Query 036966
Match_columns 546
No_of_seqs 200 out of 432
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 07:11:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036966.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036966hhsearch_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 1.8E-54 3.8E-59 439.4 3.9 301 121-439 6-345 (351)
2 KOG3849 GDP-fucose protein O-f 98.4 6.1E-06 1.3E-10 84.6 14.0 280 113-438 28-369 (386)
3 PF05830 NodZ: Nodulation prot 96.4 0.038 8.3E-07 58.1 12.4 240 114-416 2-279 (321)
4 KOG3705 Glycoprotein 6-alpha-L 48.6 31 0.00068 38.3 5.4 124 257-421 340-474 (580)
5 PF14771 DUF4476: Domain of un 44.6 20 0.00044 30.8 2.8 36 335-385 39-74 (95)
6 PRK15451 tRNA cmo(5)U34 methyl 39.0 38 0.00083 33.8 4.1 80 263-357 142-230 (247)
7 PLN02232 ubiquinone biosynthes 37.0 44 0.00096 31.2 3.9 96 255-362 51-152 (160)
8 PF00799 Gemini_AL1: Geminivir 30.9 51 0.0011 30.3 3.2 29 332-361 13-41 (114)
9 PF02845 CUE: CUE domain; Int 28.4 24 0.00052 26.2 0.5 38 369-410 4-41 (42)
10 COG4878 Uncharacterized protei 25.9 1.3E+02 0.0027 32.1 5.3 146 339-492 91-239 (309)
11 COG0859 RfaF ADP-heptose:LPS h 25.8 76 0.0017 33.2 3.9 72 339-429 198-269 (334)
12 PF04561 RNA_pol_Rpb2_2: RNA p 25.3 25 0.00054 32.8 0.2 17 341-357 54-70 (190)
13 PF15176 LRR19-TM: Leucine-ric 24.4 96 0.0021 28.3 3.6 70 46-118 16-89 (102)
14 smart00874 B5 tRNA synthetase 23.9 80 0.0017 25.4 2.8 24 328-352 12-35 (71)
15 PF10892 DUF2688: Protein of u 22.7 61 0.0013 26.8 1.9 16 332-348 42-57 (60)
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=1.8e-54 Score=439.36 Aligned_cols=301 Identities=32% Similarity=0.526 Sum_probs=206.8
Q ss_pred ecCCchhhhhhHhhHHHHHHHhcCeEEecccCCCCcccCCCC-----CcccCcHHHHHHHhhhhhhhhhcCchhhhcccc
Q 036966 121 CNGGLNQQRTAICNAVLAARIMNATLVLPELDANSFWHDDSG-----FQGIYDVEHFIQTLRYDVQIVESIPEIHKNGKT 195 (546)
Q Consensus 121 ~nGGLNqqR~~IcDaVavARiLNATLVlP~L~~~s~WkD~S~-----F~dIFD~dhFI~sL~~dVrIVk~LP~~~~~~~~ 195 (546)
|.||+||||.++++||++|++||+|||||.+.....|++.+. |+++||++||++.++.+|.+.+.+|..+.....
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 789999999999999999999999999999999999999987 999999999999999999999988876553211
Q ss_pred cc--------------------------ccccccCCCC-CCCchhhHHHHHHHHHHh------cceEeccCCcccccCCC
Q 036966 196 KK--------------------------IKAYQLRPPR-DAPISWYLTEAMEQMKKH------GAIYLTPFSHRLAEEID 242 (546)
Q Consensus 196 ~~--------------------------i~~~~~~p~~-~a~~~wY~~~vLP~L~k~------~Vi~l~~fd~rLa~~~~ 242 (546)
.. .......+.. ++.+.||+++++|.+.++ +++.|+++...+..+..
