Query 021120
Match_columns 317
No_of_seqs 343 out of 1704
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 07:45:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021120.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021120hhsearch_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 1.9E-30 4.1E-35 240.5 16.0 129 174-304 211-366 (371)
2 PRK13907 rnhA ribonuclease H; 99.9 6.6E-26 1.4E-30 186.0 15.5 126 176-303 2-127 (128)
3 COG0328 RnhA Ribonuclease HI [ 99.9 1.1E-25 2.5E-30 187.9 14.4 128 175-304 3-146 (154)
4 PRK07708 hypothetical protein; 99.9 8.4E-24 1.8E-28 188.2 16.8 131 174-304 72-209 (219)
5 PRK07238 bifunctional RNase H/ 99.9 4.9E-23 1.1E-27 198.0 17.2 139 175-313 2-142 (372)
6 PRK06548 ribonuclease H; Provi 99.9 6.8E-23 1.5E-27 173.8 13.3 126 174-304 4-143 (161)
7 PRK00203 rnhA ribonuclease H; 99.9 5.3E-22 1.1E-26 167.5 13.0 127 175-305 3-144 (150)
8 PRK08719 ribonuclease H; Revie 99.9 1.3E-21 2.8E-26 164.3 14.3 125 174-303 3-147 (147)
9 COG3341 Predicted double-stran 99.9 4.5E-21 9.8E-26 165.5 11.9 145 1-255 1-152 (225)
10 cd06222 RnaseH RNase H (RNase 99.8 8.4E-19 1.8E-23 140.1 15.4 125 177-301 1-130 (130)
11 PF00075 RNase_H: RNase H; In 99.8 3.9E-19 8.4E-24 145.7 11.8 120 175-302 3-132 (132)
12 PF01693 Cauli_VI: Caulimoviru 99.8 2.7E-19 5.8E-24 119.3 4.3 44 7-54 1-44 (44)
13 PF13456 RVT_3: Reverse transc 99.6 6.8E-16 1.5E-20 117.0 8.8 86 216-302 1-86 (87)
14 KOG1812 Predicted E3 ubiquitin 95.6 0.03 6.5E-07 54.4 6.5 114 190-303 18-138 (384)
15 PF05380 Peptidase_A17: Pao re 77.7 15 0.00032 30.9 8.1 54 175-232 81-142 (159)
16 PRK14828 undecaprenyl pyrophos 67.5 13 0.00028 34.1 5.6 31 215-245 51-81 (256)
17 PRK14827 undecaprenyl pyrophos 67.0 10 0.00023 35.5 5.0 49 196-245 73-121 (296)
18 TIGR00055 uppS undecaprenyl di 66.7 13 0.00028 33.5 5.3 50 195-245 4-53 (226)
19 PRK14841 undecaprenyl pyrophos 66.0 14 0.00031 33.4 5.5 49 196-245 9-57 (233)
20 PRK14837 undecaprenyl pyrophos 64.6 16 0.00036 32.9 5.6 49 196-245 12-60 (230)
21 PRK14840 undecaprenyl pyrophos 63.1 21 0.00045 32.7 6.1 33 213-245 44-76 (250)
22 PRK14839 undecaprenyl pyrophos 62.4 17 0.00037 33.0 5.3 49 196-245 15-63 (239)
23 PRK14834 undecaprenyl pyrophos 61.9 23 0.00051 32.3 6.2 49 196-245 20-68 (249)
24 PRK14835 undecaprenyl pyrophos 61.5 24 0.00052 32.7 6.3 49 196-245 47-95 (275)
25 cd00475 CIS_IPPS Cis (Z)-Isopr 59.8 20 0.00044 32.1 5.3 50 195-245 5-54 (221)
26 PRK14842 undecaprenyl pyrophos 59.4 20 0.00044 32.5 5.3 48 197-245 15-62 (241)
27 COG0450 AhpC Peroxiredoxin [Po 57.3 48 0.001 29.1 7.0 47 189-235 121-167 (194)
28 PRK14836 undecaprenyl pyrophos 57.3 18 0.00039 33.1 4.6 43 213-262 36-78 (253)
29 PRK14833 undecaprenyl pyrophos 57.1 25 0.00055 31.7 5.5 49 196-245 10-58 (233)
30 PRK14832 undecaprenyl pyrophos 55.1 24 0.00052 32.3 5.1 48 197-245 25-72 (253)
31 PRK14829 undecaprenyl pyrophos 54.5 27 0.00058 31.8 5.3 49 196-245 20-68 (243)
32 PRK14831 undecaprenyl pyrophos 53.9 29 0.00063 31.7 5.4 34 212-245 41-74 (249)
33 PTZ00349 dehydrodolichyl dipho 53.1 31 0.00066 32.7 5.5 48 197-245 26-73 (322)
34 PRK14838 undecaprenyl pyrophos 51.9 35 0.00076 31.0 5.6 48 197-245 17-64 (242)
35 COG0590 CumB Cytosine/adenosin 49.8 41 0.0009 28.2 5.4 63 190-252 27-92 (152)
36 PRK14830 undecaprenyl pyrophos 48.4 40 0.00088 30.8 5.4 32 214-245 45-76 (251)
37 PF01071 GARS_A: Phosphoribosy 38.2 23 0.00049 31.1 2.1 25 36-60 14-38 (194)
38 PRK13191 putative peroxiredoxi 37.3 82 0.0018 27.9 5.6 42 193-235 125-167 (215)
39 cd01284 Riboflavin_deaminase-r 37.2 1E+02 0.0022 24.5 5.6 47 192-243 20-66 (115)
40 cd01285 nucleoside_deaminase N 37.2 1.1E+02 0.0023 23.8 5.7 58 191-248 17-77 (109)
41 PRK10382 alkyl hydroperoxide r 36.3 93 0.002 26.9 5.7 42 193-234 120-161 (187)
42 PRK15000 peroxidase; Provision 36.0 97 0.0021 27.0 5.8 44 192-235 125-168 (200)
43 COG0020 UppS Undecaprenyl pyro 34.8 1.2E+02 0.0026 27.7 6.2 33 213-245 38-70 (245)
44 PF14657 Integrase_AP2: AP2-li 34.8 34 0.00073 22.3 2.0 15 43-57 22-36 (46)
45 PRK13190 putative peroxiredoxi 30.0 1.4E+02 0.0029 26.1 5.7 43 193-235 118-160 (202)
46 PRK13189 peroxiredoxin; Provis 27.9 1.6E+02 0.0034 26.2 5.8 42 194-235 128-169 (222)
47 cd01206 Homer Homer type EVH1 25.7 37 0.00081 26.9 1.2 32 17-58 71-103 (111)
48 smart00441 FF Contains two con 25.7 62 0.0013 21.5 2.2 33 19-57 19-51 (55)
49 PF12441 DUF3680: Protein of u 25.2 67 0.0015 20.9 2.1 17 44-60 7-23 (42)
50 PRK10860 tRNA-specific adenosi 24.8 1.7E+02 0.0037 25.1 5.2 35 217-251 61-95 (172)
51 PTZ00137 2-Cys peroxiredoxin; 24.3 1.6E+02 0.0036 27.0 5.3 42 194-235 190-231 (261)
52 PF01846 FF: FF domain; Inter 23.5 87 0.0019 20.5 2.6 33 19-57 17-50 (51)
53 KOG0237 Glycinamide ribonucleo 23.4 60 0.0013 33.4 2.4 24 36-59 120-143 (788)
54 cd03016 PRX_1cys Peroxiredoxin 23.1 2.4E+02 0.0051 24.5 6.0 41 194-235 119-160 (203)
55 PF00383 dCMP_cyt_deam_1: Cyti 22.7 1.5E+02 0.0032 22.3 4.1 52 191-243 24-78 (102)
56 PF10827 DUF2552: Protein of u 22.4 69 0.0015 23.3 1.9 17 43-59 56-72 (79)
57 COG0295 Cdd Cytidine deaminase 22.3 2.6E+02 0.0057 23.0 5.6 52 193-245 28-81 (134)
58 PF04800 ETC_C1_NDUFA4: ETC co 22.0 59 0.0013 25.4 1.7 20 41-60 51-70 (101)
59 PF08183 SpoV: Stage V sporula 22.0 47 0.001 19.2 0.8 7 6-12 1-7 (26)
60 COG0151 PurD Phosphoribosylami 21.9 81 0.0017 31.1 2.9 25 36-60 115-139 (428)
61 PRK13599 putative peroxiredoxi 21.6 2.4E+02 0.0051 25.0 5.7 42 194-235 121-162 (215)
62 KOG1602 Cis-prenyltransferase 20.6 1.5E+02 0.0033 27.2 4.2 36 210-245 55-90 (271)
63 PF11208 DUF2992: Protein of u 20.2 2.3E+02 0.005 23.3 4.8 43 176-226 1-43 (132)
64 PRK10240 undecaprenyl pyrophos 20.2 4.5E+02 0.0097 23.7 7.2 33 213-245 15-47 (229)
No 1
>KOG3752 consensus Ribonuclease H [Replication, recombination and repair]
Probab=99.97 E-value=1.9e-30 Score=240.47 Aligned_cols=129 Identities=29% Similarity=0.265 Sum_probs=98.2
Q ss_pred ceEEEEEeCcccCCCC---ceEEEEEEEcCCCCEEEEeecc--ccccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHH
Q 021120 174 YSCTLEFDGASKGNPG---QAGAGAVLRAEDGSVYRLREGV--GIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLV 248 (317)
Q Consensus 174 ~~~~iytDGS~~~n~~---~aG~Gvvi~~~~g~~~~~s~~~--~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~v 248 (317)
+.++|||||||..|+. .+|||+++.++. ..+.++++ +.+|||+|||.|+++||+.|++.++.+|+|.|||+++
T Consensus 211 ~~~vvytDGS~~~ng~~~~~AGyGvywg~~~--e~N~s~pv~~g~qtNnrAEl~Av~~ALkka~~~~~~kv~I~TDS~~~ 288 (371)
T KOG3752|consen 211 EIQVVYTDGSSSGNGRKSSRAGYGVYWGPGH--ELNVSGPLAGGRQTNNRAELIAAIEALKKARSKNINKVVIRTDSEYF 288 (371)
T ss_pred cceEEEecCccccCCCCCCcceeEEeeCCCC--cccccccCCCCcccccHHHHHHHHHHHHHHHhcCCCcEEEEechHHH
Confidence 4589999999998764 489999997543 33445554 6899999999999999999999998899999999999
Q ss_pred HHHHhc--------ccccCC--------hhHHHHHHHHHHHhhcC--CcEEE----EEeCCCccHHHHHHHHHhhcCC
Q 021120 249 CMQIQG--------LWKINN--------QNLAGLCKEAKELKEKF--QSFQI----NHILRNLNSEADAQANMGIYLK 304 (317)
Q Consensus 249 i~~v~~--------~w~~~~--------~~~~~l~~~i~~l~~~f--~~v~~----~Hv~~~~Ne~AD~LAk~A~~~~ 304 (317)
|++++- +|+..+ ..+.+++.++.+|.... ..|.+ +|.+..+|++||.||+.+..+.
