Query 008884
Match_columns 550
No_of_seqs 210 out of 411
Neff 4.4
Searched_HMMs 46136
Date Thu Mar 28 17:47:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008884.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008884hhsearch_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 4.5E-55 9.7E-60 444.1 3.8 304 159-489 6-345 (351)
2 KOG3849 GDP-fucose protein O-f 98.0 3.4E-05 7.3E-10 79.3 10.7 282 150-488 27-369 (386)
3 PF05830 NodZ: Nodulation prot 94.9 0.55 1.2E-05 49.7 13.5 256 152-478 2-290 (321)
4 PF05915 DUF872: Eukaryotic pr 44.3 42 0.00091 30.9 4.8 20 72-91 41-60 (115)
5 PF13808 DDE_Tnp_1_assoc: DDE_ 39.8 28 0.00061 30.1 2.9 34 60-94 7-40 (90)
6 PLN02232 ubiquinone biosynthes 36.8 1.4E+02 0.0029 28.0 7.2 29 386-414 125-153 (160)
7 PF00799 Gemini_AL1: Geminivir 35.6 40 0.00087 31.0 3.3 31 384-415 14-44 (114)
8 PF14771 DUF4476: Domain of un 33.7 28 0.0006 30.1 1.9 36 386-436 39-74 (95)
9 COG0763 LpxB Lipid A disacchar 32.0 68 0.0015 35.3 4.8 89 405-493 2-115 (381)
10 PF10892 DUF2688: Protein of u 30.2 37 0.0008 28.0 1.9 16 383-399 42-57 (60)
11 PRK10556 hypothetical protein; 27.0 42 0.00092 30.5 1.9 26 387-416 3-28 (111)
12 PF08497 Radical_SAM_N: Radica 25.3 1.9E+02 0.0042 31.0 6.6 94 386-501 3-115 (302)
13 smart00874 B5 tRNA synthetase 23.5 79 0.0017 25.4 2.8 26 377-403 10-35 (71)
14 PF09400 DUF2002: Protein of u 22.9 40 0.00087 30.9 1.0 26 387-416 3-28 (111)
15 PF02845 CUE: CUE domain; Int 22.0 54 0.0012 24.3 1.4 38 420-462 4-41 (42)
16 KOG3705 Glycoprotein 6-alpha-L 21.7 3.8E+02 0.0083 30.3 8.1 66 402-475 404-476 (580)
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=4.5e-55 Score=444.13 Aligned_cols=304 Identities=36% Similarity=0.647 Sum_probs=207.1
Q ss_pred ecCChhhHHHHHHHHHHHHHHhCceEeeccccCCccccCCCC-----CCccccHHHHHHHhcccceeeccCCcccccccc
Q 008884 159 AEGGLNQQRIAICNAVAVAKIMNATLILPVLKQDQIWKDQTK-----FEDIFDVDHFIDYLKDDVRIVRDIPDWFTDKSE 233 (550)
Q Consensus 159 ~nGGLNqqR~~IcDaVaVAriLNATLVlP~L~~~s~WkD~S~-----F~dIFDvdhFI~sL~~dVrIVk~LP~~~~~~~~ 233 (550)
+.||+||||.++++||++|++||+|||||.+.....|++.++ |+++||+++|++.++++|.+.+.+|..+.....
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 789999999999999999999999999999999999999887 999999999999999999999998865543211
Q ss_pred hh---------------h---------cccccccccCC-CCCchhhhhhcccccccc------ceeEEcccccccCCCCC
Q 008884 234 LF---------------S---------SIRRTVKNIPK-YAPAQFYIDNVLPRIKEK------KIMALKPFVDRLGYDNV 282 (550)
Q Consensus 234 ~~---------------~---------~i~~~~~~~p~-~s~~~yY~~~vlP~l~~~------~Vi~l~~f~~rLa~d~l 282 (550)
.. + ........... |+.+.+|+++++|.+.++ +|+.|.++...+..+.+
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 00 0 00001112233 788889999999999886 99999999999998878
Q ss_pred CccccccceeecccccccchHHHHHHHHHHHHHHhhcCCCCCcEEEeecccccccccccccCCCCHHHHHHHHHHHhhhc
Q 008884 283 PPEINRLRCRVNYHALKFLPEIEQMSDLLASRMKNRTGSSNPYMALHLRFEKGMVGLSFCDFVGTREEKAKMAEYRKKEW 362 (550)
Q Consensus 283 P~eiQrLRCrvnf~ALrF~~~I~~lg~kLV~RmR~~s~~~~pfiAlHLRfE~DMlAfSgC~~~g~~~E~~eL~~~R~~~W 362 (550)
+.++|| +|+|+++|+++|++++++|+. .+++|||+|||+|+|| +++|.+++ ++..|+.+|..
