Query 036031
Match_columns 541
No_of_seqs 190 out of 387
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 08:44:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036031.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036031hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10250 O-FucT: GDP-fucose pr 100.0 2E-56 4.4E-61 451.3 4.1 296 138-452 6-345 (351)
2 KOG3849 GDP-fucose protein O-f 97.9 0.0001 2.2E-09 75.8 11.9 277 128-451 26-369 (386)
3 PF05830 NodZ: Nodulation prot 96.9 0.04 8.7E-07 57.9 16.2 254 131-440 2-289 (321)
4 PLN02232 ubiquinone biosynthes 61.4 13 0.00029 34.6 4.7 99 265-377 49-153 (160)
5 KOG3705 Glycoprotein 6-alpha-L 57.7 43 0.00093 37.3 8.1 146 269-460 340-492 (580)
6 PF14771 DUF4476: Domain of un 57.4 4.3 9.3E-05 35.0 0.6 36 349-399 39-74 (95)
7 PRK15451 tRNA cmo(5)U34 methyl 48.0 28 0.00061 34.7 4.7 81 274-371 141-230 (247)
8 PF00799 Gemini_AL1: Geminivir 36.5 35 0.00075 31.3 3.0 29 347-376 14-42 (114)
9 COG0859 RfaF ADP-heptose:LPS h 32.9 50 0.0011 34.4 4.0 73 354-446 199-271 (334)
10 PF10892 DUF2688: Protein of u 31.1 34 0.00073 28.2 1.8 16 346-362 42-57 (60)
11 smart00874 B5 tRNA synthetase 28.0 55 0.0012 26.3 2.6 24 342-366 12-35 (71)
12 PF00036 EF-hand_1: EF hand; 24.7 52 0.0011 22.9 1.6 27 460-487 3-29 (29)
13 PF03484 B5: tRNA synthetase B 20.3 66 0.0014 26.4 1.7 25 342-367 12-36 (70)
No 1
>PF10250 O-FucT: GDP-fucose protein O-fucosyltransferase; InterPro: IPR019378 This is a family of conserved proteins representing the enzyme responsible for adding O-fucose to EGF (epidermal growth factor-like) repeats. Six highly conserved cysteines are present as well as a DXD-like motif (ERD), conserved in mammals, Drosophila, and Caenorhabditis elegans. Both features are characteristic of several glycosyltransferase families. The enzyme is a membrane-bound protein released by proteolysis and, as for most glycosyltransferases, is strongly activated by manganese []. ; PDB: 3ZY6_A 3ZY3_A 3ZY5_A 3ZY2_A 3ZY4_A.
Probab=100.00 E-value=2e-56 Score=451.30 Aligned_cols=296 Identities=35% Similarity=0.606 Sum_probs=208.8
Q ss_pred ecCchhhHHHHHHHHHHHHHHhcCeEEeecccCCcccCCCCC-----CCcccchHHHHHhccccceEeccCchhhhhhhh
Q 036031 138 TNGGLNQMRAGICDMVAVARIINATLVVPELDKRSFWQDSSN-----FSDVFDEDHFINSLANDVKVIKKVPKELSTAAR 212 (541)
Q Consensus 138 ~nGGLNQqR~~IcdaVavAriLNATLVlP~L~~~s~W~D~S~-----F~dIFDvdhFI~sL~~dVrIVk~LP~~~~~~~~ 212 (541)
+.||+||||.++++||++|++||+|||||.+...+.|++.+. |+++||+++|++.++.+|.+.+.+|........
T Consensus 6 ~~GGfnNQr~~~~~a~~~A~~LnRTLVLPp~~~~~~~~~~~~~~~ipf~~~fD~~~l~~~~~~vi~~~ef~~~~~~~~~~ 85 (351)
T PF10250_consen 6 CMGGFNNQRMGFENAVVFAKALNRTLVLPPFIKHYHWKDQSKQRHIPFSDFFDVEHLRKFLRPVITMEEFLPKHWDEVFR 85 (351)
T ss_dssp -SSSHHHHHHHHHHHHHHHHHHT-EEE--EEEEESSSS----EEEEEHHHHB-HHHHTTTS--EE-HHHHHHHHS-GGG-
T ss_pred CCCCHHHHHHHHHHHHHHHHHhCCEEEcCCccccccccccccccccChhhhccHHHHHHHhhCceehheeccchhccccc
Confidence 889999999999999999999999999999999999999887 999999999999999999999998866544211
Q ss_pred ------------------------------hcc-ccc-cccCccchhhhhhcccccc------cEEEEeecCCcccCCCC
Q 036031 213 ------------------------------AVK-HFR-SWSGMDYYEGEIASMWEDY------QIIRAAKSDSRLANNNL 254 (541)
Q Consensus 213 ------------------------------~~k-~~~-~ws~~~yy~~~ilP~l~k~------~VI~l~~~~~rLa~~~l 254 (541)
..+ ... .|+.+.+|.++++|.+.++ +++.|.++...+.++.+
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ 165 (351)
T PF10250_consen 86 LQYCWSPWESGSWDDNMKDGNPFGPFWDKFPIKFDPCEFWSSPSLYLEDVLPELREWNENSEHPVIAFTGFESRLPDNYL 165 (351)
T ss_dssp EEEESS-B--------TTSSTTHHHHHHHTT---SEEE-E-TTSTTTT-STTHHHHHHHHTT-SEEEESS-SS-SS--GG
T ss_pred hhhcccccccccchhhccccccccccccccceeeccccccCCchhhHHHhhhHHhhhccccccccceeccccccchhccc
Confidence 111 112 2678888888899999886 99999999999998888
Q ss_pred ChhhhhhhhhhccccccccHHHHHHHHHHHHHHh-hcCCeeEeeccchhhhhhhcCCCCCCChhhHHHHHHHHhcccccc
Q 036031 255 PLDIQKLRCRACYEALRFAPQIEAMGKLLVDRMR-SYGPYIALHLRYEKDMLAFSGCTHDLSPVEADELRTIRENTVHWK 333 (541)
Q Consensus 255 P~eiQrLRCrvnf~ALrF~p~I~~lg~~LV~RLr-~~G~fiALHLR~E~DMLAfsgC~~g~~~~E~~eL~~~R~~~~~wk 333 (541)
+.++|| +|+|+++|+++|++++++|+ ..++|||+|||+|+|| +++|.+++ +...|+.+|. |.