T Consensus 289 i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~~~ 366 (371)
T KOG3752|consen 289 INSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEYVGGHSGILGNEMADALARKGSTLA 366 (371)
T ss_pred HHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEEecCcCCcchHHHHHHHHhhhhhhh
Confidence 999983 333322 13456666666665552 33433 6667899999999999986543
No 2
>PRK13907 rnhA ribonuclease H; Provisional
Probab=99.94 E-value=6.6e-26 Score=186.04 Aligned_cols=126 Identities=34% Similarity=0.495 Sum_probs=113.8
Q ss_pred EEEEEeCcccCCCCceEEEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHHhcc
Q 021120 176 CTLEFDGASKGNPGQAGAGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGL 255 (317)
Q Consensus 176 ~~iytDGS~~~n~~~aG~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v~~~ 255 (317)
++|||||||+.+++.+|+|+++++.++.. ..+...+..||+.||++|++.||+.+.+.+.++|.|++||++|++++++.
T Consensus 2 ~~iy~DGa~~~~~g~~G~G~vi~~~~~~~-~~~~~~~~~tn~~AE~~All~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~ 80 (128)
T PRK13907 2 IEVYIDGASKGNPGPSGAGVFIKGVQPAV-QLSLPLGTMSNHEAEYHALLAALKYCTEHNYNIVSFRTDSQLVERAVEKE 80 (128)
T ss_pred EEEEEeeCCCCCCCccEEEEEEEECCeeE-EEEecccccCCcHHHHHHHHHHHHHHHhCCCCEEEEEechHHHHHHHhHH
Confidence 68999999999999999999999876654 34445567899999999999999999999999999999999999999999
Q ss_pred cccCChhHHHHHHHHHHHhhcCCcEEEEEeCCCccHHHHHHHHHhhcC
Q 021120 256 WKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNSEADAQANMGIYL 303 (317)
Q Consensus 256 w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~~~~Ne~AD~LAk~A~~~ 303 (317)
|. ++..+.+|+++++.++..|..+.+.|++|++|+.||.||+.|+..
T Consensus 81 ~~-~~~~~~~l~~~~~~l~~~f~~~~~~~v~r~~N~~Ad~LA~~a~~~ 127 (128)
T PRK13907 81 YA-KNKMFAPLLEEALQYIKSFDLFFIKWIPSSQNKVADELARKAILQ 127 (128)
T ss_pred Hh-cChhHHHHHHHHHHHHhcCCceEEEEcCchhchhHHHHHHHHHhc
Confidence 86 455789999999999999999989999999999999999999753
No 3
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]
Probab=99.93 E-value=1.1e-25 Score=187.91 Aligned_cols=128 Identities=36% Similarity=0.395 Sum_probs=109.6
Q ss_pred eEEEEEeCcccCCCCceEEEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHHhc
Q 021120 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQG 254 (317)
Q Consensus 175 ~~~iytDGS~~~n~~~aG~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v~~ 254 (317)
.+.|||||+|.+|+|++|||+|++..++.. .+++....+|||+|||+|++.||+.+.+.+...|.|+|||+||++.++
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 579999999999999999999999765554 677777799999999999999999999999999999999999999999
Q ss_pred cc----ccCC--------hhHHHHHHHHHHHhhcCCcEE----EEEeCCCccHHHHHHHHHhhcCC
Q 021120 255 LW----KINN--------QNLAGLCKEAKELKEKFQSFQ----INHILRNLNSEADAQANMGIYLK 304 (317)
Q Consensus 255 ~w----~~~~--------~~~~~l~~~i~~l~~~f~~v~----~~Hv~~~~Ne~AD~LAk~A~~~~ 304 (317)
.| +.+. -.+++||+++..++.+|..|. .+|.++++|+.||.||+.|++.+
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 2221 156899999999998875444 46667999999999999998765
No 4
>PRK07708 hypothetical protein; Validated
Probab=99.91 E-value=8.4e-24 Score=188.25 Aligned_cols=131 Identities=28% Similarity=0.390 Sum_probs=114.2
Q ss_pred ceEEEEEeCcccCCCCceEEEEEEEcCCCCE-EEEe--eccc-cccchHHHHHHHHHHHHHHHHcCCcE--EEEEeChHH
Q 021120 174 YSCTLEFDGASKGNPGQAGAGAVLRAEDGSV-YRLR--EGVG-IATNNVAEYRALILGLKYALQKGYKH--IRVQGDSKL 247 (317)
Q Consensus 174 ~~~~iytDGS~~~n~~~aG~Gvvi~~~~g~~-~~~s--~~~~-~~tnn~AEl~All~AL~~a~~~g~~~--i~I~tDS~~ 247 (317)
+.+++|||||++++++.+|+|++++.+.+.. ..+. ..+. ..|||.||+.|++.||+.|.++|+++ |.|++||++
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 4689999999999999999999998765543 2222 2333 58999999999999999999999865 899999999
Q ss_pred HHHHHhcccccCChhHHHHHHHHHHHhhcCC-cEEEEEeCCCccHHHHHHHHHhhcCC
Q 021120 248 VCMQIQGLWKINNQNLAGLCKEAKELKEKFQ-SFQINHILRNLNSEADAQANMGIYLK 304 (317)
Q Consensus 248 vi~~v~~~w~~~~~~~~~l~~~i~~l~~~f~-~v~~~Hv~~~~Ne~AD~LAk~A~~~~ 304 (317)
|++++++.|+++++.+..+++++..++.+|. .+.+.||+|..|+.||+||+.|++..
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=4.9e-23 Score=198.00 Aligned_cols=139 Identities=40% Similarity=0.551 Sum_probs=126.0
Q ss_pred eEEEEEeCcccCCCCceEEEEEEEcCCCC-E-EEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHH
Q 021120 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGS-V-YRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQI 252 (317)
Q Consensus 175 ~~~iytDGS~~~n~~~aG~Gvvi~~~~g~-~-~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v 252 (317)
.+.|||||||++|++.+|+|++++++++. . ...+..++..|||.||++|++.||+++.+.+.++|.|++||++|++++
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 47899999999999999999999987654 3 455666778999999999999999999999999999999999999999
Q ss_pred hcccccCChhHHHHHHHHHHHhhcCCcEEEEEeCCCccHHHHHHHHHhhcCCCCccccccC
Q 021120 253 QGLWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNSEADAQANMGIYLKDGQVEAECS 313 (317)
Q Consensus 253 ~~~w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~~~~Ne~AD~LAk~A~~~~~~~v~~~~~ 313 (317)
+++|++++..+..|+.+++.++.+|..+.+.|++|++|+.||.||+.|+......++-+.+
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 9999999989999999999999999999999999999999999999999887766665543
No 6
>PRK06548 ribonuclease H; Provisional
Probab=99.89 E-value=6.8e-23 Score=173.81 Aligned_cols=126 Identities=26% Similarity=0.225 Sum_probs=99.5
Q ss_pred ceEEEEEeCcccCCCCceEEEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHHh
Q 021120 174 YSCTLEFDGASKGNPGQAGAGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQ 253 (317)
Q Consensus 174 ~~~~iytDGS~~~n~~~aG~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v~ 253 (317)
..++|||||+|++|++++|||+++.+. . ..++.....|||+|||+|+++||+.+. ....+|.|+|||+||+++++
T Consensus 4 ~~~~IytDGa~~gnpg~~G~g~~~~~~--~--~~~g~~~~~TNnraEl~Aii~aL~~~~-~~~~~v~I~TDS~yvi~~i~ 78 (161)
T PRK06548 4 NEIIAATDGSSLANPGPSGWAWYVDEN--T--WDSGGWDIATNNIAELTAVRELLIATR-HTDRPILILSDSKYVINSLT 78 (161)
T ss_pred CEEEEEEeeccCCCCCceEEEEEEeCC--c--EEccCCCCCCHHHHHHHHHHHHHHhhh-cCCceEEEEeChHHHHHHHH
Confidence 358999999999999999999998742 1 234556689999999999999998654 34467999999999999999
Q ss_pred c--------ccccCCh---hHHHHHHHHHHHhhcC---CcEEEEEeCCCccHHHHHHHHHhhcCC
Q 021120 254 G--------LWKINNQ---NLAGLCKEAKELKEKF---QSFQINHILRNLNSEADAQANMGIYLK 304 (317)
Q Consensus 254 ~--------~w~~~~~---~~~~l~~~i~~l~~~f---~~v~~~Hv~~~~Ne~AD~LAk~A~~~~ 304 (317)
. +|+..+. .+++||++|..++.+. ..+..+|+++++|+.||+||++|+...
