Query 038649
Match_columns 130
No_of_seqs 137 out of 1036
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 13:13:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038649.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038649hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0692 Ung Uracil DNA glycosy 100.0 9.1E-51 2E-55 322.6 11.5 118 13-130 95-222 (223)
2 PHA03200 uracil DNA glycosylas 100.0 1.1E-49 2.3E-54 323.1 12.4 119 12-130 122-252 (255)
3 KOG2994 Uracil DNA glycosylase 100.0 1.1E-49 2.3E-54 323.4 10.6 118 13-130 169-296 (297)
4 PHA03347 uracil DNA glycosylas 100.0 2.5E-49 5.4E-54 320.6 12.5 119 12-130 116-251 (252)
5 PHA03204 uracil DNA glycosylas 100.0 2E-47 4.3E-52 317.8 12.1 118 12-130 192-320 (322)
6 PRK05254 uracil-DNA glycosylas 100.0 3.1E-47 6.7E-52 304.1 12.3 117 13-130 98-224 (224)
7 PHA03202 uracil DNA glycosylas 100.0 5.8E-47 1.3E-51 314.1 11.9 122 7-130 180-312 (313)
8 PHA03199 uracil DNA glycosylas 100.0 9.4E-47 2E-51 311.6 12.4 117 12-130 178-304 (304)
9 PHA03201 uracil DNA glycosylas 100.0 1.5E-46 3.3E-51 312.2 12.3 117 12-130 192-318 (318)
10 TIGR00628 ung uracil-DNA glyco 100.0 2.6E-45 5.6E-50 291.2 11.9 112 12-123 91-212 (212)
11 PF03167 UDG: Uracil DNA glyco 98.4 1.5E-06 3.2E-11 62.0 7.1 87 28-119 50-152 (152)
12 COG1573 Uracil-DNA glycosylase 58.0 16 0.00035 28.6 3.8 38 65-102 124-179 (202)
13 COG1922 WecG Teichoic acid bio 57.8 11 0.00024 31.2 3.0 40 40-79 137-176 (253)
14 TIGR00696 wecB_tagA_cpsF bacte 55.0 16 0.00035 28.1 3.4 31 50-80 86-116 (177)
15 PF04204 HTS: Homoserine O-suc 53.3 7.2 0.00016 32.9 1.3 29 48-77 119-147 (298)
16 cd03131 GATase1_HTS Type 1 glu 53.3 4.2 9.2E-05 31.6 -0.1 31 48-79 83-113 (175)
17 PRK05368 homoserine O-succinyl 53.0 15 0.00033 30.9 3.2 30 49-79 121-150 (302)
18 TIGR01001 metA homoserine O-su 40.5 12 0.00026 31.8 0.7 28 49-77 121-148 (300)
19 PRK03692 putative UDP-N-acetyl 38.0 37 0.00079 27.5 3.1 40 41-80 134-173 (243)
20 PF03808 Glyco_tran_WecB: Glyc 35.2 52 0.0011 24.7 3.4 30 50-79 87-116 (172)
21 PF08494 DEAD_assoc: DEAD/H as 31.3 36 0.00079 26.1 2.0 25 76-100 162-186 (187)
22 PF13692 Glyco_trans_1_4: Glyc 28.5 69 0.0015 21.6 2.9 35 46-80 14-48 (135)
23 PF02254 TrkA_N: TrkA-N domain 28.3 50 0.0011 22.2 2.1 30 47-76 4-33 (116)
24 PF03040 CemA: CemA family; I 27.7 32 0.0007 27.9 1.2 31 41-71 163-194 (230)
25 cd01987 USP_OKCHK USP domain i 24.9 89 0.0019 21.0 2.9 56 51-108 49-106 (124)
26 cd06533 Glyco_transf_WecG_TagA 24.5 82 0.0018 23.7 2.8 28 53-80 88-115 (171)
27 PF09521 RE_NgoPII: NgoPII res 23.5 29 0.00063 29.0 0.2 43 55-97 61-103 (263)
28 PF08795 DUF1796: Putative pap 22.1 3.5E+02 0.0075 20.3 7.2 60 12-74 41-133 (167)
29 PRK07586 hypothetical protein; 22.0 1.4E+02 0.003 26.0 4.2 72 49-120 183-262 (514)
30 PHA02949 Hypothetical protein; 21.0 43 0.00093 22.1 0.6 11 12-22 48-58 (65)
No 1
>COG0692 Ung Uracil DNA glycosylase [DNA replication, recombination, and repair]
Probab=100.00 E-value=9.1e-51 Score=322.64 Aligned_cols=118 Identities=54% Similarity=0.885 Sum_probs=113.8
Q ss_pred hhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhcccc
Q 038649 13 MLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSRL 82 (130)
Q Consensus 13 ~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~~ 82 (130)
+|.+|+..+..|.+ +|||||++|| ++++|+||++.|||.||++||+.|+++++++||||||++||++.++
T Consensus 95 EL~~dl~~~~~~~~g~L~~WA~QGVLLLNtvLTV~~g~a~SH~~~GWE~FTd~vi~~l~~~~~~vVfiLWG~~Aq~k~~~ 174 (223)
T COG0692 95 ELEADLGGFPIPNHGDLTSWAEQGVLLLNTVLTVRAGQANSHAGKGWETFTDAVIKALNERREPVVFVLWGSHAQKKKKL 174 (223)
T ss_pred HHHhhhCCCCCCCCCccHHHHHhchhheeeeeEecCCCcccccccChHHHHHHHHHHHHhcCCceEEEEeCHHHHHHHhc
Confidence 56789998888888 4999999999 9999999999999999999999999999999999999999999999
Q ss_pred cCCCcceEEEcCCCCccCCCCCCCCCCchHHHHHHHHHcCCCCccccC
Q 038649 83 INVTKHHILKAAHPSGLSANRGFFGCRHFSRTNQILEQMGMTPIDWQL 130 (130)
Q Consensus 83 I~~~~h~VL~s~HPSPlSa~rgF~g~~hF~k~N~~L~~~g~~pIdW~l 130 (130)
|+.++|+||+|+|||||||+||||||+||++||+||+++|++||||++
T Consensus 175 I~~~~h~il~s~HPSPLSa~rGFfG~~hFsk~N~~L~~~g~~pIdW~~ 222 (223)
T COG0692 175 IDNKKHLILEAPHPSPLSAHRGFFGCKHFSKANEWLEKHGKKPIDWSL 222 (223)
T ss_pred cCCCCeEEEeCCCCCccccccCccCCCchHHHHHHHHHcCCCCCCCCC
Confidence 999999999999999999999999999999999999999999999975
No 2
>PHA03200 uracil DNA glycosylase; Provisional
Probab=100.00 E-value=1.1e-49 Score=323.09 Aligned_cols=119 Identities=38% Similarity=0.610 Sum_probs=114.5
Q ss_pred hhhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhccc
Q 038649 12 SMLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSR 81 (130)
Q Consensus 12 ~~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~ 81 (130)
.+|.+|+|++..|.| +|||||++|| ++++|+||+++|||.||++||+.|+++++++||||||++||+++.