T Consensus 166 ~~~~~r--------~l~~~~~i~~~a~~~i~~~~~---~~~~yiavHlR~~~D~--~~~C~~~~---~~~~~~~~~~~-- 227 (351)
T PF10250_consen 166 DRDLQR--------YLRFSPEIRELADKFIKRLLA---GGGPYIAVHLRRGKDW--FSACEFKG---ERHLLASPRCW-- 227 (351)
T ss_dssp GGGGGG--------G--B-HHHHHHHHHHHHHH-------SSEEEEEE--SHHH--HHHHCT-T-------TTTHHHH--
T ss_pred CccceE--------EEecCHHHHHHHHHHHHHhhc---ccCceEEEeecccCch--HhhcccCC---chHHHHHhHhh--
Confidence 899987 999999999999999999993 2589999999999999 89999955 67778777763
Q ss_pred cccccCCCchhhhHHhhhcCCCCCCChHHHHHHHHHhCCCCCcEEEEEeccccCcccchhhHHHhCCCcccccccCCHHH
Q 008884 363 PRRYKNGSHLWQLALQKRKEGRCPLEPGEVAVILRAMGYPKETQIYVASGQVYGGQNRMAPLRNMFPNLVTKEELASQEE 442 (550)
Q Consensus 363 ~~k~~~~~~~~~~~~~~R~~G~CPLtPeEvgl~LrALGf~~~T~IYlAsGeiyGG~~~l~pLr~~FPnl~tKe~L~s~eE 442 (550)
.++..+ +...+..|.||++|++++.+++++|+.+.|.||||++++|||.+.|++|+++||++++|+++.+.+|
T Consensus 228 ~~~~~~-------~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~ 300 (351)
T PF10250_consen 228 GKKSIN-------PEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIYGGERRLDPLKNMFPNVVTKDDLLSHEE 300 (351)
T ss_dssp -GGGTT------------HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS-----------HHHHHHHHGGGT--EE--
T ss_pred cccccc-------chhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCcccccchhHHHHHHHhhhhEeccccCCHHH
Confidence 111111 3457788999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhccccchhhhhhhhhccccceeecCCCchHHHHhHhhhhcCCc
Q 008884 443 LAGFRKHVTSLAALDFLVCLKSDVFVMTHGGNFAKLIIGARRYMGHR 489 (550)
Q Consensus 443 L~~f~~~ss~~AALDYiVcl~SDVFv~t~~GNfa~~V~GhR~y~G~~ 489 (550)
+++|.+ +++|+||++||++||+||+|..++|+.+|+++|.|.|+.
T Consensus 301 ~~~~~~--~~~a~vD~~i~~~s~~Figt~~Stfs~~i~~~R~~~g~~ 345 (351)
T PF10250_consen 301 LEPLND--DQLAMVDQEICSRSDVFIGTCGSTFSSNIARERHYRGKP 345 (351)
T ss_dssp S-------S--HHHHHHHHHHSSEEEE-TT-HHHHHHHHHHHHSSSS
T ss_pred hhhccc--cchhHHHHHHHhcCCEEEecCcchhHHHhhcccCcCCCC
Confidence 999877 889999999999999999999889999999999999964
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=98.02 E-value=3.4e-05 Score=79.29 Aligned_cols=282 Identities=18% Similarity=0.307 Sum_probs=146.4
Q ss_pred CCCceEEE-eecCChhhHHHHHHHHHHHHHHhCceEeecccc---CCccccCCCCCCccccHHHHHHHhcccceeec---
Q 008884 150 ETNGYIFI-HAEGGLNQQRIAICNAVAVAKIMNATLILPVLK---QDQIWKDQTKFEDIFDVDHFIDYLKDDVRIVR--- 222 (550)
Q Consensus 150 ~snGYl~V-~~nGGLNqqR~~IcDaVaVAriLNATLVlP~L~---~~s~WkD~S~F~dIFDvdhFI~sL~~dVrIVk--- 222 (550)
..||||+. -|-|-+.+|-....-..|.|+.||.|||+|-.- +-.+=+---.|...|.++- |+..-|||.
