Query 048096
Match_columns 530
No_of_seqs 183 out of 396
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 06:13:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/048096.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/048096hhsearch_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-56 3E-61 450.0 4.3 296 182-498 6-345 (351)
2 KOG3849 GDP-fucose protein O-f 98.1 5.5E-05 1.2E-09 77.6 13.9 287 172-497 26-369 (386)
3 PF05830 NodZ: Nodulation prot 96.5 0.054 1.2E-06 56.8 13.9 251 175-487 2-290 (321)
4 PLN02232 ubiquinone biosynthes 63.8 17 0.00037 33.8 5.8 98 310-423 50-153 (160)
5 PRK15451 tRNA cmo(5)U34 methyl 51.7 24 0.00053 34.9 4.9 80 319-417 142-230 (247)
6 KOG3705 Glycoprotein 6-alpha-L 50.3 52 0.0011 36.6 7.3 130 313-484 340-476 (580)
7 PF00799 Gemini_AL1: Geminivir 38.1 33 0.00071 31.4 3.1 29 393-422 14-42 (114)
8 PF14771 DUF4476: Domain of un 36.8 21 0.00045 30.6 1.6 37 395-446 39-75 (95)
9 smart00874 B5 tRNA synthetase 31.0 51 0.0011 26.4 2.9 24 388-412 12-35 (71)
10 PF10892 DUF2688: Protein of u 30.8 34 0.00074 28.2 1.8 16 392-408 42-57 (60)
11 PF00036 EF-hand_1: EF hand; 27.1 38 0.00083 23.5 1.3 23 507-529 4-29 (29)
12 PF09851 SHOCT: Short C-termin 26.7 76 0.0016 22.5 2.8 24 506-529 6-29 (31)
13 PF03484 B5: tRNA synthetase B 21.4 69 0.0015 26.2 2.0 25 388-413 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=1.4e-56 Score=450.02 Aligned_cols=296 Identities=33% Similarity=0.532 Sum_probs=206.8
Q ss_pred EcCchhHHHHHHHHHHHHHHHhcCeEeccccccccccCCCCC-----CCcccchHHHHHhcccceEEeccCChhhhcccc
Q 048096 182 ASGGLNQQRNQIVDAVVIARILEAALVVPVLQVNLIWGDESE-----FSDIFNVKHFKRTLQADVRVVSSLPSTHLMSRQ 256 (530)
Q Consensus 182 ~nGGLNQqR~~IcDaVaVARiLNATLVlP~L~~~s~W~D~S~-----F~DIFD~dhFI~sL~~dVrIVk~LP~~~~~~~~ 256 (530)
+.||+||||.++++||++|++||+|||||.+.....|+|.++ |+++||+++|++.++++|.+.+.+|........
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 999999999999999999999999865433211
Q ss_pred c------------------------------cccCCCC-CCCchhHHHHhHHhhhhc------ceEEEeccCccccCC-C
Q 048096 257 S------------------------------IENQLPY-NISPFWIRARFFKQLNEE------GVLVLKGLDTKLSKN-L 298 (530)
Q Consensus 257 ~------------------------------~~~~vp~-~~sp~~y~~~vlP~L~k~------~VI~l~~~d~RLa~~-l 298 (530)
. ....... ...+.||.++++|.+.++ +|+.|.++..++.++ +
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 0 0111222 466778777799999886 999999999999987 7
Q ss_pred CchhhhhhhhhcccccccchhHHHHHHHHHHHHH-hcCCeEEEeecchhhhHhhhcccCCCChhHHHHHHHHHhhccccc
Q 048096 299 PPDLQKLRCKVAFHALRFAAPIQELGNRLARRMW-IEGPYIALHLRMEKDVWVRTGCLTGLGLEYDEIIAKIRESQPEYL 377 (530)
Q Consensus 299 P~diQrLRCrvnF~ALrF~p~I~~lg~~LV~RmR-~~GpyIALHLR~EkDMlAfsgC~~g~~~~e~~el~~~R~~~~~~~ 377 (530)
+.++|| +|+|+++|+++|++++++|+ ..++|||+|||+|+|| +++|.+++ +...++.+|+.