T Consensus 122 KEL~~d~~g~~~p~~G~L~~WAkQGVLLLNtvLTV~~gk~~SH~~~GWe~FTd~vI~~l~~~~~~vVFlLWG~~Aq~k~~ 201 (255)
T PHA03200 122 RELERTVPNFSRPDSGCLDSWCRQGVLLLNTVFTVVHGQPGSHEALGWQTLSDRVISRLSEKREHLVFMLWGAQAQKLEY 201 (255)
T ss_pred HHHHhhcCCCCCCCCCChhhHHhCCEEEEeeeeeeeCCCcCccccCCHHHHHHHHHHHHHccCCCeEEEEcCHHHHHHhh
Confidence 368899999999987 4999999999 999999999999999999999999999999999999999999999
Q ss_pred ccCCCcceEEEcCCCCccC--CCCCCCCCCchHHHHHHHHHcCCCCccccC
Q 038649 82 LINVTKHHILKAAHPSGLS--ANRGFFGCRHFSRTNQILEQMGMTPIDWQL 130 (130)
Q Consensus 82 ~I~~~~h~VL~s~HPSPlS--a~rgF~g~~hF~k~N~~L~~~g~~pIdW~l 130 (130)
+|+.++|+||+|+|||||| |+|||+||+||++||+||+++|++||||++
T Consensus 202 lI~~~~h~IL~s~HPSPlS~~a~rgFfgs~hFsk~N~~L~~~g~~pIdW~l 252 (255)
T PHA03200 202 LIDSRKHLILKSAHPSPRVKGARTPFIGNNHFVLANEYLSTHGKRPIDWNI 252 (255)
T ss_pred cCCCCCcEEEeCCCCCCCCcccCCCCCCCCHHHHHHHHHHHcCCCCccccC
Confidence 9999999999999999999 999999999999999999999999999974
No 3
>KOG2994 consensus Uracil DNA glycosylase [Replication, recombination and repair]
Probab=100.00 E-value=1.1e-49 Score=323.43 Aligned_cols=118 Identities=55% Similarity=0.944 Sum_probs=115.0
Q ss_pred hhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhcccc
Q 038649 13 MLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSRL 82 (130)
Q Consensus 13 ~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~~ 82 (130)
+|.+|||+|+.|.| +|||||++|| ++++|+||+++|||.||++||+.|++++.++||||||++||++.+.
T Consensus 169 El~~Di~df~~P~hGdL~~WA~QGVLlLNavLTVrahqaNSHa~~GWetFT~aVvq~i~q~~k~lVFLLWG~~Aqkk~~~ 248 (297)
T KOG2994|consen 169 ELSSDIEDFVIPKHGDLSGWAKQGVLLLNAVLTVRAHQANSHAKIGWETFTDAVVQVINQQSKGLVFLLWGRYAQKKGKL 248 (297)
T ss_pred HHhccccccccCCCCCchhhhhcceEeeeeeEEEecccccccccccHHHHHHHHHHHHHhcCCceEEEEeCchHHHhhcc
Confidence 68999999999999 3999999999 9999999999999999999999999999999999999999999999
Q ss_pred cCCCcceEEEcCCCCccCCCCCCCCCCchHHHHHHHHHcCCCCccccC
Q 038649 83 INVTKHHILKAAHPSGLSANRGFFGCRHFSRTNQILEQMGMTPIDWQL 130 (130)
Q Consensus 83 I~~~~h~VL~s~HPSPlSa~rgF~g~~hF~k~N~~L~~~g~~pIdW~l 130 (130)
||.++|.||+++|||||||+||||||+||++||+||+++|++||||++
T Consensus 249 i~~~kH~Vl~~~HPSpLSa~rgFFgC~HFsk~N~~Le~~g~kpIdW~~ 296 (297)
T KOG2994|consen 249 IDRKKHHVLTTAHPSPLSAYRGFFGCRHFSKTNELLEESGKKPIDWQV 296 (297)
T ss_pred cCcccceEEeccCCCcccccccccccchhHHHHHHHHHhCCCCcCccc
Confidence 999999999999999999999999999999999999999999999974
No 4
>PHA03347 uracil DNA glycosylase; Provisional
Probab=100.00 E-value=2.5e-49 Score=320.56 Aligned_cols=119 Identities=41% Similarity=0.695 Sum_probs=113.8
Q ss_pred hhhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhccc
Q 038649 12 SMLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSR 81 (130)
Q Consensus 12 ~~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~ 81 (130)
.+|.+|||.+..|.| +|||||++|| ++++|+||+++|||.||++||+.|++++++|||||||++||+++.
T Consensus 116 KEL~~d~~~~~~p~~G~L~~WA~QGVLLLNtvLTV~~g~a~SH~~~GWe~FTd~vI~~l~~~~~~vVFlLWG~~Aq~k~~ 195 (252)
T PHA03347 116 AELHRSVPDFSPPDHGCLDAWARQGVLLLNTILTVEKGKPGSHSDLGWAWFTDYIISSLSEKLKACVFMLWGSKAIDKAS 195 (252)
T ss_pred HHHHhhccCCCCCCCCChHHHHhcCEEeeeeeeeecCCCCCCccCCChHHHHHHHHHHHHccCCCeEEEEeCHHHHHhhh
Confidence 368899999999987 4999999999 999999999999999999999999999999999999999999999
Q ss_pred ccCCCcceEEEcCCCCccCCCC-------CCCCCCchHHHHHHHHHcCCCCccccC
Q 038649 82 LINVTKHHILKAAHPSGLSANR-------GFFGCRHFSRTNQILEQMGMTPIDWQL 130 (130)
Q Consensus 82 ~I~~~~h~VL~s~HPSPlSa~r-------gF~g~~hF~k~N~~L~~~g~~pIdW~l 130 (130)
+|+.++|+||+|+|||||||+| ||+||+||++||+||+++|++||||++
T Consensus 196 lI~~~kh~iL~s~HPSPLSa~rg~~~~~~gF~Gs~hFsk~N~~L~~~g~~pIdW~l 251 (252)
T PHA03347 196 LINSQKHLVLKAQHPSPLAANSTRSSTWPKFLGCNHFVLANKYLTQHGKGPIDWNL 251 (252)
T ss_pred ccCCCCcEEEeCCCCCccccCCCCcccCCCCCCCCHHHHHHHHHHHcCCCCcCCCC
Confidence 9999999999999999999985 799999999999999999999999975
No 5
>PHA03204 uracil DNA glycosylase; Provisional
Probab=100.00 E-value=2e-47 Score=317.77 Aligned_cols=118 Identities=31% Similarity=0.535 Sum_probs=112.3
Q ss_pred hhhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhccc
Q 038649 12 SMLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSR 81 (130)
Q Consensus 12 ~~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~ 81 (130)
.+|.+||+.+..|.| +|||||++|| ++|+|+||+++|||.||++||+.|++++++|||||||++||+++.