T Consensus 27 DP~GYl~yCPCMGRFGNQaDhFLGsLAFAKaLnRTL~lPpwiEy~~pe~~n~~vpf~~yF~vep----l~~YhRVitm~d 102 (386)
T KOG3849|consen 27 DPAGYLLYCPCMGRFGNQADHFLGSLAFAKALNRTLVLPPWIEYKHPETKNLMVPFEFYFQVEP----LAKYHRVITMQD 102 (386)
T ss_pred CCCccEEEccccccccchHHHHHHHHHHHHHhcccccCCcchhccCCcccccccchhheeeccc----HhhhhhheeHHH
Confidence 47999988 799999999999999999999999999999642 2211111237888888753 222223331
Q ss_pred ---cC-Cccccc--ccch--hhccc--cccccc---------CCC-------CCchhhh------hh------cccc--c
Q 008884 223 ---DI-PDWFTD--KSEL--FSSIR--RTVKNI---------PKY-------APAQFYI------DN------VLPR--I 262 (550)
Q Consensus 223 ---~L-P~~~~~--~~~~--~~~i~--~~~~~~---------p~~-------s~~~yY~------~~------vlP~--l 262 (550)
.| |..... +..+ .++.. +.-... |-| ....||- .+ -+.+ -
T Consensus 103 Fm~klapthwp~~~Rva~c~k~a~qr~pdkp~Ch~KeGNPFGPfWDqfhvsFv~sE~f~~i~Fd~~~~~~~~kW~~kfp~ 182 (386)
T KOG3849|consen 103 FMKKLAPTHWPGTPRVAICDKSAAQRSPDKPGCHSKEGNPFGPFWDQFHVSFVGSEYFGDIGFDLNQMGSRKKWLEKFPS 182 (386)
T ss_pred HHHHhCcccCCCCcceeeeehhhhccCCCCCCCcccCCCCCCCchhheEeeeeccccccccccchhhcchHHHHHhhCCc
Confidence 11 111100 0000 00000 000000 112 1111110 00 0111 1
Q ss_pred cccceeEEcccccccC--CCCCCccccccceeecccccccchHHHHHHHHHHHHHHhhcCCCCCcEEEeecccccccccc
Q 008884 263 KEKKIMALKPFVDRLG--YDNVPPEINRLRCRVNYHALKFLPEIEQMSDLLASRMKNRTGSSNPYMALHLRFEKGMVGLS 340 (550)
Q Consensus 263 ~~~~Vi~l~~f~~rLa--~d~lP~eiQrLRCrvnf~ALrF~~~I~~lg~kLV~RmR~~s~~~~pfiAlHLRfE~DMlAfS 340 (550)
++|-|+.|++.-...- .+.+ .||| -|+.+.+|.+.|++.+.- . ...||+++|||...||+.-
T Consensus 183 eeyPVLAf~gAPA~FPv~~e~~--~lQk--------Yl~WS~r~~e~~k~fI~a---~--L~rpfvgiHLRng~DWvra- 246 (386)
T KOG3849|consen 183 EEYPVLAFSGAPAPFPVKGEVW--SLQK--------YLRWSSRITEQAKKFISA---N--LARPFVGIHLRNGADWVRA- 246 (386)
T ss_pred ccCceeeecCCCCCCccccccc--cHHH--------HHHHHHHHHHHHHHHHHH---h--cCcceeEEEeecCchHHHH-
Confidence 3566666653111000 0112 2343 389999999999887543 2 2569999999999999854
Q ss_pred cccCCCCHHHHHHHHHHHhhhccccccCCCchhhhH---HhhhcCC-----CCCCChHHHHHHH-HHhCCCCC-cEEEEE
Q 008884 341 FCDFVGTREEKAKMAEYRKKEWPRRYKNGSHLWQLA---LQKRKEG-----RCPLEPGEVAVIL-RAMGYPKE-TQIYVA 410 (550)
Q Consensus 341 gC~~~g~~~E~~eL~~~R~~~W~~k~~~~~~~~~~~---~~~R~~G-----~CPLtPeEvgl~L-rALGf~~~-T~IYlA 410 (550)
|.+--. ..++|+...+ ...+..| .|-=+-+||-.-+ +..|-=.+ -.+|+|
T Consensus 247 -Cehikd-------------------~~~~hlfASpQClGy~~~~gaLt~e~C~Psk~~I~rqik~~v~si~dakSVfVA 306 (386)
T KOG3849|consen 247 -CEHIKD-------------------TTNRHLFASPQCLGYGHHLGALTKEICSPSKQQILRQIKEKVGSIGDAKSVFVA 306 (386)
T ss_pred -HHHhcc-------------------cCCCccccChhhccccccccccchhhhCccHHHHHHHHHHHHhhhcccceEEEe
Confidence 754110 0112221111 0112222 3433334432111 12222212 368999
Q ss_pred eccccCcccchh-hHH-HhCCCcccccccCCHHHHhhhhccccchhhhhhhhhccccceeecCCCchHHHHhHhhhhcCC
Q 008884 411 SGQVYGGQNRMA-PLR-NMFPNLVTKEELASQEELAGFRKHVTSLAALDFLVCLKSDVFVMTHGGNFAKLIIGARRYMGH 488 (550)
Q Consensus 411 sGeiyGG~~~l~-pLr-~~FPnl~tKe~L~s~eEL~~f~~~ss~~AALDYiVcl~SDVFv~t~~GNfa~~V~GhR~y~G~ 488 (550)
+-. ..|. -|. +++|-=+.-..| +| --+-+|..|.-+||.||++--++|+..|.-.|-..|.
