Query 021004
Match_columns 318
No_of_seqs 309 out of 1702
Neff 7.5
Searched_HMMs 46136
Date Fri Mar 29 06:51:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021004.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021004hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3752 Ribonuclease H [Replic 100.0 5.1E-29 1.1E-33 232.0 19.0 128 174-304 211-365 (371)
2 PRK13907 rnhA ribonuclease H; 99.9 3.1E-25 6.7E-30 182.6 15.0 126 176-304 2-127 (128)
3 COG0328 RnhA Ribonuclease HI [ 99.9 3.4E-25 7.4E-30 185.9 14.8 128 175-305 3-146 (154)
4 PRK07708 hypothetical protein; 99.9 1E-23 2.2E-28 188.4 17.0 132 174-305 72-209 (219)
5 PRK07238 bifunctional RNase H/ 99.9 6.8E-23 1.5E-27 197.6 17.3 140 175-314 2-142 (372)
6 PRK06548 ribonuclease H; Provi 99.9 1E-22 2.3E-27 173.4 13.5 125 174-304 4-142 (161)
7 PRK08719 ribonuclease H; Revie 99.9 1.1E-21 2.3E-26 165.4 14.6 126 174-304 3-147 (147)
8 PRK00203 rnhA ribonuclease H; 99.9 1.1E-21 2.4E-26 166.1 13.6 128 175-307 3-145 (150)
9 cd06222 RnaseH RNase H (RNase 99.8 5.3E-19 1.1E-23 141.4 15.5 126 177-302 1-130 (130)
10 COG3341 Predicted double-stran 99.8 2.4E-19 5.2E-24 155.6 11.2 49 6-58 5-53 (225)
11 PF00075 RNase_H: RNase H; In 99.8 6.3E-19 1.4E-23 144.8 11.2 120 175-303 3-132 (132)
12 PF01693 Cauli_VI: Caulimoviru 99.7 2.4E-18 5.2E-23 115.3 4.3 44 7-54 1-44 (44)
13 PF13456 RVT_3: Reverse transc 99.6 8.6E-16 1.9E-20 116.8 9.3 86 217-303 1-86 (87)
14 KOG1812 Predicted E3 ubiquitin 96.5 0.0048 1E-07 60.0 6.2 115 190-304 18-138 (384)
15 PF05380 Peptidase_A17: Pao re 84.5 6.3 0.00014 33.3 8.2 56 174-233 80-142 (159)
16 cd01284 Riboflavin_deaminase-r 56.8 31 0.00068 27.6 5.5 50 191-246 19-68 (115)
17 cd01285 nucleoside_deaminase N 53.8 44 0.00095 26.1 5.8 60 191-250 17-78 (109)
18 COG0590 CumB Cytosine/adenosin 53.5 30 0.00066 29.1 5.1 64 190-253 27-92 (152)
19 PRK14828 undecaprenyl pyrophos 53.4 40 0.00086 31.1 6.3 31 216-246 51-81 (256)
20 PRK14827 undecaprenyl pyrophos 48.7 41 0.00089 31.7 5.6 33 214-246 89-121 (296)
21 PRK14841 undecaprenyl pyrophos 47.3 51 0.0011 29.9 5.9 33 214-246 25-57 (233)
22 TIGR00055 uppS undecaprenyl di 47.1 51 0.0011 29.8 5.8 49 196-246 5-53 (226)
23 PRK14840 undecaprenyl pyrophos 46.4 56 0.0012 30.0 6.0 31 216-246 46-76 (250)
24 PRK14834 undecaprenyl pyrophos 46.0 69 0.0015 29.4 6.6 31 216-246 38-68 (249)
25 PRK14835 undecaprenyl pyrophos 45.5 72 0.0016 29.7 6.7 30 217-246 66-95 (275)
26 PRK14837 undecaprenyl pyrophos 44.8 62 0.0013 29.3 6.0 32 215-246 29-60 (230)
27 PRK14839 undecaprenyl pyrophos 41.6 65 0.0014 29.4 5.6 31 216-246 33-63 (239)
28 PRK14842 undecaprenyl pyrophos 40.8 71 0.0015 29.1 5.8 32 215-246 31-62 (241)
29 cd00475 CIS_IPPS Cis (Z)-Isopr 40.1 72 0.0016 28.7 5.6 33 214-246 22-54 (221)
30 PF01071 GARS_A: Phosphoribosy 39.1 22 0.00047 31.4 2.1 25 36-60 14-38 (194)
31 PRK14833 undecaprenyl pyrophos 37.9 93 0.002 28.2 6.0 32 215-246 27-58 (233)
32 PRK14836 undecaprenyl pyrophos 36.3 72 0.0016 29.3 5.1 42 216-264 38-79 (253)
33 PF14657 Integrase_AP2: AP2-li 35.9 32 0.00069 22.6 2.1 16 43-58 22-37 (46)
34 PRK14832 undecaprenyl pyrophos 35.5 84 0.0018 28.9 5.4 32 215-246 41-72 (253)
35 COG0450 AhpC Peroxiredoxin [Po 35.2 1.6E+02 0.0034 26.0 6.7 46 190-236 122-167 (194)
36 PRK10860 tRNA-specific adenosi 34.9 92 0.002 26.8 5.3 60 192-252 34-95 (172)
37 PRK14829 undecaprenyl pyrophos 33.8 1E+02 0.0022 28.2 5.7 32 215-246 37-68 (243)
38 PRK14831 undecaprenyl pyrophos 33.8 1E+02 0.0022 28.2 5.7 32 215-246 43-74 (249)
39 COG0295 Cdd Cytidine deaminase 33.6 1.5E+02 0.0032 24.6 6.1 53 193-246 28-81 (134)
40 PRK14838 undecaprenyl pyrophos 33.3 1.1E+02 0.0023 28.1 5.7 32 215-246 33-64 (242)
41 PF00336 DNA_pol_viral_C: DNA 31.7 42 0.0009 29.9 2.6 93 175-292 94-186 (245)
42 PTZ00349 dehydrodolichyl dipho 31.5 1.3E+02 0.0027 28.8 6.0 31 216-246 43-73 (322)
43 PF00383 dCMP_cyt_deam_1: Cyti 30.9 80 0.0017 23.9 3.9 54 190-244 23-78 (102)
44 PRK14830 undecaprenyl pyrophos 30.5 1.3E+02 0.0028 27.6 5.8 30 217-246 47-76 (251)
45 PRK13191 putative peroxiredoxi 29.9 1.2E+02 0.0027 26.8 5.5 42 194-236 126-167 (215)
46 PRK15000 peroxidase; Provision 29.3 1.4E+02 0.0031 26.1 5.7 44 192-236 125-168 (200)
47 smart00441 FF Contains two con 25.7 63 0.0014 21.6 2.2 34 19-58 19-52 (55)
48 PRK10382 alkyl hydroperoxide r 25.5 1.8E+02 0.0039 25.2 5.6 42 193-235 120-161 (187)
49 TIGR01354 cyt_deam_tetra cytid 24.5 2E+02 0.0044 23.2 5.4 54 192-246 22-76 (127)
50 PF05830 NodZ: Nodulation prot 24.5 1E+02 0.0023 29.2 4.1 63 190-255 167-232 (321)
51 PF12441 DUF3680: Protein of u 23.4 72 0.0016 20.9 2.0 17 44-60 7-23 (42)
52 PF10827 DUF2552: Protein of u 22.6 68 0.0015 23.5 1.9 16 43-58 56-71 (79)
53 COG0020 UppS Undecaprenyl pyro 22.6 2.4E+02 0.0052 25.8 6.0 32 216-247 40-71 (245)
54 PTZ00137 2-Cys peroxiredoxin; 21.9 1.9E+02 0.0041 26.7 5.3 42 194-236 190-231 (261)
55 TIGR03757 conj_TIGR03757 integ 21.9 52 0.0011 26.4 1.3 76 175-250 3-96 (113)
56 KOG0237 Glycinamide ribonucleo 21.1 75 0.0016 32.9 2.6 25 35-59 119-143 (788)
57 COG0151 PurD Phosphoribosylami 20.8 87 0.0019 31.0 2.9 25 36-60 115-139 (428)
58 PF07511 DUF1525: Protein of u 20.8 53 0.0011 26.4 1.2 33 218-250 62-95 (114)
59 PRK13190 putative peroxiredoxi 20.3 2.6E+02 0.0056 24.4 5.6 43 193-236 118-160 (202)
No 1
>KOG3752 consensus Ribonuclease H [Replication, recombination and repair]
Probab=99.96 E-value=5.1e-29 Score=231.97 Aligned_cols=128 Identities=29% Similarity=0.259 Sum_probs=98.4
Q ss_pred ceEEEEEcCcccCCCC---ceEEEEEEEeCCCcEEEEeeccc--CCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHH
Q 021004 174 YSCTLEFDGASKGNPG---QAGAGAVLRAEDGSVVYRLREGV--GIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKL 248 (318)
Q Consensus 174 ~~~~iytDGS~~~~~~---~~G~Gvvi~~~~g~~~~~~~~~~--~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~ 248 (318)
+.++|||||||..|+. .+||||++.+++... .++++ +.+|||+|||.|+++||+.|++.++.+|+|.|||++
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 4689999999998764 499999998765432 23333 579999999999999999999998889999999999
Q ss_pred HHHHHcc--------cccccc--------hhHHHHHHHHHHHHhcC--CcEEE----EEeCCcccHHHHHHHHHHhcC
Q 021004 249 VCMQIQG--------LWKINN--------QNLAGLCKEAKELKEKF--QSFQI----NHILRNLNSEADAQANMGIYL 304 (318)
Q Consensus 249 vi~~l~~--------~w~~~~--------~~~~~l~~~i~~l~~~f--~~v~~----~Hv~r~~Ne~AD~LAk~A~~~ 304 (318)
+|++|+- +|+..+ ..+.+.+..+.+|.+.. ..|++ +|.+..+|++||.||+++..+
