Query 042421
Match_columns 154
No_of_seqs 187 out of 1126
Neff 9.6
Searched_HMMs 46136
Date Fri Mar 29 06:02:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/042421.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/042421hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK13907 rnhA ribonuclease H; 100.0 4.9E-32 1.1E-36 179.7 13.4 126 25-153 1-126 (128)
2 PRK07708 hypothetical protein; 100.0 6.9E-28 1.5E-32 171.9 14.5 134 21-154 69-208 (219)
3 PRK07238 bifunctional RNase H/ 99.9 1.9E-26 4.2E-31 177.3 14.3 128 25-153 2-131 (372)
4 COG0328 RnhA Ribonuclease HI [ 99.9 1.3E-25 2.7E-30 150.7 11.6 125 25-153 3-144 (154)
5 cd06222 RnaseH RNase H (RNase 99.9 3.8E-24 8.3E-29 139.9 14.6 125 27-152 1-130 (130)
6 PF13456 RVT_3: Reverse transc 99.9 5.7E-25 1.2E-29 136.1 8.9 86 68-153 1-86 (87)
7 PRK08719 ribonuclease H; Revie 99.9 7.3E-22 1.6E-26 133.3 12.9 125 24-153 3-146 (147)
8 PF00075 RNase_H: RNase H; In 99.9 3.5E-21 7.6E-26 127.9 11.4 119 25-152 3-131 (132)
9 PRK00203 rnhA ribonuclease H; 99.9 8.5E-21 1.8E-25 128.9 12.8 123 25-153 3-141 (150)
10 PRK06548 ribonuclease H; Provi 99.9 4.2E-20 9.1E-25 125.9 14.2 121 25-153 5-141 (161)
11 KOG3752 Ribonuclease H [Replic 99.6 9.5E-14 2.1E-18 104.1 12.0 133 16-151 202-362 (371)
12 KOG1812 Predicted E3 ubiquitin 97.9 3.4E-05 7.3E-10 60.0 6.3 116 38-153 16-137 (384)
13 cd01284 Riboflavin_deaminase-r 90.6 0.84 1.8E-05 29.5 4.9 50 39-95 17-66 (115)
14 cd01285 nucleoside_deaminase N 90.1 1 2.3E-05 28.6 5.0 58 39-96 15-73 (109)
15 COG0295 Cdd Cytidine deaminase 89.9 1.1 2.3E-05 29.8 4.9 57 40-97 25-81 (134)
16 COG0590 CumB Cytosine/adenosin 89.7 0.97 2.1E-05 30.7 4.8 58 39-96 26-84 (152)
17 TIGR01354 cyt_deam_tetra cytid 88.5 1.1 2.4E-05 29.4 4.3 57 40-97 20-76 (127)
18 PRK10860 tRNA-specific adenosi 85.1 2.3 5E-05 29.5 4.6 41 40-81 32-73 (172)
19 cd00786 cytidine_deaminase-lik 84.6 4.9 0.00011 24.8 5.6 43 39-81 16-60 (96)
20 TIGR02571 ComEB ComE operon pr 82.1 7.3 0.00016 26.4 6.0 40 40-80 24-79 (151)
21 cd01283 cytidine_deaminase Cyt 80.7 4.5 9.7E-05 25.7 4.4 45 39-83 16-60 (112)
22 PF00336 DNA_pol_viral_C: DNA 79.5 5.9 0.00013 28.4 4.9 91 26-142 95-186 (245)
23 PRK14828 undecaprenyl pyrophos 77.4 19 0.00041 26.7 7.3 91 41-140 28-121 (256)
24 PF00383 dCMP_cyt_deam_1: Cyti 77.1 5.2 0.00011 24.7 3.9 57 38-95 21-78 (102)
25 PHA02588 cd deoxycytidylate de 76.6 13 0.00029 25.6 6.1 13 68-80 81-93 (168)
26 cd01286 deoxycytidylate_deamin 74.6 9.6 0.00021 25.1 4.7 52 40-94 19-92 (131)
27 PRK14835 undecaprenyl pyrophos 74.5 29 0.00064 26.1 7.7 89 42-140 44-140 (275)
28 PRK12411 cytidine deaminase; P 71.0 11 0.00024 24.9 4.4 57 40-97 23-79 (132)
29 PRK05578 cytidine deaminase; V 69.7 11 0.00023 25.0 4.1 56 41-97 24-79 (131)
30 PRK14834 undecaprenyl pyrophos 66.4 40 0.00086 25.0 6.8 52 42-97 17-68 (249)
31 PRK08298 cytidine deaminase; V 61.1 21 0.00045 23.8 4.2 55 42-97 24-78 (136)
32 PRK06848 hypothetical protein; 61.1 22 0.00048 23.8 4.3 56 40-96 26-81 (139)
33 PRK14841 undecaprenyl pyrophos 60.1 63 0.0014 23.7 6.9 88 45-141 8-101 (233)
34 COG0084 TatD Mg-dependent DNas 59.4 5 0.00011 29.7 1.1 46 80-125 189-235 (256)
35 PF05380 Peptidase_A17: Pao re 59.2 42 0.00092 22.7 5.6 58 24-85 80-143 (159)
36 cd00475 CIS_IPPS Cis (Z)-Isopr 58.0 67 0.0015 23.3 6.7 87 45-140 5-97 (221)
37 TIGR00055 uppS undecaprenyl di 57.6 72 0.0016 23.3 7.4 87 45-140 4-96 (226)
38 PRK14837 undecaprenyl pyrophos 56.8 76 0.0016 23.2 6.8 87 45-140 11-103 (230)
39 PRK14827 undecaprenyl pyrophos 56.0 65 0.0014 24.6 6.5 52 42-97 70-121 (296)
40 TIGR00326 eubact_ribD riboflav 55.4 17 0.00038 28.0 3.5 36 42-81 20-55 (344)
41 PRK14842 undecaprenyl pyrophos 54.1 83 0.0018 23.2 6.7 90 42-141 11-106 (241)
42 PRK14838 undecaprenyl pyrophos 54.1 87 0.0019 23.1 6.9 90 42-141 13-106 (242)
43 PRK14830 undecaprenyl pyrophos 54.0 88 0.0019 23.2 7.0 90 41-140 24-119 (251)
44 PF03259 Robl_LC7: Roadblock/L 52.9 46 0.001 19.6 5.6 57 41-98 14-74 (91)
45 PRK14839 undecaprenyl pyrophos 52.8 91 0.002 23.0 6.8 89 42-140 12-106 (239)
46 PRK14833 undecaprenyl pyrophos 52.8 90 0.0019 22.9 7.0 86 46-140 10-101 (233)
47 COG3341 Predicted double-stran 52.6 39 0.00085 24.5 4.6 84 23-108 63-153 (225)
48 COG3981 Predicted acetyltransf 50.8 26 0.00056 24.4 3.4 27 74-100 117-143 (174)
49 KOG1018 Cytosine deaminase FCY 48.8 39 0.00085 23.4 4.1 46 40-85 31-77 (169)
50 PTZ00349 dehydrodolichyl dipho 48.3 1.2E+02 0.0026 23.5 6.9 88 42-140 22-119 (322)
51 PRK14829 undecaprenyl pyrophos 47.5 1.1E+02 0.0024 22.5 6.7 90 42-141 17-112 (243)
52 PRK14840 undecaprenyl pyrophos 46.6 1.2E+02 0.0026 22.5 7.4 89 45-140 23-119 (250)
53 KOG3139 N-acetyltransferase [G 45.8 29 0.00063 23.9 3.0 22 76-97 106-127 (165)
54 PRK14832 undecaprenyl pyrophos 45.5 1.2E+02 0.0027 22.5 6.5 87 45-140 23-115 (253)
55 PF05830 NodZ: Nodulation prot 44.2 49 0.0011 25.4 4.2 65 38-106 165-232 (321)
56 PRK14836 undecaprenyl pyrophos 43.4 1.3E+02 0.0027 22.4 6.3 50 42-95 17-66 (253)
57 PLN02807 diaminohydroxyphospho 40.3 46 0.001 26.3 3.8 36 42-81 55-90 (380)
58 KOG0833 Cytidine deaminase [Nu 40.3 68 0.0015 22.4 4.1 42 40-81 41-82 (173)
59 PRK10786 ribD bifunctional dia 39.0 50 0.0011 25.8 3.8 36 42-81 26-61 (367)
60 COG0117 RibD Pyrimidine deamin 36.9 53 0.0011 22.2 3.1 34 42-79 29-62 (146)
61 PRK13191 putative peroxiredoxi 36.2 1E+02 0.0022 22.1 4.8 42 44-87 126-167 (215)
62 PRK14831 undecaprenyl pyrophos 35.9 1.8E+02 0.0039 21.5 7.1 52 42-97 23-74 (249)
63 PRK15000 peroxidase; Provision 35.5 1.2E+02 0.0025 21.5 5.0 43 43-87 126-168 (200)
64 PRK11449 putative deoxyribonuc 34.2 24 0.00053 26.0 1.4 20 81-100 192-211 (258)
65 PF14591 AF0941-like: AF0941-l 32.1 57 0.0012 21.4 2.6 33 93-125 42-74 (127)
66 COG1212 KdsB CMP-2-keto-3-deox 31.3 97 0.0021 22.8 3.9 31 76-106 31-61 (247)
67 PLN02182 cytidine deaminase 31.1 93 0.002 24.2 4.0 41 40-80 65-107 (339)
68 PF10983 DUF2793: Protein of u 30.9 1.3E+02 0.0028 18.4 4.1 35 23-57 48-82 (87)
69 PF07888 CALCOCO1: Calcium bin 30.9 98 0.0021 25.8 4.3 45 18-63 58-109 (546)
70 cd03016 PRX_1cys Peroxiredoxin 30.2 1.8E+02 0.0039 20.5 5.2 42 44-87 119-160 (203)
71 PRK10382 alkyl hydroperoxide r 30.0 1.6E+02 0.0034 20.6 4.8 41 44-86 121-161 (187)
72 COG0020 UppS Undecaprenyl pyro 29.6 2.4E+02 0.0051 20.9 6.9 87 45-140 21-113 (245)
73 PRK13190 putative peroxiredoxi 29.4 1.6E+02 0.0035 20.7 4.9 43 43-87 118-160 (202)
74 PF06180 CbiK: Cobalt chelatas 29.3 1.6E+02 0.0034 22.0 4.9 53 72-134 56-108 (262)
75 PTZ00137 2-Cys peroxiredoxin; 28.3 1.4E+02 0.003 22.3 4.5 42 44-87 190-231 (261)
76 smart00340 HALZ homeobox assoc 27.7 42 0.00092 17.5 1.2 32 94-125 4-35 (44)
77 PRK09240 thiH thiamine biosynt 27.6 2.3E+02 0.005 22.2 5.8 66 76-152 109-174 (371)
78 PLN02402 cytidine deaminase 27.3 1.2E+02 0.0027 23.2 4.1 64 40-104 45-114 (303)
79 PRK09027 cytidine deaminase; P 26.9 1.3E+02 0.0028 22.9 4.1 53 40-93 70-124 (295)
80 PF05903 Peptidase_C97: PPPDE 26.8 45 0.00097 22.5 1.6 37 112-151 85-121 (151)
81 cd03015 PRX_Typ2cys Peroxiredo 26.6 2.1E+02 0.0045 19.3 5.0 43 44-88 122-164 (173)
82 PF06754 PhnG: Phosphonate met 26.0 1.7E+02 0.0037 19.7 4.3 62 16-81 33-99 (146)
83 PF12458 DUF3686: ATPase invol 25.6 96 0.0021 25.0 3.3 33 95-127 414-446 (448)
84 PF00411 Ribosomal_S11: Riboso 25.1 1.8E+02 0.0039 18.4 4.1 49 45-94 14-67 (110)
85 cd00225 API3 Ascaris pepsin in 25.1 1.9E+02 0.0041 19.7 4.2 27 23-49 96-122 (159)
86 PLN00118 isocitrate dehydrogen 24.8 2.9E+02 0.0062 21.9 5.8 59 67-136 182-240 (372)
87 TIGR02351 thiH thiazole biosyn 24.3 2.5E+02 0.0055 21.9 5.5 64 77-151 109-172 (366)
88 PF02569 Pantoate_ligase: Pant 24.1 2.9E+02 0.0062 21.0 5.5 37 46-85 176-212 (280)
89 PF11080 DUF2622: Protein of u 23.7 1.4E+02 0.003 18.7 3.2 43 39-81 31-73 (96)
90 COG4822 CbiK Cobalamin biosynt 23.7 1.8E+02 0.0039 21.3 4.1 46 77-132 63-108 (265)
91 PRK13189 peroxiredoxin; Provis 23.5 2.4E+02 0.0052 20.2 4.9 42 44-87 128-169 (222)
92 PRK12295 hisZ ATP phosphoribos 23.4 3.7E+02 0.008 21.1 6.9 64 42-106 87-153 (373)
93 PRK10425 DNase TatD; Provision 22.6 53 0.0011 24.3 1.4 18 83-100 190-207 (258)
94 PRK13599 putative peroxiredoxi 22.5 2.3E+02 0.0049 20.3 4.6 42 44-87 121-162 (215)
95 PRK08997 isocitrate dehydrogen 22.5 3.5E+02 0.0075 21.1 5.8 52 75-136 152-203 (334)
96 TIGR00175 mito_nad_idh isocitr 22.2 3.1E+02 0.0068 21.3 5.5 51 76-136 151-201 (333)
97 TIGR00228 ruvC crossover junct 22.0 2.7E+02 0.0059 19.0 6.8 60 34-94 4-64 (156)
98 PF11208 DUF2992: Protein of u 21.7 2.3E+02 0.005 18.8 4.1 42 26-77 1-42 (132)
99 PF06874 FBPase_2: Firmicute f 21.3 1.7E+02 0.0038 24.8 4.1 52 1-56 527-581 (640)
100 PRK10812 putative DNAse; Provi 21.2 60 0.0013 24.1 1.5 19 82-100 191-209 (265)
101 PF02887 PK_C: Pyruvate kinase 21.1 2.2E+02 0.0047 17.9 3.9 64 77-140 6-70 (117)
102 COG5499 Predicted transcriptio 20.8 2E+02 0.0044 18.5 3.5 61 68-128 9-72 (120)
103 PTZ00253 tryparedoxin peroxida 20.8 2.7E+02 0.0058 19.4 4.7 42 44-87 129-170 (199)
104 PRK10057 rpsV 30S ribosomal su 20.6 19 0.00041 18.5 -0.9 19 88-106 20-38 (44)
105 COG0450 AhpC Peroxiredoxin [Po 20.2 3.3E+02 0.0073 19.4 5.5 48 38-87 120-167 (194)
No 1
>PRK13907 rnhA ribonuclease H; Provisional
Probab=100.00 E-value=4.9e-32 Score=179.67 Aligned_cols=126 Identities=16% Similarity=0.089 Sum_probs=113.8
Q ss_pred cEEEEeceeEecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHH
Q 042421 25 WLKINVDVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELV 104 (154)
Q Consensus 25 ~~k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i 104 (154)
++++|||||+..+++.+|+|+|++++.|.+...+ ..+..|+++||+.|+++||+.+.+.|+.+|+|+|||++|++++
T Consensus 1 ~~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~---~~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~ 77 (128)
T PRK13907 1 MIEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSL---PLGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAV 77 (128)
T ss_pred CEEEEEeeCCCCCCCccEEEEEEEECCeeEEEEe---cccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHH
Confidence 4789999999999999999999999988765432 2245799999999999999999999999999999999999999
Q ss_pred hcCCCCchhHHHHHHHHHHHhhcCCceEEEEeCCCCcHHHHHHHHhhhc
Q 042421 105 NNRCSSMAEISWMISEILEMNNSFQNFRAQHTARIYNSAAHALGFRVCK 153 (154)
Q Consensus 105 ~~~~~~~~~~~~li~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a~~ 153 (154)
++.+.....+..++++++.++..|..+.+.||+|++|..||.||+.|+-
T Consensus 78 ~~~~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~r~~N~~Ad~LA~~a~~ 126 (128)
T PRK13907 78 EKEYAKNKMFAPLLEEALQYIKSFDLFFIKWIPSSQNKVADELARKAIL 126 (128)
T ss_pred hHHHhcChhHHHHHHHHHHHHhcCCceEEEEcCchhchhHHHHHHHHHh
Confidence 9976555678999999999999999999999999999999999999863
No 2
>PRK07708 hypothetical protein; Validated
Probab=99.96 E-value=6.9e-28 Score=171.92 Aligned_cols=134 Identities=16% Similarity=0.119 Sum_probs=114.0
Q ss_pred CCCCcEEEEeceeEecCCCeeeEEEEEecCCCceE--eeccccccccchhHHHHHHHHHHHHHHHHHhCCce--EEEecc
Q 042421 21 PPIGWLKINVDVVVDVQKQVVGLEVVIRDEKDNCI--AAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLAS--VLLESD 96 (154)
Q Consensus 21 p~~g~~k~n~Dgs~~~~~~~~g~G~vird~~g~~~--~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~--v~iesD 96 (154)
+.+..+++|||||+..+++.+|+|+||+++.|... ......+....|+++||+.|++.||+.|.++|+++ |+|++|
T Consensus 69 ~ep~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~D 148 (219)
T PRK07708 69 EEPHEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGD 148 (219)
T ss_pred cCCCcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEec
Confidence 34567999999999999999999999999877543 23334566668999999999999999999999976 899999
Q ss_pred HHHHHHHHhcCCCCch-hHHHHHHHHHHHhhcCC-ceEEEEeCCCCcHHHHHHHHhhhcC
Q 042421 97 CLEVVELVNNRCSSMA-EISWMISEILEMNNSFQ-NFRAQHTARIYNSAAHALGFRVCKR 154 (154)
Q Consensus 97 s~~vi~~i~~~~~~~~-~~~~li~~i~~l~~~~~-~~~~~~i~r~~N~~Ad~LA~~a~~~ 154 (154)
|+.|++++++.+.... .+..++++++.++..|. .+.+.||+|+.|..||.||+.|+++
T Consensus 149 SqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~~N~~AD~LAk~Al~~ 208 (219)
T PRK07708 149 SQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRKQNKEADQLATQALEG 208 (219)
T ss_pred cHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCchhhhHHHHHHHHHHhc
Confidence 9999999999875543 56778888888888776 4889999999999999999999863
No 3
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.94 E-value=1.9e-26 Score=177.28 Aligned_cols=128 Identities=17% Similarity=0.169 Sum_probs=113.9
Q ss_pred cEEEEeceeEecCCCeeeEEEEEecCCCc-eEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHH
Q 042421 25 WLKINVDVVVDVQKQVVGLEVVIRDEKDN-CIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVEL 103 (154)
Q Consensus 25 ~~k~n~Dgs~~~~~~~~g~G~vird~~g~-~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~ 103 (154)
.+++|||||+.++++.+|+|++|++++|. ++...+..+. ..|+++||+.|++.||+.+.++|.++|.|++||++|++.
T Consensus 2 ~~~i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~-~~tnn~AE~~All~gL~~a~~~g~~~v~i~~DS~lvi~~ 80 (372)
T PRK07238 2 KVVVEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIG-RATNNVAEYRGLIAGLEAAAELGATEVEVRMDSKLVVEQ 80 (372)
T ss_pred eEEEEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccC-CCCchHHHHHHHHHHHHHHHhCCCCeEEEEeCcHHHHHH
Confidence 47899999999999999999999999765 4444444444 568899999999999999999999999999999999999
Q ss_pred HhcCCCCc-hhHHHHHHHHHHHhhcCCceEEEEeCCCCcHHHHHHHHhhhc
Q 042421 104 VNNRCSSM-AEISWMISEILEMNNSFQNFRAQHTARIYNSAAHALGFRVCK 153 (154)
Q Consensus 104 i~~~~~~~-~~~~~li~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a~~ 153 (154)
+++.+... ..+..++.+++.++++|..+++.||+|++|+.||.||+.|+.
