Query 027994
Match_columns 215
No_of_seqs 215 out of 1377
Neff 8.6
Searched_HMMs 46136
Date Fri Mar 29 04:38:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027994.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027994hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK07708 hypothetical protein; 100.0 2.1E-29 4.5E-34 202.6 17.5 161 35-204 44-211 (219)
2 PRK13907 rnhA ribonuclease H; 100.0 6.5E-28 1.4E-32 179.6 15.5 126 73-201 2-127 (128)
3 COG0328 RnhA Ribonuclease HI [ 100.0 3.4E-27 7.3E-32 178.2 14.7 129 72-202 3-146 (154)
4 PRK07238 bifunctional RNase H/ 99.9 2.1E-25 4.5E-30 193.8 16.7 139 72-210 2-141 (372)
5 PRK06548 ribonuclease H; Provi 99.9 5.6E-23 1.2E-27 157.7 12.9 125 71-202 4-143 (161)
6 PRK08719 ribonuclease H; Revie 99.9 1.1E-22 2.5E-27 154.4 14.5 124 72-200 4-146 (147)
7 PRK00203 rnhA ribonuclease H; 99.9 1E-22 2.3E-27 155.5 12.8 129 72-205 3-146 (150)
8 cd06222 RnaseH RNase H (RNase 99.9 3E-21 6.4E-26 140.8 15.5 126 74-199 1-130 (130)
9 PF00075 RNase_H: RNase H; In 99.8 2.2E-20 4.8E-25 139.0 10.8 120 72-200 3-132 (132)
10 PF13456 RVT_3: Reverse transc 99.8 2.9E-18 6.2E-23 118.4 8.8 86 114-200 1-86 (87)
11 KOG3752 Ribonuclease H [Replic 99.7 9.8E-16 2.1E-20 129.1 12.1 129 71-202 211-366 (371)
12 KOG1812 Predicted E3 ubiquitin 96.6 0.0047 1E-07 54.1 5.8 116 86-201 17-138 (384)
13 PF05380 Peptidase_A17: Pao re 86.5 6.8 0.00015 29.8 8.4 57 71-131 80-143 (159)
14 COG3341 Predicted double-stran 82.9 5.7 0.00012 32.0 6.6 129 21-152 15-151 (225)
15 cd01284 Riboflavin_deaminase-r 70.8 16 0.00036 26.3 5.7 49 88-142 19-67 (115)
16 cd01285 nucleoside_deaminase N 68.3 22 0.00049 25.0 5.9 60 87-146 16-77 (109)
17 COG0590 CumB Cytosine/adenosin 66.6 19 0.0004 27.4 5.5 62 87-148 27-90 (152)
18 COG0295 Cdd Cytidine deaminase 64.9 27 0.00058 26.0 5.8 56 87-143 25-81 (134)
19 PF00336 DNA_pol_viral_C: DNA 64.6 33 0.00071 27.6 6.5 94 71-189 93-186 (245)
20 TIGR01354 cyt_deam_tetra cytid 61.8 31 0.00068 25.2 5.8 56 87-143 20-76 (127)
21 PRK14828 undecaprenyl pyrophos 60.0 26 0.00057 29.1 5.6 31 113-143 51-81 (256)
22 PRK14840 undecaprenyl pyrophos 55.1 31 0.00067 28.6 5.2 34 110-143 43-76 (250)
23 TIGR00055 uppS undecaprenyl di 54.8 35 0.00075 27.8 5.4 49 93-143 5-53 (226)
24 PRK14827 undecaprenyl pyrophos 53.8 32 0.0007 29.2 5.2 53 88-143 69-121 (296)
25 PRK14841 undecaprenyl pyrophos 53.2 40 0.00086 27.6 5.5 46 96-143 12-57 (233)
26 PRK14834 undecaprenyl pyrophos 52.9 50 0.0011 27.3 6.1 34 110-143 35-68 (249)
27 PRK14835 undecaprenyl pyrophos 51.2 53 0.0011 27.6 6.1 33 111-143 63-95 (275)
28 PRK14837 undecaprenyl pyrophos 51.0 46 0.001 27.2 5.5 51 90-143 10-60 (230)
29 PF00383 dCMP_cyt_deam_1: Cyti 50.8 36 0.00078 23.3 4.4 55 86-141 22-78 (102)
30 cd00475 CIS_IPPS Cis (Z)-Isopr 49.9 44 0.00094 27.1 5.2 48 94-143 7-54 (221)
31 PRK10860 tRNA-specific adenosi 47.4 60 0.0013 25.2 5.5 55 88-143 33-89 (172)
32 PRK14839 undecaprenyl pyrophos 46.0 43 0.00094 27.5 4.7 53 88-143 11-63 (239)
33 PRK14842 undecaprenyl pyrophos 44.9 59 0.0013 26.7 5.3 52 89-143 11-62 (241)
34 PF11208 DUF2992: Protein of u 44.6 64 0.0014 23.9 5.0 43 73-124 1-43 (132)
35 PRK14838 undecaprenyl pyrophos 43.1 67 0.0015 26.4 5.4 34 110-143 31-64 (242)
36 PRK15000 peroxidase; Provision 42.7 75 0.0016 25.1 5.5 45 88-133 124-168 (200)
37 PRK13191 putative peroxiredoxi 42.5 68 0.0015 25.7 5.3 43 90-133 125-167 (215)
38 PTZ00349 dehydrodolichyl dipho 42.3 69 0.0015 27.6 5.5 34 110-143 40-73 (322)
39 PHA03372 DNA packaging termina 42.2 1.9E+02 0.0041 27.5 8.5 77 67-143 449-534 (668)
40 PRK14833 undecaprenyl pyrophos 40.6 89 0.0019 25.6 5.7 51 90-143 8-58 (233)
41 COG0450 AhpC Peroxiredoxin [Po 39.7 1.6E+02 0.0034 23.5 6.7 47 86-133 121-167 (194)
42 PRK14836 undecaprenyl pyrophos 39.7 58 0.0013 27.0 4.6 32 110-141 35-66 (253)
43 PRK14829 undecaprenyl pyrophos 39.2 79 0.0017 26.0 5.3 53 88-143 16-68 (243)
44 PRK14832 undecaprenyl pyrophos 38.7 78 0.0017 26.3 5.2 52 89-143 21-72 (253)
45 PRK05578 cytidine deaminase; V 37.7 1.4E+02 0.0031 21.9 6.0 56 88-144 24-80 (131)
46 PRK10382 alkyl hydroperoxide r 37.0 1.6E+02 0.0035 23.0 6.6 42 90-132 120-161 (187)
47 PRK12411 cytidine deaminase; P 36.6 1.5E+02 0.0032 21.9 6.0 56 87-143 23-79 (132)
48 PRK06848 hypothetical protein; 35.1 1.7E+02 0.0037 21.8 6.1 55 88-143 27-82 (139)
49 PF05830 NodZ: Nodulation prot 34.8 77 0.0017 27.1 4.6 64 86-152 166-232 (321)
50 PTZ00137 2-Cys peroxiredoxin; 34.4 98 0.0021 25.7 5.2 43 90-133 189-231 (261)
51 TIGR03757 conj_TIGR03757 integ 34.2 24 0.00052 25.5 1.3 76 72-147 3-96 (113)
52 PF07511 DUF1525: Protein of u 32.9 24 0.00053 25.5 1.2 65 72-137 3-84 (114)
53 PRK14831 undecaprenyl pyrophos 32.8 89 0.0019 25.8 4.6 34 110-143 41-74 (249)
54 TIGR02571 ComEB ComE operon pr 32.7 2.2E+02 0.0047 21.5 6.5 13 115-127 68-80 (151)
55 PRK14830 undecaprenyl pyrophos 32.6 2.9E+02 0.0062 22.9 7.9 33 111-143 44-76 (251)
56 cd01283 cytidine_deaminase Cyt 31.0 1.9E+02 0.004 20.2 5.7 42 86-127 16-58 (112)
57 PRK13190 putative peroxiredoxi 30.3 1.5E+02 0.0033 23.2 5.5 44 89-133 117-160 (202)
58 PHA03368 DNA packaging termina 29.8 5.2E+02 0.011 25.0 11.2 75 69-143 504-588 (738)
59 COG3981 Predicted acetyltransf 29.3 79 0.0017 24.6 3.5 29 119-147 116-144 (174)
60 cd03016 PRX_1cys Peroxiredoxin 29.1 1.7E+02 0.0038 22.9 5.6 42 91-133 119-160 (203)
61 PRK10057 rpsV 30S ribosomal su 29.0 6.2 0.00014 22.7 -1.9 28 124-152 11-38 (44)
62 cd00786 cytidine_deaminase-lik 27.1 2.1E+02 0.0045 19.5 6.0 53 87-142 17-72 (96)
63 PRK08298 cytidine deaminase; V 26.0 2E+02 0.0044 21.3 5.1 54 89-143 24-78 (136)
64 PF01614 IclR: Bacterial trans 25.5 2.5E+02 0.0053 19.8 7.6 36 75-112 69-104 (129)
65 COG0020 UppS Undecaprenyl pyro 25.5 2E+02 0.0044 23.7 5.5 35 110-144 37-71 (245)
66 KOG1602 Cis-prenyltransferase 22.6 1.9E+02 0.0042 24.1 4.7 36 108-143 55-90 (271)
67 PRK13189 peroxiredoxin; Provis 22.5 2.5E+02 0.0054 22.5 5.5 42 91-133 128-169 (222)
68 PRK13599 putative peroxiredoxi 22.4 2.5E+02 0.0054 22.4 5.4 43 90-133 120-162 (215)
69 TIGR03137 AhpC peroxiredoxin. 21.1 2.9E+02 0.0063 21.3 5.5 41 91-132 121-161 (187)
70 cd01286 deoxycytidylate_deamin 20.6 3.1E+02 0.0067 20.0 5.2 27 114-142 68-94 (131)
No 1
>PRK07708 hypothetical protein; Validated
Probab=99.97 E-value=2.1e-29 Score=202.64 Aligned_cols=161 Identities=24% Similarity=0.289 Sum_probs=138.2
Q ss_pred chhhhccCCCccChHHHHhhc-cCCCCCCCCCCCCCCCeEEEEEcccccCCCCceEEEEEEEeCCCcEEEEe--eeccC-
Q 027994 35 ENYVAAAGSTSFSINTQRSHL-NADSCLNTQSVPYNCYSCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRL--REGVG- 110 (215)
Q Consensus 35 ~~~~~~~~~~~w~~~~~~~~~-~~~~~~~~~~~~~~~~~~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~--~~~~~- 110 (215)
+-.|...-...|++++++++. +++++|+ .+++|||||++++++.+|+|+|++++.|...... ...++
T Consensus 44 ~~~~~d~~~~~~~~k~~~~~~~~~~~ep~---------~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~ 114 (219)
T PRK07708 44 ELEFYDEMDTEWSLKELKKLSKEVEEEPH---------EILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEG 114 (219)
T ss_pred eEEEecCCCCEeeHHHHhhhhhhhccCCC---------cEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccc
Confidence 334555566789999999999 6666665 6999999999999999999999998877544322 23443
Q ss_pred cccchHHhHHHHHHHHHHHHHcCCee--EEEEeChHHHHHHHhcccccCChhHHHHHHHHHHHHhcCCc-eEEEEeCCCC
Q 027994 111 IATNNVAEYRALILGLKYALQKGYKH--IRVQGDSKLVCMQIQGLWKINNQNLAGLCKEAKELKEKFQS-FQINHILRNL 187 (215)
Q Consensus 111 ~~tn~~AEl~Ai~~aL~~a~~~g~~~--v~I~tDS~~vi~~i~~~~~~~~~~~~~l~~~i~~l~~~~~~-~~~~hv~r~~ 187 (215)
..|||.||+.|++.||+.|.++|+++ |.|++||++|++++++.|+++++.+..+++.+..+..+|.. +.+.||+|.+
T Consensus 115 ~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~DSqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~~ 194 (219)
T PRK07708 115 IYDNNEAEYAALYYAMQELEELGVKHEPVTFRGDSQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRKQ 194 (219)
T ss_pred cccCcHHHHHHHHHHHHHHHHcCCCcceEEEEeccHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCchh
Confidence 58999999999999999999999876 89999999999999999999999999999999999888764 7889999999
Q ss_pred CHHHHHHHHHhhcccCC
Q 027994 188 NSEADAQANMGIYLKDG 204 (215)
Q Consensus 188 N~~AD~LAk~a~~~~~~ 204 (215)
|+.||.||++|++..+.
