Query 006724
Match_columns 633
No_of_seqs 178 out of 394
Neff 3.9
Searched_HMMs 46136
Date Thu Mar 28 13:34:45 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006724.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006724hhsearch_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 5.6E-55 1.2E-59 445.4 5.6 296 228-542 6-345 (351)
2 KOG3849 GDP-fucose protein O-f 97.8 0.00014 2.9E-09 76.2 11.1 276 218-541 26-369 (386)
3 PF05830 NodZ: Nodulation prot 97.2 0.012 2.6E-07 62.7 16.5 253 221-531 2-290 (321)
4 PF08047 His_leader: Histidine 68.6 2.2 4.8E-05 27.1 0.6 9 82-90 8-16 (16)
5 PRK09727 his operon leader pep 60.6 3.6 7.8E-05 28.9 0.5 11 82-92 8-18 (26)
6 PF14771 DUF4476: Domain of un 53.9 6.3 0.00014 34.6 1.0 56 440-511 39-94 (95)
7 PLN02232 ubiquinone biosynthes 42.2 72 0.0016 30.3 6.3 99 355-468 49-153 (160)
8 PF00036 EF-hand_1: EF hand; 32.2 38 0.00083 24.2 2.1 27 550-576 3-29 (29)
9 PF00799 Gemini_AL1: Geminivir 31.1 50 0.0011 31.0 3.2 29 438-467 14-42 (114)
10 KOG3705 Glycoprotein 6-alpha-L 30.9 1E+02 0.0022 35.1 6.0 146 359-550 340-492 (580)
11 PRK15451 tRNA cmo(5)U34 methyl 23.1 1E+02 0.0022 31.2 4.1 29 434-462 202-230 (247)
12 PF10892 DUF2688: Protein of u 22.4 63 0.0014 27.4 1.9 16 437-453 42-57 (60)
13 smart00874 B5 tRNA synthetase 22.1 77 0.0017 26.0 2.5 23 434-457 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=5.6e-55 Score=445.36 Aligned_cols=296 Identities=36% Similarity=0.646 Sum_probs=207.7
Q ss_pred eCCChhhHHHHHHHHHHHHHHhcceEeecccCCCCccCCCCC-----CcccccHHHHHHHccccceeeccCchhhhccC-
Q 006724 228 ANGGLNQMRTGICDMVAVAKIMNATLVLPLLDHESFWTDPSD-----FKDIFDWRHFMNVLKDDVNIVEYLPTRYARKK- 301 (633)
Q Consensus 228 ~nGGLNQqR~~IcDAVaVARiLNATLVlP~L~~~S~WkD~S~-----F~DIFD~dhFI~sL~~dVrIVk~LP~~l~~~~- 301 (633)
+.||+||||.++++||++|++||+|||||.+.....|++.+. |+++||+++|++.++.+|.+.+.+|.......
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 889999999999999999999999999999999999999887 99999999999999999999999886554321
Q ss_pred ------------------------------CCccCCCC-CCCchhhhhhcccccccc------ceEEEecCCcccccCCC
Q 006724 302 ------------------------------PLLKAPVS-WSKASYYRNEMVPLLKKH------KVIKFSHTDSRLANNGL 344 (633)
Q Consensus 302 ------------------------------p~~k~p~~-ws~~~yY~~~VlP~L~k~------~VI~l~~fd~RLa~d~l 344 (633)
+....+.. |+.+.+|.++++|.+.++ +|+.|.++...+..+.+
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 11112222 677788888899999886 99999999999998888
Q ss_pred CcchhhhhchhcccccccchhHHHHHHHHHHHHHhCCCCeEEEecccchhhhhhhcCCCCCCHHHHHHHHHHhhhccccc
Q 006724 345 AGSIQRLRCRANYEALRYSKDIEDLGKILVDRLRNNSEPYVALHLRYEKDMLAFTGCSHNLTAEEAEDLRVMRYNVKHWK 424 (633)
Q Consensus 345 P~diQrLRCrvnf~ALrF~~~I~eLg~kLV~RMR~~~gpYIALHLR~EkDMLAfsgC~~g~~~~E~~eL~~~R~~~~~Wk 424 (633)
+.++|| +|+|+++|+++|+++|++|...+++|||+|||+|+|| +++|.+++ +...|+.+|. |.
