Query 008992
Match_columns 547
No_of_seqs 186 out of 418
Neff 4.3
Searched_HMMs 46136
Date Thu Mar 28 19:05:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008992.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008992hhsearch_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 1.4E-55 3.1E-60 445.9 3.7 296 165-479 6-345 (351)
2 KOG3849 GDP-fucose protein O-f 97.9 0.0002 4.4E-09 73.8 14.6 281 156-478 27-369 (386)
3 PF05830 NodZ: Nodulation prot 96.4 0.14 3E-06 54.1 16.1 251 158-468 2-290 (321)
4 PLN02232 ubiquinone biosynthes 46.6 44 0.00096 31.2 5.5 98 291-404 48-153 (160)
5 PF00799 Gemini_AL1: Geminivir 34.7 41 0.00089 30.9 3.2 29 374-403 14-42 (114)
6 KOG3705 Glycoprotein 6-alpha-L 33.0 90 0.0019 34.9 5.9 146 296-487 340-492 (580)
7 PF10892 DUF2688: Protein of u 28.8 40 0.00086 27.9 1.8 16 373-389 42-57 (60)
8 PF14771 DUF4476: Domain of un 27.9 30 0.00065 29.8 1.1 37 376-427 39-75 (95)
9 smart00874 B5 tRNA synthetase 25.5 63 0.0014 26.0 2.5 24 369-393 12-35 (71)
10 PF09851 SHOCT: Short C-termin 21.5 1.4E+02 0.003 21.3 3.3 24 487-510 6-29 (31)
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=1.4e-55 Score=445.92 Aligned_cols=296 Identities=31% Similarity=0.506 Sum_probs=205.2
Q ss_pred EcCchhhHHHHHHHHHHHHHHhCCeEeccccccccccCCCCC-----CcCCCChHHHHHhccCCcEEeccCcccccccCC
Q 008992 165 VSGGMNQQRNQIVDAVVIARILGAALVVPILQVNVIWGDESE-----FSDIFDLEHFKSVLANDVRIVSSLPSTHIMTRP 239 (547)
Q Consensus 165 ~nGGLNQqR~~IcDaVaVARiLNATLVlP~L~~~s~W~D~S~-----F~DIFD~dhFI~~L~~dVrIVk~LP~~~~~~~~ 239 (547)
+.||+||||.++++||++|++||+|||||.+.....|++.++ |+++||+++|++.++.+|.+.+.+|........
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 789999999999999999999999999999999999999988 999999999999999999999998865432111
Q ss_pred ------------------------------cccccCCC-CCChhHHHHHHHHhhhhc------ceEEEeccCccccCC-C
Q 008992 240 ------------------------------VEEKRTPL-HVSPQWIRARYLRRLNRE------GVLLLRGLDSRLSKD-L 281 (547)
Q Consensus 240 ------------------------------~~~~~vp~-~~sp~~y~~~vlP~L~k~------~VI~l~~~d~RLa~~-l 281 (547)
........ ...+.||.++++|.+.++ +|+.|.++..++.++ +
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 00111221 456678777788988876 999999999999876 8
Q ss_pred ChhhhhhhhhhcccccccChhHHHHHHHHHHHHH-hcCCeEEeeccchhhhhhhhcCCCCchhhHHHHHHHhhccccccc
Q 008992 282 PSDLQKLRCKVAFHALRFAPPILQLGNKLAERMR-SKGPYLSLHLRMEKDVWVRTGCLPGPEYDEMISNERKQRPELLTA 360 (547)