T Consensus 192 KEL~~d~~g~~~p~~G~L~~WAkQGVLLLNtvLTV~~gkp~SH~~~GWe~FTd~vI~~Ls~~~~~vVFlLWG~~Aq~k~~ 271 (322)
T PHA03204 192 AAVKACYPSIELGSHGCLEDWAKRGVLLLNSVLTVKRGDPGSHHSVGWQILVRNVLRRLSQSTRGIVFMLWGAQAQTMYF 271 (322)
T ss_pred HHHHHhcCCCCCCCCCCHHHHHhcCeEeeEcceeecCCCCCccccCChHHHHHHHHHHHHcCCCCeEEEEeCHHHHHHHh
Confidence 368899999999987 4999999999 999999999999999999999999999999999999999999999
Q ss_pred ccCC-CcceEEEcCCCCccCCCCCCCCCCchHHHHHHHHHcCCCCccccC
Q 038649 82 LINV-TKHHILKAAHPSGLSANRGFFGCRHFSRTNQILEQMGMTPIDWQL 130 (130)
Q Consensus 82 ~I~~-~~h~VL~s~HPSPlSa~rgF~g~~hF~k~N~~L~~~g~~pIdW~l 130 (130)
+|+. ++|+||+++|||||| +||||||+||++||+||+++|++||||++
T Consensus 272 lId~~~kH~IL~s~HPSPLS-~rgFfGs~hFskaN~~L~~~g~~pIdW~l 320 (322)
T PHA03204 272 QTDNDDRHLVLKYSHPSPLS-RKPFAHCTHFKDANEFLCKMGKGAIDWSL 320 (322)
T ss_pred hcCCcCCeEEEeCCCCCccc-cCCCCCCChHHHHHHHHHHcCCCCccccc
Confidence 9985 689999999999999 89999999999999999999999999974
No 6
>PRK05254 uracil-DNA glycosylase; Provisional
Probab=100.00 E-value=3.1e-47 Score=304.11 Aligned_cols=117 Identities=55% Similarity=0.871 Sum_probs=111.1
Q ss_pred hhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhcccc
Q 038649 13 MLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSRL 82 (130)
Q Consensus 13 ~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~~ 82 (130)
+|.+|| ++..|.| +|||||++|| ++|+|+||+++|||.||++||+.|+++++++||||||++||+++++
T Consensus 98 el~~d~-~~~~p~~g~L~~Wa~QGVLLLNt~LTv~~g~~~SH~~~GWe~ft~~vi~~l~~~~~~iVf~LWG~~Aq~~~~~ 176 (224)
T PRK05254 98 ELEDDL-GFPIPNHGDLTSWAEQGVLLLNTVLTVEAGQANSHAGKGWETFTDAVIKALNERREPVVFILWGSHAQKKKAL 176 (224)
T ss_pred HHHHhc-CCCCCCCCChHHHHhCCEEeeecceEeeCCCCCccccCCHHHHHHHHHHHHHhcCCCeEEEEeCHHHHhhhhc
Confidence 567777 5777876 5999999999 9999999999999999999999999999999999999999999999
Q ss_pred cCCCcceEEEcCCCCccCCCCCCCCCCchHHHHHHHHHcCCCCccccC
Q 038649 83 INVTKHHILKAAHPSGLSANRGFFGCRHFSRTNQILEQMGMTPIDWQL 130 (130)
Q Consensus 83 I~~~~h~VL~s~HPSPlSa~rgF~g~~hF~k~N~~L~~~g~~pIdW~l 130 (130)
|+.++|+||+++||||||++|||+||+||++||+||+++|++||||.+
T Consensus 177 i~~~~h~vl~s~HPSPlSa~~gF~gs~~F~~~N~~L~~~~~~pIdW~~ 224 (224)
T PRK05254 177 IDNSKHLILESPHPSPLSAHRGFFGSKHFSKANALLKQHGKTPIDWQL 224 (224)
T ss_pred CCCCCceEEecCCCCcccccCCCCCCCHHHHHHHHHHHcCCCCCCCcC
Confidence 999999999999999999999999999999999999999999999975
No 7
>PHA03202 uracil DNA glycosylase; Provisional
Probab=100.00 E-value=5.8e-47 Score=314.14 Aligned_cols=122 Identities=34% Similarity=0.614 Sum_probs=113.7
Q ss_pred hcccch-hhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHH
Q 038649 7 SLSGTS-MLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNS 75 (130)
Q Consensus 7 ~~~~~~-~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~ 75 (130)
||.-++ +|.+||+.+.+|.| +|||||++|| ++|+|+||+++|||.||++||+.|++++++|||||||++
T Consensus 180 SLrNIfKEL~~d~~g~~~p~~G~L~~WAkQGVLLLNtvLTV~~gka~SH~~~GWe~FTd~vI~~L~~~~~~vVF~LWG~~ 259 (313)
T PHA03202 180 SLRNIYSAVQKSYPSFRPPMHGFLEKWAEQGVLLINTTLTVARGKPGSHATLGWHRLVRAVIDRLCTTSQGLVFMLWGAH 259 (313)
T ss_pred CHHHHHHHHHHHcCCCCCCCCCCHHHHHhcCeEeeecceeeeCCCCCccccCChHHHHHHHHHHHHhcCCCcEEEEeCHH
Confidence 344455 89999999999987 4999999999 899999999999999999999999999999999999999
Q ss_pred HHhcccccCCCcceEEEcCCCCccCCCCCCCCCCchHHHHHHHHHcCCCCccccC
Q 038649 76 AQEKSRLINVTKHHILKAAHPSGLSANRGFFGCRHFSRTNQILEQMGMTPIDWQL 130 (130)
Q Consensus 76 A~~~~~~I~~~~h~VL~s~HPSPlSa~rgF~g~~hF~k~N~~L~~~g~~pIdW~l 130 (130)
||+++.. +.++|+||+++||||||+ +|||||+||++||+||+++|++||||++
T Consensus 260 Aq~k~~~-d~~kH~VL~s~HPSPLS~-~gFfg~~hFsk~N~~L~~~g~~pIdW~l 312 (313)
T PHA03202 260 AQKSCSP-NRQHHLVLTYGHPSPLSR-VNFRDCPHFLEANAYLTKTGRKPVDWQI 312 (313)
T ss_pred HHhhccc-CCCCceEEeCCCCCcccc-cCCCCCCHHHHHHHHHHHcCCCCccCCC
Confidence 9999875 889999999999999997 6999999999999999999999999975
No 8
>PHA03199 uracil DNA glycosylase; Provisional
Probab=100.00 E-value=9.4e-47 Score=311.63 Aligned_cols=117 Identities=31% Similarity=0.570 Sum_probs=110.8
Q ss_pred hhhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhccc
Q 038649 12 SMLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSR 81 (130)
Q Consensus 12 ~~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~ 81 (130)
.+|.+|||.+..|.| +|||||++|| ++|+|+||+++|||.||++||+.|++++++|||||||++||++..