T Consensus 166 ~~~~~r--------~l~~~~~i~~~a~~~i~~~~~~~~~yiavHlR~~~D~--~~~C~~~~---~~~~~~~~~~----~~ 228 (351)
T PF10250_consen 166 DRDLQR--------YLRFSPEIRELADKFIKRLLAGGGPYIAVHLRRGKDW--FSACEFKG---ERHLLASPRC----WG 228 (351)
T ss_dssp GGGGGG--------G--B-HHHHHHHHHHHHHH----SSEEEEEE--SHHH--HHHHCT-T-------TTTHHH----H-
T ss_pred CccceE--------EEecCHHHHHHHHHHHHHhhcccCceEEEeecccCch--HhhcccCC---chHHHHHhHh----hc
Confidence 888887 8999999999999999999955799999999999999 88899954 7777877774 34
Q ss_pred ccccchHhhhhCCCCCCCHHHHHHHHHHhCCCCCcEEEEEeccccCCCc-hhhHHHhCCcccccccCCChhhccccCCch
Q 006724 425 EKEIDGIKRRLQGGCPMSPREAALFLKALGYPSTTTIYIVAGEIYGSSS-MAAFREEFPNVFSHSTLATEEELEPFKPYQ 503 (633)
Q Consensus 425 ~k~i~~~e~R~~G~CPLTPeEvgl~LraLGf~~~T~IYLAsGeiyGg~s-L~pLk~~FPnl~TKetLas~eEL~pF~~~s 503 (633)
.+.+.+.+.|..+.||++|++++.+++++|+.+.|.||||++++|||.+ |.+|++.||++++|+++.+.+|+++|.+
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 5556677788999999999999999999999999999999999999988 9999999999999999999999999976
Q ss_pred hhhhhhhhhhhccCCeeeecCCCcHHHHHhhhhhccCCc
Q 006724 504 NRLAALDYLVALESDVFVHTYDGNMAKAVQGHRRFEGFR 542 (633)
Q Consensus 504 s~lAALDYiVcl~SDVFV~t~~GNfa~~V~GhR~y~G~~ 542 (633)
+++|+||++||++||+||+|..++|+.+|+++|+|.|+.
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 899999999999999999999888999999999999964
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=97.82 E-value=0.00014 Score=76.17 Aligned_cols=276 Identities=20% Similarity=0.300 Sum_probs=150.1
Q ss_pred CCCCcEEEEE-eCCChhhHHHHHHHHHHHHHHhcceEeecccCCCCccCC-----CCCCcccccHHH------------H
Q 006724 218 KKTNGYIVVH-ANGGLNQMRTGICDMVAVAKIMNATLVLPLLDHESFWTD-----PSDFKDIFDWRH------------F 279 (633)
Q Consensus 218 ~~snGYL~V~-~nGGLNQqR~~IcDAVaVARiLNATLVlP~L~~~S~WkD-----~S~F~DIFD~dh------------F 279 (633)
...||||+.- |-|-..+|-....-..|.|+.||.|||+|-.-. |-+. --.|...|.++- |
T Consensus 26 ~DP~GYl~yCPCMGRFGNQaDhFLGsLAFAKaLnRTL~lPpwiE--y~~pe~~n~~vpf~~yF~vepl~~YhRVitm~dF 103 (386)
T KOG3849|consen 26 WDPAGYLLYCPCMGRFGNQADHFLGSLAFAKALNRTLVLPPWIE--YKHPETKNLMVPFEFYFQVEPLAKYHRVITMQDF 103 (386)
T ss_pred CCCCccEEEccccccccchHHHHHHHHHHHHHhcccccCCcchh--ccCCcccccccchhheeecccHhhhhhheeHHHH
Confidence 4579998876 999999999999999999999999999996532 1111 236888887653 3
Q ss_pred HHHccccc-----eee--ccCchhhhccCCC-----cc--CC--CCC-------CCchhhhh------hc------ccc-
Q 006724 280 MNVLKDDV-----NIV--EYLPTRYARKKPL-----LK--AP--VSW-------SKASYYRN------EM------VPL- 323 (633)
Q Consensus 280 I~sL~~dV-----rIV--k~LP~~l~~~~p~-----~k--~p--~~w-------s~~~yY~~------~V------lP~- 323 (633)
++-|..+. ||. .+ +-....|- .| .| .-| .+..||-. +. +..