T Consensus 195 N~~AD~LAk~Al~~~~~ 211 (219)
T PRK07708 195 NKEADQLATQALEGTVI 211 (219)
T ss_pred hhHHHHHHHHHHhcCCC
Confidence 99999999999986543
No 2
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.96 E-value=6.5e-28 Score=179.57 Aligned_cols=126 Identities=34% Similarity=0.487 Sum_probs=114.1
Q ss_pred EEEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHHhc
Q 027994 73 CTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQG 152 (215)
Q Consensus 73 ~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i~~ 152 (215)
++||||||++++++.+|+|+|+++..+... .+...+..||+.||+.|++.||+++.+.|+++|.|+|||++|++++++
T Consensus 2 ~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~--~~~~~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~ 79 (128)
T PRK13907 2 IEVYIDGASKGNPGPSGAGVFIKGVQPAVQ--LSLPLGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEK 79 (128)
T ss_pred EEEEEeeCCCCCCCccEEEEEEEECCeeEE--EEecccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhH
Confidence 689999999999999999999999887644 333456789999999999999999999999999999999999999999
Q ss_pred ccccCChhHHHHHHHHHHHHhcCCceEEEEeCCCCCHHHHHHHHHhhcc
Q 027994 153 LWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNSEADAQANMGIYL 201 (215)
Q Consensus 153 ~~~~~~~~~~~l~~~i~~l~~~~~~~~~~hv~r~~N~~AD~LAk~a~~~ 201 (215)
.|. ++..+..++++++.+...|..+.+.|++|++|+.||.||+.|+..
T Consensus 80 ~~~-~~~~~~~l~~~~~~l~~~f~~~~~~~v~r~~N~~Ad~LA~~a~~~ 127 (128)
T PRK13907 80 EYA-KNKMFAPLLEEALQYIKSFDLFFIKWIPSSQNKVADELARKAILQ 127 (128)
T ss_pred HHh-cChhHHHHHHHHHHHHhcCCceEEEEcCchhchhHHHHHHHHHhc
Confidence 885 445789999999999999999999999999999999999999854
No 3
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.95 E-value=3.4e-27 Score=178.20 Aligned_cols=129 Identities=35% Similarity=0.387 Sum_probs=112.3
Q ss_pred eEEEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHHh
Q 027994 72 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQ 151 (215)
Q Consensus 72 ~~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i~ 151 (215)
.+.|||||+|.+|+|++|+|+|++..++.. ..+.....+|||+|||+|++.||+.+.+.+...|.|+|||+||++.|+
T Consensus 3 ~v~if~DGa~~gNpG~gG~g~vl~~~~~~~--~~s~~~~~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~ 80 (154)
T COG0328 3 KVEIFTDGACLGNPGPGGWGAVLRYGDGEK--ELSGGEGRTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGIT 80 (154)
T ss_pred ceEEEecCccCCCCCCceEEEEEEcCCceE--EEeeeeecccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHH
Confidence 589999999999999999999999776654 455666689999999999999999999999999999999999999999
Q ss_pred c---ccccCCh--------hHHHHHHHHHHHHhcCCceEEEEeC----CCCCHHHHHHHHHhhccc
Q 027994 152 G---LWKINNQ--------NLAGLCKEAKELKEKFQSFQINHIL----RNLNSEADAQANMGIYLK 202 (215)
Q Consensus 152 ~---~~~~~~~--------~~~~l~~~i~~l~~~~~~~~~~hv~----r~~N~~AD~LAk~a~~~~ 202 (215)
. .|+.+.| ++.++|+++..+...+..+.+.||+ ++.|+.||.||+.++..+
T Consensus 81 ~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~ 146 (154)
T COG0328 81 RWIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAARAA 146 (154)
T ss_pred HHHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence 2 3444443 3678999999999998777777776 999999999999998876
No 4
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.93 E-value=2.1e-25 Score=193.79 Aligned_cols=139 Identities=40% Similarity=0.550 Sum_probs=126.7
Q ss_pred eEEEEEcccccCCCCceEEEEEEEeCCCc-EEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHH
Q 027994 72 SCTLEFDGASKGNPGQAGAGAVLRAEDGS-VVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQI 150 (215)
Q Consensus 72 ~~~i~tDGS~~~~~~~~G~G~v~~~~~g~-~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i 150 (215)
.+.||||||++++++.+|+|++++++++. .+...+..++..|||.||+.|++.||+++.+.|.++|.|++||++|++++
T Consensus 2 ~~~i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~~~tnn~AE~~All~gL~~a~~~g~~~v~i~~DS~lvi~~i 81 (372)
T PRK07238 2 KVVVEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIGRATNNVAEYRGLIAGLEAAAELGATEVEVRMDSKLVVEQM 81 (372)
T ss_pred eEEEEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccCCCCchHHHHHHHHHHHHHHHhCCCCeEEEEeCcHHHHHHh
Confidence 47899999999999999999999998754 55667777788999999999999999999999999999999999999999
Q ss_pred hcccccCChhHHHHHHHHHHHHhcCCceEEEEeCCCCCHHHHHHHHHhhcccCCceeecc
Q 027994 151 QGLWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNSEADAQANMGIYLKDGQVEAEC 210 (215)
Q Consensus 151 ~~~~~~~~~~~~~l~~~i~~l~~~~~~~~~~hv~r~~N~~AD~LAk~a~~~~~~~~~~~~ 210 (215)
++.|+.++..+..++.+++.+...|..+.+.|++|++|+.||.||+.|+......++-.+
T Consensus 82 ~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r~~N~~AD~LA~~a~~~~~~~~~~~~ 141 (372)
T PRK07238 82 SGRWKVKHPDMKPLAAQARELASQFGRVTYTWIPRARNAHADRLANEAMDAAAGGEPWGP 141 (372)
T ss_pred CCCCccCChHHHHHHHHHHHHHhcCCceEEEECCchhhhHHHHHHHHHHHhhccCCCccc
Confidence 999999998999999999999999999999999999999999999999987765555443
No 5
>PRK06548 ribonuclease H; Provisional
Probab=99.90 E-value=5.6e-23 Score=157.65 Aligned_cols=125 Identities=26% Similarity=0.226 Sum_probs=99.5
Q ss_pred CeEEEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHH
Q 027994 71 YSCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQI 150 (215)
Q Consensus 71 ~~~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i 150 (215)
..+.|||||+|.+|++++|+|+++.+. + ..+...+..|||+|||.|++.||+.+. ....+|.|+|||+||++.+
T Consensus 4 ~~~~IytDGa~~gnpg~~G~g~~~~~~-~----~~~g~~~~~TNnraEl~Aii~aL~~~~-~~~~~v~I~TDS~yvi~~i 77 (161)
T PRK06548 4 NEIIAATDGSSLANPGPSGWAWYVDEN-T----WDSGGWDIATNNIAELTAVRELLIATR-HTDRPILILSDSKYVINSL 77 (161)
T ss_pred CEEEEEEeeccCCCCCceEEEEEEeCC-c----EEccCCCCCCHHHHHHHHHHHHHHhhh-cCCceEEEEeChHHHHHHH
Confidence 359999999999999999999998642 1 123445678999999999999998543 4446899999999999999
Q ss_pred hc---ccccCCh--------hHHHHHHHHHHHHhcCCceEEEE----eCCCCCHHHHHHHHHhhccc
Q 027994 151 QG---LWKINNQ--------NLAGLCKEAKELKEKFQSFQINH----ILRNLNSEADAQANMGIYLK 202 (215)
Q Consensus 151 ~~---~~~~~~~--------~~~~l~~~i~~l~~~~~~~~~~h----v~r~~N~~AD~LAk~a~~~~ 202 (215)
++ .|+.+++ .++++|+++..++... .++|.| .+..+|+.||.||++++...
T Consensus 78 ~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~~-~v~~~wVkgHsg~~gNe~aD~LA~~aa~~~ 143 (161)
T PRK06548 78 TKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMENR-NIRMSWVNAHTGHPLNEAADSLARQAANNF 143 (161)
T ss_pred HHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhcC-ceEEEEEecCCCCHHHHHHHHHHHHHHHHh
Confidence 96 4444433 3789999999998774 466655 56788999999999998644
No 6
>PRK08719 ribonuclease H; Reviewed
Probab=99.90 E-value=1.1e-22 Score=154.42 Aligned_cols=124 Identities=24% Similarity=0.312 Sum_probs=99.8
Q ss_pred eEEEEEcccccCCCC---ceEEEEEEEeCCCcEEEEeeecc-CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHH
Q 027994 72 SCTLEFDGASKGNPG---QAGAGAVLRAEDGSVVYRLREGV-GIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVC 147 (215)
Q Consensus 72 ~~~i~tDGS~~~~~~---~~G~G~v~~~~~g~~~~~~~~~~-~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi 147 (215)
.++|||||||.++++ .+|+|+++.++++......+..+ +..|||+|||.|++.||+.+.+. ..|+|||++|+
T Consensus 4 ~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~----~~i~tDS~yvi 79 (147)
T PRK08719 4 SYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDG----DVIYSDSDYCV 79 (147)
T ss_pred eEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCC----CEEEechHHHH
Confidence 689999999988776 68999999998877654444444 35799999999999999987754 37999999999
Q ss_pred HHHh--------cccccCCh---hHHHHHHHHHHHHhcCCceEEEEeCC----CCCHHHHHHHHHhhc
Q 027994 148 MQIQ--------GLWKINNQ---NLAGLCKEAKELKEKFQSFQINHILR----NLNSEADAQANMGIY 200 (215)
Q Consensus 148 ~~i~--------~~~~~~~~---~~~~l~~~i~~l~~~~~~~~~~hv~r----~~N~~AD~LAk~a~~ 200 (215)
+.++ +.|+.... .+.++++.+..+... ..+.|.||+. .+|+.||.||+.|+.