T Consensus 79 ~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~~ 143 (161)
T PRK06548 79 KWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMENRNIRMSWVNAHTGHPLNEAADSLARQAANNF 143 (161)
T ss_pred HHHHHHHHCCCcccCCCccccHHHHHHHHHHHhcCceEEEEEecCCCCHHHHHHHHHHHHHHHHh
Confidence 5 4543322 5799999999887653 122247888999999999999998643
No 7
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=99.88 E-value=5.3e-22 Score=167.45 Aligned_cols=127 Identities=27% Similarity=0.305 Sum_probs=99.9
Q ss_pred eEEEEEeCcccCCCCceEEEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHHhc
Q 021120 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQG 254 (317)
Q Consensus 175 ~~~iytDGS~~~n~~~aG~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v~~ 254 (317)
.+.|||||||++|++.+|||+++...+. ...+++.....|||+|||+|++.||+.+.+. ..|.|+|||+++++.+++
T Consensus 3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~-~~~~~~~~~~~TN~~aEL~Ai~~AL~~~~~~--~~v~I~tDS~yvi~~i~~ 79 (150)
T PRK00203 3 QVEIYTDGACLGNPGPGGWGAILRYKGH-EKELSGGEALTTNNRMELMAAIEALEALKEP--CEVTLYTDSQYVRQGITE 79 (150)
T ss_pred eEEEEEEecccCCCCceEEEEEEEECCe-eEEEecCCCCCcHHHHHHHHHHHHHHHcCCC--CeEEEEECHHHHHHHHHH
Confidence 4789999999999999999999976443 3355556678899999999999999987643 579999999999998885
Q ss_pred ---ccccC-----C---hhHHHHHHHHHHHhhcCCcEEE----EEeCCCccHHHHHHHHHhhcCCC
Q 021120 255 ---LWKIN-----N---QNLAGLCKEAKELKEKFQSFQI----NHILRNLNSEADAQANMGIYLKD 305 (317)
Q Consensus 255 ---~w~~~-----~---~~~~~l~~~i~~l~~~f~~v~~----~Hv~~~~Ne~AD~LAk~A~~~~~ 305 (317)
.|+.+ . -.+++||++|..++.. ..|.+ +|.++++|+.||+||+.|+..+.
T Consensus 80 w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~-~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~~ 144 (150)
T PRK00203 80 WIHGWKKNGWKTADKKPVKNVDLWQRLDAALKR-HQIKWHWVKGHAGHPENERCDELARAGAEEAT 144 (150)
T ss_pred HHHHHHHcCCcccCCCccccHHHHHHHHHHhcc-CceEEEEecCCCCCHHHHHHHHHHHHHHHHhh
Confidence 33332 1 1467899999887755 33444 56668999999999999987654
No 8
>PRK08719 ribonuclease H; Reviewed
Probab=99.87 E-value=1.3e-21 Score=164.30 Aligned_cols=125 Identities=25% Similarity=0.290 Sum_probs=97.2
Q ss_pred ceEEEEEeCcccCCCC---ceEEEEEEEcCCCCE-EEEeecc-ccccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHH
Q 021120 174 YSCTLEFDGASKGNPG---QAGAGAVLRAEDGSV-YRLREGV-GIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLV 248 (317)
Q Consensus 174 ~~~~iytDGS~~~n~~---~aG~Gvvi~~~~g~~-~~~s~~~-~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~v 248 (317)
..++|||||||.+|++ .+|+|+++..+++.. ...+..+ +..|||+|||.|++.||+.+.+. ..|+|||++|
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 3589999999998876 579999998876654 2334333 35799999999999999988653 3799999999
Q ss_pred HHHHh--------cccccCCh---hHHHHHHHHHHHhhcCCcEEE----EEeCCCccHHHHHHHHHhhcC
Q 021120 249 CMQIQ--------GLWKINNQ---NLAGLCKEAKELKEKFQSFQI----NHILRNLNSEADAQANMGIYL 303 (317)
Q Consensus 249 i~~v~--------~~w~~~~~---~~~~l~~~i~~l~~~f~~v~~----~Hv~~~~Ne~AD~LAk~A~~~ 303 (317)
++.++ ++|+.... .+++||++|..++.. ..|.+ +|.+.++|+.||+||+.|+.+
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 56765542 468999999887764 33444 556669999999999999753
No 9
>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]
Probab=99.85 E-value=4.5e-21 Score=165.51 Aligned_cols=145 Identities=23% Similarity=0.263 Sum_probs=101.0
Q ss_pred CCcCCCceEEEEeCCcccccCChHHHHHHhccccCCCCCceeccCCCHHHHHHHHHhcCCCCCCCccccccccccccCCc
Q 021120 1 MEDEKDAFYVVRKGDVVGIYKTLSDCQLQAGFSVRDPSLTVYKGYGLSKEAEEYLASHGLKSSSYSVSASDVKSDLFGKI 80 (317)
Q Consensus 1 ~~~~~~k~yav~~g~~~Gi~~~w~~~q~qv~~~~~~~~~a~yk~f~~~~ea~~f~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (317)
|.+.+ +||||++||+||||+||+||++||. ||+||.||+|.+.|||+.|++++-.. +
T Consensus 1 Mar~~-nyYaVk~GR~tGIyktW~Ec~~qVk----Gy~ga~YKsf~s~EeA~a~~~g~i~~-----~------------- 57 (225)
T COG3341 1 MARLK-NYYAVKKGRKTGIYKTWDECEKQVK----GYPGAKYKSFKSYEEAEAYCEGNIES-----V------------- 57 (225)
T ss_pred CCccc-ceeEEecccccceeccHHHHHHHhc----CCCcccccccccHHHHHHHhccCccc-----c-------------
Confidence 55544 4999999999999999999999999 99999999999999999999973210 0
Q ss_pred CCCCCCCCCCCCCcccccccchhhhHHhhhcCCCcccccccccccccccccccccCCCcccccCCCCccCcccccCcCCC
Q 021120 81 VPCPLQEPASSGEKVSDEVSLPKMLREVAAAGSTSISINTQKRHFNEDNCWNTQSVPENYVAAAGSTSFSINTQRSHLNA 160 (317)
Q Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~ 160 (317)
++
T Consensus 58 --tp---------------------------------------------------------------------------- 59 (225)
T COG3341 58 --TP---------------------------------------------------------------------------- 59 (225)
T ss_pred --Cc----------------------------------------------------------------------------
Confidence 00
Q ss_pred CCcCcccCCCCCCceEEEEEeCcccCCCCceEEEEEEEcCC--CCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcE
Q 021120 161 DSCLNTQSVPYNCYSCTLEFDGASKGNPGQAGAGAVLRAED--GSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKH 238 (317)
Q Consensus 161 ~~~~~~~~p~~~~~~~~iytDGS~~~n~~~aG~Gvvi~~~~--g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~ 238 (317)
-.++..++-+.+|+....++..++-++.+... ..+..-.......+|+.+|.+|.+.+|+.+...+-++
T Consensus 60 ---------~~~~e~~i~~~~G~y~~~p~t~~~k~yr~k~~~~~~~lt~~~~~~~~~n~s~d~la~ly~~~~~~~~~nrk 130 (225)
T COG3341 60 ---------YLDFEYIISWAKGDYDAKPGTQEFKEYRGKCTIEYSWLTESSEFSIKSNDSGDVLAKLYGLRYEVPLDNRK 130 (225)
T ss_pred ---------ccchhccceeccCCccccCCCcceeEEeccccccceeeeeecccccccCchHHHHHHhccccccccccCcc
Confidence 00002334555666655444444434333211 1112222345678899999999999999988776655
Q ss_pred EEE-E----eChHHHHHHHhcc
Q 021120 239 IRV-Q----GDSKLVCMQIQGL 255 (317)
Q Consensus 239 i~I-~----tDS~~vi~~v~~~ 255 (317)
..| + .||+.-++++.+.
T Consensus 131 ~~i~y~~~~~ds~a~~k~~k~~ 152 (225)
T COG3341 131 SVINYLTPGNDSWAYFKYVKDK 152 (225)
T ss_pred ceeeccCCcchhHHHHHHHhhh
Confidence 555 6 6999999988764
No 10
>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=99.81 E-value=8.4e-19 Score=140.05 Aligned_cols=125 Identities=33% Similarity=0.404 Sum_probs=107.3
Q ss_pred EEEEeCcccCCCCceEEEEEEEcCCCCEEEEeec-cccccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHHhcc
Q 021120 177 TLEFDGASKGNPGQAGAGAVLRAEDGSVYRLREG-VGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGL 255 (317)
Q Consensus 177 ~iytDGS~~~n~~~aG~Gvvi~~~~g~~~~~s~~-~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v~~~ 255 (317)
++|||||+..+.+.+|+|+++...++........ ....+++.+|+.|++.||+++...+.+++.|++||+.+++++++.
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 4899999988778899999999877665222212 257789999999999999999999999999999999999999987
Q ss_pred cccCChhHHHHHHHHHHHhhcCCcEEEEEeCC----CccHHHHHHHHHhh
Q 021120 256 WKINNQNLAGLCKEAKELKEKFQSFQINHILR----NLNSEADAQANMGI 301 (317)
Q Consensus 256 w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~~----~~Ne~AD~LAk~A~ 301 (317)
+......+..++..+..+...+..+.+.|+++ ..|..||.||+.++
T Consensus 81 ~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~~ 130 (130)
T cd06222 81 YEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEAA 130 (130)
T ss_pred ccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhhC
Confidence 66556678899999999888888999999999 99999999999874
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=99.80 E-value=3.9e-19 Score=145.72 Aligned_cols=120 Identities=28% Similarity=0.323 Sum_probs=89.2
Q ss_pred eEEEEEeCcccCCCCceEEEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHHhc
Q 021120 175 SCTLEFDGASKGNPGQAGAGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQG 254 (317)
Q Consensus 175 ~~~iytDGS~~~n~~~aG~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v~~ 254 (317)
.++|||||||..+++.+|+|+++ ..+ + ..+..++..|+++|||+|+++||+ ++ .. +++.|+|||+++++.++.