T Consensus 104 m~klapthwp~~~Rva~c~k---~a~qr~pdkp~Ch~KeGNPFGPfWDqfhvsFv~sE~f~~i~Fd~~~~~~~~kW~~kf 180 (386)
T KOG3849|consen 104 MKKLAPTHWPGTPRVAICDK---SAAQRSPDKPGCHSKEGNPFGPFWDQFHVSFVGSEYFGDIGFDLNQMGSRKKWLEKF 180 (386)
T ss_pred HHHhCcccCCCCcceeeeeh---hhhccCCCCCCCcccCCCCCCCchhheEeeeeccccccccccchhhcchHHHHHhhC
Confidence 33333322 110 00 00001110 00 01 012 11112211 00 000
Q ss_pred -ccccceEEEecCCccc--ccCCCCcchhhhhchhcccccccchhHHHHHHHHHHHHHhCCCCeEEEecccchhhhhhhc
Q 006724 324 -LKKHKVIKFSHTDSRL--ANNGLAGSIQRLRCRANYEALRYSKDIEDLGKILVDRLRNNSEPYVALHLRYEKDMLAFTG 400 (633)
Q Consensus 324 -L~k~~VI~l~~fd~RL--a~d~lP~diQrLRCrvnf~ALrF~~~I~eLg~kLV~RMR~~~gpYIALHLR~EkDMLAfsg 400 (633)
-++|-|+.|++..... -...+ .|||- |+.+.+|.+-|++.+.-- -..||+++|||...||+--
T Consensus 181 p~eeyPVLAf~gAPA~FPv~~e~~--~lQkY--------l~WS~r~~e~~k~fI~a~--L~rpfvgiHLRng~DWvra-- 246 (386)
T KOG3849|consen 181 PSEEYPVLAFSGAPAPFPVKGEVW--SLQKY--------LRWSSRITEQAKKFISAN--LARPFVGIHLRNGADWVRA-- 246 (386)
T ss_pred CcccCceeeecCCCCCCccccccc--cHHHH--------HHHHHHHHHHHHHHHHHh--cCcceeEEEeecCchHHHH--
Confidence 1346666665532211 00111 36774 899999999999877432 2579999999999999865
Q ss_pred CCCCCCHHHHHHHHHHhhhcccccccccchHhhhh-----CCCCCCCHHHHH----HHHHHhCCCCCcEEEEEeccccCC
Q 006724 401 CSHNLTAEEAEDLRVMRYNVKHWKEKEIDGIKRRL-----QGGCPMSPREAA----LFLKALGYPSTTTIYIVAGEIYGS 471 (633)
Q Consensus 401 C~~g~~~~E~~eL~~~R~~~~~Wk~k~i~~~e~R~-----~G~CPLTPeEvg----l~LraLGf~~~T~IYLAsGeiyGg 471 (633)
|.+--..+ - ++.--..---...+. ...|-=..+||- +-.+.+| .-..+|+|+-.