T Consensus 166 ~~~~~r--------~l~~~~~i~~~a~~~i~~~~~~~~~yiavHlR~~~D~--~~~C~~~~---~~~~~~~~~~----~~ 228 (351)
T PF10250_consen 166 DRDLQR--------YLRFSPEIRELADKFIKRLLAGGGPYIAVHLRRGKDW--FSACEFKG---ERHLLASPRC----WG 228 (351)
T ss_dssp GGGGGG--------G--B-HHHHHHHHHHHHHH----SSEEEEEE--SHHH--HHHHCT-T-------TTTHHH----H-
T ss_pred CccceE--------EEecCHHHHHHHHHHHHHhhcccCceEEEeecccCch--HhhcccCC---chHHHHHhHh----hc
Confidence 899987 99999999999999999999 7789999999999999 88899955 6677777775 24
Q ss_pred cccCChHhhhcCCCCCCCHHHHHHHHHhcCCCCCccEEEeeccccCCcccchhHHHhcCCccccccCCCcccccccccch
Q 036031 334 VKEIDSKEQRSKGYCPLTPKEVGIFLTALGYPSSTPIYIAAGEIYGGDARMADLQTRYPIMMSKEKLASVEELEPCVNHA 413 (541)
Q Consensus 334 ~k~i~~~~~R~~G~CPLTPeEvgl~LralGf~~~T~IYlA~GeiyGG~~~l~pLr~~FPnl~tKe~L~s~eEL~pf~~~s 413 (541)
.+.+.+...+..+.||++|++++.+++++|+.+.|.||||++++|||.+.|++|++.||++++|+++.+.+|+++|..
T Consensus 229 ~~~~~~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~-- 306 (351)
T PF10250_consen 229 KKSINPEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIYGGERRLDPLKNMFPNVVTKDDLLSHEELEPLND-- 306 (351)
T ss_dssp GGGTT-----HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS-----------HHHHHHHHGGGT--EE--S-------
T ss_pred cccccchhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCcccccchhHHHHHHHhhhhEeccccCCHHHhhhccc--
Confidence 456778888999999999999999999999999999999999999999999999999999999999999999999876
Q ss_pred hhhhhhheeeecCCceeeeCCCCchhhhhhHhhhhcCCC
Q 036031 414 SQMAALDYIVSVESDVFIPSYSGNMARAVEGHRRFLGHR 452 (541)
Q Consensus 414 s~~AALDYiVcl~SDVFV~t~~GNfa~~V~GhR~y~G~~ 452 (541)
.++|+||++||++||+||+|..++|+.+|+++|.|.|+.
T Consensus 307 ~~~a~vD~~i~~~s~~Figt~~Stfs~~i~~~R~~~g~~ 345 (351)
T PF10250_consen 307 DQLAMVDQEICSRSDVFIGTCGSTFSSNIARERHYRGKP 345 (351)
T ss_dssp S--HHHHHHHHHHSSEEEE-TT-HHHHHHHHHHHHSSSS
T ss_pred cchhHHHHHHHhcCCEEEecCcchhHHHhhcccCcCCCC
Confidence 999999999999999999999889999999999999965
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=97.92 E-value=0.0001 Score=75.79 Aligned_cols=277 Identities=21% Similarity=0.361 Sum_probs=156.3
Q ss_pred CCCCceEEE-EecCchhhHHHHHHHHHHHHHHhcCeEEeeccc---CCcccCCCCCCCcccchHH------------HHH
Q 036031 128 AEPRGYLLV-HTNGGLNQMRAGICDMVAVARIINATLVVPELD---KRSFWQDSSNFSDVFDEDH------------FIN 191 (541)
Q Consensus 128 ~~snGyL~V-~~nGGLNQqR~~IcdaVavAriLNATLVlP~L~---~~s~W~D~S~F~dIFDvdh------------FI~ 191 (541)
...||||+. -|.|-..+|-....-..|.|+.||.|||+|-.- +-.+-+---.|...|.++- |+.
