Query 038317
Match_columns 127
No_of_seqs 112 out of 1084
Neff 9.6
Searched_HMMs 46136
Date Fri Mar 29 09:46:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038317.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038317hhsearch_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 2.9E-33 6.3E-38 176.7 12.3 123 1-126 4-126 (128)
2 PRK07708 hypothetical protein; 100.0 9E-29 2E-33 167.9 13.1 127 1-127 76-208 (219)
3 PRK07238 bifunctional RNase H/ 100.0 8.7E-28 1.9E-32 175.1 13.8 125 1-126 5-131 (372)
4 PF13456 RVT_3: Reverse transc 99.9 4.4E-27 9.5E-32 138.7 9.5 86 41-126 1-86 (87)
5 cd06222 RnaseH RNase H (RNase 99.9 1.1E-25 2.4E-30 139.9 14.3 124 1-125 2-130 (130)
6 COG0328 RnhA Ribonuclease HI [ 99.9 2.6E-26 5.7E-31 147.0 10.8 122 1-126 6-144 (154)
7 PRK08719 ribonuclease H; Revie 99.9 2.1E-22 4.5E-27 129.6 12.3 122 1-127 7-147 (147)
8 PF00075 RNase_H: RNase H; In 99.9 1.7E-22 3.7E-27 127.7 10.9 117 1-126 6-132 (132)
9 PRK00203 rnhA ribonuclease H; 99.9 1.2E-21 2.6E-26 126.7 11.6 120 1-126 6-141 (150)
10 PRK06548 ribonuclease H; Provi 99.9 5.7E-21 1.2E-25 124.1 12.8 118 1-126 8-141 (161)
11 KOG3752 Ribonuclease H [Replic 99.6 2.5E-14 5.5E-19 102.1 10.9 121 1-124 215-362 (371)
12 KOG1812 Predicted E3 ubiquitin 97.9 3E-05 6.5E-10 57.3 5.3 114 12-125 17-136 (384)
13 COG0295 Cdd Cytidine deaminase 95.1 0.19 4.1E-06 31.9 6.8 55 15-70 27-81 (134)
14 COG0590 CumB Cytosine/adenosin 94.0 0.18 3.9E-06 32.7 5.1 61 12-72 26-87 (152)
15 cd01285 nucleoside_deaminase N 92.7 0.45 9.7E-06 28.9 5.1 59 12-70 15-74 (109)
16 TIGR01354 cyt_deam_tetra cytid 89.8 0.94 2E-05 28.4 4.5 56 14-70 21-76 (127)
17 cd01284 Riboflavin_deaminase-r 89.6 1.4 3E-05 27.2 5.0 51 12-69 17-67 (115)
18 PRK10860 tRNA-specific adenosi 89.4 1 2.2E-05 29.8 4.6 41 14-55 33-74 (172)
19 cd01283 cytidine_deaminase Cyt 85.7 2.7 5.9E-05 25.4 4.7 44 12-55 16-59 (112)
20 PRK14828 undecaprenyl pyrophos 84.7 6.2 0.00013 27.9 6.6 91 14-113 28-121 (256)
21 cd00786 cytidine_deaminase-lik 84.3 6 0.00013 23.3 5.6 55 12-69 16-72 (96)
22 PRK05578 cytidine deaminase; V 81.1 5 0.00011 25.4 4.6 56 14-70 24-79 (131)
23 PF00383 dCMP_cyt_deam_1: Cyti 80.7 2.2 4.7E-05 25.2 2.8 57 11-68 21-78 (102)
24 PRK12411 cytidine deaminase; P 78.7 7.8 0.00017 24.5 4.9 56 14-70 24-79 (132)
25 PRK14835 undecaprenyl pyrophos 77.9 22 0.00047 25.5 7.4 90 14-113 43-140 (275)
26 PF05830 NodZ: Nodulation prot 77.5 13 0.00027 27.2 6.1 66 11-80 165-233 (321)
27 PRK08298 cytidine deaminase; V 77.0 8.6 0.00019 24.5 4.8 61 6-70 18-78 (136)
28 PRK06848 hypothetical protein; 75.4 9.5 0.00021 24.4 4.6 62 5-69 20-81 (139)
29 TIGR02571 ComEB ComE operon pr 75.1 12 0.00026 24.2 5.2 41 13-54 24-80 (151)
30 cd01286 deoxycytidylate_deamin 72.8 13 0.00028 23.4 4.8 53 13-68 19-93 (131)
31 PF00336 DNA_pol_viral_C: DNA 72.7 19 0.00041 24.8 5.7 84 12-115 102-186 (245)
32 COG0084 TatD Mg-dependent DNas 71.2 2.5 5.4E-05 29.9 1.4 46 52-97 188-234 (256)
33 PF03259 Robl_LC7: Roadblock/L 68.8 17 0.00037 20.5 4.5 58 14-72 14-75 (91)
34 PHA02588 cd deoxycytidylate de 68.7 29 0.00063 22.9 5.9 14 41-54 81-94 (168)
35 PRK14834 undecaprenyl pyrophos 66.9 42 0.00092 23.7 7.2 91 13-113 15-111 (249)
36 PRK14827 undecaprenyl pyrophos 64.5 48 0.001 24.1 6.7 89 15-113 70-164 (296)
37 COG3341 Predicted double-stran 63.6 21 0.00046 24.7 4.5 76 4-81 71-153 (225)
38 PF08923 MAPKK1_Int: Mitogen-a 62.2 5.7 0.00012 24.7 1.6 62 16-78 18-83 (119)
39 cd00475 CIS_IPPS Cis (Z)-Isopr 60.3 54 0.0012 22.7 6.7 86 19-113 6-97 (221)
40 PRK14841 undecaprenyl pyrophos 60.1 56 0.0012 22.8 6.9 87 19-114 9-101 (233)
41 TIGR00055 uppS undecaprenyl di 60.1 56 0.0012 22.8 6.7 86 19-113 5-96 (226)
42 PRK14837 undecaprenyl pyrophos 57.6 63 0.0014 22.6 6.9 91 14-114 8-104 (230)
43 KOG1018 Cytosine deaminase FCY 54.9 34 0.00074 22.6 4.4 58 13-70 31-92 (169)
44 PRK14829 undecaprenyl pyrophos 52.1 81 0.0018 22.2 6.8 92 13-114 15-112 (243)
45 PRK14838 undecaprenyl pyrophos 51.2 84 0.0018 22.1 6.8 91 14-114 12-106 (242)
46 PRK14842 undecaprenyl pyrophos 50.8 86 0.0019 22.1 6.7 91 14-114 10-106 (241)
47 COG3981 Predicted acetyltransf 50.3 30 0.00064 23.1 3.4 26 46-71 116-141 (174)
48 PRK14830 undecaprenyl pyrophos 48.7 95 0.0021 22.0 8.0 91 13-113 23-119 (251)
49 PRK14836 undecaprenyl pyrophos 48.4 76 0.0016 22.5 5.5 91 14-114 16-112 (253)
50 PRK11449 putative deoxyribonuc 47.2 14 0.00031 26.0 1.8 20 54-73 192-211 (258)
51 COG1212 KdsB CMP-2-keto-3-deox 47.1 90 0.002 22.0 5.5 51 49-99 31-88 (247)
52 PLN02182 cytidine deaminase 47.0 50 0.0011 24.5 4.5 39 15-53 67-107 (339)
53 PTZ00349 dehydrodolichyl dipho 46.1 1.2E+02 0.0026 22.4 6.9 88 15-113 22-119 (322)
54 KOG3139 N-acetyltransferase [G 44.0 34 0.00073 22.6 3.0 23 49-71 106-128 (165)
55 PRK14833 undecaprenyl pyrophos 43.7 1.1E+02 0.0024 21.4 7.0 89 15-113 7-101 (233)
56 TIGR00326 eubact_ribD riboflav 43.6 36 0.00079 25.0 3.5 36 15-54 20-55 (344)
57 PLN02402 cytidine deaminase 43.3 67 0.0015 23.5 4.6 63 15-78 47-115 (303)
58 KOG0833 Cytidine deaminase [Nu 42.4 78 0.0017 21.1 4.5 39 15-53 43-81 (173)
59 PRK10057 rpsV 30S ribosomal su 41.8 4.5 9.7E-05 20.0 -1.0 21 60-80 19-39 (44)
60 PRK14839 undecaprenyl pyrophos 41.0 1.3E+02 0.0028 21.3 6.8 91 13-113 10-106 (239)
61 PRK14840 undecaprenyl pyrophos 40.7 1.3E+02 0.0028 21.3 6.9 92 14-113 20-119 (250)
62 PRK09027 cytidine deaminase; P 40.6 72 0.0016 23.2 4.5 63 15-78 72-140 (295)
63 PRK09027 cytidine deaminase; P 40.5 98 0.0021 22.5 5.1 57 14-70 210-267 (295)
64 PRK10425 DNase TatD; Provision 36.9 25 0.00055 24.8 1.7 21 54-74 188-208 (258)
65 PRK13190 putative peroxiredoxi 36.5 1.3E+02 0.0028 20.2 5.1 43 16-60 118-160 (202)
66 PRK14832 undecaprenyl pyrophos 36.1 64 0.0014 22.9 3.6 90 14-113 20-115 (253)
67 PRK13191 putative peroxiredoxi 35.6 1.2E+02 0.0025 20.8 4.8 42 17-60 126-167 (215)
68 PRK13599 putative peroxiredoxi 34.4 1.3E+02 0.0029 20.5 4.9 42 17-60 121-162 (215)
69 PF01026 TatD_DNase: TatD rela 33.1 33 0.00072 23.9 1.8 22 52-73 188-209 (255)
70 PRK14831 undecaprenyl pyrophos 32.7 70 0.0015 22.6 3.4 54 14-71 22-75 (249)
71 TIGR01355 cyt_deam_dimer cytid 32.7 1.2E+02 0.0026 22.0 4.5 63 15-78 44-112 (283)
72 PRK09822 lipopolysaccharide co 32.3 70 0.0015 22.6 3.2 21 48-68 172-192 (269)
73 PRK09902 hypothetical protein; 31.6 1.8E+02 0.0039 20.2 5.7 25 2-26 15-42 (216)
74 cd03016 PRX_1cys Peroxiredoxin 30.5 1.7E+02 0.0037 19.6 5.5 42 17-60 119-160 (203)
75 PRK10812 putative DNAse; Provi 29.8 39 0.00085 23.9 1.8 20 54-73 190-209 (265)
76 cd02955 SSP411 TRX domain, SSP 29.1 1.4E+02 0.003 18.5 4.0 44 14-58 79-123 (124)
77 PF12991 DUF3875: Domain of un 28.6 79 0.0017 16.8 2.3 31 20-50 23-53 (54)
78 PTZ00137 2-Cys peroxiredoxin; 28.4 1.6E+02 0.0035 20.9 4.6 42 17-60 190-231 (261)
79 COG0191 Fba Fructose/tagatose 28.1 57 0.0012 23.6 2.3 23 52-74 219-241 (286)
80 PF05903 Peptidase_C97: PPPDE 27.3 44 0.00095 21.5 1.5 29 96-124 93-121 (151)
81 COG0020 UppS Undecaprenyl pyro 27.3 2.3E+02 0.005 20.0 7.2 86 19-113 22-113 (245)
82 COG3142 CutC Uncharacterized p 26.6 1.7E+02 0.0038 20.6 4.3 39 16-66 54-92 (241)
83 COG0450 AhpC Peroxiredoxin [Po 26.6 2.1E+02 0.0046 19.5 6.4 49 10-60 119-167 (194)
84 PF11080 DUF2622: Protein of u 26.4 1.3E+02 0.0029 18.0 3.3 42 13-54 32-73 (96)
85 CHL00041 rps11 ribosomal prote 26.4 1.6E+02 0.0036 18.1 6.8 49 19-68 28-81 (116)
86 PRK10382 alkyl hydroperoxide r 26.2 2E+02 0.0044 19.1 5.8 42 16-59 120-161 (187)
87 smart00340 HALZ homeobox assoc 25.7 29 0.00063 17.4 0.4 31 67-97 4-34 (44)
88 cd03015 PRX_Typ2cys Peroxiredo 25.3 1.9E+02 0.0042 18.6 5.3 43 17-61 122-164 (173)
89 PRK10786 ribD bifunctional dia 25.0 1.2E+02 0.0025 22.7 3.6 37 15-55 26-62 (367)
90 PLN02807 diaminohydroxyphospho 24.9 1.2E+02 0.0025 23.0 3.5 36 16-55 56-91 (380)
91 PF00411 Ribosomal_S11: Riboso 24.8 1.7E+02 0.0037 17.7 4.4 52 18-70 14-70 (110)
92 TIGR02608 delta_60_rpt delta-6 24.7 48 0.001 17.6 1.1 16 1-16 34-49 (55)
93 PRK13189 peroxiredoxin; Provis 24.6 2.4E+02 0.0052 19.3 5.1 42 17-60 128-169 (222)
94 PF11821 DUF3341: Protein of u 24.2 1.1E+02 0.0024 20.3 3.0 24 47-70 13-36 (173)
95 TIGR00857 pyrC_multi dihydroor 24.1 2.3E+02 0.005 21.3 5.1 39 40-78 192-230 (411)
96 KOG3170 Conserved phosducin-li 24.0 1.4E+02 0.0031 20.7 3.5 27 86-112 124-151 (240)
97 PF07511 DUF1525: Protein of u 23.2 1.3E+02 0.0027 18.7 2.9 22 43-64 63-84 (114)
98 TIGR01355 cyt_deam_dimer cytid 22.9 2.4E+02 0.0052 20.5 4.6 41 15-55 196-236 (283)
99 KOG3284 Vacuolar sorting prote 22.8 73 0.0016 21.7 1.9 37 42-78 26-66 (213)
100 PF12458 DUF3686: ATPase invol 22.4 95 0.0021 23.9 2.6 33 68-100 414-446 (448)
101 KOG3020 TatD-related DNase [Re 22.4 43 0.00093 24.3 0.9 26 52-77 211-236 (296)
102 PF03481 SUA5: Putative GTP-bi 22.3 1.9E+02 0.0042 17.7 3.7 25 44-68 82-106 (125)
103 PRK09240 thiH thiamine biosynt 22.1 3.4E+02 0.0074 20.2 5.9 66 48-124 108-173 (371)
104 PRK07369 dihydroorotase; Provi 22.1 2.5E+02 0.0054 21.3 4.9 39 40-78 207-245 (418)
105 TIGR02351 thiH thiazole biosyn 21.9 3.4E+02 0.0074 20.2 5.5 65 49-124 108-172 (366)
106 PF05184 SapB_1: Saposin-like 21.8 1.1E+02 0.0023 14.2 2.1 31 69-99 6-36 (39)
107 PRK07627 dihydroorotase; Provi 21.7 2.6E+02 0.0056 21.3 4.9 38 41-78 207-244 (425)
108 PF06754 PhnG: Phosphonate met 21.6 2.4E+02 0.0051 18.2 4.4 18 38-55 83-100 (146)
109 PF14591 AF0941-like: AF0941-l 20.9 76 0.0016 20.0 1.6 32 66-97 42-73 (127)
110 COG2938 Uncharacterized conser 20.7 1.4E+02 0.0031 17.8 2.7 34 67-100 57-91 (94)
111 PLN02402 cytidine deaminase 20.3 2.9E+02 0.0064 20.3 4.7 40 15-54 214-253 (303)
112 PRK05309 30S ribosomal protein 20.3 2.4E+02 0.0052 17.7 6.2 50 19-69 32-86 (128)
No 1
>PRK13907 rnhA ribonuclease H; Provisional
Probab=100.00 E-value=2.9e-33 Score=176.68 Aligned_cols=123 Identities=16% Similarity=0.132 Sum_probs=111.5
Q ss_pred CcccceeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcC
Q 038317 1 INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNR 80 (127)
Q Consensus 1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~ 80 (127)
+||||||.++++.+|+|+|+++..|.+...+ .. +..++++||++|++.||+.+.+.|+++|+|+|||+.+++++++.
T Consensus 4 iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~--~~-~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~ 80 (128)
T PRK13907 4 VYIDGASKGNPGPSGAGVFIKGVQPAVQLSL--PL-GTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKE 80 (128)
T ss_pred EEEeeCCCCCCCccEEEEEEEECCeeEEEEe--cc-cccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHH
Confidence 5899999999999999999999888765432 22 45789999999999999999999999999999999999999998
Q ss_pred CCCcchHHHHHHHHHHHhhcCCcEEEEEecCCccHHHHHHHHhhhc
Q 038317 81 CSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICK 126 (127)
Q Consensus 81 ~~~~~~~~~~~~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a~~ 126 (127)
+.....+..++++++.++++|+.+.+.||||++|+.||.||+.|+.
T Consensus 81 ~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~r~~N~~Ad~LA~~a~~ 126 (128)
T PRK13907 81 YAKNKMFAPLLEEALQYIKSFDLFFIKWIPSSQNKVADELARKAIL 126 (128)
T ss_pred HhcChhHHHHHHHHHHHHhcCCceEEEEcCchhchhHHHHHHHHHh
Confidence 7655679999999999999999999999999999999999999874
No 2
>PRK07708 hypothetical protein; Validated
Probab=99.96 E-value=9e-29 Score=167.94 Aligned_cols=127 Identities=18% Similarity=0.174 Sum_probs=110.2
Q ss_pred CcccceeecCCCeeEEEEEEecCCCcEE--EEeceeecccccHHHHHHHHHHHHHHHHHHcCCce--EEEEeehHHHHHH
Q 038317 1 INVDATVDVEKQVAGLGVVIRDDKDNCI--VAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVS--ALLESDCLEVVQI 76 (127)
Q Consensus 1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~~~--~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~--v~i~sDs~~vi~~ 76 (127)
+|||||+.++++.+|+|+|++++.|... ......+....++++||+.|++.||+.|.++|+++ |.|++||+.++++
T Consensus 76 vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~DSqlVi~q 155 (219)
T PRK07708 76 VYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGDSQVVLNQ 155 (219)
T ss_pred EEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEeccHHHHHH
Confidence 5899999999999999999998877543 23334566678999999999999999999999976 8999999999999
Q ss_pred HhcCCCCcc-hHHHHHHHHHHHhhcCC-cEEEEEecCCccHHHHHHHHhhhcC
Q 038317 77 VNNRCSSMV-EISWMISEILEMNNSFQ-NFRAQHTATINNSAAHALRFKICKR 127 (127)
Q Consensus 77 ~~~~~~~~~-~~~~~~~~i~~l~~~~~-~~~~~~i~r~~N~~Ad~LA~~a~~~ 127 (127)
+++.+.... .+..+..++..++++|. .+.|.||||++|..||.||+.|+++
T Consensus 156 i~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~~N~~AD~LAk~Al~~ 208 (219)
T PRK07708 156 LAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRKQNKEADQLATQALEG 208 (219)
T ss_pred hCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCchhhhHHHHHHHHHHhc
Confidence 999986655 57788999998888886 4889999999999999999999864
No 3
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.96 E-value=8.7e-28 Score=175.10 Aligned_cols=125 Identities=16% Similarity=0.177 Sum_probs=112.4
Q ss_pred CcccceeecCCCeeEEEEEEecCCCc-EEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhc
Q 038317 1 INVDATVDVEKQVAGLGVVIRDDKDN-CIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNN 79 (127)
Q Consensus 1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~-~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~ 79 (127)
+|||||+.++++.+|+|+++++++|. ++...+..+. ..++++||+.|++.||+++.+.|.++|.|++||+.+++.+++
T Consensus 5 i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~-~~tnn~AE~~All~gL~~a~~~g~~~v~i~~DS~lvi~~i~~ 83 (372)
T PRK07238 5 VEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIG-RATNNVAEYRGLIAGLEAAAELGATEVEVRMDSKLVVEQMSG 83 (372)
T ss_pred EEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccC-CCCchHHHHHHHHHHHHHHHhCCCCeEEEEeCcHHHHHHhCC
Confidence 58999999999999999999998764 5455555554 568889999999999999999999999999999999999999
Q ss_pred CCCCc-chHHHHHHHHHHHhhcCCcEEEEEecCCccHHHHHHHHhhhc
Q 038317 80 RCSSM-VEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKICK 126 (127)
Q Consensus 80 ~~~~~-~~~~~~~~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a~~ 126 (127)
.+... ..+..++.+++.++++|..++|+||+|++|..||.||+.|+.