T Consensus 80 ~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~~-~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~ 146 (147)
T PRK08719 80 RGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRAR-KYVEVEKVTAHSGIEGNEAADMLAQAAAE 146 (147)
T ss_pred HHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhCC-CcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence 9995 45554433 357889999888774 5688888776 889999999999875
No 7
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.89 E-value=1e-22 Score=155.53 Aligned_cols=129 Identities=26% Similarity=0.285 Sum_probs=103.1
Q ss_pred eEEEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHHh
Q 027994 72 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQ 151 (215)
Q Consensus 72 ~~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i~ 151 (215)
.+.|||||||.++++.+|+|+|+...+.. ..+....+..||++|||.|++.||+.+.+ ...+.|+|||+++++.++
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~~--~~~~~~~~~~TN~~aEL~Ai~~AL~~~~~--~~~v~I~tDS~yvi~~i~ 78 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILRYKGHE--KELSGGEALTTNNRMELMAAIEALEALKE--PCEVTLYTDSQYVRQGIT 78 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEEECCee--EEEecCCCCCcHHHHHHHHHHHHHHHcCC--CCeEEEEECHHHHHHHHH
Confidence 48999999999999999999999875543 23444556789999999999999997754 257999999999999988
Q ss_pred c---ccccCCh--------hHHHHHHHHHHHHhcCCceEEEEeC----CCCCHHHHHHHHHhhcccCCc
Q 027994 152 G---LWKINNQ--------NLAGLCKEAKELKEKFQSFQINHIL----RNLNSEADAQANMGIYLKDGQ 205 (215)
Q Consensus 152 ~---~~~~~~~--------~~~~l~~~i~~l~~~~~~~~~~hv~----r~~N~~AD~LAk~a~~~~~~~ 205 (215)
+ .|+.+++ .+.++++++.+++.. ..+.|.||+ +++|+.||+||+.|+..+..+
T Consensus 79 ~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~-~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~~~~ 146 (150)
T PRK00203 79 EWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKR-HQIKWHWVKGHAGHPENERCDELARAGAEEATLE 146 (150)
T ss_pred HHHHHHHHcCCcccCCCccccHHHHHHHHHHhcc-CceEEEEecCCCCCHHHHHHHHHHHHHHHHhhhc
Confidence 6 4554443 256789999888766 457777776 888999999999998766543
No 8
>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=99.88 E-value=3e-21 Score=140.81 Aligned_cols=126 Identities=33% Similarity=0.400 Sum_probs=112.0
Q ss_pred EEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHHhcc
Q 027994 74 TLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGL 153 (215)
Q Consensus 74 ~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i~~~ 153 (215)
++|||||+..+.+.+|+|++++++++.............+++.+|+.|++.||+++...+.+++.|++||+.++..+++.
T Consensus 1 ~~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~~~s~~~aEl~al~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~~ 80 (130)
T cd06222 1 VIYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLGGNTTNNRAELLALIEALELALELGGKKVNIYTDSQYVINALTGW 80 (130)
T ss_pred CEEecccCCCCCCceEEEEEEEeCCCeEEEeccccCCCCcHHHHHHHHHHHHHHHHHhCCCceEEEEECHHHHHHHhhcc
Confidence 48999999877788999999999988766555444467899999999999999999999999999999999999999987
Q ss_pred cccCChhHHHHHHHHHHHHhcCCceEEEEeCC----CCCHHHHHHHHHhh
Q 027994 154 WKINNQNLAGLCKEAKELKEKFQSFQINHILR----NLNSEADAQANMGI 199 (215)
Q Consensus 154 ~~~~~~~~~~l~~~i~~l~~~~~~~~~~hv~r----~~N~~AD~LAk~a~ 199 (215)
.......+..++..+..+...+..+.+.|+++ ..|..||.||+.++
T Consensus 81 ~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 81 YEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred ccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 66566788899999999988888999999999 99999999999874
No 9
>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=99.84 E-value=2.2e-20 Score=139.05 Aligned_cols=120 Identities=28% Similarity=0.323 Sum_probs=92.1
Q ss_pred eEEEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHHh
Q 027994 72 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQ 151 (215)
Q Consensus 72 ~~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i~ 151 (215)
.+.||||||+..+++.+|+|+++ ..+ . ..+..++..|++.|||.|++.||+ +. .. ++++|+|||++++..++
T Consensus 3 ~~~iytDgS~~~~~~~~~~g~v~-~~~-~---~~~~~~~~~s~~~aEl~Ai~~AL~-~~-~~-~~v~I~tDS~~v~~~l~ 74 (132)
T PF00075_consen 3 AIIIYTDGSCRPNPGKGGAGYVV-WGG-R---NFSFRLGGQSNNRAELQAIIEALK-AL-EH-RKVTIYTDSQYVLNALN 74 (132)
T ss_dssp SEEEEEEEEECTTTTEEEEEEEE-ETT-E---EEEEEEESECHHHHHHHHHHHHHH-TH-ST-SEEEEEES-HHHHHHHH
T ss_pred cEEEEEeCCccCCCCceEEEEEE-ECC-e---EEEecccccchhhhheehHHHHHH-Hh-hc-ccccccccHHHHHHHHH
Confidence 58999999999888889999966 433 2 344444588999999999999999 55 33 89999999999999888
Q ss_pred c-----ccccCChhHHHHHHHHHHHHhcCCceEEEEeCCC-----CCHHHHHHHHHhhc
Q 027994 152 G-----LWKINNQNLAGLCKEAKELKEKFQSFQINHILRN-----LNSEADAQANMGIY 200 (215)
Q Consensus 152 ~-----~~~~~~~~~~~l~~~i~~l~~~~~~~~~~hv~r~-----~N~~AD~LAk~a~~ 200 (215)
. .|+... ....++.++.+++.....+.|.||+.+ +|+.||+||+.|+.
T Consensus 75 ~~~~~~~~~~~~-~~~~i~~~i~~~~~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~~ 132 (132)
T PF00075_consen 75 KWLHGNGWKKTS-NGRPIKNEIWELLSRGIKVRFRWVPGHSGVPQGNERADRLAKEAAQ 132 (132)
T ss_dssp THHHHTTSBSCT-SSSBHTHHHHHHHHHSSEEEEEESSSSSSSHHHHHHHHHHHHHHHH
T ss_pred Hhcccccccccc-ccccchhheeeccccceEEeeeeccCcCCCchhHHHHHHHHHHhcC
Confidence 7 554332 222355566666666778999999866 78899999999873
No 10
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.76 E-value=2.9e-18 Score=118.38 Aligned_cols=86 Identities=31% Similarity=0.390 Sum_probs=75.4
Q ss_pred chHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHHhcccccCChhHHHHHHHHHHHHhcCCceEEEEeCCCCCHHHHH
Q 027994 114 NNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGLWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNSEADA 193 (215)
Q Consensus 114 n~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i~~~~~~~~~~~~~l~~~i~~l~~~~~~~~~~hv~r~~N~~AD~ 193 (215)
++.||+.|++.||++|.++|+++++|+|||+.+++.+++.+.... .+..++.+|+.+.+.|..+.+.|++|+.|..||.
T Consensus 1 ~~~aE~~al~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~-~~~~~~~~i~~~~~~~~~~~~~~i~r~~N~~A~~ 79 (87)
T PF13456_consen 1 PLEAEALALLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRS-ELRPLIQDIRSLLDRFWNVSVSHIPREQNKVADA 79 (87)
T ss_dssp HHHHHHHHHHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---S-CCHHHHHHHHHHHCCCSCEEEEE--GGGSHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHCCCCEEEEEecCccccccccccccccc-cccccchhhhhhhccccceEEEEEChHHhHHHHH
Confidence 468999999999999999999999999999999999999877777 8889999999999999999999999999999999
Q ss_pred HHHHhhc
Q 027994 194 QANMGIY 200 (215)
Q Consensus 194 LAk~a~~ 200 (215)
||+.|++
T Consensus 80 LA~~a~~ 86 (87)
T PF13456_consen 80 LAKFALS 86 (87)
T ss_dssp HHHHHHH
T ss_pred HHHHHhh
Confidence 9999874
No 11
>KOG3752 consensus Ribonuclease H [Replication, recombination and repair]
Probab=99.66 E-value=9.8e-16 Score=129.13 Aligned_cols=129 Identities=28% Similarity=0.241 Sum_probs=97.8
Q ss_pred CeEEEEEcccccCCCC---ceEEEEEEEeCCCcEEEEeeecc--CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHH
Q 027994 71 YSCTLEFDGASKGNPG---QAGAGAVLRAEDGSVVYRLREGV--GIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKL 145 (215)
Q Consensus 71 ~~~~i~tDGS~~~~~~---~~G~G~v~~~~~g~~~~~~~~~~--~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~ 145 (215)
+...|||||||.+|+. .+|||+.+.+.+... .++++ +..|||+|||.|+.+||+.|++.++.+|+|.|||++
T Consensus 211 ~~~vvytDGS~~~ng~~~~~AGyGvywg~~~e~N---~s~pv~~g~qtNnrAEl~Av~~ALkka~~~~~~kv~I~TDS~~ 287 (371)
T KOG3752|consen 211 EIQVVYTDGSSSGNGRKSSRAGYGVYWGPGHELN---VSGPLAGGRQTNNRAELIAAIEALKKARSKNINKVVIRTDSEY 287 (371)
T ss_pred cceEEEecCccccCCCCCCcceeEEeeCCCCccc---ccccCCCCcccccHHHHHHHHHHHHHHHhcCCCcEEEEechHH
Confidence 4589999999998663 478888776544322 23333 578999999999999999999999999999999999
Q ss_pred HHHHHhc---ccccCCh-------------hHHHHHHHHHHHHhcC--CceEEEEe----CCCCCHHHHHHHHHhhccc
Q 027994 146 VCMQIQG---LWKINNQ-------------NLAGLCKEAKELKEKF--QSFQINHI----LRNLNSEADAQANMGIYLK 202 (215)
Q Consensus 146 vi~~i~~---~~~~~~~-------------~~~~l~~~i~~l~~~~--~~~~~~hv----~r~~N~~AD~LAk~a~~~~ 202 (215)
++++++. .|+.+.+ .....+.++.++.+.. ..+.+.|| +..+|++||.||+.+..+.
T Consensus 288 ~i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~~~ 366 (371)
T KOG3752|consen 288 FINSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADALARKGSTLA 366 (371)
T ss_pred HHHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHHHhhhhhhh
Confidence 9999885 4443332 2445666777776663 45677666 4788999999999986544
No 12
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.58 E-value=0.0047 Score=54.14 Aligned_cols=116 Identities=24% Similarity=0.237 Sum_probs=84.4
Q ss_pred CceEEEEEEEeC-CCcEEEEeeeccC---cccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHHhcccccCCh-h
Q 027994 86 GQAGAGAVLRAE-DGSVVYRLREGVG---IATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGLWKINNQ-N 160 (215)
Q Consensus 86 ~~~G~G~v~~~~-~g~~~~~~~~~~~---~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i~~~~~~~~~-~ 160 (215)
..+|.|+++.+. +....+....... ..+...||+.|+..+|..+.++++.++.+++|+..+...+.+..+.... .
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 357888888885 4333332323332 3678899999999999999999999999999988888877776555553 5
Q ss_pred HHHHHHHHHHHHhcCCceEEEEeCCC-CCHHHHHHHHHhhcc
Q 027994 161 LAGLCKEAKELKEKFQSFQINHILRN-LNSEADAQANMGIYL 201 (215)
Q Consensus 161 ~~~l~~~i~~l~~~~~~~~~~hv~r~-~N~~AD~LAk~a~~~ 201 (215)
+..+..++......+.......+++. ....|-.||+++...
T Consensus 97 ~~~l~~~v~~~r~~l~~~~~i~~~~~~d~~~~~~lA~e~i~s 138 (384)
T KOG1812|consen 97 IVLLVELVQRIREQLTSSEPILVPKNADIKFAYKLAREAIVS 138 (384)
T ss_pred HHHHHHHHHHHHHHhhcccceecccchhhHHHHHHHHHhhcc
Confidence 77788888777777655444555443 445688999999875
No 13
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=86.50 E-value=6.8 Score=29.81 Aligned_cols=57 Identities=30% Similarity=0.277 Sum_probs=34.7
Q ss_pred CeEEEEEcccccCCCCceEEEEEEEe-CCCcEEEEe--ee--ccC--cccchHHhHHHHHHHHHHHHH
Q 027994 71 YSCTLEFDGASKGNPGQAGAGAVLRA-EDGSVVYRL--RE--GVG--IATNNVAEYRALILGLKYALQ 131 (215)
Q Consensus 71 ~~~~i~tDGS~~~~~~~~G~G~v~~~-~~g~~~~~~--~~--~~~--~~tn~~AEl~Ai~~aL~~a~~ 131 (215)
..+.+|+|+|-. ..|+.+.++. .++.....+ ++ --+ ..|.-+.|+.|++.|.+++..