Q Consensus 282 P~diQrLRCrvnf~ALrF~p~I~~Lg~~LV~RmR-~~GpyiALHLR~E~DMlAfsgC~~g~e~~e~l~~~R~~~~~~~~~ 360 (547)
+.++|| +|+|+++|+++|+++|++|+ ..++|||+|||+|+|| +++|.++. ..+.++..|.. +
T Consensus 166 ~~~~~r--------~l~~~~~i~~~a~~~i~~~~~~~~~yiavHlR~~~D~--~~~C~~~~-~~~~~~~~~~~------~ 228 (351)
T PF10250_consen 166 DRDLQR--------YLRFSPEIRELADKFIKRLLAGGGPYIAVHLRRGKDW--FSACEFKG-ERHLLASPRCW------G 228 (351)
T ss_dssp GGGGGG--------G--B-HHHHHHHHHHHHHH----SSEEEEEE--SHHH--HHHHCT-T-----TTTHHHH-------
T ss_pred CccceE--------EEecCHHHHHHHHHHHHHhhcccCceEEEeecccCch--HhhcccCC-chHHHHHhHhh------c
Confidence 888987 99999999999999999999 8899999999999999 88899964 45556777765 2
Q ss_pred cCCCChHHHhhCCCCCCCHHHHHHHHHHcCCCCCcEEEEeecccCCccccccchHhhCCCceecccCCCcccccccccch
Q 008992 361 RSNMTYHERKLAGLCPLNAVEVTRLLKALGAPKIARIYWAGGEPLGGKEALLPLITEFPHLYNKEDLALPGELEPFANKA 440 (547)
Q Consensus 361 ~~~i~~~~~R~~G~CPLTPeEvgl~LraLGf~~~T~IYlAaGeiyGg~~~L~pL~~~FPnl~tKe~Las~eEL~pF~~~s 440 (547)
++.+.+...+..|.||++|++++.+++++|+.+.|.||||++++|||.+.|.+|++.||++++|+++.+.+|+++|.+
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 345666677889999999999999999999999999999999999999999999999999999999999999999976
Q ss_pred hhhhHhhhhhhcCCceeeeCCCCchhhhhhhhccccCCC
Q 008992 441 SLMAAIDYIVSENSDIFMPSHGGNMGHAIQGHRAYAGHM 479 (547)
Q Consensus 441 s~~AALDYiVcl~SDVFV~t~~GNfa~~V~GhR~y~G~~ 479 (547)
.++|+||++||++||+||+|..++|+.+|+++|.|.|+.
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 999999999999999999999999999999999999965
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=97.94 E-value=0.0002 Score=73.75 Aligned_cols=281 Identities=20% Similarity=0.290 Sum_probs=154.2
Q ss_pred CCCcEEEE-EEcCchhhHHHHHHHHHHHHHHhCCeEecccc---ccccccCCCCCCcCCCChH------------HHHHh
Q 008992 156 DRRKYLLV-VVSGGMNQQRNQIVDAVVIARILGAALVVPIL---QVNVIWGDESEFSDIFDLE------------HFKSV 219 (547)
Q Consensus 156 ~snGYL~V-~~nGGLNQqR~~IcDaVaVARiLNATLVlP~L---~~~s~W~D~S~F~DIFD~d------------hFI~~ 219 (547)
..||||+. .|-|-..+|-....-..|.|+.||.|||+|.. ++-.+-+---.|...|.++ .|+.-
T Consensus 27 DP~GYl~yCPCMGRFGNQaDhFLGsLAFAKaLnRTL~lPpwiEy~~pe~~n~~vpf~~yF~vepl~~YhRVitm~dFm~k 106 (386)
T KOG3849|consen 27 DPAGYLLYCPCMGRFGNQADHFLGSLAFAKALNRTLVLPPWIEYKHPETKNLMVPFEFYFQVEPLAKYHRVITMQDFMKK 106 (386)
T ss_pred CCCccEEEccccccccchHHHHHHHHHHHHHhcccccCCcchhccCCcccccccchhheeecccHhhhhhheeHHHHHHH
Confidence 46899988 69999999999999999999999999999953 3333333344677777765 34444