T Consensus 84 ~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r~~N~~AD~LA~~a~~ 131 (372)
T PRK07238 84 RWKVKHPDMKPLAAQARELASQFGRVTYTWIPRARNAHADRLANEAMD 131 (372)
T ss_pred CCccCChHHHHHHHHHHHHHhcCCceEEEECCchhhhHHHHHHHHHHH
Confidence 87644 478899999999999999999999999999999999999874
No 4
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.95 E-value=4.4e-27 Score=138.75 Aligned_cols=86 Identities=30% Similarity=0.307 Sum_probs=76.4
Q ss_pred HHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHHHHHhhcCCcEEEEEecCCccHHHHHH
Q 038317 41 VAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHAL 120 (127)
Q Consensus 41 ~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~i~r~~N~~Ad~L 120 (127)
|++||+.|++.||++|.++|+++|+|||||+.+|+++++....++++..++++|+.+++.|++++|.||||+.|.+||.|
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 68999999999999999999999999999999999999987777789999999999999999999999999999999999
Q ss_pred HHhhhc
Q 038317 121 RFKICK 126 (127)
Q Consensus 121 A~~a~~ 126 (127)
||.|++
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 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=99.94 E-value=1.1e-25 Score=139.85 Aligned_cols=124 Identities=21% Similarity=0.187 Sum_probs=111.8
Q ss_pred CcccceeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcC
Q 038317 1 INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNR 80 (127)
Q Consensus 1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~ 80 (127)
|+||||+....+.+|+|++++++.+.+........ ...+++++|+.|+++||+.+...+.+++.|++||+.+++.+++.
T Consensus 2 ~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~-~~~s~~~aEl~al~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~~ 80 (130)
T cd06222 2 IYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLG-GNTTNNRAELLALIEALELALELGGKKVNIYTDSQYVINALTGW 80 (130)
T ss_pred EEecccCCCCCCceEEEEEEEeCCCeEEEeccccC-CCCcHHHHHHHHHHHHHHHHHhCCCceEEEEECHHHHHHHhhcc
Confidence 68999999998999999999999988777666544 57799999999999999999999999999999999999999987
Q ss_pred CC-CcchHHHHHHHHHHHhhcCCcEEEEEecC----CccHHHHHHHHhhh
Q 038317 81 CS-SMVEISWMISEILEMNNSFQNFRAQHTAT----INNSAAHALRFKIC 125 (127)
Q Consensus 81 ~~-~~~~~~~~~~~i~~l~~~~~~~~~~~i~r----~~N~~Ad~LA~~a~ 125 (127)
.. .......++.++..+..++..++|.|||| ..|..||.||+.++
T Consensus 81 ~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 81 YEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred ccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 65 34578899999999988899999999999 99999999999874
No 6
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.94 E-value=2.6e-26 Score=146.98 Aligned_cols=122 Identities=18% Similarity=0.077 Sum_probs=104.9
Q ss_pred CcccceeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcC
Q 038317 1 INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNR 80 (127)
Q Consensus 1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~ 80 (127)
+++||+|.++++++|+|+|++...+.. ..+.... .+|++++|++|++.||+.+.+.+...|.++|||++|++.++ .
T Consensus 6 if~DGa~~gNpG~gG~g~vl~~~~~~~--~~s~~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~-~ 81 (154)
T COG0328 6 IFTDGACLGNPGPGGWGAVLRYGDGEK--ELSGGEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGIT-R 81 (154)
T ss_pred EEecCccCCCCCCceEEEEEEcCCceE--EEeeeee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHH-H
Confidence 579999999999999999999666655 2233343 68999999999999999999999999999999999999999 3
Q ss_pred C-------------CCcchHHHHHHHHHHHhhcCCcEEEEEec----CCccHHHHHHHHhhhc
Q 038317 81 C-------------SSMVEISWMISEILEMNNSFQNFRAQHTA----TINNSAAHALRFKICK 126 (127)
Q Consensus 81 ~-------------~~~~~~~~~~~~i~~l~~~~~~~~~~~i~----r~~N~~Ad~LA~~a~~ 126 (127)
+ ..+.+...+++++..++.++..+.+.||+ +..|+.||.||+.|++
T Consensus 82 w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~ 144 (154)
T COG0328 82 WIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAAR 144 (154)
T ss_pred HHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHH
Confidence 2 11224568899999999999999999999 7889999999999875
No 7
>PRK08719 ribonuclease H; Reviewed
Probab=99.89 E-value=2.1e-22 Score=129.56 Aligned_cols=122 Identities=18% Similarity=0.175 Sum_probs=97.7
Q ss_pred CcccceeecCCC---eeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHH
Q 038317 1 INVDATVDVEKQ---VAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIV 77 (127)
Q Consensus 1 ~n~Dgs~~~~~~---~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~ 77 (127)
++||||+..+++ .+|+|+++.++.|..+...+..+....|++.||+.|++.||+.+.+. ..|+|||+++++.+
T Consensus 7 iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~----~~i~tDS~yvi~~i 82 (147)
T PRK08719 7 IYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDG----DVIYSDSDYCVRGF 82 (147)
T ss_pred EEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCC----CEEEechHHHHHHH
Confidence 479999987765 68999999998887654444445556799999999999999998764 37999999999999
Q ss_pred h--------cCCC----CcchHHHHHHHHHHHhhcCCcEEEEEecC----CccHHHHHHHHhhhcC
Q 038317 78 N--------NRCS----SMVEISWMISEILEMNNSFQNFRAQHTAT----INNSAAHALRFKICKR 127 (127)
Q Consensus 78 ~--------~~~~----~~~~~~~~~~~i~~l~~~~~~~~~~~i~r----~~N~~Ad~LA~~a~~~ 127 (127)
+ +.+. .+..+..+++.|..+.+ ...++|.||++ .+|..||.||+.|.+.
T Consensus 83 ~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~-~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~~ 147 (147)
T PRK08719 83 NEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRA-RKYVEVEKVTAHSGIEGNEAADMLAQAAAEL 147 (147)
T ss_pred HHHHHHHHhCCcccCCCcccccHHHHHHHHHHhC-CCcEEEEEecCCCCChhHHHHHHHHHHHhhC
Confidence 5 3332 12346788998887776 57799999999 6699999999999763
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=99.89 E-value=1.7e-22 Score=127.65 Aligned_cols=117 Identities=18% Similarity=0.103 Sum_probs=92.5
Q ss_pred CcccceeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhc-
Q 038317 1 INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNN- 79 (127)
Q Consensus 1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~- 79 (127)
++||||+.++++.+|+|+++.+. . ..+..++ ..+++.||+.|+.+||+ +. . .++|.|+|||+.++..++.
T Consensus 6 iytDgS~~~~~~~~~~g~v~~~~--~---~~~~~~~-~~s~~~aEl~Ai~~AL~-~~-~-~~~v~I~tDS~~v~~~l~~~ 76 (132)
T PF00075_consen 6 IYTDGSCRPNPGKGGAGYVVWGG--R---NFSFRLG-GQSNNRAELQAIIEALK-AL-E-HRKVTIYTDSQYVLNALNKW 76 (132)
T ss_dssp EEEEEEECTTTTEEEEEEEEETT--E---EEEEEEE-SECHHHHHHHHHHHHHH-TH-S-TSEEEEEES-HHHHHHHHTH
T ss_pred EEEeCCccCCCCceEEEEEEECC--e---EEEeccc-ccchhhhheehHHHHHH-Hh-h-cccccccccHHHHHHHHHHh
Confidence 47999999999999999977543 2 3334455 77999999999999999 65 2 2999999999999998887
Q ss_pred ----CCCCcchHHHHHHHHHHHhhcCCcEEEEEecCC-----ccHHHHHHHHhhhc
Q 038317 80 ----RCSSMVEISWMISEILEMNNSFQNFRAQHTATI-----NNSAAHALRFKICK 126 (127)
Q Consensus 80 ----~~~~~~~~~~~~~~i~~l~~~~~~~~~~~i~r~-----~N~~Ad~LA~~a~~ 126 (127)
.+...+....++.++..++.+...+.|.|||++ .|..||+|||.|+.
T Consensus 77 ~~~~~~~~~~~~~~i~~~i~~~~~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~~ 132 (132)
T PF00075_consen 77 LHGNGWKKTSNGRPIKNEIWELLSRGIKVRFRWVPGHSGVPQGNERADRLAKEAAQ 132 (132)
T ss_dssp HHHTTSBSCTSSSBHTHHHHHHHHHSSEEEEEESSSSSSSHHHHHHHHHHHHHHHH
T ss_pred ccccccccccccccchhheeeccccceEEeeeeccCcCCCchhHHHHHHHHHHhcC
Confidence 433322222566788877788899999999998 68899999999873
No 9
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.88 E-value=1.2e-21 Score=126.70 Aligned_cols=120 Identities=13% Similarity=0.002 Sum_probs=94.2
Q ss_pred CcccceeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhc-
Q 038317 1 INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNN- 79 (127)
Q Consensus 1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~- 79 (127)
++||||+.++++.+|+|+|+...++... .+... +..|++.||+.|++.||+.+.+ ...|.|+|||+++++.++.
T Consensus 6 iytDGs~~~n~~~~g~g~v~~~~~~~~~--~~~~~-~~~TN~~aEL~Ai~~AL~~~~~--~~~v~I~tDS~yvi~~i~~w 80 (150)
T PRK00203 6 IYTDGACLGNPGPGGWGAILRYKGHEKE--LSGGE-ALTTNNRMELMAAIEALEALKE--PCEVTLYTDSQYVRQGITEW 80 (150)
T ss_pred EEEEecccCCCCceEEEEEEEECCeeEE--EecCC-CCCcHHHHHHHHHHHHHHHcCC--CCeEEEEECHHHHHHHHHHH
Confidence 5799999999999999999986544322 22223 3568999999999999998754 3689999999999999985
Q ss_pred -------CCCC----cchHHHHHHHHHHHhhcCCcEEEEEec----CCccHHHHHHHHhhhc
Q 038317 80 -------RCSS----MVEISWMISEILEMNNSFQNFRAQHTA----TINNSAAHALRFKICK 126 (127)
Q Consensus 80 -------~~~~----~~~~~~~~~~i~~l~~~~~~~~~~~i~----r~~N~~Ad~LA~~a~~ 126 (127)
.+.. +-....++++|..++.. ..+.|.||| ++.|..||+||+.|++
T Consensus 81 ~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~-~~v~~~wV~~H~~~~~N~~AD~lA~~a~~ 141 (150)
T PRK00203 81 IHGWKKNGWKTADKKPVKNVDLWQRLDAALKR-HQIKWHWVKGHAGHPENERCDELARAGAE 141 (150)
T ss_pred HHHHHHcCCcccCCCccccHHHHHHHHHHhcc-CceEEEEecCCCCCHHHHHHHHHHHHHHH
Confidence 2211 22456788999887765 689999999 6679999999999874
No 10
>PRK06548 ribonuclease H; Provisional
Probab=99.87 E-value=5.7e-21 Score=124.09 Aligned_cols=118 Identities=16% Similarity=0.127 Sum_probs=93.3
Q ss_pred CcccceeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhc-
Q 038317 1 INVDATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNN- 79 (127)
Q Consensus 1 ~n~Dgs~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~- 79 (127)
++|||++.++++.+|+|+++.+. + .. +... ...|++.||++|++.||+.. ..+..+|.|+|||+++++.++.
T Consensus 8 IytDGa~~gnpg~~G~g~~~~~~-~-~~---~g~~-~~~TNnraEl~Aii~aL~~~-~~~~~~v~I~TDS~yvi~~i~~W 80 (161)
T PRK06548 8 AATDGSSLANPGPSGWAWYVDEN-T-WD---SGGW-DIATNNIAELTAVRELLIAT-RHTDRPILILSDSKYVINSLTKW 80 (161)
T ss_pred EEEeeccCCCCCceEEEEEEeCC-c-EE---ccCC-CCCCHHHHHHHHHHHHHHhh-hcCCceEEEEeChHHHHHHHHHH
Confidence 57999999999999999999752 2 22 2222 35799999999999999755 4555689999999999999994
Q ss_pred -------CCC----CcchHHHHHHHHHHHhhcCCcEEEEEecCCc----cHHHHHHHHhhhc
Q 038317 80 -------RCS----SMVEISWMISEILEMNNSFQNFRAQHTATIN----NSAAHALRFKICK 126 (127)
Q Consensus 80 -------~~~----~~~~~~~~~~~i~~l~~~~~~~~~~~i~r~~----N~~Ad~LA~~a~~ 126 (127)
.+. .+.....+++.|..++++ ..++|.||+.+. |..||.||++|..
T Consensus 81 ~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~-~~v~~~wVkgHsg~~gNe~aD~LA~~aa~ 141 (161)
T PRK06548 81 VYSWKMRKWRKADGKPVLNQEIIQEIDSLMEN-RNIRMSWVNAHTGHPLNEAADSLARQAAN 141 (161)
T ss_pred HHHHHHCCCcccCCCccccHHHHHHHHHHHhc-CceEEEEEecCCCCHHHHHHHHHHHHHHH
Confidence 221 223568899999988876 479999998654 9999999999874
No 11
>KOG3752 consensus Ribonuclease H [Replication, recombination and repair]
Probab=99.58 E-value=2.5e-14 Score=102.14 Aligned_cols=121 Identities=16% Similarity=0.076 Sum_probs=94.9
Q ss_pred CcccceeecCC---CeeEEEEEEecCCCcEEEEeceeec-ccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHH
Q 038317 1 INVDATVDVEK---QVAGLGVVIRDDKDNCIVAAIISYR-IFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQI 76 (127)
Q Consensus 1 ~n~Dgs~~~~~---~~~g~G~vi~~~~g~~~~~~~~~~~-~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~ 76 (127)
+++|||+..+. ..+|||+.+-+.+-.- .+.++. +..+++.||+.|+.+||+.|++.+..+|+|.|||.++|+.
T Consensus 215 vytDGS~~~ng~~~~~AGyGvywg~~~e~N---~s~pv~~g~qtNnrAEl~Av~~ALkka~~~~~~kv~I~TDS~~~i~~ 291 (371)
T KOG3752|consen 215 VYTDGSSSGNGRKSSRAGYGVYWGPGHELN---VSGPLAGGRQTNNRAELIAAIEALKKARSKNINKVVIRTDSEYFINS 291 (371)
T ss_pred EEecCccccCCCCCCcceeEEeeCCCCccc---ccccCCCCcccccHHHHHHHHHHHHHHHhcCCCcEEEEechHHHHHH
Confidence 36899999853 4689999987644433 234555 7889999999999999999999999999999999999999
Q ss_pred HhcC--------C----CCc-----chHHHHHHHHHHHhhc--CCcEEEEEecC----CccHHHHHHHHhh
Q 038317 77 VNNR--------C----SSM-----VEISWMISEILEMNNS--FQNFRAQHTAT----INNSAAHALRFKI 124 (127)
Q Consensus 77 ~~~~--------~----~~~-----~~~~~~~~~i~~l~~~--~~~~~~~~i~r----~~N~~Ad~LA~~a 124 (127)
++.. + ... ......+.++.++.+. ...+++.||+. ..|..||.||+..
T Consensus 292 l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~lARkg 362 (371)
T KOG3752|consen 292 LTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADALARKG 362 (371)
T ss_pred HHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHHHhhh
Confidence 9741 1 111 2345667777777776 48899999986 4599999999987
No 12
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=97.87 E-value=3e-05 Score=57.28 Aligned_cols=114 Identities=20% Similarity=0.182 Sum_probs=86.3
Q ss_pred CeeEEEEEEecC-CCcEEEEeceeecc--cccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcc--h
Q 038317 12 QVAGLGVVIRDD-KDNCIVAAIISYRI--FTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMV--E 86 (127)
Q Consensus 12 ~~~g~G~vi~~~-~g~~~~~~~~~~~~--~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~--~ 86 (127)
..+|.|+.+.|. +....+........ ..++..||+.|+..++..+.+.|+.++.+++|.......+.++..... .
T Consensus 17 ~~~g~~vai~d~~d~~~~f~~k~~~~~~~~~~~~~ae~~al~~~l~ea~~~~~~~~~~~~d~~~~~~~v~~~~~~~~~~~ 96 (384)
T KOG1812|consen 17 LLAGFGVAICDEHDDDLLFQMKASDHDSDSITPLEAELMALKRGLTEALELGLNHIVIYCDDELIYESVAGREKPEQHRK 96 (384)
T ss_pred hcccCceeeeccccHHHHHHhhcCcccccccchhhHHHHHHhhccHHHHhhccccceEecccHHHHHHHhhhhhHHHHHH
Confidence 468999999986 33333333332222 367899999999999999999999999999998888888887755544 5
Q ss_pred HHHHHHHHHHHhhcCCcEEEEEecCC-ccHHHHHHHHhhh
Q 038317 87 ISWMISEILEMNNSFQNFRAQHTATI-NNSAAHALRFKIC 125 (127)
Q Consensus 87 ~~~~~~~i~~l~~~~~~~~~~~i~r~-~N~~Ad~LA~~a~ 125 (127)
+..+..+.+....++....-..+++. ....|=+||+++.