T Consensus 81 i~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r~~N~~AD~LA~~a~~ 131 (372)
T PRK07238 81 MSGRWKVKHPDMKPLAAQARELASQFGRVTYTWIPRARNAHADRLANEAMD 131 (372)
T ss_pred hCCCCccCChHHHHHHHHHHHHHhcCCceEEEECCchhhhHHHHHHHHHHH
Confidence 99977544 578888999999999999999999999999999999999974
No 4
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.93 E-value=1.3e-25 Score=150.70 Aligned_cols=125 Identities=16% Similarity=0.021 Sum_probs=106.3
Q ss_pred cEEEEeceeEecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHH
Q 042421 25 WLKINVDVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELV 104 (154)
Q Consensus 25 ~~k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i 104 (154)
.+.+|+||||.++++.+|+|+|++...+..-... ... ..|+++||++|+++||+.+++.+...|.++|||++|++.|
T Consensus 3 ~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~--~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i 79 (154)
T COG0328 3 KVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSG--GEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGI 79 (154)
T ss_pred ceEEEecCccCCCCCCceEEEEEEcCCceEEEee--eee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHH
Confidence 5789999999999999999999997777663322 222 6799999999999999999999999999999999999999
Q ss_pred hcCC-CC------------chhHHHHHHHHHHHhhcCCceEEEEeC----CCCcHHHHHHHHhhhc
Q 042421 105 NNRC-SS------------MAEISWMISEILEMNNSFQNFRAQHTA----RIYNSAAHALGFRVCK 153 (154)
Q Consensus 105 ~~~~-~~------------~~~~~~li~~i~~l~~~~~~~~~~~i~----r~~N~~Ad~LA~~a~~ 153 (154)
+. + .. +-.-..+.+++..++..|..+.+.||+ +..|+.||.||+.+++
T Consensus 80 ~~-w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~ 144 (154)
T COG0328 80 TR-WIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAAR 144 (154)
T ss_pred HH-HHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHH
Confidence 83 2 11 112346789999999999999999999 7789999999999975
No 5
>cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack mitochondrial DNA replication and die as embryos. The retroviral reverse transcriptase contains an RNase H domain that plays an important role in converting a single stranded retroviral genomic RNA into a dsDNA for integration into host chromosomes. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription.
Probab=99.92 E-value=3.8e-24 Score=139.86 Aligned_cols=125 Identities=18% Similarity=0.112 Sum_probs=112.0
Q ss_pred EEEeceeEecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhc
Q 042421 27 KINVDVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNN 106 (154)
Q Consensus 27 k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~ 106 (154)
+||||||+..+.+.+|+|++++++.+.+........ ...+++++|+.|+..||+.+...+..++.|++||+.+++++++
T Consensus 1 ~~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~-~~~s~~~aEl~al~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~ 79 (130)
T cd06222 1 VIYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLG-GNTTNNRAELLALIEALELALELGGKKVNIYTDSQYVINALTG 79 (130)
T ss_pred CEEecccCCCCCCceEEEEEEEeCCCeEEEeccccC-CCCcHHHHHHHHHHHHHHHHHhCCCceEEEEECHHHHHHHhhc
Confidence 589999999988999999999999988877665543 5679999999999999999999999999999999999999999
Q ss_pred CCC-CchhHHHHHHHHHHHhhcCCceEEEEeCC----CCcHHHHHHHHhhh
Q 042421 107 RCS-SMAEISWMISEILEMNNSFQNFRAQHTAR----IYNSAAHALGFRVC 152 (154)
Q Consensus 107 ~~~-~~~~~~~li~~i~~l~~~~~~~~~~~i~r----~~N~~Ad~LA~~a~ 152 (154)
... .......++.+++.+...+..+++.||+| +.|..||.||+.++
T Consensus 80 ~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 80 WYEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred cccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 754 34577888899998888899999999999 99999999999874
No 6
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.92 E-value=5.7e-25 Score=136.06 Aligned_cols=86 Identities=30% Similarity=0.352 Sum_probs=76.3
Q ss_pred hHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHHhhcCCceEEEEeCCCCcHHHHHH
Q 042421 68 VAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEMNNSFQNFRAQHTARIYNSAAHAL 147 (154)
Q Consensus 68 ~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~~~~~~~~~~~i~r~~N~~Ad~L 147 (154)
|++||++|++.||++|.++|+++|+|||||+.+++++++....++.+..++.+|+.+++.|++++|.||+|++|..||.|
T Consensus 1 ~~~aE~~al~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~r~~N~~A~~L 80 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIPREQNKVADAL 80 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE--GGGSHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHCCCCEEEEEecCccccccccccccccccccccchhhhhhhccccceEEEEEChHHhHHHHHH
Confidence 57999999999999999999999999999999999999987777799999999999999999999999999999999999
Q ss_pred HHhhhc
Q 042421 148 GFRVCK 153 (154)
Q Consensus 148 A~~a~~ 153 (154)
||.|++
T Consensus 81 A~~a~~ 86 (87)
T PF13456_consen 81 AKFALS 86 (87)
T ss_dssp HHHHHH
T ss_pred HHHHhh
Confidence 999975
No 7
>PRK08719 ribonuclease H; Reviewed
Probab=99.88 E-value=7.3e-22 Score=133.31 Aligned_cols=125 Identities=16% Similarity=0.093 Sum_probs=98.0
Q ss_pred CcEEEEeceeEecCCC---eeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHH
Q 042421 24 GWLKINVDVVVDVQKQ---VVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEV 100 (154)
Q Consensus 24 g~~k~n~Dgs~~~~~~---~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~v 100 (154)
..+++|||||+..+++ .+|+|+++.+..|......+..+....|++.||+.|++.||+.+.+. ..|+|||+++
T Consensus 3 ~~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~----~~i~tDS~yv 78 (147)
T PRK08719 3 ASYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDG----DVIYSDSDYC 78 (147)
T ss_pred ceEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCC----CEEEechHHH
Confidence 3578999999988765 68999999998887553333335445799999999999999998764 3799999999
Q ss_pred HHHHhc--------CCC----CchhHHHHHHHHHHHhhcCCceEEEEeCC----CCcHHHHHHHHhhhc
Q 042421 101 VELVNN--------RCS----SMAEISWMISEILEMNNSFQNFRAQHTAR----IYNSAAHALGFRVCK 153 (154)
Q Consensus 101 i~~i~~--------~~~----~~~~~~~li~~i~~l~~~~~~~~~~~i~r----~~N~~Ad~LA~~a~~ 153 (154)
++.++. .+. .+-....+++.|..+.. ...++|.||++ .+|..||.||+.|++
T Consensus 79 i~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~-~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 79 VRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRA-RKYVEVEKVTAHSGIEGNEAADMLAQAAAE 146 (147)
T ss_pred HHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhC-CCcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence 999953 221 11234567788877766 57899999999 569999999999976
No 8
>PF00075 RNase_H: RNase H; InterPro: IPR002156 The RNase H domain is responsible for hydrolysis of the RNA portion of RNA x DNA hybrids, and this activity requires the presence of divalent cations (Mg2+ or Mn2+) that bind its active site. This domain is a part of a large family of homologous RNase H enzymes of which the RNase HI protein from Escherichia coli is the best characterised []. Secondary structure predictions for the enzymes from E. coli, yeast, human liver and diverse retroviruses (such as Rous sarcoma virus and the Foamy viruses) supported, in every case, the five beta-strands (1 to 5) and four or five alpha-helices (A, B/C, D, E) that have been identified by crystallography in the RNase H domain of Human immunodeficiency virus 1 (HIV-1) reverse transcriptase and in E. coli RNase H []. Reverse transcriptase (RT) is a modular enzyme carrying polymerase and ribonuclease H (RNase H) activities in separable domains. Reverse transcriptase (RT) converts the single-stranded RNA genome of a retrovirus into a double-stranded DNA copy for integration into the host genome. This process requires ribonuclease H as well as RNA- and DNA-directed DNA polymerase activities. Retroviral RNase H is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. Bacterial RNase H 3.1.26.4 from EC catalyses endonucleolytic cleavage to 5'-phosphomonoester acting on RNA-DNA hybrids. The 3D structure of the RNase H domain from diverse bacteria and retroviruses has been solved [, , ]. All have four beta strands and four to five alpha helices. The E. coli RNase H1 protein binds a single Mg2+ ion cofactor in the active site of the enzyme. The divalent cation is bound by the carboxyl groups of four acidic residues, Asp-10, Glu-48, Asp-70, and Asp-134 []. The first three acidic residues are highly conserved in all bacterial and retroviral RNase H sequences. ; GO: 0003676 nucleic acid binding, 0004523 ribonuclease H activity; PDB: 3LP3_B 2KW4_A 3P1G_A 1RIL_A 2RPI_A 4EQJ_G 4EP2_B 3OTY_P 3U3G_D 2ZQB_D ....
Probab=99.87 E-value=3.5e-21 Score=127.88 Aligned_cols=119 Identities=18% Similarity=0.037 Sum_probs=92.8
Q ss_pred cEEEEeceeEecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHH
Q 042421 25 WLKINVDVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELV 104 (154)
Q Consensus 25 ~~k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i 104 (154)
-+.+|||||+..+++.+|+|+++.+. . ..+..++ ..|++.||+.|+..||+ +.. -.+|.|+|||+.+++.+
T Consensus 3 ~~~iytDgS~~~~~~~~~~g~v~~~~--~---~~~~~~~-~~s~~~aEl~Ai~~AL~-~~~--~~~v~I~tDS~~v~~~l 73 (132)
T PF00075_consen 3 AIIIYTDGSCRPNPGKGGAGYVVWGG--R---NFSFRLG-GQSNNRAELQAIIEALK-ALE--HRKVTIYTDSQYVLNAL 73 (132)
T ss_dssp SEEEEEEEEECTTTTEEEEEEEEETT--E---EEEEEEE-SECHHHHHHHHHHHHHH-THS--TSEEEEEES-HHHHHHH
T ss_pred cEEEEEeCCccCCCCceEEEEEEECC--e---EEEeccc-ccchhhhheehHHHHHH-Hhh--cccccccccHHHHHHHH
Confidence 47899999999999999999977433 2 2223344 67999999999999999 552 29999999999999988
Q ss_pred hc-----CCCCchhHHHHHHHHHHHhhcCCceEEEEeCCC-----CcHHHHHHHHhhh
Q 042421 105 NN-----RCSSMAEISWMISEILEMNNSFQNFRAQHTARI-----YNSAAHALGFRVC 152 (154)
Q Consensus 105 ~~-----~~~~~~~~~~li~~i~~l~~~~~~~~~~~i~r~-----~N~~Ad~LA~~a~ 152 (154)
+. ..........++.++..++.....+.|.||+++ +|..||.|||.|+
T Consensus 74 ~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~ 131 (132)
T PF00075_consen 74 NKWLHGNGWKKTSNGRPIKNEIWELLSRGIKVRFRWVPGHSGVPQGNERADRLAKEAA 131 (132)
T ss_dssp HTHHHHTTSBSCTSSSBHTHHHHHHHHHSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred HHhccccccccccccccchhheeeccccceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence 87 332222222466677777777889999999998 6889999999986
No 9
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.86 E-value=8.5e-21 Score=128.92 Aligned_cols=123 Identities=10% Similarity=-0.034 Sum_probs=95.4
Q ss_pred cEEEEeceeEecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHH
Q 042421 25 WLKINVDVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELV 104 (154)
Q Consensus 25 ~~k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i 104 (154)
.+.+|||||+..+++.+|+|+|+...++.....+ .. ...|++.||++|++.||+.+.+ ...|.|+|||+++++.|
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~~~~~~~--~~-~~~TN~~aEL~Ai~~AL~~~~~--~~~v~I~tDS~yvi~~i 77 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILRYKGHEKELSG--GE-ALTTNNRMELMAAIEALEALKE--PCEVTLYTDSQYVRQGI 77 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEEECCeeEEEec--CC-CCCcHHHHHHHHHHHHHHHcCC--CCeEEEEECHHHHHHHH
Confidence 3789999999999999999999987554433222 22 3568999999999999998764 35899999999999999
Q ss_pred hc--------CCCC----chhHHHHHHHHHHHhhcCCceEEEEeC----CCCcHHHHHHHHhhhc
Q 042421 105 NN--------RCSS----MAEISWMISEILEMNNSFQNFRAQHTA----RIYNSAAHALGFRVCK 153 (154)
Q Consensus 105 ~~--------~~~~----~~~~~~li~~i~~l~~~~~~~~~~~i~----r~~N~~Ad~LA~~a~~ 153 (154)
+. .... +-....+++++..++.. ..+.|.||+ ++.|..||.||+.|+.
T Consensus 78 ~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~-~~v~~~wV~~H~~~~~N~~AD~lA~~a~~ 141 (150)
T PRK00203 78 TEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKR-HQIKWHWVKGHAGHPENERCDELARAGAE 141 (150)
T ss_pred HHHHHHHHHcCCcccCCCccccHHHHHHHHHHhcc-CceEEEEecCCCCCHHHHHHHHHHHHHHH
Confidence 85 1111 11235577888777765 689999999 5679999999999875
No 10
>PRK06548 ribonuclease H; Provisional
Probab=99.85 E-value=4.2e-20 Score=125.90 Aligned_cols=121 Identities=15% Similarity=0.069 Sum_probs=94.0
Q ss_pred cEEEEeceeEecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHH
Q 042421 25 WLKINVDVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELV 104 (154)
Q Consensus 25 ~~k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i 104 (154)
.+.+|||||+.++++.+|+|+++.+. + .. ... ....|++.||++|++.||+.+. ....+|.|+|||+++++.+
T Consensus 5 ~~~IytDGa~~gnpg~~G~g~~~~~~-~-~~---~g~-~~~~TNnraEl~Aii~aL~~~~-~~~~~v~I~TDS~yvi~~i 77 (161)
T PRK06548 5 EIIAATDGSSLANPGPSGWAWYVDEN-T-WD---SGG-WDIATNNIAELTAVRELLIATR-HTDRPILILSDSKYVINSL 77 (161)
T ss_pred EEEEEEeeccCCCCCceEEEEEEeCC-c-EE---ccC-CCCCCHHHHHHHHHHHHHHhhh-cCCceEEEEeChHHHHHHH
Confidence 48999999999999999999998753 2 21 111 2357999999999999998554 4556899999999999999
Q ss_pred hc--------CCC----CchhHHHHHHHHHHHhhcCCceEEEEeCCC----CcHHHHHHHHhhhc
Q 042421 105 NN--------RCS----SMAEISWMISEILEMNNSFQNFRAQHTARI----YNSAAHALGFRVCK 153 (154)
Q Consensus 105 ~~--------~~~----~~~~~~~li~~i~~l~~~~~~~~~~~i~r~----~N~~Ad~LA~~a~~ 153 (154)
+. ... .+-.-..+++++..++.. ..++|.||+.+ .|..||.||+.|+.
T Consensus 78 ~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~-~~v~~~wVkgHsg~~gNe~aD~LA~~aa~ 141 (161)
T PRK06548 78 TKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMEN-RNIRMSWVNAHTGHPLNEAADSLARQAAN 141 (161)
T ss_pred HHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhc-CceEEEEEecCCCCHHHHHHHHHHHHHHH
Confidence 94 111 111346788888888876 47999999875 59999999999874
No 11
>KOG3752 consensus Ribonuclease H [Replication, recombination and repair]
Probab=99.55 E-value=9.5e-14 Score=104.11 Aligned_cols=133 Identities=14% Similarity=0.011 Sum_probs=98.7
Q ss_pred CcccCC-CCCcEEEEeceeEecCC---CeeeEEEEEecCCCceEeecccccc-ccchhHHHHHHHHHHHHHHHHHhCCce
Q 042421 16 DQWQSP-PIGWLKINVDVVVDVQK---QVVGLEVVIRDEKDNCIAAAVNTTK-YFGNVAMAEAAAIKWGMKVALRAGLAS 90 (154)
Q Consensus 16 ~~W~~p-~~g~~k~n~Dgs~~~~~---~~~g~G~vird~~g~~~~~~~~~~~-~~~s~~~AE~~Al~~aL~~a~~~~~~~ 90 (154)
..|..+ +.+.+.+|+|||+..+. ..+|+|+.+-+..-.-+ +.++. +..+++.||+.|+.+||+.|++....+
T Consensus 202 k~~~d~e~~~~~vvytDGS~~~ng~~~~~AGyGvywg~~~e~N~---s~pv~~g~qtNnrAEl~Av~~ALkka~~~~~~k 278 (371)
T KOG3752|consen 202 KLENDREEIEIQVVYTDGSSSGNGRKSSRAGYGVYWGPGHELNV---SGPLAGGRQTNNRAELIAAIEALKKARSKNINK 278 (371)
T ss_pred hcccccccccceEEEecCccccCCCCCCcceeEEeeCCCCcccc---cccCCCCcccccHHHHHHHHHHHHHHHhcCCCc
Confidence 345554 34668899999999863 56888888765432222 23444 678999999999999999999999999
Q ss_pred EEEeccHHHHHHHHhcC------------CCCc-----hhHHHHHHHHHHHhhc--CCceEEEEeCCC----CcHHHHHH
Q 042421 91 VLLESDCLEVVELVNNR------------CSSM-----AEISWMISEILEMNNS--FQNFRAQHTARI----YNSAAHAL 147 (154)
Q Consensus 91 v~iesDs~~vi~~i~~~------------~~~~-----~~~~~li~~i~~l~~~--~~~~~~~~i~r~----~N~~Ad~L 147 (154)
|+|.|||.+++++|+.. .... -.-...+.++.++.+. ...+++.||+.+ +|..||.|
T Consensus 279 v~I~TDS~~~i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~l 358 (371)
T KOG3752|consen 279 VVIRTDSEYFINSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADAL 358 (371)
T ss_pred EEEEechHHHHHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHH
Confidence 99999999999999760 0000 1123345566666665 478999999975 69999999
Q ss_pred HHhh
Q 042421 148 GFRV 151 (154)
Q Consensus 148 A~~a 151 (154)
|+..
T Consensus 359 ARkg 362 (371)
T KOG3752|consen 359 ARKG 362 (371)
T ss_pred Hhhh
Confidence 9987
No 12
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.90 E-value=3.4e-05 Score=59.97 Aligned_cols=116 Identities=19% Similarity=0.156 Sum_probs=87.5
Q ss_pred CCeeeEEEEEecC-CCceEeecccccc--ccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCch--
Q 042421 38 KQVVGLEVVIRDE-KDNCIAAAVNTTK--YFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMA-- 112 (154)
Q Consensus 38 ~~~~g~G~vird~-~g~~~~~~~~~~~--~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~-- 112 (154)
...+|.|+.+.|. +............ ...++..||++|+..+|..+.++|+.++.+++|...+...+.++.....