T Consensus 178 KEL~~dl~g~~~p~~G~L~~WAkQGVLLLNtvLTV~~g~~~SH~~~GWe~FTd~vI~~Ls~~~~~vVFlLWG~~Aq~k~~ 257 (304)
T PHA03199 178 AALMESYPHLPLPTHGCLDNWARQGVLLLNTTLTVKRGTPGSHFYLGWDMLIKRMLKRLCENRTGLVFMLWGAHAQKTIQ 257 (304)
T ss_pred HHHHHhcCCCCCCCCCCHHHHHhcCEEeeEcceeecCCCCCccccCCHHHHHHHHHHHHHhcCCCeEEEEcCHHHHhhcc
Confidence 378999999999987 5999999999 899999999999999999999999999999999999999999987
Q ss_pred ccCCCcceEEEcCCCCccCCCCCCCCCCchHHHHHHHHHcCCCCccccC
Q 038649 82 LINVTKHHILKAAHPSGLSANRGFFGCRHFSRTNQILEQMGMTPIDWQL 130 (130)
Q Consensus 82 ~I~~~~h~VL~s~HPSPlSa~rgF~g~~hF~k~N~~L~~~g~~pIdW~l 130 (130)
++.++|+||+++||||||+ +||+||+||++||+||+++|++||||++
T Consensus 258 -~~~~kH~IL~s~HPSPLSa-~gFfGs~hFskaN~~L~~~g~~pIdW~i 304 (304)
T PHA03199 258 -PNPRCHLVLTHAHPSPLSR-SEFRNCKHFLQANEYFLKKGEPEIDWSI 304 (304)
T ss_pred -CCCCCeEEEeCCCCCcccc-ccCCCCCHHHHHHHHHHHcCCCCCCCCC
Confidence 5778999999999999997 5899999999999999999999999975
No 9
>PHA03201 uracil DNA glycosylase; Provisional
Probab=100.00 E-value=1.5e-46 Score=312.21 Aligned_cols=117 Identities=32% Similarity=0.559 Sum_probs=110.9
Q ss_pred hhhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhccc
Q 038649 12 SMLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSR 81 (130)
Q Consensus 12 ~~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~ 81 (130)
.+|.+|||.+..|.| +|||||++|| ++|+|+||+++|||.||++||+.|++++++|||||||++||+++.
T Consensus 192 KEL~~d~~g~~~p~~G~L~~WAkQGVLLLNtvLTV~~g~a~SH~~~GWe~FTd~vI~~L~~~~~~vVF~LWG~~Aq~k~~ 271 (318)
T PHA03201 192 AAVRNCCPDARMSGHGCLEKWARGGVLLLNTTLTVRRGEPASHAKIGWDRFVGSVVRRLAASRPGLVFMLWGAHAQNAIR 271 (318)
T ss_pred HHHHHhccCCCCCCCcCHHHHhhcCEEeEecceeecCCCCCccccCCHHHHHHHHHHHHHhcCCCeEEEecCHHHHhhcc
Confidence 367899999999987 4999999999 999999999999999999999999999999999999999999887
Q ss_pred ccCCCcceEEEcCCCCccCCCCCCCCCCchHHHHHHHHHcCCCCccccC
Q 038649 82 LINVTKHHILKAAHPSGLSANRGFFGCRHFSRTNQILEQMGMTPIDWQL 130 (130)
Q Consensus 82 ~I~~~~h~VL~s~HPSPlSa~rgF~g~~hF~k~N~~L~~~g~~pIdW~l 130 (130)
|+.++|+||+++||||||+ +||+||+||++||+||+++|++||||++
T Consensus 272 -id~~kH~IL~s~HPSPLS~-~gFfgs~hFskaN~~L~~~g~~pIdW~~ 318 (318)
T PHA03201 272 -PDPRVHRVLTYSHPSPLSK-VPFGSCRHFCLANQYLRERSLAPIDWST 318 (318)
T ss_pred -cCCCCceEEeCCCCCCccc-cCCCCCCHHHHHHHHHHHcCCCCCcCCC
Confidence 7999999999999999997 6999999999999999999999999975
No 10
>TIGR00628 ung uracil-DNA glycosylase. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.6e-45 Score=291.18 Aligned_cols=112 Identities=47% Similarity=0.825 Sum_probs=107.1
Q ss_pred hhhhhccCcccCCCc---------eeeeeecccc-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhccc
Q 038649 12 SMLVEDFATFIEPLK---------LLFHDNHCSG-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSR 81 (130)
Q Consensus 12 ~~l~~~~~~~~~p~~---------~vLllN~~lt-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~ 81 (130)
.+|.+||+++..|.+ +|||||++|| ++++|+||+++|||.||++||+.|+++++++||||||++||++++
T Consensus 91 kEl~~d~~~~~~p~~g~L~~WA~QGVLLLNt~LTV~~g~~~SH~~~GWe~fT~~vI~~l~~~~~~vVf~LWG~~Aq~~~~ 170 (212)
T TIGR00628 91 KELEADYPDFPPPKHGCLEAWARQGVLLLNTVLTVRAGQPGSHSGLGWERFTDAVISRLSERRDGLVFMLWGAHAQKKKS 170 (212)
T ss_pred HHHHHHcCCCCCCCCCChHHHHhcCEEeeeCceEeeCCCCCccccCCHHHHHHHHHHHHHhcCCCeEEEEeCHHHHHHhc
Confidence 368899998888887 4999999999 899999999999999999999999999999999999999999999
Q ss_pred ccCCCcceEEEcCCCCccCCCCCCCCCCchHHHHHHHHHcCC
Q 038649 82 LINVTKHHILKAAHPSGLSANRGFFGCRHFSRTNQILEQMGM 123 (130)
Q Consensus 82 ~I~~~~h~VL~s~HPSPlSa~rgF~g~~hF~k~N~~L~~~g~ 123 (130)
+|+.++|+||+++||||||++|||+||+||++||+||+++|+
T Consensus 171 ~i~~~~h~il~s~HPSPlSa~~gF~gs~~Fs~~N~~L~~~g~ 212 (212)
T TIGR00628 171 LIDAKKHLVLKSPHPSPLSARRGFFGCRHFSKANEYLEKHGK 212 (212)
T ss_pred cCCCCCeEEEeCCCCCccccCCCCCCCCHHHHHHHHHHHcCC
Confidence 999999999999999999999999999999999999999884
No 11
>PF03167 UDG: Uracil DNA glycosylase superfamily; InterPro: IPR005122 This entry represents various uracil-DNA glycosylases and related DNA glycosylases (3.2.2 from EC), such as uracil-DNA glycosylase [], thermophilic uracil-DNA glycosylase [], G:T/U mismatch-specific DNA glycosylase (Mug) [], and single-strand selective monofunctional uracil-DNA glycosylase (SMUG1) []. These proteins have a 3-layer alpha/beta/alpha structure. Uracil-DNA glycosylases are DNA repair enzymes that excise uracil residues from DNA by cleaving the N-glycosylic bond, initiating the base excision repair pathway. Uracil in DNA can arise either through the deamination of cytosine to form mutagenic U:G mispairs, or through the incorporation of dUMP by DNA polymerase to form U:A pairs []. These aberrant uracil residues are genotoxic []. The sequence of uracil-DNA glycosylase is extremely well conserved [] in bacteria and eukaryotes as well as in herpes viruses. More distantly related uracil-DNA glycosylases are also found in poxviruses []. In eukaryotic cells, UNG activity is found in both the nucleus and the mitochondria. Human UNG1 protein is transported to both the mitochondria and the nucleus []. The N-terminal 77 amino acids of UNG1 seem to be required for mitochondrial localization, but the presence of a mitochondrial transit peptide has not been directly demonstrated. The most N-terminal conserved region contains an aspartic acid residue which has been proposed, based on X-ray structures [] to act as a general base in the catalytic mechanism. ; PDB: 1UI0_A 1UI1_A 2C2P_A 2C2Q_A 1MTL_B 1MWI_A 1MUG_A 1MWJ_A 1OKB_B 1OE6_A ....