T Consensus 247 Cehikd~~-------~----~hlfASpQClGy~~~~gaLt~e~C~Psk~~I~rqik~~v~si~--dakSVfVAsDs---- 309 (386)
T KOG3849|consen 247 CEHIKDTT-------N----RHLFASPQCLGYGHHLGALTKEICSPSKQQILRQIKEKVGSIG--DAKSVFVASDS---- 309 (386)
T ss_pred HHHhcccC-------C----CccccChhhccccccccccchhhhCccHHHHHHHHHHHHhhhc--ccceEEEeccc----
Confidence 75521100 0 011000000000111 134533344442 2222333 23358999644
Q ss_pred Cc-hhhHH-HhCCcccccccCCChhhccccCCchhhhhhhhhhhhccCCeeeecCCCcHHHHHhhhhhccCC
Q 006724 472 SS-MAAFR-EEFPNVFSHSTLATEEELEPFKPYQNRLAALDYLVALESDVFVHTYDGNMAKAVQGHRRFEGF 541 (633)
Q Consensus 472 ~s-L~pLk-~~FPnl~TKetLas~eEL~pF~~~ss~lAALDYiVcl~SDVFV~t~~GNfa~~V~GhR~y~G~ 541 (633)
+. +..|. +++|-=+.-. .|+| --+-+|..|.-+||.||++--++|+..|.-.|-..|+
T Consensus 310 ~hmi~Eln~aL~~~~i~vh------~l~p------dd~y~dLaIlGqadhFiGNCvSsfsafvKRERD~~Gr 369 (386)
T KOG3849|consen 310 DHMIDELNEALKPYEIEVH------RLEP------DDMYTDLAILGQADHFIGNCVSSFSAFVKRERDHAGR 369 (386)
T ss_pred hhhhHHHHHhhcccceeEE------ecCc------ccchhhhhhhcccchhhhhhHHHHHHHHhhhhcccCC
Confidence 33 33343 2333111111 1111 2366899999999999999999999999999988883
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=97.24 E-value=0.012 Score=62.71 Aligned_cols=253 Identities=18% Similarity=0.314 Sum_probs=126.8
Q ss_pred CcEEEEEeCCChhhHHHHHHHHHHHHHHhcceEeecccCCCCccCC----CCCCcccccHHHHHHHcc--ccceeeccCc
Q 006724 221 NGYIVVHANGGLNQMRTGICDMVAVAKIMNATLVLPLLDHESFWTD----PSDFKDIFDWRHFMNVLK--DDVNIVEYLP 294 (633)
Q Consensus 221 nGYL~V~~nGGLNQqR~~IcDAVaVARiLNATLVlP~L~~~S~WkD----~S~F~DIFD~dhFI~sL~--~dVrIVk~LP 294 (633)
+.|++..--+|++.-==+++-|-.+|+-.|.||||= |++ ...|...|++ |-+-.+ ..|+|+-+-+
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 568999999999999999999999999999999996 888 3577777765 555554 3455552211
Q ss_pred -hhhhccCCCccCCCCCCCchh---hh--h-------hcccccc------ccceEEEecCCcccccCCCCcchhhhhchh
Q 006724 295 -TRYARKKPLLKAPVSWSKASY---YR--N-------EMVPLLK------KHKVIKFSHTDSRLANNGLAGSIQRLRCRA 355 (633)
Q Consensus 295 -~~l~~~~p~~k~p~~ws~~~y---Y~--~-------~VlP~L~------k~~VI~l~~fd~RLa~d~lP~diQrLRCrv 355 (633)
.+++-.-|. -|.-|-+|.- |. + ++--++. ...||+..=+..+... +..||
T Consensus 73 i~~~~~~g~~--fp~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~~~~c~~-------~aeR~-- 141 (321)
T PF05830_consen 73 INQFSFPGPF--FPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWRCDE-------EAERE-- 141 (321)
T ss_dssp GGT----SSE--ESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTSS-H-------HHHHH--
T ss_pred hhhhcCCCCc--ChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCcchh-------HHHHH--
Confidence 111111111 2334444321 11 1 1112222 3567776655544432 22222
Q ss_pred cccccccchhHHHHHHHHHHHHHhCCCCeEEEecccc--hhhhhhhcCCCCCCHHHHHHHHHHhhhcccccccccchHhh
Q 006724 356 NYEALRYSKDIEDLGKILVDRLRNNSEPYVALHLRYE--KDMLAFTGCSHNLTAEEAEDLRVMRYNVKHWKEKEIDGIKR 433 (633)
Q Consensus 356 nf~ALrF~~~I~eLg~kLV~RMR~~~gpYIALHLR~E--kDMLAfsgC~~g~~~~E~~eL~~~R~~~~~Wk~k~i~~~e~ 433 (633)
.|..|+-+++|++..+.+.+.-=. +..=|++|.|.- +|.+.+ +| .|....