T Consensus 80 ~~L~~F~DAS~~----aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~ 143 (159)
T PF05380_consen 80 VELHVFCDASES----AYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANT 143 (159)
T ss_pred eeeeEeeccccc----ceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 368999999843 2344444454 333322222 11 112 347789999999999998764
No 14
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=82.93 E-value=5.7 Score=31.96 Aligned_cols=129 Identities=12% Similarity=0.079 Sum_probs=80.5
Q ss_pred cccccccc-ccccccchhhhccCCCccChHHHHhhccCCCCCCCCCCCCCCCeEEEEEcccccCCCCceEEEEEEEeC--
Q 027994 21 HFNEDNCW-NTQSVPENYVAAAGSTSFSINTQRSHLNADSCLNTQSVPYNCYSCTLEFDGASKGNPGQAGAGAVLRAE-- 97 (215)
Q Consensus 21 ~~~~~~~~-~~~~~~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~tDGS~~~~~~~~G~G~v~~~~-- 97 (215)
.++==.+| -.....+++..+-....=+.++++.+++-+.+ .-.|.++-..+.-+.+|++...|+..+.-...+-.
T Consensus 15 ~tGIyktW~Ec~~qVkGy~ga~YKsf~s~EeA~a~~~g~i~--~~tp~~~~e~~i~~~~G~y~~~p~t~~~k~yr~k~~~ 92 (225)
T COG3341 15 KTGIYKTWDECEKQVKGYPGAKYKSFKSYEEAEAYCEGNIE--SVTPYLDFEYIISWAKGDYDAKPGTQEFKEYRGKCTI 92 (225)
T ss_pred ccceeccHHHHHHHhcCCCcccccccccHHHHHHHhccCcc--ccCcccchhccceeccCCccccCCCcceeEEeccccc
Confidence 33333456 33444556666666666668888888854222 23345555677888899887655433332222111
Q ss_pred CCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEE-E----eChHHHHHHHhc
Q 027994 98 DGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRV-Q----GDSKLVCMQIQG 152 (215)
Q Consensus 98 ~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I-~----tDS~~vi~~i~~ 152 (215)
...++. .....+..+|..+|.+|.+.+|+.+...+-++.+| + .||+.-++.+.+
T Consensus 93 ~~~~lt-~~~~~~~~~n~s~d~la~ly~~~~~~~~~nrk~~i~y~~~~~ds~a~~k~~k~ 151 (225)
T COG3341 93 EYSWLT-ESSEFSIKSNDSGDVLAKLYGLRYEVPLDNRKSVINYLTPGNDSWAYFKYVKD 151 (225)
T ss_pred cceeee-eecccccccCchHHHHHHhccccccccccCccceeeccCCcchhHHHHHHHhh
Confidence 112221 22334577899999999999999998877666555 6 699999998875
No 15
>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=70.77 E-value=16 Score=26.27 Aligned_cols=49 Identities=20% Similarity=0.081 Sum_probs=31.8
Q ss_pred eEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeC
Q 027994 88 AGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGD 142 (215)
Q Consensus 88 ~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tD 142 (215)
..+|.++.+.+|+++....... .....||..|+..+.+. ..+..++|+-
T Consensus 19 ~pvGaviv~~~g~iv~~g~n~~--~~~~HAE~~ai~~a~~~----~l~g~tly~T 67 (115)
T cd01284 19 PPVGCVIVDDDGEIVGEGYHRK--AGGPHAEVNALASAGEK----LARGATLYVT 67 (115)
T ss_pred CCEEEEEEeCCCeEEEEecCCC--CCcccHHHHHHHHHhhc----CCCCeEEEEe
Confidence 4678888888787764322222 25678999999988763 3344555543
No 16
>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=68.32 E-value=22 Score=25.02 Aligned_cols=60 Identities=18% Similarity=0.062 Sum_probs=36.9
Q ss_pred ceEEEEEEEeCCCcEEEEeeeccC--cccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHH
Q 027994 87 QAGAGAVLRAEDGSVVYRLREGVG--IATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLV 146 (215)
Q Consensus 87 ~~G~G~v~~~~~g~~~~~~~~~~~--~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~v 146 (215)
...+|.++.+.+|+++........ ......||..|+..+.+...........+|+.-+-.
T Consensus 16 ~~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~t~EPC 77 (109)
T cd01285 16 EVPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTLEPC 77 (109)
T ss_pred CCcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEEeCCCh
Confidence 356788888887877643322221 234568999999888764322234567777665433
No 17
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=66.60 E-value=19 Score=27.37 Aligned_cols=62 Identities=18% Similarity=0.074 Sum_probs=39.5
Q ss_pred ceEEEEEEEeCCCcEEEEeeecc-Cc-ccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHH
Q 027994 87 QAGAGAVLRAEDGSVVYRLREGV-GI-ATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCM 148 (215)
Q Consensus 87 ~~G~G~v~~~~~g~~~~~~~~~~-~~-~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~ 148 (215)
...+|.|+.+.+|+++....... .. .-...||+.|+..|.+.......+..++|+--+-...
T Consensus 27 e~PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~a~~~~~~~~l~~~tlyvT~EPC~M 90 (152)
T COG0590 27 EVPVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRAAAETLGNYRLKDCTLYVTLEPCPM 90 (152)
T ss_pred CCCEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHHHHHhhCCCCcCCcEEEEecCCHHH
Confidence 46688888888887765433333 12 2234899999999998765544555666665444333
No 18
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=64.90 E-value=27 Score=26.05 Aligned_cols=56 Identities=20% Similarity=0.248 Sum_probs=39.3
Q ss_pred ceEEEEEEEeCCCcEEEEeeecc-CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 87 QAGAGAVLRAEDGSVVYRLREGV-GIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 87 ~~G~G~v~~~~~g~~~~~~~~~~-~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
.--+|++++..+|+++.+.-... ...-...||-.||.+++.. -...+..|.+++|+
T Consensus 25 ~F~VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~~ais~-G~~~~~~v~v~~~~ 81 (134)
T COG0295 25 KFKVGAALRTKDGRIYTGANVENASYGLTVCAERSAIFKAISE-GKRKFDAVVVVADT 81 (134)
T ss_pred CCcEEEEEEeCCCCEEEEEeeecccccchhhHHHHHHHHHHHc-CCCcEEEEEEEcCC
Confidence 45678899999998775443322 2344568999999998864 33345688999987
No 19
>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=64.58 E-value=33 Score=27.58 Aligned_cols=94 Identities=14% Similarity=0.030 Sum_probs=58.3
Q ss_pred CeEEEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChHHHHHHH
Q 027994 71 YSCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQI 150 (215)
Q Consensus 71 ~~~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~~vi~~i 150 (215)
.-..+++|+. ..|+|+.+. .+.....++. ......+|+.|...|.- .. +.-.|-|||..|+.
T Consensus 93 ~lc~VfaDAT------pTgwgi~i~--~~~~~~Tfs~---~l~IhtaELlaaClAr~----~~-~~r~l~tDnt~Vls-- 154 (245)
T PF00336_consen 93 GLCQVFADAT------PTGWGISIT--GQRMRGTFSK---PLPIHTAELLAACLARL----MS-GARCLGTDNTVVLS-- 154 (245)
T ss_pred CCCceeccCC------CCcceeeec--Cceeeeeecc---cccchHHHHHHHHHHHh----cc-CCcEEeecCcEEEe--
Confidence 4678999985 356666642 2233333333 34567899998866553 21 23349999988763
Q ss_pred hcccccCChhHHHHHHHHHHHHhcCCceEEEEeCCCCCH
Q 027994 151 QGLWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNS 189 (215)
Q Consensus 151 ~~~~~~~~~~~~~l~~~i~~l~~~~~~~~~~hv~r~~N~ 189 (215)
+++..-.|.+..+-+.| .....|.+||-..|-
T Consensus 155 -rkyts~PW~lac~A~wi------Lrgts~~yVPS~~NP 186 (245)
T PF00336_consen 155 -RKYTSFPWLLACAANWI------LRGTSFYYVPSKYNP 186 (245)
T ss_pred -cccccCcHHHHHHHHHh------hcCceEEEeccccCc
Confidence 44555555665554444 235788899888885
No 20
>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=61.79 E-value=31 Score=25.21 Aligned_cols=56 Identities=18% Similarity=0.182 Sum_probs=37.3
Q ss_pred ceEEEEEEEeCCCcEEEEeeeccC-cccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 87 QAGAGAVLRAEDGSVVYRLREGVG-IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 87 ~~G~G~v~~~~~g~~~~~~~~~~~-~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
...+|++++..+|.++.+.-.... ......||..|+..+...- ...++.+.+.++.