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 10 0011112222 567788999999999887 99999999999988877
Q ss_pred chhHHhhhhhhcccccccchhHHHHHHHHHHHHH-hcCCcceecchhhhhHHhhhcCCCCCCHHHHHHHHHHHHhhhccc
Q 036966 243 NPEYQRLRCRVNYHALRFKPNIMKLSESIVDKLR-AEGHFMSIHLRFEMDMLAFAGCFDIFKPEQQRILKKYREENFKEK 321 (546)
Q Consensus 243 p~eiQrLRCrvnf~ALrF~p~I~~Lg~~lV~RLR-~~GpfiAlHLR~E~DMLAfsgC~~~~~~~E~~eL~~~R~~~w~~k 321 (546)
+.++|| +|+|+++|+++|++++++|+ .+++|||+|||+|+|| +++|.+++ ++..|..+|.. .++
T Consensus 166 ~~~~~r--------~l~~~~~i~~~a~~~i~~~~~~~~~yiavHlR~~~D~--~~~C~~~~---~~~~~~~~~~~--~~~ 230 (351)
T PF10250_consen 166 DRDLQR--------YLRFSPEIRELADKFIKRLLAGGGPYIAVHLRRGKDW--FSACEFKG---ERHLLASPRCW--GKK 230 (351)
T ss_dssp GGGGGG--------G--B-HHHHHHHHHHHHHH----SSEEEEEE--SHHH--HHHHCT-T-------TTTHHHH---GG
T ss_pred CccceE--------EEecCHHHHHHHHHHHHHhhcccCceEEEeecccCch--HhhcccCC---chHHHHHhHhh--ccc
Confidence 788877 99999999999999999999 7899999999999999 88999854 66777766654 445
Q ss_pred ccChHHHhcCCCCCCCHHHHHHHHHHcCCCCCceEEEeeccccCCcccchhHHHhCCccccccCCCChhhhcccccchhh
Q 036966 322 KLVYKERRAIGKCPLTPEEVGLILRAMGFDNSTKIYLAAGELFGGEKFMKPFRALFPHLENHSSVDPSEELVTNTRGLLG 401 (546)
Q Consensus 322 ~i~~~~~R~~G~CPLtPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~l~pL~~~FPnl~tKe~L~~~eEL~~~~~~~~~ 401 (546)
.+.+...|..+.||++|++++.+++++|+.+.|.||||++++|||.+.|.+|++.||++++|+++.+.+|+.++.. .++
T Consensus 231 ~~~~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 309 (351)
T PF10250_consen 231 SINPEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIYGGERRLDPLKNMFPNVVTKDDLLSHEELEPLND-DQL 309 (351)
T ss_dssp GTT-----HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS-----------HHHHHHHHGGGT--EE--S------S--
T ss_pred cccchhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCcccccchhHHHHHHHhhhhEeccccCCHHHhhhccc-cch
Confidence 6677788889999999999999999999999999999999999999999999999999999999999999887544 788
Q ss_pred hhhHhhhhhcCccccccCCCCchhhhhhhhhcccccCc
Q 036966 402 SAVDYMVCLLSDIFMPTYDGPSNFANNLLGHRLYYGFR 439 (546)
Q Consensus 402 AALDYiVcl~SDVFv~t~~G~sNfa~~V~GhR~y~G~~ 439 (546)
|+||++||++||+||+|.. |+|+.+|+++|.|.|+.
T Consensus 310 a~vD~~i~~~s~~Figt~~--Stfs~~i~~~R~~~g~~ 345 (351)
T PF10250_consen 310 AMVDQEICSRSDVFIGTCG--STFSSNIARERHYRGKP 345 (351)
T ss_dssp HHHHHHHHHHSSEEEE-TT---HHHHHHHHHHHHSSSS
T ss_pred hHHHHHHHhcCCEEEecCc--chhHHHhhcccCcCCCC
Confidence 9999999999999999964 59999999999999964
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=98.38 E-value=6.1e-06 Score=84.57 Aligned_cols=280 Identities=17% Similarity=0.269 Sum_probs=150.2
Q ss_pred CCceEEE-EecCCchhhhhhHhhHHHHHHHhcCeEEecccCC---CCcccCCCCCcccCcHHHHHHHhhhhhhhh-----
Q 036966 113 SNGYLRV-RCNGGLNQQRTAICNAVLAARIMNATLVLPELDA---NSFWHDDSGFQGIYDVEHFIQTLRYDVQIV----- 183 (546)
Q Consensus 113 snGyL~V-~~nGGLNqqR~~IcDaVavARiLNATLVlP~L~~---~s~WkD~S~F~dIFD~dhFI~sL~~dVrIV----- 183 (546)
.||||+. -|-|-+.||-....-..|.|+.||.|||+|-.-. -.+-+-.-.|...|.++-.-+ .-|||
T Consensus 28 P~GYl~yCPCMGRFGNQaDhFLGsLAFAKaLnRTL~lPpwiEy~~pe~~n~~vpf~~yF~vepl~~----YhRVitm~dF 103 (386)
T KOG3849|consen 28 PAGYLLYCPCMGRFGNQADHFLGSLAFAKALNRTLVLPPWIEYKHPETKNLMVPFEFYFQVEPLAK----YHRVITMQDF 103 (386)
T ss_pred CCccEEEccccccccchHHHHHHHHHHHHHhcccccCCcchhccCCcccccccchhheeecccHhh----hhhheeHHHH
Confidence 5799988 6999999999999999999999999999996532 221111347888888764333 23332
Q ss_pred -hcC-chhhhcccccccc-cccc----CC-----CCC----CCchh-----------h-------HHHH---HHHH----
Q 036966 184 -ESI-PEIHKNGKTKKIK-AYQL----RP-----PRD----APISW-----------Y-------LTEA---MEQM---- 222 (546)
Q Consensus 184 -k~L-P~~~~~~~~~~i~-~~~~----~p-----~~~----a~~~w-----------Y-------~~~v---LP~L---- 222 (546)
+.| |..+-. +.++. +++. .| +.+ -.+-| | +.+. -..+
T Consensus 104 m~klapthwp~--~~Rva~c~k~a~qr~pdkp~Ch~KeGNPFGPfWDqfhvsFv~sE~f~~i~Fd~~~~~~~~kW~~kfp 181 (386)
T KOG3849|consen 104 MKKLAPTHWPG--TPRVAICDKSAAQRSPDKPGCHSKEGNPFGPFWDQFHVSFVGSEYFGDIGFDLNQMGSRKKWLEKFP 181 (386)
T ss_pred HHHhCcccCCC--CcceeeeehhhhccCCCCCCCcccCCCCCCCchhheEeeeeccccccccccchhhcchHHHHHhhCC
Confidence 122 222211 01110 0000 00 000 01122 1 1111 1111
Q ss_pred -HHhcceEeccCCcccccCCCchhHHhhhhhhcccccccchhHHHHHHHHHHHHHhcCCcceecchhhhhHHhhhcCCCC
Q 036966 223 -KKHGAIYLTPFSHRLAEEIDNPEYQRLRCRVNYHALRFKPNIMKLSESIVDKLRAEGHFMSIHLRFEMDMLAFAGCFDI 301 (546)
Q Consensus 223 -~k~~Vi~l~~fd~rLa~~~~p~eiQrLRCrvnf~ALrF~p~I~~Lg~~lV~RLR~~GpfiAlHLR~E~DMLAfsgC~~~ 301 (546)
++|-|+.|++.-...--.+..-.+|| -|+.+.+|.+.|++.+.--- ..||+++|||...||+- .|.+.