T Consensus 26 ~DP~GYl~yCPCMGRFGNQaDhFLGsLAFAKaLnRTL~lPpwiEy~~pe~~n~~vpf~~yF~vepl~~YhRVitm~dFm~ 105 (386)
T KOG3849|consen 26 WDPAGYLLYCPCMGRFGNQADHFLGSLAFAKALNRTLVLPPWIEYKHPETKNLMVPFEFYFQVEPLAKYHRVITMQDFMK 105 (386)
T ss_pred CCCCccEEEccccccccchHHHHHHHHHHHHHhcccccCCcchhccCCcccccccchhheeecccHhhhhhheeHHHHHH
Confidence 357999998 999999999999999999999999999999642 2222222347888888753 333
Q ss_pred hccccc-----eEe--ccCchhhhhhhhh----cc---cc-ccc-------cCccchhh------h------hhcc--cc
Q 036031 192 SLANDV-----KVI--KKVPKELSTAARA----VK---HF-RSW-------SGMDYYEG------E------IASM--WE 235 (541)
Q Consensus 192 sL~~dV-----rIV--k~LP~~~~~~~~~----~k---~~-~~w-------s~~~yy~~------~------ilP~--l~ 235 (541)
.|..+. ||. .+- .....+.. .| ++ +-| ...+||.. + -+.. -+
T Consensus 106 klapthwp~~~Rva~c~k~--a~qr~pdkp~Ch~KeGNPFGPfWDqfhvsFv~sE~f~~i~Fd~~~~~~~~kW~~kfp~e 183 (386)
T KOG3849|consen 106 KLAPTHWPGTPRVAICDKS--AAQRSPDKPGCHSKEGNPFGPFWDQFHVSFVGSEYFGDIGFDLNQMGSRKKWLEKFPSE 183 (386)
T ss_pred HhCcccCCCCcceeeeehh--hhccCCCCCCCcccCCCCCCCchhheEeeeeccccccccccchhhcchHHHHHhhCCcc
Confidence 333332 111 000 00000000 11 11 223 22233311 0 0111 14
Q ss_pred cccEEEEeecCCccc--CCCCChhhhhhhhhhccccccccHHHHHHHHHHHHHHhhcCCeeEeeccchhhhhhhcCCCCC
Q 036031 236 DYQIIRAAKSDSRLA--NNNLPLDIQKLRCRACYEALRFAPQIEAMGKLLVDRMRSYGPYIALHLRYEKDMLAFSGCTHD 313 (541)
Q Consensus 236 k~~VI~l~~~~~rLa--~~~lP~eiQrLRCrvnf~ALrF~p~I~~lg~~LV~RLr~~G~fiALHLR~E~DMLAfsgC~~g 313 (541)
+|-|+.|++.-...- .+.. .|||- ||.+.+|.+.|++.+.---. .||+++|||.-.||+-- |.+.
T Consensus 184 eyPVLAf~gAPA~FPv~~e~~--~lQkY--------l~WS~r~~e~~k~fI~a~L~-rpfvgiHLRng~DWvra--Cehi 250 (386)
T KOG3849|consen 184 EYPVLAFSGAPAPFPVKGEVW--SLQKY--------LRWSSRITEQAKKFISANLA-RPFVGIHLRNGADWVRA--CEHI 250 (386)
T ss_pred cCceeeecCCCCCCccccccc--cHHHH--------HHHHHHHHHHHHHHHHHhcC-cceeEEEeecCchHHHH--HHHh
Confidence 566777765422210 0111 46763 88999999999987653222 39999999999999875 8662
Q ss_pred CChhhHHHHHHHHhcccccccccCChH---hhhc-----CCCCCCCHHHH----HHHHHhcCCCCCccEEEeeccccCCc
Q 036031 314 LSPVEADELRTIRENTVHWKVKEIDSK---EQRS-----KGYCPLTPKEV----GIFLTALGYPSSTPIYIAAGEIYGGD 381 (541)
Q Consensus 314 ~~~~E~~eL~~~R~~~~~wk~k~i~~~---~~R~-----~G~CPLTPeEv----gl~LralGf~~~T~IYlA~GeiyGG~ 381 (541)
-.... .|.= .++. ..+. ...|-=+-+|+ .+-.+.+| .-..+|+|+-. +
T Consensus 251 kd~~~-----------~hlf---ASpQClGy~~~~gaLt~e~C~Psk~~I~rqik~~v~si~--dakSVfVAsDs----~ 310 (386)
T KOG3849|consen 251 KDTTN-----------RHLF---ASPQCLGYGHHLGALTKEICSPSKQQILRQIKEKVGSIG--DAKSVFVASDS----D 310 (386)
T ss_pred cccCC-----------Cccc---cChhhccccccccccchhhhCccHHHHHHHHHHHHhhhc--ccceEEEeccc----h
Confidence 21110 0000 0000 0111 12453333443 22233344 33469999876 3
Q ss_pred ccchhHH-HhcCCccccccCCCcccccccccchhhhhhhheeeecCCceeeeCCCCchhhhhhHhhhhcCC
Q 036031 382 ARMADLQ-TRYPIMMSKEKLASVEELEPCVNHASQMAALDYIVSVESDVFIPSYSGNMARAVEGHRRFLGH 451 (541)
Q Consensus 382 ~~l~pLr-~~FPnl~tKe~L~s~eEL~pf~~~ss~~AALDYiVcl~SDVFV~t~~GNfa~~V~GhR~y~G~ 451 (541)
..+..|. +++|-=+. .-.|+| --+-+|..|.-+||-||++--+.|+.+|.-.|-..|+
T Consensus 311 hmi~Eln~aL~~~~i~------vh~l~p------dd~y~dLaIlGqadhFiGNCvSsfsafvKRERD~~Gr 369 (386)
T KOG3849|consen 311 HMIDELNEALKPYEIE------VHRLEP------DDMYTDLAILGQADHFIGNCVSSFSAFVKRERDHAGR 369 (386)