Q ss_pred ccCCc-----EEeccCcccccccC---CcccccCCCCCChhH-------H-----------------HHHHHHhh--hhc
Q 008992 220 LANDV-----RIVSSLPSTHIMTR---PVEEKRTPLHVSPQW-------I-----------------RARYLRRL--NRE 265 (547)
Q Consensus 220 L~~dV-----rIVk~LP~~~~~~~---~~~~~~vp~~~sp~~-------y-----------------~~~vlP~L--~k~ 265 (547)
|..+. ||. -.=++-+... +..-.+--+-..|-| . +++.+.++ ++|
T Consensus 107 lapthwp~~~Rva-~c~k~a~qr~pdkp~Ch~KeGNPFGPfWDqfhvsFv~sE~f~~i~Fd~~~~~~~~kW~~kfp~eey 185 (386)
T KOG3849|consen 107 LAPTHWPGTPRVA-ICDKSAAQRSPDKPGCHSKEGNPFGPFWDQFHVSFVGSEYFGDIGFDLNQMGSRKKWLEKFPSEEY 185 (386)
T ss_pred hCcccCCCCccee-eeehhhhccCCCCCCCcccCCCCCCCchhheEeeeeccccccccccchhhcchHHHHHhhCCcccC
Confidence 44432 110 0000000000 100000000011212 1 12222222 356
Q ss_pred ceEEEeccCccccCCCCh-----hhhhhhhhhcccccccChhHHHHHHHHHHHHHhcCCeEEeeccchhhhhhhhcCCCC
Q 008992 266 GVLLLRGLDSRLSKDLPS-----DLQKLRCKVAFHALRFAPPILQLGNKLAERMRSKGPYLSLHLRMEKDVWVRTGCLPG 340 (547)
Q Consensus 266 ~VI~l~~~d~RLa~~lP~-----diQrLRCrvnf~ALrF~p~I~~Lg~~LV~RmR~~GpyiALHLR~E~DMlAfsgC~~g 340 (547)
-|+.|++.-.. .|. .||| -||.+.+|.+.|++.+.-= -..||+++|||...||+-- |.+-
T Consensus 186 PVLAf~gAPA~----FPv~~e~~~lQk--------Yl~WS~r~~e~~k~fI~a~-L~rpfvgiHLRng~DWvra--Cehi 250 (386)
T KOG3849|consen 186 PVLAFSGAPAP----FPVKGEVWSLQK--------YLRWSSRITEQAKKFISAN-LARPFVGIHLRNGADWVRA--CEHI 250 (386)
T ss_pred ceeeecCCCCC----CccccccccHHH--------HHHHHHHHHHHHHHHHHHh-cCcceeEEEeecCchHHHH--HHHh
Confidence 78887764211 221 2565 4788999999999877542 1359999999999999875 8764
Q ss_pred ch--hhHHHHHHHhhccccccccCCCChHHHhhCCCCCCCHHHHH----HHHHHcCCCCCcEEEEeecccCCccccccch
Q 008992 341 PE--YDEMISNERKQRPELLTARSNMTYHERKLAGLCPLNAVEVT----RLLKALGAPKIARIYWAGGEPLGGKEALLPL 414 (547)
Q Consensus 341 ~e--~~e~l~~~R~~~~~~~~~~~~i~~~~~R~~G~CPLTPeEvg----l~LraLGf~~~T~IYlAaGeiyGg~~~L~pL 414 (547)
+. ..-+.+ .+..+ |.+.-... =-...|-=.-+||- +-.+.+| .--.+|+|+-. +.-+.-|
T Consensus 251 kd~~~~hlfA-----SpQCl-Gy~~~~ga--Lt~e~C~Psk~~I~rqik~~v~si~--dakSVfVAsDs----~hmi~El 316 (386)
T KOG3849|consen 251 KDTTNRHLFA-----SPQCL-GYGHHLGA--LTKEICSPSKQQILRQIKEKVGSIG--DAKSVFVASDS----DHMIDEL 316 (386)
T ss_pred cccCCCcccc-----Chhhc-cccccccc--cchhhhCccHHHHHHHHHHHHhhhc--ccceEEEeccc----hhhhHHH
Confidence 10 000000 01110 10000000 00124533334432 2223344 22369999876 2222333
Q ss_pred H-hhCCCceecccCCCcccccccccchhhhhHhhhhhhcCCceeeeCCCCchhhhhhhhccccCC
Q 008992 415 I-TEFPHLYNKEDLALPGELEPFANKASLMAAIDYIVSENSDIFMPSHGGNMGHAIQGHRAYAGH 478 (547)