T Consensus 16 ~~~~g~~vai~d~~d~~~~f~~k~~~~~~~~~~~~~ae~~al~~~l~ea~~~~~~~~~~~~d~~~~~~~v~~~~~~~~~~ 95 (384)
T KOG1812|consen 16 ILLAGFGVAICDEHDDDLLFQMKASDHDSDSITPLEAELMALKRGLTEALELGLNHIVIYCDDELIYESVAGREKPEQHR 95 (384)
T ss_pred hhcccCceeeeccccHHHHHHhhcCcccccccchhhHHHHHHhhccHHHHhhccccceEecccHHHHHHHhhhhhHHHHH
Confidence 3468899999886 4433332222222 2367999999999999999999999999999998888887777654433
Q ss_pred hHHHHHHHHHHHhhcCCceEEEEeCCC-CcHHHHHHHHhhhc
Q 042421 113 EISWMISEILEMNNSFQNFRAQHTARI-YNSAAHALGFRVCK 153 (154)
Q Consensus 113 ~~~~li~~i~~l~~~~~~~~~~~i~r~-~N~~Ad~LA~~a~~ 153 (154)
.+..++.+.+.+...+....-..+++. ....|-.||+++..
T Consensus 96 ~~~~l~~~v~~~r~~l~~~~~i~~~~~~d~~~~~~lA~e~i~ 137 (384)
T KOG1812|consen 96 KIVLLVELVQRIREQLTSSEPILVPKNADIKFAYKLAREAIV 137 (384)
T ss_pred HHHHHHHHHHHHHHHhhcccceecccchhhHHHHHHHHHhhc
Confidence 567788888888888877777777665 55779999998764
No 13
>cd01284 Riboflavin_deaminase-reductase Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the biosynthesis of riboflavin.The ribG gene of Bacillus subtilis and the ribD gene of E. coli are bifunctional and contain this deaminase domain and a reductase domain which catalyzes the subsequent reduction of the ribosyl side chain.
Probab=90.63 E-value=0.84 Score=29.49 Aligned_cols=50 Identities=14% Similarity=0.038 Sum_probs=35.6
Q ss_pred CeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEec
Q 042421 39 QVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLES 95 (154)
Q Consensus 39 ~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~ies 95 (154)
+...+|+||.+++|+++..+..... ...+||..|+..+.+. .+...++++
T Consensus 17 ~~~pvGaviv~~~g~iv~~g~n~~~---~~~HAE~~ai~~a~~~----~l~g~tly~ 66 (115)
T cd01284 17 PNPPVGCVIVDDDGEIVGEGYHRKA---GGPHAEVNALASAGEK----LARGATLYV 66 (115)
T ss_pred CCCCEEEEEEeCCCeEEEEecCCCC---CcccHHHHHHHHHhhc----CCCCeEEEE
Confidence 3456888888888999887665443 5789999999998764 444444443
No 14
>cd01285 nucleoside_deaminase Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. The functional enzyme is a homodimer. Cytosine deaminase catalyzes the deamination of cytosine to uracil and ammonia and is a member of the pyrimidine salvage pathway. Cytosine deaminase is found in bacteria and fungi but is not present in mammals; for this reason, the enzyme is currently of interest for antimicrobial drug design and gene therapy applications against tumors. Some members of this family are tRNA-specific adenosine deaminases that generate inosine at the first position of their anticodon (position 34) of specific tRNAs; this modification is thought to enlarge the codon recognition capacity during protei
Probab=90.11 E-value=1 Score=28.56 Aligned_cols=58 Identities=24% Similarity=0.127 Sum_probs=39.6
Q ss_pred CeeeEEEEEecCCCceEeecccccc-ccchhHHHHHHHHHHHHHHHHHhCCceEEEecc
Q 042421 39 QVVGLEVVIRDEKDNCIAAAVNTTK-YFGNVAMAEAAAIKWGMKVALRAGLASVLLESD 96 (154)
Q Consensus 39 ~~~g~G~vird~~g~~~~~~~~~~~-~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesD 96 (154)
+...+|++|.+.+|+++..+..... ......+||..|+..+.+......+....+++.
T Consensus 15 ~~~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~t 73 (109)
T cd01285 15 GEVPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTT 73 (109)
T ss_pred CCCcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEEe
Confidence 4557888998888998876554432 234578999999998876644334566666653
No 15
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=89.86 E-value=1.1 Score=29.83 Aligned_cols=57 Identities=16% Similarity=0.169 Sum_probs=44.6
Q ss_pred eeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccH
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDC 97 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs 97 (154)
..-+|++++..+|++..+..-......-...||-.|+..++.. -...+..|.+.+|.
T Consensus 25 ~F~VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~~ais~-G~~~~~~v~v~~~~ 81 (134)
T COG0295 25 KFKVGAALRTKDGRIYTGANVENASYGLTVCAERSAIFKAISE-GKRKFDAVVVVADT 81 (134)
T ss_pred CCcEEEEEEeCCCCEEEEEeeecccccchhhHHHHHHHHHHHc-CCCcEEEEEEEcCC
Confidence 4568999999999888776554445566789999999988877 55667899998887
No 16
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=89.71 E-value=0.97 Score=30.71 Aligned_cols=58 Identities=24% Similarity=0.103 Sum_probs=42.0
Q ss_pred CeeeEEEEEecCCCceEeecccccccc-chhHHHHHHHHHHHHHHHHHhCCceEEEecc
Q 042421 39 QVVGLEVVIRDEKDNCIAAAVNTTKYF-GNVAMAEAAAIKWGMKVALRAGLASVLLESD 96 (154)
Q Consensus 39 ~~~g~G~vird~~g~~~~~~~~~~~~~-~s~~~AE~~Al~~aL~~a~~~~~~~v~iesD 96 (154)
+...+|+||.+..|.++..+....... .-..+||..|+..|-+......+...++++-
T Consensus 26 ge~PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~a~~~~~~~~l~~~tlyvT 84 (152)
T COG0590 26 GEVPVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRAAAETLGNYRLKDCTLYVT 84 (152)
T ss_pred CCCCEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHHHHHhhCCCCcCCcEEEEe
Confidence 356789999998888888665544333 2345999999999999887666666666653
No 17
>TIGR01354 cyt_deam_tetra cytidine deaminase, homotetrameric. This small, homotetrameric zinc metalloprotein is found in humans and most bacteria. A related, homodimeric form with a much larger subunit is found in E. coli and in Arabidopsis. Both types may act on deoxycytidine as well as cytidine.
Probab=88.48 E-value=1.1 Score=29.41 Aligned_cols=57 Identities=7% Similarity=0.078 Sum_probs=40.0
Q ss_pred eeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccH
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDC 97 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs 97 (154)
....|+++++.+|+++.+.............||..|+..+...-. ..+..+.+.++.
T Consensus 20 ~~~vgAa~~~~~G~i~~G~n~e~~~~~~s~~AE~~Ai~~a~~~g~-~~i~~i~vv~~~ 76 (127)
T TIGR01354 20 NFKVGAALLTKDGRIFTGVNVENASYPLTICAERSAIGKAISAGY-RKFVAIAVADSA 76 (127)
T ss_pred CCeEEEEEEeCCCCEEEEEeecccCCCCCcCHHHHHHHHHHHcCC-CCeEEEEEEeCC
Confidence 446888889889998885544333344567999999998876532 256777776654
No 18
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=85.07 E-value=2.3 Score=29.51 Aligned_cols=41 Identities=22% Similarity=0.163 Sum_probs=28.2
Q ss_pred eeeEEEEEecCCCceEeeccccccc-cchhHHHHHHHHHHHHH
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTKY-FGNVAMAEAAAIKWGMK 81 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~~-~~s~~~AE~~Al~~aL~ 81 (154)
...+|+||.+ +|+++..+...... .....+||..|+..|.+
T Consensus 32 ~~pvGAVIV~-~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~ 73 (172)
T PRK10860 32 EVPVGAVLVH-NNRVIGEGWNRPIGRHDPTAHAEIMALRQGGL 73 (172)
T ss_pred CCCEEEEEEe-CCEEEEEeeCCCCCCCCCccCHHHHHHHHHHH
Confidence 3467888876 58888876554322 22357899999998865
No 19
>cd00786 cytidine_deaminase-like Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate.
Probab=84.59 E-value=4.9 Score=24.81 Aligned_cols=43 Identities=9% Similarity=0.062 Sum_probs=27.9
Q ss_pred CeeeEEEEEecC-CCceEeeccccc-cccchhHHHHHHHHHHHHH
Q 042421 39 QVVGLEVVIRDE-KDNCIAAAVNTT-KYFGNVAMAEAAAIKWGMK 81 (154)
Q Consensus 39 ~~~g~G~vird~-~g~~~~~~~~~~-~~~~s~~~AE~~Al~~aL~ 81 (154)
+...+|+++.+. +|.++..+.... ........||..|+..+.+
T Consensus 16 ~~~pVGaviv~~~~g~ii~~g~n~~~~~~~~~~HAE~~ai~~a~~ 60 (96)
T cd00786 16 SNFQVGACLVNKKDGGKVGRGCNIENAAYSMCNHAERTALFNAGS 60 (96)
T ss_pred CCCCEEEEEEEeCCCCeEeeeEeccCCCCCCeeCHHHHHHHHHHH
Confidence 455677777765 577766544322 2234568999999987654
No 20
>TIGR02571 ComEB ComE operon protein 2. This protein is found in the ComE operon for "late competence" as characterized in B. subtilis. Proteins in this family contain homology to a cytidine/deoxycytidine deaminase domain family (pfam00383), and may carry out this activity.
Probab=82.05 E-value=7.3 Score=26.44 Aligned_cols=40 Identities=18% Similarity=0.021 Sum_probs=26.1
Q ss_pred eeeEEEEEecCCCceEeecccccccc----------------chhHHHHHHHHHHHH
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTKYF----------------GNVAMAEAAAIKWGM 80 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~~~----------------~s~~~AE~~Al~~aL 80 (154)
...+|+||.. +|+++..+....+.- ....+||..|+..+.
T Consensus 24 ~~~VGAVIV~-d~~IIs~GyN~~~~g~~~~~~~~~~~~~~~~~~~~HAE~nAI~~a~ 79 (151)
T TIGR02571 24 RLSVGATIVR-DKRIIAGGYNGSVAGGVHCIDEGCYVVDGHCVRTIHAEMNALLQCA 79 (151)
T ss_pred CCCEEEEEEE-CCEEEEEEECCCCCCCCccccccccccccccCCccCHHHHHHHHHH
Confidence 3467777764 577887666554321 124799999999874
No 21
>cd01283 cytidine_deaminase Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on the substrate. Cytidine deaminases catalyze the deamination of cytidine to uridine and are important in the pyrimadine salvage pathway in many cell types, from bacteria to humans. This family also includes the apoBec proteins, which are a mammal specific expansion of RNA editing enzymes, and the closely related phorbolins, and the AID (activation-induced) enzymes.
Probab=80.69 E-value=4.5 Score=25.68 Aligned_cols=45 Identities=11% Similarity=0.083 Sum_probs=32.0
Q ss_pred CeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHH
Q 042421 39 QVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVA 83 (154)
Q Consensus 39 ~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a 83 (154)
+...+|+++...+|.++.+.............||..|+..+...-
T Consensus 16 ~~~~vga~i~~~~g~i~~G~n~e~~~~~~~~hAE~~ai~~~~~~~ 60 (112)
T cd01283 16 SNFTVGAALLTKDGRIFTGVNVENASYGLTLCAERTAIGKAVSEG 60 (112)
T ss_pred CCCeEEEEEEECCCCEEEeEEeecCCCCCCcCHHHHHHHHHHHcC
Confidence 456788888888888876544444444567899999998877533
No 22
>PF00336 DNA_pol_viral_C: DNA polymerase (viral) C-terminal domain; InterPro: IPR001462 This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein. The domain is always associated with IPR000201 from INTERPRO and .; GO: 0004523 ribonuclease H activity
Probab=79.48 E-value=5.9 Score=28.36 Aligned_cols=91 Identities=14% Similarity=0.048 Sum_probs=54.9
Q ss_pred EEEEeceeEecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHh
Q 042421 26 LKINVDVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVN 105 (154)
Q Consensus 26 ~k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~ 105 (154)
-.+..|+ ...|+|..+.. |.....++. ..+...+|++|...|..+.. -++ +-||+..|+ .
T Consensus 95 c~VfaDA------TpTgwgi~i~~--~~~~~Tfs~----~l~IhtaELlaaClAr~~~~----~r~-l~tDnt~Vl---s 154 (245)
T PF00336_consen 95 CQVFADA------TPTGWGISITG--QRMRGTFSK----PLPIHTAELLAACLARLMSG----ARC-LGTDNTVVL---S 154 (245)
T ss_pred CceeccC------CCCcceeeecC--ceeeeeecc----cccchHHHHHHHHHHHhccC----CcE-EeecCcEEE---e
Confidence 3445565 34577777533 334444443 34678999999876554332 233 788998874 3
Q ss_pred cCCC-CchhHHHHHHHHHHHhhcCCceEEEEeCCCCcH
Q 042421 106 NRCS-SMAEISWMISEILEMNNSFQNFRAQHTARIYNS 142 (154)
Q Consensus 106 ~~~~-~~~~~~~li~~i~~l~~~~~~~~~~~i~r~~N~ 142 (154)
++.. .++.++.+-+.| ....+|.|||...|-
T Consensus 155 rkyts~PW~lac~A~wi------Lrgts~~yVPS~~NP 186 (245)
T PF00336_consen 155 RKYTSFPWLLACAANWI------LRGTSFYYVPSKYNP 186 (245)
T ss_pred cccccCcHHHHHHHHHh------hcCceEEEeccccCc
Confidence 4433 245555554444 456789999998885
No 23
>PRK14828 undecaprenyl pyrophosphate synthase; Provisional
Probab=77.39 E-value=19 Score=26.74 Aligned_cols=91 Identities=13% Similarity=0.024 Sum_probs=52.2
Q ss_pred eeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHH
Q 042421 41 VGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISE 120 (154)
Q Consensus 41 ~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~ 120 (154)
.-+|+| -|.++++-.. ..++....-..+=+.++..-++++.++|++.|.++.=|.. +-..+..++..+++-
T Consensus 28 ~HvAiI-mDGNrRwA~~--~gl~~~~~GH~~G~~~l~~~~~~~~~~gIk~lTvYaFS~e------N~~R~~~Ev~~Lm~L 98 (256)
T PRK14828 28 GHVGII-VDGNRRWARK--AGFTDVSQGHRAGAAKIGEFLGWCDETDVNVVTLYLLSTD------NLGRPSEELNPLLDI 98 (256)
T ss_pred CEEEEE-ecCChHHHHH--cCCCchHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEEEhh------hcCCCHHHHHHHHHH
Confidence 345544 4888876422 1122111456678889999999999999999999876632 111223343333332
Q ss_pred HHHHhh---cCCceEEEEeCCCC
Q 042421 121 ILEMNN---SFQNFRAQHTARIY 140 (154)
Q Consensus 121 i~~l~~---~~~~~~~~~i~r~~ 140 (154)
+...+. .-..+++.++++-.
T Consensus 99 ~~~~l~~~~~~~~irv~~iG~~~ 121 (256)
T PRK14828 99 IEDVVRQLAPDGRWRVRHVGSLD 121 (256)
T ss_pred HHHHHHHHHHhCCeEEEEECChh
Confidence 222221 23466777777543
No 24
>PF00383 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deaminase zinc-binding region; InterPro: IPR002125 Cytidine deaminase (3.5.4.5 from EC) (cytidine aminohydrolase) catalyzes the hydrolysis of cytidine into uridine and ammonia while deoxycytidylate deaminase (3.5.4.12 from EC) (dCMP deaminase) hydrolyzes dCMP into dUMP. Both enzymes are known to bind zinc and to require it for their catalytic activity [, ]. These two enzymes do not share any sequence similarity with the exception of a region that contains three conserved histidine and cysteine residues which are thought to be involved in the binding of the catalytic zinc ion. Such a region is also found in other proteins [, ]: Yeast cytosine deaminase (3.5.4.1 from EC) (gene FCY1) which transforms cytosine into uracil. Mammalian apolipoprotein B mRNA editing protein, responsible for the postranscriptional editing of a CAA codon into a UAA (stop) codon in the APOB mRNA. Riboflavin biosynthesis protein ribG, which converts 2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate. Bacillus cereus blasticidin-S deaminase (3.5.4.23 from EC), which catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S. Bacillus subtilis protein comEB. This protein is required for the binding and uptake of transforming DNA. B. subtilis hypothetical protein yaaJ. Escherichia coli hypothetical protein yfhC. Yeast hypothetical protein YJL035c. ; GO: 0008270 zinc ion binding, 0016787 hydrolase activity; PDB: 3MPZ_C 3R2N_C 1WKQ_A 1TIY_B 2B3J_C 2O7P_B 2OBC_A 2G6V_B 2D30_B 2D5N_B ....
Probab=77.12 E-value=5.2 Score=24.65 Aligned_cols=57 Identities=21% Similarity=0.073 Sum_probs=35.2
Q ss_pred CCeeeEEEEEecCCCceEeecccccc-ccchhHHHHHHHHHHHHHHHHHhCCceEEEec
Q 042421 38 KQVVGLEVVIRDEKDNCIAAAVNTTK-YFGNVAMAEAAAIKWGMKVALRAGLASVLLES 95 (154)
Q Consensus 38 ~~~~g~G~vird~~g~~~~~~~~~~~-~~~s~~~AE~~Al~~aL~~a~~~~~~~v~ies 95 (154)
.+...+|++|.+++|.++..+..... .......||..|+..+.+. ....+...++++
T Consensus 21 ~~~~~vgaviv~~~~~~i~~g~n~~~~~~~~~~HAE~~Ai~~~~~~-~~~~~~~~~lyv 78 (102)
T PF00383_consen 21 CGNFPVGAVIVDPDGKIIATGYNGEPPGKNPTIHAEMNAIRKAARN-GGSSLKGCTLYV 78 (102)
T ss_dssp TTSSSEEEEEEETTTEEEEEEESBHHSTTGGTB-HHHHHHHHHHHT-TSSGETTEEEEE
T ss_pred cCCCCEEEEEEeccCccEEEEeeeeeeeccccccchhhhhhhhhhh-ccccccCccccc
Confidence 45678899999977777665554332 2334579999999888776 222233445544
No 25
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=76.64 E-value=13 Score=25.61 Aligned_cols=13 Identities=31% Similarity=0.212 Sum_probs=10.8
Q ss_pred hHHHHHHHHHHHH
Q 042421 68 VAMAEAAAIKWGM 80 (154)
Q Consensus 68 ~~~AE~~Al~~aL 80 (154)
..+||..|++.+-
T Consensus 81 ~~HAE~nAi~~a~ 93 (168)
T PHA02588 81 EIHAELNAILFAA 93 (168)
T ss_pred CccHHHHHHHHHh
Confidence 5699999998874
No 26
>cd01286 deoxycytidylate_deaminase Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the enzyme is allosterically regulated by the ratio of dCTP to dTTP not only in eukaryotic cells but also in T-even phage-infected Escherichia coli, with dCTP acting as an activator and dTTP as an inhibitor.