T ss_pred hhhHHHHHhhccccee------EEecCc------ccchhhhhhhcccchhhhhhHHHHHHHHhhhhcccCC
Confidence 4344443 44442211 112222 1256889999999999999999999999999988883
No 3
>PF05830 NodZ: Nodulation protein Z (NodZ); InterPro: IPR008716 The nodulation genes of Rhizobia are regulated by the nodD gene product in response to host-produced flavonoids and appear to encode enzymes involved in the production of a lipo-chitose signal molecule required for infection and nodule formation. NodZ is required for the addition of a 2-O-methylfucose residue to the terminal reducing N-acetylglucosamine of the nodulation signal. This substitution is essential for the biological activity of this molecule. Mutations in nodZ result in defective nodulation. nodZ represents a unique nodulation gene that is not under the control of NodD and yet is essential for the synthesis of an active nodulation signal [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009312 oligosaccharide biosynthetic process, 0009877 nodulation; PDB: 3SIX_A 2HLH_A 2HHC_A 3SIW_A 2OCX_A.
Probab=96.89 E-value=0.04 Score=57.85 Aligned_cols=254 Identities=18% Similarity=0.289 Sum_probs=126.3
Q ss_pred CceEEEEecCchhhHHHHHHHHHHHHHHhcCeEEeecccCCcccCCC----CCCCcccchHHHHHhcc--ccceEecc-C
Q 036031 131 RGYLLVHTNGGLNQMRAGICDMVAVARIINATLVVPELDKRSFWQDS----SNFSDVFDEDHFINSLA--NDVKVIKK-V 203 (541)
Q Consensus 131 nGyL~V~~nGGLNQqR~~IcdaVavAriLNATLVlP~L~~~s~W~D~----S~F~dIFDvdhFI~sL~--~dVrIVk~-L 203 (541)
+.||+..--+|+|.-=-+++-|-.+|+-.|.||||= |.++ .+|...|++ |-+-.+ ..|+|+-+ -
T Consensus 2 ~r~~~~r~r~g~gd~l~~la~aw~~a~~~~r~l~id-------w~~s~~~~~~f~n~f~~--ffepv~~i~~~~~~~~d~ 72 (321)
T PF05830_consen 2 QRFVVSRRRTGLGDCLWSLAAAWRYAKRTGRTLVID-------WRGSCYLDQPFTNAFPV--FFEPVEDIAGVRVICDDR 72 (321)
T ss_dssp --EEEEE--S-HHHHHHHHHHHHHHHHHHT-EEEEE--------BT-TT-SSTTSBSHHH--HB---SEETTEEEE-SGG
T ss_pred CceEEEeccCCchhHHHHHHHHHHHHHHhCCeEEEE-------cCCceecCCcccccCCc--ccchhhhhcCceeEecch
Confidence 568888889999999999999999999999999984 5543 467777655 544443 33555511 1
Q ss_pred chhhhhhhhhcccccc-ccCc---------cch---hhhhhccc------ccccEEEEeecCCcccCCCCChhhhhhhhh
Q 036031 204 PKELSTAARAVKHFRS-WSGM---------DYY---EGEIASMW------EDYQIIRAAKSDSRLANNNLPLDIQKLRCR 264 (541)
Q Consensus 204 P~~~~~~~~~~k~~~~-ws~~---------~yy---~~~ilP~l------~k~~VI~l~~~~~rLa~~~lP~eiQrLRCr 264 (541)
=.+++-.-+ .++. |-.| .++ .+++--++ ....||+.+-...++.+ ++. |
T Consensus 73 i~~~~~~g~---~fp~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~~~~c~~-----~ae----R 140 (321)
T PF05830_consen 73 INQFSFPGP---FFPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWRCDE-----EAE----R 140 (321)
T ss_dssp GGT----SS---EESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTSS-H-----HHH----H
T ss_pred hhhhcCCCC---cChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCcchh-----HHH----H
Confidence 011110000 0111 1111 111 11222222 24568887777777643 233 3
Q ss_pred hccccccccHHHHHHHHHHHHHHhhcCCeeEeeccch--hhhhhhcCCCCCCChhhHHHHHHHHhcccccccccCChHhh
Q 036031 265 ACYEALRFAPQIEAMGKLLVDRMRSYGPYIALHLRYE--KDMLAFSGCTHDLSPVEADELRTIRENTVHWKVKEIDSKEQ 342 (541)
Q Consensus 265 vnf~ALrF~p~I~~lg~~LV~RLr~~G~fiALHLR~E--~DMLAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~~~ 342 (541)
.-|..|+-+++|++..+.+...-=.+..=|++|.|.= +|.+.+ +|++ .++..-|....