T Consensus 288 ~i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~~ 365 (371)
T KOG3752|consen 288 FINSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADALARKGSTL 365 (371)
T ss_pred HHHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHHHhhhhhh
Confidence 9999983 344332 13456777777766652 33433 666789999999999998544
No 2
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.93 E-value=3.1e-25 Score=182.62 Aligned_cols=126 Identities=34% Similarity=0.487 Sum_probs=113.0
Q ss_pred EEEEEcCcccCCCCceEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHHcc
Q 021004 176 CTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQG 255 (318)
Q Consensus 176 ~~iytDGS~~~~~~~~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l~~ 255 (318)
++|||||||+.+++.+|+|+++++.++... .....+..||++||++|++.||+.+.+.+.++|+|+|||++|++++++
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 689999999999999999999998776543 333446789999999999999999999999999999999999999999
Q ss_pred cccccchhHHHHHHHHHHHHhcCCcEEEEEeCCcccHHHHHHHHHHhcC
Q 021004 256 LWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNSEADAQANMGIYL 304 (318)
Q Consensus 256 ~w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~r~~Ne~AD~LAk~A~~~ 304 (318)
.|. ++..+.+|+++++.+..+|..+.+.|++|++|+.||.||+.|+..
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 886 445789999999999999999999999999999999999999753
No 3
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.93 E-value=3.4e-25 Score=185.87 Aligned_cols=128 Identities=36% Similarity=0.398 Sum_probs=108.8
Q ss_pred eEEEEEcCcccCCCCceEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHHc
Q 021004 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQ 254 (318)
Q Consensus 175 ~~~iytDGS~~~~~~~~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l~ 254 (318)
.+.|||||+|.+|+|.+|||+|++..+++. .++.....+|||+|||+|+++||+.+.+.+...|+|+|||+||++.|+
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 589999999999999999999999766543 455566689999999999999999999999999999999999999999
Q ss_pred ccc----cccc--------hhHHHHHHHHHHHHhcCCcE----EEEEeCCcccHHHHHHHHHHhcCC
Q 021004 255 GLW----KINN--------QNLAGLCKEAKELKEKFQSF----QINHILRNLNSEADAQANMGIYLK 305 (318)
Q Consensus 255 ~~w----~~~~--------~~~~~l~~~i~~l~~~f~~v----~~~Hv~r~~Ne~AD~LAk~A~~~~ 305 (318)
.| +.+. ..+++||+++..+..+|..| ..+|.++++|++||.||+.|+...
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 44 3222 15789999999999887444 456667999999999999998765
No 4
>PRK07708 hypothetical protein; Validated
Probab=99.91 E-value=1e-23 Score=188.41 Aligned_cols=132 Identities=29% Similarity=0.400 Sum_probs=114.9
Q ss_pred ceEEEEEcCcccCCCCceEEEEEEEeCCCcEEEEee--ccc-CCCcchHHHHHHHHHHHHHHHHcCCee--EEEEcCcHH
Q 021004 174 YSCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLR--EGV-GIATNNVAEYRALILGLKYALQKGYKH--IRVQGDSKL 248 (318)
Q Consensus 174 ~~~~iytDGS~~~~~~~~G~Gvvi~~~~g~~~~~~~--~~~-~~~Tnn~AEl~Ail~AL~~a~~~g~~~--v~I~tDS~~ 248 (318)
+.++||||||++++++.+|+|+++++..+....... ..+ ...|||+||+.|++.||+.|.++|++. |.|++||++
T Consensus 72 ~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~g~~~~~V~I~~DSql 151 (219)
T PRK07708 72 HEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEELGVKHEPVTFRGDSQV 151 (219)
T ss_pred CcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHcCCCcceEEEEeccHH
Confidence 579999999999999999999999987665333222 233 358999999999999999999999865 899999999
Q ss_pred HHHHHcccccccchhHHHHHHHHHHHHhcCC-cEEEEEeCCcccHHHHHHHHHHhcCC
Q 021004 249 VCMQIQGLWKINNQNLAGLCKEAKELKEKFQ-SFQINHILRNLNSEADAQANMGIYLK 305 (318)
Q Consensus 249 vi~~l~~~w~~~~~~~~~l~~~i~~l~~~f~-~v~~~Hv~r~~Ne~AD~LAk~A~~~~ 305 (318)
|++++++.|+++++.+..+.+.+..+..+|. .+.+.||+|+.|+.||+||+.|++..
T Consensus 152 Vi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~~N~~AD~LAk~Al~~~ 209 (219)
T PRK07708 152 VLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRKQNKEADQLATQALEGT 209 (219)
T ss_pred HHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCchhhhHHHHHHHHHHhcC
Confidence 9999999999999989999999998888875 47889999999999999999999854
No 5
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional
Probab=99.90 E-value=6.8e-23 Score=197.60 Aligned_cols=140 Identities=40% Similarity=0.551 Sum_probs=127.3
Q ss_pred eEEEEEcCcccCCCCceEEEEEEEeCCCc-EEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHH
Q 021004 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGS-VVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQI 253 (318)
Q Consensus 175 ~~~iytDGS~~~~~~~~G~Gvvi~~~~g~-~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l 253 (318)
.++|||||||++|++.+|+|+++++.++. .+...+...+..|||.||+.|++.||+.+.+.+.++|+|++||++|++++
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 57899999999999999999999998654 45566666778999999999999999999999999999999999999999
Q ss_pred cccccccchhHHHHHHHHHHHHhcCCcEEEEEeCCcccHHHHHHHHHHhcCCCCceecccC
Q 021004 254 QGLWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNSEADAQANMGIYLKDGQVEAECS 314 (318)
Q Consensus 254 ~~~w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~r~~Ne~AD~LAk~A~~~~~~~~~~~~~ 314 (318)
++.|+.++..+..|+.+++.+..+|..+.+.|++|++|+.||.||+.|+......+|.+.+
T Consensus 82 ~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r~~N~~AD~LA~~a~~~~~~~~~~~~~ 142 (372)
T PRK07238 82 SGRWKVKHPDMKPLAAQARELASQFGRVTYTWIPRARNAHADRLANEAMDAAAGGEPWGPS 142 (372)
T ss_pred CCCCccCChHHHHHHHHHHHHHhcCCceEEEECCchhhhHHHHHHHHHHHhhccCCCcccc
Confidence 9999999889999999999999999999999999999999999999999888777766543
No 6
>PRK06548 ribonuclease H; Provisional
Probab=99.89 E-value=1e-22 Score=173.40 Aligned_cols=125 Identities=26% Similarity=0.228 Sum_probs=99.1
Q ss_pred ceEEEEEcCcccCCCCceEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHH
Q 021004 174 YSCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQI 253 (318)
Q Consensus 174 ~~~~iytDGS~~~~~~~~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l 253 (318)
..+.|||||+|++|++.+|||+++.+. + ...+..+..|||+|||+|++.||+.+. ....+|.|+|||+|+++++
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 468999999999999999999998642 1 234455678999999999999998554 3445799999999999999
Q ss_pred cc--------cccccch---hHHHHHHHHHHHHhcC---CcEEEEEeCCcccHHHHHHHHHHhcC
Q 021004 254 QG--------LWKINNQ---NLAGLCKEAKELKEKF---QSFQINHILRNLNSEADAQANMGIYL 304 (318)
Q Consensus 254 ~~--------~w~~~~~---~~~~l~~~i~~l~~~f---~~v~~~Hv~r~~Ne~AD~LAk~A~~~ 304 (318)
+. +|+..+. .+++||++|..++... ..++.+|++.++|+.||+||++|+..