T Consensus 307 sDs-----~hmi~Eln~aL~~~~i~vh~l------~p------dd~y~dLaIlGqadhFiGNCvSsfsafvKRERD~~Gr 369 (386)
T KOG3849|consen 307 SDS-----DHMIDELNEALKPYEIEVHRL------EP------DDMYTDLAILGQADHFIGNCVSSFSAFVKRERDHAGR 369 (386)
T ss_pred ccc-----hhhhHHHHHhhcccceeEEec------Cc------ccchhhhhhhcccchhhhhhHHHHHHHHhhhhcccCC
Confidence 865 2332 222 222211111111 00 1356899999999999999999999999999988874
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=94.85 E-value=0.55 Score=49.73 Aligned_cols=256 Identities=16% Similarity=0.278 Sum_probs=119.1
Q ss_pred CceEEEeecCChhhHHHHHHHHHHHHHHhCceEeeccccCCccccCC----CCCCccccHHHHHHHhc--ccceeeccCC
Q 008884 152 NGYIFIHAEGGLNQQRIAICNAVAVAKIMNATLILPVLKQDQIWKDQ----TKFEDIFDVDHFIDYLK--DDVRIVRDIP 225 (550)
Q Consensus 152 nGYl~V~~nGGLNqqR~~IcDaVaVAriLNATLVlP~L~~~s~WkD~----S~F~dIFDvdhFI~sL~--~dVrIVk~LP 225 (550)
+.|++.+--+|+|.-=-+++-|-.+|+-.|.||||= |+++ ..|...|++ |-+-.+ ..|+|+-.-+
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 568888999999999999999999999999999994 6763 466666654 444444 2344441100
Q ss_pred cccccccchhhcccccccccCCC-CCch---------h-hhh--hcccccc------ccceeEEcccccccCCCCCCccc
Q 008884 226 DWFTDKSELFSSIRRTVKNIPKY-APAQ---------F-YID--NVLPRIK------EKKIMALKPFVDRLGYDNVPPEI 286 (550)
Q Consensus 226 ~~~~~~~~~~~~i~~~~~~~p~~-s~~~---------y-Y~~--~vlP~l~------~~~Vi~l~~f~~rLa~d~lP~ei 286 (550)
+.+. +... .-+|.| -.+. + +.| ++--+++ ..-||...=+.++=. .
T Consensus 73 --i~~~-----~~~g--~~fp~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~~~~c~-----~-- 136 (321)
T PF05830_consen 73 --INQF-----SFPG--PFFPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWRCD-----E-- 136 (321)
T ss_dssp --GGT---------S--SEESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTSS------H--
T ss_pred --hhhh-----cCCC--CcChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCcch-----h--
Confidence 0000 0000 011222 1111 1 111 1111122 344666654433321 1
Q ss_pred cccceeecccccccchHHHHHHHHHHHHHHhhcCCCCCcEEEeeccc--ccccccccccCCCCHHHHHHHHHHHhhhccc
Q 008884 287 NRLRCRVNYHALKFLPEIEQMSDLLASRMKNRTGSSNPYMALHLRFE--KGMVGLSFCDFVGTREEKAKMAEYRKKEWPR 364 (550)
Q Consensus 287 QrLRCrvnf~ALrF~~~I~~lg~kLV~RmR~~s~~~~pfiAlHLRfE--~DMlAfSgC~~~g~~~E~~eL~~~R~~~W~~ 364 (550)
+.. |--|..|+-+++|++..+.+...-=. +..=|++|-|.- +|.+.+ +|++ .+++..|.+..