T Consensus 3 ~~~iytDgS~~~~~~~~~~g~v~-~~~-~--~~~~~~~~~s~~~aEl~Ai~~AL~-~~-~~-~~v~I~tDS~~v~~~l~~ 75 (132)
T PF00075_consen 3 AIIIYTDGSCRPNPGKGGAGYVV-WGG-R--NFSFRLGGQSNNRAELQAIIEALK-AL-EH-RKVTIYTDSQYVLNALNK 75 (132)
T ss_dssp SEEEEEEEEECTTTTEEEEEEEE-ETT-E--EEEEEEESECHHHHHHHHHHHHHH-TH-ST-SEEEEEES-HHHHHHHHT
T ss_pred cEEEEEeCCccCCCCceEEEEEE-ECC-e--EEEecccccchhhhheehHHHHHH-Hh-hc-ccccccccHHHHHHHHHH
Confidence 47999999999888888999966 333 2 344444589999999999999999 55 33 799999999999998888
Q ss_pred -----ccccCChhHHHHHHHHHHHhhcCCcEEEEEeCCC-----ccHHHHHHHHHhhc
Q 021120 255 -----LWKINNQNLAGLCKEAKELKEKFQSFQINHILRN-----LNSEADAQANMGIY 302 (317)
Q Consensus 255 -----~w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~~~-----~Ne~AD~LAk~A~~ 302 (317)
.|.... ..++++.++.+++.....+.+.||+.+ +|+.||+||+.|+.
T Consensus 76 ~~~~~~~~~~~-~~~~i~~~i~~~~~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~~ 132 (132)
T PF00075_consen 76 WLHGNGWKKTS-NGRPIKNEIWELLSRGIKVRFRWVPGHSGVPQGNERADRLAKEAAQ 132 (132)
T ss_dssp HHHHTTSBSCT-SSSBHTHHHHHHHHHSSEEEEEESSSSSSSHHHHHHHHHHHHHHHH
T ss_pred hcccccccccc-ccccchhheeeccccceEEeeeeccCcCCCchhHHHHHHHHHHhcC
Confidence 665432 111344455555555666777777654 99999999999873
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=99.77 E-value=2.7e-19 Score=119.32 Aligned_cols=44 Identities=32% Similarity=0.636 Sum_probs=39.4
Q ss_pred ceEEEEeCCcccccCChHHHHHHhccccCCCCCceeccCCCHHHHHHH
Q 021120 7 AFYVVRKGDVVGIYKTLSDCQLQAGFSVRDPSLTVYKGYGLSKEAEEY 54 (317)
Q Consensus 7 k~yav~~g~~~Gi~~~w~~~q~qv~~~~~~~~~a~yk~f~~~~ea~~f 54 (317)
|||||+.||+||||++|++|++||. ||+|+.||+|.|++||++|
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 7999999999999999999999999 9999999999999999987
No 13
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B.
Probab=99.65 E-value=6.8e-16 Score=117.02 Aligned_cols=86 Identities=31% Similarity=0.390 Sum_probs=74.8
Q ss_pred chHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHHhcccccCChhHHHHHHHHHHHhhcCCcEEEEEeCCCccHHHHH
Q 021120 216 NNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGLWKINNQNLAGLCKEAKELKEKFQSFQINHILRNLNSEADA 295 (317)
Q Consensus 216 nn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v~~~w~~~~~~~~~l~~~i~~l~~~f~~v~~~Hv~~~~Ne~AD~ 295 (317)
++.||++|++.||+++.+.|+++|+|+|||+.+++.+++.+.... .+..++..|+.++..|..+.+.|++|+.|..||.
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 467999999999999999999999999999999999999877776 7889999999999999999999999999999999
Q ss_pred HHHHhhc
Q 021120 296 QANMGIY 302 (317)
Q Consensus 296 LAk~A~~ 302 (317)
||+.|+.
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=95.57 E-value=0.03 Score=54.36 Aligned_cols=114 Identities=24% Similarity=0.237 Sum_probs=79.3
Q ss_pred ceEEEEEEEcC-CCCE-EEEeeccc---cccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHHhcccccCCh-hH
Q 021120 190 QAGAGAVLRAE-DGSV-YRLREGVG---IATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGLWKINNQ-NL 263 (317)
Q Consensus 190 ~aG~Gvvi~~~-~g~~-~~~s~~~~---~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v~~~w~~~~~-~~ 263 (317)
.+|.|+.+.+. +... +....... ..+...||++|+..+|..++..++.++.++.|+..+...+.+..+.... .+
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 57888888774 3222 22222222 3567778999999999999999999999999999998888887665554 45
Q ss_pred HHHHHHHHHHhhcCCcEEEEEeCC-CccHHHHHHHHHhhcC
Q 021120 264 AGLCKEAKELKEKFQSFQINHILR-NLNSEADAQANMGIYL 303 (317)
Q Consensus 264 ~~l~~~i~~l~~~f~~v~~~Hv~~-~~Ne~AD~LAk~A~~~ 303 (317)
..++.+++.+..+|.......+.+ .....|-.||++++..
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 666677766666654433233322 2335588999999875
No 15
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family.
Probab=77.72 E-value=15 Score=30.91 Aligned_cols=54 Identities=31% Similarity=0.332 Sum_probs=33.6
Q ss_pred eEEEEEeCcccCCCCceEEEEEEEc-CCCCE-EEE--ee----ccccccchHHHHHHHHHHHHHHH
Q 021120 175 SCTLEFDGASKGNPGQAGAGAVLRA-EDGSV-YRL--RE----GVGIATNNVAEYRALILGLKYAL 232 (317)
Q Consensus 175 ~~~iytDGS~~~n~~~aG~Gvvi~~-~~g~~-~~~--s~----~~~~~tnn~AEl~All~AL~~a~ 232 (317)
.+.+|+|+|-. .+|..++++. .++.. ..+ +. +....|.-+.||.|++.|.+++.
T Consensus 81 ~L~~F~DAS~~----aygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~ 142 (159)
T PF05380_consen 81 ELHVFCDASES----AYGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLAN 142 (159)
T ss_pred eeeEeeccccc----ceeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHH
Confidence 68999999953 2444455554 33333 111 11 11234667889999999999875
No 16
>PRK14828 undecaprenyl pyrophosphate synthase; Provisional
Probab=67.48 E-value=13 Score=34.12 Aligned_cols=31 Identities=10% Similarity=-0.124 Sum_probs=26.9
Q ss_pred cchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 215 TNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 215 tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
.-..+-+.++...+++|.+.|++.|++|.=|
T Consensus 51 ~GH~~G~~~l~~~~~~~~~~gIk~lTvYaFS 81 (256)
T PRK14828 51 QGHRAGAAKIGEFLGWCDETDVNVVTLYLLS 81 (256)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCEEEEEEEE
Confidence 4466788899999999999999999999876
No 17
>PRK14827 undecaprenyl pyrophosphate synthase; Provisional
Probab=67.04 E-value=10 Score=35.47 Aligned_cols=49 Identities=14% Similarity=0.091 Sum_probs=35.3
Q ss_pred EEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 196 VLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 196 vi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
+|.|+|+++.. ...+....-..+-+.++...|++|.+.|++.|++|.=|
T Consensus 73 iIMDGNrRwAk-~~gl~~~~GH~~G~~~l~~v~~~c~~lGI~~lTvYaFS 121 (296)
T PRK14827 73 IVMDGNGRWAT-QRGLARTEGHKMGEAVVIDIACGAIELGIKWLSLYAFS 121 (296)
T ss_pred EeccCchHHHH-HCCCCHhHHHHHHHHHHHHHHHHHHHcCCCEEEEeeec
Confidence 44577776621 11233445567788889999999999999999999766
No 18
>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=66.66 E-value=13 Score=33.51 Aligned_cols=50 Identities=18% Similarity=0.211 Sum_probs=37.0
Q ss_pred EEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 195 AVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 195 vvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
++|.|+++++.. ...+....-.++-+.++...+++|.+.|++.+++|.=|
T Consensus 4 AiImDGNrRwAk-~~gl~~~~GH~~G~~~~~~v~~~c~~~GI~~lT~yaFS 53 (226)
T TIGR00055 4 AIIMDGNGRWAK-KKGKPRAYGHKAGVKSLRRILRWCANLGVECLTLYAFS 53 (226)
T ss_pred EEEcCCCHHHHH-HCCCChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 355677777621 12334445677888899999999999999999999877
No 19
>PRK14841 undecaprenyl pyrophosphate synthase; Provisional
Probab=66.03 E-value=14 Score=33.37 Aligned_cols=49 Identities=16% Similarity=0.206 Sum_probs=35.5
Q ss_pred EEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 196 VLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 196 vi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
+|.|+++++.. ...+....-..+-+.++..-+++|.+.|++.|++|.=|
T Consensus 9 iImDGNrRwAk-~~g~~~~~GH~~G~~~l~~i~~~~~~lgIk~lTvYaFS 57 (233)
T PRK14841 9 IIMDGNGRWAK-KRGLPRIKGHQRGAEVLHNTVKWSLELGIKYLTAFSFS 57 (233)
T ss_pred EEccCCHHHHH-HCCCchhhhHHHHHHHHHHHHHHHHHcCCCEEEEEeee
Confidence 44566666511 11233445677888999999999999999999999876
No 20
>PRK14837 undecaprenyl pyrophosphate synthase; Provisional
Probab=64.56 E-value=16 Score=32.89 Aligned_cols=49 Identities=12% Similarity=0.072 Sum_probs=35.2
Q ss_pred EEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 196 VLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 196 vi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
+|.|+++++.. ...+....-..+-+.++...+++|.+.|++.|++|.=|
T Consensus 12 iImDGNrRwAk-~~gl~~~~GH~~G~~~~~~i~~~c~~~GI~~lT~YaFS 60 (230)
T PRK14837 12 IIMDGNRRWAL-KKGLSFFEGHKEGLKRAKEIVKHSLKLGIKYLSLYVFS 60 (230)
T ss_pred EEccCCHHHHH-HCCCchhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 34466666521 11233445577888999999999999999999999876
No 21
>PRK14840 undecaprenyl pyrophosphate synthase; Provisional
