Query 008637
Match_columns 558
No_of_seqs 221 out of 407
Neff 4.4
Searched_HMMs 46136
Date Thu Mar 28 14:41:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008637.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008637hhsearch_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 7E-56 1.5E-60 450.2 2.1 306 161-493 6-349 (351)
2 KOG3849 GDP-fucose protein O-f 97.3 0.00068 1.5E-08 70.1 8.0 268 153-485 28-366 (386)
3 PF05830 NodZ: Nodulation prot 95.0 0.21 4.6E-06 52.8 11.0 256 154-477 2-289 (321)
4 PLN02232 ubiquinone biosynthes 48.8 72 0.0016 29.9 7.3 101 291-414 47-153 (160)
5 PF14771 DUF4476: Domain of un 38.4 9.9 0.00021 32.9 -0.1 38 386-438 39-76 (95)
6 PF00799 Gemini_AL1: Geminivir 35.3 39 0.00084 31.2 3.1 29 384-413 14-42 (114)
7 KOG3705 Glycoprotein 6-alpha-L 29.8 2.6E+02 0.0057 31.5 8.7 70 396-473 398-474 (580)
8 PF10892 DUF2688: Protein of u 29.2 36 0.00078 28.1 1.7 16 383-399 42-57 (60)
9 COG0859 RfaF ADP-heptose:LPS h 26.0 51 0.0011 34.6 2.6 71 390-480 198-268 (334)
10 KOG3111 D-ribulose-5-phosphate 25.3 2E+02 0.0043 29.5 6.4 113 299-432 42-171 (224)
11 smart00874 B5 tRNA synthetase 23.9 60 0.0013 26.2 2.2 23 380-403 13-35 (71)
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=7e-56 Score=450.21 Aligned_cols=306 Identities=36% Similarity=0.602 Sum_probs=208.0
Q ss_pred ecCchhHHHHHHHHHHHHHHHhcceEEecccCCCccccCCCC-----CCcccChHHHHHhccccccccccCchhHHHhhc
Q 008637 161 ANGGLNQQRISICNAVAVAGYLNATLVIPNFHYHSIWRDPSK-----FRDIYDEDYFTSVLQNDVRVVNKIPEYIMERFD 235 (558)
Q Consensus 161 ~nGGLNQqR~~IcDaVavArlLNATLVlP~l~~~s~W~D~S~-----F~dIFD~dhFI~sL~~dVrIVk~LP~~l~~~~~ 235 (558)
|.||+||||.++++||++|++||+|||||.+.....|+|.++ |+++||+++|++.++++|.+.+.+|..+...+.
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 899999999999999999999999999999999999999988 999999999999999999999998876543211
Q ss_pred ccC-------------------------Cccccccccc-CCChhhHHhhcchhhhcc------ceEEEcCCCccccCC-C
Q 008637 236 HNM-------------------------SNVYNFRVKA-WSPIQFYKDEVLPKLLEE------RLIRISPFANRLSFD-A 282 (558)
Q Consensus 236 ~~~-------------------------~~~~~~~~~~-~s~~~yY~~~VlP~l~k~------~vi~l~~f~~rLa~~-l 282 (558)
... .......... |+.+.+|.++++|.+.++ +++.|.++...+..+ .
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 100 0111222333 788899999999999887 999999999999886 7
Q ss_pred CchhhhhhccccccccccchhHHHHHHHHHHHHHhccccCCCceEEEeeccchhhhhhcccccCCChhHHHHHHHHHHhc
Q 008637 283 PPAVQRLRCLANYEALRFSSPILTMGETLVARMKERSVNHGGKYISVHLRFEEDMVAFSCCVFDGGEREKEDMKEARERG 362 (558)
Q Consensus 283 P~~iQrLRCrvnf~ALrF~~~I~~lg~~LV~Rmr~~s~~~~g~yiAlHLRfE~DMlAfsgC~~~~~~~E~~eL~~~R~~~ 362 (558)
+.++|+ +|+|+++|+++|+++|++|+. .+++|||+|||+|+|| +++|.+++ ++..|..+|..