Probab=98.38 E-value=1.5e-06 Score=62.04 Aligned_cols=87 Identities=18% Similarity=0.215 Sum_probs=66.4
Q ss_pred eeeeeccc---c-ccCCCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhccccc------------CCCcceEE
Q 038649 28 LFHDNHCS---G-WRHQANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKSRLI------------NVTKHHIL 91 (130)
Q Consensus 28 vLllN~~l---t-~~~~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~~I------------~~~~h~VL 91 (130)
|.++|.+- . ......++.+.+ +++..+.|+.+. ..+|.++ |+.|.+....+ ......++
T Consensus 50 v~~tn~~~~~~~~~~~~~~~e~~~~-~~~l~~~l~~~~---p~iii~l-G~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~ 124 (152)
T PF03167_consen 50 VYITNLVKCPPPPNNKPSKSEIKEC-EPFLEEELEIIK---PKIIICL-GKEAFKALLRLSKKKNIQKVRIFKFGGVRVF 124 (152)
T ss_dssp EEEEESSSSCSSEETTBTTTTTTCS-HHHHHHHHHHHS---SSEEEEE-SHHHHHHHHGSTTCSCHHHHCEEETTTSEEE
T ss_pred hheecccccccccccCCCHHHHHhh-hhhHHHHHHhcC---CCEEEEE-chHHHHHHHhccccccccceeeeccCCceEE
Confidence 78888874 2 456677888765 888777777764 3344444 99999886544 35567899
Q ss_pred EcCCCCccCCCCCCCCCCchHHHHHHHH
Q 038649 92 KAAHPSGLSANRGFFGCRHFSRTNQILE 119 (130)
Q Consensus 92 ~s~HPSPlSa~rgF~g~~hF~k~N~~L~ 119 (130)
.++||||+++........+|.++++.|+
T Consensus 125 ~~~hPS~~~~~~~~~~~~~~~~~~~~L~ 152 (152)
T PF03167_consen 125 PLPHPSPLNRNPRRKRPEMFQEAWEDLK 152 (152)
T ss_dssp EECESSTTHHTTTTTTHHHHHHHHHHHH
T ss_pred EeCCcHHHHhccccCChHHHHHHhhhcC
Confidence 9999999998877788899999999986
No 12
>COG1573 Uracil-DNA glycosylase [DNA replication, recombination, and repair]
Probab=57.99 E-value=16 Score=28.57 Aligned_cols=38 Identities=29% Similarity=0.326 Sum_probs=25.8
Q ss_pred CCeEEEeecHHHHhcccc-----cCC--Cc-----------ceEEEcCCCCccCCC
Q 038649 65 EGVVFLLWGNSAQEKSRL-----INV--TK-----------HHILKAAHPSGLSAN 102 (130)
Q Consensus 65 ~~vVFlLWG~~A~~~~~~-----I~~--~~-----------h~VL~s~HPSPlSa~ 102 (130)
++=|.|+.|+.|++..-. +.. .+ ..++-+.||||+...
T Consensus 124 ~pkviv~LG~~A~~~~l~~~~~~~~~~~g~~~~~~~~~~~~~~~~p~~HPs~~~~~ 179 (202)
T COG1573 124 RPKVILLLGEYAAKSLLGLKGEPITELRGRWGAYRPKGGGGIRVFPTYHPSPLNRN 179 (202)
T ss_pred CCCEEEEcCHHHHHHHHccccCCccccccceeeecccCCCceEEEeecCCcHHHhc
Confidence 346889999999973321 211 12 348999999999754
No 13
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=57.84 E-value=11 Score=31.17 Aligned_cols=40 Identities=18% Similarity=0.145 Sum_probs=34.8
Q ss_pred CCCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhc
Q 038649 40 QANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEK 79 (130)
Q Consensus 40 ~~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~ 79 (130)
-.++|.+..+..=-++|++.|++-+..++|+..|.+-|+.
T Consensus 137 ivg~h~GYf~~~e~~~i~~~I~~s~pdil~VgmG~P~QE~ 176 (253)
T COG1922 137 IVGSHDGYFDPEEEEAIVERIAASGPDILLVGMGVPRQEI 176 (253)
T ss_pred EEEecCCCCChhhHHHHHHHHHhcCCCEEEEeCCCchhHH
Confidence 3578887777777789999999999999999999999985
No 14
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=54.97 E-value=16 Score=28.13 Aligned_cols=31 Identities=26% Similarity=0.307 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHhhcCCCeEEEeecHHHHhcc
Q 038649 50 EQFTDAVIKAISDKKEGVVFLLWGNSAQEKS 80 (130)
Q Consensus 50 e~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~ 80 (130)
+.-.+.+++.|++.+.++||+..|.+-|++-
T Consensus 86 ~~~~~~i~~~I~~s~~dil~VglG~PkQE~~ 116 (177)
T TIGR00696 86 PEERKAALAKIARSGAGIVFVGLGCPKQEIW 116 (177)
T ss_pred hHHHHHHHHHHHHcCCCEEEEEcCCcHhHHH
Confidence 4456789999999999999999999999853
No 15
>PF04204 HTS: Homoserine O-succinyltransferase ; InterPro: IPR005697 This family of enzymes, homoserine O-succinyltransferase, catalyses the first step in the biosynthesis of methionine: Succinyl-CoA + L-homoserine = CoA + O-succinyl-L-homoserine This enzyme is consequently essential for the survival of bacteria, plants and fungi. Since they are not found in humans, they make a promising new target for antimicrobial drug development. Homoserine O-succinyltransferase (HST) is a representative from this class and has recently had the key amino acids involved in substrate specificity and catalysis elucidated [].; GO: 0016746 transferase activity, transferring acyl groups, 0019281 L-methionine biosynthetic process from homoserine via O-succinyl-L-homoserine and cystathionine, 0005737 cytoplasm; PDB: 2H2W_A 2GHR_A 2VDJ_A.