Probab=63.13 E-value=21 Score=32.65 Aligned_cols=33 Identities=15% Similarity=0.056 Sum_probs=28.3
Q ss_pred cccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 213 IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 213 ~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
...-.++-+.++..-|++|.+.|++.|++|.=|
T Consensus 44 ~~~GH~~G~~~l~~v~~~c~~~GIk~lTvYaFS 76 (250)
T PRK14840 44 AISGHYYGAKSLPQIVDTALHLGIEVLTLFAFS 76 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 344567788999999999999999999999876
No 22
>PRK14839 undecaprenyl pyrophosphate synthase; Provisional
Probab=62.37 E-value=17 Score=32.97 Aligned_cols=49 Identities=14% Similarity=0.092 Sum_probs=34.2
Q ss_pred EEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 196 VLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 196 vi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
+|.|+++++.. ...+....-..+-+..+..-|++|.+.|++.|++|.=|
T Consensus 15 iImDGNrRwAk-~~gl~~~~GH~~G~~~l~~i~~~c~~~GI~~lTvYaFS 63 (239)
T PRK14839 15 IIMDGNGRWAT-ARGLPRLAGHRAGVEAIRRVVEAAPDLGIGTLTLYAFS 63 (239)
T ss_pred EEcCCCHHHHH-HCCCCHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEec
Confidence 34455555511 11233344567788899999999999999999999876
No 23
>PRK14834 undecaprenyl pyrophosphate synthase; Provisional
Probab=61.94 E-value=23 Score=32.31 Aligned_cols=49 Identities=18% Similarity=0.123 Sum_probs=33.8
Q ss_pred EEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 196 VLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 196 vi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
+|.|+++++... ..+....-..+-+..+...|++|.+.|++.|++|.-|
T Consensus 20 iImDGNrRwAk~-~g~~~~~GH~~G~~~l~~i~~~c~~lgI~~lTvYaFS 68 (249)
T PRK14834 20 IIMDGNGRWAKA-RGLPRAAGHRAGVEALRRVVRAAGELGIGYLTLFAFS 68 (249)
T ss_pred EEecCchHHHHH-CCCchhhhHHHHHHHHHHHHHHHHHcCCCEEEEEEEe
Confidence 344555555111 1233344566788889999999999999999999876
No 24
>PRK14835 undecaprenyl pyrophosphate synthase; Provisional
Probab=61.52 E-value=24 Score=32.74 Aligned_cols=49 Identities=12% Similarity=0.074 Sum_probs=33.9
Q ss_pred EEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 196 VLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 196 vi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
+|.|+++++.. ...+....-..+-+..+..-+++|.+.|++.|++|.-|
T Consensus 47 iImDGNrRwAk-~~g~~~~~GH~~G~~~l~~i~~~c~~lGIk~lTvYaFS 95 (275)
T PRK14835 47 LILDGNRRFAR-ALGLQREMGHEFGVQKAYEVLEWCLELGIPTVTIWVFS 95 (275)
T ss_pred EEecCchHHHH-HCCCCHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEEE
Confidence 34465655511 11233333456788899999999999999999999877
No 25
>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=59.79 E-value=20 Score=32.11 Aligned_cols=50 Identities=18% Similarity=0.175 Sum_probs=35.9
Q ss_pred EEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 195 AVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 195 vvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
++|.|+++++.. ...+....-.++-+..+..-+++|.+.|++.+++|.=|
T Consensus 5 aiImDGNrRwA~-~~gl~~~~GH~~G~~~~~~i~~~~~~~gI~~lTvyaFS 54 (221)
T cd00475 5 AFIMDGNRRWAK-QRGMDRIEGHKAGAEKLRDILRWCLELGVKEVTLYAFS 54 (221)
T ss_pred EEecCCCHHHHH-HCCCChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEeec
Confidence 345566666521 11334445667788899999999999999999999766
No 26
>PRK14842 undecaprenyl pyrophosphate synthase; Provisional
Probab=59.40 E-value=20 Score=32.54 Aligned_cols=48 Identities=17% Similarity=0.132 Sum_probs=34.1
Q ss_pred EEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 197 LRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 197 i~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
|.|+++++.. ...+....-.++-+..+..-|++|.+.|++.|++|.=|
T Consensus 15 ImDGNrRwAk-~~gl~~~~GH~~G~~~l~~i~~~c~~lgI~~vTvYaFS 62 (241)
T PRK14842 15 IMDGNGRWAE-SQGKKRSEGHREGANAIDRLMDASLEYGLKNISLYAFS 62 (241)
T ss_pred EcCCCHHHHH-HCCCChhHhHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 3355555511 11233445667788899999999999999999999877
No 27
>COG0450 AhpC Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]
Probab=57.30 E-value=48 Score=29.06 Aligned_cols=47 Identities=23% Similarity=0.283 Sum_probs=35.3
Q ss_pred CceEEEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcC
Q 021120 189 GQAGAGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKG 235 (317)
Q Consensus 189 ~~aG~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g 235 (317)
+.+--|+++.+++|.++...........|.-|++.++.||++..++|
T Consensus 121 g~a~R~~FIIDp~g~ir~~~v~~~~iGRn~dEilR~idAlq~~~~hg 167 (194)
T COG0450 121 GLALRGTFIIDPDGVIRHILVNPLTIGRNVDEILRVIDALQFVAKHG 167 (194)
T ss_pred CcceeEEEEECCCCeEEEEEEecCCCCcCHHHHHHHHHHHHHHHHhC
Confidence 33556899999999884443333345678889999999999987776
No 28
>PRK14836 undecaprenyl pyrophosphate synthase; Provisional
Probab=57.26 E-value=18 Score=33.14 Aligned_cols=43 Identities=16% Similarity=0.233 Sum_probs=31.3
Q ss_pred cccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHHhcccccCChh
Q 021120 213 IATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQIQGLWKINNQN 262 (317)
Q Consensus 213 ~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v~~~w~~~~~~ 262 (317)
...-..+-+..+..-+++|.+.|++.+++|. .-+..|+.....
T Consensus 36 ~~~GH~~G~~~~~~iv~~c~~~gI~~lTvYa-------FS~eN~~R~~~E 78 (253)
T PRK14836 36 RVEGHRAGVRAVRRTIEFCLEKGIEMLTLFA-------FSSENWLRPADE 78 (253)
T ss_pred hhhhHHHHHHHHHHHHHHHHHcCCCEEehhH-------hhhhhcCCCHHH
Confidence 3445666777899999999999999999987 234456655443
No 29
>PRK14833 undecaprenyl pyrophosphate synthase; Provisional
Probab=57.08 E-value=25 Score=31.73 Aligned_cols=49 Identities=10% Similarity=0.070 Sum_probs=34.9
Q ss_pred EEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 196 VLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 196 vi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
+|.|+++++.. ...+....-..+-+.++...|++|.+.|++.|++|.=|
T Consensus 10 iImDGNrRwA~-~~gl~~~~GH~~G~~~l~~~~~~c~~~gI~~lTvyaFS 58 (233)
T PRK14833 10 IIMDGNGRWAK-LRGKARAAGHKKGVKTLREITIWCANHKLECLTLYAFS 58 (233)
T ss_pred EEccCCHHHHH-HCCCChhhhHHHHHHHHHHHHHHHHHcCCCEEEEeecc
Confidence 34465655511 11233445667788999999999999999999999876
No 30
>PRK14832 undecaprenyl pyrophosphate synthase; Provisional
Probab=55.11 E-value=24 Score=32.33 Aligned_cols=48 Identities=17% Similarity=0.108 Sum_probs=34.3
Q ss_pred EEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 197 LRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 197 i~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
|.|+++++.. ...+....-.++-+.++...+++|.+.|++.+++|.=|
T Consensus 25 ImDGNrRwAk-~~gl~~~~GH~~G~~~l~~i~~~c~~~gI~~lTvyaFS 72 (253)
T PRK14832 25 IMDGNGRWAT-SQGLPRIAGHRQGARTLKELLRCCKDWGIKALTAYAFS 72 (253)
T ss_pred ECCCCHHHHH-HCCCCHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 3455555511 11233445567788999999999999999999999877
No 31
>PRK14829 undecaprenyl pyrophosphate synthase; Provisional
Probab=54.55 E-value=27 Score=31.81 Aligned_cols=49 Identities=16% Similarity=0.104 Sum_probs=34.8
Q ss_pred EEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 196 VLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 196 vi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
+|.|+++++.. ...+....-..+-+.++..-+++|.+.|++.|++|.=|
T Consensus 20 iImDGNrRwAk-~~g~~~~~GH~~G~~~l~~iv~~c~~~gI~~vTvYaFS 68 (243)
T PRK14829 20 VVMDGNGRWAT-QRGLKRTEGHKAGEPVLFDVVAGAIEAGVPYLSLYTFS 68 (243)
T ss_pred EecCCCHHHHH-HCCCChhHHHHHHHHHHHHHHHHHHHcCCCEEEEeeec
Confidence 34466666511 11233445567788999999999999999999999876
No 32
>PRK14831 undecaprenyl pyrophosphate synthase; Provisional
Probab=53.91 E-value=29 Score=31.70 Aligned_cols=34 Identities=15% Similarity=-0.071 Sum_probs=28.4
Q ss_pred ccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 212 GIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 212 ~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