T Consensus 20 ~~~vgAa~~~~~G~i~~G~n~e~~~~~~s~~AE~~Ai~~a~~~g-~~~i~~i~vv~~~ 76 (127)
T TIGR01354 20 NFKVGAALLTKDGRIFTGVNVENASYPLTICAERSAIGKAISAG-YRKFVAIAVADSA 76 (127)
T ss_pred CCeEEEEEEeCCCCEEEEEeecccCCCCCcCHHHHHHHHHHHcC-CCCeEEEEEEeCC
Confidence 356788888888887653322221 3345689999999987642 2356788888876
No 21
>PRK14828 undecaprenyl pyrophosphate synthase; Provisional
Probab=59.96 E-value=26 Score=29.07 Aligned_cols=31 Identities=10% Similarity=-0.124 Sum_probs=27.2
Q ss_pred cchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 113 TNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 113 tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
.-..+-+.++..-++++.++|++.|.+|.-|
T Consensus 51 ~GH~~G~~~l~~~~~~~~~~gIk~lTvYaFS 81 (256)
T PRK14828 51 QGHRAGAAKIGEFLGWCDETDVNVVTLYLLS 81 (256)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEEEEEE
Confidence 4567888999999999999999999998875
No 22
>PRK14840 undecaprenyl pyrophosphate synthase; Provisional
Probab=55.06 E-value=31 Score=28.55 Aligned_cols=34 Identities=15% Similarity=0.045 Sum_probs=29.2
Q ss_pred CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 110 GIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 110 ~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
+...-..+-+.++..-++++.+.|++.|++|.=|
T Consensus 43 ~~~~GH~~G~~~l~~v~~~c~~~GIk~lTvYaFS 76 (250)
T PRK14840 43 RAISGHYYGAKSLPQIVDTALHLGIEVLTLFAFS 76 (250)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 3455678889999999999999999999999766
No 23
>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=54.75 E-value=35 Score=27.81 Aligned_cols=49 Identities=16% Similarity=0.182 Sum_probs=35.9
Q ss_pred EEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 93 VLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 93 v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
++.|+|+.+- .....+...-..+-..++..-++++.+.|++.+++|.=|
T Consensus 5 iImDGNrRwA--k~~gl~~~~GH~~G~~~~~~v~~~c~~~GI~~lT~yaFS 53 (226)
T TIGR00055 5 IIMDGNGRWA--KKKGKPRAYGHKAGVKSLRRILRWCANLGVECLTLYAFS 53 (226)
T ss_pred EEcCCCHHHH--HHCCCChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 3446666532 122334455678889999999999999999999999866
No 24
>PRK14827 undecaprenyl pyrophosphate synthase; Provisional
Probab=53.85 E-value=32 Score=29.18 Aligned_cols=53 Identities=15% Similarity=0.099 Sum_probs=38.4
Q ss_pred eEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 88 AGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 88 ~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
--+|+|. |+|+.+- ....+....-..+-+.++..-++++.++|++.|.+|.=|
T Consensus 69 ~HVAiIM-DGNrRwA--k~~gl~~~~GH~~G~~~l~~v~~~c~~lGI~~lTvYaFS 121 (296)
T PRK14827 69 NHVAIVM-DGNGRWA--TQRGLARTEGHKMGEAVVIDIACGAIELGIKWLSLYAFS 121 (296)
T ss_pred CeEEEec-cCchHHH--HHCCCCHhHHHHHHHHHHHHHHHHHHHcCCCEEEEeeec
Confidence 4455555 7776532 222334555678888899999999999999999999766
No 25
>PRK14841 undecaprenyl pyrophosphate synthase; Provisional
Probab=53.15 E-value=40 Score=27.60 Aligned_cols=46 Identities=17% Similarity=0.171 Sum_probs=34.0
Q ss_pred eCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 96 AEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 96 ~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
|+|+.+- .....+...-..+-+.++..-++++.++|++.|++|.=|
T Consensus 12 DGNrRwA--k~~g~~~~~GH~~G~~~l~~i~~~~~~lgIk~lTvYaFS 57 (233)
T PRK14841 12 DGNGRWA--KKRGLPRIKGHQRGAEVLHNTVKWSLELGIKYLTAFSFS 57 (233)
T ss_pred cCCHHHH--HHCCCchhhhHHHHHHHHHHHHHHHHHcCCCEEEEEeee
Confidence 6565432 122234556678899999999999999999999999766
No 26
>PRK14834 undecaprenyl pyrophosphate synthase; Provisional
Probab=52.92 E-value=50 Score=27.33 Aligned_cols=34 Identities=21% Similarity=0.007 Sum_probs=28.8
Q ss_pred CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 110 GIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 110 ~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
+...-..+-+..+..-++++.+.|++.|.+|.-|
T Consensus 35 ~~~~GH~~G~~~l~~i~~~c~~lgI~~lTvYaFS 68 (249)
T PRK14834 35 PRAAGHRAGVEALRRVVRAAGELGIGYLTLFAFS 68 (249)
T ss_pred chhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEEe
Confidence 3445667888999999999999999999999866
No 27
>PRK14835 undecaprenyl pyrophosphate synthase; Provisional
Probab=51.25 E-value=53 Score=27.60 Aligned_cols=33 Identities=12% Similarity=0.020 Sum_probs=28.2
Q ss_pred cccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 111 IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 111 ~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
...-..+-+.++..-++++.+.|++.|.+|.-|
T Consensus 63 ~~~GH~~G~~~l~~i~~~c~~lGIk~lTvYaFS 95 (275)
T PRK14835 63 REMGHEFGVQKAYEVLEWCLELGIPTVTIWVFS 95 (275)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEEE
Confidence 344567888899999999999999999999877
No 28
>PRK14837 undecaprenyl pyrophosphate synthase; Provisional
Probab=51.03 E-value=46 Score=27.18 Aligned_cols=51 Identities=16% Similarity=0.174 Sum_probs=36.3
Q ss_pred EEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 90 AGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 90 ~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
+|+|+ |+|+.+- .....+...-..+-+.++..-++++.++|++.+++|.=|
T Consensus 10 VAiIm-DGNrRwA--k~~gl~~~~GH~~G~~~~~~i~~~c~~~GI~~lT~YaFS 60 (230)
T PRK14837 10 VGIIM-DGNRRWA--LKKGLSFFEGHKEGLKRAKEIVKHSLKLGIKYLSLYVFS 60 (230)
T ss_pred EEEEc-cCCHHHH--HHCCCchhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 44443 6666532 122234455678899999999999999999999999766
No 29
>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=50.76 E-value=36 Score=23.26 Aligned_cols=55 Identities=20% Similarity=0.136 Sum_probs=31.0
Q ss_pred CceEEEEEEEeCCCcEEEEeeeccC--cccchHHhHHHHHHHHHHHHHcCCeeEEEEe
Q 027994 86 GQAGAGAVLRAEDGSVVYRLREGVG--IATNNVAEYRALILGLKYALQKGYKHIRVQG 141 (215)
Q Consensus 86 ~~~G~G~v~~~~~g~~~~~~~~~~~--~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~t 141 (215)
+...+|.++.++++..+........ ......||..|+..+.+. -....+..++|+
T Consensus 22 ~~~~vgaviv~~~~~~i~~g~n~~~~~~~~~~HAE~~Ai~~~~~~-~~~~~~~~~lyv 78 (102)
T PF00383_consen 22 GNFPVGAVIVDPDGKIIATGYNGEPPGKNPTIHAEMNAIRKAARN-GGSSLKGCTLYV 78 (102)
T ss_dssp TSSSEEEEEEETTTEEEEEEESBHHSTTGGTB-HHHHHHHHHHHT-TSSGETTEEEEE
T ss_pred CCCCEEEEEEeccCccEEEEeeeeeeeccccccchhhhhhhhhhh-ccccccCccccc
Confidence 3467888998977666543322221 223458999999887764 111123355555
No 30
>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=49.94 E-value=44 Score=27.11 Aligned_cols=48 Identities=17% Similarity=0.147 Sum_probs=34.7
Q ss_pred EEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 94 LRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 94 ~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
+.|+|+.+- .....+...-..+-+..+..-++++.+.|++.+++|.=|
T Consensus 7 ImDGNrRwA--~~~gl~~~~GH~~G~~~~~~i~~~~~~~gI~~lTvyaFS 54 (221)
T cd00475 7 IMDGNRRWA--KQRGMDRIEGHKAGAEKLRDILRWCLELGVKEVTLYAFS 54 (221)
T ss_pred ecCCCHHHH--HHCCCChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEeec
Confidence 336665432 122234556678889999999999999999999999766
No 31
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=47.41 E-value=60 Score=25.17 Aligned_cols=55 Identities=20% Similarity=0.026 Sum_probs=29.3
Q ss_pred eEEEEEEEeCCCcEEEEeeecc-C-cccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 88 AGAGAVLRAEDGSVVYRLREGV-G-IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 88 ~G~G~v~~~~~g~~~~~~~~~~-~-~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
..+|+|+.+ +|+++....-.. + ......||+.|+..|.+..........++|+--
T Consensus 33 ~pvGAVIV~-~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~~~~~~~l~g~tlY~Tl 89 (172)
T PRK10860 33 VPVGAVLVH-NNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYVTL 89 (172)
T ss_pred CCEEEEEEe-CCEEEEEeeCCCCCCCCCccCHHHHHHHHHHHhcCCCCcCCcEEEeeC
Confidence 356767765 566664322221 1 122357999999988764322223344555443
No 32
>PRK14839 undecaprenyl pyrophosphate synthase; Provisional
Probab=46.00 E-value=43 Score=27.50 Aligned_cols=53 Identities=13% Similarity=0.086 Sum_probs=36.7
Q ss_pred eEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 88 AGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 88 ~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
.-+|++. |+|+.+- .....+...-..+-+.++..-++++.+.|++.|++|.=|
T Consensus 11 ~HVAiIm-DGNrRwA--k~~gl~~~~GH~~G~~~l~~i~~~c~~~GI~~lTvYaFS 63 (239)
T PRK14839 11 LHVAIIM-DGNGRWA--TARGLPRLAGHRAGVEAIRRVVEAAPDLGIGTLTLYAFS 63 (239)
T ss_pred CEEEEEc-CCCHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEec
Confidence 3444444 6665431 122234455678889999999999999999999999866
No 33
>PRK14842 undecaprenyl pyrophosphate synthase; Provisional
Probab=44.92 E-value=59 Score=26.73 Aligned_cols=52 Identities=15% Similarity=0.137 Sum_probs=36.9
Q ss_pred EEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 89 GAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 89 G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
-+|+++ |.|+.+- .....+...-..+-+..+..-++++.+.|++.|++|.=|
T Consensus 11 HVaiIm-DGNrRwA--k~~gl~~~~GH~~G~~~l~~i~~~c~~lgI~~vTvYaFS 62 (241)
T PRK14842 11 HIAVIM-DGNGRWA--ESQGKKRSEGHREGANAIDRLMDASLEYGLKNISLYAFS 62 (241)
T ss_pred eEEEEc-CCCHHHH--HHCCCChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 344444 6665431 122234556678889999999999999999999999876
No 34
>PF11208 DUF2992: Protein of unknown function (DUF2992); InterPro: IPR016787 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=44.61 E-value=64 Score=23.95 Aligned_cols=43 Identities=35% Similarity=0.370 Sum_probs=25.7
Q ss_pred EEEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHH
Q 027994 73 CTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALIL 124 (215)
Q Consensus 73 ~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~ 124 (215)
++||+||.| =+|++-+..+|. +......+| ..+...|+...+.