Q Consensus 415 ~-~~FPnl~tKe~Las~eEL~pF~~~ss~~AALDYiVcl~SDVFV~t~~GNfa~~V~GhR~y~G~ 478 (547)
. +++|-=+.-..|- | --+-+|..|.-+||-||++--+.|+.+|--.|-..|+
T Consensus 317 n~aL~~~~i~vh~l~------p------dd~y~dLaIlGqadhFiGNCvSsfsafvKRERD~~Gr 369 (386)
T KOG3849|consen 317 NEALKPYEIEVHRLE------P------DDMYTDLAILGQADHFIGNCVSSFSAFVKRERDHAGR 369 (386)
T ss_pred HHhhcccceeEEecC------c------ccchhhhhhhcccchhhhhhHHHHHHHHhhhhcccCC
Confidence 2 3444322222221 1 1256899999999999999999999999999988773
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=96.41 E-value=0.14 Score=54.09 Aligned_cols=251 Identities=17% Similarity=0.232 Sum_probs=121.6
Q ss_pred CcEEEEEEcCchhhHHHHHHHHHHHHHHhCCeEeccccccccccCCC----CCCcCCCChHHHHHhcc--CCcEEeccCc
Q 008992 158 RKYLLVVVSGGMNQQRNQIVDAVVIARILGAALVVPILQVNVIWGDE----SEFSDIFDLEHFKSVLA--NDVRIVSSLP 231 (547)
Q Consensus 158 nGYL~V~~nGGLNQqR~~IcDaVaVARiLNATLVlP~L~~~s~W~D~----S~F~DIFD~dhFI~~L~--~dVrIVk~LP 231 (547)
+.|++.+--+|+|.-==+++-|-.+|+-.|.||||= |.++ ..|...|++ |-+-.+ ..|+|+-+-+
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 478999999999999999999999999999999997 8753 456665543 444443 2445541111
Q ss_pred ccccccCCcccccCCCCCChhHHH------------------HHHHHhhh------hcceEEEeccCccccCCCChhhhh
Q 008992 232 STHIMTRPVEEKRTPLHVSPQWIR------------------ARYLRRLN------REGVLLLRGLDSRLSKDLPSDLQK 287 (547)
Q Consensus 232 ~~~~~~~~~~~~~vp~~~sp~~y~------------------~~vlP~L~------k~~VI~l~~~d~RLa~~lP~diQr 287 (547)
- +....|-..-|.|.+ +.+--+++ ...||+-+-. . +--|-+.
T Consensus 73 i--------~~~~~~g~~fp~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~----~--~~c~~~a 138 (321)
T PF05830_consen 73 I--------NQFSFPGPFFPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACL----M--WRCDEEA 138 (321)
T ss_dssp G--------GT----SSEESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S------T--TSS-HHH
T ss_pred h--------hhhcCCCCcChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhc----C--CcchhHH
Confidence 0 010111111111111 11112222 2345554332 2 1122222
Q ss_pred hhhhhcccccccChhHHHHHHHHHHHHHhcCCeEEeeccc--hhhhhhhhcCCCCchhhHHHHHHHhhccccccccCCCC
Q 008992 288 LRCKVAFHALRFAPPILQLGNKLAERMRSKGPYLSLHLRM--EKDVWVRTGCLPGPEYDEMISNERKQRPELLTARSNMT 365 (547)
Q Consensus 288 LRCrvnf~ALrF~p~I~~Lg~~LV~RmR~~GpyiALHLR~--E~DMlAfsgC~~g~e~~e~l~~~R~~~~~~~~~~~~i~ 365 (547)
.| .-|..|+-+++|++..+.+.++-=.+..-|++|.|. .+|.+.+ +|.+-++ +-.+.+..