T Consensus 166 ~~~~~r--------~l~~~~~i~~~a~~~i~~~~~~~~~yiavHlR~~~D~--~~~C~~~~---~~~~~~~~~~~----- 227 (351)
T PF10250_consen 166 DRDLQR--------YLRFSPEIRELADKFIKRLLAGGGPYIAVHLRRGKDW--FSACEFKG---ERHLLASPRCW----- 227 (351)
T ss_dssp GGGGGG--------G--B-HHHHHHHHHHHHHH----SSEEEEEE--SHHH--HHHHCT-T-------TTTHHHH-----
T ss_pred CccceE--------EEecCHHHHHHHHHHHHHhhcccCceEEEeecccCch--HhhcccCC---chHHHHHhHhh-----
Confidence 888987 99999999999999999999 7899999999999999 89999954 77888888876
Q ss_pred cCcccCChHhHhhcCCCCCCHHHHHHHHHhcCCCCCceEEEeecccCCccccchhHHhhCCCcccccccCCccccccccc
Q 048096 378 TGKLNMSHIQRRLAGLCPLTASEIARFLKALGAPSSARIYIAGGEPFGGHQALQPLAAEFPNLVTKEMLAQEGELSPYVN 457 (530)
Q Consensus 378 ~~~~~i~~~~rR~~G~CPLTPeEvgl~L~ALGf~~~T~IYlAaGeiyGg~~~L~pL~~~FPnl~tKetLas~eEL~pF~~ 457 (530)
++..+.+...+..|.||++|++++.+++++|+.+.|.||||++++|||.+.|.+|++.||++++|+++.+.+|+++|.+
T Consensus 228 -~~~~~~~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~ 306 (351)
T PF10250_consen 228 -GKKSINPEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIYGGERRLDPLKNMFPNVVTKDDLLSHEELEPLND 306 (351)
T ss_dssp --GGGTT-----HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS-----------HHHHHHHHGGGT--EE--S-----
T ss_pred -ccccccchhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCcccccchhHHHHHHHhhhhEeccccCCHHHhhhccc
Confidence 2334566677889999999999999999999999999999999999999999999999999999999999999999976
Q ss_pred cccccchhheeeecCCceeecCCCCchhhhhhhcccccCCC
Q 048096 458 RSSSLAAIDYIVSLNSNVFVPSHGGNMGRAMQGHRAYVGHR 498 (530)
Q Consensus 458 ~ss~~AALDYiVcl~SDVFV~t~~GNfa~~V~GhR~y~G~~ 498 (530)
.++|+||++||++||+||+|..++|+.+|+++|.|.|..
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=98.10 E-value=5.5e-05 Score=77.58 Aligned_cols=287 Identities=17% Similarity=0.289 Sum_probs=155.6
Q ss_pred ccCCcEEEE-EEcCchhHHHHHHHHHHHHHHHhcCeEecccc---ccccccCCCCCCCcccchH------------HHHH
Q 048096 172 KEKRKFLVV-VASGGLNQQRNQIVDAVVIARILEAALVVPVL---QVNLIWGDESEFSDIFNVK------------HFKR 235 (530)
Q Consensus 172 ~~snGYL~V-~~nGGLNQqR~~IcDaVaVARiLNATLVlP~L---~~~s~W~D~S~F~DIFD~d------------hFI~ 235 (530)
...||||+. .|-|-..+|-....-..|.|+.||.|||+|-. ++-.+-+---.|...|.++ .|+.