Probab=74.61 E-value=9.6 Score=25.09 Aligned_cols=52 Identities=19% Similarity=0.123 Sum_probs=31.4
Q ss_pred eeeEEEEEecCCCceEeecccccc----------------------ccchhHHHHHHHHHHHHHHHHHhCCceEEEe
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTK----------------------YFGNVAMAEAAAIKWGMKVALRAGLASVLLE 94 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~----------------------~~~s~~~AE~~Al~~aL~~a~~~~~~~v~ie 94 (154)
...+|+||.++ |+++..+..... ......+||..||..+.+. ...+....++
T Consensus 19 ~~~VGAViv~~-~~iI~~G~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~HAE~~Ai~~a~~~--~~~~~~~tLy 92 (131)
T cd01286 19 RRQVGAVIVKD-KRIISTGYNGSPSGLPHCAEVGCERDDLPSGEDQKCCRTVHAEQNAILQAARH--GVSLEGATLY 92 (131)
T ss_pred CCCEEEEEEEC-CEEEEEeeCCCCCCCCCcccccccccccccccccccCCCCCHHHHHHHHHhHc--CCCcCCeEEE
Confidence 34677778764 667766554432 1124689999999987653 2233444444
No 27
>PRK14835 undecaprenyl pyrophosphate synthase; Provisional
Probab=74.53 E-value=29 Score=26.06 Aligned_cols=89 Identities=13% Similarity=0.009 Sum_probs=54.0
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEI 121 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i 121 (154)
-+|+| -|.++++-.. ..++ ...-..+=+.++..-++++.++|++.|.++.=|.. +-..+..+...++.-+
T Consensus 44 HVAiI-mDGNrRwAk~--~g~~-~~~GH~~G~~~l~~i~~~c~~lGIk~lTvYaFS~E------N~~R~~~EV~~Lm~L~ 113 (275)
T PRK14835 44 HLGLI-LDGNRRFARA--LGLQ-REMGHEFGVQKAYEVLEWCLELGIPTVTIWVFSTD------NFSRSPAEVETLMNLF 113 (275)
T ss_pred EEEEE-ecCchHHHHH--CCCC-HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEEEcc------ccCCCHHHHHHHHHHH
Confidence 45554 4888876322 1122 23456777888999999999999999999877632 2222334555443333
Q ss_pred HHHhhc--------CCceEEEEeCCCC
Q 042421 122 LEMNNS--------FQNFRAQHTARIY 140 (154)
Q Consensus 122 ~~l~~~--------~~~~~~~~i~r~~ 140 (154)
...+.. -..+++.++++..
T Consensus 114 ~~~l~~~~~~~~~~~~~irir~iGd~~ 140 (275)
T PRK14835 114 EREARRMAVDPRIHANRVRVRAIGRHD 140 (275)
T ss_pred HHHHHHHhchhhhhhCCeEEEEecChh
Confidence 322211 1368888888653
No 28
>PRK12411 cytidine deaminase; Provisional
Probab=70.97 E-value=11 Score=24.93 Aligned_cols=57 Identities=9% Similarity=0.109 Sum_probs=39.0
Q ss_pred eeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccH
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDC 97 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs 97 (154)
...+|++++..+|++..+.........-..-||..|+..++..- ...+..|.+-+|.
T Consensus 23 ~~~VgAa~~t~~G~i~~G~nvEn~s~~~s~CAE~~Ai~~av~~g-~~~i~~i~v~~~~ 79 (132)
T PRK12411 23 KFQVGAALLTQDGKVYRGCNVENASYGLCNCAERTALFKAVSEG-DKEFVAIAIVADT 79 (132)
T ss_pred CCceEEEEEeCCCCEEEEEEeecCCCCcCcCHHHHHHHHHHHCC-CCceEEEEEEeCC
Confidence 45688999999999887665433333446789999888876431 2346777777654
No 29
>PRK05578 cytidine deaminase; Validated
Probab=69.72 E-value=11 Score=24.98 Aligned_cols=56 Identities=11% Similarity=0.100 Sum_probs=38.5
Q ss_pred eeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccH
Q 042421 41 VGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDC 97 (154)
Q Consensus 41 ~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs 97 (154)
...|+.++..+|++..+.........-..-||..|+..++..- ...+..+.+-+|.
T Consensus 24 f~Vgaa~~~~~G~i~~G~nvEna~~~~~~CAE~~Ai~~av~~G-~~~i~~i~vv~~~ 79 (131)
T PRK05578 24 FPVGAALLTDDGRIYTGCNIENASYGLTNCAERTAIFKAISEG-GGRLVAIACVGET 79 (131)
T ss_pred CceEEEEEeCCCCEEEEEEeeCccccCCcCHHHHHHHHHHHcC-CCceEEEEEEecC
Confidence 4688999999999887765333223356789999998876432 2356777777655
No 30
>PRK14834 undecaprenyl pyrophosphate synthase; Provisional
Probab=66.41 E-value=40 Score=24.97 Aligned_cols=52 Identities=15% Similarity=0.052 Sum_probs=37.2
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDC 97 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs 97 (154)
-+| +|-|.++++-... .+ ....-..+=+..+..-++++.++|++.|.+|.=|
T Consensus 17 HVA-iImDGNrRwAk~~--g~-~~~~GH~~G~~~l~~i~~~c~~lgI~~lTvYaFS 68 (249)
T PRK14834 17 HVA-IIMDGNGRWAKAR--GL-PRAAGHRAGVEALRRVVRAAGELGIGYLTLFAFS 68 (249)
T ss_pred eEE-EEecCchHHHHHC--CC-chhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEEe
Confidence 344 4458888764321 12 2344667778889999999999999999999866
No 31
>PRK08298 cytidine deaminase; Validated
Probab=61.14 E-value=21 Score=23.83 Aligned_cols=55 Identities=15% Similarity=0.096 Sum_probs=36.7
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDC 97 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs 97 (154)
.+|+.++..+|+++.+..-.........-||..|+..++..- ...+..|.+.+|.
T Consensus 24 ~VgAAllt~dG~i~tG~NvEnas~~~t~CAEr~Ai~~av~~G-~~~~~~i~v~~~~ 78 (136)
T PRK08298 24 GGAAAMRVEDGTILTSVAPEVINASTELCMETGAICEAHKLQ-KRVTHSICVAREN 78 (136)
T ss_pred ceeEEEEeCCCCEEEEEeecCCCCCcchhHHHHHHHHHHHCC-CceEEEEEEEcCC
Confidence 788888899999887655333334457789999998776432 1224556665554
No 32
>PRK06848 hypothetical protein; Validated
Probab=61.10 E-value=22 Score=23.75 Aligned_cols=56 Identities=14% Similarity=0.033 Sum_probs=37.0
Q ss_pred eeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEecc
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESD 96 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesD 96 (154)
...+|+.++..+|.+..+..-.........-||-.|+..++..- ...+..|.+-++
T Consensus 26 ~f~VgAa~l~~~G~i~~G~NvEnas~~~tiCAEr~Ai~~av~~g-~~~i~~i~~v~~ 81 (139)
T PRK06848 26 WHHVGAALRTKTGRIYAAVHLEAYVGRITVCAEAIAIGKAISEG-DHEIDTIVAVRH 81 (139)
T ss_pred CCcEEEEEEeCCCCEEEEEEeecCCCCcccCHHHHHHHHHHHcC-CCceEEEEEEec
Confidence 46789999999999887655333334456799999998877541 123555644443
No 33
>PRK14841 undecaprenyl pyrophosphate synthase; Provisional
Probab=60.09 E-value=63 Score=23.67 Aligned_cols=88 Identities=15% Similarity=0.082 Sum_probs=53.4
Q ss_pred EEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHH
Q 042421 45 VVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEM 124 (154)
Q Consensus 45 ~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l 124 (154)
++|-|.++++-... .+ ....-..+=+.++.+-++++.++|++.|.++.=|.. +-..+..+...++.-+...
T Consensus 8 aiImDGNrRwAk~~--g~-~~~~GH~~G~~~l~~i~~~~~~lgIk~lTvYaFS~e------N~~R~~~Ev~~Lm~L~~~~ 78 (233)
T PRK14841 8 AIIMDGNGRWAKKR--GL-PRIKGHQRGAEVLHNTVKWSLELGIKYLTAFSFSTE------NWKRPKEEVEFLMDLFVQM 78 (233)
T ss_pred EEEccCCHHHHHHC--CC-chhhhHHHHHHHHHHHHHHHHHcCCCEEEEEeeeHh------hcCCCHHHHHHHHHHHHHH
Confidence 35558888774322 12 234577888899999999999999999999864421 1112333444443333222
Q ss_pred hhc------CCceEEEEeCCCCc
Q 042421 125 NNS------FQNFRAQHTARIYN 141 (154)
Q Consensus 125 ~~~------~~~~~~~~i~r~~N 141 (154)
+.+ -..+++.+|.+-..
T Consensus 79 l~~~~~~~~~~~irvr~iG~~~~ 101 (233)
T PRK14841 79 IDREMELLRRERVRVRILGRKEG 101 (233)
T ss_pred HHHHHHHHHHcCcEEEEEeChhh
Confidence 111 24678888886543
No 34
>COG0084 TatD Mg-dependent DNase [DNA replication, recombination, and repair]
Probab=59.35 E-value=5 Score=29.74 Aligned_cols=46 Identities=20% Similarity=0.249 Sum_probs=29.1
Q ss_pred HHHHHHhCCceEEEeccHHHHHHH-HhcCCCCchhHHHHHHHHHHHh
Q 042421 80 MKVALRAGLASVLLESDCLEVVEL-VNNRCSSMAEISWMISEILEMN 125 (154)
Q Consensus 80 L~~a~~~~~~~v~iesDs~~vi~~-i~~~~~~~~~~~~li~~i~~l~ 125 (154)
-+.+...-..++.+||||.++--. ..++...+......++.+..+.
T Consensus 189 ~ev~~~iPldrLL~ETDsPyl~P~p~rGkrNeP~~v~~v~~~iAelk 235 (256)
T COG0084 189 REVARELPLDRLLLETDAPYLAPVPYRGKRNEPAYVRHVAEKLAELK 235 (256)
T ss_pred HHHHHhCCHhHeEeccCCCCCCCcCCCCCCCCchHHHHHHHHHHHHh
Confidence 445667788999999999998654 4443333444444455554443
No 35
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=59.15 E-value=42 Score=22.70 Aligned_cols=58 Identities=17% Similarity=0.114 Sum_probs=34.3
Q ss_pred CcEEEEeceeEecCCCeeeEEEEEec-CCCc----eEeecccccc-ccchhHHHHHHHHHHHHHHHHH
Q 042421 24 GWLKINVDVVVDVQKQVVGLEVVIRD-EKDN----CIAAAVNTTK-YFGNVAMAEAAAIKWGMKVALR 85 (154)
Q Consensus 24 g~~k~n~Dgs~~~~~~~~g~G~vird-~~g~----~~~~~~~~~~-~~~s~~~AE~~Al~~aL~~a~~ 85 (154)
..+-.++|||-. ..|..+.+|. .+|. ++.+.++--+ ...|.=.-|+.|+..|.+++..
T Consensus 80 ~~L~~F~DAS~~----aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~ 143 (159)
T PF05380_consen 80 VELHVFCDASES----AYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANT 143 (159)
T ss_pred eeeeEeeccccc----ceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 457788998854 2233333444 2232 4444443221 1237888999999999998853
No 36
>cd00475 CIS_IPPS Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl diphosphates. A few can also catalyze the condensation of IPP to trans-geranyl diphosphate to form the short-chain cis,trans- FPP. In prokaryotes, the cis-IPPS, undecaprenyl diphosphate synthase (UPP synthase) catalyzes the formation of the carrier lipid UPP in bacterial cell wall peptidooglycan biosynthesis. Similarly, in eukaryotes, the cis-IPPS, dehydrodolichyl diphosphate (dedol-PP) synthase catalyzes the formation of the polyisoprenoid glycosyl carrier lipid dolichyl monophosphate. cis-IPPS are mechanistically and structurally distinct from trans-IPPS, lacking the DDXXD motifs, yet requiring Mg2+ for activity.
Probab=57.96 E-value=67 Score=23.29 Aligned_cols=87 Identities=13% Similarity=0.051 Sum_probs=52.2
Q ss_pred EEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHH
Q 042421 45 VVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEM 124 (154)
Q Consensus 45 ~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l 124 (154)
++|-|.++++-... .+ ....-..+=+..+..-++++.++|++.|.++.=|..- ++ .+..++..+++-+...
T Consensus 5 aiImDGNrRwA~~~--gl-~~~~GH~~G~~~~~~i~~~~~~~gI~~lTvyaFS~eN---~~---R~~~EV~~Lm~l~~~~ 75 (221)
T cd00475 5 AFIMDGNRRWAKQR--GM-DRIEGHKAGAEKLRDILRWCLELGVKEVTLYAFSTEN---WK---RPKEEVDFLMELFRDV 75 (221)
T ss_pred EEecCCCHHHHHHC--CC-ChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEeechhh---hC---cCHHHHHHHHHHHHHH
Confidence 45568888764322 12 2345778888899999999999999999998544221 11 2233444333332222
Q ss_pred ----hhc--CCceEEEEeCCCC
Q 042421 125 ----NNS--FQNFRAQHTARIY 140 (154)
Q Consensus 125 ----~~~--~~~~~~~~i~r~~ 140 (154)
... -..+++.++++..
T Consensus 76 l~~~~~~~~~~~i~vr~iGd~~ 97 (221)
T cd00475 76 LRRILKELEKLGVRIRIIGDLS 97 (221)
T ss_pred HHHHHHHHHHCCcEEEEEeChh
Confidence 111 2467888887654
No 37
>TIGR00055 uppS undecaprenyl diphosphate synthase. Alternate name: undecaprenyl pyrophosphate synthetase. Activity has been demonstrated experimentally for members of this family from Micrococcus luteus, E. coli, Haemophilus influenzae, and Streptococcus pneumoniae.
Probab=57.63 E-value=72 Score=23.26 Aligned_cols=87 Identities=11% Similarity=0.070 Sum_probs=53.0
Q ss_pred EEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHH
Q 042421 45 VVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEM 124 (154)
Q Consensus 45 ~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l 124 (154)
++|-|.+|++-... .+ ....-..+=+.++..-++++.++|++.|.++.=|.. +-..+..+...|++-+...
T Consensus 4 AiImDGNrRwAk~~--gl-~~~~GH~~G~~~~~~v~~~c~~~GI~~lT~yaFStE------N~~Rp~~EV~~Lm~L~~~~ 74 (226)
T TIGR00055 4 AIIMDGNGRWAKKK--GK-PRAYGHKAGVKSLRRILRWCANLGVECLTLYAFSTE------NWKRPKEEVDFLMELFEKK 74 (226)
T ss_pred EEEcCCCHHHHHHC--CC-ChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEEeehh------hcCcCHHHHHHHHHHHHHH
Confidence 35668888774322 22 234577888889999999999999999999864421 1112333444443332221
Q ss_pred hhc------CCceEEEEeCCCC
Q 042421 125 NNS------FQNFRAQHTARIY 140 (154)
Q Consensus 125 ~~~------~~~~~~~~i~r~~ 140 (154)
+.+ -.++++.++++-.
T Consensus 75 l~~~~~~~~~~~irvr~iGd~~ 96 (226)
T TIGR00055 75 LDREVKELHRYNVRIRIIGDLS 96 (226)
T ss_pred HHHHHHHHHHCCCEEEEEeChh
Confidence 111 1467888888754
No 38
>PRK14837 undecaprenyl pyrophosphate synthase; Provisional
Probab=56.76 E-value=76 Score=23.24 Aligned_cols=87 Identities=17% Similarity=0.052 Sum_probs=53.0
Q ss_pred EEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHH
Q 042421 45 VVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEM 124 (154)
Q Consensus 45 ~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l 124 (154)
++|-|.+|++-... .++ ...-..+=+.++..-++++.++|++.|.++.=|.. +-..+..+...|++-+...
T Consensus 11 AiImDGNrRwAk~~--gl~-~~~GH~~G~~~~~~i~~~c~~~GI~~lT~YaFS~E------N~~Rp~~EV~~Lm~L~~~~ 81 (230)
T PRK14837 11 GIIMDGNRRWALKK--GLS-FFEGHKEGLKRAKEIVKHSLKLGIKYLSLYVFSTE------NWNRTDSEIEHLMFLIADY 81 (230)
T ss_pred EEEccCCHHHHHHC--CCc-hhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEeehh------hcCCCHHHHHHHHHHHHHH
Confidence 34558888874322 222 34567888899999999999999999999864421 1112334444443333221
Q ss_pred hh----c--CCceEEEEeCCCC
Q 042421 125 NN----S--FQNFRAQHTARIY 140 (154)
Q Consensus 125 ~~----~--~~~~~~~~i~r~~ 140 (154)
+. . -.++++.++++-.
T Consensus 82 l~~~~~~~~~~~irvr~iGd~~ 103 (230)
T PRK14837 82 LSSEFNFYKKNNIKIIVSGDIE 103 (230)
T ss_pred HHHHHHHHHHCCcEEEEEcChh
Confidence 11 1 1368888888754
No 39
>PRK14827 undecaprenyl pyrophosphate synthase; Provisional
Probab=56.02 E-value=65 Score=24.56 Aligned_cols=52 Identities=10% Similarity=-0.075 Sum_probs=37.7
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDC 97 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs 97 (154)
-+| +|-|.||++-... .+ ....-..+=+.++..-++++.++|++.|.+|.=|
T Consensus 70 HVA-iIMDGNrRwAk~~--gl-~~~~GH~~G~~~l~~v~~~c~~lGI~~lTvYaFS 121 (296)
T PRK14827 70 HVA-IVMDGNGRWATQR--GL-ARTEGHKMGEAVVIDIACGAIELGIKWLSLYAFS 121 (296)
T ss_pred eEE-EeccCchHHHHHC--CC-CHhHHHHHHHHHHHHHHHHHHHcCCCEEEEeeec
Confidence 344 4559888774322 12 2345677788899999999999999999998644
No 40
>TIGR00326 eubact_ribD riboflavin biosynthesis protein RibD. This model describes the ribD protein as found in Escherichia coli. The N-terminal domain includes the conserved zinc-binding site region captured in the model dCMP_cyt_deam and shared by proteins such as cytosine deaminase, mammalian apolipoprotein B mRNA editing protein, blasticidin-S deaminase, and Bacillus subtilis competence protein comEB. The C-terminal domain is homologous to the full length of yeast HTP reductase, a protein required for riboflavin biosynthesis. A number of archaeal proteins believed related to riboflavin biosynthesis contain only this C-terminal domain and are not found as full-length matches to this model.
Probab=55.38 E-value=17 Score=27.98 Aligned_cols=36 Identities=14% Similarity=0.136 Sum_probs=26.6
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMK 81 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~ 81 (154)
-+|+||.+ +|+++..+..... ...+||..|+..|.+
T Consensus 20 ~vGaviv~-~~~ii~~g~n~~~---~~~HAE~~ai~~a~~ 55 (344)
T TIGR00326 20 LVGCVIVK-NGEIVGEGAHQKA---GEPHAEVHALRQAGE 55 (344)
T ss_pred CEEEEEEe-CCEEEEEeeCCCC---CCCCHHHHHHHHhcc
Confidence 47778877 7888887665432 357999999988754
No 41
>PRK14842 undecaprenyl pyrophosphate synthase; Provisional
Probab=54.10 E-value=83 Score=23.19 Aligned_cols=90 Identities=19% Similarity=0.181 Sum_probs=53.9
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEI 121 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i 121 (154)
-+|+ |-|.++++-... .+ ....-..+=+..+..-++++.++|++.|.++.=|..- ++ .+..+...++.-+
T Consensus 11 HVai-ImDGNrRwAk~~--gl-~~~~GH~~G~~~l~~i~~~c~~lgI~~vTvYaFS~eN---~~---R~~~EV~~Lm~L~ 80 (241)
T PRK14842 11 HIAV-IMDGNGRWAESQ--GK-KRSEGHREGANAIDRLMDASLEYGLKNISLYAFSTEN---WK---RPITEIRSIFGLL 80 (241)
T ss_pred eEEE-EcCCCHHHHHHC--CC-ChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhh---cC---CCHHHHHHHHHHH
Confidence 3444 448888774321 12 2345677888899999999999999999998655321 11 2334444443333
Q ss_pred HHHh----hc--CCceEEEEeCCCCc
Q 042421 122 LEMN----NS--FQNFRAQHTARIYN 141 (154)
Q Consensus 122 ~~l~----~~--~~~~~~~~i~r~~N 141 (154)
...+ .. -..+++.++.+-..