T Consensus 137 ~ae--R~if~slkpR~eIqarID~iy~ehf~----g~~~IGVHVRhGngeD~~~h-~~~~---~D~e~~L~~V~------ 200 (321)
T PF05830_consen 137 EAE--REIFSSLKPRPEIQARIDAIYREHFA----GYSVIGVHVRHGNGEDIMDH-APYW---ADEERALRQVC------ 200 (321)
T ss_dssp HHH--HHHHHHS-B-HHHHHHHHHHHHHHTT----TSEEEEEEE-------------------HHHHHHHHHHH------
T ss_pred HHH--HHHHHhCCCCHHHHHHHHHHHHHHcC----CCceEEEEEeccCCcchhcc-Cccc---cCchHHHHHHH------
Confidence 112 33488999999999999998655311 245799999932 333333 2322 11111111100
Q ss_pred cccCCCchhhhHHhhhcCCCCCCChHHHHHHHHHhCCCCCcEEEEEeccccCcccchhhHHHhCCCcccccccCCHHHHh
Q 008884 365 RYKNGSHLWQLALQKRKEGRCPLEPGEVAVILRAMGYPKETQIYVASGQVYGGQNRMAPLRNMFPNLVTKEELASQEELA 444 (550)
Q Consensus 365 k~~~~~~~~~~~~~~R~~G~CPLtPeEvgl~LrALGf~~~T~IYlAsGeiyGG~~~l~pLr~~FPnl~tKe~L~s~eEL~ 444 (550)
.....++++-...++.|+||+-. .+.++-+++.||.+++-+.=..+..-.
T Consensus 201 --------------------------~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g 250 (321)
T PF05830_consen 201 --------------------------TAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAG 250 (321)
T ss_dssp --------------------------HHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE------------
T ss_pred --------------------------HHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCC
Confidence 01122344555678899999987 367889999999988775533221111
Q ss_pred hhhc-----cccchhhhhhhhhcccccee-ecCCCchHHH
Q 008884 445 GFRK-----HVTSLAALDFLVCLKSDVFV-MTHGGNFAKL 478 (550)
Q Consensus 445 ~f~~-----~ss~~AALDYiVcl~SDVFv-~t~~GNfa~~ 478 (550)
++.+ ..-..|-||-+...++|+-| .+-.+.|...
T Consensus 251 ~Lhs~~~g~~gg~~ALIDM~LLSrCD~LIr~~ptS~Fsr~ 290 (321)
T PF05830_consen 251 PLHSAAVGIEGGESALIDMYLLSRCDYLIRFPPTSAFSRY 290 (321)
T ss_dssp ----HHHHHHHHHHHHHHHHHHTTSSEEEEESTT-GGGHH
T ss_pred cCcccccccchHHHHHHHHHHHHhCCeEEEcCCCchhhhH
Confidence 1111 11135889999999999999 5555555543
No 4
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=44.33 E-value=42 Score=30.88 Aligned_cols=20 Identities=30% Similarity=0.546 Sum_probs=15.5
Q ss_pred chHHHHHHHHHHHHHHHHhH
Q 008884 72 RISLCLALFVVVAGLISILS 91 (550)
Q Consensus 72 ~~~~~~~~~l~~~~~~~~~~ 91 (550)
...+++.++||++|++.+..
T Consensus 41 wK~I~la~~Lli~G~~li~~ 60 (115)
T PF05915_consen 41 WKSIALAVFLLIFGTVLIII 60 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 56788888899988885554
No 5
>PF13808 DDE_Tnp_1_assoc: DDE_Tnp_1-associated
Probab=39.76 E-value=28 Score=30.09 Aligned_cols=34 Identities=18% Similarity=0.247 Sum_probs=25.1
Q ss_pred ccCCccccccccchHHHHHHHHHHHHHHHHhHhhc
Q 008884 60 VSDDPRVSQQNSRISLCLALFVVVAGLISILSIVN 94 (550)
Q Consensus 60 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~ 94 (550)
..+|||+.+ ..+++|...+++.++|++|=-.-|.
T Consensus 7 ~i~DpR~~~-~~ry~L~~iL~i~~~a~l~G~~~~~ 40 (90)
T PF13808_consen 7 QIPDPRSRR-GRRYPLADILLIALCAVLCGADSWR 40 (90)
T ss_pred CCCCCcccC-CceecHHHHHHHHHHHHHHccccHH
Confidence 478999955 6777888888888888886555433
No 6
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=36.77 E-value=1.4e+02 Score=28.01 Aligned_cols=29 Identities=14% Similarity=0.257 Sum_probs=25.6
Q ss_pred CCChHHHHHHHHHhCCCCCcEEEEEeccc
Q 008884 386 PLEPGEVAVILRAMGYPKETQIYVASGQV 414 (550)
Q Consensus 386 PLtPeEvgl~LrALGf~~~T~IYlAsGei 414 (550)
+++|+|+..+|+..||.+-+.-+++.|-.