T Consensus 182 ~eeyPVLAf~gAPA~FPv~~e~~~lQk--------Yl~WS~r~~e~~k~fI~a~L-~rpfvgiHLRng~DWvr--aCehi 250 (386)
T KOG3849|consen 182 SEEYPVLAFSGAPAPFPVKGEVWSLQK--------YLRWSSRITEQAKKFISANL-ARPFVGIHLRNGADWVR--ACEHI 250 (386)
T ss_pred cccCceeeecCCCCCCccccccccHHH--------HHHHHHHHHHHHHHHHHHhc-CcceeEEEeecCchHHH--HHHHh
Confidence 34556666554222111122234555 48889999999988764322 24999999999999997 68542
Q ss_pred CCHHHHHHHHHHHHhh-hcccccChHHHhcC-----CCCCCCHHHH----HHHHHHcCCCCCceEEEeeccccCCcccch
Q 036966 302 FKPEQQRILKKYREEN-FKEKKLVYKERRAI-----GKCPLTPEEV----GLILRAMGFDNSTKIYLAAGELFGGEKFMK 371 (546)
Q Consensus 302 ~~~~E~~eL~~~R~~~-w~~k~i~~~~~R~~-----G~CPLtPeEv----gl~LralGf~~~T~IYlAsGeiyGg~~~l~ 371 (546)
-.... ++ +.... --...+.. ..|-=.-+++ .+-.+.+| .--.+|||+-. +..+.
T Consensus 251 kd~~~---------~hlfASpQ-ClGy~~~~gaLt~e~C~Psk~~I~rqik~~v~si~--dakSVfVAsDs----~hmi~ 314 (386)
T KOG3849|consen 251 KDTTN---------RHLFASPQ-CLGYGHHLGALTKEICSPSKQQILRQIKEKVGSIG--DAKSVFVASDS----DHMID 314 (386)
T ss_pred cccCC---------CccccChh-hccccccccccchhhhCccHHHHHHHHHHHHhhhc--ccceEEEeccc----hhhhH
Confidence 11000 00 00000 00011112 2342222332 22223344 22359999975 34334
Q ss_pred hHH-HhCCccccccCCCChhhhcccccchhhhhhHhhhhhcCccccccCCCCchhhhhhhhhcccccC
Q 036966 372 PFR-ALFPHLENHSSVDPSEELVTNTRGLLGSAVDYMVCLLSDIFMPTYDGPSNFANNLLGHRLYYGF 438 (546)
Q Consensus 372 pL~-~~FPnl~tKe~L~~~eEL~~~~~~~~~AALDYiVcl~SDVFv~t~~G~sNfa~~V~GhR~y~G~ 438 (546)
-|. +++|-=+.-..|- +|+ +-+|..|.-+||.||++-.+ +|+..|--.|-..|.
T Consensus 315 Eln~aL~~~~i~vh~l~-pdd----------~y~dLaIlGqadhFiGNCvS--sfsafvKRERD~~Gr 369 (386)
T KOG3849|consen 315 ELNEALKPYEIEVHRLE-PDD----------MYTDLAILGQADHFIGNCVS--SFSAFVKRERDHAGR 369 (386)
T ss_pred HHHHhhcccceeEEecC-ccc----------chhhhhhhcccchhhhhhHH--HHHHHHhhhhcccCC
Confidence 444 3333322112221 111 45899999999999999766 999999999988883
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=96.45 E-value=0.038 Score=58.06 Aligned_cols=240 Identities=18% Similarity=0.289 Sum_probs=114.4
Q ss_pred CceEEEEecCCchhhhhhHhhHHHHHHHhcCeEEecccCCCCcccCC----CCCcccCcHHHHHHHhhh--hhhhhhcCc
Q 036966 114 NGYLRVRCNGGLNQQRTAICNAVLAARIMNATLVLPELDANSFWHDD----SGFQGIYDVEHFIQTLRY--DVQIVESIP 187 (546)
Q Consensus 114 nGyL~V~~nGGLNqqR~~IcDaVavARiLNATLVlP~L~~~s~WkD~----S~F~dIFD~dhFI~sL~~--dVrIVk~LP 187 (546)
+.||+.+--+|+|.-=-+++-|-.+|+-.|.||||= |+++ ..|...|++ |-+-.++ .|+|+-.