T Consensus 81 ~~~l~~~~~~~~~~~irv~~iG~~~~ 106 (241)
T PRK14842 81 VEFIETRLDTIHARGIRIHHSGSRKK 106 (241)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeChhh
Confidence 3221 11 24688888886543
No 42
>PRK14838 undecaprenyl pyrophosphate synthase; Provisional
Probab=54.06 E-value=87 Score=23.11 Aligned_cols=90 Identities=17% Similarity=0.061 Sum_probs=55.1
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEI 121 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i 121 (154)
-+| +|-|.++++-.... + ....-..+=+..+.+-++++.++|++.|.++.=|..- + ..+..+...+++-+
T Consensus 13 HVA-iImDGNrRwA~~~g--l-~~~~GH~~G~~~l~~i~~~~~~~gI~~lT~YaFS~EN---~---kR~~~Ev~~Lm~l~ 82 (242)
T PRK14838 13 HIA-IIMDGNGRWAKERG--K-ERSFGHQAGAETVHIITEEAARLGVKFLTLYTFSTEN---W---NRPSDEVAALMSLL 82 (242)
T ss_pred EEE-EeccCCHHHHHHCC--C-CHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeechhh---c---CCCHHHHHHHHHHH
Confidence 344 44588887743221 2 2346778888899999999999999999998644211 1 12334544444443
Q ss_pred HHHhh----cCCceEEEEeCCCCc
Q 042421 122 LEMNN----SFQNFRAQHTARIYN 141 (154)
Q Consensus 122 ~~l~~----~~~~~~~~~i~r~~N 141 (154)
...+. .-..+++.++++-..
T Consensus 83 ~~~l~~~~~~~~~irir~iG~~~~ 106 (242)
T PRK14838 83 LDSIEEETFMKNNIRFRIIGDIAK 106 (242)
T ss_pred HHHHHHHHHHHcCcEEEEEeChhh
Confidence 32221 124788888887543
No 43
>PRK14830 undecaprenyl pyrophosphate synthase; Provisional
Probab=53.99 E-value=88 Score=23.18 Aligned_cols=90 Identities=11% Similarity=0.029 Sum_probs=51.7
Q ss_pred eeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHH
Q 042421 41 VGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISE 120 (154)
Q Consensus 41 ~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~ 120 (154)
--+|+|+ |.++++-... .+ ....-..+=+..+..-++++.+.|++.|.++.=|..- ++ .+..++..+++-
T Consensus 24 ~HVAiIm-DGNrRwAk~~--gl-~~~~Gh~~G~~~l~~~l~~c~~~GI~~vTvYaFS~eN---~~---R~~~Ev~~Lm~l 93 (251)
T PRK14830 24 KHIAIIM-DGNGRWAKKR--ML-PRIAGHKAGMDTVKKITKAASELGVKVLTLYAFSTEN---WK---RPKDEVKFLMNL 93 (251)
T ss_pred CeEEEEe-cCchHHHHHC--CC-chhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEEehhh---cC---CCHHHHHHHHHH
Confidence 3455554 8777653221 12 1234566777789999999999999999999844221 11 233344444322
Q ss_pred HH----HHhhc--CCceEEEEeCCCC
Q 042421 121 IL----EMNNS--FQNFRAQHTARIY 140 (154)
Q Consensus 121 i~----~l~~~--~~~~~~~~i~r~~ 140 (154)
+. .+... -..+++.++++..
T Consensus 94 ~~~~l~~~~~~~~~~~iri~viG~~~ 119 (251)
T PRK14830 94 PVEFLDKFVPELIENNVKVNVIGDTD 119 (251)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEcChh
Confidence 21 11111 1367888887654
No 44
>PF03259 Robl_LC7: Roadblock/LC7 domain; InterPro: IPR004942 This family includes proteins that are about 100 amino acids long and have been shown to be related []. Members of this family of proteins are associated with both flagellar outer arm dynein and Drosophila and rat brain cytoplasmic dynein. It is proposed that roadblock/LC7 family members may modulate specific dynein functions []. This family also includes Golgi-associated MP1 adapter protein (Q9Y2Q5 from SWISSPROT) and MglB from Myxococcus xanthus (Q50883 from SWISSPROT), a protein involved in gliding motility []. However the family also includes members from non-motile bacteria such as Streptomyces coelicolor, suggesting that the protein may play a structural or regulatory role.; PDB: 2B95_B 1Z09_A 2E8J_B 2HZ5_B 3KYE_A 2ZL1_B 1SKO_B 3CPT_B 1VEU_B 1VET_B ....
Probab=52.89 E-value=46 Score=19.59 Aligned_cols=57 Identities=19% Similarity=0.058 Sum_probs=29.4
Q ss_pred eeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHH-HHhC---CceEEEeccHH
Q 042421 41 VGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVA-LRAG---LASVLLESDCL 98 (154)
Q Consensus 41 ~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a-~~~~---~~~v~iesDs~ 98 (154)
+--|+++-+.+|..+.. ...-........|...+++.+.+.+ .+.+ ++.+.++++..
T Consensus 14 gv~~~~l~~~dG~~i~~-~~~~~~~~~~~aa~~a~~~~~~~~~~~~l~~~~~~~v~i~~~~~ 74 (91)
T PF03259_consen 14 GVRGAVLVDKDGLVIAS-SGIDDDDAEKLAAMAASLLAAAEKLAKELGEGELEQVRIETEKG 74 (91)
T ss_dssp TEEEEEEEETTSEEEEE-TSSSHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEEEEEEEESSE
T ss_pred CeeEEEEEcCCCCEEEE-ecCCcccHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEEEECCC
Confidence 34577888999998877 1111111222233333333333332 2333 67888887753
No 45
>PRK14839 undecaprenyl pyrophosphate synthase; Provisional
Probab=52.77 E-value=91 Score=22.98 Aligned_cols=89 Identities=16% Similarity=0.070 Sum_probs=53.9
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEI 121 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i 121 (154)
-+| +|-|.++++-... .+ ....-..+=+.++.+-++++.++|++.|.++.=|.. +-..+..++..+++-+
T Consensus 12 HVA-iImDGNrRwAk~~--gl-~~~~GH~~G~~~l~~i~~~c~~~GI~~lTvYaFS~E------N~~R~~~EV~~Lm~L~ 81 (239)
T PRK14839 12 HVA-IIMDGNGRWATAR--GL-PRLAGHRAGVEAIRRVVEAAPDLGIGTLTLYAFSSD------NWRRPAAEVGGLMRLL 81 (239)
T ss_pred EEE-EEcCCCHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEechh------hcCCCHHHHHHHHHHH
Confidence 344 4458888774322 12 234577888899999999999999999999865421 1112334444443322
Q ss_pred HHH----hhc--CCceEEEEeCCCC
Q 042421 122 LEM----NNS--FQNFRAQHTARIY 140 (154)
Q Consensus 122 ~~l----~~~--~~~~~~~~i~r~~ 140 (154)
... ... -..+++.+|++-.
T Consensus 82 ~~~l~~~~~~~~~~~irvr~iGd~~ 106 (239)
T PRK14839 82 RAYLRNETERLARNGVRLTVIGRRD 106 (239)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeChh
Confidence 211 111 1467888888754
No 46
>PRK14833 undecaprenyl pyrophosphate synthase; Provisional
Probab=52.76 E-value=90 Score=22.88 Aligned_cols=86 Identities=10% Similarity=0.026 Sum_probs=52.4
Q ss_pred EEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHHh
Q 042421 46 VIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEMN 125 (154)
Q Consensus 46 vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~ 125 (154)
+|-|.++++-... .+ ....-..+=+.++..-++++.++|++.|.++.=|.. +-..+..++..++.-+...+
T Consensus 10 iImDGNrRwA~~~--gl-~~~~GH~~G~~~l~~~~~~c~~~gI~~lTvyaFS~e------N~~R~~~Ev~~Lm~L~~~~l 80 (233)
T PRK14833 10 IIMDGNGRWAKLR--GK-ARAAGHKKGVKTLREITIWCANHKLECLTLYAFSTE------NWKRPKSEVDFLMKLLKKYL 80 (233)
T ss_pred EEccCCHHHHHHC--CC-ChhhhHHHHHHHHHHHHHHHHHcCCCEEEEeecchh------hcCcCHHHHHHHHHHHHHHH
Confidence 4458888774322 22 234577888999999999999999999999864421 11123344444433332221
Q ss_pred h----c--CCceEEEEeCCCC
Q 042421 126 N----S--FQNFRAQHTARIY 140 (154)
Q Consensus 126 ~----~--~~~~~~~~i~r~~ 140 (154)
. . -..+++.++++-.
T Consensus 81 ~~~~~~~~~~~irvr~iG~~~ 101 (233)
T PRK14833 81 KDERSTYLENNIRFKAIGDLE 101 (233)
T ss_pred HHHHHHHHhCCcEEEEEeChh
Confidence 1 1 1367888888643
No 47
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=52.59 E-value=39 Score=24.46 Aligned_cols=84 Identities=7% Similarity=0.091 Sum_probs=55.4
Q ss_pred CCcEEEEeceeEecCCCeeeEEEEEecC--CCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEE-e----c
Q 042421 23 IGWLKINVDVVVDVQKQVVGLEVVIRDE--KDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLL-E----S 95 (154)
Q Consensus 23 ~g~~k~n~Dgs~~~~~~~~g~G~vird~--~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~i-e----s 95 (154)
...+.-..+|++...++..++=...+.. .+.++..... -...++..+|.+|.+.+|+.+..++-++..| + .
T Consensus 63 ~e~~i~~~~G~y~~~p~t~~~k~yr~k~~~~~~~lt~~~~--~~~~~n~s~d~la~ly~~~~~~~~~nrk~~i~y~~~~~ 140 (225)
T COG3341 63 FEYIISWAKGDYDAKPGTQEFKEYRGKCTIEYSWLTESSE--FSIKSNDSGDVLAKLYGLRYEVPLDNRKSVINYLTPGN 140 (225)
T ss_pred hhccceeccCCccccCCCcceeEEeccccccceeeeeecc--cccccCchHHHHHHhccccccccccCccceeeccCCcc
Confidence 4455556677776655544443333322 2334443332 1345788999999999999999988776666 6 5
Q ss_pred cHHHHHHHHhcCC
Q 042421 96 DCLEVVELVNNRC 108 (154)
Q Consensus 96 Ds~~vi~~i~~~~ 108 (154)
||+.-++.+....
T Consensus 141 ds~a~~k~~k~~~ 153 (225)
T COG3341 141 DSWAYFKYVKDKC 153 (225)
T ss_pred hhHHHHHHHhhhh
Confidence 9999998888764
No 48
>COG3981 Predicted acetyltransferase [General function prediction only]
Probab=50.81 E-value=26 Score=24.41 Aligned_cols=27 Identities=22% Similarity=0.335 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHhCCceEEEeccHHHH
Q 042421 74 AAIKWGMKVALRAGLASVLLESDCLEV 100 (154)
Q Consensus 74 ~Al~~aL~~a~~~~~~~v~iesDs~~v 100 (154)
..+..||+.|+++|+.+|.|-.|...+
T Consensus 117 emLkl~L~~ar~lgi~~Vlvtcd~dN~ 143 (174)
T COG3981 117 EMLKLALEKARELGIKKVLVTCDKDNI 143 (174)
T ss_pred HHHHHHHHHHHHcCCCeEEEEeCCCCc
Confidence 468999999999999999998886433
No 49
>KOG1018 consensus Cytosine deaminase FCY1 and related enzymes [Nucleotide transport and metabolism]
Probab=48.84 E-value=39 Score=23.42 Aligned_cols=46 Identities=20% Similarity=0.102 Sum_probs=29.4
Q ss_pred eeeEEEEEecCCCceEeecccc-ccccchhHHHHHHHHHHHHHHHHH
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNT-TKYFGNVAMAEAAAIKWGMKVALR 85 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~-~~~~~s~~~AE~~Al~~aL~~a~~ 85 (154)
..-+|+|+.+.+|.+++.+... ........+||+.++..=...+..
T Consensus 31 ~~pvg~vlV~~~g~v~a~g~n~~~~~~d~t~HaE~~~I~~~~~~~~~ 77 (169)
T KOG1018|consen 31 EVPVGAVLVHMDGKVLASGGNMVNEKKDPTAHAEVIAIREEEVMCKS 77 (169)
T ss_pred CCceEEEEEeCCCeEEecccceecccCCcchhhHHHHHhhHHHHhhh
Confidence 4456777777677777765554 333345677999999883333333
No 50
>PTZ00349 dehydrodolichyl diphosphate synthetase; Provisional
Probab=48.29 E-value=1.2e+02 Score=23.49 Aligned_cols=88 Identities=11% Similarity=0.060 Sum_probs=53.3
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEI 121 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i 121 (154)
-+| +|-|.+|++-... .++ ...-..+=+.++..-++++.++|++.|.++.=|..- ++ .+..+...|+.-+
T Consensus 22 HVA-iIMDGNrRwAk~~--gl~-~~~GH~~G~~~l~~il~~c~~lGIk~lTlYAFStEN---wk---Rp~~EV~~Lm~L~ 91 (322)
T PTZ00349 22 HIS-IIMDGNRRFAKEK--GLH-SAIGHFMGSKALIQIIEICIKLKIKILSVFSFSLLN---YN---RSPEEIHFLFYLN 91 (322)
T ss_pred cEE-EEcCCCHHHHHHC--CCC-HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhh---hC---CCHHHHHHHHHHH
Confidence 344 4458888774322 232 344678888899999999999999999998654211 11 2233444333222
Q ss_pred H----------HHhhcCCceEEEEeCCCC
Q 042421 122 L----------EMNNSFQNFRAQHTARIY 140 (154)
Q Consensus 122 ~----------~l~~~~~~~~~~~i~r~~ 140 (154)
. ..+. -.++++.++++-.
T Consensus 92 ~~~l~~~~~~~~~l~-~~~irirviGd~~ 119 (322)
T PTZ00349 92 LLILINEDFFFKFIK-DNKIKIKIIGNLS 119 (322)
T ss_pred HHHHHHhhhhHHHHH-HCCCEEEEEeChh
Confidence 1 1122 2478899998754
No 51
>PRK14829 undecaprenyl pyrophosphate synthase; Provisional
Probab=47.54 E-value=1.1e+02 Score=22.51 Aligned_cols=90 Identities=13% Similarity=0.036 Sum_probs=53.8
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEI 121 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i 121 (154)
-+|+ |-|.++++-... .+ ....-..+=+.++..-++++.++|++.|.++.=|..- ++ .+..+...++.-+
T Consensus 17 Hvai-ImDGNrRwAk~~--g~-~~~~GH~~G~~~l~~iv~~c~~~gI~~vTvYaFS~eN---~k---R~~~Ev~~lm~L~ 86 (243)
T PRK14829 17 HIAV-VMDGNGRWATQR--GL-KRTEGHKAGEPVLFDVVAGAIEAGVPYLSLYTFSTEN---WK---RSPDEVRFLMGFS 86 (243)
T ss_pred eEEE-ecCCCHHHHHHC--CC-ChhHHHHHHHHHHHHHHHHHHHcCCCEEEEeeecchh---hC---CCHHHHHHHHHHH
Confidence 4444 448888774322 12 2446778888999999999999999999998654321 11 2223433332222
Q ss_pred HHHh----h--cCCceEEEEeCCCCc
Q 042421 122 LEMN----N--SFQNFRAQHTARIYN 141 (154)
Q Consensus 122 ~~l~----~--~~~~~~~~~i~r~~N 141 (154)
...+ . .-..+++.++.+...
T Consensus 87 ~~~l~~~~~~~~~~~iri~~iG~~~~ 112 (243)
T PRK14829 87 RDVIHRRREQMDEWGVRVRWSGRRPR 112 (243)
T ss_pred HHHHHHHHHHHHHcCcEEEEEechhh
Confidence 2111 1 113678888887643
No 52
>PRK14840 undecaprenyl pyrophosphate synthase; Provisional
Probab=46.59 E-value=1.2e+02 Score=22.53 Aligned_cols=89 Identities=13% Similarity=0.009 Sum_probs=53.0
Q ss_pred EEEecCCCceEeecc--ccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHH
Q 042421 45 VVIRDEKDNCIAAAV--NTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEIL 122 (154)
Q Consensus 45 ~vird~~g~~~~~~~--~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~ 122 (154)
++|-|.++++-.... ..+ ....-..+=+.++..-++++.++|++.|.++.=|..- + ..+..+...++.-+.
T Consensus 23 aiImDGNrRwAk~~~~~~gl-~~~~GH~~G~~~l~~v~~~c~~~GIk~lTvYaFS~EN---~---~R~~~EV~~Lm~L~~ 95 (250)
T PRK14840 23 AIIMDGNRRWYRKHEQFCQK-RAISGHYYGAKSLPQIVDTALHLGIEVLTLFAFSTEN---F---SRSKEEVAELFSLFN 95 (250)
T ss_pred EEEcCCChHHHhhCCCccCC-CHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhh---c---CCCHHHHHHHHHHHH
Confidence 345588888754311 001 2345678888999999999999999999998644211 1 123334443333222
Q ss_pred HH----hhc--CCceEEEEeCCCC
Q 042421 123 EM----NNS--FQNFRAQHTARIY 140 (154)
Q Consensus 123 ~l----~~~--~~~~~~~~i~r~~ 140 (154)
.. ... -..+++.++++-.
T Consensus 96 ~~l~~~~~~~~~~~irvr~iGd~~ 119 (250)
T PRK14840 96 SQLDSQLPYLHENEIRLRCIGDLS 119 (250)
T ss_pred HHHHHHHHHHHHCCCEEEEEeChh
Confidence 21 111 1378888888754
No 53
>KOG3139 consensus N-acetyltransferase [General function prediction only]
Probab=45.77 E-value=29 Score=23.93 Aligned_cols=22 Identities=18% Similarity=0.412 Sum_probs=19.5
Q ss_pred HHHHHHHHHHhCCceEEEeccH
Q 042421 76 IKWGMKVALRAGLASVLLESDC 97 (154)
Q Consensus 76 l~~aL~~a~~~~~~~v~iesDs 97 (154)
+..+|+.+.+.|++.|++||+-
T Consensus 106 vr~aId~m~~~g~~eVvLeTe~ 127 (165)
T KOG3139|consen 106 VRKAIDAMRSRGYSEVVLETEV 127 (165)
T ss_pred HHHHHHHHHHCCCcEEEEeccc
Confidence 4678999999999999999975
No 54
>PRK14832 undecaprenyl pyrophosphate synthase; Provisional
Probab=45.48 E-value=1.2e+02 Score=22.48 Aligned_cols=87 Identities=10% Similarity=0.012 Sum_probs=52.6
Q ss_pred EEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHH--
Q 042421 45 VVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEIL-- 122 (154)
Q Consensus 45 ~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~-- 122 (154)
++|-|.++++-... .+ ....-..+=+.++.+-++++.++|++.|.++.=|..- ++ .+..+...++.-+.