T Consensus 97 ~~~l~~~v~~~r~~l~~~~~i~~~~~~d~~~~~~lA~e~i 136 (384)
T KOG1812|consen 97 IVLLVELVQRIREQLTSSEPILVPKNADIKFAYKLAREAI 136 (384)
T ss_pred HHHHHHHHHHHHHHhhcccceecccchhhHHHHHHHHHhh
Confidence 67778888878888877777777665 4566888888775
No 13
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=95.11 E-value=0.19 Score=31.89 Aligned_cols=55 Identities=16% Similarity=0.163 Sum_probs=45.3
Q ss_pred EEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeeh
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDC 70 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs 70 (127)
-+|.+++..+|+++.+...-.....--..||-.|+..++.. -...+..|.+.+|.
T Consensus 27 ~VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~~ais~-G~~~~~~v~v~~~~ 81 (134)
T COG0295 27 KVGAALRTKDGRIYTGANVENASYGLTVCAERSAIFKAISE-GKRKFDAVVVVADT 81 (134)
T ss_pred cEEEEEEeCCCCEEEEEeeecccccchhhHHHHHHHHHHHc-CCCcEEEEEEEcCC
Confidence 47899999999998877755555566779999999999977 66678899999987
No 14
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=94.05 E-value=0.18 Score=32.68 Aligned_cols=61 Identities=18% Similarity=0.033 Sum_probs=45.7
Q ss_pred CeeEEEEEEecCCCcEEEEeceeecccccHH-HHHHHHHHHHHHHHHHcCCceEEEEeehHH
Q 038317 12 QVAGLGVVIRDDKDNCIVAAIISYRIFTNVA-MAEAAAIKWGMQVALKTGLVSALLESDCLE 72 (127)
Q Consensus 12 ~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~-~AE~~Al~~al~~a~~~~~~~v~i~sDs~~ 72 (127)
+...+|.||-+..|..+..+........++. +||..|+..|-+......+...++++-..-
T Consensus 26 ge~PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~a~~~~~~~~l~~~tlyvT~EP 87 (152)
T COG0590 26 GEVPVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRAAAETLGNYRLKDCTLYVTLEP 87 (152)
T ss_pred CCCCEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHHHHHhhCCCCcCCcEEEEecCC
Confidence 3567899999988888876665444444444 999999999999998777777777776443
No 15
>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=92.75 E-value=0.45 Score=28.87 Aligned_cols=59 Identities=22% Similarity=0.070 Sum_probs=39.9
Q ss_pred CeeEEEEEEecCCCcEEEEeceeec-ccccHHHHHHHHHHHHHHHHHHcCCceEEEEeeh
Q 038317 12 QVAGLGVVIRDDKDNCIVAAIISYR-IFTNVAMAEAAAIKWGMQVALKTGLVSALLESDC 70 (127)
Q Consensus 12 ~~~g~G~vi~~~~g~~~~~~~~~~~-~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs 70 (127)
+...+|.+|.+.+|+++..+..... ......+||..|+..+.+.-....+....+++..
T Consensus 15 ~~~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~t~ 74 (109)
T cd01285 15 GEVPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTL 74 (109)
T ss_pred CCCcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEEeC
Confidence 4567889999888988776554332 2335669999999988766433346667777654
No 16
>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=89.81 E-value=0.94 Score=28.39 Aligned_cols=56 Identities=11% Similarity=0.142 Sum_probs=39.3
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeeh
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDC 70 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs 70 (127)
...|.++++.+|+++.+...-.........||..|+..+...-. ..+..+.+.++.
T Consensus 21 ~~vgAa~~~~~G~i~~G~n~e~~~~~~s~~AE~~Ai~~a~~~g~-~~i~~i~vv~~~ 76 (127)
T TIGR01354 21 FKVGAALLTKDGRIFTGVNVENASYPLTICAERSAIGKAISAGY-RKFVAIAVADSA 76 (127)
T ss_pred CeEEEEEEeCCCCEEEEEeecccCCCCCcCHHHHHHHHHHHcCC-CCeEEEEEEeCC
Confidence 45788888889998875554333344566999999998886532 256777777655
No 17
>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=89.59 E-value=1.4 Score=27.22 Aligned_cols=51 Identities=20% Similarity=0.069 Sum_probs=35.3
Q ss_pred CeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEee
Q 038317 12 QVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESD 69 (127)
Q Consensus 12 ~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sD 69 (127)
+...+|.||-+.+|+++..+.... ....+||..|+..+.+. .+..-++|+-
T Consensus 17 ~~~pvGaviv~~~g~iv~~g~n~~---~~~~HAE~~ai~~a~~~----~l~g~tly~T 67 (115)
T cd01284 17 PNPPVGCVIVDDDGEIVGEGYHRK---AGGPHAEVNALASAGEK----LARGATLYVT 67 (115)
T ss_pred CCCCEEEEEEeCCCeEEEEecCCC---CCcccHHHHHHHHHhhc----CCCCeEEEEe
Confidence 345688888887788877655432 25679999999988764 4455555544
No 18
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=89.43 E-value=1 Score=29.82 Aligned_cols=41 Identities=22% Similarity=0.105 Sum_probs=26.8
Q ss_pred eEEEEEEecCCCcEEEEeceeecccc-cHHHHHHHHHHHHHHH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFT-NVAMAEAAAIKWGMQV 55 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~-~~~~AE~~Al~~al~~ 55 (127)
.-+|.||-+ +|+++..+........ ...+||..|+..|.+.
T Consensus 33 ~pvGAVIV~-~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~~ 74 (172)
T PRK10860 33 VPVGAVLVH-NNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLV 74 (172)
T ss_pred CCEEEEEEe-CCEEEEEeeCCCCCCCCCccCHHHHHHHHHHHh
Confidence 457777776 5887776554322222 2459999999988653
No 19
>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=85.74 E-value=2.7 Score=25.43 Aligned_cols=44 Identities=11% Similarity=0.074 Sum_probs=31.5
Q ss_pred CeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHH
Q 038317 12 QVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQV 55 (127)
Q Consensus 12 ~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~ 55 (127)
+...+|.++...+|.++.+.............||..|+..+...
T Consensus 16 ~~~~vga~i~~~~g~i~~G~n~e~~~~~~~~hAE~~ai~~~~~~ 59 (112)
T cd01283 16 SNFTVGAALLTKDGRIFTGVNVENASYGLTLCAERTAIGKAVSE 59 (112)
T ss_pred CCCeEEEEEEECCCCEEEeEEeecCCCCCCcCHHHHHHHHHHHc
Confidence 34567888888789887655554444456779999999887743
No 20
>PRK14828 undecaprenyl pyrophosphate synthase; Provisional
Probab=84.68 E-value=6.2 Score=27.94 Aligned_cols=91 Identities=13% Similarity=0.112 Sum_probs=55.5
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISE 93 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~ 93 (127)
.-+|+|. |.+++|- ....++....-..+-+..+..-++++.++|++.|.+|.=|..-. ..+..++..++.-
T Consensus 28 ~HvAiIm-DGNrRwA--~~~gl~~~~~GH~~G~~~l~~~~~~~~~~gIk~lTvYaFS~eN~------~R~~~Ev~~Lm~L 98 (256)
T PRK14828 28 GHVGIIV-DGNRRWA--RKAGFTDVSQGHRAGAAKIGEFLGWCDETDVNVVTLYLLSTDNL------GRPSEELNPLLDI 98 (256)
T ss_pred CEEEEEe-cCChHHH--HHcCCCchHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEEEhhhc------CCCHHHHHHHHHH
Confidence 4555555 7777663 22223322255678899999999999999999999998875321 1223344444433
Q ss_pred HHHHhh---cCCcEEEEEecCCc
Q 038317 94 ILEMNN---SFQNFRAQHTATIN 113 (127)
Q Consensus 94 i~~l~~---~~~~~~~~~i~r~~ 113 (127)
+...+. +...+++++|.+-.
T Consensus 99 ~~~~l~~~~~~~~irv~~iG~~~ 121 (256)
T PRK14828 99 IEDVVRQLAPDGRWRVRHVGSLD 121 (256)
T ss_pred HHHHHHHHHHhCCeEEEEECChh
Confidence 332222 23466777776543
No 21
>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=84.32 E-value=6 Score=23.29 Aligned_cols=55 Identities=9% Similarity=-0.000 Sum_probs=32.7
Q ss_pred CeeEEEEEEecC-CCcEEEEece-eecccccHHHHHHHHHHHHHHHHHHcCCceEEEEee
Q 038317 12 QVAGLGVVIRDD-KDNCIVAAII-SYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESD 69 (127)
Q Consensus 12 ~~~g~G~vi~~~-~g~~~~~~~~-~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sD 69 (127)
+...+|.++.+. +|..+..+.. .........+||..|+..+.+. .+++...+++-
T Consensus 16 ~~~pVGaviv~~~~g~ii~~g~n~~~~~~~~~~HAE~~ai~~a~~~---~~~~~~tly~t 72 (96)
T cd00786 16 SNFQVGACLVNKKDGGKVGRGCNIENAAYSMCNHAERTALFNAGSE---GDTKGQMLYVA 72 (96)
T ss_pred CCCCEEEEEEEeCCCCeEeeeEeccCCCCCCeeCHHHHHHHHHHHc---CCCCceEEEEE
Confidence 456678888765 5666654443 2222345679999999877542 22445555553
No 22
>PRK05578 cytidine deaminase; Validated
Probab=81.05 E-value=5 Score=25.35 Aligned_cols=56 Identities=16% Similarity=0.106 Sum_probs=40.1
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeeh
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDC 70 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs 70 (127)
-..|..++..+|+++.+...-.....-...||-.|+..++..- ...+..+.+-+|.
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 3588999999999988777544334456789999999987432 2356777777665
No 23
>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=80.71 E-value=2.2 Score=25.16 Aligned_cols=57 Identities=19% Similarity=0.031 Sum_probs=35.2
Q ss_pred CCeeEEEEEEecCCCcEEEEeceeec-ccccHHHHHHHHHHHHHHHHHHcCCceEEEEe
Q 038317 11 KQVAGLGVVIRDDKDNCIVAAIISYR-IFTNVAMAEAAAIKWGMQVALKTGLVSALLES 68 (127)
Q Consensus 11 ~~~~g~G~vi~~~~g~~~~~~~~~~~-~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~s 68 (127)
.+...+|.++.+++|..+..+..... ......+||..|+..+.+. ........++++
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 45678899999977666655543332 2223459999999888776 222334456665
No 24
>PRK12411 cytidine deaminase; Provisional
Probab=78.70 E-value=7.8 Score=24.50 Aligned_cols=56 Identities=11% Similarity=0.114 Sum_probs=39.7
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeeh
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDC 70 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs 70 (127)
...|..++..+|+++.+...-.....-..-||..|+..++..- ...+..|.+-++.
T Consensus 24 ~~VgAa~~t~~G~i~~G~nvEn~s~~~s~CAE~~Ai~~av~~g-~~~i~~i~v~~~~ 79 (132)
T PRK12411 24 FQVGAALLTQDGKVYRGCNVENASYGLCNCAERTALFKAVSEG-DKEFVAIAIVADT 79 (132)
T ss_pred CceEEEEEeCCCCEEEEEEeecCCCCcCcCHHHHHHHHHHHCC-CCceEEEEEEeCC
Confidence 4588889999999988777544444446789999999886432 2356777777754
No 25
>PRK14835 undecaprenyl pyrophosphate synthase; Provisional
Probab=77.87 E-value=22 Score=25.52 Aligned_cols=90 Identities=9% Similarity=0.045 Sum_probs=56.6
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISE 93 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~ 93 (127)
.-+|+|. |.+++|- ....++ ...-..+-+..+..-++++.++|++.|.+|.=|..-. ..+..++..++.-
T Consensus 43 ~HVAiIm-DGNrRwA--k~~g~~-~~~GH~~G~~~l~~i~~~c~~lGIk~lTvYaFS~EN~------~R~~~EV~~Lm~L 112 (275)
T PRK14835 43 RHLGLIL-DGNRRFA--RALGLQ-REMGHEFGVQKAYEVLEWCLELGIPTVTIWVFSTDNF------SRSPAEVETLMNL 112 (275)
T ss_pred CEEEEEe-cCchHHH--HHCCCC-HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEEEcccc------CCCHHHHHHHHHH
Confidence 3555555 7777663 222233 3345678888999999999999999999998885221 1233456655444
Q ss_pred HHHHhhc--------CCcEEEEEecCCc
Q 038317 94 ILEMNNS--------FQNFRAQHTATIN 113 (127)
Q Consensus 94 i~~l~~~--------~~~~~~~~i~r~~ 113 (127)
+...+.+ -..+++++|.+..
T Consensus 113 ~~~~l~~~~~~~~~~~~~irir~iGd~~ 140 (275)
T PRK14835 113 FEREARRMAVDPRIHANRVRVRAIGRHD 140 (275)
T ss_pred HHHHHHHHhchhhhhhCCeEEEEecChh
Confidence 4432221 1368888887643
No 26
>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=77.51 E-value=13 Score=27.20 Aligned_cols=66 Identities=17% Similarity=0.192 Sum_probs=33.2
Q ss_pred CCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHc---CCceEEEEeehHHHHHHHhcC
Q 038317 11 KQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKT---GLVSALLESDCLEVVQIVNNR 80 (127)
Q Consensus 11 ~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~---~~~~v~i~sDs~~vi~~~~~~ 80 (127)
.+..-+|+-+|..+|+-+-.- -+...+...+ +.-++.+++.++.. .-.+|-+-|||+.+++.+++.
T Consensus 165 ~g~~~IGVHVRhGngeD~~~h---~~~~~D~e~~-L~~V~~ai~~ak~~~~~k~~~IFLATDSaeVid~fr~~ 233 (321)
T PF05830_consen 165 AGYSVIGVHVRHGNGEDIMDH---APYWADEERA-LRQVCTAIDKAKALAPPKPVRIFLATDSAEVIDQFRKK 233 (321)
T ss_dssp TTSEEEEEEE------------------HHHHHH-HHHHHHHHHHHHTS--SS-EEEEEEES-HHHHHHHHHH
T ss_pred CCCceEEEEEeccCCcchhcc---CccccCchHH-HHHHHHHHHHHHhccCCCCeeEEEecCcHHHHHHHHHH
Confidence 456789999998777532211 1112222211 34455566655444 247799999999999999873
No 27
>PRK08298 cytidine deaminase; Validated
Probab=77.02 E-value=8.6 Score=24.49 Aligned_cols=61 Identities=11% Similarity=-0.019 Sum_probs=40.1
Q ss_pred eeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeeh
Q 038317 6 TVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDC 70 (127)
Q Consensus 6 s~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs 70 (127)
+|.+-+ .+|..++..+|+++.+...-...+..-.-||-.|+..++..- ...+..|.+-+|.
T Consensus 18 aY~PYS---~VgAAllt~dG~i~tG~NvEnas~~~t~CAEr~Ai~~av~~G-~~~~~~i~v~~~~ 78 (136)
T PRK08298 18 RYPNGW---GGAAAMRVEDGTILTSVAPEVINASTELCMETGAICEAHKLQ-KRVTHSICVAREN 78 (136)
T ss_pred ccCCCC---ceeEEEEeCCCCEEEEEeecCCCCCcchhHHHHHHHHHHHCC-CceEEEEEEEcCC
Confidence 454443 788889999999887766544445556799999999877432 1223445555554
No 28
>PRK06848 hypothetical protein; Validated
Probab=75.36 E-value=9.5 Score=24.36 Aligned_cols=62 Identities=13% Similarity=0.058 Sum_probs=40.4
Q ss_pred ceeecCCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEee
Q 038317 5 ATVDVEKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESD 69 (127)
Q Consensus 5 gs~~~~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sD 69 (127)
.+|.+ + ...+|..++..+|+++.+...-.........||-.|+..++..- ...+..|.+-++
T Consensus 20 ~ay~p-s-~f~VgAa~l~~~G~i~~G~NvEnas~~~tiCAEr~Ai~~av~~g-~~~i~~i~~v~~ 81 (139)
T PRK06848 20 KRYRN-D-WHHVGAALRTKTGRIYAAVHLEAYVGRITVCAEAIAIGKAISEG-DHEIDTIVAVRH 81 (139)
T ss_pred hccCC-C-CCcEEEEEEeCCCCEEEEEEeecCCCCcccCHHHHHHHHHHHcC-CCceEEEEEEec
Confidence 35555 2 46788899999999887766544334456799999999887441 123445544443
No 29
>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=75.10 E-value=12 Score=24.19 Aligned_cols=41 Identities=15% Similarity=0.020 Sum_probs=25.6
Q ss_pred eeEEEEEEecCCCcEEEEeceeeccc----------------ccHHHHHHHHHHHHHH
Q 038317 13 VAGLGVVIRDDKDNCIVAAIISYRIF----------------TNVAMAEAAAIKWGMQ 54 (127)
Q Consensus 13 ~~g~G~vi~~~~g~~~~~~~~~~~~~----------------~~~~~AE~~Al~~al~ 54 (127)
...+|.||-+ +|+++..+....+.- ....+||..||..+.+
T Consensus 24 ~~~VGAVIV~-d~~IIs~GyN~~~~g~~~~~~~~~~~~~~~~~~~~HAE~nAI~~a~~ 80 (151)
T TIGR02571 24 RLSVGATIVR-DKRIIAGGYNGSVAGGVHCIDEGCYVVDGHCVRTIHAEMNALLQCAK 80 (151)
T ss_pred CCCEEEEEEE-CCEEEEEEECCCCCCCCccccccccccccccCCccCHHHHHHHHHHh
Confidence 3467777664 577776555443221 1236999999998743
No 30
>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=72.80 E-value=13 Score=23.38 Aligned_cols=53 Identities=23% Similarity=0.120 Sum_probs=31.9
Q ss_pred eeEEEEEEecCCCcEEEEeceeec----------------------ccccHHHHHHHHHHHHHHHHHHcCCceEEEEe
Q 038317 13 VAGLGVVIRDDKDNCIVAAIISYR----------------------IFTNVAMAEAAAIKWGMQVALKTGLVSALLES 68 (127)
Q Consensus 13 ~~g~G~vi~~~~g~~~~~~~~~~~----------------------~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~s 68 (127)
...+|.||.+. |+.+..+....+ ......+||..||..+.+. ....+...+++
T Consensus 19 ~~~VGAViv~~-~~iI~~G~N~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~HAE~~Ai~~a~~~--~~~~~~~tLyv 93 (131)
T cd01286 19 RRQVGAVIVKD-KRIISTGYNGSPSGLPHCAEVGCERDDLPSGEDQKCCRTVHAEQNAILQAARH--GVSLEGATLYV 93 (131)
T ss_pred CCCEEEEEEEC-CEEEEEeeCCCCCCCCCcccccccccccccccccccCCCCCHHHHHHHHHhHc--CCCcCCeEEEE
Confidence 35677788874 667655543332 1224569999999987653 23344555554
No 31
>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=72.72 E-value=19 Score=24.81 Aligned_cols=84 Identities=14% Similarity=0.024 Sum_probs=51.6
Q ss_pred CeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCC-cchHHHH
Q 038317 12 QVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSS-MVEISWM 90 (127)
Q Consensus 12 ~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~-~~~~~~~ 90 (127)
...|+|..+.. |.....++. .-++..+|++|...|.- +.-.++ +-||+..|+ +.++.. ++.++.+
T Consensus 102 TpTgwgi~i~~--~~~~~Tfs~----~l~IhtaELlaaClAr~----~~~~r~-l~tDnt~Vl---srkyts~PW~lac~ 167 (245)
T PF00336_consen 102 TPTGWGISITG--QRMRGTFSK----PLPIHTAELLAACLARL----MSGARC-LGTDNTVVL---SRKYTSFPWLLACA 167 (245)
T ss_pred CCCcceeeecC--ceeeeeecc----cccchHHHHHHHHHHHh----ccCCcE-EeecCcEEE---ecccccCcHHHHHH
Confidence 35677777644 444444443 44678899998876553 323344 779998775 333322 3345544
Q ss_pred HHHHHHHhhcCCcEEEEEecCCccH
Q 038317 91 ISEILEMNNSFQNFRAQHTATINNS 115 (127)
Q Consensus 91 ~~~i~~l~~~~~~~~~~~i~r~~N~ 115 (127)
-+-| ....+|.|||..-|-
T Consensus 168 A~wi------Lrgts~~yVPS~~NP 186 (245)
T PF00336_consen 168 ANWI------LRGTSFYYVPSKYNP 186 (245)
T ss_pred HHHh------hcCceEEEeccccCc
Confidence 4444 456789999998885
No 32
>COG0084 TatD Mg-dependent DNase [DNA replication, recombination, and repair]
Probab=71.25 E-value=2.5 Score=29.89 Aligned_cols=46 Identities=17% Similarity=0.174 Sum_probs=28.3
Q ss_pred HHHHHHHcCCceEEEEeehHHHHHH-HhcCCCCcchHHHHHHHHHHH
Q 038317 52 GMQVALKTGLVSALLESDCLEVVQI-VNNRCSSMVEISWMISEILEM 97 (127)
Q Consensus 52 al~~a~~~~~~~v~i~sDs~~vi~~-~~~~~~~~~~~~~~~~~i~~l 97 (127)
.-+.+......++.+||||.++-.. ..+..+.+..+...++.+.++
T Consensus 188 ~~ev~~~iPldrLL~ETDsPyl~P~p~rGkrNeP~~v~~v~~~iAel 234 (256)
T COG0084 188 LREVARELPLDRLLLETDAPYLAPVPYRGKRNEPAYVRHVAEKLAEL 234 (256)
T ss_pred HHHHHHhCCHhHeEeccCCCCCCCcCCCCCCCCchHHHHHHHHHHHH
Confidence 3566778899999999999988654 333323333333444444333
No 33
>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=68.81 E-value=17 Score=20.52 Aligned_cols=58 Identities=17% Similarity=-0.006 Sum_probs=30.0
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHH-HHc---CCceEEEEeehHH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVA-LKT---GLVSALLESDCLE 72 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a-~~~---~~~~v~i~sDs~~ 72 (127)
+--|+++-+.+|..+.. ...-.......-|...+++.+.+.+ .+. .++.+.++++...