T Consensus 78 ~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~ 142 (161)
T PRK06548 78 TKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMENRNIRMSWVNAHTGHPLNEAADSLARQAANN 142 (161)
T ss_pred HHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhcCceEEEEEecCCCCHHHHHHHHHHHHHHHH
Confidence 95 4544332 5799999999987653 12334788899999999999999854
No 7
>PRK08719 ribonuclease H; Reviewed
Probab=99.88 E-value=1.1e-21 Score=165.42 Aligned_cols=126 Identities=25% Similarity=0.297 Sum_probs=98.5
Q ss_pred ceEEEEEcCcccCCCC---ceEEEEEEEeCCCcEEEEeeccc-CCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHH
Q 021004 174 YSCTLEFDGASKGNPG---QAGAGAVLRAEDGSVVYRLREGV-GIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLV 249 (318)
Q Consensus 174 ~~~~iytDGS~~~~~~---~~G~Gvvi~~~~g~~~~~~~~~~-~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~v 249 (318)
..++|||||||.+|++ .+|+|+++.+.++..+...+... +..|||+|||+|++.||+.+.+. ..|+|||+||
T Consensus 3 ~~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~----~~i~tDS~yv 78 (147)
T PRK08719 3 ASYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDG----DVIYSDSDYC 78 (147)
T ss_pred ceEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCC----CEEEechHHH
Confidence 3689999999998876 58999999887776544444333 35799999999999999988653 4799999999
Q ss_pred HHHHc--------ccccccch---hHHHHHHHHHHHHhcCCcEEE----EEeCCcccHHHHHHHHHHhcC
Q 021004 250 CMQIQ--------GLWKINNQ---NLAGLCKEAKELKEKFQSFQI----NHILRNLNSEADAQANMGIYL 304 (318)
Q Consensus 250 i~~l~--------~~w~~~~~---~~~~l~~~i~~l~~~f~~v~~----~Hv~r~~Ne~AD~LAk~A~~~ 304 (318)
++.++ ++|+.... .+++||+.|..+... ..+.+ +|.+.++|+.||+||+.|+.+
T Consensus 79 i~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~~-~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~~ 147 (147)
T PRK08719 79 VRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRAR-KYVEVEKVTAHSGIEGNEAADMLAQAAAEL 147 (147)
T ss_pred HHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhCC-CcEEEEEecCCCCChhHHHHHHHHHHHhhC
Confidence 99995 56765543 568999999888764 33444 566669999999999998753
No 8
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.87 E-value=1.1e-21 Score=166.07 Aligned_cols=128 Identities=27% Similarity=0.292 Sum_probs=99.9
Q ss_pred eEEEEEcCcccCCCCceEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHHc
Q 021004 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQ 254 (318)
Q Consensus 175 ~~~iytDGS~~~~~~~~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l~ 254 (318)
.+.|||||||+++++.+|+|+++...+.. ..+.+..+..|||+|||+|++.||+.+.+. ..|.|+|||+++++.|+
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~~--~~~~~~~~~~TN~~aEL~Ai~~AL~~~~~~--~~v~I~tDS~yvi~~i~ 78 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILRYKGHE--KELSGGEALTTNNRMELMAAIEALEALKEP--CEVTLYTDSQYVRQGIT 78 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEEECCee--EEEecCCCCCcHHHHHHHHHHHHHHHcCCC--CeEEEEECHHHHHHHHH
Confidence 58999999999999999999999865432 344455567899999999999999987542 57999999999999888
Q ss_pred c---cccccc--------hhHHHHHHHHHHHHhcCCcEEE----EEeCCcccHHHHHHHHHHhcCCCC
Q 021004 255 G---LWKINN--------QNLAGLCKEAKELKEKFQSFQI----NHILRNLNSEADAQANMGIYLKDG 307 (318)
Q Consensus 255 ~---~w~~~~--------~~~~~l~~~i~~l~~~f~~v~~----~Hv~r~~Ne~AD~LAk~A~~~~~~ 307 (318)
+ .|+.+. -.+++||+++..++.. ..|.+ +|.++++|+.||+||+.|+..+..
T Consensus 79 ~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~-~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~~~ 145 (150)
T PRK00203 79 EWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKR-HQIKWHWVKGHAGHPENERCDELARAGAEEATL 145 (150)
T ss_pred HHHHHHHHcCCcccCCCccccHHHHHHHHHHhcc-CceEEEEecCCCCCHHHHHHHHHHHHHHHHhhh
Confidence 5 343332 1467899999887765 23444 566689999999999999876543
No 9
>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=99.82 E-value=5.3e-19 Score=141.44 Aligned_cols=126 Identities=33% Similarity=0.400 Sum_probs=109.3
Q ss_pred EEEEcCcccCCCCceEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHHccc
Q 021004 177 TLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGL 256 (318)
Q Consensus 177 ~iytDGS~~~~~~~~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l~~~ 256 (318)
+||||||+..+.+.+|+|+++.+.++.............+++.+|+.|++.||+++...+.+++.|++||+.+++.+++.
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 48999999877788999999999877655444333356789999999999999999998999999999999999999987
Q ss_pred ccccchhHHHHHHHHHHHHhcCCcEEEEEeCC----cccHHHHHHHHHHh
Q 021004 257 WKINNQNLAGLCKEAKELKEKFQSFQINHILR----NLNSEADAQANMGI 302 (318)
Q Consensus 257 w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~r----~~Ne~AD~LAk~A~ 302 (318)
+......+..++..+..+..++..+.+.|+++ ..|..||.||+.|+
T Consensus 81 ~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 81 YEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred ccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 66556678889999999888888999999999 99999999999874
No 10
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=99.80 E-value=2.4e-19 Score=155.61 Aligned_cols=49 Identities=35% Similarity=0.603 Sum_probs=46.9
Q ss_pred CceEEEEeCCccccccChHHHHHHhccccCCCCcceecCCCCHHHHHHHHHhc
Q 021004 6 DAFYVVRKGDVVGIYKTLSDCQLQAGFSVRDPSLTVYKGYGLSKEAEEYLASH 58 (318)
Q Consensus 6 ~~~yav~~g~~~gi~~~w~~~~~~~~~~~~~~~~~~~k~f~~~~~a~~~~~~~ 58 (318)
.+||||++||+||||+||+||.+||. ||+||.||+|.+.+||+.|++++
T Consensus 5 ~nyYaVk~GR~tGIyktW~Ec~~qVk----Gy~ga~YKsf~s~EeA~a~~~g~ 53 (225)
T COG3341 5 KNYYAVKKGRKTGIYKTWDECEKQVK----GYPGAKYKSFKSYEEAEAYCEGN 53 (225)
T ss_pred cceeEEecccccceeccHHHHHHHhc----CCCcccccccccHHHHHHHhccC
Confidence 34999999999999999999999999 99999999999999999999983
No 11
>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=99.79 E-value=6.3e-19 Score=144.82 Aligned_cols=120 Identities=28% Similarity=0.322 Sum_probs=88.5
Q ss_pred eEEEEEcCcccCCCCceEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHHc
Q 021004 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQ 254 (318)
Q Consensus 175 ~~~iytDGS~~~~~~~~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l~ 254 (318)
.++|||||||..+++.+|+|+++ ..+ . ......+..|++++||+|+++||+ ++ .. ++++|+|||+++++.++
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 333333488999999999999999 55 33 78999999999999888
Q ss_pred c-----cccccchhHHHHHHHHHHHHhcCCcEEEEEeCC-----cccHHHHHHHHHHhc
Q 021004 255 G-----LWKINNQNLAGLCKEAKELKEKFQSFQINHILR-----NLNSEADAQANMGIY 303 (318)
Q Consensus 255 ~-----~w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~r-----~~Ne~AD~LAk~A~~ 303 (318)
. .|.... ...+++.++..++.....+.+.||+. .+|+.||+||+.|+.
