENGIPVITLRQR 126 (136)
T ss_pred CEEEEeCCHHHHHHHHHcCCCEEEEeCC
Confidence 4899999999999998889999987643
No 76
>PF07021 MetW: Methionine biosynthesis protein MetW; InterPro: IPR010743 This family consists of several bacterial and one archaeal methionine biosynthesis MetW proteins. Biosynthesis of methionine from homoserine in Pseudomonas putida takes place in three steps. The first step is the acylation of homoserine to yield an acyl-L-homoserine. This reaction is catalysed by the products of the metXW genes and is equivalent to the first step in enterobacteria, Gram-positive bacteria and fungi, except that in these microorganisms the reaction is catalysed by a single polypeptide (the product of the metA gene in Escherichia coli and the met5 gene product in Neurospora crassa). In P. putida, as in Gram-positive bacteria and certain fungi, the second and third steps are a direct sulphydrylation that converts the O-acyl-L-homoserine into homocysteine and further methylation to yield methionine. The latter reaction can be mediated by either of the two methionine synthetases present in the cells [].
Probab=22.14 E-value=4.4e+02 Score=22.07 Aligned_cols=66 Identities=18% Similarity=0.233 Sum_probs=39.4
Q ss_pred HHHhcCcCCCEEE-ECcChhHHHHHHHHhchhhcCCCCCEEEEC--CcHHHHHHHHhCCCceEecC--------CCcccc
Q 029100 40 KAVEFVESGMVLG-LGTGSTAKHAVDRIGELLRQGKLTNIVGIP--TSKKTHEQAVSLGIPLSDLD--------SYPVVD 108 (199)
Q Consensus 40 ~Aa~lI~dgdtIf-LdsGTT~~~la~~L~~~~~~~~l~~ltVvT--nSl~~a~~l~~~g~~v~~l~--------~~~~~D 108 (199)
..+++|++|..|. ||+|.- .+..+|.+.+ ++.... .+......+...|++++... ..-.||
T Consensus 6 ~I~~~I~pgsrVLDLGCGdG--~LL~~L~~~k------~v~g~GvEid~~~v~~cv~rGv~Viq~Dld~gL~~f~d~sFD 77 (193)
T PF07021_consen 6 IIAEWIEPGSRVLDLGCGDG--ELLAYLKDEK------QVDGYGVEIDPDNVAACVARGVSVIQGDLDEGLADFPDQSFD 77 (193)
T ss_pred HHHHHcCCCCEEEecCCCch--HHHHHHHHhc------CCeEEEEecCHHHHHHHHHcCCCEEECCHHHhHhhCCCCCcc
Confidence 4567999997653 566644 4667776542 344433 44444455667899988542 223566
Q ss_pred EEEEc
Q 029100 109 LAIDG 113 (199)
Q Consensus 109 ~aFig 113 (199)
+.+++
T Consensus 78 ~VIls 82 (193)
T PF07021_consen 78 YVILS 82 (193)
T ss_pred EEehH
Confidence 66654
No 77
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=22.07 E-value=1.7e+02 Score=26.26 Aligned_cols=56 Identities=14% Similarity=0.180 Sum_probs=38.3
Q ss_pred hcCcCC--CEEEECcChhHHHHHHHHhchh-----hcCCCCCEEEECCcHHHHHHHHhCCCce
Q 029100 43 EFVESG--MVLGLGTGSTAKHAVDRIGELL-----RQGKLTNIVGIPTSKKTHEQAVSLGIPL 98 (199)
Q Consensus 43 ~lI~dg--dtIfLdsGTT~~~la~~L~~~~-----~~~~l~~ltVvTnSl~~a~~l~~~g~~v 98 (199)
+.+..| |+|.+-|++|+..+.+.+.+.. ......++.++.=+..++..+.+.|+.+
T Consensus 195 ~~l~~~~~d~v~FtS~stv~~f~~~l~~~~~~~~~~~~~~~~~~i~aIGp~Ta~al~~~G~~~ 257 (381)
T PRK07239 195 DAIASRGLDAVTFTSAPAVAALLERAREMGLLDQLLAALRTDVLAACVGPVTAAPLVRAGVPT 257 (381)
T ss_pred HHHHcCCccEEEEcCHHHHHHHHHHHHHcCChHHHHHhhccCCEEEEECHHHHHHHHHcCCCc
Confidence 344444 9999999999999999885320 0000125677888888888888777653
No 78
>cd02009 TPP_SHCHC_synthase Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key role in the menaquinone biosynthetic pathway, converting isochorismate and 2-oxoglutarate to SHCHC, pyruvate and carbon dioxide. The enzyme requires TPP and a divalent metal cation for activity.