Probab=53.34 E-value=7.2 Score=32.94 Aligned_cols=29 Identities=21% Similarity=0.594 Sum_probs=25.4
Q ss_pred ChHHHHHHHHHHHhhcCCCeEEEeecHHHH
Q 038649 48 GWEQFTDAVIKAISDKKEGVVFLLWGNSAQ 77 (130)
Q Consensus 48 GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~ 77 (130)
.|++|+ +|++...++.....|++||.+|.
T Consensus 119 YW~El~-~i~dwa~~~v~stl~iCWgAqAa 147 (298)
T PF04204_consen 119 YWDELT-EIFDWAKTHVTSTLFICWGAQAA 147 (298)
T ss_dssp THHHHH-HHHHHHHHHEEEEEEETHHHHHH
T ss_pred cHHHHH-HHHHHHHHcCCcchhhhHHHHHH
Confidence 499986 58888888999999999999993
No 16
>cd03131 GATase1_HTS Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS). Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS). HTS, the first enzyme in methionine biosynthesis in Escherichia coli, transfers a succinyl group from succinyl-CoA to homoserine forming succinyl homoserine. It has been suggested that the succinyl group of succinyl-CoA is initially transferred to an enzyme nucleophile before subsequent transfer to homoserine. The catalytic triad typical of GATase1 domains is not conserved in this GATase1-like domain. However, in common with GATase1 domains a reactive cys residue is found in the sharp turn between a beta strand and an alpha helix termed the nucleophile elbow. It has been proposed that this cys is in the active site of the molecule. However, as succinyl has been found bound to a conserved lysine residue, this conserved cys may play a role in dimer formation. HTS acti
Probab=53.30 E-value=4.2 Score=31.56 Aligned_cols=31 Identities=16% Similarity=0.335 Sum_probs=26.4
Q ss_pred ChHHHHHHHHHHHhhcCCCeEEEeecHHHHhc
Q 038649 48 GWEQFTDAVIKAISDKKEGVVFLLWGNSAQEK 79 (130)
Q Consensus 48 GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~ 79 (130)
.|+. ..++++...++..++.|++||.+|.-.
T Consensus 83 Yw~E-l~~i~dwa~~~v~stl~iCWgaqaal~ 113 (175)
T cd03131 83 YWEE-LTEILDWAKTHVTSTLFSCWAAMAALY 113 (175)
T ss_pred hHHH-HHHHHHHHHHhCcchHHHHHHHHHHHH
Confidence 4999 567889998999999999999999553
No 17
>PRK05368 homoserine O-succinyltransferase; Provisional
Probab=52.99 E-value=15 Score=30.88 Aligned_cols=30 Identities=13% Similarity=0.458 Sum_probs=25.5
Q ss_pred hHHHHHHHHHHHhhcCCCeEEEeecHHHHhc
Q 038649 49 WEQFTDAVIKAISDKKEGVVFLLWGNSAQEK 79 (130)
Q Consensus 49 We~fT~~vI~~l~~~~~~vVFlLWG~~A~~~ 79 (130)
|++ ..++++.+.+...++++++||.+|...
T Consensus 121 W~E-l~~i~~w~~~~~~s~LgICwGaQa~a~ 150 (302)
T PRK05368 121 WDE-LKEILDWAKTHVTSTLFICWAAQAALY 150 (302)
T ss_pred HHH-HHHHHHHHHHcCCCEEEEcHHHHHHHH
Confidence 877 567888888889999999999999653
No 18
>TIGR01001 metA homoserine O-succinyltransferase. The apparent equivalog from Bacillus subtilis is broken into two tandem reading frames.
Probab=40.53 E-value=12 Score=31.77 Aligned_cols=28 Identities=21% Similarity=0.610 Sum_probs=24.2
Q ss_pred hHHHHHHHHHHHhhcCCCeEEEeecHHHH
Q 038649 49 WEQFTDAVIKAISDKKEGVVFLLWGNSAQ 77 (130)
Q Consensus 49 We~fT~~vI~~l~~~~~~vVFlLWG~~A~ 77 (130)
|++++ +|++-..++.....|++||.+|.
T Consensus 121 W~El~-~I~dwsk~~v~Stl~iCWaAqAa 148 (300)
T TIGR01001 121 WEELT-EIMEWSKHNVTSTMFICWAAQAG 148 (300)
T ss_pred HHHHH-HHHHHHHHcCcchHHHHHHHHHH
Confidence 88875 57888888899999999999994
No 19
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=38.03 E-value=37 Score=27.54 Aligned_cols=40 Identities=18% Similarity=0.094 Sum_probs=31.8
Q ss_pred CCCcCCCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhcc
Q 038649 41 ANSHAKKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKS 80 (130)
Q Consensus 41 ~~SH~~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~ 80 (130)
.+.|....-..-.+++++.|++.+.++||+..|.+-|++-
T Consensus 134 ~g~~~Gyf~~~e~~~i~~~I~~s~~dil~VglG~PkQE~~ 173 (243)
T PRK03692 134 VGSQDGYFTPEQRQALFERIHASGAKIVTVAMGSPKQEIF 173 (243)
T ss_pred EEEeCCCCCHHHHHHHHHHHHhcCCCEEEEECCCcHHHHH
Confidence 3456655445556789999999999999999999998864
No 20
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=35.21 E-value=52 Score=24.74 Aligned_cols=30 Identities=30% Similarity=0.472 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHhhcCCCeEEEeecHHHHhc
Q 038649 50 EQFTDAVIKAISDKKEGVVFLLWGNSAQEK 79 (130)
Q Consensus 50 e~fT~~vI~~l~~~~~~vVFlLWG~~A~~~ 79 (130)
+.-.+++++.|++.+..+||+..|.+=|+.
T Consensus 87 ~~~~~~i~~~I~~~~pdiv~vglG~PkQE~ 116 (172)
T PF03808_consen 87 EEEEEAIINRINASGPDIVFVGLGAPKQER 116 (172)
T ss_pred hhhHHHHHHHHHHcCCCEEEEECCCCHHHH
Confidence 356789999999999999999999987764
No 21
>PF08494 DEAD_assoc: DEAD/H associated; InterPro: IPR013701 This domain is found in ATP-dependent helicases as well as a number of hypothetical proteins together with the helicase conserved C-terminal domain (IPR011545 from INTERPRO) and the IPR001650 from INTERPRO domain. ; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
Probab=31.35 E-value=36 Score=26.15 Aligned_cols=25 Identities=24% Similarity=0.247 Sum_probs=18.1
Q ss_pred HHhcccccCCCcceEEEcCCCCccC
Q 038649 76 AQEKSRLINVTKHHILKAAHPSGLS 100 (130)
Q Consensus 76 A~~~~~~I~~~~h~VL~s~HPSPlS 100 (130)
|.+..+.|..++..|...+-||||+
T Consensus 162 ~~~~L~~i~~g~i~i~~~~~pSPla 186 (187)
T PF08494_consen 162 LRELLERIRSGEIRIVVTPEPSPLA 186 (187)
T ss_pred HHHHHHHHHcCcEEEEECCCCCCCC
Confidence 3444455566777888899999996
No 22
>PF13692 Glyco_trans_1_4: Glycosyl transferases group 1; PDB: 3OY2_A 3OY7_B 2Q6V_A 2HY7_A 3CV3_A 3CUY_A.