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 888887 999999999999999999993 4689999999999999 89999955 66778777754
Q ss_pred cccccCCCCcccCchhhhcCCCCCCCHHHHHHHHhhcCCCCCcEEEEeeccccCccccchhHHHhCCcccccccCCChhh
Q 008637 363 WKGKFTKPGRVIRPGAIRINGKCPLTPLEVGLMLRGMGFDKNTYIFLASGKIYNAEKTMAPLIEMFPNLQTKEMLASEEE 442 (558)
Q Consensus 363 w~~k~~~~~~~i~~~~~R~~G~CPLTPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~m~pL~~~FPnl~tKe~L~s~eE 442 (558)
.. +.+++.+.+..+.||++|++++.+++++|+.+.|.||||++++|||++.|.+|+++||++++|+++.+.+|
T Consensus 228 -~~------~~~~~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~ 300 (351)
T PF10250_consen 228 -GK------KSINPEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIYGGERRLDPLKNMFPNVVTKDDLLSHEE 300 (351)
T ss_dssp --G------GGTT-----HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS-----------HHHHHHHHGGGT--EE--
T ss_pred -cc------ccccchhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCcccccchhHHHHHHHhhhhEeccccCCHHH
Confidence 11 14677788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccccccccccccceeeeeecCcceeecCCCChhhhhhhhcccccCCccce
Q 008637 443 LAPFKNFSSRMAAVDYTVCLHSEVFVTTQGGNFPHFLMGHRRYLYGGHSKT 493 (558)
Q Consensus 443 L~pf~~~ss~~AALDYiVcl~SDVFv~t~~GNfa~~V~GhR~y~~~G~~kT 493 (558)
+++|.+ +++|+||++||++||+||+|..++|+.+|+++|+|.+..++||
T Consensus 301 ~~~~~~--~~~a~vD~~i~~~s~~Figt~~Stfs~~i~~~R~~~g~~~~~~ 349 (351)
T PF10250_consen 301 LEPLND--DQLAMVDQEICSRSDVFIGTCGSTFSSNIARERHYRGKPKRKS 349 (351)
T ss_dssp S-------S--HHHHHHHHHHSSEEEE-TT-HHHHHHHHHHHHSSSS---E
T ss_pred hhhccc--cchhHHHHHHHhcCCEEEecCcchhHHHhhcccCcCCCCCCCC
Confidence 999976 8999999999999999999998899999999999984444344
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=97.32 E-value=0.00068 Score=70.12 Aligned_cols=268 Identities=20% Similarity=0.281 Sum_probs=141.6
Q ss_pred CCceEEEE-ecCchhHHHHHHHHHHHHHHHhcceEEecccCCCccccCC-----CCCCcccChHHHHHhccccccccccC
Q 008637 153 SNGYISVE-ANGGLNQQRISICNAVAVAGYLNATLVIPNFHYHSIWRDP-----SKFRDIYDEDYFTSVLQNDVRVVNKI 226 (558)
Q Consensus 153 snGYl~V~-~nGGLNQqR~~IcDaVavArlLNATLVlP~l~~~s~W~D~-----S~F~dIFD~dhFI~sL~~dVrIVk~L 226 (558)
.||||+.- |-|-+.+|--...-..|.|+.||.|||+|..-. |-+-+ -.|...|.++- |+..-|||.-