T Consensus 142 if~slkpR~eIqarID~iy~ehf~-g~~~IGVHVRhGngeD~~~h-~~--------------------~~~D~e------ 193 (321)
T PF05830_consen 142 IFSSLKPRPEIQARIDAIYREHFA-GYSVIGVHVRHGNGEDIMDH-AP--------------------YWADEE------ 193 (321)
T ss_dssp HHHHS-B-HHHHHHHHHHHHHHTT-TSEEEEEEE------------------------------------HHHH------
T ss_pred HHHhCCCCHHHHHHHHHHHHHHcC-CCceEEEEEeccCCcchhcc-Cc--------------------cccCch------
Confidence 588999999999999988766533 456899999942 233333 22 232211
Q ss_pred hhCCCCCCCHHHH---HHHHHHhCCCCCcEEEEEeccccCCCchhhHHHhCCcccccccCCChhhccccCCc-----hhh
Q 006724 434 RLQGGCPMSPREA---ALFLKALGYPSTTTIYIVAGEIYGSSSMAAFREEFPNVFSHSTLATEEELEPFKPY-----QNR 505 (633)
Q Consensus 434 R~~G~CPLTPeEv---gl~LraLGf~~~T~IYLAsGeiyGg~sL~pLk~~FPnl~TKetLas~eEL~pF~~~-----ss~ 505 (633)
.+=..| -..++++-...++.|+||+=.- +-++-+++.||.+++-++=..+..-.++... .-.
T Consensus 194 -------~~L~~V~~ai~~ak~~~~~k~~~IFLATDSa---eVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~~gg~ 263 (321)
T PF05830_consen 194 -------RALRQVCTAIDKAKALAPPKPVRIFLATDSA---EVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGIEGGE 263 (321)
T ss_dssp -------HHHHHHHHHHHHHHTS--SS-EEEEEEES-H---HHHHHHHHHSTTEE----------------HHHHHHHHH
T ss_pred -------HHHHHHHHHHHHHHhccCCCCeeEEEecCcH---HHHHHHHHHCCCeEEcccccCCCCCCcCcccccccchHH
Confidence 001111 1233555566789999997651 2299999999998877553332221122221 113
Q ss_pred hhhhhhhhhccCCeee-ecCCCcHHHH
Q 006724 506 LAALDYLVALESDVFV-HTYDGNMAKA 531 (633)
Q Consensus 506 lAALDYiVcl~SDVFV-~t~~GNfa~~ 531 (633)
.|.||-+...++|+-| .+-.+.|.+.
T Consensus 264 ~ALIDM~LLSrCD~LIr~~ptS~Fsr~ 290 (321)
T PF05830_consen 264 SALIDMYLLSRCDYLIRFPPTSAFSRY 290 (321)
T ss_dssp HHHHHHHHHTTSSEEEEESTT-GGGHH
T ss_pred HHHHHHHHHHhCCeEEEcCCCchhhhH
Confidence 5899999999999999 6666665543
No 4
>PF08047 His_leader: Histidine operon leader peptide; InterPro: IPR012565 This family consists of the leader peptide of the histidine (his) operon. The his operon contains all the genes necessary for histidine biosynthesis. The region corresponding to the untranslated 5'-end of the transcript, named the his leader region, displays the typical features of the T box transcriptional attenuation mechanism which is involved in the regulation of many amino acid biosynthetic operons [].; GO: 0000105 histidine biosynthetic process
Probab=68.56 E-value=2.2 Score=27.15 Aligned_cols=9 Identities=44% Similarity=0.940 Sum_probs=6.6
Q ss_pred CCcccCCcc
Q 006724 82 HDHFHNHQG 90 (633)
Q Consensus 82 ~~~~~~~~~ 90 (633)
|+||||||.