T Consensus 141 ~if~slkpR~eIqarID~iy~ehf~g~~~IGVHVRhGngeD~~~h-~~~~---~D~e~~L~~V~---------------- 200 (321)
T PF05830_consen 141 EIFSSLKPRPEIQARIDAIYREHFAGYSVIGVHVRHGNGEDIMDH-APYW---ADEERALRQVC---------------- 200 (321)
T ss_dssp HHHHHS-B-HHHHHHHHHHHHHHTTTSEEEEEEE-------------------HHHHHHHHHHH----------------
T ss_pred HHHHhCCCCHHHHHHHHHHHHHHcCCCceEEEEEeccCCcchhcc-Cccc---cCchHHHHHHH----------------
Confidence 3688999999999999998877655556899999932 233332 2222 00000111110
Q ss_pred hcCCCCCCCHHHHHHHHHhcCCCCCccEEEeeccccCCcccchhHHHhcCCccccccCCCccccccccc-----chhhhh
Q 036031 343 RSKGYCPLTPKEVGIFLTALGYPSSTPIYIAAGEIYGGDARMADLQTRYPIMMSKEKLASVEELEPCVN-----HASQMA 417 (541)
Q Consensus 343 R~~G~CPLTPeEvgl~LralGf~~~T~IYlA~GeiyGG~~~l~pLr~~FPnl~tKe~L~s~eEL~pf~~-----~ss~~A 417 (541)
.....++++-...++.|+||+-. ...++-+++.||.+++-+.=..+..-.+..+ .+-..|
T Consensus 201 -----------~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~~gg~~A 265 (321)
T PF05830_consen 201 -----------TAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGIEGGESA 265 (321)
T ss_dssp -----------HHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE----------------HHHHHHHHHHH
T ss_pred -----------HHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCCcCcccccccchHHHH
Confidence 11223455666678899999987 5679999999999988755443222112211 123568
Q ss_pred hhheeeecCCceee-eCCCCchhh
Q 036031 418 ALDYIVSVESDVFI-PSYSGNMAR 440 (541)
Q Consensus 418 ALDYiVcl~SDVFV-~t~~GNfa~ 440 (541)
-+|-+....+|+-| .+-.+.|.+
T Consensus 266 LIDM~LLSrCD~LIr~~ptS~Fsr 289 (321)
T PF05830_consen 266 LIDMYLLSRCDYLIRFPPTSAFSR 289 (321)
T ss_dssp HHHHHHHTTSSEEEEESTT-GGGH
T ss_pred HHHHHHHHhCCeEEEcCCCchhhh
Confidence 89999999999999 555555544
No 4
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=61.37 E-value=13 Score=34.59 Aligned_cols=99 Identities=14% Similarity=0.024 Sum_probs=58.2
Q ss_pred hccccccccHHHHHHHHHHHHHHhhcCCeeEeeccchhhhhhh----cCCCCCCChhhHH--HHHHHHhcccccccccCC
Q 036031 265 ACYEALRFAPQIEAMGKLLVDRMRSYGPYIALHLRYEKDMLAF----SGCTHDLSPVEAD--ELRTIRENTVHWKVKEID 338 (541)
Q Consensus 265 vnf~ALrF~p~I~~lg~~LV~RLr~~G~fiALHLR~E~DMLAf----sgC~~g~~~~E~~--eL~~~R~~~~~wk~k~i~ 338 (541)
++..+|++.++..+.-+.+.+.|+.+|.++-++...+...+.. .-|.....+-+.- ..+++++-
T Consensus 49 ~~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~yl---------- 118 (160)
T PLN02232 49 TMGYGLRNVVDRLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEYL---------- 118 (160)
T ss_pred EecchhhcCCCHHHHHHHHHHHcCcCeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHhH----------
Confidence 3445677777888888999999999999988876544322110 0111100000000 00111110
Q ss_pred hHhhhcCCCCCCCHHHHHHHHHhcCCCCCccEEEeeccc
Q 036031 339 SKEQRSKGYCPLTPKEVGIFLTALGYPSSTPIYIAAGEI 377 (541)
Q Consensus 339 ~~~~R~~G~CPLTPeEvgl~LralGf~~~T~IYlA~Gei 377 (541)
...... +++|+|...+|+..||.+-+.-+++.|-.