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 69999999999999999999999999999963 2222222235788888765 3444
Q ss_pred hcccceEEecc----CChhhhccccc---cccCCCCCCCchh-------HH-----------------HHhHHhh--hhc
Q 048096 236 TLQADVRVVSS----LPSTHLMSRQS---IENQLPYNISPFW-------IR-----------------ARFFKQL--NEE 282 (530)
Q Consensus 236 sL~~dVrIVk~----LP~~~~~~~~~---~~~~vp~~~sp~~-------y~-----------------~~vlP~L--~k~ 282 (530)
.|..+.=.-.. +-++.....+. .-.+--+-..|-| .. ++.+..+ ++|
T Consensus 106 klapthwp~~~Rva~c~k~a~qr~pdkp~Ch~KeGNPFGPfWDqfhvsFv~sE~f~~i~Fd~~~~~~~~kW~~kfp~eey 185 (386)
T KOG3849|consen 106 KLAPTHWPGTPRVAICDKSAAQRSPDKPGCHSKEGNPFGPFWDQFHVSFVGSEYFGDIGFDLNQMGSRKKWLEKFPSEEY 185 (386)
T ss_pred HhCcccCCCCcceeeeehhhhccCCCCCCCcccCCCCCCCchhheEeeeeccccccccccchhhcchHHHHHhhCCcccC
Confidence 44433210000 00000000000 0000000011212 11 1222222 357
Q ss_pred ceEEEeccCccc---cCCCCchhhhhhhhhcccccccchhHHHHHHHHHHHHHhcCCeEEEeecchhhhHhhhcccCCCC
Q 048096 283 GVLVLKGLDTKL---SKNLPPDLQKLRCKVAFHALRFAAPIQELGNRLARRMWIEGPYIALHLRMEKDVWVRTGCLTGLG 359 (530)
Q Consensus 283 ~VI~l~~~d~RL---a~~lP~diQrLRCrvnF~ALrF~p~I~~lg~~LV~RmR~~GpyIALHLR~EkDMlAfsgC~~g~~ 359 (530)
-|+.|++.-... ..++ .||| -||.+.+|.+.|++.+.-= -..|||++|||...||+-- |.+--.
T Consensus 186 PVLAf~gAPA~FPv~~e~~--~lQk--------Yl~WS~r~~e~~k~fI~a~-L~rpfvgiHLRng~DWvra--Cehikd 252 (386)
T KOG3849|consen 186 PVLAFSGAPAPFPVKGEVW--SLQK--------YLRWSSRITEQAKKFISAN-LARPFVGIHLRNGADWVRA--CEHIKD 252 (386)
T ss_pred ceeeecCCCCCCccccccc--cHHH--------HHHHHHHHHHHHHHHHHHh-cCcceeEEEeecCchHHHH--HHHhcc
Confidence 788877643211 0011 2666 3788999999999877542 1349999999999999866 865321
Q ss_pred hhHHHHHHHHHhhccccccCcccCChHhHhhcCCCCCCHHHHH----HHHHhcCCCCCceEEEeecccCCccccchhHH-
Q 048096 360 LEYDEIIAKIRESQPEYLTGKLNMSHIQRRLAGLCPLTASEIA----RFLKALGAPSSARIYIAGGEPFGGHQALQPLA- 434 (530)
Q Consensus 360 ~~e~~el~~~R~~~~~~~~~~~~i~~~~rR~~G~CPLTPeEvg----l~L~ALGf~~~T~IYlAaGeiyGg~~~L~pL~- 434 (530)
...+-..+. +..+ |..+-... =-...|-=.-+|+- +-.+.+| .--.+|+|+.. +..+..|.
T Consensus 253 ~~~~hlfAS-----pQCl-Gy~~~~ga--Lt~e~C~Psk~~I~rqik~~v~si~--dakSVfVAsDs----~hmi~Eln~ 318 (386)
T KOG3849|consen 253 TTNRHLFAS-----PQCL-GYGHHLGA--LTKEICSPSKQQILRQIKEKVGSIG--DAKSVFVASDS----DHMIDELNE 318 (386)
T ss_pred cCCCccccC-----hhhc-cccccccc--cchhhhCccHHHHHHHHHHHHhhhc--ccceEEEeccc----hhhhHHHHH
Confidence 100000000 0100 11000000 00124533344432 2223344 23379999876 33233343
Q ss_pred hhCCCcccccccCCccccccccccccccchhheeeecCCceeecCCCCchhhhhhhcccccCC
Q 048096 435 AEFPNLVTKEMLAQEGELSPYVNRSSSLAAIDYIVSLNSNVFVPSHGGNMGRAMQGHRAYVGH 497 (530)
Q Consensus 435 ~~FPnl~tKetLas~eEL~pF~~~ss~~AALDYiVcl~SDVFV~t~~GNfa~~V~GhR~y~G~ 497 (530)
+++|-=+.-..|- | --+-+|..|.-+||-||++--+.|+..|--.|-..|.