T Consensus 8 ~hhhhhhpd 16 (16)
T PF08047_consen 8 HHHHHHHPD 16 (16)
T ss_pred ccccccCCC
Confidence 677788873
No 5
>PRK09727 his operon leader peptide; Provisional
Probab=60.58 E-value=3.6 Score=28.92 Aligned_cols=11 Identities=36% Similarity=0.767 Sum_probs=9.1
Q ss_pred CCcccCCcchh
Q 006724 82 HDHFHNHQGVR 92 (633)
Q Consensus 82 ~~~~~~~~~~~ 92 (633)
|+||||||...
T Consensus 8 hhhhhhhpd~~ 18 (26)
T PRK09727 8 HHHHHHHPDXX 18 (26)
T ss_pred ccccccCCCcc
Confidence 78889999765
No 6
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=53.86 E-value=6.3 Score=34.62 Aligned_cols=56 Identities=11% Similarity=0.167 Sum_probs=40.2
Q ss_pred CCCHHHHHHHHHHhCCCCCcEEEEEeccccCCCchhhHHHhCCcccccccCCChhhccccCCchhhhhhhhh
Q 006724 440 PMSPREAALFLKALGYPSTTTIYIVAGEIYGSSSMAAFREEFPNVFSHSTLATEEELEPFKPYQNRLAALDY 511 (633)
Q Consensus 440 PLTPeEvgl~LraLGf~~~T~IYLAsGeiyGg~sL~pLk~~FPnl~TKetLas~eEL~pF~~~ss~lAALDY 511 (633)
++|..|++-+|+...|++ ++|..|+-++|++++++.--.-.+.-.| .+++..|-+|
T Consensus 39 ~~T~~Qv~~il~~f~fd~--------------~kl~~lk~l~p~i~D~~n~~~i~~~f~f--~s~k~~~~~~ 94 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFDN--------------DKLKALKLLYPYIVDPQNYYTIIDAFSF--SSDKDKAREI 94 (95)
T ss_pred ceeHHHHHHHHHHcCCCH--------------HHHHHHHHHhhhccCHHHHHHHHHHhcC--cccHHHHHHh
Confidence 499999999999998876 5799999999999999743332233223 2445555444
No 7
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=42.25 E-value=72 Score=30.31 Aligned_cols=99 Identities=13% Similarity=0.032 Sum_probs=55.6
Q ss_pred hcccccccchhHHHHHHHHHHHHHhCCCCeEEEecccchhhhh----hhcCCCCCCHHHHH--HHHHHhhhccccccccc
Q 006724 355 ANYEALRYSKDIEDLGKILVDRLRNNSEPYVALHLRYEKDMLA----FTGCSHNLTAEEAE--DLRVMRYNVKHWKEKEI 428 (633)
Q Consensus 355 vnf~ALrF~~~I~eLg~kLV~RMR~~~gpYIALHLR~EkDMLA----fsgC~~g~~~~E~~--eL~~~R~~~~~Wk~k~i 428 (633)
++..+|++.++..+.-..+.+.|+. +|.++-++...+...+. .+-|....-+-..- ...+|+|-
T Consensus 49 ~~~~~l~~~~d~~~~l~ei~rvLkp-GG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~yl--------- 118 (160)
T PLN02232 49 TMGYGLRNVVDRLRAMKEMYRVLKP-GSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEYL--------- 118 (160)
T ss_pred EecchhhcCCCHHHHHHHHHHHcCc-CeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHhH---------
Confidence 3445677777877777777777765 57777777655432211 11121110000000 00111110
Q ss_pred chHhhhhCCCCCCCHHHHHHHHHHhCCCCCcEEEEEeccc
Q 006724 429 DGIKRRLQGGCPMSPREAALFLKALGYPSTTTIYIVAGEI 468 (633)
Q Consensus 429 ~~~e~R~~G~CPLTPeEvgl~LraLGf~~~T~IYLAsGei 468 (633)
...... +++|+|...+|+..||.+-+.-+++.|-.