T Consensus 125 f~~~~el~~ll~~aGF~~~~~~~~~~g~~ 153 (160)
T PLN02232 125 YLTGEELETLALEAGFSSACHYEISGGFM 153 (160)
T ss_pred CcCHHHHHHHHHHcCCCcceEEECcchHh
Confidence 58999999999999999998888887754
No 7
>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=35.57 E-value=40 Score=31.00 Aligned_cols=31 Identities=19% Similarity=0.346 Sum_probs=17.6
Q ss_pred CCCCChHHHHHHHHHhCCCCCcEEEEEecccc
Q 008884 384 RCPLEPGEVAVILRAMGYPKETQIYVASGQVY 415 (550)
Q Consensus 384 ~CPLtPeEvgl~LrALGf~~~T~IYlAsGeiy 415 (550)
+|||+|||+...|+++--+ ....||..++-+
T Consensus 14 qC~l~ke~~l~~L~~l~~~-~~~~yI~v~rE~ 44 (114)
T PF00799_consen 14 QCSLTKEEALEQLKNLLTP-SNKKYIRVCREL 44 (114)
T ss_dssp T----HHHHHHHHHH---S-S-EEEEEEEEEE
T ss_pred CCCCCHHHHHHHHHHhCCc-cCceEEEeeccc
Confidence 6999999999999999754 467788666433
No 8
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=33.66 E-value=28 Score=30.07 Aligned_cols=36 Identities=17% Similarity=0.433 Sum_probs=32.4
Q ss_pred CCChHHHHHHHHHhCCCCCcEEEEEeccccCcccchhhHHHhCCCcccccc
Q 008884 386 PLEPGEVAVILRAMGYPKETQIYVASGQVYGGQNRMAPLRNMFPNLVTKEE 436 (550)
Q Consensus 386 PLtPeEvgl~LrALGf~~~T~IYlAsGeiyGG~~~l~pLr~~FPnl~tKe~ 436 (550)
++|-.+++-+|+-..|+ ..+|+.|+.++|++++++.
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 49999999999999998 3479999999999999974
No 9
>COG0763 LpxB Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]
Probab=31.97 E-value=68 Score=35.31 Aligned_cols=89 Identities=21% Similarity=0.360 Sum_probs=62.0
Q ss_pred cEEEEEeccccC---cccchhhHHHhCCCcc------------cccccCCHHHHhhh--h----c----cccchhhhhhh
Q 008884 405 TQIYVASGQVYG---GQNRMAPLRNMFPNLV------------TKEELASQEELAGF--R----K----HVTSLAALDFL 459 (550)
Q Consensus 405 T~IYlAsGeiyG---G~~~l~pLr~~FPnl~------------tKe~L~s~eEL~~f--~----~----~ss~~AALDYi 459 (550)
.+|+|.+||.=| |..-+..||+.+|++. --++|...+|++-. . . ..-+...+-|+
T Consensus 2 ~ki~i~AGE~SGDllGa~LikaLk~~~~~~efvGvgG~~m~aeG~~sl~~~~elsvmGf~EVL~~lp~llk~~~~~~~~i 81 (381)
T COG0763 2 LKIALSAGEASGDLLGAGLIKALKARYPDVEFVGVGGEKMEAEGLESLFDMEELSVMGFVEVLGRLPRLLKIRRELVRYI 81 (381)
T ss_pred ceEEEEecccchhhHHHHHHHHHHhhCCCeEEEEeccHHHHhccCccccCHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 368888877665 5567889999998652 34455555666431 0 0 11234567789
Q ss_pred hhccccceeecCCCchHHHHhHhhhhcCCccccc
Q 008884 460 VCLKSDVFVMTHGGNFAKLIIGARRYMGHRYKSI 493 (550)
Q Consensus 460 Vcl~SDVFv~t~~GNfa~~V~GhR~y~G~~~kTI 493 (550)
+..+-|+||.-..+.|---|+..=+-.|.+.|+|
T Consensus 82 ~~~kpD~~i~IDsPdFnl~vak~lrk~~p~i~ii 115 (381)
T COG0763 82 LANKPDVLILIDSPDFNLRVAKKLRKAGPKIKII 115 (381)
T ss_pred HhcCCCEEEEeCCCCCchHHHHHHHHhCCCCCeE
Confidence 9999999999999989888887777777545665
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=30.18 E-value=37 Score=28.01 Aligned_cols=16 Identities=44% Similarity=0.744 Sum_probs=13.8
Q ss_pred CCCCCChHHHHHHHHHh
Q 008884 383 GRCPLEPGEVAVILRAM 399 (550)
Q Consensus 383 G~CPLtPeEvgl~LrAL 399 (550)
|-| +||||-+.+++++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 567 9999999999875
No 11
>PRK10556 hypothetical protein; Provisional