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 665432 11234445555555566677777764 399999999999873
No 12
>PF01693 Cauli_VI: Caulimovirus viroplasmin; InterPro: IPR011320 This entry represents the N-terminal domain of RNase HI, which has a 3-layer alpha/beta/alpha structure []. This domain is lacking in retroviral and prokaryotic enzymes, but shows a striking structural similarity to the ribosomal protein L9 N-terminal domain, and may function as a regulatory RNA-binding module. However, the topology of this domain differs from structures of known RNA binding domains such as the double-stranded RNA binding domain (dsRBD), the hnRNP K homology (KH) domain and the RNP motif. Eukaryotic RNases HI possess either one or two copies of this small N-terminal domain, in addition to the well-conserved catalytic RNase H domain. RNase HI belongs to the family of ribonuclease H enzymes that recognise RNA:DNA hybrids and degrade the RNA component. ; PDB: 1QHK_A 3BSU_C.
Probab=99.73 E-value=2.4e-18 Score=115.29 Aligned_cols=44 Identities=32% Similarity=0.636 Sum_probs=39.4
Q ss_pred ceEEEEeCCccccccChHHHHHHhccccCCCCcceecCCCCHHHHHHH
Q 021004 7 AFYVVRKGDVVGIYKTLSDCQLQAGFSVRDPSLTVYKGYGLSKEAEEY 54 (318)
Q Consensus 7 ~~yav~~g~~~gi~~~w~~~~~~~~~~~~~~~~~~~k~f~~~~~a~~~ 54 (318)
|||||..||++|||++|++|++||. |+||+.||+|.|++||++|
T Consensus 1 k~YaV~~G~~~GIy~~W~~~~~~v~----g~~ga~~k~F~t~~eA~~~ 44 (44)
T PF01693_consen 1 KYYAVFNGRQPGIYTSWAECKKQVS----GYPGAIYKSFKTREEAEEF 44 (44)
T ss_dssp -EEEEECSSS-EEECCHHHHHHHCT----T-TT-EEEEESSHHHHHHH
T ss_pred CEEEEEeCCCCCeECCHHHHHHHhC----CCCCceECCcCCHHHHhhC
Confidence 6999999999999999999999999 9999999999999999987
No 13
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.64 E-value=8.6e-16 Score=116.76 Aligned_cols=86 Identities=31% Similarity=0.390 Sum_probs=75.0
Q ss_pred chHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHHcccccccchhHHHHHHHHHHHHhcCCcEEEEEeCCcccHHHHH
Q 021004 217 NNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGLWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNSEADA 296 (318)
Q Consensus 217 nn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l~~~w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~r~~Ne~AD~ 296 (318)
++.||+.|++.||++|.++|+++|+|+|||+.+++.+++.+.... .+..++++|+.+...|..+.+.|++|+.|..||.
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 467999999999999999999999999999999999999877777 7889999999999999999999999999999999
Q ss_pred HHHHHhc
Q 021004 297 QANMGIY 303 (318)
Q Consensus 297 LAk~A~~ 303 (318)
||+.|+.
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 14
>KOG1812 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=96.54 E-value=0.0048 Score=60.04 Aligned_cols=115 Identities=23% Similarity=0.240 Sum_probs=82.2
Q ss_pred ceEEEEEEEeC-CCcEEEEeecccC---CCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHHcccccccch-hH
Q 021004 190 QAGAGAVLRAE-DGSVVYRLREGVG---IATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGLWKINNQ-NL 264 (318)
Q Consensus 190 ~~G~Gvvi~~~-~g~~~~~~~~~~~---~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l~~~w~~~~~-~~ 264 (318)
.+|.|+.+.+. +....+....... ..+...||+.|+..+|..++..++..+.++.|+..+...+.+..+.... .+
T Consensus 18 ~~g~~vai~d~~d~~~~f~~k~~~~~~~~~~~~~ae~~al~~~l~ea~~~~~~~~~~~~d~~~~~~~v~~~~~~~~~~~~ 97 (384)
T KOG1812|consen 18 LAGFGVAICDEHDDDLLFQMKASDHDSDSITPLEAELMALKRGLTEALELGLNHIVIYCDDELIYESVAGREKPEQHRKI 97 (384)
T ss_pred cccCceeeeccccHHHHHHhhcCcccccccchhhHHHHHHhhccHHHHhhccccceEecccHHHHHHHhhhhhHHHHHHH
Confidence 57889988875 3332233222222 3667788999999999999999999999999998888888887666554 56
Q ss_pred HHHHHHHHHHHhcCCcEEEEEeCC-cccHHHHHHHHHHhcC
Q 021004 265 AGLCKEAKELKEKFQSFQINHILR-NLNSEADAQANMGIYL 304 (318)
Q Consensus 265 ~~l~~~i~~l~~~f~~v~~~Hv~r-~~Ne~AD~LAk~A~~~ 304 (318)
..++.++..+..++.....-.+.+ .....|-.||+++...
T Consensus 98 ~~l~~~v~~~r~~l~~~~~i~~~~~~d~~~~~~lA~e~i~s 138 (384)
T KOG1812|consen 98 VLLVELVQRIREQLTSSEPILVPKNADIKFAYKLAREAIVS 138 (384)
T ss_pred HHHHHHHHHHHHHhhcccceecccchhhHHHHHHHHHhhcc
Confidence 677777777777765443344433 2445699999999875
No 15
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=84.49 E-value=6.3 Score=33.30 Aligned_cols=56 Identities=30% Similarity=0.269 Sum_probs=33.9
Q ss_pred ceEEEEEcCcccCCCCceEEEEEEEe-CCCcEEEEeec---c---cCCCcchHHHHHHHHHHHHHHH
Q 021004 174 YSCTLEFDGASKGNPGQAGAGAVLRA-EDGSVVYRLRE---G---VGIATNNVAEYRALILGLKYAL 233 (318)
Q Consensus 174 ~~~~iytDGS~~~~~~~~G~Gvvi~~-~~g~~~~~~~~---~---~~~~Tnn~AEl~Ail~AL~~a~ 233 (318)
-.+.+|+|+|-. .+|..++++. .++.....+.. . ....|-.+.||.|++.|.+++.
T Consensus 80 ~~L~~F~DAS~~----aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~ 142 (159)
T PF05380_consen 80 VELHVFCDASES----AYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLAN 142 (159)
T ss_pred eeeeEeeccccc----ceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHH
Confidence 368999999953 2333344444 33332222211 1 1235778899999999999875
No 16
>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=56.84 E-value=31 Score=27.59 Aligned_cols=50 Identities=20% Similarity=0.066 Sum_probs=31.4
Q ss_pred eEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 191 AGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 191 ~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
.-+|+++.+.+|+++....... .....||+.||..|.+. .....++|+--
T Consensus 19 ~pvGaviv~~~g~iv~~g~n~~--~~~~HAE~~ai~~a~~~----~l~g~tly~Tl 68 (115)
T cd01284 19 PPVGCVIVDDDGEIVGEGYHRK--AGGPHAEVNALASAGEK----LARGATLYVTL 68 (115)
T ss_pred CCEEEEEEeCCCeEEEEecCCC--CCcccHHHHHHHHHhhc----CCCCeEEEEeC
Confidence 3578888777777665433222 24567999999988764 33445565443
No 17
>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=53.76 E-value=44 Score=26.14 Aligned_cols=60 Identities=18% Similarity=0.035 Sum_probs=36.7
Q ss_pred eEEEEEEEeCCCcEEEEeecccC--CCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHH
Q 021004 191 AGAGAVLRAEDGSVVYRLREGVG--IATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVC 250 (318)
Q Consensus 191 ~G~Gvvi~~~~g~~~~~~~~~~~--~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi 250 (318)
..+|+++.+.+++++....-... ......||+.||..+.+..........+||+--+-..
T Consensus 17 ~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~t~EPC~ 78 (109)
T cd01285 17 VPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTLEPCP 78 (109)
T ss_pred CcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEEeCCChH
Confidence 45788888877776554332221 2234678999999887753322345677777655443
No 18
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=53.50 E-value=30 Score=29.10 Aligned_cols=64 Identities=17% Similarity=0.055 Sum_probs=40.3
Q ss_pred ceEEEEEEEeCCCcEEEEeecccC-C-CcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHH
Q 021004 190 QAGAGAVLRAEDGSVVYRLREGVG-I-ATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQI 253 (318)
Q Consensus 190 ~~G~Gvvi~~~~g~~~~~~~~~~~-~-~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l 253 (318)
...+|++|.+.++.++........ . .-...||+.||..|.+.+.....+..++|+=-+-...|.