T Consensus 14 gv~~~~l~~~dG~~i~~-~~~~~~~~~~~aa~~a~~~~~~~~~~~~l~~~~~~~v~i~~~~~~ 75 (91)
T PF03259_consen 14 GVRGAVLVDKDGLVIAS-SGIDDDDAEKLAAMAASLLAAAEKLAKELGEGELEQVRIETEKGE 75 (91)
T ss_dssp TEEEEEEEETTSEEEEE-TSSSHHHHHHHHHHHHHHHHHHHHHHHHHTTSSEEEEEEEESSEE
T ss_pred CeeEEEEEcCCCCEEEE-ecCCcccHHHHHHHHHHHHHHHHHHHHHhCCCCcEEEEEEECCCE
Confidence 34578888899988876 1111111122233333333333333 223 4688888887643
No 34
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=68.73 E-value=29 Score=22.86 Aligned_cols=14 Identities=29% Similarity=0.233 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHH
Q 038317 41 VAMAEAAAIKWGMQ 54 (127)
Q Consensus 41 ~~~AE~~Al~~al~ 54 (127)
..+||.-|++.+-+
T Consensus 81 ~~HAE~nAi~~a~~ 94 (168)
T PHA02588 81 EIHAELNAILFAAR 94 (168)
T ss_pred CccHHHHHHHHHhh
Confidence 45999999988743
No 35
>PRK14834 undecaprenyl pyrophosphate synthase; Provisional
Probab=66.88 E-value=42 Score=23.70 Aligned_cols=91 Identities=11% Similarity=0.000 Sum_probs=55.0
Q ss_pred eeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHH
Q 038317 13 VAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMIS 92 (127)
Q Consensus 13 ~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~ 92 (127)
+.-+|+|. |.+++|- ....++ ...-..+-+..+..-++++.+.|++.|.+|.=|..-. ..+..++..+++
T Consensus 15 P~HVAiIm-DGNrRwA--k~~g~~-~~~GH~~G~~~l~~i~~~c~~lgI~~lTvYaFS~eN~------~R~~~EV~~Lm~ 84 (249)
T PRK14834 15 PRHVAIIM-DGNGRWA--KARGLP-RAAGHRAGVEALRRVVRAAGELGIGYLTLFAFSSENW------SRPASEVSDLFG 84 (249)
T ss_pred CCeEEEEe-cCchHHH--HHCCCc-hhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEEecccc------CCCHHHHHHHHH
Confidence 34555555 7777663 222233 3456788888999999999999999999998775321 122234554443
Q ss_pred HHHHHhh------cCCcEEEEEecCCc
Q 038317 93 EILEMNN------SFQNFRAQHTATIN 113 (127)
Q Consensus 93 ~i~~l~~------~~~~~~~~~i~r~~ 113 (127)
-+...+. ....+++++|..-.
T Consensus 85 L~~~~l~~~~~~~~~~~iri~viGd~~ 111 (249)
T PRK14834 85 LLRLFIRRDLAELHRNGVRVRVIGERA 111 (249)
T ss_pred HHHHHHHHHHHHHHHCCcEEEEEcChh
Confidence 3332221 12366777776543
No 36
>PRK14827 undecaprenyl pyrophosphate synthase; Provisional
Probab=64.45 E-value=48 Score=24.11 Aligned_cols=89 Identities=12% Similarity=-0.001 Sum_probs=53.8
Q ss_pred EEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHH
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEI 94 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i 94 (127)
-+|+|. |.+++|- ....++ ...-..+-+..+..-++++.++|++.|.+|.=|..-. ..+..++..++.-+
T Consensus 70 HVAiIM-DGNrRwA--k~~gl~-~~~GH~~G~~~l~~v~~~c~~lGI~~lTvYaFStEN~------kR~~~EV~~Lm~L~ 139 (296)
T PRK14827 70 HVAIVM-DGNGRWA--TQRGLA-RTEGHKMGEAVVIDIACGAIELGIKWLSLYAFSTENW------KRSPEEVRFLMGFN 139 (296)
T ss_pred eEEEec-cCchHHH--HHCCCC-HhHHHHHHHHHHHHHHHHHHHcCCCEEEEeeecchhh------cCCHHHHHHHHHHH
Confidence 455444 8777763 223343 3456788889999999999999999999987664322 12233444333322
Q ss_pred HHHh----h--cCCcEEEEEecCCc
Q 038317 95 LEMN----N--SFQNFRAQHTATIN 113 (127)
Q Consensus 95 ~~l~----~--~~~~~~~~~i~r~~ 113 (127)
...+ . .-..+++++|.+..
T Consensus 140 ~~~l~~~~~~~~~~~irir~iG~~~ 164 (296)
T PRK14827 140 RDVVRRRRDNLNKMGVRIRWVGSRP 164 (296)
T ss_pred HHHHHHHHHHHHHCCcEEEEEechh
Confidence 2111 1 12467888887543
No 37
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=63.56 E-value=21 Score=24.66 Aligned_cols=76 Identities=8% Similarity=0.142 Sum_probs=50.1
Q ss_pred cceeecCCCeeEEEEEEecC--CCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEE-E----eehHHHHHH
Q 038317 4 DATVDVEKQVAGLGVVIRDD--KDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALL-E----SDCLEVVQI 76 (127)
Q Consensus 4 Dgs~~~~~~~~g~G~vi~~~--~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i-~----sDs~~vi~~ 76 (127)
+|++...++..++=+..+.. .+.++..... . ...++..+|.+|.+.+|+.....+.++..| + .||+.-++.
T Consensus 71 ~G~y~~~p~t~~~k~yr~k~~~~~~~lt~~~~-~-~~~~n~s~d~la~ly~~~~~~~~~nrk~~i~y~~~~~ds~a~~k~ 148 (225)
T COG3341 71 KGDYDAKPGTQEFKEYRGKCTIEYSWLTESSE-F-SIKSNDSGDVLAKLYGLRYEVPLDNRKSVINYLTPGNDSWAYFKY 148 (225)
T ss_pred cCCccccCCCcceeEEeccccccceeeeeecc-c-ccccCchHHHHHHhccccccccccCccceeeccCCcchhHHHHHH
Confidence 45565555444443333321 2334443332 2 244677899999999999999998877766 6 699999998
Q ss_pred HhcCC
Q 038317 77 VNNRC 81 (127)
Q Consensus 77 ~~~~~ 81 (127)
+.+..
T Consensus 149 ~k~~~ 153 (225)
T COG3341 149 VKDKC 153 (225)
T ss_pred Hhhhh
Confidence 88753
No 38
>PF08923 MAPKK1_Int: Mitogen-activated protein kinase kinase 1 interacting; InterPro: IPR015019 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry represents Mitogen-activated protein kinase kinase 1 interacting protein, which is a small subcellular adaptor protein required for MAPK signalling and ERK1/2 activation. The overall topology of this domain has a central five-stranded beta-sheet sandwiched between a two alpha-helix and a one alpha-helix layer []. ; PDB: 1VEU_A 1VET_A 1SKO_A 2ZL1_A 3CPT_A.
Probab=62.25 E-value=5.7 Score=24.68 Aligned_cols=62 Identities=21% Similarity=0.153 Sum_probs=39.0
Q ss_pred EEEEEecCCCcEEEEeceeecccccHHHHHHHH-HHHHHHHHHHcCC---ceEEEEeehHHHHHHHh
Q 038317 16 LGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAA-IKWGMQVALKTGL---VSALLESDCLEVVQIVN 78 (127)
Q Consensus 16 ~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~A-l~~al~~a~~~~~---~~v~i~sDs~~vi~~~~ 78 (127)
.++++.|.+|-.+......-. ......+.+.+ .-.|.+.+.++|+ +.++.+.|+..++..-.
T Consensus 18 ~~I~itDrDGvpi~~v~~~~~-~~~~~~~~~~~tf~~a~~Q~~KL~lG~nk~ii~~Y~~~qvv~~~~ 83 (119)
T PF08923_consen 18 QAIVITDRDGVPIAKVSSDSA-PESAMRPSLLSTFAMAIDQASKLGLGKNKSIIAYYDSYQVVQFNK 83 (119)
T ss_dssp EEEEEEETTS-EEEEEE-TTS--GGGGSHHHHCCHHHHHHHHTTSSS-SEEEEEEEESSEEEEEEEE
T ss_pred EEEEEECCCCcEEEEecCCCC-cchhhhhHHHHHHHHHhhcccccCCCCceEEEEEeCCEEEEEEeC
Confidence 589999999988776443211 11223334433 5568888888866 78888888877765443
No 39
>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=60.28 E-value=54 Score=22.69 Aligned_cols=86 Identities=12% Similarity=0.036 Sum_probs=54.1
Q ss_pred EEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHHHHHh
Q 038317 19 VIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMN 98 (127)
Q Consensus 19 vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l~ 98 (127)
+|-|.+++|-. ...++ ...-..+-+..+..-++++.+.|++.|.+|.=|..-. ..+..++..+++-+...+
T Consensus 6 iImDGNrRwA~--~~gl~-~~~GH~~G~~~~~~i~~~~~~~gI~~lTvyaFS~eN~------~R~~~EV~~Lm~l~~~~l 76 (221)
T cd00475 6 FIMDGNRRWAK--QRGMD-RIEGHKAGAEKLRDILRWCLELGVKEVTLYAFSTENW------KRPKEEVDFLMELFRDVL 76 (221)
T ss_pred EecCCCHHHHH--HCCCC-hhHhHHHHHHHHHHHHHHHHHcCCCEEEEEeechhhh------CcCHHHHHHHHHHHHHHH
Confidence 45587777632 22343 3457788999999999999999999999987664321 123335554444333222
Q ss_pred hc------CCcEEEEEecCCc
Q 038317 99 NS------FQNFRAQHTATIN 113 (127)
Q Consensus 99 ~~------~~~~~~~~i~r~~ 113 (127)
.+ ...+++++|.+..
T Consensus 77 ~~~~~~~~~~~i~vr~iGd~~ 97 (221)
T cd00475 77 RRILKELEKLGVRIRIIGDLS 97 (221)
T ss_pred HHHHHHHHHCCcEEEEEeChh
Confidence 21 2467888887654
No 40
>PRK14841 undecaprenyl pyrophosphate synthase; Provisional
Probab=60.14 E-value=56 Score=22.83 Aligned_cols=87 Identities=11% Similarity=0.042 Sum_probs=55.3
Q ss_pred EEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHHHHHh
Q 038317 19 VIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMN 98 (127)
Q Consensus 19 vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l~ 98 (127)
+|-|.+++|-. ...++ ...-..+-+.++..-++++.+.|++.|++|.=|..-. ..+..++..++.-+...+
T Consensus 9 iImDGNrRwAk--~~g~~-~~~GH~~G~~~l~~i~~~~~~lgIk~lTvYaFS~eN~------~R~~~Ev~~Lm~L~~~~l 79 (233)
T PRK14841 9 IIMDGNGRWAK--KRGLP-RIKGHQRGAEVLHNTVKWSLELGIKYLTAFSFSTENW------KRPKEEVEFLMDLFVQMI 79 (233)
T ss_pred EEccCCHHHHH--HCCCc-hhhhHHHHHHHHHHHHHHHHHcCCCEEEEEeeeHhhc------CCCHHHHHHHHHHHHHHH
Confidence 44487777632 23343 4457789999999999999999999999987664221 123335555554443322
Q ss_pred hc------CCcEEEEEecCCcc
Q 038317 99 NS------FQNFRAQHTATINN 114 (127)
Q Consensus 99 ~~------~~~~~~~~i~r~~N 114 (127)
.+ -..+++++|.+-..
T Consensus 80 ~~~~~~~~~~~irvr~iG~~~~ 101 (233)
T PRK14841 80 DREMELLRRERVRVRILGRKEG 101 (233)
T ss_pred HHHHHHHHHcCcEEEEEeChhh
Confidence 11 24678888876543
No 41
>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=60.09 E-value=56 Score=22.76 Aligned_cols=86 Identities=10% Similarity=0.023 Sum_probs=54.9
Q ss_pred EEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHHHHHh
Q 038317 19 VIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMN 98 (127)
Q Consensus 19 vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l~ 98 (127)
+|-|.+|+|- ....++ ...-..+-+.++..-++++.+.|++.|++|.=|..-- ..+..++..+++-+...+
T Consensus 5 iImDGNrRwA--k~~gl~-~~~GH~~G~~~~~~v~~~c~~~GI~~lT~yaFStEN~------~Rp~~EV~~Lm~L~~~~l 75 (226)
T TIGR00055 5 IIMDGNGRWA--KKKGKP-RAYGHKAGVKSLRRILRWCANLGVECLTLYAFSTENW------KRPKEEVDFLMELFEKKL 75 (226)
T ss_pred EEcCCCHHHH--HHCCCC-hhHhHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhhc------CcCHHHHHHHHHHHHHHH
Confidence 5558888773 233343 3457788999999999999999999999987664221 123335555544433222
Q ss_pred hc------CCcEEEEEecCCc
Q 038317 99 NS------FQNFRAQHTATIN 113 (127)
Q Consensus 99 ~~------~~~~~~~~i~r~~ 113 (127)
.+ -..+++++|.+..
T Consensus 76 ~~~~~~~~~~~irvr~iGd~~ 96 (226)
T TIGR00055 76 DREVKELHRYNVRIRIIGDLS 96 (226)
T ss_pred HHHHHHHHHCCCEEEEEeChh
Confidence 21 2467888887644
No 42
>PRK14837 undecaprenyl pyrophosphate synthase; Provisional
Probab=57.56 E-value=63 Score=22.58 Aligned_cols=91 Identities=15% Similarity=0.074 Sum_probs=57.1
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISE 93 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~ 93 (127)
--+|+| -|.+|+|-. ...++ ...-..+-+.++..-++++.++|++.|++|.=|..-- ..+..++..+++-
T Consensus 8 ~HVAiI-mDGNrRwAk--~~gl~-~~~GH~~G~~~~~~i~~~c~~~GI~~lT~YaFS~EN~------~Rp~~EV~~Lm~L 77 (230)
T PRK14837 8 SHVGII-MDGNRRWAL--KKGLS-FFEGHKEGLKRAKEIVKHSLKLGIKYLSLYVFSTENW------NRTDSEIEHLMFL 77 (230)
T ss_pred CeEEEE-ccCCHHHHH--HCCCc-hhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhhc------CCCHHHHHHHHHH
Confidence 345544 488887732 23343 3456788999999999999999999999987664221 1233355555444
Q ss_pred HHHHhh----c--CCcEEEEEecCCcc
Q 038317 94 ILEMNN----S--FQNFRAQHTATINN 114 (127)
Q Consensus 94 i~~l~~----~--~~~~~~~~i~r~~N 114 (127)
+...+. . -..+++++|.+-..