T Consensus 28 P~GYl~yCPCMGRFGNQaDhFLGsLAFAKaLnRTL~lPpwiE--y~~pe~~n~~vpf~~yF~vep----l~~YhRVitm- 100 (386)
T KOG3849|consen 28 PAGYLLYCPCMGRFGNQADHFLGSLAFAKALNRTLVLPPWIE--YKHPETKNLMVPFEFYFQVEP----LAKYHRVITM- 100 (386)
T ss_pred CCccEEEccccccccchHHHHHHHHHHHHHhcccccCCcchh--ccCCcccccccchhheeeccc----HhhhhhheeH-
Confidence 59998765 999999999999999999999999999997542 22222 23777777653 3333344322
Q ss_pred chhHHHhh------------------------cccCCc-cc-ccccccC-------CChhhHHh------------hcch
Q 008637 227 PEYIMERF------------------------DHNMSN-VY-NFRVKAW-------SPIQFYKD------------EVLP 261 (558)
Q Consensus 227 P~~l~~~~------------------------~~~~~~-~~-~~~~~~~-------s~~~yY~~------------~VlP 261 (558)
+++++.. ..++.. -. .+ -+-| ....||.. +-+-
T Consensus 101 -~dFm~klapthwp~~~Rva~c~k~a~qr~pdkp~Ch~KeGNPF-GPfWDqfhvsFv~sE~f~~i~Fd~~~~~~~~kW~~ 178 (386)
T KOG3849|consen 101 -QDFMKKLAPTHWPGTPRVAICDKSAAQRSPDKPGCHSKEGNPF-GPFWDQFHVSFVGSEYFGDIGFDLNQMGSRKKWLE 178 (386)
T ss_pred -HHHHHHhCcccCCCCcceeeeehhhhccCCCCCCCcccCCCCC-CCchhheEeeeeccccccccccchhhcchHHHHHh
Confidence 1111110 000000 00 00 0001 11111110 0011
Q ss_pred hh--hccceEEEcCCCccccCCCCc-----hhhhhhccccccccccchhHHHHHHHHHHHHHhccccCCCceEEEeeccc
Q 008637 262 KL--LEERLIRISPFANRLSFDAPP-----AVQRLRCLANYEALRFSSPILTMGETLVARMKERSVNHGGKYISVHLRFE 334 (558)
Q Consensus 262 ~l--~k~~vi~l~~f~~rLa~~lP~-----~iQrLRCrvnf~ALrF~~~I~~lg~~LV~Rmr~~s~~~~g~yiAlHLRfE 334 (558)
++ ++|-|+.|++.-.. .|. .||| -|+.+.+|.+.|++.+.-= ...|||++|||-.
T Consensus 179 kfp~eeyPVLAf~gAPA~----FPv~~e~~~lQk--------Yl~WS~r~~e~~k~fI~a~------L~rpfvgiHLRng 240 (386)
T KOG3849|consen 179 KFPSEEYPVLAFSGAPAP----FPVKGEVWSLQK--------YLRWSSRITEQAKKFISAN------LARPFVGIHLRNG 240 (386)
T ss_pred hCCcccCceeeecCCCCC----CccccccccHHH--------HHHHHHHHHHHHHHHHHHh------cCcceeEEEeecC
Confidence 11 23344444321110 111 2565 3788899999888865432 3459999999999
Q ss_pred hhhhhhcccccCCChhHHHHHHHHHHhccccccCCCCcccCc---hhhhc-----CCCCCCCHHHH----HHHHhhcCCC
Q 008637 335 EDMVAFSCCVFDGGEREKEDMKEARERGWKGKFTKPGRVIRP---GAIRI-----NGKCPLTPLEV----GLMLRGMGFD 402 (558)
Q Consensus 335 ~DMlAfsgC~~~~~~~E~~eL~~~R~~~w~~k~~~~~~~i~~---~~~R~-----~G~CPLTPeEv----gl~LralGf~ 402 (558)
.||+-- |.+.-...- +|.-. +| ...+. ...|-=+-+|+ .+-.+.+|
T Consensus 241 ~DWvra--Cehikd~~~---------~hlfA---------SpQClGy~~~~gaLt~e~C~Psk~~I~rqik~~v~si~-- 298 (386)