Probab=27.00 E-value=42 Score=30.54 Aligned_cols=26 Identities=35% Similarity=0.689 Sum_probs=20.7
Q ss_pred CChHHHHHHHHHhCCCCCcEEEEEeccccC
Q 008884 387 LEPGEVAVILRAMGYPKETQIYVASGQVYG 416 (550)
Q Consensus 387 LtPeEvgl~LrALGf~~~T~IYlAsGeiyG 416 (550)
|-|.||+.+|...||..++. +-+.||
T Consensus 3 LRPDEVArVLe~aGF~~D~v----t~~aYG 28 (111)
T PRK10556 3 LRPDEVARVLEKAGFTVDVV----TQKAYG 28 (111)
T ss_pred cChHHHHHHHHhcCceEEEe----echhcc
Confidence 67999999999999986653 345665
No 12
>PF08497 Radical_SAM_N: Radical SAM N-terminal; InterPro: IPR013704 This domain tends to occur to the N terminus of PF04055 from PFAM radical SAM domain in hypothetical bacterial proteins. Proteins in this entry are radical SAM proteins, they catalyse diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].
Probab=25.33 E-value=1.9e+02 Score=30.98 Aligned_cols=94 Identities=24% Similarity=0.441 Sum_probs=59.9
Q ss_pred CCChHHHHHHHHHhCCCCCcEEEEEeccccCcccchhhHHHhCCCcccccccCCH---HHH--hhhhc----cccchhhh
Q 008884 386 PLEPGEVAVILRAMGYPKETQIYVASGQVYGGQNRMAPLRNMFPNLVTKEELASQ---EEL--AGFRK----HVTSLAAL 456 (550)
Q Consensus 386 PLtPeEvgl~LrALGf~~~T~IYlAsGeiyGG~~~l~pLr~~FPnl~tKe~L~s~---eEL--~~f~~----~ss~~AAL 456 (550)
|.|.+|+ +++|.+.--.|+| +|+.| +++-+...+ -=| +-|+= ..+-...-
T Consensus 3 P~t~~em----~~rGWd~lDvilV-tGDAY----------------VDHPsFG~AiIgR~Le~~GyrVgIiaQPdw~~~~ 61 (302)
T PF08497_consen 3 PTTREEM----KARGWDELDVILV-TGDAY----------------VDHPSFGAAIIGRVLEAHGYRVGIIAQPDWRSPE 61 (302)
T ss_pred CCCHHHH----HHcCCccccEEEE-eCccc----------------ccCcchhHHHHHHHHHHcCCeEEEEeCCCCCChH
Confidence 7788887 7899987777766 56766 333333322 111 11110 11112456
Q ss_pred hhhhhccccceeecCCCchHHHHhH-----hhh----hc-CCcccccccChhhhh
Q 008884 457 DFLVCLKSDVFVMTHGGNFAKLIIG-----ARR----YM-GHRYKSIKPDKGLMS 501 (550)
Q Consensus 457 DYiVcl~SDVFv~t~~GNfa~~V~G-----hR~----y~-G~~~kTIrPdkk~l~ 501 (550)
||...-+--.|++...|||.++|.- +|| |. |.+ --.||||..++
T Consensus 62 df~~lG~PrLff~VsaGn~DSMV~hYTa~kk~R~~DaYtPGG~-~g~RPDRAtiV 115 (302)
T PF08497_consen 62 DFKRLGRPRLFFGVSAGNMDSMVNHYTASKKRRSDDAYTPGGK-AGRRPDRATIV 115 (302)
T ss_pred HHHHhCCCcEEEEEccccHHHHHHhhccccccccccCCCCCCC-CCCCCCchhhH
Confidence 8888889999999999999999863 333 32 544 36899997664
No 13
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=23.51 E-value=79 Score=25.44 Aligned_cols=26 Identities=27% Similarity=0.368 Sum_probs=21.4
Q ss_pred HhhhcCCCCCCChHHHHHHHHHhCCCC
Q 008884 377 LQKRKEGRCPLEPGEVAVILRAMGYPK 403 (550)
Q Consensus 377 ~~~R~~G~CPLtPeEvgl~LrALGf~~ 403 (550)
...+..|.. ++++|+.-+|+.|||+-
T Consensus 10 ~i~~llG~~-i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 10 RINRLLGLD-LSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHHHCCC-CCHHHHHHHHHHCCCeE
Confidence 345667764 99999999999999974
No 14
>PF09400 DUF2002: Protein of unknown function (DUF2002); InterPro: IPR018994 This entry represents a group of putative cytoplasmic proteins. The structure of these proteins form an antiparallel beta sheet and contain some alpha helical regions. ; PDB: 2G7J_A.