....-.++-+.++..-+++|.+.|++.|++|.=|
T Consensus 41 ~~~~GH~~G~~~l~~i~~~c~~~GI~~vT~yaFS 74 (249)
T PRK14831 41 PRIMGHRRGVDALKDLLRCCKDWGIGALTAYAFS 74 (249)
T ss_pred chhhhHHHHHHHHHHHHHHHHHcCCCEEEEeecc
Confidence 3445567788899999999999999999999877
No 33
>PTZ00349 dehydrodolichyl diphosphate synthetase; Provisional
Probab=53.11 E-value=31 Score=32.73 Aligned_cols=48 Identities=17% Similarity=0.134 Sum_probs=33.7
Q ss_pred EEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 197 LRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 197 i~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
|.|+++++... ..+....-..+-..++..-|++|.+.|++.|++|.=|
T Consensus 26 IMDGNrRwAk~-~gl~~~~GH~~G~~~l~~il~~c~~lGIk~lTlYAFS 73 (322)
T PTZ00349 26 IMDGNRRFAKE-KGLHSAIGHFMGSKALIQIIEICIKLKIKILSVFSFS 73 (322)
T ss_pred EcCCCHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEEee
Confidence 33555555111 1233344567788899999999999999999999877
No 34
>PRK14838 undecaprenyl pyrophosphate synthase; Provisional
Probab=51.92 E-value=35 Score=31.05 Aligned_cols=48 Identities=15% Similarity=0.086 Sum_probs=33.5
Q ss_pred EEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 197 LRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 197 i~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
|.|+++++.. ...+....-..+-+..+..-|++|.+.|++.|++|.=|
T Consensus 17 ImDGNrRwA~-~~gl~~~~GH~~G~~~l~~i~~~~~~~gI~~lT~YaFS 64 (242)
T PRK14838 17 IMDGNGRWAK-ERGKERSFGHQAGAETVHIITEEAARLGVKFLTLYTFS 64 (242)
T ss_pred eccCCHHHHH-HCCCCHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeec
Confidence 3355555511 11233445567788899999999999999999999866
No 35
>COG0590 CumB Cytosine/adenosine deaminases [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=49.78 E-value=41 Score=28.17 Aligned_cols=63 Identities=16% Similarity=0.033 Sum_probs=38.4
Q ss_pred ceEEEEEEEcCCCCEEEEeecccccc---chHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHHH
Q 021120 190 QAGAGAVLRAEDGSVYRLREGVGIAT---NNVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQI 252 (317)
Q Consensus 190 ~aG~Gvvi~~~~g~~~~~s~~~~~~t---nn~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~v 252 (317)
...+|++|.+.++.+..........+ ...||+.||..|.+.+.....+..++|+=-+-...|.
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 35688888876776633222222222 1268999999999877554455667776655555443
No 36
>PRK14830 undecaprenyl pyrophosphate synthase; Provisional
Probab=48.38 E-value=40 Score=30.80 Aligned_cols=32 Identities=19% Similarity=0.020 Sum_probs=26.3
Q ss_pred ccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 214 ATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 214 ~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
..-.++-+..+..-|++|.+.|++.|++|.=|
T Consensus 45 ~~Gh~~G~~~l~~~l~~c~~~GI~~vTvYaFS 76 (251)
T PRK14830 45 IAGHKAGMDTVKKITKAASELGVKVLTLYAFS 76 (251)
T ss_pred hhhHHHHHHHHHHHHHHHHHcCCCEEEEEEEe
Confidence 34456677789999999999999999999854
No 37
>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=38.19 E-value=23 Score=31.11 Aligned_cols=25 Identities=32% Similarity=0.389 Sum_probs=20.2
Q ss_pred CCCCceeccCCCHHHHHHHHHhcCC
Q 021120 36 DPSLTVYKGYGLSKEAEEYLASHGL 60 (317)
Q Consensus 36 ~~~~a~yk~f~~~~ea~~f~~~~~~ 60 (317)
|-|.|.|+.|.+.+||.+||+....
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 7899999999999999999998754
No 38
>PRK13191 putative peroxiredoxin; Provisional
Probab=37.29 E-value=82 Score=27.88 Aligned_cols=42 Identities=17% Similarity=0.180 Sum_probs=29.7
Q ss_pred EEEEEEcCCCCEEEE-eeccccccchHHHHHHHHHHHHHHHHcC
Q 021120 193 AGAVLRAEDGSVYRL-REGVGIATNNVAEYRALILGLKYALQKG 235 (317)
Q Consensus 193 ~Gvvi~~~~g~~~~~-s~~~~~~tnn~AEl~All~AL~~a~~~g 235 (317)
=+.+|.+++|.+... .... ....|..|++.++.||+...++|
T Consensus 125 r~tfIID~~G~Ir~~~~~~~-~~gr~~~eilr~l~alq~~~~~~ 167 (215)
T PRK13191 125 RAVFIVDDKGTVRLILYYPM-EIGRNIDEILRAIRALQLVDKAG 167 (215)
T ss_pred EEEEEECCCCEEEEEEecCC-CCCCCHHHHHHHHHHhhhhhhcC
Confidence 367888989988333 2233 33358889999999999876654
No 39
>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=37.24 E-value=1e+02 Score=24.48 Aligned_cols=47 Identities=19% Similarity=0.044 Sum_probs=27.4
Q ss_pred EEEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcCCcEEEEEe
Q 021120 192 GAGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKGYKHIRVQG 243 (317)
Q Consensus 192 G~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~t 243 (317)
-+|++|.+++|++....... ......||+.||..|.+. ..+..++|+
T Consensus 20 pvGaviv~~~g~iv~~g~n~-~~~~~HAE~~ai~~a~~~----~l~g~tly~ 66 (115)
T cd01284 20 PVGCVIVDDDGEIVGEGYHR-KAGGPHAEVNALASAGEK----LARGATLYV 66 (115)
T ss_pred CEEEEEEeCCCeEEEEecCC-CCCcccHHHHHHHHHhhc----CCCCeEEEE
Confidence 46777776666652221111 124567999999988764 334455554
No 40
>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=37.22 E-value=1.1e+02 Score=23.81 Aligned_cols=58 Identities=16% Similarity=-0.022 Sum_probs=33.0
Q ss_pred eEEEEEEEcCCCCEEEEeeccc---cccchHHHHHHHHHHHHHHHHcCCcEEEEEeChHHH
Q 021120 191 AGAGAVLRAEDGSVYRLREGVG---IATNNVAEYRALILGLKYALQKGYKHIRVQGDSKLV 248 (317)
Q Consensus 191 aG~Gvvi~~~~g~~~~~s~~~~---~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS~~v 248 (317)
..+|++|.+.++++........ ......||+.||..+.+..........++|+.-+-.
T Consensus 17 ~~vgaviv~~~~~ii~~g~n~~~~~~~~~~HAE~~ai~~~~~~~~~~~~~~~~ly~t~EPC 77 (109)
T cd01285 17 VPFGAVIVDDDGKVIARGHNRVEQDGDPTAHAEIVAIRNAARRLGSYLLSGCTLYTTLEPC 77 (109)
T ss_pred CcEEEEEEeCCCEEEEEEeCCCCCCCCCcccHHHHHHHHHHHHhCCCccCCeEEEEeCCCh
Confidence 4567777776666522222211 123456899999888765332234567777765433
No 41
>PRK10382 alkyl hydroperoxide reductase subunit C; Provisional
Probab=36.35 E-value=93 Score=26.91 Aligned_cols=42 Identities=7% Similarity=0.089 Sum_probs=30.0
Q ss_pred EEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHc
Q 021120 193 AGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQK 234 (317)
Q Consensus 193 ~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~ 234 (317)
=..++.+.+|.+............+..|+++++.||++...+
T Consensus 120 r~tfIID~~G~I~~~~~~~~~~~~~~~eil~~l~alq~~~~~ 161 (187)
T PRK10382 120 RATFVVDPQGIIQAIEVTAEGIGRDASDLLRKIKAAQYVASH 161 (187)
T ss_pred eEEEEECCCCEEEEEEEeCCCCCCCHHHHHHHHHhhhhHhhc
Confidence 456888889988433323233446888999999999997766
No 42
>PRK15000 peroxidase; Provisional
Probab=36.04 E-value=97 Score=27.01 Aligned_cols=44 Identities=18% Similarity=0.167 Sum_probs=30.7
Q ss_pred EEEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcC
Q 021120 192 GAGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKG 235 (317)
Q Consensus 192 G~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g 235 (317)
-=+.++.+++|.+..........-.+..|++.++.||+...++|
T Consensus 125 ~r~tfiID~~G~I~~~~~~~~~~gr~~~eilr~l~al~~~~~~~ 168 (200)
T PRK15000 125 LRGSFLIDANGIVRHQVVNDLPLGRNIDEMLRMVDALQFHEEHG 168 (200)
T ss_pred EeEEEEECCCCEEEEEEecCCCCCCCHHHHHHHHHHhhhHHhcC
Confidence 34678889899883333222233358889999999999887765
No 43
>COG0020 UppS Undecaprenyl pyrophosphate synthase [Lipid metabolism]
Probab=34.84 E-value=1.2e+02 Score=27.66 Aligned_cols=33 Identities=24% Similarity=0.170 Sum_probs=27.2
Q ss_pred cccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 213 IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 213 ~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
...-..+-..++...+++|.+.|++.+++|..|
T Consensus 38 r~~Gh~~G~~~~~~i~~~~~~lgik~ltlyafS 70 (245)
T COG0020 38 RIEGHKAGAKALREILEWCLELGIKYLTLYAFS 70 (245)
T ss_pred hhHHHHHhHHHHHHHHHHHHHcCCCEEEEEEEe
Confidence 334455667888899999999999999999988
No 44
>PF14657 Integrase_AP2: AP2-like DNA-binding integrase domain
Probab=34.79 E-value=34 Score=22.33 Aligned_cols=15 Identities=47% Similarity=0.676 Sum_probs=13.0
Q ss_pred ccCCCHHHHHHHHHh
Q 021120 43 KGYGLSKEAEEYLAS 57 (317)
Q Consensus 43 k~f~~~~ea~~f~~~ 57 (317)
.+|.|..||+.++..