T KOG3849|consen 241 ADWVRA--CEHIKDTTN---------RHLFA---------SPQCLGYGHHLGALTKEICSPSKQQILRQIKEKVGSIG-- 298 (386)
T ss_pred chHHHH--HHHhcccCC---------Ccccc---------ChhhccccccccccchhhhCccHHHHHHHHHHHHhhhc--
Confidence 999864 754322110 00000 00 00111 22453333343 22223344
Q ss_pred CCcEEEEeeccccCccccchhHH-HhCCcccccccCCChhhhccccccccccccceeeeeecCcceeecCCCChhhhhhh
Q 008637 403 KNTYIFLASGKIYNAEKTMAPLI-EMFPNLQTKEMLASEEELAPFKNFSSRMAAVDYTVCLHSEVFVTTQGGNFPHFLMG 481 (558)
Q Consensus 403 ~~T~IYlAsGeiyGg~~~m~pL~-~~FPnl~tKe~L~s~eEL~pf~~~ss~~AALDYiVcl~SDVFv~t~~GNfa~~V~G 481 (558)
.--.+|||+-. +.-+.-|. +++|-=+.-.. |+| --+-+|..|.-+||.||++--++|+.+|--
T Consensus 299 dakSVfVAsDs----~hmi~Eln~aL~~~~i~vh~------l~p------dd~y~dLaIlGqadhFiGNCvSsfsafvKR 362 (386)
T KOG3849|consen 299 DAKSVFVASDS----DHMIDELNEALKPYEIEVHR------LEP------DDMYTDLAILGQADHFIGNCVSSFSAFVKR 362 (386)
T ss_pred ccceEEEeccc----hhhhHHHHHhhcccceeEEe------cCc------ccchhhhhhhcccchhhhhhHHHHHHHHhh
Confidence 22359999876 33333342 33332111111 111 136689999999999999999999999887
Q ss_pred hccc
Q 008637 482 HRRY 485 (558)
Q Consensus 482 hR~y 485 (558)
.|-.
T Consensus 363 ERD~ 366 (386)
T KOG3849|consen 363 ERDH 366 (386)
T ss_pred hhcc
Confidence 7754
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=94.98 E-value=0.21 Score=52.80 Aligned_cols=256 Identities=18% Similarity=0.261 Sum_probs=119.5
Q ss_pred CceEEEEecCchhHHHHHHHHHHHHHHHhcceEEecccCCCccccCC----CCCCcccChHHHHHhccc--cccccccCc
Q 008637 154 NGYISVEANGGLNQQRISICNAVAVAGYLNATLVIPNFHYHSIWRDP----SKFRDIYDEDYFTSVLQN--DVRVVNKIP 227 (558)
Q Consensus 154 nGYl~V~~nGGLNQqR~~IcDaVavArlLNATLVlP~l~~~s~W~D~----S~F~dIFD~dhFI~sL~~--dVrIVk~LP 227 (558)
+.|++.+--+|+|.-=-+++-|-.+|+-.|-||||= |+++ -.|...|++ |-+-.++ .|+|+-.
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 579999999999999999999999999999999983 7775 236666654 5454442 3333311
Q ss_pred hhHHHhhcccCCcccccccccCCChhh---H---------Hhhcchhhh------ccceEEEcCCCccccCCCCchhhhh
Q 008637 228 EYIMERFDHNMSNVYNFRVKAWSPIQF---Y---------KDEVLPKLL------EERLIRISPFANRLSFDAPPAVQRL 289 (558)
Q Consensus 228 ~~l~~~~~~~~~~~~~~~~~~~s~~~y---Y---------~~~VlP~l~------k~~vi~l~~f~~rLa~~lP~~iQrL 289 (558)
+.+. ..+.+.++-+.-|-.+.- | .+++--++. .+.||+..=+.-+ -|-+..