T Consensus 139 eR--~if~slkpR~eIqarID~iy~ehf~g~~~IGVHVRhGngeD~~~h-~~~~~D~-e~~L~~V~-------------- 200 (321)
T PF05830_consen 139 ER--EIFSSLKPRPEIQARIDAIYREHFAGYSVIGVHVRHGNGEDIMDH-APYWADE-ERALRQVC-------------- 200 (321)
T ss_dssp HH--HHHHHS-B-HHHHHHHHHHHHHHTTTSEEEEEEE----------------HHH-HHHHHHHH--------------
T ss_pred HH--HHHHhCCCCHHHHHHHHHHHHHHcCCCceEEEEEeccCCcchhcc-CccccCc-hHHHHHHH--------------
Confidence 23 358899999999999999888754555689999993 2344444 2332110 00010000
Q ss_pred hHHHhhCCCCCCCHHHHHHHHHHcCCCCCcEEEEeecccCCccccccchHhhCCCceecccCCCccccccccc-----ch
Q 008992 366 YHERKLAGLCPLNAVEVTRLLKALGAPKIARIYWAGGEPLGGKEALLPLITEFPHLYNKEDLALPGELEPFAN-----KA 440 (547)
Q Consensus 366 ~~~~R~~G~CPLTPeEvgl~LraLGf~~~T~IYlAaGeiyGg~~~L~pL~~~FPnl~tKe~Las~eEL~pF~~-----~s 440 (547)
.....++++-...++.|+||+-. .+-++-+++.||++++-++=..+..-.+..+ ..
T Consensus 201 ---------------~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~~g 261 (321)
T PF05830_consen 201 ---------------TAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGIEG 261 (321)
T ss_dssp ---------------HHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE----------------HHHHHHH
T ss_pred ---------------HHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCCcCcccccccch
Confidence 11122345556678899999988 4568899999999988765333221112211 22
Q ss_pred hhhhHhhhhhhcCCceee-eCCCCchhhh
Q 008992 441 SLMAAIDYIVSENSDIFM-PSHGGNMGHA 468 (547)
Q Consensus 441 s~~AALDYiVcl~SDVFV-~t~~GNfa~~ 468 (547)
-..|-+|-+...++|+-| .+-.+.|++.
T Consensus 262 g~~ALIDM~LLSrCD~LIr~~ptS~Fsr~ 290 (321)
T PF05830_consen 262 GESALIDMYLLSRCDYLIRFPPTSAFSRY 290 (321)
T ss_dssp HHHHHHHHHHHTTSSEEEEESTT-GGGHH
T ss_pred HHHHHHHHHHHHhCCeEEEcCCCchhhhH
Confidence 346889999999999999 5655555543
No 4
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=46.58 E-value=44 Score=31.19 Aligned_cols=98 Identities=11% Similarity=-0.034 Sum_probs=58.8
Q ss_pred hhcccccccChhHHHHHHHHHHHHHhcCCeEEeeccchhhhhhh----hcCCC-C-chhh--HHHHHHHhhccccccccC
Q 008992 291 KVAFHALRFAPPILQLGNKLAERMRSKGPYLSLHLRMEKDVWVR----TGCLP-G-PEYD--EMISNERKQRPELLTARS 362 (547)
Q Consensus 291 rvnf~ALrF~p~I~~Lg~~LV~RmR~~GpyiALHLR~E~DMlAf----sgC~~-g-~e~~--e~l~~~R~~~~~~~~~~~ 362 (547)
-++..+|++.++..+.-+.+.+.|+.+|.++-++...+...+.. .-|.. + .-.. ....++++-.