T Consensus 2 ~r~~~~r~r~g~gd~l~~la~aw~~a~~~~r~l~id-------w~~s~~~~~~f~n~f~~--ffepv~~i~~~~~~~~-- 70 (321)
T PF05830_consen 2 QRFVVSRRRTGLGDCLWSLAAAWRYAKRTGRTLVID-------WRGSCYLDQPFTNAFPV--FFEPVEDIAGVRVICD-- 70 (321)
T ss_dssp --EEEEE--S-HHHHHHHHHHHHHHHHHHT-EEEEE--------BT-TT-SSTTSBSHHH--HB---SEETTEEEE-S--
T ss_pred CceEEEeccCCchhHHHHHHHHHHHHHHhCCeEEEE-------cCCceecCCcccccCCc--ccchhhhhcCceeEec--
Confidence 578888999999999999999999999999999984 7764 356666654 4343331 2222200
Q ss_pred hhhhccccccccccccCCCCCCCchh---------hH--HHH------HH-HHH------HhcceEeccCCcccccCCCc
Q 036966 188 EIHKNGKTKKIKAYQLRPPRDAPISW---------YL--TEA------ME-QMK------KHGAIYLTPFSHRLAEEIDN 243 (546)
Q Consensus 188 ~~~~~~~~~~i~~~~~~p~~~a~~~w---------Y~--~~v------LP-~L~------k~~Vi~l~~fd~rLa~~~~p 243 (546)
+.+. ++.-|-..-+.| |. ++| |. ++. ...||+..-.--++.
T Consensus 71 d~i~----------~~~~~g~~fp~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~~~~c~----- 135 (321)
T PF05830_consen 71 DRIN----------QFSFPGPFFPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWRCD----- 135 (321)
T ss_dssp GGGG----------T----SSEESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTSS------
T ss_pred chhh----------hhcCCCCcChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCcch-----
Confidence 0000 000000011122 11 111 11 111 223444333322221
Q ss_pred hhHHhhhhhhcccccccchhHHHHHHHHHHHHHhcCCcceecchhh--hhHHhhhcCCCCCCHHHHHHHHHHHHhhhccc
Q 036966 244 PEYQRLRCRVNYHALRFKPNIMKLSESIVDKLRAEGHFMSIHLRFE--MDMLAFAGCFDIFKPEQQRILKKYREENFKEK 321 (546)
Q Consensus 244 ~eiQrLRCrvnf~ALrF~p~I~~Lg~~lV~RLR~~GpfiAlHLR~E--~DMLAfsgC~~~~~~~E~~eL~~~R~~~w~~k 321 (546)
.+.. |.-|..|+-+++|++..+.+-..-=.+..=|++|.|.- +|.+.. +|+. .+.| ..|.+..
T Consensus 136 ~~ae----R~if~slkpR~eIqarID~iy~ehf~g~~~IGVHVRhGngeD~~~h-~~~~--~D~e-~~L~~V~------- 200 (321)
T PF05830_consen 136 EEAE----REIFSSLKPRPEIQARIDAIYREHFAGYSVIGVHVRHGNGEDIMDH-APYW--ADEE-RALRQVC------- 200 (321)
T ss_dssp HHHH----HHHHHHS-B-HHHHHHHHHHHHHHTTTSEEEEEEE------------------HHHH-HHHHHHH-------
T ss_pred hHHH----HHHHHhCCCCHHHHHHHHHHHHHHcCCCceEEEEEeccCCcchhcc-Cccc--cCch-HHHHHHH-------
Confidence 1221 23688999999999999998777655556899999943 222222 2221 0111 1111100
Q ss_pred ccChHHHhcCCCCCCCHHHHHHHHHHcCCCCCceEEEeeccccCCcccchhHHHhCCccccccCCCCh-h--hhcccc--
Q 036966 322 KLVYKERRAIGKCPLTPEEVGLILRAMGFDNSTKIYLAAGELFGGEKFMKPFRALFPHLENHSSVDPS-E--ELVTNT-- 396 (546)
Q Consensus 322 ~i~~~~~R~~G~CPLtPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~l~pL~~~FPnl~tKe~L~~~-e--EL~~~~-- 396 (546)
.....+++.-...++.|+||+=. ...++-+++.||.+++-+.=..+ . .|....