T Consensus 71 d~i~-----~~~~~g~~fp~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~~~~------c~~~ae 139 (321)
T PF05830_consen 71 DRIN-----QFSFPGPFFPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWR------CDEEAE 139 (321)
T ss_dssp GGGG-----T----SSEESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTS------S-HHHH
T ss_pred chhh-----hhcCCCCcChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCc------chhHHH
Confidence 0000 001111221222322211 1 111111121 2345544322211 122222
Q ss_pred hccccccccccchhHHHHHHHHHHHHHhccccCCCceEEEeeccc--hhhhhhcccccCCChhHHHHHHHHHHhcccccc
Q 008637 290 RCLANYEALRFSSPILTMGETLVARMKERSVNHGGKYISVHLRFE--EDMVAFSCCVFDGGEREKEDMKEARERGWKGKF 367 (558)
Q Consensus 290 RCrvnf~ALrF~~~I~~lg~~LV~Rmr~~s~~~~g~yiAlHLRfE--~DMlAfsgC~~~~~~~E~~eL~~~R~~~w~~k~ 367 (558)
| .-|..|+-+++|++..+.+.+.-=. +..=|++|-|.- +|.+.+ +|++ ..++..|.+.
T Consensus 140 R--~if~slkpR~eIqarID~iy~ehf~-----g~~~IGVHVRhGngeD~~~h-~~~~---~D~e~~L~~V--------- 199 (321)
T PF05830_consen 140 R--EIFSSLKPRPEIQARIDAIYREHFA-----GYSVIGVHVRHGNGEDIMDH-APYW---ADEERALRQV--------- 199 (321)
T ss_dssp H--HHHHHS-B-HHHHHHHHHHHHHHTT-----TSEEEEEEE-------------------HHHHHHHHHH---------
T ss_pred H--HHHHhCCCCHHHHHHHHHHHHHHcC-----CCceEEEEEeccCCcchhcc-Cccc---cCchHHHHHH---------
Confidence 2 3588999999999998887765432 446899999932 122222 1111 0111111111
Q ss_pred CCCCcccCchhhhcCCCCCCCHHHHHHHHhhcCCCCCcEEEEeeccccCccccchhHHHhCCcccccccCCChhhhcccc
Q 008637 368 TKPGRVIRPGAIRINGKCPLTPLEVGLMLRGMGFDKNTYIFLASGKIYNAEKTMAPLIEMFPNLQTKEMLASEEELAPFK 447 (558)
Q Consensus 368 ~~~~~~i~~~~~R~~G~CPLTPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~m~pL~~~FPnl~tKe~L~s~eEL~pf~ 447 (558)
......++++=...++.|+||+-. .+.++-|++.||.+++-++=..+..-.+..
T Consensus 200 ----------------------~~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g~Lh 253 (321)
T PF05830_consen 200 ----------------------CTAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAGPLH 253 (321)
T ss_dssp ----------------------HHHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE---------------
T ss_pred ----------------------HHHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCCcCc
Confidence 011223455666778999999988 677999999999998875544322211221
Q ss_pred cc-----ccccccceeeeeecCccee-ecCCCChhh
Q 008637 448 NF-----SSRMAAVDYTVCLHSEVFV-TTQGGNFPH 477 (558)
Q Consensus 448 ~~-----ss~~AALDYiVcl~SDVFv-~t~~GNfa~ 477 (558)
+. .-..|-+|-+....+|+-| .+-.+.|.+
T Consensus 254 s~~~g~~gg~~ALIDM~LLSrCD~LIr~~ptS~Fsr 289 (321)
T PF05830_consen 254 SAAVGIEGGESALIDMYLLSRCDYLIRFPPTSAFSR 289 (321)