T Consensus 78 ~~~~l~~~~~~~~~~~irvr~iGd~~~ 104 (230)
T PRK14837 78 IADYLSSEFNFYKKNNIKIIVSGDIES 104 (230)
T ss_pred HHHHHHHHHHHHHHCCcEEEEEcChhh
Confidence 432221 1 23688888876543
No 43
>KOG1018 consensus Cytosine deaminase FCY1 and related enzymes [Nucleotide transport and metabolism]
Probab=54.93 E-value=34 Score=22.65 Aligned_cols=58 Identities=17% Similarity=0.085 Sum_probs=34.7
Q ss_pred eeEEEEEEecCCCcEEEEecee-ecccccHHHHHHHHHHH---HHHHHHHcCCceEEEEeeh
Q 038317 13 VAGLGVVIRDDKDNCIVAAIIS-YRIFTNVAMAEAAAIKW---GMQVALKTGLVSALLESDC 70 (127)
Q Consensus 13 ~~g~G~vi~~~~g~~~~~~~~~-~~~~~~~~~AE~~Al~~---al~~a~~~~~~~v~i~sDs 70 (127)
..-+|+++-+.+|.++..+... +.......+||..+|.. ..+.....-++...+++-+
T Consensus 31 ~~pvg~vlV~~~g~v~a~g~n~~~~~~d~t~HaE~~~I~~~~~~~~~~~~~~ls~~tlyvt~ 92 (169)
T KOG1018|consen 31 EVPVGAVLVHMDGKVLASGGNMVNEKKDPTAHAEVIAIREEEVMCKSLRTIDLSETTLYVTC 92 (169)
T ss_pred CCceEEEEEeCCCeEEecccceecccCCcchhhHHHHHhhHHHHhhhcCceeccCCEEEEEe
Confidence 3457888888777777766654 33333455899999998 3333322334455555544
No 44
>PRK14829 undecaprenyl pyrophosphate synthase; Provisional
Probab=52.07 E-value=81 Score=22.19 Aligned_cols=92 Identities=13% Similarity=0.023 Sum_probs=56.3
Q ss_pred eeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHH
Q 038317 13 VAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMIS 92 (127)
Q Consensus 13 ~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~ 92 (127)
+.-+|+|. |.+++|- ....++ ...-..+-+.++..-++++.+.|++.|.+|.=|..-. ..+..++..++.
T Consensus 15 P~HvaiIm-DGNrRwA--k~~g~~-~~~GH~~G~~~l~~iv~~c~~~gI~~vTvYaFS~eN~------kR~~~Ev~~lm~ 84 (243)
T PRK14829 15 PRHIAVVM-DGNGRWA--TQRGLK-RTEGHKAGEPVLFDVVAGAIEAGVPYLSLYTFSTENW------KRSPDEVRFLMG 84 (243)
T ss_pred CCeEEEec-CCCHHHH--HHCCCC-hhHHHHHHHHHHHHHHHHHHHcCCCEEEEeeecchhh------CCCHHHHHHHHH
Confidence 34555555 8777763 233343 4557788999999999999999999999987664322 122334443333
Q ss_pred HHHHHhh------cCCcEEEEEecCCcc
Q 038317 93 EILEMNN------SFQNFRAQHTATINN 114 (127)
Q Consensus 93 ~i~~l~~------~~~~~~~~~i~r~~N 114 (127)
-+...+. .-..+++++|.+...
T Consensus 85 L~~~~l~~~~~~~~~~~iri~~iG~~~~ 112 (243)
T PRK14829 85 FSRDVIHRRREQMDEWGVRVRWSGRRPR 112 (243)
T ss_pred HHHHHHHHHHHHHHHcCcEEEEEechhh
Confidence 3221111 123678888876543
No 45
>PRK14838 undecaprenyl pyrophosphate synthase; Provisional
Probab=51.18 E-value=84 Score=22.12 Aligned_cols=91 Identities=14% Similarity=0.053 Sum_probs=58.3
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISE 93 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~ 93 (127)
.-+|+|. |.+++|-. ...++ ...-..+-+..+..-++++.+.|++.|.+|.=|..-. ..+..++..+++-
T Consensus 12 ~HVAiIm-DGNrRwA~--~~gl~-~~~GH~~G~~~l~~i~~~~~~~gI~~lT~YaFS~EN~------kR~~~Ev~~Lm~l 81 (242)
T PRK14838 12 QHIAIIM-DGNGRWAK--ERGKE-RSFGHQAGAETVHIITEEAARLGVKFLTLYTFSTENW------NRPSDEVAALMSL 81 (242)
T ss_pred CEEEEec-cCCHHHHH--HCCCC-HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeechhhc------CCCHHHHHHHHHH
Confidence 4455554 87777632 22343 3467788999999999999999999999987664221 1233456655555
Q ss_pred HHHHhh----cCCcEEEEEecCCcc
Q 038317 94 ILEMNN----SFQNFRAQHTATINN 114 (127)
Q Consensus 94 i~~l~~----~~~~~~~~~i~r~~N 114 (127)
+...+. .-..+++++|.+-..
T Consensus 82 ~~~~l~~~~~~~~~irir~iG~~~~ 106 (242)
T PRK14838 82 LLDSIEEETFMKNNIRFRIIGDIAK 106 (242)
T ss_pred HHHHHHHHHHHHcCcEEEEEeChhh
Confidence 543332 124788888876543
No 46
>PRK14842 undecaprenyl pyrophosphate synthase; Provisional
Probab=50.78 E-value=86 Score=22.08 Aligned_cols=91 Identities=19% Similarity=0.190 Sum_probs=56.8
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISE 93 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~ 93 (127)
.-+|+|. |.+++|- ....++ ...-..+-+..+..-++++.+.|++.|++|.=|..-. ..+..++..++.-
T Consensus 10 ~HVaiIm-DGNrRwA--k~~gl~-~~~GH~~G~~~l~~i~~~c~~lgI~~vTvYaFS~eN~------~R~~~EV~~Lm~L 79 (241)
T PRK14842 10 AHIAVIM-DGNGRWA--ESQGKK-RSEGHREGANAIDRLMDASLEYGLKNISLYAFSTENW------KRPITEIRSIFGL 79 (241)
T ss_pred CeEEEEc-CCCHHHH--HHCCCC-hhHhHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhhc------CCCHHHHHHHHHH
Confidence 4455554 7777663 233343 3456788899999999999999999999997664322 1233355555444
Q ss_pred HHHHhhc------CCcEEEEEecCCcc
Q 038317 94 ILEMNNS------FQNFRAQHTATINN 114 (127)
Q Consensus 94 i~~l~~~------~~~~~~~~i~r~~N 114 (127)
+...+.+ -..+++++|.+-..
T Consensus 80 ~~~~l~~~~~~~~~~~irv~~iG~~~~ 106 (241)
T PRK14842 80 LVEFIETRLDTIHARGIRIHHSGSRKK 106 (241)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEeChhh
Confidence 4332221 24677888876543
No 47
>COG3981 Predicted acetyltransferase [General function prediction only]
Probab=50.26 E-value=30 Score=23.08 Aligned_cols=26 Identities=19% Similarity=0.248 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHcCCceEEEEeehH
Q 038317 46 AAAIKWGMQVALKTGLVSALLESDCL 71 (127)
Q Consensus 46 ~~Al~~al~~a~~~~~~~v~i~sDs~ 71 (127)
...+..||+.|.++|+.+|.+-.|..
T Consensus 116 ~emLkl~L~~ar~lgi~~Vlvtcd~d 141 (174)
T COG3981 116 KEMLKLALEKARELGIKKVLVTCDKD 141 (174)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEeCCC
Confidence 45688999999999999999998864
No 48
>PRK14830 undecaprenyl pyrophosphate synthase; Provisional
Probab=48.73 E-value=95 Score=21.99 Aligned_cols=91 Identities=10% Similarity=0.020 Sum_probs=54.5
Q ss_pred eeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHH
Q 038317 13 VAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMIS 92 (127)
Q Consensus 13 ~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~ 92 (127)
+--+|+|+ |.+++|- ....++ ...-..+-+..+..-++++.+.|++.|.+|.=|..-. ..+..++..+++
T Consensus 23 P~HVAiIm-DGNrRwA--k~~gl~-~~~Gh~~G~~~l~~~l~~c~~~GI~~vTvYaFS~eN~------~R~~~Ev~~Lm~ 92 (251)
T PRK14830 23 PKHIAIIM-DGNGRWA--KKRMLP-RIAGHKAGMDTVKKITKAASELGVKVLTLYAFSTENW------KRPKDEVKFLMN 92 (251)
T ss_pred CCeEEEEe-cCchHHH--HHCCCc-hhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEEehhhc------CCCHHHHHHHHH
Confidence 45566665 6666552 222232 3356678888999999999999999999998554222 123334555543
Q ss_pred HHH----HHhhc--CCcEEEEEecCCc
Q 038317 93 EIL----EMNNS--FQNFRAQHTATIN 113 (127)
Q Consensus 93 ~i~----~l~~~--~~~~~~~~i~r~~ 113 (127)
-+. .+... -..+++++|....
T Consensus 93 l~~~~l~~~~~~~~~~~iri~viG~~~ 119 (251)
T PRK14830 93 LPVEFLDKFVPELIENNVKVNVIGDTD 119 (251)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEEcChh
Confidence 222 11111 1367788777654
No 49
>PRK14836 undecaprenyl pyrophosphate synthase; Provisional
Probab=48.42 E-value=76 Score=22.50 Aligned_cols=91 Identities=11% Similarity=0.079 Sum_probs=53.7
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISE 93 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~ 93 (127)
.-+|+|+ |.+++|- ....++ ...-..+-+..+..-++++.+.|++.|++|.=| ++-.+ .+..++..++.-
T Consensus 16 ~HVAiIm-DGNrRwA--~~~gl~-~~~GH~~G~~~~~~iv~~c~~~gI~~lTvYaFS---~eN~~---R~~~EV~~Lm~l 85 (253)
T PRK14836 16 RHIAIIM-DGNGRWA--KRRGKP-RVEGHRAGVRAVRRTIEFCLEKGIEMLTLFAFS---SENWL---RPADEVSALMEL 85 (253)
T ss_pred CeEEEec-CCcHHHH--HHCCCc-hhhhHHHHHHHHHHHHHHHHHcCCCEEehhHhh---hhhcC---CCHHHHHHHHHH
Confidence 4555555 7777663 223343 345678888899999999999999999997622 11111 222345444443
Q ss_pred HHHHhh----c--CCcEEEEEecCCcc
Q 038317 94 ILEMNN----S--FQNFRAQHTATINN 114 (127)
Q Consensus 94 i~~l~~----~--~~~~~~~~i~r~~N 114 (127)
+...+. . -..+++++|.+...
T Consensus 86 ~~~~l~~~~~~~~~~~irv~viG~~~~ 112 (253)
T PRK14836 86 FLKALDREVDKLHRNGIRVRFIGDRSR 112 (253)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEecccc
Confidence 332211 1 14677777776443
No 50
>PRK11449 putative deoxyribonuclease YjjV; Provisional
Probab=47.16 E-value=14 Score=25.97 Aligned_cols=20 Identities=40% Similarity=0.468 Sum_probs=16.3
Q ss_pred HHHHHcCCceEEEEeehHHH
Q 038317 54 QVALKTGLVSALLESDCLEV 73 (127)
Q Consensus 54 ~~a~~~~~~~v~i~sDs~~v 73 (127)
+.+...+..++.+|||+..+
T Consensus 192 ~~~~~ipldriL~ETD~P~l 211 (258)
T PRK11449 192 DVIAKLPLASLLLETDAPDM 211 (258)
T ss_pred HHHHhCChhhEEEecCCCCC
Confidence 44556799999999999975
No 51
>COG1212 KdsB CMP-2-keto-3-deoxyoctulosonic acid synthetase [Cell envelope biogenesis, outer membrane]
Probab=47.15 E-value=90 Score=21.99 Aligned_cols=51 Identities=18% Similarity=0.126 Sum_probs=37.6
Q ss_pred HHHHHHHHHHcCCceEEEEeehHHHHHHHhcC-------CCCcchHHHHHHHHHHHhh
Q 038317 49 IKWGMQVALKTGLVSALLESDCLEVVQIVNNR-------CSSMVEISWMISEILEMNN 99 (127)
Q Consensus 49 l~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~-------~~~~~~~~~~~~~i~~l~~ 99 (127)
+-+-.+-|.+-|..+|++-||++.+.+.+.+- ..++.+-..-+.++...+.
T Consensus 31 I~rV~e~a~~s~~~rvvVATDde~I~~av~~~G~~avmT~~~h~SGTdR~~Ev~~~l~ 88 (247)
T COG1212 31 IVRVAERALKSGADRVVVATDDERIAEAVQAFGGEAVMTSKDHQSGTDRLAEVVEKLG 88 (247)
T ss_pred HHHHHHHHHHcCCCeEEEEcCCHHHHHHHHHhCCEEEecCCCCCCccHHHHHHHHhcC
Confidence 55667778888999999999999999999863 2334455566666665554
No 52
>PLN02182 cytidine deaminase
Probab=46.99 E-value=50 Score=24.48 Aligned_cols=39 Identities=13% Similarity=0.060 Sum_probs=29.5
Q ss_pred EEEEEEecCCCcEEEEeceeeccccc--HHHHHHHHHHHHH
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTN--VAMAEAAAIKWGM 53 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~--~~~AE~~Al~~al 53 (127)
-+|.+++..+|+++.+...-.....- ...||-.|+..++
T Consensus 67 ~VGAa~l~~sG~iy~GvNVEnas~pl~~tICAEr~AI~~A~ 107 (339)
T PLN02182 67 KVGAVGRASSGRVYLGVNVDFPGLPLHHSIHAEQFLVTNLA 107 (339)
T ss_pred eeeEEEEeCCCCEEEEEEeecCCCccCCccCHHHHHHHHHH
Confidence 47889999999998877754443333 5699999998875
No 53
>PTZ00349 dehydrodolichyl diphosphate synthetase; Provisional
Probab=46.10 E-value=1.2e+02 Score=22.41 Aligned_cols=88 Identities=10% Similarity=0.041 Sum_probs=55.5
Q ss_pred EEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHH
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEI 94 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i 94 (127)
-+|+|+ |.+|+|- ....++ ...-..+-..++..-++++.++|++.|.+|.=|..-. ..+..++..++.-+
T Consensus 22 HVAiIM-DGNrRwA--k~~gl~-~~~GH~~G~~~l~~il~~c~~lGIk~lTlYAFStENw------kRp~~EV~~Lm~L~ 91 (322)
T PTZ00349 22 HISIIM-DGNRRFA--KEKGLH-SAIGHFMGSKALIQIIEICIKLKIKILSVFSFSLLNY------NRSPEEIHFLFYLN 91 (322)
T ss_pred cEEEEc-CCCHHHH--HHCCCC-HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhhh------CCCHHHHHHHHHHH
Confidence 455544 8788773 333343 3446788999999999999999999999987664221 12333555444333
Q ss_pred H----------HHhhcCCcEEEEEecCCc
Q 038317 95 L----------EMNNSFQNFRAQHTATIN 113 (127)
Q Consensus 95 ~----------~l~~~~~~~~~~~i~r~~ 113 (127)
. ..+. -..+++++|.+-.
T Consensus 92 ~~~l~~~~~~~~~l~-~~~irirviGd~~ 119 (322)
T PTZ00349 92 LLILINEDFFFKFIK-DNKIKIKIIGNLS 119 (322)
T ss_pred HHHHHHhhhhHHHHH-HCCCEEEEEeChh
Confidence 2 1111 2478888888754
No 54
>KOG3139 consensus N-acetyltransferase [General function prediction only]
Probab=44.04 E-value=34 Score=22.58 Aligned_cols=23 Identities=13% Similarity=0.313 Sum_probs=20.1
Q ss_pred HHHHHHHHHHcCCceEEEEeehH
Q 038317 49 IKWGMQVALKTGLVSALLESDCL 71 (127)
Q Consensus 49 l~~al~~a~~~~~~~v~i~sDs~ 71 (127)
+..+|+.+.+.|++.|++||+-.
T Consensus 106 vr~aId~m~~~g~~eVvLeTe~~ 128 (165)
T KOG3139|consen 106 VRKAIDAMRSRGYSEVVLETEVT 128 (165)
T ss_pred HHHHHHHHHHCCCcEEEEecccc
Confidence 46689999999999999999853
No 55
>PRK14833 undecaprenyl pyrophosphate synthase; Provisional
Probab=43.72 E-value=1.1e+02 Score=21.38 Aligned_cols=89 Identities=9% Similarity=0.015 Sum_probs=55.4
Q ss_pred EEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHH
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEI 94 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i 94 (127)
-+|+| -|.+++|- ....++ ...-..+-+.++..-++++.+.|++.|.+|.=|..-. ..+..++..++.-+
T Consensus 7 HVaiI-mDGNrRwA--~~~gl~-~~~GH~~G~~~l~~~~~~c~~~gI~~lTvyaFS~eN~------~R~~~Ev~~Lm~L~ 76 (233)
T PRK14833 7 HLAII-MDGNGRWA--KLRGKA-RAAGHKKGVKTLREITIWCANHKLECLTLYAFSTENW------KRPKSEVDFLMKLL 76 (233)
T ss_pred eEEEE-ccCCHHHH--HHCCCC-hhhhHHHHHHHHHHHHHHHHHcCCCEEEEeecchhhc------CcCHHHHHHHHHHH
Confidence 34444 47777663 333343 3567789999999999999999999999987654221 12333555544333
Q ss_pred HHHhh----c--CCcEEEEEecCCc
Q 038317 95 LEMNN----S--FQNFRAQHTATIN 113 (127)
Q Consensus 95 ~~l~~----~--~~~~~~~~i~r~~ 113 (127)
...+. . -..+++++|.+-.
T Consensus 77 ~~~l~~~~~~~~~~~irvr~iG~~~ 101 (233)
T PRK14833 77 KKYLKDERSTYLENNIRFKAIGDLE 101 (233)
T ss_pred HHHHHHHHHHHHhCCcEEEEEeChh
Confidence 32221 1 1367888887644
No 56
>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=43.59 E-value=36 Score=24.98 Aligned_cols=36 Identities=17% Similarity=0.114 Sum_probs=25.2
Q ss_pred EEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHH
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQ 54 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~ 54 (127)
-+|+||-+ +|+++..+... .....+||..|+..|.+
T Consensus 20 ~vGaviv~-~~~ii~~g~n~---~~~~~HAE~~ai~~a~~ 55 (344)
T TIGR00326 20 LVGCVIVK-NGEIVGEGAHQ---KAGEPHAEVHALRQAGE 55 (344)
T ss_pred CEEEEEEe-CCEEEEEeeCC---CCCCCCHHHHHHHHhcc
Confidence 47778877 78887755532 22346999999988754
No 57
>PLN02402 cytidine deaminase
Probab=43.29 E-value=67 Score=23.47 Aligned_cols=63 Identities=14% Similarity=0.092 Sum_probs=41.1
Q ss_pred EEEEEEecCCCcEEEEeceeeccccc--HHHHHHHHHHHHHHHHHHcCCceEEEE----eehHHHHHHHh
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTN--VAMAEAAAIKWGMQVALKTGLVSALLE----SDCLEVVQIVN 78 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~--~~~AE~~Al~~al~~a~~~~~~~v~i~----sDs~~vi~~~~ 78 (127)
-+|.+++..+|+++.+...-...... ...||-.|+..++..- +..+..|.|- +.|.+++.-+.