T Consensus 201 ------------------~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g 258 (321)
T PF05830_consen 201 ------------------TAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVG 258 (321)
T ss_dssp ------------------HHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE----------------HHHH
T ss_pred ------------------HHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCCcCcccccc
Confidence 01112344555678899999987 57799999999999866443321 1 232211
Q ss_pred -cchhhhhhHhhhhhcCcccc
Q 036966 397 -RGLLGSAVDYMVCLLSDIFM 416 (546)
Q Consensus 397 -~~~~~AALDYiVcl~SDVFv 416 (546)
.+-..|.+|-+...++|+-|
T Consensus 259 ~~gg~~ALIDM~LLSrCD~LI 279 (321)
T PF05830_consen 259 IEGGESALIDMYLLSRCDYLI 279 (321)
T ss_dssp HHHHHHHHHHHHHHTTSSEEE
T ss_pred cchHHHHHHHHHHHHhCCeEE
Confidence 23356999999999999999
No 4
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=48.62 E-value=31 Score=38.31 Aligned_cols=124 Identities=19% Similarity=0.309 Sum_probs=73.6
Q ss_pred ccccchhHHHHHHHHHHHHHhcCCcceecchhhhhHHhhhcCCCCCCHHHHHHHHHH---HHhhhcccccChHHHhcCCC
Q 036966 257 ALRFKPNIMKLSESIVDKLRAEGHFMSIHLRFEMDMLAFAGCFDIFKPEQQRILKKY---REENFKEKKLVYKERRAIGK 333 (546)
Q Consensus 257 ALrF~p~I~~Lg~~lV~RLR~~GpfiAlHLR~E~DMLAfsgC~~~~~~~E~~eL~~~---R~~~w~~k~i~~~~~R~~G~ 333 (546)
-+||.|..++.-++-...|-=..|-|++|.|--. .-|+++---.|+.| =+.|++
T Consensus 340 L~Rpqp~t~~~l~~a~k~lg~~~PivGvhvRRTD---------KVGTEAAfH~~eEYM~~vE~~f~-------------- 396 (580)
T KOG3705|consen 340 LMRPQPATQEKLDKALKSLGLDKPIVGVHVRRTD---------KVGTEAAFHALEEYMEWVEIWFK-------------- 396 (580)
T ss_pred HhCCChhhHHHHHHHHHhCCCCCceeeEEEEecc---------cccchhhhhhHHHHHHHHHHHHH--------------
Confidence 4788888877555544444334599999998642 22222222223332 123332
Q ss_pred CCCCHHHHHHHHHHcCCCCCceEEEeeccccCCcccchhHHHhCCccccccCCCChhhhccc---c-----cchhhhhhH
Q 036966 334 CPLTPEEVGLILRAMGFDNSTKIYLAAGELFGGEKFMKPFRALFPHLENHSSVDPSEELVTN---T-----RGLLGSAVD 405 (546)
Q Consensus 334 CPLtPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~l~pL~~~FPnl~tKe~L~~~eEL~~~---~-----~~~~~AALD 405 (546)
+|..=|=+-.-+||||+-+ ...+.--+..|||.. +.+..|++.. . .++..--+|
T Consensus 397 ----------~le~rg~~~~rRiflAsDD----p~vv~EAk~kYPnYe----~igd~eia~~A~l~nRYTd~sL~GvIlD 458 (580)
T KOG3705|consen 397 ----------VLEKRGKPLERRIFLASDD----PTVVPEAKNKYPNYE----VIGDTEIAKTAQLNNRYTDASLMGVILD 458 (580)
T ss_pred ----------HHHHhCCchhheEEEecCC----chhchHhhccCCCcE----EeccHHHHHHhhccccchhhhhhheeee
Confidence 2222233445579999987 456777888899975 4444454331 1 233345678
Q ss_pred hhhhhcCccccccCCC
Q 036966 406 YMVCLLSDIFMPTYDG 421 (546)
Q Consensus 406 YiVcl~SDVFv~t~~G 421 (546)
-.+.+.+|..|.|+++
T Consensus 459 Ih~LS~~d~LVCTFSS 474 (580)
T KOG3705|consen 459 IHILSKVDYLVCTFSS 474 (580)
T ss_pred eeeecccceEEEechH
Confidence 8888889998888653
No 5
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=44.56 E-value=20 Score=30.85 Aligned_cols=36 Identities=28% Similarity=0.458 Sum_probs=32.3
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEeeccccCCcccchhHHHhCCccccccC
Q 036966 335 PLTPEEVGLILRAMGFDNSTKIYLAAGELFGGEKFMKPFRALFPHLENHSS 385 (546)
Q Consensus 335 PLtPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~l~pL~~~FPnl~tKe~ 385 (546)
++|-.+++-+|+.+.|++ .+|+.++-++|++++++.