Probab=22.94 E-value=40 Score=30.93 Aligned_cols=26 Identities=35% Similarity=0.727 Sum_probs=18.0
Q ss_pred CChHHHHHHHHHhCCCCCcEEEEEeccccC
Q 008884 387 LEPGEVAVILRAMGYPKETQIYVASGQVYG 416 (550)
Q Consensus 387 LtPeEvgl~LrALGf~~~T~IYlAsGeiyG 416 (550)
|-|.||+.+|...||..+.. +-+.||
T Consensus 3 lrpdeva~vle~~gf~~d~v----~~~ayg 28 (111)
T PF09400_consen 3 LRPDEVARVLEKAGFERDYV----TDKAYG 28 (111)
T ss_dssp --HHHHHHHHHHTT-EEEEE----ETTEEE
T ss_pred cChHHHHHHHHhcCceEEEe----eccccc
Confidence 67999999999999986643 345565
No 15
>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=21.98 E-value=54 Score=24.33 Aligned_cols=38 Identities=29% Similarity=0.440 Sum_probs=23.1
Q ss_pred chhhHHHhCCCcccccccCCHHHHhhhhccccchhhhhhhhhc
Q 008884 420 RMAPLRNMFPNLVTKEELASQEELAGFRKHVTSLAALDFLVCL 462 (550)
Q Consensus 420 ~l~pLr~~FPnl~tKe~L~s~eEL~~f~~~ss~~AALDYiVcl 462 (550)
.+.-|+++||++ +.+.|. .-|. .+..+..+|+|.+.+.
T Consensus 4 ~v~~L~~mFP~~-~~~~I~--~~L~--~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 4 MVQQLQEMFPDL-DREVIE--AVLQ--ANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHSSSS--HHHHH--HHHH--HTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHCCCC-CHHHHH--HHHH--HcCCCHHHHHHHHHcC
Confidence 467899999984 333321 2221 2456678899887653
No 16
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=21.66 E-value=3.8e+02 Score=30.27 Aligned_cols=66 Identities=26% Similarity=0.347 Sum_probs=42.0
Q ss_pred CCCcEEEEEeccccCcccchhhHHHhCCCcccccccCCHHHHhhhhcccc------c-hhhhhhhhhccccceeecCCCc
Q 008884 402 PKETQIYVASGQVYGGQNRMAPLRNMFPNLVTKEELASQEELAGFRKHVT------S-LAALDFLVCLKSDVFVMTHGGN 474 (550)
Q Consensus 402 ~~~T~IYlAsGeiyGG~~~l~pLr~~FPnl~tKe~L~s~eEL~~f~~~ss------~-~AALDYiVcl~SDVFv~t~~GN 474 (550)
+-.-+||||+-+. ..+.--|.-|||. .+.+..|.+.-..-.+ . ---+|..+.+.+|..|.|.++.
T Consensus 404 ~~~rRiflAsDDp----~vv~EAk~kYPnY----e~igd~eia~~A~l~nRYTd~sL~GvIlDIh~LS~~d~LVCTFSSQ 475 (580)
T KOG3705|consen 404 PLERRIFLASDDP----TVVPEAKNKYPNY----EVIGDTEIAKTAQLNNRYTDASLMGVILDIHILSKVDYLVCTFSSQ 475 (580)
T ss_pred chhheEEEecCCc----hhchHhhccCCCc----EEeccHHHHHHhhccccchhhhhhheeeeeeeecccceEEEechHH
Confidence 3345899999885 4566778889985 3445566655433221 2 2346777777788877776654
Q ss_pred h
Q 008884 475 F 475 (550)
Q Consensus 475 f 475 (550)
.
T Consensus 476 V 476 (580)
T KOG3705|consen 476 V 476 (580)
T ss_pred H
Confidence 3
Done!