T Consensus 47 ~VGAa~l~~~G~i~~GvNVEnasy~l~~tiCAEr~Ai~~av~~G-~~~i~~iaV~~sPCG~CRQ~l~Ef~ 115 (303)
T PLN02402 47 HVGAVGLGSSGRIFLGVNLEFPGLPLHHSVHAEQFLITNLTLNA-EPHLKYVAVSAAPCGHCRQFFQEIR 115 (303)
T ss_pred eeeEEEEeCCCCEEEEEeeecCCCCCCCcccHHHHHHHHHHHcC-CCceEEEEEEeCCCcccHHHHHHhc
Confidence 46888899999988877754443322 5699999999877432 1234555443 35667776663
No 58
>KOG0833 consensus Cytidine deaminase [Nucleotide transport and metabolism]
Probab=42.41 E-value=78 Score=21.12 Aligned_cols=39 Identities=15% Similarity=0.097 Sum_probs=29.7
Q ss_pred EEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHH
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGM 53 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al 53 (127)
-.|.++|.++|+.+.+...-+.....-..||-.|+..++
T Consensus 43 kVGA~~r~ssGrif~G~NVEn~~~~~sIcAEr~ai~~l~ 81 (173)
T KOG0833|consen 43 KVGAAGRASSGRIFLGVNVENASYHHSICAERFAIANLA 81 (173)
T ss_pred ceEEEEEecCCcEEEeeeecccCCCCcccHHHHHHHHHH
Confidence 468999999999877766555455667789998887765
No 59
>PRK10057 rpsV 30S ribosomal subunit S22; Reviewed
Probab=41.82 E-value=4.5 Score=19.97 Aligned_cols=21 Identities=24% Similarity=0.161 Sum_probs=16.6
Q ss_pred CCceEEEEeehHHHHHHHhcC
Q 038317 60 GLVSALLESDCLEVVQIVNNR 80 (127)
Q Consensus 60 ~~~~v~i~sDs~~vi~~~~~~ 80 (127)
+-++|++|+|...+|+..+++
T Consensus 19 nqrKvV~Egd~~t~vn~~tGR 39 (44)
T PRK10057 19 NQRKVVTEGDKSSVVNNPTGR 39 (44)
T ss_pred cceeEEeeCCcceeEeccccc
Confidence 348999999999998865554
No 60
>PRK14839 undecaprenyl pyrophosphate synthase; Provisional
Probab=41.03 E-value=1.3e+02 Score=21.25 Aligned_cols=91 Identities=10% Similarity=0.024 Sum_probs=56.9
Q ss_pred eeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHH
Q 038317 13 VAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMIS 92 (127)
Q Consensus 13 ~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~ 92 (127)
+.-+|+|. |.+++|-. ...++ ...-..+-+..+..-++++.+.|++.|.+|.=|..-. ..+..++..+++
T Consensus 10 P~HVAiIm-DGNrRwAk--~~gl~-~~~GH~~G~~~l~~i~~~c~~~GI~~lTvYaFS~EN~------~R~~~EV~~Lm~ 79 (239)
T PRK14839 10 GLHVAIIM-DGNGRWAT--ARGLP-RLAGHRAGVEAIRRVVEAAPDLGIGTLTLYAFSSDNW------RRPAAEVGGLMR 79 (239)
T ss_pred CCEEEEEc-CCCHHHHH--HCCCC-HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEechhhc------CCCHHHHHHHHH
Confidence 34566555 87887632 33343 3457788999999999999999999999987664221 123335555544
Q ss_pred HHHHH----hhc--CCcEEEEEecCCc
Q 038317 93 EILEM----NNS--FQNFRAQHTATIN 113 (127)
Q Consensus 93 ~i~~l----~~~--~~~~~~~~i~r~~ 113 (127)
-+... ... -..+++++|.+..
T Consensus 80 L~~~~l~~~~~~~~~~~irvr~iGd~~ 106 (239)
T PRK14839 80 LLRAYLRNETERLARNGVRLTVIGRRD 106 (239)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEEeChh
Confidence 33321 111 1467788887654
No 61
>PRK14840 undecaprenyl pyrophosphate synthase; Provisional
Probab=40.66 E-value=1.3e+02 Score=21.31 Aligned_cols=92 Identities=14% Similarity=0.063 Sum_probs=56.2
Q ss_pred eEEEEEEecCCCcEEEEec--eeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHH
Q 038317 14 AGLGVVIRDDKDNCIVAAI--ISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMI 91 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~--~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~ 91 (127)
.-+|+|. |.+++|-...- ..++ ...-..+-+.++..-++++.+.|++.|++|.=|..-. ..+..++..++
T Consensus 20 ~HVaiIm-DGNrRwAk~~~~~~gl~-~~~GH~~G~~~l~~v~~~c~~~GIk~lTvYaFS~EN~------~R~~~EV~~Lm 91 (250)
T PRK14840 20 RHVAIIM-DGNRRWYRKHEQFCQKR-AISGHYYGAKSLPQIVDTALHLGIEVLTLFAFSTENF------SRSKEEVAELF 91 (250)
T ss_pred CeEEEEc-CCChHHHhhCCCccCCC-HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhhc------CCCHHHHHHHH
Confidence 3455554 88887743211 0122 3456788999999999999999999999987664222 12333555444
Q ss_pred HHHHHHhhc------CCcEEEEEecCCc
Q 038317 92 SEILEMNNS------FQNFRAQHTATIN 113 (127)
Q Consensus 92 ~~i~~l~~~------~~~~~~~~i~r~~ 113 (127)
.-+...+.+ -..+++++|.+..
T Consensus 92 ~L~~~~l~~~~~~~~~~~irvr~iGd~~ 119 (250)
T PRK14840 92 SLFNSQLDSQLPYLHENEIRLRCIGDLS 119 (250)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEEEeChh
Confidence 333322111 1378888887644
No 62
>PRK09027 cytidine deaminase; Provisional
Probab=40.56 E-value=72 Score=23.20 Aligned_cols=63 Identities=16% Similarity=0.270 Sum_probs=40.5
Q ss_pred EEEEEEecCCCcEEEEeceeec--ccccHHHHHHHHHHHHHHHHHHcCCceEEEE----eehHHHHHHHh
Q 038317 15 GLGVVIRDDKDNCIVAAIISYR--IFTNVAMAEAAAIKWGMQVALKTGLVSALLE----SDCLEVVQIVN 78 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~--~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~----sDs~~vi~~~~ 78 (127)
-+|.+++..+|+++.+...-.. .+.-...||-.|+..++.. -+.++..|.+- +.|.+++.-+.
T Consensus 72 ~VGAa~~~~sG~iy~GvNvE~~~~s~~~tiCAEr~Ai~~a~~~-Ge~~i~~I~v~~sPCG~CRQ~l~E~~ 140 (295)
T PRK09027 72 NVGAIARGVSGNFYFGANMEFAGAALQQTVHAEQSAISHAWLR-GEKAIADITVNYTPCGHCRQFMNELN 140 (295)
T ss_pred cEEEEEEeCCCCEEEEEeeccCCCCCCCCcCHHHHHHHHHHHC-CCCceEEEEEEecCchhhHHHHHHhC
Confidence 4688888999998887765443 2335679999999987743 12344555542 34555655554
No 63
>PRK09027 cytidine deaminase; Provisional
Probab=40.50 E-value=98 Score=22.53 Aligned_cols=57 Identities=11% Similarity=0.028 Sum_probs=36.6
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHc-CCceEEEEeeh
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKT-GLVSALLESDC 70 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~-~~~~v~i~sDs 70 (127)
.-.|+.+...+|+++.+...-..-+...+-||-.|+..++..-.+. .+..+.+-.+.
T Consensus 210 f~vGaAl~~~dG~i~~G~nvENAAynpslcaer~Al~~~v~~G~~~~~i~~i~lv~~~ 267 (295)
T PRK09027 210 SYSGVALETKDGRIYTGRYAENAAFNPSLPPLQGALNLLNLSGEDFSDIQRAVLVEKA 267 (295)
T ss_pred CceeEEEEeCCCCEEEEEEEEcCCCCCcccHHHHHHHHHHHcCCCccCEEEEEEEeCC
Confidence 3457777777899887766544445566788888888877332221 25666666655
No 64
>PRK10425 DNase TatD; Provisional
Probab=36.87 E-value=25 Score=24.75 Aligned_cols=21 Identities=19% Similarity=0.131 Sum_probs=16.4
Q ss_pred HHHHHcCCceEEEEeehHHHH
Q 038317 54 QVALKTGLVSALLESDCLEVV 74 (127)
Q Consensus 54 ~~a~~~~~~~v~i~sDs~~vi 74 (127)
+.+...+..++.+|||+..+-
T Consensus 188 ~~~~~ipldrlLlETDaP~l~ 208 (258)
T PRK10425 188 ELLPLIPAERLLLETDAPYLL 208 (258)
T ss_pred HHHHhCChHHEEEeccCCCCC
Confidence 334567889999999998753
No 65
>PRK13190 putative peroxiredoxin; Provisional
Probab=36.47 E-value=1.3e+02 Score=20.21 Aligned_cols=43 Identities=23% Similarity=0.110 Sum_probs=30.6
Q ss_pred EEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcC
Q 038317 16 LGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTG 60 (127)
Q Consensus 16 ~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~ 60 (127)
=+.++-|++|.+........ ....+..|++.++.+++...+.|
T Consensus 118 p~~fiId~~G~I~~~~~~~~--~~gr~~~ellr~l~~l~~~~~~~ 160 (202)
T PRK13190 118 RGVFIIDPNQIVRWMIYYPA--ETGRNIDEIIRITKALQVNWKRK 160 (202)
T ss_pred eEEEEECCCCEEEEEEEeCC--CCCCCHHHHHHHHHHhhhHHhcC
Confidence 35678899997765443322 33456789999999999987774
No 66
>PRK14832 undecaprenyl pyrophosphate synthase; Provisional
Probab=36.10 E-value=64 Score=22.90 Aligned_cols=90 Identities=9% Similarity=0.025 Sum_probs=55.9
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISE 93 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~ 93 (127)
.-+|+|. |.+++|- ....++ ...-..+-+..+..-++++.+.|++.|++|.=|..-. ..+..++..++.-
T Consensus 20 ~HVAiIm-DGNrRwA--k~~gl~-~~~GH~~G~~~l~~i~~~c~~~gI~~lTvyaFS~EN~------~Rp~~EV~~Lm~L 89 (253)
T PRK14832 20 QHIAVIM-DGNGRWA--TSQGLP-RIAGHRQGARTLKELLRCCKDWGIKALTAYAFSTENW------QRPIEEVDFLMLL 89 (253)
T ss_pred CEEEEEC-CCCHHHH--HHCCCC-HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEeehhhc------CCCHHHHHHHHHH
Confidence 3455554 8777773 233343 4557788999999999999999999999987664322 1223355444433
Q ss_pred HH----HHhhc--CCcEEEEEecCCc
Q 038317 94 IL----EMNNS--FQNFRAQHTATIN 113 (127)
Q Consensus 94 i~----~l~~~--~~~~~~~~i~r~~ 113 (127)
+. ..... -..+++++|.+-.
T Consensus 90 ~~~~l~~~~~~~~~~~irv~~iGd~~ 115 (253)
T PRK14832 90 FERLLRRELAQMHREGVRISFIGDLS 115 (253)
T ss_pred HHHHHHHHHHHHHhcCCEEEEEeCch
Confidence 32 21121 2367888887654
No 67
>PRK13191 putative peroxiredoxin; Provisional
Probab=35.60 E-value=1.2e+02 Score=20.80 Aligned_cols=42 Identities=21% Similarity=0.211 Sum_probs=30.2
Q ss_pred EEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcC
Q 038317 17 GVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTG 60 (127)
Q Consensus 17 G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~ 60 (127)
+.+|-|++|.+.......++ ...+.-|++.++.+|+.+.+.|
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 56778999987665444332 3347789999999999877764
No 68
>PRK13599 putative peroxiredoxin; Provisional
Probab=34.43 E-value=1.3e+02 Score=20.49 Aligned_cols=42 Identities=21% Similarity=0.101 Sum_probs=30.1
Q ss_pred EEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcC
Q 038317 17 GVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTG 60 (127)
Q Consensus 17 G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~ 60 (127)
..+|-|++|.+...... +.....+..|++..+.+|+.+.+.+
T Consensus 121 ~tfIID~dG~Ir~~~~~--p~~~gr~~~eilr~l~~lq~~~~~~ 162 (215)
T PRK13599 121 AVFIVDDKGTIRLIMYY--PQEVGRNVDEILRALKALQTADQYG 162 (215)
T ss_pred EEEEECCCCEEEEEEEc--CCCCCCCHHHHHHHHHHhhhhhhcC
Confidence 45777999987665432 2334457789999999999987764
No 69
>PF01026 TatD_DNase: TatD related DNase The Pfam entry finds members not in the Prosite definition.; InterPro: IPR001130 This family of proteins are related to a large superfamily of metalloenzymes []. TatD, a member of this family has been shown experimentally to be a DNase enzyme []. Allantoinase 3.5.2.5 from EC, N-isopropylammelide isopropyl amidohydrolase 3.5.1 from EC and the SCN1 protein from fission yeast belong to this family.; GO: 0016888 endodeoxyribonuclease activity, producing 5'-phosphomonoesters; PDB: 3E2V_B 1XWY_A 3GUW_D 3RCM_A 1ZZM_A 2XIO_A 1J6O_A 2GZX_A 3IPW_A 2Y1H_A ....
Probab=33.05 E-value=33 Score=23.88 Aligned_cols=22 Identities=23% Similarity=0.126 Sum_probs=15.5
Q ss_pred HHHHHHHcCCceEEEEeehHHH
Q 038317 52 GMQVALKTGLVSALLESDCLEV 73 (127)
Q Consensus 52 al~~a~~~~~~~v~i~sDs~~v 73 (127)
.-+++...+..++.+|||+...
T Consensus 188 ~~~~~~~ip~drillETD~P~~ 209 (255)
T PF01026_consen 188 VRELIKAIPLDRILLETDAPYL 209 (255)
T ss_dssp HHHHHHHS-GGGEEEE-BTTSS
T ss_pred HHHHHhcCChhhEEEcCCCCcC
Confidence 4555677899999999999654
No 70
>PRK14831 undecaprenyl pyrophosphate synthase; Provisional
Probab=32.67 E-value=70 Score=22.60 Aligned_cols=54 Identities=9% Similarity=-0.071 Sum_probs=39.9
Q ss_pred eEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehH
Q 038317 14 AGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCL 71 (127)
Q Consensus 14 ~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~ 71 (127)
.-+|+|. |.+++|-. ...++ ...-..+-+.++..-++++.+.|++.|.+|.=|.
T Consensus 22 ~HVaiIm-DGNrRwA~--~~gl~-~~~GH~~G~~~l~~i~~~c~~~GI~~vT~yaFS~ 75 (249)
T PRK14831 22 KHVAVIM-DGNGRWAK--RRGLP-RIMGHRRGVDALKDLLRCCKDWGIGALTAYAFST 75 (249)
T ss_pred CeEEEec-CCcHHHHH--HCCCc-hhhhHHHHHHHHHHHHHHHHHcCCCEEEEeecch
Confidence 3555555 77777632 22343 3457788999999999999999999999987663
No 71
>TIGR01355 cyt_deam_dimer cytidine deaminase, homodimeric. This homodimeric zinc metalloprotein is found in Arabidopis and some Proteobacteria. A related, homotetrameric form with a much smaller subunit is found most bacteria and in animals. Both types may act on deoxycytidine as well as cytidine.
Probab=32.67 E-value=1.2e+02 Score=21.98 Aligned_cols=63 Identities=14% Similarity=0.173 Sum_probs=39.9
Q ss_pred EEEEEEecCCCcEEEEeceeecc--cccHHHHHHHHHHHHHHHHHHcCCceEEE----EeehHHHHHHHh
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRI--FTNVAMAEAAAIKWGMQVALKTGLVSALL----ESDCLEVVQIVN 78 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~--~~~~~~AE~~Al~~al~~a~~~~~~~v~i----~sDs~~vi~~~~ 78 (127)
-+|.+++..+|+++.+...-.+. ......||-.|+..++..- +..+..|.+ .+-|.+++.-+.
T Consensus 44 ~VGAall~~~G~iy~GvNvE~~nas~~~tiCAEr~Ai~~Av~~G-e~~i~~Iav~~~PCG~CRQ~l~Ef~ 112 (283)
T TIGR01355 44 NVGAVGRGSSGRFYLGVNVEFPGLPLHHSIHAEQFLISHLALNN-ERGLNDLAVSYAPCGHCRQFLNEIR 112 (283)
T ss_pred eeeEEEEeCCCCEEEEEEeccCCCCCCccccHHHHHHHHHHHcC-CCceEEEEEEeCCcchhHHHHHHhc
Confidence 47888899999998877743222 2235689999998876432 123444443 345666766664
No 72
>PRK09822 lipopolysaccharide core biosynthesis protein; Provisional
Probab=32.27 E-value=70 Score=22.61 Aligned_cols=21 Identities=14% Similarity=-0.004 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHcCCceEEEEe
Q 038317 48 AIKWGMQVALKTGLVSALLES 68 (127)
Q Consensus 48 Al~~al~~a~~~~~~~v~i~s 68 (127)
-.++|||++-.+|+.+|.+.+
T Consensus 172 VaY~ALQIaY~LGF~~I~iaG 192 (269)
T PRK09822 172 IAYTAIQVAYSLKYGRIICSG 192 (269)
T ss_pred hHHHHHHHHHHcCCCEEEEEe
Confidence 468899999999999999976
No 73
>PRK09902 hypothetical protein; Provisional
Probab=31.59 E-value=1.8e+02 Score=20.17 Aligned_cols=25 Identities=12% Similarity=0.070 Sum_probs=16.3
Q ss_pred cccceeecCCCe--eEEEEEEecC-CCc
Q 038317 2 NVDATVDVEKQV--AGLGVVIRDD-KDN 26 (127)
Q Consensus 2 n~Dgs~~~~~~~--~g~G~vi~~~-~g~ 26 (127)
+.+|-|...++. +|+..|.+-. .|.