T Consensus 39 ~~T~~Qv~~il~~f~fd~---------------~kl~~lk~l~p~i~D~~n 74 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFDN---------------DKLKALKLLYPYIVDPQN 74 (95)
T ss_pred ceeHHHHHHHHHHcCCCH---------------HHHHHHHHHhhhccCHHH
Confidence 599999999999999985 359999999999999963
No 6
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=38.95 E-value=38 Score=33.80 Aligned_cols=80 Identities=15% Similarity=0.140 Sum_probs=46.1
Q ss_pred hHHHHHHHHHHHHHhcCCcceec-chhhhh-----HHhhhcCC---CCCCHHHHHHHHHHHHhhhcccccChHHHhcCCC
Q 036966 263 NIMKLSESIVDKLRAEGHFMSIH-LRFEMD-----MLAFAGCF---DIFKPEQQRILKKYREENFKEKKLVYKERRAIGK 333 (546)
Q Consensus 263 ~I~~Lg~~lV~RLR~~GpfiAlH-LR~E~D-----MLAfsgC~---~~~~~~E~~eL~~~R~~~w~~k~i~~~~~R~~G~ 333 (546)
+.+++-+.+.+.|+.+|.++-.+ .+.+.+ ++..+... .|.+++|.+.. .+.+.+-.
T Consensus 142 ~~~~~l~~i~~~LkpGG~l~l~e~~~~~~~~~~~~~~~~~~~~~~~~g~s~~ei~~~---------------~~~~~~~~ 206 (247)
T PRK15451 142 ERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGELLFNMHHDFKRANGYSELEISQK---------------RSMLENVM 206 (247)
T ss_pred HHHHHHHHHHHhcCCCCEEEEEEecCCCcchhHHHHHHHHHHHHHHcCCCHHHHHHH---------------HHHHHhhc
Confidence 45677778888888888876654 333321 22222111 12222222111 11233456
Q ss_pred CCCCHHHHHHHHHHcCCCCCceEE
Q 036966 334 CPLTPEEVGLILRAMGFDNSTKIY 357 (546)
Q Consensus 334 CPLtPeEvgl~LralGf~~~T~IY 357 (546)
.|+|++|...+|+..||..-..+|
T Consensus 207 ~~~~~~~~~~~L~~aGF~~v~~~~ 230 (247)
T PRK15451 207 LTDSVETHKARLHKAGFEHSELWF 230 (247)
T ss_pred ccCCHHHHHHHHHHcCchhHHHHH
Confidence 789999999999999999755444
No 7
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=36.97 E-value=44 Score=31.22 Aligned_cols=96 Identities=15% Similarity=0.123 Sum_probs=55.7
Q ss_pred ccccccchhHHHHHHHHHHHHHhcCCcceecchhhhhHHh----hhcCCCCCCHHHHH--HHHHHHHhhhcccccChHHH
Q 036966 255 YHALRFKPNIMKLSESIVDKLRAEGHFMSIHLRFEMDMLA----FAGCFDIFKPEQQR--ILKKYREENFKEKKLVYKER 328 (546)
Q Consensus 255 f~ALrF~p~I~~Lg~~lV~RLR~~GpfiAlHLR~E~DMLA----fsgC~~~~~~~E~~--eL~~~R~~~w~~k~i~~~~~ 328 (546)
..+|++-++..+.-+.+.+.|+.+|.++-++...+...+. ..-|...+-+...- ...+|++-+
T Consensus 51 ~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~yl~----------- 119 (160)
T PLN02232 51 GYGLRNVVDRLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEYLK----------- 119 (160)
T ss_pred cchhhcCCCHHHHHHHHHHHcCcCeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHhHH-----------
Confidence 3467777888888888888888888887776654332211 01111100000000 000111110
Q ss_pred hcCCCCCCCHHHHHHHHHHcCCCCCceEEEeecc
Q 036966 329 RAIGKCPLTPEEVGLILRAMGFDNSTKIYLAAGE 362 (546)
Q Consensus 329 R~~G~CPLtPeEvgl~LralGf~~~T~IYlAsGe 362 (546)
..... +++|+|+..+|+..||.+-+.-+++.|-
T Consensus 120 ~si~~-f~~~~el~~ll~~aGF~~~~~~~~~~g~ 152 (160)
T PLN02232 120 YSING-YLTGEELETLALEAGFSSACHYEISGGF 152 (160)
T ss_pred HHHHH-CcCHHHHHHHHHHcCCCcceEEECcchH
Confidence 00111 5899999999999999998888888773
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=30.88 E-value=51 Score=30.27 Aligned_cols=29 Identities=31% Similarity=0.343 Sum_probs=16.8
Q ss_pred CCCCCCHHHHHHHHHHcCCCCCceEEEeec
Q 036966 332 GKCPLTPEEVGLILRAMGFDNSTKIYLAAG 361 (546)
Q Consensus 332 G~CPLtPeEvgl~LralGf~~~T~IYlAsG 361 (546)
-.|||++||+...|+++--+ ....||..+
T Consensus 13 pqC~l~ke~~l~~L~~l~~~-~~~~yI~v~ 41 (114)
T PF00799_consen 13 PQCSLTKEEALEQLKNLLTP-SNKKYIRVC 41 (114)
T ss_dssp TT----HHHHHHHHHH---S-S-EEEEEEE
T ss_pred cCCCCCHHHHHHHHHHhCCc-cCceEEEee
Confidence 36999999999999999754 467787666
No 9
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=28.39 E-value=24 Score=26.21 Aligned_cols=38 Identities=18% Similarity=0.498 Sum_probs=25.1
Q ss_pred cchhHHHhCCccccccCCCChhhhcccccchhhhhhHhhhhh
Q 036966 369 FMKPFRALFPHLENHSSVDPSEELVTNTRGLLGSAVDYMVCL 410 (546)
Q Consensus 369 ~l~pL~~~FPnl~tKe~L~~~eEL~~~~~~~~~AALDYiVcl 410 (546)
.+.-|+++||++ +.+.|. .-|.. ..++..+|+|.+.+.