T Consensus 1 LTV~Fdg~F-------WvGv~E~~~~~~-~~v~rv~FG-~EP~d~Ei~~fi~ 43 (132)
T PF11208_consen 1 LTVYFDGPF-------WVGVFERHEDGK-YKVARVTFG-AEPKDPEIYEFIL 43 (132)
T ss_pred CeEEecCCc-------EEEEEEEEECCE-EEEEEEeeC-CCCCcHHHHHHHH
Confidence 479999965 467776666553 222222233 5566677776654
No 35
>PRK14838 undecaprenyl pyrophosphate synthase; Provisional
Probab=43.11 E-value=67 Score=26.45 Aligned_cols=34 Identities=15% Similarity=0.001 Sum_probs=29.0
Q ss_pred CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 110 GIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 110 ~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
+...-..+-+..+..-++++.++|++.|++|.=|
T Consensus 31 ~~~~GH~~G~~~l~~i~~~~~~~gI~~lT~YaFS 64 (242)
T PRK14838 31 ERSFGHQAGAETVHIITEEAARLGVKFLTLYTFS 64 (242)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeec
Confidence 4456678889999999999999999999999766
No 36
>PRK15000 peroxidase; Provisional
Probab=42.67 E-value=75 Score=25.10 Aligned_cols=45 Identities=20% Similarity=0.330 Sum_probs=33.0
Q ss_pred eEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcC
Q 027994 88 AGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 133 (215)
Q Consensus 88 ~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g 133 (215)
+--+.++.+++|.+........+.. .+..|++.++.+|++..+.|
T Consensus 124 ~~r~tfiID~~G~I~~~~~~~~~~g-r~~~eilr~l~al~~~~~~~ 168 (200)
T PRK15000 124 ALRGSFLIDANGIVRHQVVNDLPLG-RNIDEMLRMVDALQFHEEHG 168 (200)
T ss_pred EEeEEEEECCCCEEEEEEecCCCCC-CCHHHHHHHHHHhhhHHhcC
Confidence 3456778899998776555544433 47889999999999887765
No 37
>PRK13191 putative peroxiredoxin; Provisional
Probab=42.52 E-value=68 Score=25.69 Aligned_cols=43 Identities=21% Similarity=0.246 Sum_probs=31.5
Q ss_pred EEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcC
Q 027994 90 AGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 133 (215)
Q Consensus 90 ~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g 133 (215)
-+.++.|++|.+........+.. .+..|++.++.+|++..+.|
T Consensus 125 r~tfIID~~G~Ir~~~~~~~~~g-r~~~eilr~l~alq~~~~~~ 167 (215)
T PRK13191 125 RAVFIVDDKGTVRLILYYPMEIG-RNIDEILRAIRALQLVDKAG 167 (215)
T ss_pred EEEEEECCCCEEEEEEecCCCCC-CCHHHHHHHHHHhhhhhhcC
Confidence 36778899998776555554333 48899999999999876654
No 38
>PTZ00349 dehydrodolichyl diphosphate synthetase; Provisional
Probab=42.26 E-value=69 Score=27.57 Aligned_cols=34 Identities=21% Similarity=0.106 Sum_probs=29.0
Q ss_pred CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 110 GIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 110 ~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
+...-..+-..++..-++++.+.|++.|++|.=|
T Consensus 40 ~~~~GH~~G~~~l~~il~~c~~lGIk~lTlYAFS 73 (322)
T PTZ00349 40 HSAIGHFMGSKALIQIIEICIKLKIKILSVFSFS 73 (322)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 3445677888999999999999999999999866
No 39
>PHA03372 DNA packaging terminase subunit 1; Provisional
Probab=42.20 E-value=1.9e+02 Score=27.47 Aligned_cols=77 Identities=22% Similarity=0.275 Sum_probs=43.4
Q ss_pred CCCCCeEEEEEcccccCCCCc--eEEEEEEEeCCCcEEEEeeec----c-CcccchHHhHHHHHHHHHHHHHcCCe--eE
Q 027994 67 PYNCYSCTLEFDGASKGNPGQ--AGAGAVLRAEDGSVVYRLREG----V-GIATNNVAEYRALILGLKYALQKGYK--HI 137 (215)
Q Consensus 67 ~~~~~~~~i~tDGS~~~~~~~--~G~G~v~~~~~g~~~~~~~~~----~-~~~tn~~AEl~Ai~~aL~~a~~~g~~--~v 137 (215)
+.-...+.||+|=++-.|... .|+++|.+..+.-++.+.-.. + +......||-.+.+.+==+++.--++ +|
T Consensus 449 ~~l~~~LyvYiDPAfT~N~~ASGTGia~vg~~~~~~ii~GlEHffL~~Ltg~s~~~Ia~Ca~~~i~~v~~lHp~~~~v~v 528 (668)
T PHA03372 449 PFLGKTLYVYLDPAFTSNRRASGTGIAAVGTYRDQYIIYGLEHYFLRDLLESSETAIAECAAHMILSVLSLHPFFTEVRI 528 (668)
T ss_pred cccCCeEEEEECCccccCCccccceEEEEEEecCCEEEEecHHHHHHHhcCchHHHHHHHHHHHHHHHHHhCcccceEEE
Confidence 345578999999999877744 556666666554344433221 2 34455566655443332222222233 67
Q ss_pred EEEeCh
Q 027994 138 RVQGDS 143 (215)
Q Consensus 138 ~I~tDS 143 (215)
.|++.|
T Consensus 529 avEGNS 534 (668)
T PHA03372 529 AIEGNS 534 (668)
T ss_pred EEecCc
Confidence 888877
No 40
>PRK14833 undecaprenyl pyrophosphate synthase; Provisional
Probab=40.62 E-value=89 Score=25.56 Aligned_cols=51 Identities=10% Similarity=0.053 Sum_probs=36.1
Q ss_pred EEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 90 AGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 90 ~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
+|++. |+|+.+- .....+...-..+-+.++..-++++.+.|++.+.+|.=|
T Consensus 8 VaiIm-DGNrRwA--~~~gl~~~~GH~~G~~~l~~~~~~c~~~gI~~lTvyaFS 58 (233)
T PRK14833 8 LAIIM-DGNGRWA--KLRGKARAAGHKKGVKTLREITIWCANHKLECLTLYAFS 58 (233)
T ss_pred EEEEc-cCCHHHH--HHCCCChhhhHHHHHHHHHHHHHHHHHcCCCEEEEeecc
Confidence 44444 6665421 222334455678899999999999999999999999766
No 41
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=39.66 E-value=1.6e+02 Score=23.47 Aligned_cols=47 Identities=26% Similarity=0.317 Sum_probs=33.4
Q ss_pred CceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcC
Q 027994 86 GQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 133 (215)
Q Consensus 86 ~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g 133 (215)
+.+--|.++.|++|.+-....... ...-|.-|++.++.||++..++|
T Consensus 121 g~a~R~~FIIDp~g~ir~~~v~~~-~iGRn~dEilR~idAlq~~~~hg 167 (194)
T COG0450 121 GLALRGTFIIDPDGVIRHILVNPL-TIGRNVDEILRVIDALQFVAKHG 167 (194)
T ss_pred CcceeEEEEECCCCeEEEEEEecC-CCCcCHHHHHHHHHHHHHHHHhC
Confidence 335568889999996543322222 34567889999999999988765
No 42
>PRK14836 undecaprenyl pyrophosphate synthase; Provisional
Probab=39.65 E-value=58 Score=26.98 Aligned_cols=32 Identities=19% Similarity=0.271 Sum_probs=26.8
Q ss_pred CcccchHHhHHHHHHHHHHHHHcCCeeEEEEe
Q 027994 110 GIATNNVAEYRALILGLKYALQKGYKHIRVQG 141 (215)
Q Consensus 110 ~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~t 141 (215)
+...-..+-+.++..-++++.+.|++.+++|.
T Consensus 35 ~~~~GH~~G~~~~~~iv~~c~~~gI~~lTvYa 66 (253)
T PRK14836 35 PRVEGHRAGVRAVRRTIEFCLEKGIEMLTLFA 66 (253)
T ss_pred chhhhHHHHHHHHHHHHHHHHHcCCCEEehhH
Confidence 34455677788999999999999999999987
No 43
>PRK14829 undecaprenyl pyrophosphate synthase; Provisional
Probab=39.23 E-value=79 Score=26.02 Aligned_cols=53 Identities=15% Similarity=0.107 Sum_probs=37.4
Q ss_pred eEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 88 AGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 88 ~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
.-+|+++ |+|+.+- .....+...-..+-+.++..-++++.+.|++.|.+|.=|
T Consensus 16 ~HvaiIm-DGNrRwA--k~~g~~~~~GH~~G~~~l~~iv~~c~~~gI~~vTvYaFS 68 (243)
T PRK14829 16 RHIAVVM-DGNGRWA--TQRGLKRTEGHKAGEPVLFDVVAGAIEAGVPYLSLYTFS 68 (243)
T ss_pred CeEEEec-CCCHHHH--HHCCCChhHHHHHHHHHHHHHHHHHHHcCCCEEEEeeec
Confidence 3444444 6665431 122234556678899999999999999999999999876
No 44
>PRK14832 undecaprenyl pyrophosphate synthase; Provisional
Probab=38.68 E-value=78 Score=26.26 Aligned_cols=52 Identities=15% Similarity=0.128 Sum_probs=36.4
Q ss_pred EEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 89 GAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 89 G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
-+|++. |+|+.+- .....+...-..+-+.++..-++++.+.|++.+++|.=|
T Consensus 21 HVAiIm-DGNrRwA--k~~gl~~~~GH~~G~~~l~~i~~~c~~~gI~~lTvyaFS 72 (253)
T PRK14832 21 HIAVIM-DGNGRWA--TSQGLPRIAGHRQGARTLKELLRCCKDWGIKALTAYAFS 72 (253)
T ss_pred EEEEEC-CCCHHHH--HHCCCCHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 344443 5555421 122234456678899999999999999999999999866
No 45
>PRK05578 cytidine deaminase; Validated
Probab=37.73 E-value=1.4e+02 Score=21.90 Aligned_cols=56 Identities=20% Similarity=0.194 Sum_probs=37.9
Q ss_pred eEEEEEEEeCCCcEEEEeeeccC-cccchHHhHHHHHHHHHHHHHcCCeeEEEEeChH
Q 027994 88 AGAGAVLRAEDGSVVYRLREGVG-IATNNVAEYRALILGLKYALQKGYKHIRVQGDSK 144 (215)
Q Consensus 88 ~G~G~v~~~~~g~~~~~~~~~~~-~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~ 144 (215)
...|+.++..+|++..+.-.... ..-...||-.|+..++..- ...+..+.|.+|..
T Consensus 24 f~Vgaa~~~~~G~i~~G~nvEna~~~~~~CAE~~Ai~~av~~G-~~~i~~i~vv~~~~ 80 (131)
T PRK05578 24 FPVGAALLTDDGRIYTGCNIENASYGLTNCAERTAIFKAISEG-GGRLVAIACVGETG 80 (131)
T ss_pred CceEEEEEeCCCCEEEEEEeeCccccCCcCHHHHHHHHHHHcC-CCceEEEEEEecCC
Confidence 45788888899988765443322 2345689999999887421 23467888888763
No 46
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=37.02 E-value=1.6e+02 Score=22.96 Aligned_cols=42 Identities=10% Similarity=0.101 Sum_probs=31.4
Q ss_pred EEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHc
Q 027994 90 AGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQK 132 (215)
Q Consensus 90 ~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~ 132 (215)
-+.++.|++|.+.+......+ ...+..|+++++.+|++..+.
T Consensus 120 r~tfIID~~G~I~~~~~~~~~-~~~~~~eil~~l~alq~~~~~ 161 (187)
T PRK10382 120 RATFVVDPQGIIQAIEVTAEG-IGRDASDLLRKIKAAQYVASH 161 (187)
T ss_pred eEEEEECCCCEEEEEEEeCCC-CCCCHHHHHHHHHhhhhHhhc
Confidence 456788999988766554433 335889999999999987765
No 47
>PRK12411 cytidine deaminase; Provisional
Probab=36.63 E-value=1.5e+02 Score=21.87 Aligned_cols=56 Identities=25% Similarity=0.237 Sum_probs=37.5
Q ss_pred ceEEEEEEEeCCCcEEEEeeeccC-cccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 87 QAGAGAVLRAEDGSVVYRLREGVG-IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 87 ~~G~G~v~~~~~g~~~~~~~~~~~-~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
...+|+.++..+|.++.+.-.... ..-...||-.|+..++.. -...++.|.|.++.
T Consensus 23 ~~~VgAa~~t~~G~i~~G~nvEn~s~~~s~CAE~~Ai~~av~~-g~~~i~~i~v~~~~ 79 (132)
T PRK12411 23 KFQVGAALLTQDGKVYRGCNVENASYGLCNCAERTALFKAVSE-GDKEFVAIAIVADT 79 (132)
T ss_pred CCceEEEEEeCCCCEEEEEEeecCCCCcCcCHHHHHHHHHHHC-CCCceEEEEEEeCC
Confidence 356788888899988765443332 233568999999887642 12346788888876
No 48
>PRK06848 hypothetical protein; Validated
Probab=35.07 E-value=1.7e+02 Score=21.78 Aligned_cols=55 Identities=16% Similarity=0.052 Sum_probs=36.0
Q ss_pred eEEEEEEEeCCCcEEEEeeecc-CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 88 AGAGAVLRAEDGSVVYRLREGV-GIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 88 ~G~G~v~~~~~g~~~~~~~~~~-~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
..+|+.++..+|.++.+.-... .......||-.|+..++.. -...+..+.+.++.