T Consensus 27 e~PvGaviV~~~~~ii~~~~N~~~~~~dptaHAEi~air~a~~~~~~~~l~~~tlyvT~EPC~MCa 92 (152)
T COG0590 27 EVPVGAVIVDADGEIIARGHNRREEDNDPTAHAEILAIRAAAETLGNYRLKDCTLYVTLEPCPMCA 92 (152)
T ss_pred CCCEEEEEEcCCCCEEEEecCccccCCCccccHHHHHHHHHHHhhCCCCcCCcEEEEecCCHHHHH
Confidence 456888888877776654432221 1 112378999999999877554455667776655555443
No 19
>PRK14828 undecaprenyl pyrophosphate synthase; Provisional
Probab=53.42 E-value=40 Score=31.06 Aligned_cols=31 Identities=10% Similarity=-0.124 Sum_probs=25.9
Q ss_pred cchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 216 TNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 216 Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
.-..+-+.++...++++.+.|++.|++|.=|
T Consensus 51 ~GH~~G~~~l~~~~~~~~~~gIk~lTvYaFS 81 (256)
T PRK14828 51 QGHRAGAAKIGEFLGWCDETDVNVVTLYLLS 81 (256)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEEEEEE
Confidence 3456788888999999999999999998876
No 20
>PRK14827 undecaprenyl pyrophosphate synthase; Provisional
Probab=48.65 E-value=41 Score=31.67 Aligned_cols=33 Identities=15% Similarity=-0.032 Sum_probs=27.5
Q ss_pred CCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 214 IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 214 ~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
...-..+-..++..-|+++.+.|++.|++|.=|
T Consensus 89 ~~~GH~~G~~~l~~v~~~c~~lGI~~lTvYaFS 121 (296)
T PRK14827 89 RTEGHKMGEAVVIDIACGAIELGIKWLSLYAFS 121 (296)
T ss_pred HhHHHHHHHHHHHHHHHHHHHcCCCEEEEeeec
Confidence 334566788889999999999999999999766
No 21
>PRK14841 undecaprenyl pyrophosphate synthase; Provisional
Probab=47.32 E-value=51 Score=29.91 Aligned_cols=33 Identities=18% Similarity=0.108 Sum_probs=27.6
Q ss_pred CCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 214 IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 214 ~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
...-..+-..++..-++++.++|++.|++|.=|
T Consensus 25 ~~~GH~~G~~~l~~i~~~~~~lgIk~lTvYaFS 57 (233)
T PRK14841 25 RIKGHQRGAEVLHNTVKWSLELGIKYLTAFSFS 57 (233)
T ss_pred hhhhHHHHHHHHHHHHHHHHHcCCCEEEEEeee
Confidence 344567788899999999999999999999766
No 22
>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=47.12 E-value=51 Score=29.77 Aligned_cols=49 Identities=16% Similarity=0.182 Sum_probs=34.6
Q ss_pred EEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 196 VLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 196 vi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
+|-|+++++-. ....+...-..+-..++...++++.+.|++.|++|.=|
T Consensus 5 iImDGNrRwAk--~~gl~~~~GH~~G~~~~~~v~~~c~~~GI~~lT~yaFS 53 (226)
T TIGR00055 5 IIMDGNGRWAK--KKGKPRAYGHKAGVKSLRRILRWCANLGVECLTLYAFS 53 (226)
T ss_pred EEcCCCHHHHH--HCCCChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 44566665311 11223344567788899999999999999999999876
No 23
>PRK14840 undecaprenyl pyrophosphate synthase; Provisional
Probab=46.40 E-value=56 Score=30.00 Aligned_cols=31 Identities=16% Similarity=0.076 Sum_probs=26.9
Q ss_pred cchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 216 TNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 216 Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
.-..+-+.++..-|+++.+.|++.|++|.=|
T Consensus 46 ~GH~~G~~~l~~v~~~c~~~GIk~lTvYaFS 76 (250)
T PRK14840 46 SGHYYGAKSLPQIVDTALHLGIEVLTLFAFS 76 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 3467788999999999999999999999766
No 24
>PRK14834 undecaprenyl pyrophosphate synthase; Provisional
Probab=46.04 E-value=69 Score=29.38 Aligned_cols=31 Identities=19% Similarity=0.025 Sum_probs=26.4
Q ss_pred cchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 216 TNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 216 Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
.-..+-+..+...|+++.+.|++.|++|.-|
T Consensus 38 ~GH~~G~~~l~~i~~~c~~lgI~~lTvYaFS 68 (249)
T PRK14834 38 AGHRAGVEALRRVVRAAGELGIGYLTLFAFS 68 (249)
T ss_pred hhHHHHHHHHHHHHHHHHHcCCCEEEEEEEe
Confidence 3456788888999999999999999999877
No 25
>PRK14835 undecaprenyl pyrophosphate synthase; Provisional
Probab=45.52 E-value=72 Score=29.71 Aligned_cols=30 Identities=13% Similarity=0.055 Sum_probs=26.2
Q ss_pred chHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 217 NNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 217 nn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
-..+-+..+..-++++.+.|++.|++|.-|
T Consensus 66 GH~~G~~~l~~i~~~c~~lGIk~lTvYaFS 95 (275)
T PRK14835 66 GHEFGVQKAYEVLEWCLELGIPTVTIWVFS 95 (275)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCEEEEEEEE
Confidence 456788889999999999999999999877
No 26
>PRK14837 undecaprenyl pyrophosphate synthase; Provisional
Probab=44.80 E-value=62 Score=29.32 Aligned_cols=32 Identities=16% Similarity=-0.003 Sum_probs=27.3
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 215 ATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 215 ~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
..-..+-..++..-++++.++|++.|++|.=|
T Consensus 29 ~~GH~~G~~~~~~i~~~c~~~GI~~lT~YaFS 60 (230)
T PRK14837 29 FEGHKEGLKRAKEIVKHSLKLGIKYLSLYVFS 60 (230)
T ss_pred hhhHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 34567788899999999999999999999766
No 27
>PRK14839 undecaprenyl pyrophosphate synthase; Provisional
Probab=41.61 E-value=65 Score=29.37 Aligned_cols=31 Identities=16% Similarity=0.040 Sum_probs=26.3
Q ss_pred cchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 216 TNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 216 Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
.-..+-+.++..-|+++.+.|++.|++|.=|
T Consensus 33 ~GH~~G~~~l~~i~~~c~~~GI~~lTvYaFS 63 (239)
T PRK14839 33 AGHRAGVEAIRRVVEAAPDLGIGTLTLYAFS 63 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEEEEec
Confidence 3456788889999999999999999999766
No 28
>PRK14842 undecaprenyl pyrophosphate synthase; Provisional
Probab=40.84 E-value=71 Score=29.15 Aligned_cols=32 Identities=19% Similarity=0.123 Sum_probs=26.9
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 215 ATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 215 ~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
..-.++-+..+..-|+++.+.|++.|++|.=|
T Consensus 31 ~~GH~~G~~~l~~i~~~c~~lgI~~vTvYaFS 62 (241)
T PRK14842 31 SEGHREGANAIDRLMDASLEYGLKNISLYAFS 62 (241)
T ss_pred hHhHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 34567788889999999999999999999876
No 29
>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=40.11 E-value=72 Score=28.70 Aligned_cols=33 Identities=21% Similarity=0.146 Sum_probs=27.4
Q ss_pred CCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 214 IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 214 ~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
...-.++-+..+..-++++.+.|++.+++|.=|
T Consensus 22 ~~~GH~~G~~~~~~i~~~~~~~gI~~lTvyaFS 54 (221)
T cd00475 22 RIEGHKAGAEKLRDILRWCLELGVKEVTLYAFS 54 (221)
T ss_pred hhHhHHHHHHHHHHHHHHHHHcCCCEEEEEeec
Confidence 344567788889999999999999999999766
No 30
>PF01071 GARS_A: Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; InterPro: IPR020561 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the A-domain of the enzyme, and is related to the ATP-grasp domain of biotin carboxylase/carbamoyl phosphate synthetase.; PDB: 1GSO_A 3LP8_A 2IP4_A 1VKZ_A 2QK4_A 2XD4_A 2XCL_A 3MJF_A 2YRW_A 2YS6_A ....
Probab=39.06 E-value=22 Score=31.38 Aligned_cols=25 Identities=32% Similarity=0.389 Sum_probs=20.4
Q ss_pred CCCcceecCCCCHHHHHHHHHhcCC
Q 021004 36 DPSLTVYKGYGLSKEAEEYLASHGL 60 (318)
Q Consensus 36 ~~~~~~~k~f~~~~~a~~~~~~~~~ 60 (318)
|-|.|.|+.|.+.+||.+||+....