T Consensus 22 ~GF~TkkeA~~~~~~ 36 (46)
T PF14657_consen 22 RGFKTKKEAEKALAK 36 (46)
T ss_pred CCCCcHHHHHHHHHH
Confidence 459999999999975
No 45
>PRK13190 putative peroxiredoxin; Provisional
Probab=29.97 E-value=1.4e+02 Score=26.06 Aligned_cols=43 Identities=12% Similarity=0.067 Sum_probs=29.3
Q ss_pred EEEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcC
Q 021120 193 AGAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKG 235 (317)
Q Consensus 193 ~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g 235 (317)
=+.++.+++|.+..........-.+..|++.++.+|+...+.|
T Consensus 118 p~~fiId~~G~I~~~~~~~~~~gr~~~ellr~l~~l~~~~~~~ 160 (202)
T PRK13190 118 RGVFIIDPNQIVRWMIYYPAETGRNIDEIIRITKALQVNWKRK 160 (202)
T ss_pred eEEEEECCCCEEEEEEEeCCCCCCCHHHHHHHHHHhhhHHhcC
Confidence 4578888888873222122223358889999999999877665
No 46
>PRK13189 peroxiredoxin; Provisional
Probab=27.89 E-value=1.6e+02 Score=26.21 Aligned_cols=42 Identities=17% Similarity=0.136 Sum_probs=29.2
Q ss_pred EEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcC
Q 021120 194 GAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKG 235 (317)
Q Consensus 194 Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g 235 (317)
+.+|.+++|.+............+..|++.++.+|+...++|
T Consensus 128 ~tfIID~~G~Ir~~~~~~~~~gr~~~eilr~l~alq~~~~~~ 169 (222)
T PRK13189 128 AVFIIDPKGIIRAILYYPQEVGRNMDEILRLVKALQTSDEKG 169 (222)
T ss_pred EEEEECCCCeEEEEEecCCCCCCCHHHHHHHHHHhhhHhhcC
Confidence 578889899884333222233456789999999998876665
No 47
>cd01206 Homer Homer type EVH1 domain. Homer type EVH1 domain. Homer is a synaptic scaffolding protein, involved in neuronal signaling. It contains an EVH1 domain, which binds to both neurotransmitter receptors, such as the metabotropic glutamate receptor (mGluR) and to other scaffolding proteins via PPXXF motifs, in order to target them to the synaptic junction. It has a PH-like fold, despite having minimal sequence similarity to PH or PTB domains.
Probab=25.74 E-value=37 Score=26.93 Aligned_cols=32 Identities=6% Similarity=0.176 Sum_probs=26.6
Q ss_pred ccccCChHHHHH-HhccccCCCCCceeccCCCHHHHHHHHHhc
Q 021120 17 VGIYKTLSDCQL-QAGFSVRDPSLTVYKGYGLSKEAEEYLASH 58 (317)
Q Consensus 17 ~Gi~~~w~~~q~-qv~~~~~~~~~a~yk~f~~~~ea~~f~~~~ 58 (317)
.-.|..|.|.++ +|- | -+|.+++||..|....
T Consensus 71 s~~FhQWrD~R~~tVy----G------LnF~Sk~ea~~F~~~f 103 (111)
T cd01206 71 SQKFGQWADSRANTVY----G------LGFSSEQQLTKFAEKF 103 (111)
T ss_pred ccccccccccccceee----e------cccCCHHHHHHHHHHH
Confidence 346889999995 776 7 7899999999999864
No 48
>smart00441 FF Contains two conserved F residues. A novel motif that often accompanies WW domains. Often contains two conserved Phe (F) residues.
Probab=25.69 E-value=62 Score=21.54 Aligned_cols=33 Identities=18% Similarity=0.119 Sum_probs=27.6
Q ss_pred ccCChHHHHHHhccccCCCCCceeccCCCHHHHHHHHHh
Q 021120 19 IYKTLSDCQLQAGFSVRDPSLTVYKGYGLSKEAEEYLAS 57 (317)
Q Consensus 19 i~~~w~~~q~qv~~~~~~~~~a~yk~f~~~~ea~~f~~~ 57 (317)
-+++|.+++..+. ...+|+......+.+..++.
T Consensus 19 ~~~~W~~~~~~~~------~d~ry~~l~~~~~r~~lF~~ 51 (55)
T smart00441 19 PDTTWSEARKKLK------NDPRYKALLSESEREQLFED 51 (55)
T ss_pred CCCcHHHHHHHHh------cChHHHHhcChHHHHHHHHH
Confidence 5799999999997 57889888888888877765
No 49
>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=25.24 E-value=67 Score=20.89 Aligned_cols=17 Identities=18% Similarity=0.388 Sum_probs=14.9
Q ss_pred cCCCHHHHHHHHHhcCC
Q 021120 44 GYGLSKEAEEYLASHGL 60 (317)
Q Consensus 44 ~f~~~~ea~~f~~~~~~ 60 (317)
.|.|.+|+++|...+..
T Consensus 7 ~f~se~Ee~eFW~~hD~ 23 (42)
T PF12441_consen 7 EFKSEEEEREFWDTHDS 23 (42)
T ss_pred CCCCHHHHHHHHHhccc
Confidence 68899999999998764
No 50
>PRK10860 tRNA-specific adenosine deaminase; Provisional
Probab=24.82 E-value=1.7e+02 Score=25.06 Aligned_cols=35 Identities=17% Similarity=-0.090 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHHHHHHHcCCcEEEEEeChHHHHHH
Q 021120 217 NVAEYRALILGLKYALQKGYKHIRVQGDSKLVCMQ 251 (317)
Q Consensus 217 n~AEl~All~AL~~a~~~g~~~i~I~tDS~~vi~~ 251 (317)
..||+.||..|.+......+...++|+--+-...|
T Consensus 61 ~HAEi~Ai~~a~~~~~~~~l~g~tlY~TlEPC~MC 95 (172)
T PRK10860 61 AHAEIMALRQGGLVLQNYRLLDATLYVTLEPCVMC 95 (172)
T ss_pred cCHHHHHHHHHHHhcCCCCcCCcEEEeeCCCcHHH
Confidence 46899999988765433333456666655444443
No 51
>PTZ00137 2-Cys peroxiredoxin; Provisional
Probab=24.31 E-value=1.6e+02 Score=26.99 Aligned_cols=42 Identities=21% Similarity=0.139 Sum_probs=29.2
Q ss_pred EEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcC
Q 021120 194 GAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKG 235 (317)
Q Consensus 194 Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g 235 (317)
+.++.+++|.+..........-.+..|++.++.||+...+.|
T Consensus 190 ~tFIID~dG~I~~~~~~~~~~gr~v~eiLr~l~alq~~~~~g 231 (261)
T PTZ00137 190 ASVLVDKAGVVKHVAVYDLGLGRSVDETLRLFDAVQFAEKTG 231 (261)
T ss_pred EEEEECCCCEEEEEEEeCCCCCCCHHHHHHHHHHhchhhhcC
Confidence 467888888883333222233358889999999999877665
No 52
>PF01846 FF: FF domain; InterPro: IPR002713 The FF domain may be involved in protein-protein interaction []. It often occurs as multiple copies and often accompanies WW domains IPR001202 from INTERPRO. PRP40 from yeast encodes a novel, essential splicing component that associates with the yeast U1 small nuclear ribonucleoprotein particle [].; PDB: 3HFH_B 2KIS_A 2DOD_A 2JUC_A 2LKS_A 1UZC_A 2KZG_A 2L9V_A 2DOF_A 2KFD_A ....
Probab=23.50 E-value=87 Score=20.53 Aligned_cols=33 Identities=15% Similarity=0.216 Sum_probs=27.1
Q ss_pred ccCChHHHHHHhccccCCCCCceeccC-CCHHHHHHHHHh
Q 021120 19 IYKTLSDCQLQAGFSVRDPSLTVYKGY-GLSKEAEEYLAS 57 (317)
Q Consensus 19 i~~~w~~~q~qv~~~~~~~~~a~yk~f-~~~~ea~~f~~~ 57 (317)
-+++|.++...+. ...+|+.- .+..+.++.++.
T Consensus 17 ~~s~W~~~~~~l~------~dpry~~i~~~~~~R~~lF~e 50 (51)
T PF01846_consen 17 PYSSWEEVKPKLS------KDPRYKAIGDSESERESLFEE 50 (51)
T ss_dssp TTSSHHHHHHHHT------TSCHHHHSTSCHHHHHHHHHH
T ss_pred CCCcHHHHHHHHc------cCHHHHHhcCCHHHHHHHHHh
Confidence 4689999999997 68899988 888888777654
No 53
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=23.39 E-value=60 Score=33.42 Aligned_cols=24 Identities=21% Similarity=0.342 Sum_probs=22.3
Q ss_pred CCCCceeccCCCHHHHHHHHHhcC
Q 021120 36 DPSLTVYKGYGLSKEAEEYLASHG 59 (317)
Q Consensus 36 ~~~~a~yk~f~~~~ea~~f~~~~~ 59 (317)
|-|-|.||.|+..++|..|+....