T Consensus 48 v~~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~yl~-------- 119 (160)
T PLN02232 48 VTMGYGLRNVVDRLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEYLK-------- 119 (160)
T ss_pred EEecchhhcCCCHHHHHHHHHHHcCcCeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHhHH--------
Confidence 34455788878888888999999988899988877654322110 01111 0 0000 0000111100
Q ss_pred CCChHHHhhCCCCCCCHHHHHHHHHHcCCCCCcEEEEeeccc
Q 008992 363 NMTYHERKLAGLCPLNAVEVTRLLKALGAPKIARIYWAGGEP 404 (547)
Q Consensus 363 ~i~~~~~R~~G~CPLTPeEvgl~LraLGf~~~T~IYlAaGei 404 (547)
..... +++|+|...+|+..||.+-+.-+++.|-+
T Consensus 120 -------~si~~-f~~~~el~~ll~~aGF~~~~~~~~~~g~~ 153 (160)
T PLN02232 120 -------YSING-YLTGEELETLALEAGFSSACHYEISGGFM 153 (160)
T ss_pred -------HHHHH-CcCHHHHHHHHHHcCCCcceEEECcchHh
Confidence 00112 48999999999999999998888887753
No 5
>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=34.71 E-value=41 Score=30.93 Aligned_cols=29 Identities=28% Similarity=0.316 Sum_probs=16.8
Q ss_pred CCCCCHHHHHHHHHHcCCCCCcEEEEeecc
Q 008992 374 LCPLNAVEVTRLLKALGAPKIARIYWAGGE 403 (547)
Q Consensus 374 ~CPLTPeEvgl~LraLGf~~~T~IYlAaGe 403 (547)
.|||++||+...|+++--+ ....||..++
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 7999999999999999754 4677876654
No 6
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=32.96 E-value=90 Score=34.95 Aligned_cols=146 Identities=14% Similarity=0.212 Sum_probs=77.2
Q ss_pred ccccChhHHHHHHHHHHHHHhcCCeEEeeccchhhhhhhhcCCCCchhhHHHHHHHhhccccccccCCCChHHHhhCCCC
Q 008992 296 ALRFAPPILQLGNKLAERMRSKGPYLSLHLRMEKDVWVRTGCLPGPEYDEMISNERKQRPELLTARSNMTYHERKLAGLC 375 (547)
Q Consensus 296 ALrF~p~I~~Lg~~LV~RmR~~GpyiALHLR~E~DMlAfsgC~~g~e~~e~l~~~R~~~~~~~~~~~~i~~~~~R~~G~C 375 (547)
-+|++|-.++.-++-.+.|-=+.|-|+||.|--.-.-.-.+|.. +++|=.+.-.|++ -.++|
T Consensus 340 L~Rpqp~t~~~l~~a~k~lg~~~PivGvhvRRTDKVGTEAAfH~-------~eEYM~~vE~~f~------~le~r----- 401 (580)
T KOG3705|consen 340 LMRPQPATQEKLDKALKSLGLDKPIVGVHVRRTDKVGTEAAFHA-------LEEYMEWVEIWFK------VLEKR----- 401 (580)
T ss_pred HhCCChhhHHHHHHHHHhCCCCCceeeEEEEecccccchhhhhh-------HHHHHHHHHHHHH------HHHHh-----
Confidence 48899888765554444333345999999986422211112221 2222222211211 01122
Q ss_pred CCCHHHHHHHHHHcCCCCCcEEEEeecccCCccccccchHhhCCCceecccCCCcccccc-------cccchhhhhHhhh
Q 008992 376 PLNAVEVTRLLKALGAPKIARIYWAGGEPLGGKEALLPLITEFPHLYNKEDLALPGELEP-------FANKASLMAAIDY 448 (547)
Q Consensus 376 PLTPeEvgl~LraLGf~~~T~IYlAaGeiyGg~~~L~pL~~~FPnl~tKe~Las~eEL~p-------F~~~ss~~AALDY 448 (547)
|=+-.-+||||+-+. .-+.--+.-|||.. +....|.+. |...+..---+|.