T Consensus 4 ~v~~L~~mFP~~-~~~~I~--~~L~~-~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 4 MVQQLQEMFPDL-DREVIE--AVLQA-NNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHSSSS--HHHHH--HHHHH-TTTTHHHHHHHHHHH
T ss_pred HHHHHHHHCCCC-CHHHHH--HHHHH-cCCCHHHHHHHHHcC
Confidence 367899999996 344442 22322 467888999988764
No 10
>COG4878 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.90 E-value=1.3e+02 Score=32.13 Aligned_cols=146 Identities=11% Similarity=0.051 Sum_probs=83.8
Q ss_pred HHHHHHHHHcCCC-CCceEEEeeccccCCcccchhHHHhCCccccccCCCChhhhccccc--chhhhhhHhhhhhcCccc
Q 036966 339 EEVGLILRAMGFD-NSTKIYLAAGELFGGEKFMKPFRALFPHLENHSSVDPSEELVTNTR--GLLGSAVDYMVCLLSDIF 415 (546)
Q Consensus 339 eEvgl~LralGf~-~~T~IYlAsGeiyGg~~~l~pL~~~FPnl~tKe~L~~~eEL~~~~~--~~~~AALDYiVcl~SDVF 415 (546)
++++.++..|--. -+|.|||+-..+-- +.--..|...||++-|-.++.+.+|+.++.. +.+..+ |.---|=
T Consensus 91 ~~L~~y~~~ls~~~y~~~vfVppSnil~-q~gk~alvk~~p~lktissiy~~deykd~~se~g~~ktg-----~~lPR~t 164 (309)
T COG4878 91 YTLADYGDILSITGYDTFVFVPPSNILL-QKGKFALVKQAPSLKTISSIYNTDEYKDFNSESGIQKTG-----LILPRVT 164 (309)
T ss_pred HHHHHHHHHHhccccceEEEeCcccccc-hhHHHHHHHhCCCcceeeeEecccccCcccchheecccc-----ccccccc
Confidence 3445555555444 56899999998743 4557899999999999999999889877532 333333 1111111
Q ss_pred cccCCCCchhhhhhhhhcccccCceeeccCccchhhhhhcccCCCchhHHHHHHHHHHhccCCCCccCCCCCccccc
Q 036966 416 MPTYDGPSNFANNLLGHRLYYGFRTTIRPDRKGLAPIFIDRENGRTAGFEEAVRHVMLKTNFGGPHKRVPPESFYTN 492 (546)
Q Consensus 416 v~t~~G~sNfa~~V~GhR~y~G~~kTI~Pdrk~l~~lf~~~~~~~~~~f~~~vr~~~~~~~~g~p~~r~~~~sfy~n 492 (546)
-+.|.-.-.+-.++-+--.+--...-+.||-..=.. -+...-.|++...+.+.++++-.-+-|..+....|+++|
T Consensus 165 Sg~y~d~~t~w~~~n~l~~~g~~~hfvHPddvidlD--r~~k~k~Wnel~k~~~sl~~e~k~n~pwL~~~~Asel~n 239 (309)
T COG4878 165 SGSYEDHFTHWLFPNLLQHSGSLEHFVHPDDVIDLD--RDCKVKAWNELSKQLTSLLWEKKYNKPWLLYTNASELAN 239 (309)
T ss_pred cCccchHHHHHHhcchhhcccceeeecCchhhhccc--cCcccccHHHHHHHHHHHHHHHhcCCCeeeeccHHHHHH
Confidence 111111112223333322333345677887542111 011233688888888888876667788777655444444
No 11
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=25.83 E-value=76 Score=33.19 Aligned_cols=72 Identities=21% Similarity=0.231 Sum_probs=48.8
Q ss_pred HHHHHHHHHcCCCCCceEEEeeccccCCcccchhHHHhCCccccccCCCChhhhcccccchhhhhhHhhhhhcCcccccc
Q 036966 339 EEVGLILRAMGFDNSTKIYLAAGELFGGEKFMKPFRALFPHLENHSSVDPSEELVTNTRGLLGSAVDYMVCLLSDIFMPT 418 (546)
Q Consensus 339 eEvgl~LralGf~~~T~IYlAsGeiyGg~~~l~pL~~~FPnl~tKe~L~~~eEL~~~~~~~~~AALDYiVcl~SDVFv~t 418 (546)
.|++..|.+-| ..|.|.+|. ......+-+.+..++.+. |+.+..|.. .+||- ..||.||++
T Consensus 198 ~~l~~~l~~~~----~~Vvl~g~~--~e~e~~~~i~~~~~~~~~---l~~k~sL~e------~~~li----~~a~l~I~~ 258 (334)
T COG0859 198 AELAELLIAKG----YQVVLFGGP--DEEERAEEIAKGLPNAVI---LAGKTSLEE------LAALI----AGADLVIGN 258 (334)
T ss_pred HHHHHHHHHCC----CEEEEecCh--HHHHHHHHHHHhcCCccc---cCCCCCHHH------HHHHH----hcCCEEEcc
Confidence 56788888888 679999987 345556778888887654 444333222 12221 689999999
Q ss_pred CCCCchhhhhh
Q 036966 419 YDGPSNFANNL 429 (546)
Q Consensus 419 ~~G~sNfa~~V 429 (546)