T Consensus 27 f~VgAa~l~~~G~i~~G~NvEnas~~~tiCAEr~Ai~~av~~-g~~~i~~i~~v~~~ 82 (139)
T PRK06848 27 HHVGAALRTKTGRIYAAVHLEAYVGRITVCAEAIAIGKAISE-GDHEIDTIVAVRHP 82 (139)
T ss_pred CcEEEEEEeCCCCEEEEEEeecCCCCcccCHHHHHHHHHHHc-CCCceEEEEEEecC
Confidence 5678888889998875544333 2345678999999998752 12234566666654
No 49
>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=34.80 E-value=77 Score=27.12 Aligned_cols=64 Identities=17% Similarity=0.119 Sum_probs=30.5
Q ss_pred CceEEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcC---CeeEEEEeChHHHHHHHhc
Q 027994 86 GQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG---YKHIRVQGDSKLVCMQIQG 152 (215)
Q Consensus 86 ~~~G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g---~~~v~I~tDS~~vi~~i~~ 152 (215)
+..-+|+-+|..+|+-... .-...+....=+.-++.+++-+.... ..+|-+.|||+.|++.+++
T Consensus 166 g~~~IGVHVRhGngeD~~~---h~~~~~D~e~~L~~V~~ai~~ak~~~~~k~~~IFLATDSaeVid~fr~ 232 (321)
T PF05830_consen 166 GYSVIGVHVRHGNGEDIMD---HAPYWADEERALRQVCTAIDKAKALAPPKPVRIFLATDSAEVIDQFRK 232 (321)
T ss_dssp TSEEEEEEE------------------HHHHHHHHHHHHHHHHHHTS--SS-EEEEEEES-HHHHHHHHH
T ss_pred CCceEEEEEeccCCcchhc---cCccccCchHHHHHHHHHHHHHHhccCCCCeeEEEecCcHHHHHHHHH
Confidence 3457899999887742211 11111222222445555665554332 3578999999999999987
No 50
>PTZ00137 2-Cys peroxiredoxin; Provisional
Probab=34.42 E-value=98 Score=25.75 Aligned_cols=43 Identities=23% Similarity=0.288 Sum_probs=31.9
Q ss_pred EEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcC
Q 027994 90 AGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 133 (215)
Q Consensus 90 ~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g 133 (215)
-+.++.|++|.+.+......+.. .+..|++.++.||++..+.|
T Consensus 189 R~tFIID~dG~I~~~~~~~~~~g-r~v~eiLr~l~alq~~~~~g 231 (261)
T PTZ00137 189 RASVLVDKAGVVKHVAVYDLGLG-RSVDETLRLFDAVQFAEKTG 231 (261)
T ss_pred cEEEEECCCCEEEEEEEeCCCCC-CCHHHHHHHHHHhchhhhcC
Confidence 35677899998776655444333 47899999999999877765
No 51
>TIGR03757 conj_TIGR03757 integrating conjugative element protein, PFL_4709 family. Members of this protein belong to extended genomic regions that appear to be spread by conjugative transfer.
Probab=34.20 E-value=24 Score=25.48 Aligned_cols=76 Identities=17% Similarity=0.099 Sum_probs=42.6
Q ss_pred eEEEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccC-----------------cccchHHhHHHHHHHHHHHHHcCC
Q 027994 72 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVG-----------------IATNNVAEYRALILGLKYALQKGY 134 (215)
Q Consensus 72 ~~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~-----------------~~tn~~AEl~Ai~~aL~~a~~~g~ 134 (215)
.+.||||...-......|.-++..|.-......++..++ .......+|.....|+-.|+.+|+
T Consensus 3 ~v~V~Tds~hpv~~~~~~~~Vi~LD~~erle~~ls~~Lpadp~qA~~~~~~~l~sp~~~~~q~~l~~Ayqgv~~Aw~lGi 82 (113)
T TIGR03757 3 DVVVFTDSAHPPVNATPGTRVIELDAPERLEAQLSAGLPADPQQAAAQARQRLQSPDWARLQRRLAQAYQGVADAWQLGV 82 (113)
T ss_pred cEEEEeCCCCCcccCCCCcEEEEeccHHHHHHHHhccCCCCHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHcCC
Confidence 467889976432223455666666654333222333322 112346688888889989999998
Q ss_pred eeE-EEEeChHHHH
Q 027994 135 KHI-RVQGDSKLVC 147 (215)
Q Consensus 135 ~~v-~I~tDS~~vi 147 (215)
+++ -|.-|-.+||
T Consensus 83 ~k~PAVV~D~~~VV 96 (113)
T TIGR03757 83 TKIPAVVVDRRYVV 96 (113)
T ss_pred ccCCEEEEcCCeEE
Confidence 754 3333433433
No 52
>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=32.86 E-value=24 Score=25.48 Aligned_cols=65 Identities=14% Similarity=0.026 Sum_probs=38.2
Q ss_pred eEEEEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccC-----------------cccchHHhHHHHHHHHHHHHHcCC
Q 027994 72 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVG-----------------IATNNVAEYRALILGLKYALQKGY 134 (215)
Q Consensus 72 ~~~i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~-----------------~~tn~~AEl~Ai~~aL~~a~~~g~ 134 (215)
.+.||||...-. ....+.-++..|........++..++ .......+|.....|+-.|+.+|+
T Consensus 3 ~~~V~Td~~hPv-~~~~~~~V~~LD~~~~le~~ls~~Lpadp~qA~~~~~~rl~s~~~~~~q~~L~~Ayqgv~~Aw~lgi 81 (114)
T PF07511_consen 3 ETVVYTDSAHPV-QAPAGVRVYELDAPERLEAELSAGLPADPQQAEAQARQRLQSPDWQQLQQQLAQAYQGVVDAWSLGI 81 (114)
T ss_pred cEEEEeCCCCCC-CCCCCceEEEcCcHHHHHHHHhccCCCChHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHHHHhCc
Confidence 367888876422 23345555555543332222232222 113347788899999999999998
Q ss_pred eeE
Q 027994 135 KHI 137 (215)
Q Consensus 135 ~~v 137 (215)
+++
T Consensus 82 ~k~ 84 (114)
T PF07511_consen 82 TKY 84 (114)
T ss_pred ccc
Confidence 854
No 53
>PRK14831 undecaprenyl pyrophosphate synthase; Provisional
Probab=32.80 E-value=89 Score=25.82 Aligned_cols=34 Identities=15% Similarity=-0.071 Sum_probs=29.1
Q ss_pred CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 110 GIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 110 ~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
....-..+-+.++..-++++.+.|++.|.+|.=|
T Consensus 41 ~~~~GH~~G~~~l~~i~~~c~~~GI~~vT~yaFS 74 (249)
T PRK14831 41 PRIMGHRRGVDALKDLLRCCKDWGIGALTAYAFS 74 (249)
T ss_pred chhhhHHHHHHHHHHHHHHHHHcCCCEEEEeecc
Confidence 3455678888999999999999999999999877
No 54
>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=32.68 E-value=2.2e+02 Score=21.51 Aligned_cols=13 Identities=38% Similarity=0.230 Sum_probs=10.6
Q ss_pred hHHhHHHHHHHHH
Q 027994 115 NVAEYRALILGLK 127 (215)
Q Consensus 115 ~~AEl~Ai~~aL~ 127 (215)
..||..||..+..
T Consensus 68 ~HAE~nAI~~a~~ 80 (151)
T TIGR02571 68 IHAEMNALLQCAK 80 (151)
T ss_pred cCHHHHHHHHHHh
Confidence 5899999998753
No 55
>PRK14830 undecaprenyl pyrophosphate synthase; Provisional
Probab=32.59 E-value=2.9e+02 Score=22.87 Aligned_cols=33 Identities=18% Similarity=-0.005 Sum_probs=27.4
Q ss_pred cccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 111 IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 111 ~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
...-..+-+..+..-++++.+.|++.|.+|.-|
T Consensus 44 ~~~Gh~~G~~~l~~~l~~c~~~GI~~vTvYaFS 76 (251)
T PRK14830 44 RIAGHKAGMDTVKKITKAASELGVKVLTLYAFS 76 (251)
T ss_pred hhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEEe
Confidence 344567778899999999999999999999844
No 56
>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=31.04 E-value=1.9e+02 Score=20.22 Aligned_cols=42 Identities=19% Similarity=0.165 Sum_probs=27.6
Q ss_pred CceEEEEEEEeCCCcEEEEeeeccC-cccchHHhHHHHHHHHH
Q 027994 86 GQAGAGAVLRAEDGSVVYRLREGVG-IATNNVAEYRALILGLK 127 (215)
Q Consensus 86 ~~~G~G~v~~~~~g~~~~~~~~~~~-~~tn~~AEl~Ai~~aL~ 127 (215)
+...+|+++...+|.++.+...... ......||..|+..+..
T Consensus 16 ~~~~vga~i~~~~g~i~~G~n~e~~~~~~~~hAE~~ai~~~~~ 58 (112)
T cd01283 16 SNFTVGAALLTKDGRIFTGVNVENASYGLTLCAERTAIGKAVS 58 (112)
T ss_pred CCCeEEEEEEECCCCEEEeEEeecCCCCCCcCHHHHHHHHHHH
Confidence 3467788888877877643333322 33456899999988775
No 57
>PRK13190 putative peroxiredoxin; Provisional
Probab=30.29 E-value=1.5e+02 Score=23.25 Aligned_cols=44 Identities=11% Similarity=0.102 Sum_probs=31.1
Q ss_pred EEEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcC
Q 027994 89 GAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 133 (215)
Q Consensus 89 G~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g 133 (215)
--+.++.+++|.+........ ....+..|+..++.+|+...+.|
T Consensus 117 ~p~~fiId~~G~I~~~~~~~~-~~gr~~~ellr~l~~l~~~~~~~ 160 (202)
T PRK13190 117 VRGVFIIDPNQIVRWMIYYPA-ETGRNIDEIIRITKALQVNWKRK 160 (202)
T ss_pred EeEEEEECCCCEEEEEEEeCC-CCCCCHHHHHHHHHHhhhHHhcC
Confidence 346778899997765443333 23357899999999999877664
No 58
>PHA03368 DNA packaging terminase subunit 1; Provisional
Probab=29.85 E-value=5.2e+02 Score=24.99 Aligned_cols=75 Identities=24% Similarity=0.287 Sum_probs=43.5
Q ss_pred CCCeEEEEEcccccCCCC--ceEEEEEEEeCCCcEEEEeeec----c-CcccchHHhHHHHHHHHHHHHHc-CCe--eEE
Q 027994 69 NCYSCTLEFDGASKGNPG--QAGAGAVLRAEDGSVVYRLREG----V-GIATNNVAEYRALILGLKYALQK-GYK--HIR 138 (215)
Q Consensus 69 ~~~~~~i~tDGS~~~~~~--~~G~G~v~~~~~g~~~~~~~~~----~-~~~tn~~AEl~Ai~~aL~~a~~~-g~~--~v~ 138 (215)
-...+.||+|=++-.|.. +.|+++|.+..+.-++.+.-.. + +......|+-.+.+.+==+++.- -++ +|.
T Consensus 504 l~~~LyVYvDPAft~N~~ASGTGia~vg~~~~~~ii~GlEHffL~~Ltg~s~~~Ia~Ca~~~i~~v~~lHp~~~~~v~va 583 (738)
T PHA03368 504 LSPDLYVYVDPAFTANTRASGTGIAVVGRYRDDWIVFGLEHFFLRALTGSSADEIARCVAQCLAQVCALHPGRFRSVRVA 583 (738)
T ss_pred cCceEEEEECcccccCCccccccEEEEEEeCCCEEEEecHHHHHHHhcCchHHHHHHHHHHHHHHHHHhCcccccEEEEE
Confidence 456899999999987774 4566777777664344433221 2 34455566655544332222222 222 678
Q ss_pred EEeCh
Q 027994 139 VQGDS 143 (215)
Q Consensus 139 I~tDS 143 (215)
|++.|
T Consensus 584 vEGNS 588 (738)
T PHA03368 584 VEGNS 588 (738)
T ss_pred EecCc
Confidence 88877
No 59
>COG3981 Predicted acetyltransferase [General function prediction only]
Probab=29.34 E-value=79 Score=24.63 Aligned_cols=29 Identities=28% Similarity=0.287 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHcCCeeEEEEeChHHHH
Q 027994 119 YRALILGLKYALQKGYKHIRVQGDSKLVC 147 (215)
Q Consensus 119 l~Ai~~aL~~a~~~g~~~v~I~tDS~~vi 147 (215)
-..+..||+.|.++|+++|.|-+|...+.