T Consensus 402 --------------g~~~~rRiflAsDDp----~vv~EAk~kYPnYe----~igd~eia~~A~l~nRYTd~sL~GvIlDI 459 (580)
T KOG3705|consen 402 --------------GKPLERRIFLASDDP----TVVPEAKNKYPNYE----VIGDTEIAKTAQLNNRYTDASLMGVILDI 459 (580)
T ss_pred --------------CCchhheEEEecCCc----hhchHhhccCCCcE----EeccHHHHHHhhccccchhhhhhheeeee
Confidence 223344799999983 23444577899862 222233322 2223444556788
Q ss_pred hhhcCCceeeeCCCCchhhhhhhhccccCCCcccccchH
Q 008992 449 IVSENSDIFMPSHGGNMGHAIQGHRAYAGHMKYITPNKR 487 (547)
Q Consensus 449 iVcl~SDVFV~t~~GNfa~~V~GhR~y~G~~kTI~Pdr~ 487 (547)
.+.+.+|..|.|+++..-+. .+--.+|.-||--
T Consensus 460 h~LS~~d~LVCTFSSQVCRv------aYEimQt~~pDa~ 492 (580)
T KOG3705|consen 460 HILSKVDYLVCTFSSQVCRV------AYEIMQTSGPDAG 492 (580)
T ss_pred eeecccceEEEechHHHHHH------HHHHHhccCCCcc
Confidence 88899998898877654332 2223455555543
No 7
>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=28.76 E-value=40 Score=27.88 Aligned_cols=16 Identities=31% Similarity=0.538 Sum_probs=13.7
Q ss_pred CCCCCCHHHHHHHHHHc
Q 008992 373 GLCPLNAVEVTRLLKAL 389 (547)
Q Consensus 373 G~CPLTPeEvgl~LraL 389 (547)
|-| +||||-+.+++++
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 8
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=27.86 E-value=30 Score=29.79 Aligned_cols=37 Identities=14% Similarity=0.295 Sum_probs=32.8
Q ss_pred CCCHHHHHHHHHHcCCCCCcEEEEeecccCCccccccchHhhCCCceecccC
Q 008992 376 PLNAVEVTRLLKALGAPKIARIYWAGGEPLGGKEALLPLITEFPHLYNKEDL 427 (547)
Q Consensus 376 PLTPeEvgl~LraLGf~~~T~IYlAaGeiyGg~~~L~pL~~~FPnl~tKe~L 427 (547)
++|-.+++-+|+-..|+ +.+|..|+-++|++++++.-
T Consensus 39 ~~T~~Qv~~il~~f~fd---------------~~kl~~lk~l~p~i~D~~n~ 75 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFD---------------NDKLKALKLLYPYIVDPQNY 75 (95)
T ss_pred ceeHHHHHHHHHHcCCC---------------HHHHHHHHHHhhhccCHHHH
Confidence 49999999999999998 34699999999999999753
No 9
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=25.45 E-value=63 Score=26.02 Aligned_cols=24 Identities=42% Similarity=0.606 Sum_probs=20.1
Q ss_pred HhhCCCCCCCHHHHHHHHHHcCCCC
Q 008992 369 RKLAGLCPLNAVEVTRLLKALGAPK 393 (547)
Q Consensus 369 ~R~~G~CPLTPeEvgl~LraLGf~~ 393 (547)
++..|. .++++|+..+|+.|||+-
T Consensus 12 ~~llG~-~i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGL-DLSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCC-CCCHHHHHHHHHHCCCeE
Confidence 456666 499999999999999974
No 10
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=21.48 E-value=1.4e+02 Score=21.27 Aligned_cols=24 Identities=13% Similarity=0.324 Sum_probs=20.1
Q ss_pred HHHHHHhhcCCCChhhHHHHHHHH
Q 008992 487 RQMLHYFLNSSLPEAEFNRIIKEL 510 (547)
Q Consensus 487 ~~l~~lf~~~~i~w~~f~~~v~~~ 510 (547)
+.|-.++++|.|+.+||..+-+++
T Consensus 6 ~~L~~l~~~G~IseeEy~~~k~~l 29 (31)
T PF09851_consen 6 EKLKELYDKGEISEEEYEQKKARL 29 (31)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHH
Confidence 357788999999999999987764
Done!