T Consensus 23 AiImDGNrRwAk~~--gl-~~~~GH~~G~~~l~~i~~~c~~~gI~~lTvyaFS~EN---~~---Rp~~EV~~Lm~L~~~~ 93 (253)
T PRK14832 23 AVIMDGNGRWATSQ--GL-PRIAGHRQGARTLKELLRCCKDWGIKALTAYAFSTEN---WQ---RPIEEVDFLMLLFERL 93 (253)
T ss_pred EEECCCCHHHHHHC--CC-CHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhh---cC---CCHHHHHHHHHHHHHH
Confidence 34558888774322 22 2456778888999999999999999999998655221 11 22334433332222
Q ss_pred --HHhhc--CCceEEEEeCCCC
Q 042421 123 --EMNNS--FQNFRAQHTARIY 140 (154)
Q Consensus 123 --~l~~~--~~~~~~~~i~r~~ 140 (154)
..... -..+++.++++-.
T Consensus 94 l~~~~~~~~~~~irv~~iGd~~ 115 (253)
T PRK14832 94 LRRELAQMHREGVRISFIGDLS 115 (253)
T ss_pred HHHHHHHHHhcCCEEEEEeCch
Confidence 11111 2368888888754
No 55
>PF05830 NodZ: Nodulation protein Z (NodZ); InterPro: IPR008716 The nodulation genes of Rhizobia are regulated by the nodD gene product in response to host-produced flavonoids and appear to encode enzymes involved in the production of a lipo-chitose signal molecule required for infection and nodule formation. NodZ is required for the addition of a 2-O-methylfucose residue to the terminal reducing N-acetylglucosamine of the nodulation signal. This substitution is essential for the biological activity of this molecule. Mutations in nodZ result in defective nodulation. nodZ represents a unique nodulation gene that is not under the control of NodD and yet is essential for the synthesis of an active nodulation signal [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3SIX_A 2HLH_A 2HHC_A 3SIW_A 2OCX_A.
Probab=44.16 E-value=49 Score=25.38 Aligned_cols=65 Identities=15% Similarity=0.192 Sum_probs=31.3
Q ss_pred CCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC---CceEEEeccHHHHHHHHhc
Q 042421 38 KQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG---LASVLLESDCLEVVELVNN 106 (154)
Q Consensus 38 ~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~---~~~v~iesDs~~vi~~i~~ 106 (154)
.+..-+|+-||-.+|+-+..-. ....+...+ +.-+..++..++.+- -.+|.+-|||+.|++.+.+
T Consensus 165 ~g~~~IGVHVRhGngeD~~~h~---~~~~D~e~~-L~~V~~ai~~ak~~~~~k~~~IFLATDSaeVid~fr~ 232 (321)
T PF05830_consen 165 AGYSVIGVHVRHGNGEDIMDHA---PYWADEERA-LRQVCTAIDKAKALAPPKPVRIFLATDSAEVIDQFRK 232 (321)
T ss_dssp TTSEEEEEEE------------------HHHHHH-HHHHHHHHHHHHTS--SS-EEEEEEES-HHHHHHHHH
T ss_pred CCCceEEEEEeccCCcchhccC---ccccCchHH-HHHHHHHHHHHHhccCCCCeeEEEecCcHHHHHHHHH
Confidence 4567899999977775332211 111222111 333445555554432 3679999999999999987
No 56
>PRK14836 undecaprenyl pyrophosphate synthase; Provisional
Probab=43.45 E-value=1.3e+02 Score=22.42 Aligned_cols=50 Identities=14% Similarity=0.136 Sum_probs=35.9
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEec
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLES 95 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~ies 95 (154)
-+|+ |-|.++++-... .++ ...-..+=+.++.+-++++.++|++.|.++.
T Consensus 17 HVAi-ImDGNrRwA~~~--gl~-~~~GH~~G~~~~~~iv~~c~~~gI~~lTvYa 66 (253)
T PRK14836 17 HIAI-IMDGNGRWAKRR--GKP-RVEGHRAGVRAVRRTIEFCLEKGIEMLTLFA 66 (253)
T ss_pred eEEE-ecCCcHHHHHHC--CCc-hhhhHHHHHHHHHHHHHHHHHcCCCEEehhH
Confidence 3444 448888764321 122 3456777788999999999999999999976
No 57
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase
Probab=40.31 E-value=46 Score=26.26 Aligned_cols=36 Identities=14% Similarity=0.098 Sum_probs=25.3
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMK 81 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~ 81 (154)
-+|+||.+ +|+++..+..... ...+||..|+..|-.
T Consensus 55 ~VGaViV~-~g~Ii~~g~n~~~---g~~HAEi~Ai~~a~~ 90 (380)
T PLN02807 55 MVGCVIVK-DGRIVGEGFHPKA---GQPHAEVFALRDAGD 90 (380)
T ss_pred CEEEEEEE-CCEEEEEEeCCCC---CCcCHHHHHHHHhhh
Confidence 36777765 4888887665432 236999999988755
No 58
>KOG0833 consensus Cytidine deaminase [Nucleotide transport and metabolism]
Probab=40.29 E-value=68 Score=22.35 Aligned_cols=42 Identities=12% Similarity=-0.056 Sum_probs=30.5
Q ss_pred eeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHH
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMK 81 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~ 81 (154)
..-.|+++|-++|++..+..-..-.......||-.|+..++.
T Consensus 41 ~fkVGA~~r~ssGrif~G~NVEn~~~~~sIcAEr~ai~~l~l 82 (173)
T KOG0833|consen 41 KFKVGAAGRASSGRIFLGVNVENASYHHSICAERFAIANLAL 82 (173)
T ss_pred CCceEEEEEecCCcEEEeeeecccCCCCcccHHHHHHHHHHH
Confidence 446788999999988876655554556678899888776553
No 59
>PRK10786 ribD bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=38.96 E-value=50 Score=25.83 Aligned_cols=36 Identities=14% Similarity=0.180 Sum_probs=24.8
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMK 81 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~ 81 (154)
-+|+||.+ +|+++..+..... ...+||..|+..+-+
T Consensus 26 ~vGaviv~-~g~ii~~g~n~~~---g~~HAE~~ai~~a~~ 61 (367)
T PRK10786 26 NVGCVIVK-DGEIVGEGYHQRA---GEPHAEVHALRMAGE 61 (367)
T ss_pred CEEEEEEe-CCEEEEEEeCCCC---CCCCHHHHHHHHHhh
Confidence 46777765 5888877664332 236999999988755
No 60
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=36.87 E-value=53 Score=22.23 Aligned_cols=34 Identities=15% Similarity=0.232 Sum_probs=24.1
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWG 79 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~a 79 (154)
-.|+||.+++ +++..+.... .-.-+||..|+..+
T Consensus 29 ~VG~VIV~~~-~Ivg~G~h~~---aG~pHAEv~Al~~a 62 (146)
T COG0117 29 SVGCVIVKDG-EIVGEGYHEK---AGGPHAEVCALRMA 62 (146)
T ss_pred ceeEEEEECC-EEEeeeecCC---CCCCcHHHHHHHHc
Confidence 4677777755 7887665433 34568999999887
No 61
>PRK13191 putative peroxiredoxin; Provisional
Probab=36.22 E-value=1e+02 Score=22.12 Aligned_cols=42 Identities=17% Similarity=0.129 Sum_probs=30.6
Q ss_pred EEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC
Q 042421 44 EVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG 87 (154)
Q Consensus 44 G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~ 87 (154)
+.+|.|.+|.+......... ...+..|++.++.+|+.....|
T Consensus 126 ~tfIID~~G~Ir~~~~~~~~--~gr~~~eilr~l~alq~~~~~~ 167 (215)
T PRK13191 126 AVFIVDDKGTVRLILYYPME--IGRNIDEILRAIRALQLVDKAG 167 (215)
T ss_pred EEEEECCCCEEEEEEecCCC--CCCCHHHHHHHHHHhhhhhhcC
Confidence 46777999988876544332 2347889999999999877664
No 62
>PRK14831 undecaprenyl pyrophosphate synthase; Provisional
Probab=35.91 E-value=1.8e+02 Score=21.54 Aligned_cols=52 Identities=10% Similarity=-0.079 Sum_probs=37.8
Q ss_pred eEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccH
Q 042421 42 GLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDC 97 (154)
Q Consensus 42 g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs 97 (154)
-+|++ -|.++++-... .+ ....-..+=+.++..-++++.++|++.|.++.=|
T Consensus 23 HVaiI-mDGNrRwA~~~--gl-~~~~GH~~G~~~l~~i~~~c~~~GI~~vT~yaFS 74 (249)
T PRK14831 23 HVAVI-MDGNGRWAKRR--GL-PRIMGHRRGVDALKDLLRCCKDWGIGALTAYAFS 74 (249)
T ss_pred eEEEe-cCCcHHHHHHC--CC-chhhhHHHHHHHHHHHHHHHHHcCCCEEEEeecc
Confidence 45444 48888774322 12 2345778888899999999999999999998655
No 63
>PRK15000 peroxidase; Provisional
Probab=35.50 E-value=1.2e+02 Score=21.46 Aligned_cols=43 Identities=12% Similarity=0.013 Sum_probs=31.5
Q ss_pred EEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC
Q 042421 43 LEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG 87 (154)
Q Consensus 43 ~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~ 87 (154)
=+.++.|++|.+......... ......|++.++.+|++..+.|
T Consensus 126 r~tfiID~~G~I~~~~~~~~~--~gr~~~eilr~l~al~~~~~~~ 168 (200)
T PRK15000 126 RGSFLIDANGIVRHQVVNDLP--LGRNIDEMLRMVDALQFHEEHG 168 (200)
T ss_pred eEEEEECCCCEEEEEEecCCC--CCCCHHHHHHHHHHhhhHHhcC
Confidence 356777999998876554333 2347889999999999987765
No 64
>PRK11449 putative deoxyribonuclease YjjV; Provisional
Probab=34.19 E-value=24 Score=26.03 Aligned_cols=20 Identities=40% Similarity=0.542 Sum_probs=15.9
Q ss_pred HHHHHhCCceEEEeccHHHH
Q 042421 81 KVALRAGLASVLLESDCLEV 100 (154)
Q Consensus 81 ~~a~~~~~~~v~iesDs~~v 100 (154)
+.+......++.+|||+.++
T Consensus 192 ~~~~~ipldriL~ETD~P~l 211 (258)
T PRK11449 192 DVIAKLPLASLLLETDAPDM 211 (258)
T ss_pred HHHHhCChhhEEEecCCCCC
Confidence 34456788999999999875
No 65
>PF14591 AF0941-like: AF0941-like; PDB: 1YOZ_B.
Probab=32.10 E-value=57 Score=21.43 Aligned_cols=33 Identities=15% Similarity=0.137 Sum_probs=25.8
Q ss_pred EeccHHHHHHHHhcCCCCchhHHHHHHHHHHHh
Q 042421 93 LESDCLEVVELVNNRCSSMAEISWMISEILEMN 125 (154)
Q Consensus 93 iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~ 125 (154)
|.+|++.+++.++++.....+...++.++....
T Consensus 42 Fr~D~e~Il~~~~~Gdi~eEEA~~ll~eL~~~a 74 (127)
T PF14591_consen 42 FRSDLEDILEDYKSGDIDEEEALQLLDELKSYA 74 (127)
T ss_dssp HHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHH
Confidence 889999999999998777777777777766544
No 66
>COG1212 KdsB CMP-2-keto-3-deoxyoctulosonic acid synthetase [Cell envelope biogenesis, outer membrane]
Probab=31.25 E-value=97 Score=22.83 Aligned_cols=31 Identities=26% Similarity=0.303 Sum_probs=25.8
Q ss_pred HHHHHHHHHHhCCceEEEeccHHHHHHHHhc
Q 042421 76 IKWGMKVALRAGLASVLLESDCLEVVELVNN 106 (154)
Q Consensus 76 l~~aL~~a~~~~~~~v~iesDs~~vi~~i~~ 106 (154)
+.+..+-|.+-|..+|++-||++.+.+.+++
T Consensus 31 I~rV~e~a~~s~~~rvvVATDde~I~~av~~ 61 (247)
T COG1212 31 IVRVAERALKSGADRVVVATDDERIAEAVQA 61 (247)
T ss_pred HHHHHHHHHHcCCCeEEEEcCCHHHHHHHHH
Confidence 3455666777799999999999999999877
No 67
>PLN02182 cytidine deaminase
Probab=31.14 E-value=93 Score=24.20 Aligned_cols=41 Identities=10% Similarity=-0.161 Sum_probs=29.5
Q ss_pred eeeEEEEEecCCCceEeeccccccccch--hHHHHHHHHHHHH
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTKYFGN--VAMAEAAAIKWGM 80 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~~~~s--~~~AE~~Al~~aL 80 (154)
..-+|++++..+|++..+.........- ...||-.|+..+.
T Consensus 65 ~F~VGAa~l~~sG~iy~GvNVEnas~pl~~tICAEr~AI~~A~ 107 (339)
T PLN02182 65 KYKVGAVGRASSGRVYLGVNVDFPGLPLHHSIHAEQFLVTNLA 107 (339)
T ss_pred CCeeeEEEEeCCCCEEEEEEeecCCCccCCccCHHHHHHHHHH
Confidence 4567889999999988776544433222 5799999888765
No 68
>PF10983 DUF2793: Protein of unknown function (DUF2793); InterPro: IPR021251 This entry is represented by Bacteriophage D3112, Orf54. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=30.91 E-value=1.3e+02 Score=18.38 Aligned_cols=35 Identities=14% Similarity=-0.014 Sum_probs=28.4
Q ss_pred CCcEEEEeceeEecCCCeeeEEEEEecCCCceEee
Q 042421 23 IGWLKINVDVVVDVQKQVVGLEVVIRDEKDNCIAA 57 (154)
Q Consensus 23 ~g~~k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~ 57 (154)
.|.+-++.||++.--.-..|+.+.+.|+....+..
T Consensus 48 ~g~iA~~~~g~W~f~~P~~GW~a~v~~~~~~~~~~ 82 (87)
T PF10983_consen 48 DGKIAAWQDGAWRFLTPRPGWRAWVADEGALLVFD 82 (87)
T ss_pred CCCEEEEECCeEEEeCCCCCcEEEEeCCCcEEEEe
Confidence 47899999999998878889999988876555544
No 69
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=30.89 E-value=98 Score=25.78 Aligned_cols=45 Identities=11% Similarity=0.193 Sum_probs=32.0
Q ss_pred ccCCCCCcE-------EEEeceeEecCCCeeeEEEEEecCCCceEeecccccc
Q 042421 18 WQSPPIGWL-------KINVDVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTK 63 (154)
Q Consensus 18 W~~p~~g~~-------k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~ 63 (154)
|.++|.+.. .+.|.|.+.+.++..=+=++..|..|.+++... ++.
T Consensus 58 Wa~~p~~~~~~s~~~~~V~F~ayyLPk~~~e~YqfcYv~~~g~V~G~S~-pFq 109 (546)
T PF07888_consen 58 WAPVPENYVEGSAVNCQVQFQAYYLPKDDDEFYQFCYVDQKGEVRGAST-PFQ 109 (546)
T ss_pred eeccCccccCCCccceEEEECcccCCCCCCCeEEEEEECCCccEEEecC-Ccc
Confidence 888765432 577889999887666677788899998776544 444
No 70
>cd03016 PRX_1cys Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by reducing and detoxifying hydrogen peroxide, peroxynitrite, and organic hydroperoxides. As with all other PRXs, a cysteine sulfenic acid intermediate is formed upon reaction of 1-cys PRX with its substrates. Having no resolving cysteine, the oxidized enzyme is resolved by an external small-molecule or protein reductant such as thioredoxin or glutaredoxin. Similar to typical 2-cys PRX, 1-cys PRX forms a functional dimeric unit with a B-type interface, as well as a decameric structure which is stabilized in the reduced form of the enzyme. Other oligomeric forms, tetramers and hexamers, have also been reported. Mammalian 1-cys PRX is localized cellularly in the cytosol and is expressed at high levels in brain, eye, testes an
Probab=30.17 E-value=1.8e+02 Score=20.45 Aligned_cols=42 Identities=10% Similarity=0.020 Sum_probs=29.6
Q ss_pred EEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC
Q 042421 44 EVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG 87 (154)
Q Consensus 44 G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~ 87 (154)
+.+|.|.+|.+......... ......|++.++.+|+.....|
T Consensus 119 ~~fiID~~G~I~~~~~~~~~--~gr~~~ell~~l~~lq~~~~~~ 160 (203)
T cd03016 119 AVFIIDPDKKIRLILYYPAT--TGRNFDEILRVVDALQLTDKHK 160 (203)
T ss_pred EEEEECCCCeEEEEEecCCC--CCCCHHHHHHHHHHHhhHhhcC
Confidence 46777999988766543332 1235788999999999887654
No 71
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=30.01 E-value=1.6e+02 Score=20.63 Aligned_cols=41 Identities=7% Similarity=-0.110 Sum_probs=30.4
Q ss_pred EEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHh
Q 042421 44 EVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRA 86 (154)
Q Consensus 44 G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~ 86 (154)
+.+|.|.+|.+........ .......|+++.+.+|+.....
T Consensus 121 ~tfIID~~G~I~~~~~~~~--~~~~~~~eil~~l~alq~~~~~ 161 (187)
T PRK10382 121 ATFVVDPQGIIQAIEVTAE--GIGRDASDLLRKIKAAQYVASH 161 (187)
T ss_pred EEEEECCCCEEEEEEEeCC--CCCCCHHHHHHHHHhhhhHhhc
Confidence 4577799999887654332 2335788999999999997766
No 72
>COG0020 UppS Undecaprenyl pyrophosphate synthase [Lipid metabolism]
Probab=29.56 E-value=2.4e+02 Score=20.92 Aligned_cols=87 Identities=15% Similarity=0.049 Sum_probs=51.8
Q ss_pred EEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHH----
Q 042421 45 VVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISE---- 120 (154)
Q Consensus 45 ~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~---- 120 (154)
++|-|.+|++-... ......-..+=..++.+.++++.++|++.+.++..|..-- ..+..++..+..-
T Consensus 21 aiImDGN~RwAk~~---~~~r~~Gh~~G~~~~~~i~~~~~~lgik~ltlyafSteN~------~Rp~~Ev~~lm~l~~~~ 91 (245)
T COG0020 21 AIIMDGNRRWAKKR---GLPRIEGHKAGAKALREILEWCLELGIKYLTLYAFSTENW------KRPKEEVSFLMELFEKA 91 (245)
T ss_pred EEEecCChHHHHhC---CCChhHHHHHhHHHHHHHHHHHHHcCCCEEEEEEEehhhc------CCCHHHHHHHHHHHHHH
Confidence 45557777664322 1123345566678899999999999999999998885331 1233344443333
Q ss_pred HHHHhhc--CCceEEEEeCCCC
Q 042421 121 ILEMNNS--FQNFRAQHTARIY 140 (154)
Q Consensus 121 i~~l~~~--~~~~~~~~i~r~~ 140 (154)
++..... -.++++..+....