T Consensus 319 aL~~~~i~vh~l~------p------dd~y~dLaIlGqadhFiGNCvSsfsafvKRERD~~Gr 369 (386)
T KOG3849|consen 319 ALKPYEIEVHRLE------P------DDMYTDLAILGQADHFIGNCVSSFSAFVKRERDHAGR 369 (386)
T ss_pred hhcccceeEEecC------c------ccchhhhhhhcccchhhhhhHHHHHHHHhhhhcccCC
Confidence 4454222222221 1 1256889999999999999999999999999988874
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=96.52 E-value=0.054 Score=56.80 Aligned_cols=251 Identities=20% Similarity=0.289 Sum_probs=123.7
Q ss_pred CcEEEEEEcCchhHHHHHHHHHHHHHHHhcCeEeccccccccccCCC----CCCCcccchHHHHHhcc--cceEEeccCC
Q 048096 175 RKFLVVVASGGLNQQRNQIVDAVVIARILEAALVVPVLQVNLIWGDE----SEFSDIFNVKHFKRTLQ--ADVRVVSSLP 248 (530)
Q Consensus 175 nGYL~V~~nGGLNQqR~~IcDaVaVARiLNATLVlP~L~~~s~W~D~----S~F~DIFD~dhFI~sL~--~dVrIVk~LP 248 (530)
+.|++.+--+|++.--=+++-|-.+|+-.|.||||= |.++ .+|...|++ |-+-.+ ..|+|.-.-+
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 568888999999999999999999999999999985 7775 577777765 444443 2455542211
Q ss_pred hhhhccccccccCCCCCCCchhHH-----------H-------HhHHhhh------hcceEEEeccCccccCCCCchhhh
Q 048096 249 STHLMSRQSIENQLPYNISPFWIR-----------A-------RFFKQLN------EEGVLVLKGLDTKLSKNLPPDLQK 304 (530)
Q Consensus 249 ~~~~~~~~~~~~~vp~~~sp~~y~-----------~-------~vlP~L~------k~~VI~l~~~d~RLa~~lP~diQr 304 (530)
- .....|-..-|.|.+ + .+-.+++ ...||+-+-..-| -|-+.
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--------NQFSFPGPFFPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWR------CDEEA 138 (321)
T ss_dssp G--------GT----SSEESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTS------S-HHH
T ss_pred h--------hhhcCCCCcChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCc------chhHH
Confidence 1 011111111111211 1 1111222 2445554443211 23344
Q ss_pred hhhhhcccccccchhHHHHHHHHHHHHHhcCCeEEEeecch--hhhHhhhcccCCCChhHHHHHHHHHhhccccccCccc
Q 048096 305 LRCKVAFHALRFAAPIQELGNRLARRMWIEGPYIALHLRME--KDVWVRTGCLTGLGLEYDEIIAKIRESQPEYLTGKLN 382 (530)
Q Consensus 305 LRCrvnF~ALrF~p~I~~lg~~LV~RmR~~GpyIALHLR~E--kDMlAfsgC~~g~~~~e~~el~~~R~~~~~~~~~~~~ 382 (530)
.|| -|..|+-+++|++..+.+..+-=.+..-|++|.|.= +|.+.+ +|..- ++...|.+.
T Consensus 139 eR~--if~slkpR~eIqarID~iy~ehf~g~~~IGVHVRhGngeD~~~h-~~~~~---D~e~~L~~V------------- 199 (321)
T PF05830_consen 139 ERE--IFSSLKPRPEIQARIDAIYREHFAGYSVIGVHVRHGNGEDIMDH-APYWA---DEERALRQV------------- 199 (321)
T ss_dssp HHH--HHHHS-B-HHHHHHHHHHHHHHTTTSEEEEEEE----------------H---HHHHHHHHH-------------
T ss_pred HHH--HHHhCCCCHHHHHHHHHHHHHHcCCCceEEEEEeccCCcchhcc-Ccccc---CchHHHHHH-------------
Confidence 444 688999999999999998887545556899999932 233333 22210 000011000
Q ss_pred CChHhHhhcCCCCCCHHHHHHHHHhcCCCCCceEEEeecccCCccccchhHHhhCCCcccccccCCccccccccc-----
Q 048096 383 MSHIQRRLAGLCPLTASEIARFLKALGAPSSARIYIAGGEPFGGHQALQPLAAEFPNLVTKEMLAQEGELSPYVN----- 457 (530)
Q Consensus 383 i~~~~rR~~G~CPLTPeEvgl~L~ALGf~~~T~IYlAaGeiyGg~~~L~pL~~~FPnl~tKetLas~eEL~pF~~----- 457 (530)
| .....++++-.+.++.|+||+-. .+-++-+++.||.+++-++=..+..-.+..+
T Consensus 200 -----------~-----~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~ 259 (321)
T PF05830_consen 200 -----------C-----TAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGI 259 (321)
T ss_dssp -----------H-----HHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE----------------HHHHH
T ss_pred -----------H-----HHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCCcCccccccc
Confidence 0 11123355556778999999988 5668999999999888755333221112211
Q ss_pred cccccchhheeeecCCceee-cCCCCchhhh
Q 048096 458 RSSSLAAIDYIVSLNSNVFV-PSHGGNMGRA 487 (530)
Q Consensus 458 ~ss~~AALDYiVcl~SDVFV-~t~~GNfa~~ 487 (530)
..-..|-+|-+....+|+-| .+-.+.|.+.