T ss_dssp -HHHHHHHHHHHHHHHHHHTTSSEEEEESTT-GGGH
T ss_pred ccccccchHHHHHHHHHHHHhCCeEEEcCCCchhhh
Confidence 11 1124889999999999999 555555554
No 4
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=48.80 E-value=72 Score=29.89 Aligned_cols=101 Identities=14% Similarity=-0.043 Sum_probs=56.4
Q ss_pred ccccccccccchhHHHHHHHHHHHHHhccccCCCceEEEeeccchhhhhh----cccccCCChhHHH--HHHHHHHhccc
Q 008637 291 CLANYEALRFSSPILTMGETLVARMKERSVNHGGKYISVHLRFEEDMVAF----SCCVFDGGEREKE--DMKEARERGWK 364 (558)
Q Consensus 291 Crvnf~ALrF~~~I~~lg~~LV~Rmr~~s~~~~g~yiAlHLRfE~DMlAf----sgC~~~~~~~E~~--eL~~~R~~~w~ 364 (558)
+.++..+|++.++..+.-+.+.+.|+ .+|.++-++.-.+...+.. .-|...+...+.- ...+|++-
T Consensus 47 ~v~~~~~l~~~~d~~~~l~ei~rvLk-----pGG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~yl--- 118 (160)
T PLN02232 47 AVTMGYGLRNVVDRLRAMKEMYRVLK-----PGSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEYL--- 118 (160)
T ss_pred EEEecchhhcCCCHHHHHHHHHHHcC-----cCeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHhH---
Confidence 33445577777777777788888887 4788887766544321110 0011000000000 00011100
Q ss_pred cccCCCCcccCchhhhcCCCCCCCHHHHHHHHhhcCCCCCcEEEEeeccc
Q 008637 365 GKFTKPGRVIRPGAIRINGKCPLTPLEVGLMLRGMGFDKNTYIFLASGKI 414 (558)
Q Consensus 365 ~k~~~~~~~i~~~~~R~~G~CPLTPeEvgl~LralGf~~~T~IYlAsGei 414 (558)
...... +++|+|+..+|+..||.+-+.-+++.|-+
T Consensus 119 --------------~~si~~-f~~~~el~~ll~~aGF~~~~~~~~~~g~~ 153 (160)
T PLN02232 119 --------------KYSING-YLTGEELETLALEAGFSSACHYEISGGFM 153 (160)
T ss_pred --------------HHHHHH-CcCHHHHHHHHHHcCCCcceEEECcchHh
Confidence 001122 58999999999999999988888887753
No 5
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=38.36 E-value=9.9 Score=32.88 Aligned_cols=38 Identities=18% Similarity=0.268 Sum_probs=33.6
Q ss_pred CCCHHHHHHHHhhcCCCCCcEEEEeeccccCccccchhHHHhCCcccccccCC
Q 008637 386 PLTPLEVGLMLRGMGFDKNTYIFLASGKIYNAEKTMAPLIEMFPNLQTKEMLA 438 (558)
Q Consensus 386 PLTPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~m~pL~~~FPnl~tKe~L~ 438 (558)
++|-.|++-+|+-..|++ .+|..|+.++|++++++.--
T Consensus 39 ~~T~~Qv~~il~~f~fd~---------------~kl~~lk~l~p~i~D~~n~~ 76 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFDN---------------DKLKALKLLYPYIVDPQNYY 76 (95)
T ss_pred ceeHHHHHHHHHHcCCCH---------------HHHHHHHHHhhhccCHHHHH
Confidence 499999999999999987 36999999999999997443
No 6
>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=35.29 E-value=39 Score=31.17 Aligned_cols=29 Identities=17% Similarity=0.218 Sum_probs=16.6
Q ss_pred CCCCCHHHHHHHHhhcCCCCCcEEEEeecc
Q 008637 384 KCPLTPLEVGLMLRGMGFDKNTYIFLASGK 413 (558)