T Consensus 92 l~~~~~~l~~~~v~v~~iG~~~ 113 (245)
T COG0020 92 LREELKKLHKNGVRIRIIGDLS 113 (245)
T ss_pred HHHHHHHHhhcCeEEEEEeccc
Confidence 2222211 2567777777644
No 73
>PRK13190 putative peroxiredoxin; Provisional
Probab=29.36 E-value=1.6e+02 Score=20.70 Aligned_cols=43 Identities=14% Similarity=0.053 Sum_probs=30.7
Q ss_pred EEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC
Q 042421 43 LEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG 87 (154)
Q Consensus 43 ~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~ 87 (154)
=+.+|.|.+|.+......... ......|++.++.+|+...+.|
T Consensus 118 p~~fiId~~G~I~~~~~~~~~--~gr~~~ellr~l~~l~~~~~~~ 160 (202)
T PRK13190 118 RGVFIIDPNQIVRWMIYYPAE--TGRNIDEIIRITKALQVNWKRK 160 (202)
T ss_pred eEEEEECCCCEEEEEEEeCCC--CCCCHHHHHHHHHHhhhHHhcC
Confidence 356777999988765443322 2357889999999999887764
No 74
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=29.32 E-value=1.6e+02 Score=22.02 Aligned_cols=53 Identities=8% Similarity=0.058 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHHhhcCCceEEE
Q 042421 72 EAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEMNNSFQNFRAQ 134 (154)
Q Consensus 72 E~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~~~~~~~~~~ 134 (154)
++..+.++|+.+.+.|+++|+|-+=- -.+-.+|..+.+.+......|..+.+.
T Consensus 56 ~i~~~~eaL~~L~~~G~~~V~VQplh----------iipG~Ey~~l~~~v~~~~~~F~~i~~g 108 (262)
T PF06180_consen 56 KIDSPEEALAKLADEGYTEVVVQPLH----------IIPGEEYEKLRATVEAYKHDFKKIVLG 108 (262)
T ss_dssp ----HHHHHHHHHHCT--EEEEEE------------SCSSHHHHHHHHHHHHHCCCSSEEEEE
T ss_pred CcCCHHHHHHHHHHCCCCEEEEeecc----------eeCcHhHHHHHHHHHHhhccCCeEEec
Confidence 46788999999999999999995311 123357777777777766667777655
No 75
>PTZ00137 2-Cys peroxiredoxin; Provisional
Probab=28.33 E-value=1.4e+02 Score=22.28 Aligned_cols=42 Identities=17% Similarity=0.098 Sum_probs=31.0
Q ss_pred EEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC
Q 042421 44 EVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG 87 (154)
Q Consensus 44 G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~ 87 (154)
+.+|.|.+|.+......... ......|++.++.||+...+.|
T Consensus 190 ~tFIID~dG~I~~~~~~~~~--~gr~v~eiLr~l~alq~~~~~g 231 (261)
T PTZ00137 190 ASVLVDKAGVVKHVAVYDLG--LGRSVDETLRLFDAVQFAEKTG 231 (261)
T ss_pred EEEEECCCCEEEEEEEeCCC--CCCCHHHHHHHHHHhchhhhcC
Confidence 45777999998876644332 2347889999999999887765
No 76
>smart00340 HALZ homeobox associated leucin zipper.
Probab=27.72 E-value=42 Score=17.51 Aligned_cols=32 Identities=13% Similarity=0.188 Sum_probs=20.8
Q ss_pred eccHHHHHHHHhcCCCCchhHHHHHHHHHHHh
Q 042421 94 ESDCLEVVELVNNRCSSMAEISWMISEILEMN 125 (154)
Q Consensus 94 esDs~~vi~~i~~~~~~~~~~~~li~~i~~l~ 125 (154)
|.||.++-.+...-......+..-+.+++.+.
T Consensus 4 EvdCe~LKrcce~LteeNrRL~ke~~eLralk 35 (44)
T smart00340 4 EVDCELLKRCCESLTEENRRLQKEVQELRALK 35 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 67899988888775444445555566665543
No 77
>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed
Probab=27.64 E-value=2.3e+02 Score=22.16 Aligned_cols=66 Identities=11% Similarity=0.077 Sum_probs=31.7
Q ss_pred HHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHHhhcCCceEEEEeCCCCcHHHHHHHHhhh
Q 042421 76 IKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEMNNSFQNFRAQHTARIYNSAAHALGFRVC 152 (154)
Q Consensus 76 l~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a~ 152 (154)
+...++.+.+.|+++|.+-+ +.......+..+.+-++.+...++.+.+.--+-+.+. ...|...++
T Consensus 109 I~~~a~~~~~~Gv~~i~lvg----------Ge~p~~~~~e~l~~~i~~Ik~~~p~i~i~~g~lt~e~-l~~Lk~aGv 174 (371)
T PRK09240 109 IEREMAAIKKLGFEHILLLT----------GEHEAKVGVDYIRRALPIAREYFSSVSIEVQPLSEEE-YAELVELGL 174 (371)
T ss_pred HHHHHHHHHhCCCCEEEEee----------CCCCCCCCHHHHHHHHHHHHHhCCCceeccCCCCHHH-HHHHHHcCC
Confidence 33444556688999997732 2111222334444444444445655555332323233 345544443
No 78
>PLN02402 cytidine deaminase
Probab=27.34 E-value=1.2e+02 Score=23.16 Aligned_cols=64 Identities=13% Similarity=-0.053 Sum_probs=38.3
Q ss_pred eeeEEEEEecCCCceEeeccccccccch--hHHHHHHHHHHHHHHHHHhCCceEEEec----cHHHHHHHH
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTKYFGN--VAMAEAAAIKWGMKVALRAGLASVLLES----DCLEVVELV 104 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~~~~s--~~~AE~~Al~~aL~~a~~~~~~~v~ies----Ds~~vi~~i 104 (154)
..-+|++++..+|++..+..-......- ...||-.|+..++..-. ..+..|.|-. .|..++.-+
T Consensus 45 ~F~VGAa~l~~~G~i~~GvNVEnasy~l~~tiCAEr~Ai~~av~~G~-~~i~~iaV~~sPCG~CRQ~l~Ef 114 (303)
T PLN02402 45 KYHVGAVGLGSSGRIFLGVNLEFPGLPLHHSVHAEQFLITNLTLNAE-PHLKYVAVSAAPCGHCRQFFQEI 114 (303)
T ss_pred CCeeeEEEEeCCCCEEEEEeeecCCCCCCCcccHHHHHHHHHHHcCC-CceEEEEEEeCCCcccHHHHHHh
Confidence 4467888889999887765543332222 57999999888764321 2345555432 445444433
No 79
>PRK09027 cytidine deaminase; Provisional
Probab=26.86 E-value=1.3e+02 Score=22.95 Aligned_cols=53 Identities=15% Similarity=0.112 Sum_probs=34.6
Q ss_pred eeeEEEEEecCCCceEeecccccc--ccchhHHHHHHHHHHHHHHHHHhCCceEEE
Q 042421 40 VVGLEVVIRDEKDNCIAAAVNTTK--YFGNVAMAEAAAIKWGMKVALRAGLASVLL 93 (154)
Q Consensus 40 ~~g~G~vird~~g~~~~~~~~~~~--~~~s~~~AE~~Al~~aL~~a~~~~~~~v~i 93 (154)
..-+|++++..+|++..+..-... ...-...||-.|+..++..- +.++..|.+
T Consensus 70 ~F~VGAa~~~~sG~iy~GvNvE~~~~s~~~tiCAEr~Ai~~a~~~G-e~~i~~I~v 124 (295)
T PRK09027 70 HFNVGAIARGVSGNFYFGANMEFAGAALQQTVHAEQSAISHAWLRG-EKAIADITV 124 (295)
T ss_pred CCcEEEEEEeCCCCEEEEEeeccCCCCCCCCcCHHHHHHHHHHHCC-CCceEEEEE
Confidence 456788899999988876554332 23456899999998876431 234555544
No 80
>PF05903 Peptidase_C97: PPPDE putative peptidase domain; InterPro: IPR008580 This domain consists of the N-terminal portion of several eukaryotic sequences. The function of this domain is unknown.; PDB: 2WP7_A 3EBQ_A.
Probab=26.75 E-value=45 Score=22.50 Aligned_cols=37 Identities=16% Similarity=0.100 Sum_probs=25.0
Q ss_pred hhHHHHHHHHHHHhhcCCceEEEEeCCCCcHHHHHHHHhh
Q 042421 112 AEISWMISEILEMNNSFQNFRAQHTARIYNSAAHALGFRV 151 (154)
Q Consensus 112 ~~~~~li~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a 151 (154)
.++..++ +++...|..-+...+.|++|..+|+|++.-
T Consensus 85 ~~~~~~l---~~l~~~~~~~~Y~Ll~~NCNhFs~~l~~~L 121 (151)
T PF05903_consen 85 EEFEEIL---RSLSREFTGDSYHLLNRNCNHFSDALCQFL 121 (151)
T ss_dssp HHHHHHH---HHHHTT-SGGG-BTTTBSHHHHHHHHHHHH
T ss_pred HHHHHHH---HHHHhhccCCcchhhhhhhhHHHHHHHHHh
Confidence 3444444 344446778888889999999999998763
No 81
>cd03015 PRX_Typ2cys Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides. The functional unit of typical 2-cys PRX is a homodimer. A unique intermolecular redox-active disulfide center is utilized for its activity. Upon reaction with peroxides, its peroxidatic cysteine is oxidized into a sulfenic acid intermediate which is resolved by bonding with the resolving cysteine from the other subunit of the homodimer. This intermolecular disulfide bond is then reduced by thioredoxin, tryparedoxin or AhpF. Typical 2-cys PRXs, like 1-cys PRXs, form decamers which are stabilized by reduction of the active site cysteine. Typical 2-cys PRX interacts through beta strands at one edge of the monomer (B-type interface) to form the functional homodimer, and uses an A-type interface (similar to the dimeric
Probab=26.64 E-value=2.1e+02 Score=19.33 Aligned_cols=43 Identities=14% Similarity=0.064 Sum_probs=29.2
Q ss_pred EEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhCC
Q 042421 44 EVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGL 88 (154)
Q Consensus 44 G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~ 88 (154)
..++.|.+|.+........+. .....|++..+..+..+.+.+.
T Consensus 122 ~~~lID~~G~I~~~~~~~~~~--~~~~~~il~~l~~~~~~~~~~~ 164 (173)
T cd03015 122 GTFIIDPEGIIRHITVNDLPV--GRSVDETLRVLDALQFVEEHGE 164 (173)
T ss_pred EEEEECCCCeEEEEEecCCCC--CCCHHHHHHHHHHhhhhhhcCC
Confidence 478889999888766433221 2235678888888888877663
No 82
>PF06754 PhnG: Phosphonate metabolism protein PhnG; InterPro: IPR009609 This family consists of several bacterial phosphonate metabolism protein PhnG sequences. In Escherichia coli, the phn operon encodes proteins responsible for the uptake and breakdown of phosphonates. The exact function of PhnG is unknown, however it is thought likely that along with six other proteins PhnG makes up the the C-P (carbon-phosphorus) lyase [].; GO: 0015716 phosphonate transport, 0019634 phosphonate metabolic process
Probab=26.00 E-value=1.7e+02 Score=19.68 Aligned_cols=62 Identities=16% Similarity=0.003 Sum_probs=31.9
Q ss_pred CcccC-CCCCcEEEEe----ceeEecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHH
Q 042421 16 DQWQS-PPIGWLKINV----DVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMK 81 (154)
Q Consensus 16 ~~W~~-p~~g~~k~n~----Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~ 81 (154)
..|.. |..|.+-+-. .|+-++-+...=.-+.++-.+|. .+.+. +. -.+...||+.|++.|+-
T Consensus 33 ~~~lr~Pe~GLvmvr~R~g~~g~~FnLGEv~VTr~~V~l~~g~-~G~~~--v~-G~d~~~A~~~Av~DAll 99 (146)
T PF06754_consen 33 VQVLRPPETGLVMVRGRDGGTGSPFNLGEVTVTRCAVRLEDGT-VGYGY--VL-GRDKRHAELAAVIDALL 99 (146)
T ss_pred ceEeecCCcceEEEEEEecCCCCceecceEEEEEEEEEeCCCC-EEEEE--Ec-CCCHHHHHHHHHHHHHh
Confidence 34544 4457655543 22222222233333455555443 22221 21 24788999999999884
No 83
>PF12458 DUF3686: ATPase involved in DNA repair ; InterPro: IPR020958 This entry represents an N-terminal domain associated with ATPases and some uncharacterised proteins; it is approximately 450 amino acids in length and contains two conserved sequence motifs: DVF and SPNGED.
Probab=25.55 E-value=96 Score=24.99 Aligned_cols=33 Identities=27% Similarity=0.340 Sum_probs=27.8
Q ss_pred ccHHHHHHHHhcCCCCchhHHHHHHHHHHHhhc
Q 042421 95 SDCLEVVELVNNRCSSMAEISWMISEILEMNNS 127 (154)
Q Consensus 95 sDs~~vi~~i~~~~~~~~~~~~li~~i~~l~~~ 127 (154)
+||+.++.++++.......+..|++.+.+++..
T Consensus 414 sd~~sl~~~~~~~~~~~~~Y~~L~~~~~~~lD~ 446 (448)
T PF12458_consen 414 SDCLSLARLVNKEDPYAALYEDLIKACTRILDA 446 (448)
T ss_pred HHHHHHHHHhccCCccHHHHHHHHHHHHhhhhc
Confidence 689999999999876677888999998887764
No 84
>PF00411 Ribosomal_S11: Ribosomal protein S11; InterPro: IPR001971 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein S11 [] plays an essential role in selecting the correct tRNA in protein biosynthesis. It is located on the large lobe of the small ribosomal subunit. On the basis of sequence similarities, S11 belongs to a family of bacterial, archaeal and eukaryotic ribosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2YKR_K 3U5C_O 3O2Z_H 3IZB_K 3U5G_O 3O30_H 1S1H_K 3BBN_K 2XZN_K 2XZM_K ....
Probab=25.15 E-value=1.8e+02 Score=18.43 Aligned_cols=49 Identities=20% Similarity=0.088 Sum_probs=30.7
Q ss_pred EEEecCCCceEeeccccccc-----cchhHHHHHHHHHHHHHHHHHhCCceEEEe
Q 042421 45 VVIRDEKDNCIAAAVNTTKY-----FGNVAMAEAAAIKWGMKVALRAGLASVLLE 94 (154)
Q Consensus 45 ~vird~~g~~~~~~~~~~~~-----~~s~~~AE~~Al~~aL~~a~~~~~~~v~ie 94 (154)
+.+.|..|..+...+.-..+ -.++..|+ .+....++.+.++|+..|.++
T Consensus 14 vtlTd~~G~~~~~~S~G~~gfK~~rk~t~~Aa~-~~a~~~~~~~~~~gi~~v~v~ 67 (110)
T PF00411_consen 14 VTLTDLKGNVLFWSSAGSLGFKGARKSTPYAAQ-QAAEKIAKKAKELGIKTVRVK 67 (110)
T ss_dssp EEEEETTSEEEEEEETTTSSTTTTCGSSHHHHH-HHHHHHHHHHHCTTEEEEEEE
T ss_pred EEEECCCCCEEEEEeccccccccccccCHHHHH-HHHHHHHHHHHHcCCeEEEEE
Confidence 44567777766543332211 23454444 445777888899999988886
No 85
>cd00225 API3 Ascaris pepsin inhibitor-3 (API3); protein inhibitor that reversibly inhibits aspartic proteinase cathepsin E, and gastric enzymes pepsin and gastricsin.
Probab=25.13 E-value=1.9e+02 Score=19.70 Aligned_cols=27 Identities=15% Similarity=-0.031 Sum_probs=17.9
Q ss_pred CCcEEEEeceeEecCCCeeeEEEEEec
Q 042421 23 IGWLKINVDVVVDVQKQVVGLEVVIRD 49 (154)
Q Consensus 23 ~g~~k~n~Dgs~~~~~~~~g~G~vird 49 (154)
.+....|+||+.-.++....-|..+||
T Consensus 96 ~DTtq~yFdGC~VqnNklYvg~~~~Rd 122 (159)
T cd00225 96 DDTTQFYFDGCMVQNNKVYVGNTYARD 122 (159)
T ss_pred CcceEEEEeeeEEECCEEEECCEEecc
Confidence 677888999988766544444444444
No 86
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=24.78 E-value=2.9e+02 Score=21.92 Aligned_cols=59 Identities=7% Similarity=0.042 Sum_probs=33.8
Q ss_pred hhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHHhhcCCceEEEEe
Q 042421 67 NVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEMNNSFQNFRAQHT 136 (154)
Q Consensus 67 s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~~~~~~~~~~~i 136 (154)
|-...|- -+..|.++|.+.+-++|++ +.+.+.-+..-+.+.+.+++..+.|+.+.+.|.
T Consensus 182 Tr~~~eR-Iar~AF~~A~~r~~k~Vt~----------v~KaNvlk~tdglf~e~~~eva~eyPdI~~~~~ 240 (372)
T PLN00118 182 TRQASLR-VAEYAFHYAKTHGRKRVSA----------IHKANIMKKTDGLFLKCCREVAEKYPEIVYEEV 240 (372)
T ss_pred CHHHHHH-HHHHHHHHHHHcCCCeEEE----------EECCccchhhhHHHHHHHHHHHhhCCCceEEee
Confidence 3334444 5688999999887777777 223222111222333444455667888877664
No 87
>TIGR02351 thiH thiazole biosynthesis protein ThiH. Members this protein family are the ThiH protein of thiamine biosynthesis, a homolog of the BioB protein of biotin biosynthesis. Genes for the this protein generally are found in operons with other thiamin biosynthesis genes.
Probab=24.31 E-value=2.5e+02 Score=21.88 Aligned_cols=64 Identities=11% Similarity=0.131 Sum_probs=31.5
Q ss_pred HHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHHhhcCCceEEEEeCCCCcHHHHHHHHhh
Q 042421 77 KWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEMNNSFQNFRAQHTARIYNSAAHALGFRV 151 (154)
Q Consensus 77 ~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a 151 (154)
...++.+.+.|++++.+-+ +.......+..+.+-++.+...|+.+.+.-.+-+.+. ...|...+
T Consensus 109 ~~~a~~~~~~Gv~~i~lvg----------Ge~p~~~~~e~l~eii~~Ik~~~p~i~Iei~~lt~e~-~~~Lk~aG 172 (366)
T TIGR02351 109 EREIEAIKKSGFKEILLVT----------GESEKAAGVEYIAEAIKLAREYFSSLAIEVQPLNEEE-YKKLVEAG 172 (366)
T ss_pred HHHHHHHHhCCCCEEEEee----------CCCCCCCCHHHHHHHHHHHHHhCCccccccccCCHHH-HHHHHHcC
Confidence 3444566778999998843 2222223344444445555545555544333333333 23444443
No 88
>PF02569 Pantoate_ligase: Pantoate-beta-alanine ligase; InterPro: IPR003721 D-Pantothenate is synthesized via four enzymes from ketoisovalerate, which is an intermediate of branched-chain amino acid synthesis []. Pantoate-beta-alanine ligase, also know as pantothenate synthase, (6.3.2.1 from EC) catalyzes the formation of pantothenate from pantoate and alanine in the pantothenate biosynthesis pathway [].; GO: 0004592 pantoate-beta-alanine ligase activity, 0015940 pantothenate biosynthetic process; PDB: 3MUE_C 1V8F_B 1UFV_A 2X3F_B 1MOP_A 3COY_B 3IOC_A 1N2E_A 3IVX_A 1N2H_A ....