T Consensus 119 ---~~si~~-f~~~~el~~ll~~aGF~~~~~~~~~~g~~ 153 (160)
T PLN02232 119 ---KYSING-YLTGEELETLALEAGFSSACHYEISGGFM 153 (160)
T ss_pred ---HHHHHH-CcCHHHHHHHHHHcCCCcceEEECcchHh
Confidence 000112 48999999999999999998888877753
No 5
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=57.67 E-value=43 Score=37.29 Aligned_cols=146 Identities=17% Similarity=0.222 Sum_probs=84.1
Q ss_pred cccccHHHHHHHHHHHHHHhhcCCeeEeeccchhhhhhhcCCCCCCChhhHHHHHHHHhcccccccccCChHhhhcCCCC
Q 036031 269 ALRFAPQIEAMGKLLVDRMRSYGPYIALHLRYEKDMLAFSGCTHDLSPVEADELRTIRENTVHWKVKEIDSKEQRSKGYC 348 (541)
Q Consensus 269 ALrF~p~I~~lg~~LV~RLr~~G~fiALHLR~E~DMLAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~~~R~~G~C 348 (541)
-+||+|-.++.-++-...|-=+.|-|++|.|-- |- -|+++---.|+.|=. |-+
T Consensus 340 L~Rpqp~t~~~l~~a~k~lg~~~PivGvhvRRT-DK--------VGTEAAfH~~eEYM~----~vE-------------- 392 (580)
T KOG3705|consen 340 LMRPQPATQEKLDKALKSLGLDKPIVGVHVRRT-DK--------VGTEAAFHALEEYME----WVE-------------- 392 (580)
T ss_pred HhCCChhhHHHHHHHHHhCCCCCceeeEEEEec-cc--------ccchhhhhhHHHHHH----HHH--------------
Confidence 488999888655544444433449999999864 22 222222222333322 211
Q ss_pred CCCHHHHHHHHHhcCCCCCccEEEeeccccCCcccchhHHHhcCCccccccCCCcccccccc-------cchhhhhhhhe
Q 036031 349 PLTPKEVGIFLTALGYPSSTPIYIAAGEIYGGDARMADLQTRYPIMMSKEKLASVEELEPCV-------NHASQMAALDY 421 (541)
Q Consensus 349 PLTPeEvgl~LralGf~~~T~IYlA~GeiyGG~~~l~pLr~~FPnl~tKe~L~s~eEL~pf~-------~~ss~~AALDY 421 (541)
+-=.+|..=|=+-.-+||||+-+. ..+..-|.-|||.. +....|.+.-. .-|...--+|.
T Consensus 393 -----~~f~~le~rg~~~~rRiflAsDDp----~vv~EAk~kYPnYe----~igd~eia~~A~l~nRYTd~sL~GvIlDI 459 (580)
T KOG3705|consen 393 -----IWFKVLEKRGKPLERRIFLASDDP----TVVPEAKNKYPNYE----VIGDTEIAKTAQLNNRYTDASLMGVILDI 459 (580)
T ss_pred -----HHHHHHHHhCCchhheEEEecCCc----hhchHhhccCCCcE----EeccHHHHHHhhccccchhhhhhheeeee
Confidence 111223333444556899999983 55666788999874 33333433211 12445556799
Q ss_pred eeecCCceeeeCCCCchhhhhhHhhhhcCCCceeecChH
Q 036031 422 IVSVESDVFIPSYSGNMARAVEGHRRFLGHRKTISPDRK 460 (541)
Q Consensus 422 iVcl~SDVFV~t~~GNfa~~V~GhR~y~G~~kTI~Pdrk 460 (541)
.+.+.+|..|.|+++..-+ ..+--.+|.-||..
T Consensus 460 h~LS~~d~LVCTFSSQVCR------vaYEimQt~~pDa~ 492 (580)
T KOG3705|consen 460 HILSKVDYLVCTFSSQVCR------VAYEIMQTSGPDAG 492 (580)
T ss_pred eeecccceEEEechHHHHH------HHHHHHhccCCCcc
Confidence 9999999999998875443 22223456666654
No 6
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=57.39 E-value=4.3 Score=34.97 Aligned_cols=36 Identities=17% Similarity=0.390 Sum_probs=32.6
Q ss_pred CCCHHHHHHHHHhcCCCCCccEEEeeccccCCcccchhHHHhcCCcccccc
Q 036031 349 PLTPKEVGIFLTALGYPSSTPIYIAAGEIYGGDARMADLQTRYPIMMSKEK 399 (541)
Q Consensus 349 PLTPeEvgl~LralGf~~~T~IYlA~GeiyGG~~~l~pLr~~FPnl~tKe~ 399 (541)
++|-.+++-+|+-..|+ +.+|..|+.++|++++++.
T Consensus 39 ~~T~~Qv~~il~~f~fd---------------~~kl~~lk~l~p~i~D~~n 74 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFD---------------NDKLKALKLLYPYIVDPQN 74 (95)
T ss_pred ceeHHHHHHHHHHcCCC---------------HHHHHHHHHHhhhccCHHH
Confidence 39999999999999999 4569999999999999964
No 7
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=47.95 E-value=28 Score=34.66 Aligned_cols=81 Identities=11% Similarity=0.126 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHhhcCCeeEee-ccchhh-----hhhhcCCC---CCCChhhHHHHHHHHhcccccccccCChHhhhc
Q 036031 274 PQIEAMGKLLVDRMRSYGPYIALH-LRYEKD-----MLAFSGCT---HDLSPVEADELRTIRENTVHWKVKEIDSKEQRS 344 (541)
Q Consensus 274 p~I~~lg~~LV~RLr~~G~fiALH-LR~E~D-----MLAfsgC~---~g~~~~E~~eL~~~R~~~~~wk~k~i~~~~~R~ 344 (541)
++.+++-+.+.+.|+.+|.++-.+ .+.+.+ ++....+. .|.+++|..+ .| +.+.