T Consensus 260 ~gg~~ALIDM~LLSrCD~LIr~~ptS~Fsr~ 290 (321)
T PF05830_consen 260 EGGESALIDMYLLSRCDYLIRFPPTSAFSRY 290 (321)
T ss_dssp HHHHHHHHHHHHHTTSSEEEEESTT-GGGHH
T ss_pred chHHHHHHHHHHHHhCCeEEEcCCCchhhhH
Confidence 12334889999999999999 5555555443
No 4
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=63.85 E-value=17 Score=33.77 Aligned_cols=98 Identities=12% Similarity=-0.065 Sum_probs=58.1
Q ss_pred cccccccchhHHHHHHHHHHHHHhcCCeEEEeecchhhhHhh----hcccCCCChhHHH--HHHHHHhhccccccCcccC
Q 048096 310 AFHALRFAAPIQELGNRLARRMWIEGPYIALHLRMEKDVWVR----TGCLTGLGLEYDE--IIAKIRESQPEYLTGKLNM 383 (530)
Q Consensus 310 nF~ALrF~p~I~~lg~~LV~RmR~~GpyIALHLR~EkDMlAf----sgC~~g~~~~e~~--el~~~R~~~~~~~~~~~~i 383 (530)
+..+|++.++.++.-+.+.+.|+.+|.++-++...+...+.. .-|....-+-..- ..++|++-.
T Consensus 50 ~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~yl~---------- 119 (160)
T PLN02232 50 MGYGLRNVVDRLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEYLK---------- 119 (160)
T ss_pred ecchhhcCCCHHHHHHHHHHHcCcCeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHhHH----------
Confidence 445678778888888999999998899888877654322111 0111100000000 000111100
Q ss_pred ChHhHhhcCCCCCCHHHHHHHHHhcCCCCCceEEEeeccc
Q 048096 384 SHIQRRLAGLCPLTASEIARFLKALGAPSSARIYIAGGEP 423 (530)
Q Consensus 384 ~~~~rR~~G~CPLTPeEvgl~L~ALGf~~~T~IYlAaGei 423 (530)
..-.. +++|+|...+|+..||.+-+.-+++.|-.
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
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=51.70 E-value=24 Score=34.94 Aligned_cols=80 Identities=11% Similarity=0.015 Sum_probs=46.6
Q ss_pred hHHHHHHHHHHHHHhcCCeEEEe-ecchhh-----hHhhhccc---CCCChhHHHHHHHHHhhccccccCcccCChHhHh
Q 048096 319 PIQELGNRLARRMWIEGPYIALH-LRMEKD-----VWVRTGCL---TGLGLEYDEIIAKIRESQPEYLTGKLNMSHIQRR 389 (530)
Q Consensus 319 ~I~~lg~~LV~RmR~~GpyIALH-LR~EkD-----MlAfsgC~---~g~~~~e~~el~~~R~~~~~~~~~~~~i~~~~rR 389 (530)
+.+++-+++.+.|+.+|.++..+ .+.|.+ ++....+. .|.+++|.++ .| +.+
T Consensus 142 ~~~~~l~~i~~~LkpGG~l~l~e~~~~~~~~~~~~~~~~~~~~~~~~g~s~~ei~~---~~----------------~~~ 202 (247)
T PRK15451 142 ERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGELLFNMHHDFKRANGYSELEISQ---KR----------------SML 202 (247)
T ss_pred HHHHHHHHHHHhcCCCCEEEEEEecCCCcchhHHHHHHHHHHHHHHcCCCHHHHHH---HH----------------HHH
Confidence 45678888888888889887664 443322 22221111 1222222111 11 112
Q ss_pred hcCCCCCCHHHHHHHHHhcCCCCCceEE
Q 048096 390 LAGLCPLTASEIARFLKALGAPSSARIY 417 (530)
Q Consensus 390 ~~G~CPLTPeEvgl~L~ALGf~~~T~IY 417 (530)
.+-..|+|++|...+|+.-||..-..+|
T Consensus 203 ~~~~~~~~~~~~~~~L~~aGF~~v~~~~ 230 (247)
T PRK15451 203 ENVMLTDSVETHKARLHKAGFEHSELWF 230 (247)