T Consensus 15 ~~~~~wve~pN~~rgG~SgV~r~~~~g~ 42 (216)
T PRK09902 15 ATEGDWVEEPNYRRNGMSGVQCVERNGK 42 (216)
T ss_pred hCCCceecCCCcCCCCcceEEEEEeCCc
Confidence 456777766655 8997777733 444
No 74
>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=30.54 E-value=1.7e+02 Score=19.60 Aligned_cols=42 Identities=17% Similarity=0.079 Sum_probs=29.7
Q ss_pred EEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcC
Q 038317 17 GVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTG 60 (127)
Q Consensus 17 G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~ 60 (127)
+.++-|++|.+......... ......|++.++.+|+...+.|
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 46778999987665443332 2345789999999999987664
No 75
>PRK10812 putative DNAse; Provisional
Probab=29.78 E-value=39 Score=23.87 Aligned_cols=20 Identities=25% Similarity=0.164 Sum_probs=15.7
Q ss_pred HHHHHcCCceEEEEeehHHH
Q 038317 54 QVALKTGLVSALLESDCLEV 73 (127)
Q Consensus 54 ~~a~~~~~~~v~i~sDs~~v 73 (127)
+++......++.+||||..+
T Consensus 190 ~~~~~ipldrlLlETD~P~~ 209 (265)
T PRK10812 190 DAARYVPLDRLLVETDSPYL 209 (265)
T ss_pred HHHHhCChhhEEEecCCCCC
Confidence 44556678999999999764
No 76
>cd02955 SSP411 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein, called SSP411, is specifically expressed in the testis in an age-dependent manner. The SSP411 mRNA is increased during spermiogenesis and is localized in round and elongated spermatids, suggesting a function in fertility regulation.
Probab=29.13 E-value=1.4e+02 Score=18.50 Aligned_cols=44 Identities=5% Similarity=-0.089 Sum_probs=27.4
Q ss_pred eEE-EEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHH
Q 038317 14 AGL-GVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALK 58 (127)
Q Consensus 14 ~g~-G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~ 58 (127)
.|+ -.++.+++|..+.+.+. +++-......-+.-++..++..+.
T Consensus 79 ~G~Pt~vfl~~~G~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 123 (124)
T cd02955 79 GGWPLNVFLTPDLKPFFGGTY-FPPEDRYGRPGFKTVLEKIRELWR 123 (124)
T ss_pred CCCCEEEEECCCCCEEeeeee-cCCCCcCCCcCHHHHHHHHHHHHh
Confidence 344 46888999999887754 554444444455556666655543
No 77
>PF12991 DUF3875: Domain of unknown function, B. Theta Gene description (DUF3875); InterPro: IPR024451 This domain of unknown function is found in proteins from Bacteroidetes, including the conjugation system ATPase, TraG.
Probab=28.61 E-value=79 Score=16.76 Aligned_cols=31 Identities=23% Similarity=0.176 Sum_probs=23.9
Q ss_pred EecCCCcEEEEeceeecccccHHHHHHHHHH
Q 038317 20 IRDDKDNCIVAAIISYRIFTNVAMAEAAAIK 50 (127)
Q Consensus 20 i~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~ 50 (127)
+-..+|....++...+|..-+...+|+.|+.
T Consensus 23 ivSk~gDiTv~f~v~LPEiFtls~~eYea~H 53 (54)
T PF12991_consen 23 IVSKNGDITVAFRVELPEIFTLSEAEYEAIH 53 (54)
T ss_pred EEecCCCEEEEEEecCCeeEEechhHhHHhc
Confidence 3456787777777789988888888988864
No 78
>PTZ00137 2-Cys peroxiredoxin; Provisional
Probab=28.43 E-value=1.6e+02 Score=20.93 Aligned_cols=42 Identities=21% Similarity=0.158 Sum_probs=30.7
Q ss_pred EEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcC
Q 038317 17 GVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTG 60 (127)
Q Consensus 17 G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~ 60 (127)
+.++-|++|.+.......++ ......|++.++.|||...+.|
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 45777999987765554333 2346789999999999987775
No 79
>COG0191 Fba Fructose/tagatose bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=28.08 E-value=57 Score=23.60 Aligned_cols=23 Identities=17% Similarity=0.293 Sum_probs=20.7
Q ss_pred HHHHHHHcCCceEEEEeehHHHH
Q 038317 52 GMQVALKTGLVSALLESDCLEVV 74 (127)
Q Consensus 52 al~~a~~~~~~~v~i~sDs~~vi 74 (127)
=++-|++.|+.+|-|.||++.+.
T Consensus 219 eI~~aI~~GV~KvNi~Td~~~A~ 241 (286)
T COG0191 219 EIREAIKLGVAKVNIDTDLQLAF 241 (286)
T ss_pred HHHHHHHhCceEEeeCcHHHHHH
Confidence 37888999999999999999876
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=27.33 E-value=44 Score=21.51 Aligned_cols=29 Identities=14% Similarity=0.022 Sum_probs=21.5
Q ss_pred HHhhcCCcEEEEEecCCccHHHHHHHHhh
Q 038317 96 EMNNSFQNFRAQHTATINNSAAHALRFKI 124 (127)
Q Consensus 96 ~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a 124 (127)
.+..+|..-++..+.|.||..++.|++.-
T Consensus 93 ~l~~~~~~~~Y~Ll~~NCNhFs~~l~~~L 121 (151)
T PF05903_consen 93 SLSREFTGDSYHLLNRNCNHFSDALCQFL 121 (151)
T ss_dssp HHHTT-SGGG-BTTTBSHHHHHHHHHHHH
T ss_pred HHHhhccCCcchhhhhhhhHHHHHHHHHh
Confidence 34446777888899999999999998753
No 81
>COG0020 UppS Undecaprenyl pyrophosphate synthase [Lipid metabolism]
Probab=27.31 E-value=2.3e+02 Score=20.05 Aligned_cols=86 Identities=14% Similarity=0.063 Sum_probs=52.7
Q ss_pred EEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHHHHHh
Q 038317 19 VIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMN 98 (127)
Q Consensus 19 vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l~ 98 (127)
+|-|.+|+|-... .++ ...-..+-..++...++++.+.|++.+.++..|...- ..+..++..+..-+...+
T Consensus 22 iImDGN~RwAk~~--~~~-r~~Gh~~G~~~~~~i~~~~~~lgik~ltlyafSteN~------~Rp~~Ev~~lm~l~~~~l 92 (245)
T COG0020 22 IIMDGNRRWAKKR--GLP-RIEGHKAGAKALREILEWCLELGIKYLTLYAFSTENW------KRPKEEVSFLMELFEKAL 92 (245)
T ss_pred EEecCChHHHHhC--CCC-hhHHHHHhHHHHHHHHHHHHHcCCCEEEEEEEehhhc------CCCHHHHHHHHHHHHHHH
Confidence 5557777764322 232 3345567788899999999999999999999996432 122234444433333222
Q ss_pred hc------CCcEEEEEecCCc
Q 038317 99 NS------FQNFRAQHTATIN 113 (127)
Q Consensus 99 ~~------~~~~~~~~i~r~~ 113 (127)
.+ -..++++.|....
T Consensus 93 ~~~~~~l~~~~v~v~~iG~~~ 113 (245)
T COG0020 93 REELKKLHKNGVRIRIIGDLS 113 (245)
T ss_pred HHHHHHHhhcCeEEEEEeccc
Confidence 21 3567777776544
No 82
>COG3142 CutC Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]
Probab=26.65 E-value=1.7e+02 Score=20.59 Aligned_cols=39 Identities=18% Similarity=0.238 Sum_probs=30.6
Q ss_pred EEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCCceEEE
Q 038317 16 LGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGLVSALL 66 (127)
Q Consensus 16 ~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i 66 (127)
+-..||...|.|++. ..|+..+..-++.+++.|++-|++
T Consensus 54 v~~MIRPRgGdFvY~------------~~E~~iM~~DI~~~~~lG~~GVV~ 92 (241)
T COG3142 54 VYVMIRPRGGDFVYS------------DDELEIMLEDIRLARELGVQGVVL 92 (241)
T ss_pred eEEEEecCCCCcccC------------hHHHHHHHHHHHHHHHcCCCcEEE
Confidence 445778777777531 348999999999999999988886
No 83
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=26.63 E-value=2.1e+02 Score=19.49 Aligned_cols=49 Identities=18% Similarity=0.092 Sum_probs=34.4
Q ss_pred CCCeeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcC
Q 038317 10 EKQVAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTG 60 (127)
Q Consensus 10 ~~~~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~ 60 (127)
..+.+-=|..|-|++|.+.......+ ..--+.-|++.++.|||+..++|
T Consensus 119 ~~g~a~R~~FIIDp~g~ir~~~v~~~--~iGRn~dEilR~idAlq~~~~hg 167 (194)
T COG0450 119 EEGLALRGTFIIDPDGVIRHILVNPL--TIGRNVDEILRVIDALQFVAKHG 167 (194)
T ss_pred CCCcceeEEEEECCCCeEEEEEEecC--CCCcCHHHHHHHHHHHHHHHHhC
Confidence 33445568888899997655444333 23445679999999999988875
No 84
>PF11080 DUF2622: Protein of unknown function (DUF2622); InterPro: IPR022597 This family is conserved in the Enterobacteriaceae family. The function is not known.
Probab=26.45 E-value=1.3e+02 Score=17.99 Aligned_cols=42 Identities=17% Similarity=0.328 Sum_probs=28.1
Q ss_pred eeEEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHH
Q 038317 13 VAGLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQ 54 (127)
Q Consensus 13 ~~g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~ 54 (127)
.+|+--.+.|++|.+-.=++..+...+....-|+..+..+|-
T Consensus 32 ~~GF~~tl~D~~G~~HeLgtntfgl~S~l~~~eV~~la~~la 73 (96)
T PF11080_consen 32 RAGFSTTLTDEDGNPHELGTNTFGLISALSAEEVAQLARGLA 73 (96)
T ss_pred hcCceeEEecCCCCEeecCCCeEEEEecCCHHHHHHHHHHHh
Confidence 467888999999997655555555444444556666666653
No 85
>CHL00041 rps11 ribosomal protein S11
Probab=26.36 E-value=1.6e+02 Score=18.07 Aligned_cols=49 Identities=14% Similarity=0.086 Sum_probs=30.8
Q ss_pred EEecCCCcEEEEeceee-----cccccHHHHHHHHHHHHHHHHHHcCCceEEEEe
Q 038317 19 VIRDDKDNCIVAAIISY-----RIFTNVAMAEAAAIKWGMQVALKTGLVSALLES 68 (127)
Q Consensus 19 vi~~~~g~~~~~~~~~~-----~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~s 68 (127)
.+.|..|..+...+... ..-.++..|+..| ....+.+.++|++.|.|.-
T Consensus 28 TlTd~~G~~l~~~S~G~~gfKg~rK~T~~Aa~~~a-~~~~~~~~~~gi~~v~I~i 81 (116)
T CHL00041 28 TVTDVRGRVISWSSAGACGFKGARKGTPFAAQTAA-ENAIRTVIDQGMKRAEVMI 81 (116)
T ss_pred EEEcCCCCEEEEEecCceeeCCCccCCHHHHHHHH-HHHHHHHHHcCCcEEEEEE
Confidence 45677777655444321 1234555555555 4677888899999988875
No 86
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=26.20 E-value=2e+02 Score=19.13 Aligned_cols=42 Identities=5% Similarity=-0.122 Sum_probs=30.4
Q ss_pred EEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHc
Q 038317 16 LGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKT 59 (127)
Q Consensus 16 ~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~ 59 (127)
=+.++-|++|.+........ .......|++..+.+++...+.
T Consensus 120 r~tfIID~~G~I~~~~~~~~--~~~~~~~eil~~l~alq~~~~~ 161 (187)
T PRK10382 120 RATFVVDPQGIIQAIEVTAE--GIGRDASDLLRKIKAAQYVASH 161 (187)
T ss_pred eEEEEECCCCEEEEEEEeCC--CCCCCHHHHHHHHHhhhhHhhc
Confidence 35577799998776544322 2345678999999999998776
No 87
>smart00340 HALZ homeobox associated leucin zipper.
Probab=25.70 E-value=29 Score=17.39 Aligned_cols=31 Identities=13% Similarity=0.187 Sum_probs=19.3
Q ss_pred EeehHHHHHHHhcCCCCcchHHHHHHHHHHH
Q 038317 67 ESDCLEVVQIVNNRCSSMVEISWMISEILEM 97 (127)
Q Consensus 67 ~sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l 97 (127)
|.||.++-.++.+-...+..+..-+.+++.+
T Consensus 4 EvdCe~LKrcce~LteeNrRL~ke~~eLral 34 (44)
T smart00340 4 EVDCELLKRCCESLTEENRRLQKEVQELRAL 34 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 6789999888887644344444445555433
No 88
>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=25.31 E-value=1.9e+02 Score=18.55 Aligned_cols=43 Identities=14% Similarity=0.120 Sum_probs=29.4
Q ss_pred EEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcCC
Q 038317 17 GVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTGL 61 (127)
Q Consensus 17 G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~~ 61 (127)
..++-|++|.++.......+. .....|++..+..++.+.+++.
T Consensus 122 ~~~lID~~G~I~~~~~~~~~~--~~~~~~il~~l~~~~~~~~~~~ 164 (173)
T cd03015 122 GTFIIDPEGIIRHITVNDLPV--GRSVDETLRVLDALQFVEEHGE 164 (173)
T ss_pred EEEEECCCCeEEEEEecCCCC--CCCHHHHHHHHHHhhhhhhcCC
Confidence 578889999877655433322 2235678888888888887764
No 89
>PRK10786 ribD bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=24.98 E-value=1.2e+02 Score=22.71 Aligned_cols=37 Identities=16% Similarity=0.135 Sum_probs=23.9
Q ss_pred EEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHH
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQV 55 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~ 55 (127)
-+|+||-+ +|+++..+... .. ...+||..|+..+-+.
T Consensus 26 ~vGaviv~-~g~ii~~g~n~--~~-g~~HAE~~ai~~a~~~ 62 (367)
T PRK10786 26 NVGCVIVK-DGEIVGEGYHQ--RA-GEPHAEVHALRMAGEK 62 (367)
T ss_pred CEEEEEEe-CCEEEEEEeCC--CC-CCCCHHHHHHHHHhhh
Confidence 36777765 57777655431 12 2369999999987553
No 90
>PLN02807 diaminohydroxyphosphoribosylaminopyrimidine deaminase
Probab=24.86 E-value=1.2e+02 Score=22.97 Aligned_cols=36 Identities=17% Similarity=0.125 Sum_probs=23.4
Q ss_pred EEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHH
Q 038317 16 LGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQV 55 (127)
Q Consensus 16 ~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~ 55 (127)
+|+||-+ +|+++..+.... . ...+||..|+..|-+.
T Consensus 56 VGaViV~-~g~Ii~~g~n~~--~-g~~HAEi~Ai~~a~~~ 91 (380)
T PLN02807 56 VGCVIVK-DGRIVGEGFHPK--A-GQPHAEVFALRDAGDL 91 (380)
T ss_pred EEEEEEE-CCEEEEEEeCCC--C-CCcCHHHHHHHHhhhh
Confidence 5666664 388776555322 2 2369999999887653
No 91
>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=24.77 E-value=1.7e+02 Score=17.71 Aligned_cols=52 Identities=15% Similarity=0.017 Sum_probs=33.0
Q ss_pred EEEecCCCcEEEEeceeecc-----cccHHHHHHHHHHHHHHHHHHcCCceEEEEeeh
Q 038317 18 VVIRDDKDNCIVAAIISYRI-----FTNVAMAEAAAIKWGMQVALKTGLVSALLESDC 70 (127)
Q Consensus 18 ~vi~~~~g~~~~~~~~~~~~-----~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs 70 (127)
+.+.|..|..+...+....+ -.++..|+ .+....++.+.++|++.|.++--.
T Consensus 14 vtlTd~~G~~~~~~S~G~~gfK~~rk~t~~Aa~-~~a~~~~~~~~~~gi~~v~v~ikG 70 (110)
T PF00411_consen 14 VTLTDLKGNVLFWSSAGSLGFKGARKSTPYAAQ-QAAEKIAKKAKELGIKTVRVKIKG 70 (110)
T ss_dssp EEEEETTSEEEEEEETTTSSTTTTCGSSHHHHH-HHHHHHHHHHHCTTEEEEEEEEES
T ss_pred EEEECCCCCEEEEEeccccccccccccCHHHHH-HHHHHHHHHHHHcCCeEEEEEEcC
Confidence 35668888876655432211 23454444 445777888889999998887544
No 92
>TIGR02608 delta_60_rpt delta-60 repeat domain. This domain occurs in tandem repeats, as many as 13, in proteins from Bdellovibrio bacteriovorus, Azotobacter vinelandii, Geobacter sulfurreducens, Pirellula sp. 1, Myxococcus xanthus, and others, many of which are Deltaproteobacteria. The periodicity of the repeat ranges from about 57 to 61 amino acids, and a core region of about 54 is represented by this model and seed alignment.
Probab=24.66 E-value=48 Score=17.58 Aligned_cols=16 Identities=25% Similarity=0.428 Sum_probs=10.3
Q ss_pred CcccceeecCCCeeEE
Q 038317 1 INVDATVDVEKQVAGL 16 (127)
Q Consensus 1 ~n~Dgs~~~~~~~~g~ 16 (127)
+|.||+.++.-+..|.
T Consensus 34 ln~DGsLDttFg~~G~ 49 (55)
T TIGR02608 34 LNADGSLDTTFGTGGK 49 (55)
T ss_pred ECCCCCccCCcCCCcE
Confidence 4778888777544443
No 93
>PRK13189 peroxiredoxin; Provisional
Probab=24.60 E-value=2.4e+02 Score=19.34 Aligned_cols=42 Identities=19% Similarity=0.114 Sum_probs=29.2
Q ss_pred EEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHHHHHcC
Q 038317 17 GVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQVALKTG 60 (127)
Q Consensus 17 G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~a~~~~ 60 (127)
+.+|-|++|.+.......++ ...+..|++.++.+|+...+.|
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 56888999977654433232 2334679999999999887774
No 94
>PF11821 DUF3341: Protein of unknown function (DUF3341); InterPro: IPR021776 This family of proteins are functionally uncharacterised. This family is found in bacteria. Proteins in this family are about 170 amino acids in length.
Probab=24.15 E-value=1.1e+02 Score=20.35 Aligned_cols=24 Identities=8% Similarity=-0.082 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHcCCceEEEEeeh
Q 038317 47 AAIKWGMQVALKTGLVSALLESDC 70 (127)
Q Consensus 47 ~Al~~al~~a~~~~~~~v~i~sDs 70 (127)
.++++|++.+++.|+++..++|=-
T Consensus 13 ~~l~~A~~~~r~~G~~~~d~ytPf 36 (173)
T PF11821_consen 13 EALLHAARKLRDAGYRIWDVYTPF 36 (173)
T ss_pred HHHHHHHHHHHHcCCceeEEeCCC
Confidence 578999999999999988887643
No 95
>TIGR00857 pyrC_multi dihydroorotase, multifunctional complex type. All proteins described by this model should represent active and inactive dihydroorotase per se and functionally equivalent domains of multifunctional proteins from higher eukaryotes, but exclude related proteins such as allantoinase.