T Consensus 141 ~~~~~~l~~i~~~LkpGG~l~l~e~~~~~~~~~~~~~~~~~~~~~~~~g~s~~ei~~---~~--------------~~~~ 203 (247)
T PRK15451 141 SERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGELLFNMHHDFKRANGYSELEISQ---KR--------------SMLE 203 (247)
T ss_pred HHHHHHHHHHHHhcCCCCEEEEEEecCCCcchhHHHHHHHHHHHHHHcCCCHHHHHH---HH--------------HHHH
Confidence 345678888889999889877654 333321 22211111 1222222211 11 1223
Q ss_pred CCCCCCCHHHHHHHHHhcCCCCCccEE
Q 036031 345 KGYCPLTPKEVGIFLTALGYPSSTPIY 371 (541)
Q Consensus 345 ~G~CPLTPeEvgl~LralGf~~~T~IY 371 (541)
+-..|+|++|...+|+.-||..-..+|
T Consensus 204 ~~~~~~~~~~~~~~L~~aGF~~v~~~~ 230 (247)
T PRK15451 204 NVMLTDSVETHKARLHKAGFEHSELWF 230 (247)
T ss_pred hhcccCCHHHHHHHHHHcCchhHHHHH
Confidence 346789999999999999999755444
No 8
>PF00799 Gemini_AL1: Geminivirus Rep catalytic domain; InterPro: IPR022690 Geminiviruses are characterised by a genome of circular single-stranded DNA encapsidated in twinned (geminate) quasi-isometric particles, from which the group derives its name []. Most geminiviruses can be divided into two subgroups on the basis of host range and/or insect vector: i.e. those that infect dicotyledenous plants and are transmitted by the same whitefly species, and those that infect monocotyledenous plants and are transmitted by different leafhopper vectors. The genomes of the whitefly-transmitted African cassava mosaic virus, Tomato golden mosaic virus (TGMV) and Bean golden mosaic virus (BGMV) possess a bipartite genome. By contrast, only a single DNA component has been identified for the leafhopper-transmitted Maize streak virus (MSV) and Wheat dwarf virus (WDV) [, ]. Beet curly top virus (BCTV), and Tobacco yellow dwarf virus belong to a third possible subgroup. Like MSV and WDV, BCTV is transmitted by a specific leafhopper species, yet like the whitefly-transmitted geminiviruses it has a host range confined to dicotyledenous plants. Sequence comparison of the whitefly-transmitted Squash leaf curl virus (SqLCV) and Tomato yellow leaf curl virus (TYLCV) with the genomic components of TGMV and BGMV reveals a close evolutionary relationship [, , ]. Amino acid sequence alignments of Potato yellow mosaic virus (PYMV) proteins with those encoded by other geminiviruses show that PYMV is closely related to geminiviruses isolated from the New World, especially in the putative coat protein gene regions []. Comparison of MSV DNA-encoded proteins with those of other geminiviruses infecting monocotyledonous plants, including Panicum streak virus [] and Miscanthus streak virus (MiSV) [], reveal high levels of similarity. The AL1 proteins encodes the replication initiator protein (Rep) of geminiviruses, which is a replicon-specific initiator enzyme and is an essential component of the replisome []. For geminivirus Rep protein, this N-terminal region is crucial for origin recognition and DNA cleavage and nucleotidyl transfer []. It is found in association with PF08283 from PFAM. ; GO: 0006260 DNA replication; PDB: 1L5I_A 1L2M_A.