Probab=22.00 E-value=1.6e+02 Score=23.40 Aligned_cols=32 Identities=13% Similarity=-0.040 Sum_probs=27.2
Q ss_pred HHHHHHhcCcCCCEEEECcChhHHHHHHHHhc
Q 029100 37 AAYKAVEFVESGMVLGLGTGSTAKHAVDRIGE 68 (199)
Q Consensus 37 IA~~Aa~lI~dgdtIfLdsGTT~~~la~~L~~ 68 (199)
+.+...+.+.++.+|..|+|++.....++++.
T Consensus 6 ~~~~l~~~l~~~~ivv~d~g~~~~~~~~~~~~ 37 (175)
T cd02009 6 LARALPDHLPEGSQLFVGNSMPIRDLDLFALP 37 (175)
T ss_pred HHHHHHHhCCCCCeEEEECCHHHHHHHHccCc
Confidence 55666677888999999999999999999964
No 79
>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop. They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.
Probab=21.91 E-value=81 Score=24.31 Aligned_cols=32 Identities=28% Similarity=0.342 Sum_probs=23.5
Q ss_pred HHHHHHHHhcCcCCCEEEE----CcChhHHHHHHHHhc
Q 029100 35 KIAAYKAVEFVESGMVLGL----GTGSTAKHAVDRIGE 68 (199)
Q Consensus 35 ~~IA~~Aa~lI~dgdtIfL----dsGTT~~~la~~L~~ 68 (199)
+++|+.-++.+++|++|+| ++|-|+ +++.|.+
T Consensus 2 ~~la~~l~~~l~~g~vi~L~GdLGaGKTt--f~r~l~~ 37 (123)
T PF02367_consen 2 IRLAKKLAQILKPGDVILLSGDLGAGKTT--FVRGLAR 37 (123)
T ss_dssp HHHHHHHHHHHSS-EEEEEEESTTSSHHH--HHHHHHH
T ss_pred HHHHHHHHHhCCCCCEEEEECCCCCCHHH--HHHHHHH
Confidence 4688889999999999997 678776 4455543
No 80
>COG0802 Predicted ATPase or kinase [General function prediction only]
Probab=21.71 E-value=1.2e+02 Score=24.45 Aligned_cols=59 Identities=20% Similarity=0.188 Sum_probs=40.7
Q ss_pred cCCChHHHHHHHHHHHHhcCcCCCEEEE----CcChhHH--HHHHHHhchhhcCCCCCEEEECCcHHHHHHHH
Q 029100 26 VILTQDELKKIAAYKAVEFVESGMVLGL----GTGSTAK--HAVDRIGELLRQGKLTNIVGIPTSKKTHEQAV 92 (199)
Q Consensus 26 ~~~~~~e~K~~IA~~Aa~lI~dgdtIfL----dsGTT~~--~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~ 92 (199)
+....+++..++|+.-+..++.|++|.| ++|-|+. .+++.|.. +-.|.+..+.+.+...