Probab=24.09 E-value=2.3e+02 Score=21.27 Aligned_cols=39 Identities=15% Similarity=0.164 Sum_probs=29.2
Q ss_pred cHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHh
Q 038317 40 NVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVN 78 (127)
Q Consensus 40 ~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~ 78 (127)
.|..+|..|+...+++|...+.+=.+...-|...++.+.
T Consensus 192 ~p~~aE~~ai~~~~~la~~~~~~~~i~Hvs~~~~l~~i~ 230 (411)
T TIGR00857 192 RPPEAEEVAVARLLELAKHAGCPVHICHISTKESLELIV 230 (411)
T ss_pred CCHHHHHHHHHHHHHHHHHHCCCEEEEeCCCHHHHHHHH
Confidence 478999999999999999988765555555555555543
No 96
>KOG3170 consensus Conserved phosducin-like protein [Signal transduction mechanisms]
Probab=23.96 E-value=1.4e+02 Score=20.66 Aligned_cols=27 Identities=11% Similarity=0.218 Sum_probs=19.9
Q ss_pred hHHHHHHHHH-HHhhcCCcEEEEEecCC
Q 038317 86 EISWMISEIL-EMNNSFQNFRAQHTATI 112 (127)
Q Consensus 86 ~~~~~~~~i~-~l~~~~~~~~~~~i~r~ 112 (127)
+...++..+. .+..+|+.++|..|+.+
T Consensus 124 p~c~Ll~~~l~~la~kfp~iKFVki~at 151 (240)
T KOG3170|consen 124 PLCALLSHHLQSLACKFPQIKFVKIPAT 151 (240)
T ss_pred HHHHHHHHHHHHHhhcCCcceEEecccc
Confidence 4555666555 67779999999998764
No 97
>PF07511 DUF1525: Protein of unknown function (DUF1525); InterPro: IPR011090 This family of proteins is restricted to the Gammaproteobacteria. Members belong to extended genomic regions that appear to be spread by conjugative transfer.
Probab=23.20 E-value=1.3e+02 Score=18.65 Aligned_cols=22 Identities=18% Similarity=0.116 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHcCCceE
Q 038317 43 MAEAAAIKWGMQVALKTGLVSA 64 (127)
Q Consensus 43 ~AE~~Al~~al~~a~~~~~~~v 64 (127)
+.++...+.|+-.|+.+|++++
T Consensus 63 q~~L~~Ayqgv~~Aw~lgi~k~ 84 (114)
T PF07511_consen 63 QQQLAQAYQGVVDAWSLGITKY 84 (114)
T ss_pred HHHHHHHHHHHHHHHHhCcccc
Confidence 5666677778888999988654
No 98
>TIGR01355 cyt_deam_dimer cytidine deaminase, homodimeric. This homodimeric zinc metalloprotein is found in Arabidopis and some Proteobacteria. A related, homotetrameric form with a much smaller subunit is found most bacteria and in animals. Both types may act on deoxycytidine as well as cytidine.
Probab=22.91 E-value=2.4e+02 Score=20.48 Aligned_cols=41 Identities=20% Similarity=0.045 Sum_probs=30.1
Q ss_pred EEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHHH
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQV 55 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~~ 55 (127)
-.|..+...+|.++.+...-.......+-||-.|+..++..
T Consensus 196 ~vgaal~~~~g~i~~G~nvENAay~~slcaer~Ai~~~v~~ 236 (283)
T TIGR01355 196 PSGVALLDKEGKVYRGWYIESAAFNPSLGPVQAALVDFMAN 236 (283)
T ss_pred ceeEEEEeCCCCEEEEEEeecCCCCCcccHHHHHHHHHHHh
Confidence 35677777789988777655555666778999999887754
No 99
>KOG3284 consensus Vacuolar sorting protein VPS28 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.76 E-value=73 Score=21.67 Aligned_cols=37 Identities=16% Similarity=0.209 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHc----CCceEEEEeehHHHHHHHh
Q 038317 42 AMAEAAAIKWGMQVALKT----GLVSALLESDCLEVVQIVN 78 (127)
Q Consensus 42 ~~AE~~Al~~al~~a~~~----~~~~v~i~sDs~~vi~~~~ 78 (127)
+.+|+.|++.+|+...+. .+..-.+.+.|.-++.+.+
T Consensus 26 nlseLyaIi~ale~LEKAyirD~is~sey~s~c~kLi~Q~k 66 (213)
T KOG3284|consen 26 NLSELYAIIKALEQLEKAYIRDCISPSEYTSECSKLIVQYK 66 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHH
Confidence 478999999999988766 3445555666666666554
No 100
>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=22.40 E-value=95 Score=23.92 Aligned_cols=33 Identities=21% Similarity=0.316 Sum_probs=27.0
Q ss_pred eehHHHHHHHhcCCCCcchHHHHHHHHHHHhhc
Q 038317 68 SDCLEVVQIVNNRCSSMVEISWMISEILEMNNS 100 (127)
Q Consensus 68 sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l~~~ 100 (127)
+||..++.++++..+....+..++..+...++.
T Consensus 414 sd~~sl~~~~~~~~~~~~~Y~~L~~~~~~~lD~ 446 (448)
T PF12458_consen 414 SDCLSLARLVNKEDPYAALYEDLIKACTRILDA 446 (448)
T ss_pred HHHHHHHHHhccCCccHHHHHHHHHHHHhhhhc
Confidence 899999999999866666788888888777654
No 101
>KOG3020 consensus TatD-related DNase [Replication, recombination and repair]
Probab=22.36 E-value=43 Score=24.34 Aligned_cols=26 Identities=23% Similarity=0.118 Sum_probs=19.3
Q ss_pred HHHHHHHcCCceEEEEeehHHHHHHH
Q 038317 52 GMQVALKTGLVSALLESDCLEVVQIV 77 (127)
Q Consensus 52 al~~a~~~~~~~v~i~sDs~~vi~~~ 77 (127)
+++..+.....++.+||||....-..
T Consensus 211 ~~~vlr~iP~erlllETDsP~~~pk~ 236 (296)
T KOG3020|consen 211 NLEVLRSIPLERLLLETDSPYCGPKP 236 (296)
T ss_pred hHHHHhhCCHhHeeeccCCccccCCc
Confidence 44555577889999999999766443
No 102
>PF03481 SUA5: Putative GTP-binding controlling metal-binding; InterPro: IPR005145 The function of this domain is unknown, it is found in P32579 from SWISSPROT and its relatives. It is found C-terminal to the IPR006070 from INTERPRO.; PDB: 2EQA_A 3AJE_A 4E1B_A 2YV4_A.
Probab=22.30 E-value=1.9e+02 Score=17.70 Aligned_cols=25 Identities=16% Similarity=0.114 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHcCCceEEEEe
Q 038317 44 AEAAAIKWGMQVALKTGLVSALLES 68 (127)
Q Consensus 44 AE~~Al~~al~~a~~~~~~~v~i~s 68 (127)
.=...|+.+|+.+-+.|+..|.+|.
T Consensus 82 ~~A~~Lf~~LR~~D~~~~~~I~ie~ 106 (125)
T PF03481_consen 82 EAARNLFAALRELDELGVDLILIEG 106 (125)
T ss_dssp HHHHHHHHHHHHHHHTT-SEEEEEE
T ss_pred HHHHHHHHHHHHHhhcCCCEEEEee
Confidence 3456699999999999999999984
No 103
>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed
Probab=22.13 E-value=3.4e+02 Score=20.24 Aligned_cols=66 Identities=14% Similarity=0.098 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHHHHHhhcCCcEEEEEecCCccHHHHHHHHhh
Q 038317 48 AIKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKI 124 (127)
Q Consensus 48 Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a 124 (127)
.+...++.+.+.|+++|.+-+ +..+...++..+.+-++.+...++.+.+.--+-+.+. ...|.+.+
T Consensus 108 EI~~~a~~~~~~Gv~~i~lvg----------Ge~p~~~~~e~l~~~i~~Ik~~~p~i~i~~g~lt~e~-l~~Lk~aG 173 (371)
T PRK09240 108 EIEREMAAIKKLGFEHILLLT----------GEHEAKVGVDYIRRALPIAREYFSSVSIEVQPLSEEE-YAELVELG 173 (371)
T ss_pred HHHHHHHHHHhCCCCEEEEee----------CCCCCCCCHHHHHHHHHHHHHhCCCceeccCCCCHHH-HHHHHHcC
Confidence 344455667788999997743 1112222333344444444445566555433333333 34554443
No 104
>PRK07369 dihydroorotase; Provisional
Probab=22.13 E-value=2.5e+02 Score=21.33 Aligned_cols=39 Identities=18% Similarity=0.221 Sum_probs=30.4
Q ss_pred cHHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHh
Q 038317 40 NVAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVN 78 (127)
Q Consensus 40 ~~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~ 78 (127)
.|..+|..++...+.+|...|.+=.+...-|..-++.+.
T Consensus 207 ~p~~aE~~av~r~~~la~~~~~~~hi~HvSs~~~~~~i~ 245 (418)
T PRK07369 207 DPASAETTALAALLELVAAIGTPVHLMRISTARSVELIA 245 (418)
T ss_pred CCHHHHHHHHHHHHHHHHHHCCcEEEEeCCCHHHHHHHH
Confidence 478999999999999999998765555666666666654
No 105
>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=21.91 E-value=3.4e+02 Score=20.17 Aligned_cols=65 Identities=12% Similarity=0.124 Sum_probs=32.6
Q ss_pred HHHHHHHHHHcCCceEEEEeehHHHHHHHhcCCCCcchHHHHHHHHHHHhhcCCcEEEEEecCCccHHHHHHHHhh
Q 038317 49 IKWGMQVALKTGLVSALLESDCLEVVQIVNNRCSSMVEISWMISEILEMNNSFQNFRAQHTATINNSAAHALRFKI 124 (127)
Q Consensus 49 l~~al~~a~~~~~~~v~i~sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~i~r~~N~~Ad~LA~~a 124 (127)
+...++.+.+.|++++.+-+-- .+...+...+.+-++.+...++.+.+.-.+-+.+. ...|...+
T Consensus 108 I~~~a~~~~~~Gv~~i~lvgGe----------~p~~~~~e~l~eii~~Ik~~~p~i~Iei~~lt~e~-~~~Lk~aG 172 (366)
T TIGR02351 108 IEREIEAIKKSGFKEILLVTGE----------SEKAAGVEYIAEAIKLAREYFSSLAIEVQPLNEEE-YKKLVEAG 172 (366)
T ss_pred HHHHHHHHHhCCCCEEEEeeCC----------CCCCCCHHHHHHHHHHHHHhCCccccccccCCHHH-HHHHHHcC
Confidence 4445566778899999875421 12223334444444444445555554433433333 24444433
No 106
>PF05184 SapB_1: Saposin-like type B, region 1; InterPro: IPR007856 Synonym(s):cerebroside sulphate activator, CSAct Saposin B is a small non-enzymatic glycoprotein required for the breakdown of cerebroside sulphates (sulphatides) in lysosomes. Saposin B contains three intramolecular disulphide bridges, exists as a dimer and is remarkably heat, protease, and pH stable. The crystal structure of human saposin B reveals an unusual shell-like dimer consisting of a monolayer of alpha-helices enclosing a large hydrophobic cavity. Although the secondary structure of saposin B is similar to that of the known monomeric members of the saposin-like superfamily, the helices are repacked into a different tertiary arrangement to form the homodimer. A comparison of the two forms of the saposin B dimer suggests that extraction of target lipids from membranes involves a conformational change that facilitates access to the inner cavity [].; GO: 0006629 lipid metabolic process; PDB: 1N69_C 1QDM_C 4DDJ_A 2DOB_A 1OF9_A 2Z9A_A 1M12_A 2GTG_A 1SN6_A 2QYP_B ....
Probab=21.77 E-value=1.1e+02 Score=14.24 Aligned_cols=31 Identities=13% Similarity=0.020 Sum_probs=14.6
Q ss_pred ehHHHHHHHhcCCCCcchHHHHHHHHHHHhh
Q 038317 69 DCLEVVQIVNNRCSSMVEISWMISEILEMNN 99 (127)
Q Consensus 69 Ds~~vi~~~~~~~~~~~~~~~~~~~i~~l~~ 99 (127)
.|+.++..+.+.-..+..-..+...+....+
T Consensus 6 ~C~~~v~~i~~~l~~~~t~~~I~~~l~~~C~ 36 (39)
T PF05184_consen 6 ICKFVVKEIEKLLKNNKTEEEIKKALEKACN 36 (39)
T ss_dssp HHHHHHHHHHHHHHSTCHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHcCccHHHHHHHHHHHHh
Confidence 3666776666543233333344444444443
No 107
>PRK07627 dihydroorotase; Provisional
Probab=21.71 E-value=2.6e+02 Score=21.27 Aligned_cols=38 Identities=21% Similarity=0.114 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHcCCceEEEEeehHHHHHHHh
Q 038317 41 VAMAEAAAIKWGMQVALKTGLVSALLESDCLEVVQIVN 78 (127)
Q Consensus 41 ~~~AE~~Al~~al~~a~~~~~~~v~i~sDs~~vi~~~~ 78 (127)
|..+|..|+...+.+|...|.+=-++..-|...++.+.
T Consensus 207 P~~aE~~av~r~~~la~~~~~~~hi~HvSs~~~~~~i~ 244 (425)
T PRK07627 207 PVAAETIALHTIFELMRVTGARVHLARLSSAAGVALVR 244 (425)
T ss_pred CHHHHHHHHHHHHHHHHHHCCcEEEEeCCCHHHHHHHH
Confidence 77899999999999999998765555666666666664
No 108
>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=21.62 E-value=2.4e+02 Score=18.19 Aligned_cols=18 Identities=22% Similarity=-0.020 Sum_probs=14.6
Q ss_pred cccHHHHHHHHHHHHHHH
Q 038317 38 FTNVAMAEAAAIKWGMQV 55 (127)
Q Consensus 38 ~~~~~~AE~~Al~~al~~ 55 (127)
-.+...||+.|++.|+-.
T Consensus 83 G~d~~~A~~~Av~DAllq 100 (146)
T PF06754_consen 83 GRDKRHAELAAVIDALLQ 100 (146)
T ss_pred CCCHHHHHHHHHHHHHhC
Confidence 357889999999998844
No 109
>PF14591 AF0941-like: AF0941-like; PDB: 1YOZ_B.
Probab=20.86 E-value=76 Score=19.99 Aligned_cols=32 Identities=13% Similarity=0.107 Sum_probs=22.7
Q ss_pred EEeehHHHHHHHhcCCCCcchHHHHHHHHHHH
Q 038317 66 LESDCLEVVQIVNNRCSSMVEISWMISEILEM 97 (127)
Q Consensus 66 i~sDs~~vi~~~~~~~~~~~~~~~~~~~i~~l 97 (127)
|.+|++.+++.++++.-+..+...++.++...
T Consensus 42 Fr~D~e~Il~~~~~Gdi~eEEA~~ll~eL~~~ 73 (127)
T PF14591_consen 42 FRSDLEDILEDYKSGDIDEEEALQLLDELKSY 73 (127)
T ss_dssp HHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence 78999999999998766655555555555533
No 110
>COG2938 Uncharacterized conserved protein [Function unknown]
Probab=20.68 E-value=1.4e+02 Score=17.77 Aligned_cols=34 Identities=12% Similarity=0.097 Sum_probs=25.0
Q ss_pred EeehHHHHHHHhcCCCCcc-hHHHHHHHHHHHhhc
Q 038317 67 ESDCLEVVQIVNNRCSSMV-EISWMISEILEMNNS 100 (127)
Q Consensus 67 ~sDs~~vi~~~~~~~~~~~-~~~~~~~~i~~l~~~ 100 (127)
+.+-..+.+++.+..+++. ....++..|+.....
T Consensus 57 e~~D~dL~~Wi~g~~~~~~~~~~~mv~~I~~~~~~ 91 (94)
T COG2938 57 ECEDNDLFNWIMGHGEPPDAELTPMVRKIQARRRI 91 (94)
T ss_pred cCCcHHHHHHHhCCCCCCcHHHHHHHHHHHHHhhh
Confidence 4555688899998766554 578899999876653
No 111
>PLN02402 cytidine deaminase
Probab=20.30 E-value=2.9e+02 Score=20.26 Aligned_cols=40 Identities=13% Similarity=0.053 Sum_probs=28.7
Q ss_pred EEEEEEecCCCcEEEEeceeecccccHHHHHHHHHHHHHH
Q 038317 15 GLGVVIRDDKDNCIVAAIISYRIFTNVAMAEAAAIKWGMQ 54 (127)
Q Consensus 15 g~G~vi~~~~g~~~~~~~~~~~~~~~~~~AE~~Al~~al~ 54 (127)
-.|+.+...+|+++.+...-...+...+-||-.|+..++.
T Consensus 214 ~VGaal~~~dG~i~~G~nvENAay~~slcAer~Ai~~~v~ 253 (303)
T PLN02402 214 PSGVALMDCEGKVYRGSYMESAAYNPSMGPVQAALVAYVA 253 (303)
T ss_pred ceeEEEEeCCCCEEEEEEEEcCCCCCcccHHHHHHHHHHH
Confidence 3566777777988877665555555677899998888764
No 112
>PRK05309 30S ribosomal protein S11; Validated
Probab=20.26 E-value=2.4e+02 Score=17.72 Aligned_cols=50 Identities=18% Similarity=0.050 Sum_probs=30.4
Q ss_pred EEecCCCcEEEEeceee-----cccccHHHHHHHHHHHHHHHHHHcCCceEEEEee
Q 038317 19 VIRDDKDNCIVAAIISY-----RIFTNVAMAEAAAIKWGMQVALKTGLVSALLESD 69 (127)
Q Consensus 19 vi~~~~g~~~~~~~~~~-----~~~~~~~~AE~~Al~~al~~a~~~~~~~v~i~sD 69 (127)
.+.|..|..+...+... ..-.++..|+. +.....+.+.++|++.|.|+-=
T Consensus 32 tlTd~~G~~~~~~S~G~~gfKg~rK~T~~Aa~~-aa~~~~~~~~~~gi~~v~v~ik 86 (128)
T PRK05309 32 TITDRQGNVISWASAGGLGFKGSRKSTPYAAQV-AAEDAAKKAKEHGMKTVEVFVK 86 (128)
T ss_pred EEEcCCCCEEEEEecCccEeCCCccCCHHHHHH-HHHHHHHHHHHcCCcEEEEEEE
Confidence 45666777655444321 11235555555 4455677888999999888753
Done!