Probab=36.46 E-value=35 Score=31.34 Aligned_cols=29 Identities=34% Similarity=0.347 Sum_probs=16.6
Q ss_pred CCCCCHHHHHHHHHhcCCCCCccEEEeecc
Q 036031 347 YCPLTPKEVGIFLTALGYPSSTPIYIAAGE 376 (541)
Q Consensus 347 ~CPLTPeEvgl~LralGf~~~T~IYlA~Ge 376 (541)
+|||+|||+...|+++--+ ....||..++
T Consensus 14 qC~l~ke~~l~~L~~l~~~-~~~~yI~v~r 42 (114)
T PF00799_consen 14 QCSLTKEEALEQLKNLLTP-SNKKYIRVCR 42 (114)
T ss_dssp T----HHHHHHHHHH---S-S-EEEEEEEE
T ss_pred CCCCCHHHHHHHHHHhCCc-cCceEEEeec
Confidence 6999999999999999754 4677876653
No 9
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=32.86 E-value=50 Score=34.44 Aligned_cols=73 Identities=27% Similarity=0.302 Sum_probs=49.2
Q ss_pred HHHHHHHhcCCCCCccEEEeeccccCCcccchhHHHhcCCccccccCCCcccccccccchhhhhhhheeeecCCceeeeC
Q 036031 354 EVGIFLTALGYPSSTPIYIAAGEIYGGDARMADLQTRYPIMMSKEKLASVEELEPCVNHASQMAALDYIVSVESDVFIPS 433 (541)
Q Consensus 354 Evgl~LralGf~~~T~IYlA~GeiyGG~~~l~pLr~~FPnl~tKe~L~s~eEL~pf~~~ss~~AALDYiVcl~SDVFV~t 433 (541)
|+...|.+-| ..|.|.+|. .-.+..+.+.+..++.+. |+....|..+ +||- ..||.||++
T Consensus 199 ~l~~~l~~~~----~~Vvl~g~~--~e~e~~~~i~~~~~~~~~---l~~k~sL~e~-------~~li----~~a~l~I~~ 258 (334)
T COG0859 199 ELAELLIAKG----YQVVLFGGP--DEEERAEEIAKGLPNAVI---LAGKTSLEEL-------AALI----AGADLVIGN 258 (334)
T ss_pred HHHHHHHHCC----CEEEEecCh--HHHHHHHHHHHhcCCccc---cCCCCCHHHH-------HHHH----hcCCEEEcc
Confidence 6788888888 679999887 445556677888887664 4444333332 3332 689999999
Q ss_pred CCCchhhhhhHhh
Q 036031 434 YSGNMARAVEGHR 446 (541)
Q Consensus 434 ~~GNfa~~V~GhR 446 (541)
.+|-|.-+-+-++
T Consensus 259 DSg~~HlAaA~~~ 271 (334)
T COG0859 259 DSGPMHLAAALGT 271 (334)
T ss_pred CChHHHHHHHcCC
Confidence 9996655544444
No 10
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=31.12 E-value=34 Score=28.24 Aligned_cols=16 Identities=44% Similarity=0.675 Sum_probs=13.8
Q ss_pred CCCCCCHHHHHHHHHhc
Q 036031 346 GYCPLTPKEVGIFLTAL 362 (541)
Q Consensus 346 G~CPLTPeEvgl~Lral 362 (541)
|-| +||||-+.+++++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 568 9999999999875
No 11
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=28.01 E-value=55 Score=26.29 Aligned_cols=24 Identities=29% Similarity=0.466 Sum_probs=20.1
Q ss_pred hhcCCCCCCCHHHHHHHHHhcCCCC
Q 036031 342 QRSKGYCPLTPKEVGIFLTALGYPS 366 (541)
Q Consensus 342 ~R~~G~CPLTPeEvgl~LralGf~~ 366 (541)
.+..|.. ++++|+.-+|+.|||+-
T Consensus 12 ~~llG~~-i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGLD-LSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCCC-CCHHHHHHHHHHCCCeE
Confidence 4566664 99999999999999974
No 12
>PF00036 EF-hand_1: EF hand; InterPro: IPR018248 Many calcium-binding proteins belong to the same evolutionary family and share a type of calcium-binding domain known as the EF-hand. This type of domain consists of a twelve residue loop flanked on both sides by a twelve residue alpha-helical domain. In an EF-hand loop the calcium ion is coordinated in a pentagonal bipyramidal configuration. The six residues involved in the binding are in positions 1, 3, 5, 7, 9 and 12; these residues are denoted by X, Y, Z, -Y, -X and -Z. The invariant Glu or Asp at position 12 provides two oxygens for liganding Ca (bidentate ligand).; PDB: 1BJF_A 1XFW_R 1XFV_O 2K0J_A 2F3Z_A 3BYA_A 1XFU_Q 2R28_B 1ZOT_B 3G43_D ....
Probab=24.69 E-value=52 Score=22.92 Aligned_cols=27 Identities=26% Similarity=0.273 Sum_probs=22.1
Q ss_pred HHHHHHHhhhccCCCCCchhHHHHHHHH
Q 036031 460 KALVRLFDKIELGTIREGKSLSNKVIEI 487 (541)
Q Consensus 460 k~l~~Lf~~~~~~~~~~w~~f~~~v~~~ 487 (541)
+.+...||.-.+|.|+ .+||...++++
T Consensus 3 ~~~F~~~D~d~dG~I~-~~Ef~~~~~~L 29 (29)
T PF00036_consen 3 KEAFREFDKDGDGKID-FEEFKEMMKKL 29 (29)
T ss_dssp HHHHHHHSTTSSSEEE-HHHHHHHHHHT
T ss_pred HHHHHHHCCCCCCcCC-HHHHHHHHHhC
Confidence 4567789998999998 99999988753
No 13
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=20.29 E-value=66 Score=26.36 Aligned_cols=25 Identities=24% Similarity=0.453 Sum_probs=17.0
Q ss_pred hhcCCCCCCCHHHHHHHHHhcCCCCC
Q 036031 342 QRSKGYCPLTPKEVGIFLTALGYPSS 367 (541)
Q Consensus 342 ~R~~G~CPLTPeEvgl~LralGf~~~ 367 (541)
.+..|.. ++++|+.-+|+.|||.-+
T Consensus 12 ~~~lG~~-i~~~~i~~~L~~lg~~~~ 36 (70)
T PF03484_consen 12 NKLLGID-ISPEEIIKILKRLGFKVE 36 (70)
T ss_dssp HHHHTS----HHHHHHHHHHTT-EEE
T ss_pred HHHhCCC-CCHHHHHHHHHHCCCEEE
Confidence 4556665 999999999999999833
Done!