Probab=24.08 E-value=2.9e+02 Score=20.96 Aligned_cols=37 Identities=14% Similarity=0.241 Sum_probs=22.6
Q ss_pred EEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHH
Q 042421 46 VIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALR 85 (154)
Q Consensus 46 vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~ 85 (154)
.+|+.+|--+.+ +....+.....++..+..+|+.+.+
T Consensus 176 tvRe~dGLAlSS---RN~~Ls~~eR~~A~~l~~~L~~a~~ 212 (280)
T PF02569_consen 176 TVREPDGLALSS---RNVYLSPEEREAAPVLYRALKAAKE 212 (280)
T ss_dssp --B-TTS-B--G---GGGGS-HHHHHHTTHHHHHHHHHHH
T ss_pred CeECCCCCceee---ccccCCHHHHHHHHHHHHHHHHHHH
Confidence 678999965543 3334566788888889999988865
No 89
>PF11080 DUF2622: Protein of unknown function (DUF2622); InterPro: IPR022597 This family is conserved in the Enterobacteriaceae family. The function is not known.
Probab=23.65 E-value=1.4e+02 Score=18.69 Aligned_cols=43 Identities=21% Similarity=0.298 Sum_probs=31.1
Q ss_pred CeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHH
Q 042421 39 QVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMK 81 (154)
Q Consensus 39 ~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~ 81 (154)
..+|+--.+.|++|..-.-+...+...+.....|+..+..+|-
T Consensus 31 t~~GF~~tl~D~~G~~HeLgtntfgl~S~l~~~eV~~la~~la 73 (96)
T PF11080_consen 31 TRAGFSTTLTDEDGNPHELGTNTFGLISALSAEEVAQLARGLA 73 (96)
T ss_pred HhcCceeEEecCCCCEeecCCCeEEEEecCCHHHHHHHHHHHh
Confidence 4567778999999988777666666555556667777776664
No 90
>COG4822 CbiK Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]
Probab=23.65 E-value=1.8e+02 Score=21.33 Aligned_cols=46 Identities=13% Similarity=0.247 Sum_probs=28.0
Q ss_pred HHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHHhhcCCceE
Q 042421 77 KWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEMNNSFQNFR 132 (154)
Q Consensus 77 ~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~~~~~~~~ 132 (154)
..||....+.|++.|+|.+= . . -+..++..+++++......|..+.
T Consensus 63 ~~aL~klk~~gy~eviiQ~l--h---i-----IpG~EyEklvr~V~~~~~dF~~lk 108 (265)
T COG4822 63 IQALNKLKDQGYEEVIIQPL--H---I-----IPGIEYEKLVREVNKYSNDFKRLK 108 (265)
T ss_pred HHHHHHHHHccchheeeeee--e---e-----cCchHHHHHHHHHHHHhhhhheee
Confidence 45778888888888888531 0 0 112356666666666666665554
No 91
>PRK13189 peroxiredoxin; Provisional
Probab=23.46 E-value=2.4e+02 Score=20.25 Aligned_cols=42 Identities=19% Similarity=0.093 Sum_probs=29.3
Q ss_pred EEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC
Q 042421 44 EVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG 87 (154)
Q Consensus 44 G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~ 87 (154)
+.+|.|.+|.+......... ...+..|++.++.+|+...+.|
T Consensus 128 ~tfIID~~G~Ir~~~~~~~~--~gr~~~eilr~l~alq~~~~~~ 169 (222)
T PRK13189 128 AVFIIDPKGIIRAILYYPQE--VGRNMDEILRLVKALQTSDEKG 169 (222)
T ss_pred EEEEECCCCeEEEEEecCCC--CCCCHHHHHHHHHHhhhHhhcC
Confidence 46788999988765443332 2234678999999999887765
No 92
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=23.44 E-value=3.7e+02 Score=21.13 Aligned_cols=64 Identities=14% Similarity=0.175 Sum_probs=38.0
Q ss_pred eEEEEEecCCCc---eEeeccccccccchhHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhc
Q 042421 42 GLEVVIRDEKDN---CIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNN 106 (154)
Q Consensus 42 g~G~vird~~g~---~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~ 106 (154)
=+|-|+|.+.|. +...+...+ +..+...||+..+..+.+....+|+.++.|+--...+++.+-.
T Consensus 87 Y~g~VfR~~~gr~rEf~Q~GvEii-G~~~~~~aDaEvi~l~~~~L~~lgl~~~~i~ig~~~il~~ll~ 153 (373)
T PRK12295 87 YLGEVFRQRRDRASEFLQAGIESF-GRADPAAADAEVLALALEALAALGPGDLEVRLGDVGLFAALVD 153 (373)
T ss_pred EEccEEECCCCCCCcceEeeEEee-CCCCCccchHHHHHHHHHHHHHcCCCceEEEeCCHHHHHHHHH
Confidence 345566655443 333333322 2234456677777777888889999888887655555555443
No 93
>PRK10425 DNase TatD; Provisional
Probab=22.59 E-value=53 Score=24.30 Aligned_cols=18 Identities=22% Similarity=0.139 Sum_probs=14.7
Q ss_pred HHHhCCceEEEeccHHHH
Q 042421 83 ALRAGLASVLLESDCLEV 100 (154)
Q Consensus 83 a~~~~~~~v~iesDs~~v 100 (154)
+......++.+|||+.++
T Consensus 190 ~~~ipldrlLlETDaP~l 207 (258)
T PRK10425 190 LPLIPAERLLLETDAPYL 207 (258)
T ss_pred HHhCChHHEEEeccCCCC
Confidence 356678999999999875
No 94
>PRK13599 putative peroxiredoxin; Provisional
Probab=22.54 E-value=2.3e+02 Score=20.30 Aligned_cols=42 Identities=17% Similarity=0.034 Sum_probs=29.7
Q ss_pred EEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC
Q 042421 44 EVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG 87 (154)
Q Consensus 44 G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~ 87 (154)
..+|.|.+|.+........ ....+..|++.++.+|+...+.+
T Consensus 121 ~tfIID~dG~Ir~~~~~p~--~~gr~~~eilr~l~~lq~~~~~~ 162 (215)
T PRK13599 121 AVFIVDDKGTIRLIMYYPQ--EVGRNVDEILRALKALQTADQYG 162 (215)
T ss_pred EEEEECCCCEEEEEEEcCC--CCCCCHHHHHHHHHHhhhhhhcC
Confidence 3567799998887644322 23457889999999998877654
No 95
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=22.50 E-value=3.5e+02 Score=21.09 Aligned_cols=52 Identities=10% Similarity=0.169 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHHhhcCCceEEEEe
Q 042421 75 AIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEMNNSFQNFRAQHT 136 (154)
Q Consensus 75 Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~~~~~~~~~~~i 136 (154)
-+..|.++|.+.+-++|++ +.+.+.-....+.+.+-+++..++|+.+.+.|.
T Consensus 152 i~r~Af~~A~~r~~~~Vt~----------v~KaNvl~~t~glf~~~~~eva~~yP~V~~~~~ 203 (334)
T PRK08997 152 IVRFAYELARKEGRKKVTA----------VHKANIMKSTSGLFLKVAREVALRYPDIEFEEM 203 (334)
T ss_pred HHHHHHHHHHhcCCCeEEE----------EeCCCcchhhhHHHHHHHHHHHhhCCCeEEEee
Confidence 3577899998887777776 333222121222333444455567888877654
No 96
>TIGR00175 mito_nad_idh isocitrate dehydrogenase, NAD-dependent, mitochondrial type. The NADP-dependent IDH of Thermus aquaticus thermophilus strain HB8 resembles these NAD-dependent IDH, except for the residues involved in cofactor specificity, much more closely than it resembles other prokaryotic NADP-dependent IDH, including that of Thermus aquaticus strain YT1.
Probab=22.18 E-value=3.1e+02 Score=21.28 Aligned_cols=51 Identities=8% Similarity=0.107 Sum_probs=27.9
Q ss_pred HHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHHHHHHHHHHHhhcCCceEEEEe
Q 042421 76 IKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEISWMISEILEMNNSFQNFRAQHT 136 (154)
Q Consensus 76 l~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~~li~~i~~l~~~~~~~~~~~i 136 (154)
+..|.++|.+.+-++|.+- .+.+.-+..-+.+.+.+++....|+.+.+.|.
T Consensus 151 ~r~Af~~A~~r~~k~Vt~v----------~KaNvl~~t~glf~~~~~eva~~yp~v~~~~~ 201 (333)
T TIGR00175 151 ARYAFEYARKNGRKKVTAV----------HKANIMKLADGLFLNVCREVAKEYPDITFESM 201 (333)
T ss_pred HHHHHHHHHhcCCCeEEEE----------ECCccchhhHHHHHHHHHHHHHHCCCCeeeee
Confidence 5778999988877777772 22221111112233333345556777766654
No 97
>TIGR00228 ruvC crossover junction endodeoxyribonuclease RuvC. Endonuclease that resolves Holliday junction intermediates in genetic recombination. The active form of the protein is a dimer. Structure studies reveals that the catalytic center, comprised of four acidic residues, lies at the bottom of a cleft that fits a DNA duplex. The model hits a single Synechocystis PCC6803 protein at a score of 30, below the trusted cutoff, that appears orthologous and may act as authentic RuvC.
Probab=22.02 E-value=2.7e+02 Score=19.04 Aligned_cols=60 Identities=12% Similarity=0.016 Sum_probs=30.8
Q ss_pred EecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHH-hCCceEEEe
Q 042421 34 VDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALR-AGLASVLLE 94 (154)
Q Consensus 34 ~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~-~~~~~v~ie 94 (154)
.++.....|||++=.. .+.+.......+......+..-+..+...|+...+ .....+.+|
T Consensus 4 IDPGl~~tG~gvi~~~-~~~~~~v~~G~I~t~~~~~~~RL~~I~~~l~~~i~~y~P~~~aiE 64 (156)
T TIGR00228 4 IDPGSRVTGYGVIRQV-GRQLSYLGSGCIRTKVDDLPSRLKLIYAGVTEIITQFQPNYFAIE 64 (156)
T ss_pred ECcccccccEEEEEec-CCeEEEEEeeEEECCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEe
Confidence 3445567788877543 23332222222321223555566667777776653 445555555
No 98
>PF11208 DUF2992: Protein of unknown function (DUF2992); InterPro: IPR016787 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=21.72 E-value=2.3e+02 Score=18.81 Aligned_cols=42 Identities=19% Similarity=0.067 Sum_probs=25.5
Q ss_pred EEEEeceeEecCCCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHH
Q 042421 26 LKINVDVVVDVQKQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIK 77 (154)
Q Consensus 26 ~k~n~Dgs~~~~~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~ 77 (154)
+.+|+||-|- +|++=+.+.|.+-.+... ++ ..|...|++.++
T Consensus 1 LTV~Fdg~FW-------vGv~E~~~~~~~~v~rv~-FG--~EP~d~Ei~~fi 42 (132)
T PF11208_consen 1 LTVYFDGPFW-------VGVFERHEDGKYKVARVT-FG--AEPKDPEIYEFI 42 (132)
T ss_pred CeEEecCCcE-------EEEEEEEECCEEEEEEEe-eC--CCCCcHHHHHHH
Confidence 4678898764 566666666655544332 22 456677777655
No 99
>PF06874 FBPase_2: Firmicute fructose-1,6-bisphosphatase; InterPro: IPR009164 Fructose 1,6-bisphosphatase catalyses the hydrolysis of fructose 1,6-bisphosphate to fructose 6-phosphate []. This is an essential reaction in the process of gluconeogenesis, the process by which non-carbohydrate precursors are converted to glucose, and hence this enzyme is found almost universally. Enzyme activity can be regulated by a number of different mechanisms including AMP inhibition, cylic AMP-dependent phosphorylation and light-dependent-activation. This entry represents a group of fructose 1,6-bisphosphatases found within the Firmicutes (low GC Gram-positive bacteria) which do not show any significant sequence similarity to the enzymes from other organisms. The Bacillus subtilis enzyme is inhibited by AMP, though this can be overcome by phosphoenolpyruvate, and is dependent on Mn(2+) [, ]. Mutants lacking this enzyme are apparently still able to grow on gluconeogenic growth substrates such as malate and glycerol.; GO: 0042132 fructose 1,6-bisphosphate 1-phosphatase activity, 0006094 gluconeogenesis
Probab=21.25 E-value=1.7e+02 Score=24.83 Aligned_cols=52 Identities=13% Similarity=0.191 Sum_probs=27.9
Q ss_pred CCCCCCCCccCCCCCCcccCCCCCcEEEEeceeEecC-CCeeeEE-E-EEecCCCceEe
Q 042421 1 VIKSTKPMREEDGKEDQWQSPPIGWLKINVDVVVDVQ-KQVVGLE-V-VIRDEKDNCIA 56 (154)
Q Consensus 1 ~~~~~~~~~~~~~~~~~W~~p~~g~~k~n~Dgs~~~~-~~~~g~G-~-vird~~g~~~~ 56 (154)
||-||=|.....+.. |-..+---+-+||+++.. ....|++ . .+.|+.|-.+.
T Consensus 527 IINGHvPVk~k~GEs----PIKa~Gkl~VIDGGfskAYqk~TGIAGYTLiyNS~gl~L~ 581 (640)
T PF06874_consen 527 IINGHVPVKVKKGES----PIKANGKLIVIDGGFSKAYQKTTGIAGYTLIYNSYGLQLV 581 (640)
T ss_pred EECCccccccCCCCC----CccCCCEEEEEcChhhhhhccccCccceEEEecCCcceec
Confidence 355666666543321 333444456799999853 3344443 2 34466675554
No 100
>PRK10812 putative DNAse; Provisional
Probab=21.18 E-value=60 Score=24.09 Aligned_cols=19 Identities=26% Similarity=0.261 Sum_probs=14.5
Q ss_pred HHHHhCCceEEEeccHHHH
Q 042421 82 VALRAGLASVLLESDCLEV 100 (154)
Q Consensus 82 ~a~~~~~~~v~iesDs~~v 100 (154)
.+......++.+|||+.++
T Consensus 191 ~~~~ipldrlLlETD~P~~ 209 (265)
T PRK10812 191 AARYVPLDRLLVETDSPYL 209 (265)
T ss_pred HHHhCChhhEEEecCCCCC
Confidence 3445567999999999764
No 101
>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=21.06 E-value=2.2e+02 Score=17.90 Aligned_cols=64 Identities=5% Similarity=0.004 Sum_probs=35.8
Q ss_pred HHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCchhHH-HHHHHHHHHhhcCCceEEEEeCCCC
Q 042421 77 KWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMAEIS-WMISEILEMNNSFQNFRAQHTARIY 140 (154)
Q Consensus 77 ~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~~~~-~li~~i~~l~~~~~~~~~~~i~r~~ 140 (154)
..+.+.|.+.+.+-|++.|++-.....+.+-....+-+. .--..+.+.+..++.+.-.+.....
T Consensus 6 ~aa~~~A~~~~ak~Ivv~T~sG~ta~~isk~RP~~pIiavt~~~~~~r~l~l~~GV~p~~~~~~~ 70 (117)
T PF02887_consen 6 RAAVELAEDLNAKAIVVFTESGRTARLISKYRPKVPIIAVTPNESVARQLSLYWGVYPVLIEEFD 70 (117)
T ss_dssp HHHHHHHHHHTESEEEEE-SSSHHHHHHHHT-TSSEEEEEESSHHHHHHGGGSTTEEEEECSSHS
T ss_pred HHHHHHHHhcCCCEEEEECCCchHHHHHHhhCCCCeEEEEcCcHHHHhhhhcccceEEEEecccc
Confidence 456777888888888888888888887777432211100 0011223334456666665555544
No 102
>COG5499 Predicted transcription regulator containing HTH domain [Transcription]
Probab=20.83 E-value=2e+02 Score=18.53 Aligned_cols=61 Identities=10% Similarity=-0.003 Sum_probs=40.9
Q ss_pred hHHHHHHHHHHHHHHHHHhCCceEEEeccHHHHHHHHhcCCCCch---hHHHHHHHHHHHhhcC
Q 042421 68 VAMAEAAAIKWGMKVALRAGLASVLLESDCLEVVELVNNRCSSMA---EISWMISEILEMNNSF 128 (154)
Q Consensus 68 ~~~AE~~Al~~aL~~a~~~~~~~v~iesDs~~vi~~i~~~~~~~~---~~~~li~~i~~l~~~~ 128 (154)
-+++++...+.-+....+.....=.+|.||..+...+...+.... ..-.-+.-|+.++.+|
T Consensus 9 rne~dy~~Al~eV~~lfd~dpE~~~~e~dr~~Ilatl~eAyE~kh~~i~aP~pve~I~t~Md~~ 72 (120)
T COG5499 9 RNEADYRWALAEVDKLFDNDPENPLLELDRADILATLIEAYEFKHYPIAAPDPVEVIRTLMDQY 72 (120)
T ss_pred CCHHHHHHHHHHHHHHhcCCcccCchHHHHHHHHHHHHhhhhhhhchhhcCCHHHHHHHHHHHh
Confidence 467788777777777778888888999999998888776443221 1112245566666554
No 103
>PTZ00253 tryparedoxin peroxidase; Provisional
Probab=20.75 E-value=2.7e+02 Score=19.41 Aligned_cols=42 Identities=17% Similarity=0.113 Sum_probs=29.5
Q ss_pred EEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC
Q 042421 44 EVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG 87 (154)
Q Consensus 44 G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~ 87 (154)
|.+|.|++|.+......... .....-|++..+.+++.....+
T Consensus 129 ~~fiID~~G~i~~~~~~~~~--~~r~~~e~l~~l~a~~~~~~~~ 170 (199)
T PTZ00253 129 GLFIIDPKGMLRQITVNDMP--VGRNVEEVLRLLEAFQFVEKHG 170 (199)
T ss_pred EEEEECCCCEEEEEEecCCC--CCCCHHHHHHHHHhhhhHHhcC
Confidence 67788999988875443332 2345678888888998877643
No 104
>PRK10057 rpsV 30S ribosomal subunit S22; Reviewed
Probab=20.64 E-value=19 Score=18.51 Aligned_cols=19 Identities=26% Similarity=0.170 Sum_probs=15.0
Q ss_pred CceEEEeccHHHHHHHHhc
Q 042421 88 LASVLLESDCLEVVELVNN 106 (154)
Q Consensus 88 ~~~v~iesDs~~vi~~i~~ 106 (154)
-++|++|+|...+|+.-++
T Consensus 20 qrKvV~Egd~~t~vn~~tG 38 (44)
T PRK10057 20 QRKVVTEGDKSSVVNNPTG 38 (44)
T ss_pred ceeEEeeCCcceeEecccc
Confidence 3799999999988875444
No 105
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=20.21 E-value=3.3e+02 Score=19.41 Aligned_cols=48 Identities=13% Similarity=0.022 Sum_probs=34.6
Q ss_pred CCeeeEEEEEecCCCceEeeccccccccchhHHHHHHHHHHHHHHHHHhC
Q 042421 38 KQVVGLEVVIRDEKDNCIAAAVNTTKYFGNVAMAEAAAIKWGMKVALRAG 87 (154)
Q Consensus 38 ~~~~g~G~vird~~g~~~~~~~~~~~~~~s~~~AE~~Al~~aL~~a~~~~ 87 (154)
.+.+-=|.+|.|++|.+......... ..-+.-|++.++.||++..++|
T Consensus 120 ~g~a~R~~FIIDp~g~ir~~~v~~~~--iGRn~dEilR~idAlq~~~~hg 167 (194)
T COG0450 120 EGLALRGTFIIDPDGVIRHILVNPLT--IGRNVDEILRVIDALQFVAKHG 167 (194)
T ss_pred CCcceeEEEEECCCCeEEEEEEecCC--CCcCHHHHHHHHHHHHHHHHhC
Confidence 34455578888999987765443332 2356789999999999987765
Done!