Probab=28.54 E-value=69 Score=21.64 Aligned_cols=35 Identities=23% Similarity=0.520 Sum_probs=27.2
Q ss_pred CCChHHHHHHHHHHHhhcCCCeEEEeecHHHHhcc
Q 038649 46 KKGWEQFTDAVIKAISDKKEGVVFLLWGNSAQEKS 80 (130)
Q Consensus 46 ~~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~ 80 (130)
..|.+.+.+.+++.+.++..++-|.+.|....++.
T Consensus 14 ~k~~~~li~~~~~~l~~~~p~~~l~i~G~~~~~l~ 48 (135)
T PF13692_consen 14 DKGLEELIEAALERLKEKHPDIELIIIGNGPDELK 48 (135)
T ss_dssp GGTHHHHHH-HHHHHHHHSTTEEEEEECESS-HHC
T ss_pred cccccchhhhHHHHHHHHCcCEEEEEEeCCHHHHH
Confidence 35899999989999998888899999999654433
No 23
>PF02254 TrkA_N: TrkA-N domain; InterPro: IPR003148 The regulator of K+ conductance (RCK) domain is found in many ligand-gated K+ channels, most often attached to the intracellular carboxy terminus. The domain is prevalent among prokaryotic K+ channels, and also found in eukaryotic, high-conductance Ca2+-activated K+ channels (BK channels) [, , ]. Largely involved in redox-linked regulation of potassium channels, the N-terminal part of the RCK domain is predicted to be an active dehydrogenase at least in some cases []. Some have a conserved sequence motif (G-x-G-x-x-G-x(n)-[DE]) for NAD+ binding [], but others do not, reflecting the diversity of ligands for RCK domains. The C-terminal part is less conserved, being absent in some channels, such as the kefC antiporter from Escherichia coli. It is predicted to bind unidentified ligands and to regulate sulphate, sodium and other transporters. The X-ray structure of several RCK domains has been solved [, , ]. It reveals an alpha-beta fold similar to dehydrogenase enzymes. The domain forms a homodimer, producing a cleft between two lobes. It has a composite structure, with an N-terminal (RCK-N), and a C-terminal (RCK-C) subdomain. The RCK-N subdomain forms a Rossmann fold with two alpha helices on one side of a six stranded parallel beta sheet and three alpha helices on the other side. The RCK-C subdomain is an all-beta-strand fold. It forms an extention of the dimer interface and further stabilises the RCK homodimer [, , ]. Ca2+ is a ligand that opens the channel in a concentration-dependent manner. Two Ca2+ ions are located at the base of a cleft between two RCK domains, coordinated by the carboxylate groups of two glutamate residues, and by an aspartate residue [, , ]. RCK domains occur in at least five different contexts: As a single domain on the C terminus of some K+ channels (for example, many prokaryotic K+ channels). As two tandem RCK domains on the C terminus of some transporters that form gating rings (for example, eukaryotic BK channels). The gating ring has an arrangement of eight identical RCK domains, one from each of the four pore-forming subunits and four from the intracellular solution. As two domains, one at the N terminus and another at the C terminus of transporter (for example, the prokaryotic trk system potassium uptake protein A). As a soluble protein (not part of a K+ channel) consisting of two tandem RCK domains. As a soluble protein consisting of a single RCK domain. This entry represents the N-terminal subdomain of RCK.; GO: 0006813 potassium ion transport; PDB: 3L4B_E 1LSS_C 3LLV_A 2FY8_D 2AEF_A 1LNQ_E 3RBX_C 3KXD_A 2AEJ_A 3RBZ_A ....
Probab=28.29 E-value=50 Score=22.24 Aligned_cols=30 Identities=10% Similarity=0.179 Sum_probs=22.2
Q ss_pred CChHHHHHHHHHHHhhcCCCeEEEeecHHH
Q 038649 47 KGWEQFTDAVIKAISDKKEGVVFLLWGNSA 76 (130)
Q Consensus 47 ~GWe~fT~~vI~~l~~~~~~vVFlLWG~~A 76 (130)
+||..++..+++.|.+...++|.+=--...
T Consensus 4 ~G~g~~~~~i~~~L~~~~~~vvvid~d~~~ 33 (116)
T PF02254_consen 4 IGYGRIGREIAEQLKEGGIDVVVIDRDPER 33 (116)
T ss_dssp ES-SHHHHHHHHHHHHTTSEEEEEESSHHH
T ss_pred EcCCHHHHHHHHHHHhCCCEEEEEECCcHH
Confidence 489999999999999865567777655444
No 24
>PF03040 CemA: CemA family; InterPro: IPR004282 Members of this family are probable integral membrane proteins. Their molecular function is unknown. CemA proteins are found in the inner envelope membrane of chloroplasts but not in the thylakoid membrane []. A cyanobacterial member of this family (proton extrusion protein PcxA) is involved in light-induced Na(+)-dependent proton extrusion and has been implicated in CO2 transport, but is probably not a CO2 transporter itself [].; GO: 0016021 integral to membrane
Probab=27.66 E-value=32 Score=27.91 Aligned_cols=31 Identities=19% Similarity=0.537 Sum_probs=23.4
Q ss_pred CCCcCCCChHHHHHHHHHHHh-hcCCCeEEEe
Q 038649 41 ANSHAKKGWEQFTDAVIKAIS-DKKEGVVFLL 71 (130)
Q Consensus 41 ~~SH~~~GWe~fT~~vI~~l~-~~~~~vVFlL 71 (130)
-|=|+..|||.+.+.+.+..- ..++.+++++
T Consensus 163 vGfHS~~GWe~~i~~~~~hfG~~~n~~~i~~f 194 (230)
T PF03040_consen 163 VGFHSPHGWEVIIESILEHFGLPENEQFISLF 194 (230)
T ss_pred hcCCCCccHHHHHHHHHHhcCCCcccchhhhh
Confidence 467999999999999998864 3455666654