T Consensus 119 ----~~si~~-f~~~~el~~ll~~aGF~~~~~~~~~~g~~ 153 (160)
T PLN02232 119 ----KYSING-YLTGEELETLALEAGFSSACHYEISGGFM 153 (160)
T ss_pred ----HHHHHH-CcCHHHHHHHHHHcCCCcceEEECcchHh
Confidence 000112 48899999999999999998888887653
No 8
>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=32.20 E-value=38 Score=24.17 Aligned_cols=27 Identities=33% Similarity=0.560 Sum_probs=21.1
Q ss_pred hHHHHHHhhhcCCCCCHHHHHHHHHHH
Q 006724 550 QNIVRLIDQLDEGAISWEEFSSEVKSL 576 (633)
Q Consensus 550 k~la~L~~~~~~~~i~W~~f~~~v~~~ 576 (633)
+.+...||.-.+|.|+++||...+++|
T Consensus 3 ~~~F~~~D~d~dG~I~~~Ef~~~~~~L 29 (29)
T PF00036_consen 3 KEAFREFDKDGDGKIDFEEFKEMMKKL 29 (29)
T ss_dssp HHHHHHHSTTSSSEEEHHHHHHHHHHT
T ss_pred HHHHHHHCCCCCCcCCHHHHHHHHHhC
Confidence 345667776668999999999998764
No 9
>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=31.13 E-value=50 Score=30.99 Aligned_cols=29 Identities=31% Similarity=0.402 Sum_probs=16.7
Q ss_pred CCCCCHHHHHHHHHHhCCCCCcEEEEEecc
Q 006724 438 GCPMSPREAALFLKALGYPSTTTIYIVAGE 467 (633)
Q Consensus 438 ~CPLTPeEvgl~LraLGf~~~T~IYLAsGe 467 (633)
.|||+|||+...|+++--+ ....||..++
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 4677876654
No 10
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=30.92 E-value=1e+02 Score=35.12 Aligned_cols=146 Identities=18% Similarity=0.244 Sum_probs=81.6
Q ss_pred ccccchhHHHHHHHHHHHHHhCCCCeEEEecccchhhhhhhcCCCCCCHHHHHHHHHHhhhcccccccccchHhhhhCCC
Q 006724 359 ALRYSKDIEDLGKILVDRLRNNSEPYVALHLRYEKDMLAFTGCSHNLTAEEAEDLRVMRYNVKHWKEKEIDGIKRRLQGG 438 (633)
Q Consensus 359 ALrF~~~I~eLg~kLV~RMR~~~gpYIALHLR~EkDMLAfsgC~~g~~~~E~~eL~~~R~~~~~Wk~k~i~~~e~R~~G~ 438 (633)
.+||+|-.++.-++-...|-= ..|-|+||.|-.. - -|+++---.|+.|=.-+..|
T Consensus 340 L~Rpqp~t~~~l~~a~k~lg~-~~PivGvhvRRTD-K--------VGTEAAfH~~eEYM~~vE~~--------------- 394 (580)
T KOG3705|consen 340 LMRPQPATQEKLDKALKSLGL-DKPIVGVHVRRTD-K--------VGTEAAFHALEEYMEWVEIW--------------- 394 (580)
T ss_pred HhCCChhhHHHHHHHHHhCCC-CCceeeEEEEecc-c--------ccchhhhhhHHHHHHHHHHH---------------
Confidence 578888887665554444332 4799999998642 1 22222222344443212222
Q ss_pred CCCCHHHHHHHHHHhCCCCCcEEEEEeccccCCCchhhHHHhCCcccccccCCChhhccccCCchh-------hhhhhhh
Q 006724 439 CPMSPREAALFLKALGYPSTTTIYIVAGEIYGSSSMAAFREEFPNVFSHSTLATEEELEPFKPYQN-------RLAALDY 511 (633)
Q Consensus 439 CPLTPeEvgl~LraLGf~~~T~IYLAsGeiyGg~sL~pLk~~FPnl~TKetLas~eEL~pF~~~ss-------~lAALDY 511 (633)
-.+|..-|=+-.-+||||+-+. .-+..-+..|||. .+.+..|.+.-....+ .---+|.