T Consensus 14 ~IPTa~~~~f~~~~~A~~~l~~~~~ 38 (194)
T PF01071_consen 14 GIPTAKYKVFTDYEEALEYLEEQGY 38 (194)
T ss_dssp T-SB--EEEESSHHHHHHHHHHHSS
T ss_pred CCCCCCeeEECCHHHHHHHHHhcCC
Confidence 8899999999999999999998764
No 31
>PRK14833 undecaprenyl pyrophosphate synthase; Provisional
Probab=37.89 E-value=93 Score=28.24 Aligned_cols=32 Identities=9% Similarity=-0.006 Sum_probs=27.2
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 215 ATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 215 ~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
..-..+-+.++...|+++.+.|++.|++|.=|
T Consensus 27 ~~GH~~G~~~l~~~~~~c~~~gI~~lTvyaFS 58 (233)
T PRK14833 27 AAGHKKGVKTLREITIWCANHKLECLTLYAFS 58 (233)
T ss_pred hhhHHHHHHHHHHHHHHHHHcCCCEEEEeecc
Confidence 34567788999999999999999999998766
No 32
>PRK14836 undecaprenyl pyrophosphate synthase; Provisional
Probab=36.33 E-value=72 Score=29.32 Aligned_cols=42 Identities=17% Similarity=0.256 Sum_probs=30.0
Q ss_pred cchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHHcccccccchhH
Q 021004 216 TNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGLWKINNQNL 264 (318)
Q Consensus 216 Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l~~~w~~~~~~~ 264 (318)
.-.++-+.++..-++++.+.|++.|++|.= .+..|+......
T Consensus 38 ~GH~~G~~~~~~iv~~c~~~gI~~lTvYaF-------S~eN~~R~~~EV 79 (253)
T PRK14836 38 EGHRAGVRAVRRTIEFCLEKGIEMLTLFAF-------SSENWLRPADEV 79 (253)
T ss_pred hhHHHHHHHHHHHHHHHHHcCCCEEehhHh-------hhhhcCCCHHHH
Confidence 345667778889999999999999999872 234565554433
No 33
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=35.88 E-value=32 Score=22.56 Aligned_cols=16 Identities=44% Similarity=0.588 Sum_probs=13.4
Q ss_pred cCCCCHHHHHHHHHhc
Q 021004 43 KGYGLSKEAEEYLASH 58 (318)
Q Consensus 43 k~f~~~~~a~~~~~~~ 58 (318)
.+|.|..||+.++...
T Consensus 22 ~GF~TkkeA~~~~~~~ 37 (46)
T PF14657_consen 22 RGFKTKKEAEKALAKI 37 (46)
T ss_pred CCCCcHHHHHHHHHHH
Confidence 4499999999999753
No 34
>PRK14832 undecaprenyl pyrophosphate synthase; Provisional
Probab=35.52 E-value=84 Score=28.91 Aligned_cols=32 Identities=19% Similarity=0.062 Sum_probs=27.2
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 215 ATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 215 ~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
..-.++-+.++..-++++.+.|++.|++|.=|
T Consensus 41 ~~GH~~G~~~l~~i~~~c~~~gI~~lTvyaFS 72 (253)
T PRK14832 41 IAGHRQGARTLKELLRCCKDWGIKALTAYAFS 72 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 34567788899999999999999999999876
No 35
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=35.18 E-value=1.6e+02 Score=26.05 Aligned_cols=46 Identities=24% Similarity=0.226 Sum_probs=32.9
Q ss_pred ceEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcC
Q 021004 190 QAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 236 (318)
Q Consensus 190 ~~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g 236 (318)
.+--|+++.|++|.+..... .......|.-|++.++.||++..++|
T Consensus 122 ~a~R~~FIIDp~g~ir~~~v-~~~~iGRn~dEilR~idAlq~~~~hg 167 (194)
T COG0450 122 LALRGTFIIDPDGVIRHILV-NPLTIGRNVDEILRVIDALQFVAKHG 167 (194)
T ss_pred cceeEEEEECCCCeEEEEEE-ecCCCCcCHHHHHHHHHHHHHHHHhC
Confidence 35568899999986433322 22244578889999999999987765
No 36
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=34.94 E-value=92 Score=26.80 Aligned_cols=60 Identities=20% Similarity=0.028 Sum_probs=33.0
Q ss_pred EEEEEEEeCCCcEEEEeeccc-C-CCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHH
Q 021004 192 GAGAVLRAEDGSVVYRLREGV-G-IATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQ 252 (318)
Q Consensus 192 G~Gvvi~~~~g~~~~~~~~~~-~-~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~ 252 (318)
-+|++|.+ +|+++....-.. . ......||+.||..|.+..........++|+--+-...|
T Consensus 34 pvGAVIV~-~g~IIa~g~N~~~~~~d~~~HAEi~Ai~~a~~~~~~~~l~g~tlY~TlEPC~MC 95 (172)
T PRK10860 34 PVGAVLVH-NNRVIGEGWNRPIGRHDPTAHAEIMALRQGGLVLQNYRLLDATLYVTLEPCVMC 95 (172)
T ss_pred CEEEEEEe-CCEEEEEeeCCCCCCCCCccCHHHHHHHHHHHhcCCCCcCCcEEEeeCCCcHHH
Confidence 46767765 466655432221 1 112356899999988764433333456666655444443
No 37
>PRK14829 undecaprenyl pyrophosphate synthase; Provisional
Probab=33.85 E-value=1e+02 Score=28.16 Aligned_cols=32 Identities=16% Similarity=0.024 Sum_probs=27.2
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 215 ATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 215 ~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
..-..+-..++..-++++.+.|++.|++|.=|
T Consensus 37 ~~GH~~G~~~l~~iv~~c~~~gI~~vTvYaFS 68 (243)
T PRK14829 37 TEGHKAGEPVLFDVVAGAIEAGVPYLSLYTFS 68 (243)
T ss_pred hHHHHHHHHHHHHHHHHHHHcCCCEEEEeeec
Confidence 34567788899999999999999999999766
No 38
>PRK14831 undecaprenyl pyrophosphate synthase; Provisional
Probab=33.81 E-value=1e+02 Score=28.21 Aligned_cols=32 Identities=16% Similarity=-0.034 Sum_probs=26.8
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 215 ATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 215 ~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
..-.++-+.++..-+.++.+.|++.|++|.=|
T Consensus 43 ~~GH~~G~~~l~~i~~~c~~~GI~~vT~yaFS 74 (249)
T PRK14831 43 IMGHRRGVDALKDLLRCCKDWGIGALTAYAFS 74 (249)
T ss_pred hhhHHHHHHHHHHHHHHHHHcCCCEEEEeecc
Confidence 34566788888999999999999999999877
No 39
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=33.63 E-value=1.5e+02 Score=24.56 Aligned_cols=53 Identities=21% Similarity=0.296 Sum_probs=33.3
Q ss_pred EEEEEEeCCCcEEEEeec-ccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 193 AGAVLRAEDGSVVYRLRE-GVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 193 ~Gvvi~~~~g~~~~~~~~-~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
.|++++..+|++.....- .....--..||-.||.+|+.. -...+..|.|++|.
T Consensus 28 VGAa~~t~~G~i~tG~NiEnasy~~t~CAErsAI~~ais~-G~~~~~~v~v~~~~ 81 (134)
T COG0295 28 VGAALRTKDGRIYTGANVENASYGLTVCAERSAIFKAISE-GKRKFDAVVVVADT 81 (134)
T ss_pred EEEEEEeCCCCEEEEEeeecccccchhhHHHHHHHHHHHc-CCCcEEEEEEEcCC
Confidence 566666667765433221 111233467899999999874 23335678899997
No 40
>PRK14838 undecaprenyl pyrophosphate synthase; Provisional
Probab=33.32 E-value=1.1e+02 Score=28.07 Aligned_cols=32 Identities=16% Similarity=0.034 Sum_probs=25.9
Q ss_pred CcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 215 ATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 215 ~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
..-..+-+..+..-|+++.+.|++.|++|.=|
T Consensus 33 ~~GH~~G~~~l~~i~~~~~~~gI~~lT~YaFS 64 (242)
T PRK14838 33 SFGHQAGAETVHIITEEAARLGVKFLTLYTFS 64 (242)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCCEEEEEeec
Confidence 34566788888888999999999999988766
No 41
>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=31.65 E-value=42 Score=29.92 Aligned_cols=93 Identities=14% Similarity=0.042 Sum_probs=52.8
Q ss_pred eEEEEEcCcccCCCCceEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCcHHHHHHHc
Q 021004 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQ 254 (318)
Q Consensus 175 ~~~iytDGS~~~~~~~~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~~vi~~l~ 254 (318)
...|++|+. ..|+|+.+.. +.....++.. .....+||+|+..|.-+. +.-.|-||+..|+.