No 25
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=24.95 E-value=89 Score=20.98 Aligned_cols=56 Identities=13% Similarity=0.087 Sum_probs=31.9
Q ss_pred HHHHHHHHHHhhcCCCeEEEeecHHHHhcccccCCCc--ceEEEcCCCCccCCCCCCCCC
Q 038649 51 QFTDAVIKAISDKKEGVVFLLWGNSAQEKSRLINVTK--HHILKAAHPSGLSANRGFFGC 108 (130)
Q Consensus 51 ~fT~~vI~~l~~~~~~vVFlLWG~~A~~~~~~I~~~~--h~VL~s~HPSPlSa~rgF~g~ 108 (130)
...+...+...+..-.+..+..|+.+..+.+.+...+ ..|+-+.+.++++ +-|+|+
T Consensus 49 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~--~~~~Gs 106 (124)
T cd01987 49 RRLAEALRLAEELGAEVVTLPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWR--ELFRGS 106 (124)
T ss_pred HHHHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHH--HHhccc
Confidence 3344444444444444556667888888887774332 4455555577775 336664
No 26
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=24.46 E-value=82 Score=23.68 Aligned_cols=28 Identities=21% Similarity=0.356 Sum_probs=24.3
Q ss_pred HHHHHHHHhhcCCCeEEEeecHHHHhcc
Q 038649 53 TDAVIKAISDKKEGVVFLLWGNSAQEKS 80 (130)
Q Consensus 53 T~~vI~~l~~~~~~vVFlLWG~~A~~~~ 80 (130)
-+.+++.|++.+..+||+..|.+-|+.-
T Consensus 88 ~~~i~~~I~~~~pdiv~vglG~PkQE~~ 115 (171)
T cd06533 88 EEEIIERINASGADILFVGLGAPKQELW 115 (171)
T ss_pred HHHHHHHHHHcCCCEEEEECCCCHHHHH
Confidence 3448999999999999999999988854
No 27
>PF09521 RE_NgoPII: NgoPII restriction endonuclease; InterPro: IPR019046 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the restriction endonuclease NgoPII, which recognises and cleaves the double-stranded sequence GG^CC. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=23.54 E-value=29 Score=28.99 Aligned_cols=43 Identities=16% Similarity=0.249 Sum_probs=33.1
Q ss_pred HHHHHHhhcCCCeEEEeecHHHHhcccccCCCcceEEEcCCCC
Q 038649 55 AVIKAISDKKEGVVFLLWGNSAQEKSRLINVTKHHILKAAHPS 97 (130)
Q Consensus 55 ~vI~~l~~~~~~vVFlLWG~~A~~~~~~I~~~~h~VL~s~HPS 97 (130)
.+..++-.++.|.=+||.|..|....+.-..+..+-|.|++|=
T Consensus 61 e~fSYlGNqnNPPD~mlk~GdAIEvKKies~~s~LaLNSSyPK 103 (263)
T PF09521_consen 61 EVFSYLGNQNNPPDFMLKNGDAIEVKKIESKSSSLALNSSYPK 103 (263)
T ss_pred HHheecCCCCCCchhhhcCCCeeeEEEeccCCceeeccCcCch
Confidence 3444455577889999999999987776665667889999994
No 28
>PF08795 DUF1796: Putative papain-like cysteine peptidase (DUF1796); InterPro: IPR014903 The proteins in this entry are uncharacterised; but are related to papain-like cysteine peptidases.
Probab=22.09 E-value=3.5e+02 Score=20.31 Aligned_cols=60 Identities=20% Similarity=0.356 Sum_probs=36.5
Q ss_pred hhhhhccCcccCCCceeeeeec-----------ccc-----------ccCCCCCcCCCChHHHHHHHHHHHhh------c
Q 038649 12 SMLVEDFATFIEPLKLLFHDNH-----------CSG-----------WRHQANSHAKKGWEQFTDAVIKAISD------K 63 (130)
Q Consensus 12 ~~l~~~~~~~~~p~~~vLllN~-----------~lt-----------~~~~~~SH~~~GWe~fT~~vI~~l~~------~ 63 (130)
-+|.++|..|..|.++...-++ -.. .-..+.+..+ +.|-.+..+.+.+ .
T Consensus 41 ~ll~n~F~~f~~~~~l~~~~~~~~~~~~~~~~~~~~~d~~y~~~~~hdf~~~~~~~d---~~~~~k~~rRi~Rf~~~l~~ 117 (167)
T PF08795_consen 41 DLLENRFAGFMDPENLKYSPESFRPFPDEPVSRHIVRDKRYGIIFHHDFHDPNPEED---PEFKEKYDRRIDRFLKKLES 117 (167)
T ss_pred HHHHhccchhcChhhccccccccccccccccceEEEEecCcCceEEeecCCCCCccC---HHHHHHHHHHHHHHHHHHhC
Confidence 4789999999999887432211 011 0112344433 5666666665542 4
Q ss_pred CCCeEEEe-----ecH
Q 038649 64 KEGVVFLL-----WGN 74 (130)
Q Consensus 64 ~~~vVFlL-----WG~ 74 (130)
.+.|+|+= ||.
T Consensus 118 ~~~ilFvr~~~~~~~~ 133 (167)
T PF08795_consen 118 SKRILFVRTRIAETGG 133 (167)
T ss_pred CCcEEEEEEccccCCC
Confidence 57999999 996
No 29
>PRK07586 hypothetical protein; Validated
Probab=22.04 E-value=1.4e+02 Score=25.96 Aligned_cols=72 Identities=15% Similarity=0.148 Sum_probs=46.5
Q ss_pred hHHHHHHHHHHHhhcCCCeEEEeecHH---HH-hcccccCCCcceEEEcCCCCccCCCCCCCCCCc---h-HHHHHHHHH
Q 038649 49 WEQFTDAVIKAISDKKEGVVFLLWGNS---AQ-EKSRLINVTKHHILKAAHPSGLSANRGFFGCRH---F-SRTNQILEQ 120 (130)
Q Consensus 49 We~fT~~vI~~l~~~~~~vVFlLWG~~---A~-~~~~~I~~~~h~VL~s~HPSPlSa~rgF~g~~h---F-~k~N~~L~~ 120 (130)
=+.-.+++++.|.+-+++++++-.|.. |. .+.++.+.-...|+++.+|+.....+|.+...| + ..+|+++++
T Consensus 183 ~~~~v~~~~~~L~~A~rPvi~~G~g~~~~~a~~~l~~lae~l~~pV~t~~~~~~~~~gkg~~~~~~~~~~~~~~~~~~~~ 262 (514)
T PRK07586 183 DPAAVEAAAAALRSGEPTVLLLGGRALRERGLAAAARIAAATGARLLAETFPARMERGAGRPAVERLPYFAEQALAQLAG 262 (514)
T ss_pred CHHHHHHHHHHHHhcCCCEEEeCCcccchhHHHHHHHHHHHHCCCEEecccccccccCCCCCCcccccchHHHHHHHHhc
Confidence 456788899999988899999988863 22 233344444566888777765444567654322 1 446777654
No 30
>PHA02949 Hypothetical protein; Provisional
Probab=20.98 E-value=43 Score=22.09 Aligned_cols=11 Identities=27% Similarity=0.480 Sum_probs=9.3
Q ss_pred hhhhhccCccc
Q 038649 12 SMLVEDFATFI 22 (130)
Q Consensus 12 ~~l~~~~~~~~ 22 (130)
-+|.+|||.++
T Consensus 48 ~~L~NdYP~II 58 (65)
T PHA02949 48 MCLKNDYPRII 58 (65)
T ss_pred hhhccCCCeee
Confidence 47999999877
Done!