Q Consensus 384 ~CPLTPeEvgl~LralGf~~~T~IYlAsGe 413 (558)
+|||||||+...|+++--+ ....||..++
T Consensus 14 qC~l~ke~~l~~L~~l~~~-~~~~yI~v~r 42 (114)
T PF00799_consen 14 QCSLTKEEALEQLKNLLTP-SNKKYIRVCR 42 (114)
T ss_dssp T----HHHHHHHHHH---S-S-EEEEEEEE
T ss_pred CCCCCHHHHHHHHHHhCCc-cCceEEEeec
Confidence 6999999999999999754 4667876654
No 7
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=29.79 E-value=2.6e+02 Score=31.54 Aligned_cols=70 Identities=20% Similarity=0.254 Sum_probs=40.0
Q ss_pred HhhcCCCCCcEEEEeeccccCccccchhHHHhCCcccccccCCChhhhcccccccc-------ccccceeeeeecCccee
Q 008637 396 LRGMGFDKNTYIFLASGKIYNAEKTMAPLIEMFPNLQTKEMLASEEELAPFKNFSS-------RMAAVDYTVCLHSEVFV 468 (558)
Q Consensus 396 LralGf~~~T~IYlAsGeiyGg~~~m~pL~~~FPnl~tKe~L~s~eEL~pf~~~ss-------~~AALDYiVcl~SDVFv 468 (558)
|..-|=+-.-+||||+-+ ..-+..-+.-|||. .+.+..|.+.-..-.+ .---+|..+.+.+|..|
T Consensus 398 le~rg~~~~rRiflAsDD----p~vv~EAk~kYPnY----e~igd~eia~~A~l~nRYTd~sL~GvIlDIh~LS~~d~LV 469 (580)
T KOG3705|consen 398 LEKRGKPLERRIFLASDD----PTVVPEAKNKYPNY----EVIGDTEIAKTAQLNNRYTDASLMGVILDIHILSKVDYLV 469 (580)
T ss_pred HHHhCCchhheEEEecCC----chhchHhhccCCCc----EEeccHHHHHHhhccccchhhhhhheeeeeeeecccceEE
Confidence 333344556689999998 34466668889986 3444455554332222 22345555666666666
Q ss_pred ecCCC
Q 008637 469 TTQGG 473 (558)
Q Consensus 469 ~t~~G 473 (558)
.|.++
T Consensus 470 CTFSS 474 (580)
T KOG3705|consen 470 CTFSS 474 (580)
T ss_pred EechH
Confidence 55444
No 8
>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=29.15 E-value=36 Score=28.14 Aligned_cols=16 Identities=38% Similarity=0.675 Sum_probs=13.6
Q ss_pred CCCCCCHHHHHHHHhhc
Q 008637 383 GKCPLTPLEVGLMLRGM 399 (558)
Q Consensus 383 G~CPLTPeEvgl~Lral 399 (558)
|-| +||||-+.+++++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 557 9999999999875
No 9
>COG0859 RfaF ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]
Probab=25.96 E-value=51 Score=34.58 Aligned_cols=71 Identities=20% Similarity=0.276 Sum_probs=47.4
Q ss_pred HHHHHHHhhcCCCCCcEEEEeeccccCccccchhHHHhCCcccccccCCChhhhccccccccccccceeeeeecCcceee
Q 008637 390 LEVGLMLRGMGFDKNTYIFLASGKIYNAEKTMAPLIEMFPNLQTKEMLASEEELAPFKNFSSRMAAVDYTVCLHSEVFVT 469 (558)
Q Consensus 390 eEvgl~LralGf~~~T~IYlAsGeiyGg~~~m~pL~~~FPnl~tKe~L~s~eEL~pf~~~ss~~AALDYiVcl~SDVFv~ 469 (558)
.|+...|.+-| ..|.|.+|. .-++..+-+.+..++.+. |+....|..+ +||- ..||.||+
T Consensus 198 ~~l~~~l~~~~----~~Vvl~g~~--~e~e~~~~i~~~~~~~~~---l~~k~sL~e~-------~~li----~~a~l~I~ 257 (334)
T COG0859 198 AELAELLIAKG----YQVVLFGGP--DEEERAEEIAKGLPNAVI---LAGKTSLEEL-------AALI----AGADLVIG 257 (334)