T Consensus 94 lc~VfaDAT------pTgwgi~i~~--~~~~~Tfs~~---l~IhtaELlaaClAr~~~-----~~r~l~tDnt~Vls--- 154 (245)
T PF00336_consen 94 LCQVFADAT------PTGWGISITG--QRMRGTFSKP---LPIHTAELLAACLARLMS-----GARCLGTDNTVVLS--- 154 (245)
T ss_pred CCceeccCC------CCcceeeecC--ceeeeeeccc---ccchHHHHHHHHHHHhcc-----CCcEEeecCcEEEe---
Confidence 457899976 4577877643 3434555543 345678999987776422 23459999988763
Q ss_pred ccccccchhHHHHHHHHHHHHhcCCcEEEEEeCCcccH
Q 021004 255 GLWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNS 292 (318)
Q Consensus 255 ~~w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~r~~Ne 292 (318)
+++..--+.+.-+-+.|. ....+-.|+...|-
T Consensus 155 rkyts~PW~lac~A~wiL------rgts~~yVPS~~NP 186 (245)
T PF00336_consen 155 RKYTSFPWLLACAANWIL------RGTSFYYVPSKYNP 186 (245)
T ss_pred cccccCcHHHHHHHHHhh------cCceEEEeccccCc
Confidence 333222223333322221 23456667766664
No 42
>PTZ00349 dehydrodolichyl diphosphate synthetase; Provisional
Probab=31.46 E-value=1.3e+02 Score=28.81 Aligned_cols=31 Identities=19% Similarity=0.125 Sum_probs=26.8
Q ss_pred cchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 216 TNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 216 Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
.-..+-..++..-|+++.+.|++.|++|.=|
T Consensus 43 ~GH~~G~~~l~~il~~c~~lGIk~lTlYAFS 73 (322)
T PTZ00349 43 IGHFMGSKALIQIIEICIKLKIKILSVFSFS 73 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 3466788899999999999999999999876
No 43
>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=30.87 E-value=80 Score=23.87 Aligned_cols=54 Identities=19% Similarity=0.098 Sum_probs=29.6
Q ss_pred ceEEEEEEEeCCCcEEEEeecccC--CCcchHHHHHHHHHHHHHHHHcCCeeEEEEc
Q 021004 190 QAGAGAVLRAEDGSVVYRLREGVG--IATNNVAEYRALILGLKYALQKGYKHIRVQG 244 (318)
Q Consensus 190 ~~G~Gvvi~~~~g~~~~~~~~~~~--~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~t 244 (318)
...+|+++.+.++..+........ ......||+.|+..+.+. -....+..+||+
T Consensus 23 ~~~vgaviv~~~~~~i~~g~n~~~~~~~~~~HAE~~Ai~~~~~~-~~~~~~~~~lyv 78 (102)
T PF00383_consen 23 NFPVGAVIVDPDGKIIATGYNGEPPGKNPTIHAEMNAIRKAARN-GGSSLKGCTLYV 78 (102)
T ss_dssp SSSEEEEEEETTTEEEEEEESBHHSTTGGTB-HHHHHHHHHHHT-TSSGETTEEEEE
T ss_pred CCCEEEEEEeccCccEEEEeeeeeeeccccccchhhhhhhhhhh-ccccccCccccc
Confidence 456788888866655544332221 112347899999888765 111123456665
No 44
>PRK14830 undecaprenyl pyrophosphate synthase; Provisional
Probab=30.54 E-value=1.3e+02 Score=27.61 Aligned_cols=30 Identities=20% Similarity=0.024 Sum_probs=24.8
Q ss_pred chHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 217 NNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 217 nn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
-.++-+..+..-|+++.+.|++.|++|.=|
T Consensus 47 Gh~~G~~~l~~~l~~c~~~GI~~vTvYaFS 76 (251)
T PRK14830 47 GHKAGMDTVKKITKAASELGVKVLTLYAFS 76 (251)
T ss_pred hHHHHHHHHHHHHHHHHHcCCCEEEEEEEe
Confidence 455667788899999999999999999844
No 45
>PRK13191 putative peroxiredoxin; Provisional
Probab=29.91 E-value=1.2e+02 Score=26.81 Aligned_cols=42 Identities=19% Similarity=0.191 Sum_probs=30.2
Q ss_pred EEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcC
Q 021004 194 GAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 236 (318)
Q Consensus 194 Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g 236 (318)
+.+|.+.+|.+........ ....+..|++.++.||+.....|
T Consensus 126 ~tfIID~~G~Ir~~~~~~~-~~gr~~~eilr~l~alq~~~~~~ 167 (215)
T PRK13191 126 AVFIVDDKGTVRLILYYPM-EIGRNIDEILRAIRALQLVDKAG 167 (215)
T ss_pred EEEEECCCCEEEEEEecCC-CCCCCHHHHHHHHHHhhhhhhcC
Confidence 5788899998655544443 23358889999999999766554
No 46
>PRK15000 peroxidase; Provisional
Probab=29.31 E-value=1.4e+02 Score=26.07 Aligned_cols=44 Identities=18% Similarity=0.277 Sum_probs=31.7
Q ss_pred EEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcC
Q 021004 192 GAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 236 (318)
Q Consensus 192 G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g 236 (318)
-=+.++.+.+|.+......... .-.+..|++.++.||+...+.|
T Consensus 125 ~r~tfiID~~G~I~~~~~~~~~-~gr~~~eilr~l~al~~~~~~~ 168 (200)
T PRK15000 125 LRGSFLIDANGIVRHQVVNDLP-LGRNIDEMLRMVDALQFHEEHG 168 (200)
T ss_pred EeEEEEECCCCEEEEEEecCCC-CCCCHHHHHHHHHHhhhHHhcC
Confidence 3467888999987665554433 3357889999999999877665
No 47
>smart00441 FF Contains two conserved F residues. A novel motif that often accompanies WW domains. Often contains two conserved Phe (F) residues.
Probab=25.74 E-value=63 Score=21.62 Aligned_cols=34 Identities=21% Similarity=0.175 Sum_probs=27.7
Q ss_pred cccChHHHHHHhccccCCCCcceecCCCCHHHHHHHHHhc
Q 021004 19 IYKTLSDCQLQAGFSVRDPSLTVYKGYGLSKEAEEYLASH 58 (318)
Q Consensus 19 i~~~w~~~~~~~~~~~~~~~~~~~k~f~~~~~a~~~~~~~ 58 (318)
-+++|++++..+. ....|+...+..+++..++.+
T Consensus 19 ~~~~W~~~~~~~~------~d~ry~~l~~~~~r~~lF~~~ 52 (55)
T smart00441 19 PDTTWSEARKKLK------NDPRYKALLSESEREQLFEDH 52 (55)
T ss_pred CCCcHHHHHHHHh------cChHHHHhcChHHHHHHHHHH
Confidence 5799999999997 578888888888888777653
No 48
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=25.46 E-value=1.8e+02 Score=25.22 Aligned_cols=42 Identities=7% Similarity=0.013 Sum_probs=30.4
Q ss_pred EEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHc
Q 021004 193 AGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQK 235 (318)
Q Consensus 193 ~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~ 235 (318)
=+.++.|.+|.+........ ....+..|+++++.||++...+
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 45688899998765544332 3345788999999999987665
No 49
>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=24.49 E-value=2e+02 Score=23.18 Aligned_cols=54 Identities=19% Similarity=0.198 Sum_probs=32.9
Q ss_pred EEEEEEEeCCCcEEEEeeccc-CCCcchHHHHHHHHHHHHHHHHcCCeeEEEEcCc
Q 021004 192 GAGAVLRAEDGSVVYRLREGV-GIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 246 (318)
Q Consensus 192 G~Gvvi~~~~g~~~~~~~~~~-~~~Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS 246 (318)
..|+++...+|+++.....-. .......||..||..|+..- ...++.+.|..+.