T Consensus 3 ~~~~~~~~t~~lg~~l~~~l~~g~Vv~L~GdLGAGKTtf~rgi~~~Lg~--------~~~V~SPTFtlv~~Y~ 67 (149)
T COG0802 3 IILPDEEATLALGERLAEALKAGDVVLLSGDLGAGKTTLVRGIAKGLGV--------DGNVKSPTFTLVEEYE 67 (149)
T ss_pred EEcCCHHHHHHHHHHHHhhCCCCCEEEEEcCCcCChHHHHHHHHHHcCC--------CCcccCCCeeeehhhc
Confidence 3456778899999999999999999997 6787763 34555532 2345555555555443
No 81
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=21.40 E-value=1.3e+02 Score=20.17 Aligned_cols=25 Identities=12% Similarity=0.092 Sum_probs=20.1
Q ss_pred hHHHHHHHHHHHHhcCcCCCEEEEC
Q 029100 30 QDELKKIAAYKAVEFVESGMVLGLG 54 (199)
Q Consensus 30 ~~e~K~~IA~~Aa~lI~dgdtIfLd 54 (199)
..+.-+++|+.=..|+.||++||.-
T Consensus 53 ~~~~ie~~AR~~lgm~~~~E~v~~~ 77 (80)
T PF04977_consen 53 DPDYIEKVAREKLGMVKPGEIVFKI 77 (80)
T ss_pred CHHHHHHHHHHHcCCcCCCCEEEeC
Confidence 4455678888888999999999863
No 82
>PRK10481 hypothetical protein; Provisional
Probab=21.20 E-value=1.9e+02 Score=24.62 Aligned_cols=51 Identities=14% Similarity=0.081 Sum_probs=35.4
Q ss_pred HHHHHHHhcCcCC-CEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHH
Q 029100 36 IAAYKAVEFVESG-MVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAV 92 (199)
Q Consensus 36 ~IA~~Aa~lI~dg-dtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~ 92 (199)
.+.+.|.++..+| |.|++|+-.=+..+.+.|.+.. ++-||+.+.-++..+.
T Consensus 170 ~l~~aa~~L~~~gaD~Ivl~C~G~~~~~~~~le~~l------g~PVI~~n~a~ar~~~ 221 (224)
T PRK10481 170 ELIDAGKELLDQGADVIVLDCLGYHQRHRDLLQKAL------DVPVLLSNVLVARLAA 221 (224)
T ss_pred HHHHHHHHhhcCCCCEEEEeCCCcCHHHHHHHHHHH------CcCEEcHHHHHHHHHH
Confidence 4555666666555 9999998665557888886653 6778887777766544
No 83
>PRK04017 hypothetical protein; Provisional
Probab=20.56 E-value=2.3e+02 Score=22.32 Aligned_cols=19 Identities=11% Similarity=0.174 Sum_probs=15.0
Q ss_pred HHhcCcEEEEEeCCCCCCC
Q 029100 138 EGACKKFVVIVDESKLVPH 156 (199)
Q Consensus 138 ~~~a~k~IlLaD~sKf~~~ 156 (199)
++..+.+|++.|..+=|.+
T Consensus 62 a~~~r~VIILTD~D~~Gek 80 (132)
T PRK04017 62 ASRGKEVIILTDFDRKGEE 80 (132)
T ss_pred HhcCCeEEEEECCCcchHH
Confidence 4467899999999987643
No 84
>PF13738 Pyr_redox_3: Pyridine nucleotide-disulphide oxidoreductase; PDB: 3D1C_A 4A9W_B 2YLX_A 2YM2_A 2YLW_A 2YLR_A 2YM1_A 2YLS_A 1W4X_A 2YLT_A ....
Probab=20.49 E-value=1.2e+02 Score=23.73 Aligned_cols=37 Identities=16% Similarity=0.216 Sum_probs=27.5
Q ss_pred cCcCCCEEEECcChhHHHHHHHHhchhhcCCCCCEEEECCcH
Q 029100 44 FVESGMVLGLGTGSTAKHAVDRIGELLRQGKLTNIVGIPTSK 85 (199)
Q Consensus 44 lI~dgdtIfLdsGTT~~~la~~L~~~~~~~~l~~ltVvTnSl 85 (199)
-.++..++.+|+|.|...++..|.+. + .++++++-+.
T Consensus 164 ~~~~k~V~VVG~G~SA~d~a~~l~~~---g--~~V~~~~R~~ 200 (203)
T PF13738_consen 164 DFKGKRVVVVGGGNSAVDIAYALAKA---G--KSVTLVTRSP 200 (203)
T ss_dssp GCTTSEEEEE--SHHHHHHHHHHTTT---C--SEEEEEESS-
T ss_pred hcCCCcEEEEcChHHHHHHHHHHHhh---C--CEEEEEecCC
Confidence 46678999999999999999999764 2 3788887654
No 85
>TIGR00284 dihydropteroate synthase-related protein. This protein has been found so far only in the Archaea, and in particular in those archaea that lack a bacterial-type dihydropteroate synthase. The central region of this protein shows considerable homology to the amino-terminal half of dihydropteroate synthases, while the carboxyl-terminal region shows homology to the small, uncharacterized protein slr0651 of Synechocystis PCC6803.