T Consensus 116 ~emLkl~L~~ar~lgi~~Vlvtcd~dN~A 144 (174)
T COG3981 116 KEMLKLALEKARELGIKKVLVTCDKDNIA 144 (174)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEeCCCCch
Confidence 35688999999999999999999975443
No 60
>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=29.06 E-value=1.7e+02 Score=22.92 Aligned_cols=42 Identities=12% Similarity=0.053 Sum_probs=30.1
Q ss_pred EEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcC
Q 027994 91 GAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 133 (215)
Q Consensus 91 G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g 133 (215)
+.++.|++|.+.......... ..+..|++.++.+|+...+.|
T Consensus 119 ~~fiID~~G~I~~~~~~~~~~-gr~~~ell~~l~~lq~~~~~~ 160 (203)
T cd03016 119 AVFIIDPDKKIRLILYYPATT-GRNFDEILRVVDALQLTDKHK 160 (203)
T ss_pred EEEEECCCCeEEEEEecCCCC-CCCHHHHHHHHHHHhhHhhcC
Confidence 477889999877655544432 335889999999999876654
No 61
>PRK10057 rpsV 30S ribosomal subunit S22; Reviewed
Probab=29.03 E-value=6.2 Score=22.71 Aligned_cols=28 Identities=29% Similarity=0.557 Sum_probs=19.5
Q ss_pred HHHHHHHHcCCeeEEEEeChHHHHHHHhc
Q 027994 124 LGLKYALQKGYKHIRVQGDSKLVCMQIQG 152 (215)
Q Consensus 124 ~aL~~a~~~g~~~v~I~tDS~~vi~~i~~ 152 (215)
.||.+-+... ++|++++|...+|+..++
T Consensus 11 LGl~yKlSnq-rKvV~Egd~~t~vn~~tG 38 (44)
T PRK10057 11 LGLDYKISNQ-RKVVTEGDKSSVVNNPTG 38 (44)
T ss_pred hcccceeccc-eeEEeeCCcceeEecccc
Confidence 4444444333 699999999999886655
No 62
>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=27.13 E-value=2.1e+02 Score=19.47 Aligned_cols=53 Identities=25% Similarity=0.064 Sum_probs=29.1
Q ss_pred ceEEEEEEEeC-CCcEEEEeeecc--CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeC
Q 027994 87 QAGAGAVLRAE-DGSVVYRLREGV--GIATNNVAEYRALILGLKYALQKGYKHIRVQGD 142 (215)
Q Consensus 87 ~~G~G~v~~~~-~g~~~~~~~~~~--~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tD 142 (215)
...+|.++.+. +|.++....-.. .......||..|+..+.+ ..+.+...+|+-
T Consensus 17 ~~pVGaviv~~~~g~ii~~g~n~~~~~~~~~~HAE~~ai~~a~~---~~~~~~~tly~t 72 (96)
T cd00786 17 NFQVGACLVNKKDGGKVGRGCNIENAAYSMCNHAERTALFNAGS---EGDTKGQMLYVA 72 (96)
T ss_pred CCCEEEEEEEeCCCCeEeeeEeccCCCCCCeeCHHHHHHHHHHH---cCCCCceEEEEE
Confidence 35566666665 455553322111 133556899999988764 222444555553
No 63
>PRK08298 cytidine deaminase; Validated
Probab=26.05 E-value=2e+02 Score=21.34 Aligned_cols=54 Identities=24% Similarity=0.287 Sum_probs=34.9
Q ss_pred EEEEEEEeCCCcEEEEeeeccC-cccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 89 GAGAVLRAEDGSVVYRLREGVG-IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 89 G~G~v~~~~~g~~~~~~~~~~~-~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
.+|+.++..+|+++.+.-.... .....-||-.|+..++..- ...++.|.|.+|.
T Consensus 24 ~VgAAllt~dG~i~tG~NvEnas~~~t~CAEr~Ai~~av~~G-~~~~~~i~v~~~~ 78 (136)
T PRK08298 24 GGAAAMRVEDGTILTSVAPEVINASTELCMETGAICEAHKLQ-KRVTHSICVAREN 78 (136)
T ss_pred ceeEEEEeCCCCEEEEEeecCCCCCcchhHHHHHHHHHHHCC-CceEEEEEEEcCC
Confidence 6788888889988755443222 3346789999999877421 1123456777666
No 64
>PF01614 IclR: Bacterial transcriptional regulator This Pfam family contains some of the members of the iclR family; InterPro: IPR014757 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; PDB: 3MQ0_A 2IA2_D 3OBF_B 2G7U_C 3R4K_A 1TF1_D 1MKM_A 1YSP_A 3BJN_A 1TD5_A ....
Probab=25.50 E-value=2.5e+02 Score=19.80 Aligned_cols=36 Identities=25% Similarity=0.240 Sum_probs=25.8
Q ss_pred EEEcccccCCCCceEEEEEEEeCCCcEEEEeeeccCcc
Q 027994 75 LEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIA 112 (215)
Q Consensus 75 i~tDGS~~~~~~~~G~G~v~~~~~g~~~~~~~~~~~~~ 112 (215)
.+.+|.+. ++..++++-+++.+|..+...+...+..
T Consensus 69 a~~~~~~~--~gv~~iA~Pi~~~~g~~~~alsv~~~~~ 104 (129)
T PF01614_consen 69 AVSDGEYE--PGVAAIAVPIFDPNGQVVAALSVSGPSE 104 (129)
T ss_dssp EEEESSSS--TTEEEEEEEEEETTSCEEEEEEEEEEGG
T ss_pred cccchhcc--cccceEEEEEECCCCCEEEEEEEeeEhH
Confidence 44555543 5678999999999999887776665443
No 65
>COG0020 UppS Undecaprenyl pyrophosphate synthase [Lipid metabolism]
Probab=25.50 E-value=2e+02 Score=23.67 Aligned_cols=35 Identities=23% Similarity=0.146 Sum_probs=28.7
Q ss_pred CcccchHHhHHHHHHHHHHHHHcCCeeEEEEeChH
Q 027994 110 GIATNNVAEYRALILGLKYALQKGYKHIRVQGDSK 144 (215)
Q Consensus 110 ~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS~ 144 (215)
+...-..+-..++...++++.++|++.+++|..|-
T Consensus 37 ~r~~Gh~~G~~~~~~i~~~~~~lgik~ltlyafSt 71 (245)
T COG0020 37 PRIEGHKAGAKALREILEWCLELGIKYLTLYAFST 71 (245)
T ss_pred ChhHHHHHhHHHHHHHHHHHHHcCCCEEEEEEEeh
Confidence 34455567788889999999999999999999883
No 66
>KOG1602 consensus Cis-prenyltransferase [Lipid transport and metabolism]
Probab=22.55 E-value=1.9e+02 Score=24.12 Aligned_cols=36 Identities=25% Similarity=0.246 Sum_probs=30.9
Q ss_pred ccCcccchHHhHHHHHHHHHHHHHcCCeeEEEEeCh
Q 027994 108 GVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 143 (215)
Q Consensus 108 ~~~~~tn~~AEl~Ai~~aL~~a~~~g~~~v~I~tDS 143 (215)
.++...-..|-..++..=|+++.+.|++.|.+|.=|
T Consensus 55 ~L~~~~GH~aGf~~l~~ile~C~~lGI~~vT~fAFS 90 (271)
T KOG1602|consen 55 GLETSEGHEAGFEALKEILELCKELGIKEVTVFAFS 90 (271)
T ss_pred CCCcccchHHHHHHHHHHHHHHHHcCCcEEEEEEEe
Confidence 344566778999999999999999999999999866
No 67
>PRK13189 peroxiredoxin; Provisional
Probab=22.51 E-value=2.5e+02 Score=22.51 Aligned_cols=42 Identities=19% Similarity=0.160 Sum_probs=29.4
Q ss_pred EEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcC
Q 027994 91 GAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 133 (215)
Q Consensus 91 G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g 133 (215)
+.++.|++|.+........+ ...+..|++.++.+|+...+.|
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 57888999977654433332 3335779999999998777664
No 68
>PRK13599 putative peroxiredoxin; Provisional
Probab=22.38 E-value=2.5e+02 Score=22.44 Aligned_cols=43 Identities=19% Similarity=0.146 Sum_probs=29.9
Q ss_pred EEEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHcC
Q 027994 90 AGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 133 (215)
Q Consensus 90 ~G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~g 133 (215)
-+.++.|++|.+........ ....+..|++.++.+|+...+.+
T Consensus 120 R~tfIID~dG~Ir~~~~~p~-~~gr~~~eilr~l~~lq~~~~~~ 162 (215)
T PRK13599 120 RAVFIVDDKGTIRLIMYYPQ-EVGRNVDEILRALKALQTADQYG 162 (215)
T ss_pred eEEEEECCCCEEEEEEEcCC-CCCCCHHHHHHHHHHhhhhhhcC
Confidence 45677799998776543333 23357889999999998776654
No 69
>TIGR03137 AhpC peroxiredoxin. This gene contains two invariant cysteine residues, one near the N-terminus and one near the C-terminus, each followed immediately by a proline residue.
Probab=21.07 E-value=2.9e+02 Score=21.25 Aligned_cols=41 Identities=17% Similarity=0.212 Sum_probs=29.7
Q ss_pred EEEEEeCCCcEEEEeeeccCcccchHHhHHHHHHHHHHHHHc
Q 027994 91 GAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQK 132 (215)
Q Consensus 91 G~v~~~~~g~~~~~~~~~~~~~tn~~AEl~Ai~~aL~~a~~~ 132 (215)
+.++.+.+|.+........+. .....|+++.+.+++++.+.
T Consensus 121 ~tfiID~~G~I~~~~~~~~~~-~~~~~~ll~~l~~~~~~~~~ 161 (187)
T TIGR03137 121 GTFVIDPEGVIQAVEITDNGI-GRDASELLRKIKAAQYVAAH 161 (187)
T ss_pred EEEEECCCCEEEEEEEeCCCC-CCCHHHHHHHHHHhhhHHhc
Confidence 567779999877655433332 23778999999999998876
No 70
>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=20.61 E-value=3.1e+02 Score=19.95 Aligned_cols=27 Identities=11% Similarity=0.007 Sum_probs=16.7
Q ss_pred chHHhHHHHHHHHHHHHHcCCeeEEEEeC
Q 027994 114 NNVAEYRALILGLKYALQKGYKHIRVQGD 142 (215)
Q Consensus 114 n~~AEl~Ai~~aL~~a~~~g~~~v~I~tD 142 (215)
...||..||..+.+. ....+..++|+-
T Consensus 68 ~~HAE~~Ai~~a~~~--~~~~~~~tLyvT 94 (131)
T cd01286 68 TVHAEQNAILQAARH--GVSLEGATLYVT 94 (131)
T ss_pred CCCHHHHHHHHHhHc--CCCcCCeEEEEe
Confidence 457999999887653 222334555553
Done!