T Consensus 395 --------f~~le~rg~~~~rRiflAsDDp---~vv~EAk~kYPnY----e~igd~eia~~A~l~nRYTd~sL~GvIlDI 459 (580)
T KOG3705|consen 395 --------FKVLEKRGKPLERRIFLASDDP---TVVPEAKNKYPNY----EVIGDTEIAKTAQLNNRYTDASLMGVILDI 459 (580)
T ss_pred --------HHHHHHhCCchhheEEEecCCc---hhchHhhccCCCc----EEeccHHHHHHhhccccchhhhhhheeeee
Confidence 1222223444456799998773 2266678899987 3555566655443222 2234688
Q ss_pred hhhccCCeeeecCCCcHHHHHhhhhhccCCcceeccchh
Q 006724 512 LVALESDVFVHTYDGNMAKAVQGHRRFEGFRKSINPDKQ 550 (633)
Q Consensus 512 iVcl~SDVFV~t~~GNfa~~V~GhR~y~G~~kTI~Pdrk 550 (633)
.+.+.+|..|.|.++--- |..+--.+|.-||.-
T Consensus 460 h~LS~~d~LVCTFSSQVC------RvaYEimQt~~pDa~ 492 (580)
T KOG3705|consen 460 HILSKVDYLVCTFSSQVC------RVAYEIMQTSGPDAG 492 (580)
T ss_pred eeecccceEEEechHHHH------HHHHHHHhccCCCcc
Confidence 888888888888766322 222233455556554
No 11
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=23.14 E-value=1e+02 Score=31.24 Aligned_cols=29 Identities=10% Similarity=-0.032 Sum_probs=22.9
Q ss_pred hhCCCCCCCHHHHHHHHHHhCCCCCcEEE
Q 006724 434 RLQGGCPMSPREAALFLKALGYPSTTTIY 462 (633)
Q Consensus 434 R~~G~CPLTPeEvgl~LraLGf~~~T~IY 462 (633)
+.+-..|+|++|...+|+..||..-..+|
T Consensus 202 ~~~~~~~~~~~~~~~~L~~aGF~~v~~~~ 230 (247)
T PRK15451 202 LENVMLTDSVETHKARLHKAGFEHSELWF 230 (247)
T ss_pred HHhhcccCCHHHHHHHHHHcCchhHHHHH
Confidence 33456789999999999999998755443
No 12
>PF10892 DUF2688: Protein of unknown function (DUF2688); InterPro: IPR024392 Members of this protein family are annotated as KleB, and may play a role in the regulation of transcription in plasmids.
Probab=22.40 E-value=63 Score=27.39 Aligned_cols=16 Identities=38% Similarity=0.779 Sum_probs=13.6
Q ss_pred CCCCCCHHHHHHHHHHh
Q 006724 437 GGCPMSPREAALFLKAL 453 (633)
Q Consensus 437 G~CPLTPeEvgl~LraL 453 (633)
|-| +||||-+.+++++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 567 9999999998875
No 13
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=22.10 E-value=77 Score=25.98 Aligned_cols=23 Identities=39% Similarity=0.488 Sum_probs=19.9
Q ss_pred hhCCCCCCCHHHHHHHHHHhCCCC
Q 006724 434 RLQGGCPMSPREAALFLKALGYPS 457 (633)
Q Consensus 434 R~~G~CPLTPeEvgl~LraLGf~~ 457 (633)
+..|.. ++++|+..+|+.|||.-
T Consensus 13 ~llG~~-i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 13 RLLGLD-LSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHCCC-CCHHHHHHHHHHCCCeE
Confidence 566765 99999999999999976
Done!