Probab=20.44 E-value=5e+02 Score=24.84 Aligned_cols=62 Identities=18% Similarity=0.090 Sum_probs=46.6
Q ss_pred HHHHHHHHhcCcCC-CEEEECcChh------HHHHHHHHhchhhcCCCCCEEEECCcHHHHHHHHhCCCceEe
Q 029100 35 KIAAYKAVEFVESG-MVLGLGTGST------AKHAVDRIGELLRQGKLTNIVGIPTSKKTHEQAVSLGIPLSD 100 (199)
Q Consensus 35 ~~IA~~Aa~lI~dg-dtIfLdsGTT------~~~la~~L~~~~~~~~l~~ltVvTnSl~~a~~l~~~g~~v~~ 100 (199)
..|.++|..++++| |.|=|++++| +..+++.|.+. ... .+.|=|-+..++..+.+.|..++.
T Consensus 165 ~~i~~~A~~~~~~GADIIDIG~~st~p~~~~v~~~V~~l~~~---~~~-pISIDT~~~~v~eaAL~aGAdiIN 233 (499)
T TIGR00284 165 DGIEGLAARMERDGADMVALGTGSFDDDPDVVKEKVKTALDA---LDS-PVIADTPTLDELYEALKAGASGVI 233 (499)
T ss_pred HHHHHHHHHHHHCCCCEEEECCCcCCCcHHHHHHHHHHHHhh---CCC-cEEEeCCCHHHHHHHHHcCCCEEE
Confidence 67899999999998 9999999998 55555555432 112 578888888888877777876554
No 86
>PF00156 Pribosyltran: Phosphoribosyl transferase domain; InterPro: IPR000836 The name PRT comes from phosphoribosyltransferase (PRTase) enzymes, which carry out phosphoryl transfer reactions on 5-phosphoribosyl-alpha1-pyrophosphate PRPP, an activated form of ribose-5-phosphate. Members of Phosphoribosyltransferase (PRT) are catalytic and are regulatory proteins involved in nucleotide synthesis and salvage []. This includes a range of diverse phosphoribosyl transferase enzymes including adenine phosphoribosyltransferase (2.4.2.7 from EC); hypoxanthine-guanine-xanthine phosphoribosyltransferase; hypoxanthine phosphoribosyltransferase (2.4.2.8 from EC); ribose-phosphate pyrophosphokinase (2.7.6.1 from EC); amidophosphoribosyltransferase (2.4.2.14 from EC); orotate phosphoribosyltransferase (2.4.2.10 from EC);uracil phosphoribosyltransferase (2.4.2.9 from EC); and xanthine-guanine phosphoribosyltransferase (2.4.2.22 from EC). Not all PRT proteins are enzymes. For example, in some bacteria PRT proteins regulate the expression of purine and pyrimidine synthetic genes. Members of PRT are defined by the protein fold and by a short 13-residue sequence motif, The motif consists of four hydrophobic amino acids, two acidic amino acids and seven amino acids of variable character, usually including glycine and threonine. The motif has been predicted to be a PRPP-binding site in advance of structural information [, ]. Apart of this motif, different PRT proteins have a low level of sequence identity, less than 15%. The PRT sequence motif is only found in PRTases from the nucleotide synthesis and salvage pathways. Other PRTases, from the tryptophan, histidine and nicotinamide synthetic and salvage pathways, lack the PRT sequence motif and appear to be unrelated to each other and unrelated to the PRT family.; GO: 0009116 nucleoside metabolic process; PDB: 2JBH_A 1Y0B_D 2FXV_B 1GPH_1 1AO0_D 1ORO_B 1VCH_C 2WNS_A 2PRZ_B 2PS1_A ....
Probab=20.39 E-value=90 Score=22.64 Aligned_cols=18 Identities=33% Similarity=0.447 Sum_probs=15.5
Q ss_pred EECcChhHHHHHHHHhch
Q 029100 52 GLGTGSTAKHAVDRIGEL 69 (199)
Q Consensus 52 fLdsGTT~~~la~~L~~~ 69 (199)
.+|+|.|..++++.|.+.
T Consensus 97 vi~tG~Tl~~~~~~L~~~ 114 (125)
T PF00156_consen 97 VIDTGGTLKEAIELLKEA 114 (125)
T ss_dssp EESSSHHHHHHHHHHHHT
T ss_pred eEcccHHHHHHHHHHHhC
Confidence 467999999999999764
Done!