T Consensus 22 ~vgAa~~~~~G~i~~G~n~e~~~~~~s~~AE~~Ai~~a~~~g-~~~i~~i~vv~~~ 76 (127)
T TIGR01354 22 KVGAALLTKDGRIFTGVNVENASYPLTICAERSAIGKAISAG-YRKFVAIAVADSA 76 (127)
T ss_pred eEEEEEEeCCCCEEEEEeecccCCCCCcCHHHHHHHHHHHcC-CCCeEEEEEEeCC
Confidence 467777777787654322111 11223468999999888642 2246688888876
No 50
>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=24.45 E-value=1e+02 Score=29.17 Aligned_cols=63 Identities=16% Similarity=0.084 Sum_probs=29.6
Q ss_pred ceEEEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcC---CeeEEEEcCcHHHHHHHcc
Q 021004 190 QAGAGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG---YKHIRVQGDSKLVCMQIQG 255 (318)
Q Consensus 190 ~~G~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g---~~~v~I~tDS~~vi~~l~~ 255 (318)
..-+|+-++.++|+-+..- ....+....=|.-++.++..+..+. ..+|-+.|||+.|++++.+
T Consensus 167 ~~~IGVHVRhGngeD~~~h---~~~~~D~e~~L~~V~~ai~~ak~~~~~k~~~IFLATDSaeVid~fr~ 232 (321)
T PF05830_consen 167 YSVIGVHVRHGNGEDIMDH---APYWADEERALRQVCTAIDKAKALAPPKPVRIFLATDSAEVIDQFRK 232 (321)
T ss_dssp SEEEEEEE------------------HHHHHHHHHHHHHHHHHHTS--SS-EEEEEEES-HHHHHHHHH
T ss_pred CceEEEEEeccCCcchhcc---CccccCchHHHHHHHHHHHHHHhccCCCCeeEEEecCcHHHHHHHHH
Confidence 4578999998777421111 1111211112444455555554332 2478999999999999986
No 51
>PF12441 DUF3680: Protein of unknown function (DUF3680) ; InterPro: IPR022148 This domain family is found in bacteria and archaea, and is approximately 40 amino acids in length.
Probab=23.44 E-value=72 Score=20.88 Aligned_cols=17 Identities=18% Similarity=0.388 Sum_probs=15.3
Q ss_pred CCCCHHHHHHHHHhcCC
Q 021004 44 GYGLSKEAEEYLASHGL 60 (318)
Q Consensus 44 ~f~~~~~a~~~~~~~~~ 60 (318)
.|.+.+|+++|...+..
T Consensus 7 ~f~se~Ee~eFW~~hD~ 23 (42)
T PF12441_consen 7 EFKSEEEEREFWDTHDS 23 (42)
T ss_pred CCCCHHHHHHHHHhccc
Confidence 69999999999999864
No 52
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=22.64 E-value=68 Score=23.49 Aligned_cols=16 Identities=13% Similarity=0.248 Sum_probs=14.9
Q ss_pred cCCCCHHHHHHHHHhc
Q 021004 43 KGYGLSKEAEEYLASH 58 (318)
Q Consensus 43 k~f~~~~~a~~~~~~~ 58 (318)
+.|.|.++|-+|+..+
T Consensus 56 ~eF~tld~Ai~Wi~e~ 71 (79)
T PF10827_consen 56 QEFPTLDLAIAWIGEH 71 (79)
T ss_pred cccccHHHHHHHHHhc
Confidence 8999999999999876
No 53
>COG0020 UppS Undecaprenyl pyrophosphate synthase [Lipid metabolism]
Probab=22.57 E-value=2.4e+02 Score=25.79 Aligned_cols=32 Identities=25% Similarity=0.209 Sum_probs=26.4
Q ss_pred cchHHHHHHHHHHHHHHHHcCCeeEEEEcCcH
Q 021004 216 TNNVAEYRALILGLKYALQKGYKHIRVQGDSK 247 (318)
Q Consensus 216 Tnn~AEl~Ail~AL~~a~~~g~~~v~I~tDS~ 247 (318)
.-..+-..++...++++.+.|++.+++|..|-
T Consensus 40 ~Gh~~G~~~~~~i~~~~~~lgik~ltlyafSt 71 (245)
T COG0020 40 EGHKAGAKALREILEWCLELGIKYLTLYAFST 71 (245)
T ss_pred HHHHHhHHHHHHHHHHHHHcCCCEEEEEEEeh
Confidence 34456777888899999999999999999883
No 54
>PTZ00137 2-Cys peroxiredoxin; Provisional
Probab=21.93 E-value=1.9e+02 Score=26.67 Aligned_cols=42 Identities=24% Similarity=0.255 Sum_probs=30.3
Q ss_pred EEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcC
Q 021004 194 GAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 236 (318)
Q Consensus 194 Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g 236 (318)
+.++.+.+|.+......... .-.+..|++.++.||+...+.|
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 46888989987665543332 3347889999999999877665
No 55
>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=21.91 E-value=52 Score=26.45 Aligned_cols=76 Identities=17% Similarity=0.107 Sum_probs=41.9
Q ss_pred eEEEEEcCcccCCCCceEEEEEEEeCCCcEEEEeecccC---------------C--CcchHHHHHHHHHHHHHHHHcCC
Q 021004 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVVYRLREGVG---------------I--ATNNVAEYRALILGLKYALQKGY 237 (318)
Q Consensus 175 ~~~iytDGS~~~~~~~~G~Gvvi~~~~g~~~~~~~~~~~---------------~--~Tnn~AEl~Ail~AL~~a~~~g~ 237 (318)
.+.||||...-.-....|.-++..|.-.+....++..++ . ......+|.....|+-.|+.+|+
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 478899977642222345556665543332222332211 1 12344578888888888888998
Q ss_pred eeE-EEEcCcHHHH
Q 021004 238 KHI-RVQGDSKLVC 250 (318)
Q Consensus 238 ~~v-~I~tDS~~vi 250 (318)
+++ -|.-|-.+|+
T Consensus 83 ~k~PAVV~D~~~VV 96 (113)
T TIGR03757 83 TKIPAVVVDRRYVV 96 (113)
T ss_pred ccCCEEEEcCCeEE
Confidence 765 3444544443
No 56
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=21.10 E-value=75 Score=32.88 Aligned_cols=25 Identities=20% Similarity=0.336 Sum_probs=23.0
Q ss_pred CCCCcceecCCCCHHHHHHHHHhcC
Q 021004 35 RDPSLTVYKGYGLSKEAEEYLASHG 59 (318)
Q Consensus 35 ~~~~~~~~k~f~~~~~a~~~~~~~~ 59 (318)
+|-|-|+||.|...++|..|+.+..
T Consensus 119 ~~IPTA~y~~ft~~e~a~sfi~~~~ 143 (788)
T KOG0237|consen 119 HNIPTAKYKTFTDPEEAKSFIQSAT 143 (788)
T ss_pred cCCCcceeeeeCCHHHHHHHHHhCC
Confidence 3889999999999999999999875
No 57
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=20.83 E-value=87 Score=30.98 Aligned_cols=25 Identities=20% Similarity=0.352 Sum_probs=23.0
Q ss_pred CCCcceecCCCCHHHHHHHHHhcCC
Q 021004 36 DPSLTVYKGYGLSKEAEEYLASHGL 60 (318)
Q Consensus 36 ~~~~~~~k~f~~~~~a~~~~~~~~~ 60 (318)
|-|-+.|+.|.+.+||.+|++..+.
T Consensus 115 ~IPta~y~~f~~~e~a~ayi~~~g~ 139 (428)
T COG0151 115 GIPTAEYEVFTDPEEAKAYIDEKGA 139 (428)
T ss_pred CCCcccccccCCHHHHHHHHHHcCC
Confidence 7789999999999999999998764
No 58
>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=20.77 E-value=53 Score=26.43 Aligned_cols=33 Identities=18% Similarity=0.100 Sum_probs=22.6
Q ss_pred hHHHHHHHHHHHHHHHHcCCeeE-EEEcCcHHHH
Q 021004 218 NVAEYRALILGLKYALQKGYKHI-RVQGDSKLVC 250 (318)
Q Consensus 218 n~AEl~Ail~AL~~a~~~g~~~v-~I~tDS~~vi 250 (318)
...+|.....+|-.|+.+|++++ -|.-|-++|+
T Consensus 62 ~q~~L~~Ayqgv~~Aw~lgi~k~PAVVfD~~~VV 95 (114)
T PF07511_consen 62 LQQQLAQAYQGVVDAWSLGITKYPAVVFDDRYVV 95 (114)
T ss_pred HHHHHHHHHHHHHHHHHhCccccCEEEEcCCeEE
Confidence 45688888888888999998755 3444444443
No 59
>PRK13190 putative peroxiredoxin; Provisional
Probab=20.26 E-value=2.6e+02 Score=24.36 Aligned_cols=43 Identities=12% Similarity=0.130 Sum_probs=29.8
Q ss_pred EEEEEEeCCCcEEEEeecccCCCcchHHHHHHHHHHHHHHHHcC
Q 021004 193 AGAVLRAEDGSVVYRLREGVGIATNNVAEYRALILGLKYALQKG 236 (318)
Q Consensus 193 ~Gvvi~~~~g~~~~~~~~~~~~~Tnn~AEl~Ail~AL~~a~~~g 236 (318)
=+.++.+.+|.+........ ..-.+..|++.++.+|+...+.|
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 45688898987654443332 22357889999999999876654
Done!