-.|+..+|.++
T Consensus 259 DSg~~HlAaA~ 269 (334)
T COG0859 259 DSGPMHLAAAL 269 (334)
T ss_pred CChHHHHHHHc
Confidence 88876777654
No 12
>PF04561 RNA_pol_Rpb2_2: RNA polymerase Rpb2, domain 2; InterPro: IPR007642 RNA polymerases catalyse the DNA-dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Rpb2 is the second largest subunit of the RNA polymerase. This domain forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the lobe domain []. DNA has been demonstrated to bind to the concave surface of the lobe domain, and plays a role in maintaining the transcription bubble. Many of the bacterial members contain large insertions within this domain, a region known as dispensable region 1 (DRI).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_B 3LTI_A 3IYD_C 3LU0_C 2Y0S_R 1SMY_M 3DXJ_M 3AOI_C 2A68_M 1ZYR_C ....
Probab=25.29 E-value=25 Score=32.76 Aligned_cols=17 Identities=29% Similarity=0.698 Sum_probs=11.6
Q ss_pred HHHHHHHcCCCCCceEE
Q 036966 341 VGLILRAMGFDNSTKIY 357 (546)
Q Consensus 341 vgl~LralGf~~~T~IY 357 (546)
+.++|+|||+.++.-||
T Consensus 54 i~ilLrALG~~sd~eI~ 70 (190)
T PF04561_consen 54 IVILLRALGIESDKEII 70 (190)
T ss_dssp HHHHHHHTT--STCHHH
T ss_pred eEEeehhhcCcCccccc
Confidence 58999999997765544
No 13
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=24.40 E-value=96 Score=28.28 Aligned_cols=70 Identities=16% Similarity=0.190 Sum_probs=31.0
Q ss_pred cchHHHHHHHHHHHHHHhhhccc----ccCCCCCcccccccCccccCCCCCCCCcccCCCCCCCCCCCCCCCCceEE
Q 036966 46 VGKLSIAVVVLLICTLCLLFSAT----TIGGGHGSYSATKINVEELWGSAKSGSWRPSSAPRSVWPPPPQESNGYLR 118 (546)
Q Consensus 46 ~~~~~~~~~~l~~~~~~l~~~~~----~~~~~~~~~~~~~~~~~~lW~~~~~~~~~pc~~~~~~~~~~~~~snGyL~ 118 (546)
+...+|||++.++ ++||++.+. .+-..+-||.++.+.-.+.=...++..-.|-+.+. -+...+..+|||-
T Consensus 16 sW~~LVGVv~~al-~~SlLIalaaKC~~~~k~~~SY~H~rL~e~e~~~~~~g~~~~p~~~~~--~~~~~eDDDGFIE 89 (102)
T PF15176_consen 16 SWPFLVGVVVTAL-VTSLLIALAAKCPVWYKYLASYRHHRLPETEAETYEDGFTENPEVGSQ--IPDTNEDDDGFIE 89 (102)
T ss_pred ccHhHHHHHHHHH-HHHHHHHHHHHhHHHHHHHhccccccCCcccccccccccCCCCCcccc--CCCCCCCCCcccc
Confidence 3344555555444 456666552 23344456776655433222222333333432111 0112245678873
No 14
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=23.85 E-value=80 Score=25.40 Aligned_cols=24 Identities=38% Similarity=0.693 Sum_probs=20.1
Q ss_pred HhcCCCCCCCHHHHHHHHHHcCCCC
Q 036966 328 RRAIGKCPLTPEEVGLILRAMGFDN 352 (546)
Q Consensus 328 ~R~~G~CPLtPeEvgl~LralGf~~ 352 (546)
.+..|. .++++|+..+|+.|||+-
T Consensus 12 ~~llG~-~i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGL-DLSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCC-CCCHHHHHHHHHHCCCeE
Confidence 455675 599999999999999975
No 15
>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=22.67 E-value=61 Score=26.75 Aligned_cols=16 Identities=56% Similarity=0.879 Sum_probs=13.1
Q ss_pred CCCCCCHHHHHHHHHHc
Q 036966 332 GKCPLTPEEVGLILRAM 348 (546)
Q Consensus 332 G~CPLtPeEvgl~Lral 348 (546)
|-| +||||-+.+++++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 345 9999999999875
Done!