T ss_pred HHHHHHHHHCC----CEEEEecCh--HHHHHHHHHHHhcCCccc---cCCCCCHHHH-------HHHH----hcCCEEEc
Confidence 47888888888 779999887 334445667777777655 5554444333 3332 68899999
Q ss_pred cCCCChhhhhh
Q 008637 470 TQGGNFPHFLM 480 (558)
Q Consensus 470 t~~GNfa~~V~ 480 (558)
+++|-|.=+-+
T Consensus 258 ~DSg~~HlAaA 268 (334)
T COG0859 258 NDSGPMHLAAA 268 (334)
T ss_pred cCChHHHHHHH
Confidence 99995544433
No 10
>KOG3111 consensus D-ribulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=25.35 E-value=2e+02 Score=29.49 Aligned_cols=113 Identities=25% Similarity=0.386 Sum_probs=64.3
Q ss_pred ccchhHHHHHHHHHHHHHhccccCCCceEEEeeccch-----hhhhhccc----ccCCC-hhHHHHHHHHHHhccccccC
Q 008637 299 RFSSPILTMGETLVARMKERSVNHGGKYISVHLRFEE-----DMVAFSCC----VFDGG-EREKEDMKEARERGWKGKFT 368 (558)
Q Consensus 299 rF~~~I~~lg~~LV~Rmr~~s~~~~g~yiAlHLRfE~-----DMlAfsgC----~~~~~-~~E~~eL~~~R~~~w~~k~~ 368 (558)
+|+|.| .+|--+|++||+.. ..-+|+-+||=.|. |=+|-.|- -|-.. ++-.+-.+++|++.-|
T Consensus 42 ~FVpNi-T~G~pvV~slR~~~--~~~~ffD~HmMV~~Peq~V~~~a~agas~~tfH~E~~q~~~~lv~~ir~~Gmk---- 114 (224)
T KOG3111|consen 42 HFVPNI-TFGPPVVESLRKHT--GADPFFDVHMMVENPEQWVDQMAKAGASLFTFHYEATQKPAELVEKIREKGMK---- 114 (224)
T ss_pred cccCCc-ccchHHHHHHHhcc--CCCcceeEEEeecCHHHHHHHHHhcCcceEEEEEeeccCHHHHHHHHHHcCCe----
Confidence 577776 47888999999842 23469999997764 11222111 11111 1112233455554332
Q ss_pred CCCcccCchhhhcCCCCCCCHHHHHHHHhhcCCCCCcEEEEeeccccCccccch-------hHHHhCCccc
Q 008637 369 KPGRVIRPGAIRINGKCPLTPLEVGLMLRGMGFDKNTYIFLASGKIYNAEKTMA-------PLIEMFPNLQ 432 (558)
Q Consensus 369 ~~~~~i~~~~~R~~G~CPLTPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~m~-------pL~~~FPnl~ 432 (558)
-|-.++ |=||-|.-..+.. .-+-.+-.+.---|||++.|. -||+-|||+.
T Consensus 115 -~G~alk----------PgT~Ve~~~~~~~---~~D~vLvMtVePGFGGQkFme~mm~KV~~lR~kyp~l~ 171 (224)
T KOG3111|consen 115 -VGLALK----------PGTPVEDLEPLAE---HVDMVLVMTVEPGFGGQKFMEDMMPKVEWLREKYPNLD 171 (224)
T ss_pred -eeEEeC----------CCCcHHHHHHhhc---cccEEEEEEecCCCchhhhHHHHHHHHHHHHHhCCCce
Confidence 222233 5577776665544 234445555555799999985 4788899874
No 11
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=23.93 E-value=60 Score=26.20 Aligned_cols=23 Identities=30% Similarity=0.580 Sum_probs=19.5
Q ss_pred hcCCCCCCCHHHHHHHHhhcCCCC
Q 008637 380 RINGKCPLTPLEVGLMLRGMGFDK 403 (558)
Q Consensus 380 R~~G~CPLTPeEvgl~LralGf~~ 403 (558)
+..|. .++++|+..+|+.|||+-
T Consensus 13 ~llG~-~i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 13 RLLGL-DLSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHCC-CCCHHHHHHHHHHCCCeE
Confidence 45565 499999999999999975
Done!