T Consensus 120 ~IPTA~y~~ft~~e~a~sfi~~~~ 143 (788)
T KOG0237|consen 120 NIPTAKYKTFTDPEEAKSFIQSAT 143 (788)
T ss_pred CCCcceeeeeCCHHHHHHHHHhCC
Confidence 789999999999999999999765
No 54
>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=23.11 E-value=2.4e+02 Score=24.50 Aligned_cols=41 Identities=12% Similarity=0.056 Sum_probs=27.9
Q ss_pred EEEEEcCCCCEE-EEeeccccccchHHHHHHHHHHHHHHHHcC
Q 021120 194 GAVLRAEDGSVY-RLREGVGIATNNVAEYRALILGLKYALQKG 235 (317)
Q Consensus 194 Gvvi~~~~g~~~-~~s~~~~~~tnn~AEl~All~AL~~a~~~g 235 (317)
+++|.+++|.+. ........ -.+..|++.++.+|+...+.+
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 578888898873 32233322 346789999999998876554
No 55
>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=22.66 E-value=1.5e+02 Score=22.28 Aligned_cols=52 Identities=17% Similarity=0.036 Sum_probs=26.1
Q ss_pred eEEEEEEEcCCCCEEEEeecccccc---chHHHHHHHHHHHHHHHHcCCcEEEEEe
Q 021120 191 AGAGAVLRAEDGSVYRLREGVGIAT---NNVAEYRALILGLKYALQKGYKHIRVQG 243 (317)
Q Consensus 191 aG~Gvvi~~~~g~~~~~s~~~~~~t---nn~AEl~All~AL~~a~~~g~~~i~I~t 243 (317)
..+|+++.++++............. ...||+.|+..+.+. -....+..++|+
T Consensus 24 ~~vgaviv~~~~~~i~~g~n~~~~~~~~~~HAE~~Ai~~~~~~-~~~~~~~~~lyv 78 (102)
T PF00383_consen 24 FPVGAVIVDPDGKIIATGYNGEPPGKNPTIHAEMNAIRKAARN-GGSSLKGCTLYV 78 (102)
T ss_dssp SSEEEEEEETTTEEEEEEESBHHSTTGGTB-HHHHHHHHHHHT-TSSGETTEEEEE
T ss_pred CCEEEEEEeccCccEEEEeeeeeeeccccccchhhhhhhhhhh-ccccccCccccc
Confidence 4567777775544422221221222 247899888887765 111123356665
No 56
>PF10827 DUF2552: Protein of unknown function (DUF2552) ; InterPro: IPR020157 This entry contains proteins with no known function.
Probab=22.42 E-value=69 Score=23.32 Aligned_cols=17 Identities=12% Similarity=0.165 Sum_probs=15.3
Q ss_pred ccCCCHHHHHHHHHhcC
Q 021120 43 KGYGLSKEAEEYLASHG 59 (317)
Q Consensus 43 k~f~~~~ea~~f~~~~~ 59 (317)
+.|.|.++|-+|+..+-
T Consensus 56 ~eF~tld~Ai~Wi~e~M 72 (79)
T PF10827_consen 56 QEFPTLDLAIAWIGEHM 72 (79)
T ss_pred cccccHHHHHHHHHhcc
Confidence 89999999999998763
No 57
>COG0295 Cdd Cytidine deaminase [Nucleotide transport and metabolism]
Probab=22.26 E-value=2.6e+02 Score=23.00 Aligned_cols=52 Identities=25% Similarity=0.385 Sum_probs=32.1
Q ss_pred EEEEEEcCCCCEEEEe--eccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 193 AGAVLRAEDGSVYRLR--EGVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 193 ~Gvvi~~~~g~~~~~s--~~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
.|+.++..+|+++.-. +.....--+-||-.||.+|+.. -...+..|.+++|.
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 5666666677662111 1112333467899999998865 22335678999887
No 58
>PF04800 ETC_C1_NDUFA4: ETC complex I subunit conserved region; InterPro: IPR006885 This entry represents prokaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC, 1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 21 kDa protein [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022900 electron transport chain, 0005743 mitochondrial inner membrane; PDB: 2JYA_A 2LJU_A.
Probab=22.02 E-value=59 Score=25.43 Aligned_cols=20 Identities=20% Similarity=0.313 Sum_probs=16.6
Q ss_pred eeccCCCHHHHHHHHHhcCC
Q 021120 41 VYKGYGLSKEAEEYLASHGL 60 (317)
Q Consensus 41 ~yk~f~~~~ea~~f~~~~~~ 60 (317)
.--.|+|+|+|.+|...+|-
T Consensus 51 v~l~F~skE~Ai~yaer~G~ 70 (101)
T PF04800_consen 51 VRLKFDSKEDAIAYAERNGW 70 (101)
T ss_dssp CEEEESSHHHHHHHHHHCT-
T ss_pred eEeeeCCHHHHHHHHHHcCC
Confidence 34689999999999998874
No 59
>PF08183 SpoV: Stage V sporulation protein family; InterPro: IPR012609 This family consists of the stage V sporulation (SpoV) proteins of Bacillus subtilis which includes SpoVM. SpoVM is an small, 26 residue-long protein that is produced in the mother cell chamber of the sporangium during the process of sporulation in B. subtilis. SpoVM forms an amphipathic alpha-helix and is recruited to the polar septum shortly after the sporangium undergoes asymmetric division. The function of SpoVM depends on proper subcellular localisation [].
Probab=21.96 E-value=47 Score=19.19 Aligned_cols=7 Identities=29% Similarity=0.819 Sum_probs=3.9
Q ss_pred CceEEEE
Q 021120 6 DAFYVVR 12 (317)
Q Consensus 6 ~k~yav~ 12 (317)
||||+++
T Consensus 1 MKfYtIK 7 (26)
T PF08183_consen 1 MKFYTIK 7 (26)
T ss_pred CCceeee
Confidence 4556554
No 60
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=21.87 E-value=81 Score=31.08 Aligned_cols=25 Identities=20% Similarity=0.352 Sum_probs=22.9
Q ss_pred CCCCceeccCCCHHHHHHHHHhcCC
Q 021120 36 DPSLTVYKGYGLSKEAEEYLASHGL 60 (317)
Q Consensus 36 ~~~~a~yk~f~~~~ea~~f~~~~~~ 60 (317)
|-|-|.|+.|.+.+||.+|++..+.
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 61
>PRK13599 putative peroxiredoxin; Provisional
Probab=21.58 E-value=2.4e+02 Score=24.95 Aligned_cols=42 Identities=19% Similarity=0.129 Sum_probs=28.2
Q ss_pred EEEEEcCCCCEEEEeeccccccchHHHHHHHHHHHHHHHHcC
Q 021120 194 GAVLRAEDGSVYRLREGVGIATNNVAEYRALILGLKYALQKG 235 (317)
Q Consensus 194 Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~AL~~a~~~g 235 (317)
.++|.+++|.+............|..|++.++.+|+...+.+
T Consensus 121 ~tfIID~dG~Ir~~~~~p~~~gr~~~eilr~l~~lq~~~~~~ 162 (215)
T PRK13599 121 AVFIVDDKGTIRLIMYYPQEVGRNVDEILRALKALQTADQYG 162 (215)
T ss_pred EEEEECCCCEEEEEEEcCCCCCCCHHHHHHHHHHhhhhhhcC
Confidence 567888888883322211233368889999999998876654
No 62
>KOG1602 consensus Cis-prenyltransferase [Lipid transport and metabolism]
Probab=20.56 E-value=1.5e+02 Score=27.21 Aligned_cols=36 Identities=25% Similarity=0.246 Sum_probs=30.4
Q ss_pred ccccccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 210 GVGIATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 210 ~~~~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
.+....-..|-..++..-|++|.+.|++.|++|.=|
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 344556678899999999999999999999999866
No 63
>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=20.21 E-value=2.3e+02 Score=23.27 Aligned_cols=43 Identities=30% Similarity=0.279 Sum_probs=25.7
Q ss_pred EEEEEeCcccCCCCceEEEEEEEcCCCCEEEEeeccccccchHHHHHHHHH
Q 021120 176 CTLEFDGASKGNPGQAGAGAVLRAEDGSVYRLREGVGIATNNVAEYRALIL 226 (317)
Q Consensus 176 ~~iytDGS~~~n~~~aG~Gvvi~~~~g~~~~~s~~~~~~tnn~AEl~All~ 226 (317)
++||+||.+ =+|++=...+|.. ..+......-....|++..+.
T Consensus 1 LTV~Fdg~F-------WvGv~E~~~~~~~-~v~rv~FG~EP~d~Ei~~fi~ 43 (132)
T PF11208_consen 1 LTVYFDGPF-------WVGVFERHEDGKY-KVARVTFGAEPKDPEIYEFIL 43 (132)
T ss_pred CeEEecCCc-------EEEEEEEEECCEE-EEEEEeeCCCCCcHHHHHHHH
Confidence 369999987 3566666655554 333333335555567766653
No 64
>PRK10240 undecaprenyl pyrophosphate synthase; Provisional
Probab=20.19 E-value=4.5e+02 Score=23.65 Aligned_cols=33 Identities=15% Similarity=0.158 Sum_probs=27.4
Q ss_pred cccchHHHHHHHHHHHHHHHHcCCcEEEEEeCh
Q 021120 213 IATNNVAEYRALILGLKYALQKGYKHIRVQGDS 245 (317)
Q Consensus 213 ~~tnn~AEl~All~AL~~a~~~g~~~i~I~tDS 245 (317)
...-.++-+..+..-|++|.+.|++.|++|.=|
T Consensus 15 ~~~GH~~G~~~l~~i~~~c~~~GI~~lT~yaFS 47 (229)
T PRK10240 15 RAFGHKAGAKSVRRAVSFAANNGIEALTLYAFS 47 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeee
Confidence 344566778889999999999999999999876
Done!