T ss_pred HhhcccCCHHHHHHHHHHcCchhHHHHH
Confidence 2346789999999999999999755444
No 6
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=50.30 E-value=52 Score=36.63 Aligned_cols=130 Identities=16% Similarity=0.277 Sum_probs=73.2
Q ss_pred ccccchhHHHHHHHHHHHHHhcCCeEEEeecchhhhHhhhcccCCCChhHHHHHHHHHhhccccccCcccCChHhHhhcC
Q 048096 313 ALRFAAPIQELGNRLARRMWIEGPYIALHLRMEKDVWVRTGCLTGLGLEYDEIIAKIRESQPEYLTGKLNMSHIQRRLAG 392 (530)
Q Consensus 313 ALrF~p~I~~lg~~LV~RmR~~GpyIALHLR~EkDMlAfsgC~~g~~~~e~~el~~~R~~~~~~~~~~~~i~~~~rR~~G 392 (530)
-+|++|-.++.-++-...|--..|-|+||.|--. .-|+++---.+++|=.++-.|++ -.++|
T Consensus 340 L~Rpqp~t~~~l~~a~k~lg~~~PivGvhvRRTD---------KVGTEAAfH~~eEYM~~vE~~f~------~le~r--- 401 (580)
T KOG3705|consen 340 LMRPQPATQEKLDKALKSLGLDKPIVGVHVRRTD---------KVGTEAAFHALEEYMEWVEIWFK------VLEKR--- 401 (580)
T ss_pred HhCCChhhHHHHHHHHHhCCCCCceeeEEEEecc---------cccchhhhhhHHHHHHHHHHHHH------HHHHh---
Confidence 5899998887655544444435599999998652 22333322334444433322221 01222
Q ss_pred CCCCCHHHHHHHHHhcCCCCCceEEEeecccCCccccchhHHhhCCCcccccccCCcccccc-------ccccccccchh
Q 048096 393 LCPLTASEIARFLKALGAPSSARIYIAGGEPFGGHQALQPLAAEFPNLVTKEMLAQEGELSP-------YVNRSSSLAAI 465 (530)
Q Consensus 393 ~CPLTPeEvgl~L~ALGf~~~T~IYlAaGeiyGg~~~L~pL~~~FPnl~tKetLas~eEL~p-------F~~~ss~~AAL 465 (530)
|=+-.-+||||+.+. .-+..-+.-|||.. +....|.+. |...+..---+
T Consensus 402 ----------------g~~~~rRiflAsDDp----~vv~EAk~kYPnYe----~igd~eia~~A~l~nRYTd~sL~GvIl 457 (580)
T KOG3705|consen 402 ----------------GKPLERRIFLASDDP----TVVPEAKNKYPNYE----VIGDTEIAKTAQLNNRYTDASLMGVIL 457 (580)
T ss_pred ----------------CCchhheEEEecCCc----hhchHhhccCCCcE----EeccHHHHHHhhccccchhhhhhheee
Confidence 334455899999983 33555678899752 222223322 22234444556
Q ss_pred heeeecCCceeecCCCCch
Q 048096 466 DYIVSLNSNVFVPSHGGNM 484 (530)
Q Consensus 466 DYiVcl~SDVFV~t~~GNf 484 (530)
|..+.+.+|..|.|.++.-
T Consensus 458 DIh~LS~~d~LVCTFSSQV 476 (580)
T KOG3705|consen 458 DIHILSKVDYLVCTFSSQV 476 (580)
T ss_pred eeeeecccceEEEechHHH
Confidence 8888888888888776643
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=38.13 E-value=33 Score=31.45 Aligned_cols=29 Identities=38% Similarity=0.455 Sum_probs=16.9
Q ss_pred CCCCCHHHHHHHHHhcCCCCCceEEEeecc
Q 048096 393 LCPLTASEIARFLKALGAPSSARIYIAGGE 422 (530)
Q Consensus 393 ~CPLTPeEvgl~L~ALGf~~~T~IYlAaGe 422 (530)
.|||+|||+...|+++--+ ....||..++
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 7999999999999999764 4677876654
No 8
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=36.81 E-value=21 Score=30.64 Aligned_cols=37 Identities=16% Similarity=0.323 Sum_probs=32.8
Q ss_pred CCCHHHHHHHHHhcCCCCCceEEEeecccCCccccchhHHhhCCCccccccc
Q 048096 395 PLTASEIARFLKALGAPSSARIYIAGGEPFGGHQALQPLAAEFPNLVTKEML 446 (530)
Q Consensus 395 PLTPeEvgl~L~ALGf~~~T~IYlAaGeiyGg~~~L~pL~~~FPnl~tKetL 446 (530)
++|-.+++-+|+-..|+ +.+|..++-++|++++++.-
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 34699999999999999744
No 9
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=30.95 E-value=51 Score=26.42 Aligned_cols=24 Identities=50% Similarity=0.635 Sum_probs=20.3
Q ss_pred HhhcCCCCCCHHHHHHHHHhcCCCC
Q 048096 388 RRLAGLCPLTASEIARFLKALGAPS 412 (530)
Q Consensus 388 rR~~G~CPLTPeEvgl~L~ALGf~~ 412 (530)
+|..|.. ++++|+..+|+.|||+-
T Consensus 12 ~~llG~~-i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGLD-LSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCCC-CCHHHHHHHHHHCCCeE
Confidence 4666764 99999999999999974
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=30.80 E-value=34 Score=28.20 Aligned_cols=16 Identities=38% Similarity=0.559 Sum_probs=13.7
Q ss_pred CCCCCCHHHHHHHHHhc
Q 048096 392 GLCPLTASEIARFLKAL 408 (530)
Q Consensus 392 G~CPLTPeEvgl~L~AL 408 (530)
|-| +||||-+.+++++
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
>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=27.13 E-value=38 Score=23.52 Aligned_cols=23 Identities=30% Similarity=0.557 Sum_probs=18.3
Q ss_pred hhhhhhh---cCCCChHHHHHHHHhh
Q 048096 507 AMLPFFE---DSSISDEEFGSIIRKI 529 (530)
Q Consensus 507 ~l~~lf~---~~~i~w~~f~~~v~~~ 529 (530)
.+.+.|| +|.|+.+||...++++
T Consensus 4 ~~F~~~D~d~dG~I~~~Ef~~~~~~L 29 (29)
T PF00036_consen 4 EAFREFDKDGDGKIDFEEFKEMMKKL 29 (29)
T ss_dssp HHHHHHSTTSSSEEEHHHHHHHHHHT
T ss_pred HHHHHHCCCCCCcCCHHHHHHHHHhC
Confidence 4556674 6899999999999875
No 12
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=26.73 E-value=76 Score=22.52 Aligned_cols=24 Identities=17% Similarity=0.462 Sum_probs=19.6
Q ss_pred hhhhhhhhcCCCChHHHHHHHHhh
Q 048096 506 KAMLPFFEDSSISDEEFGSIIRKI 529 (530)
Q Consensus 506 k~l~~lf~~~~i~w~~f~~~v~~~ 529 (530)
+.|-.++++|.|+.+||..+-+++
T Consensus 6 ~~L~~l~~~G~IseeEy~~~k~~l 29 (31)
T PF09851_consen 6 EKLKELYDKGEISEEEYEQKKARL 29 (31)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHH
Confidence 456778899999999999887653
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=21.38 E-value=69 Score=26.16 Aligned_cols=25 Identities=32% Similarity=0.545 Sum_probs=17.3
Q ss_pred HhhcCCCCCCHHHHHHHHHhcCCCCC
Q 048096 388 RRLAGLCPLTASEIARFLKALGAPSS 413 (530)
Q Consensus 388 rR~~G~CPLTPeEvgl~L~ALGf~~~ 413 (530)
.|..|.. ++++|+.-.|+.|||.-+
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 4566764 999999999999999843
Done!