Query 010586
Match_columns 506
No_of_seqs 204 out of 387
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 02:15:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010586.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010586hhsearch_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 2.3E-57 5E-62 454.8 3.7 300 111-429 6-345 (351)
2 KOG3849 GDP-fucose protein O-f 98.3 6.5E-06 1.4E-10 83.7 12.0 286 102-428 27-369 (386)
3 PF05830 NodZ: Nodulation prot 97.1 0.018 3.9E-07 59.9 15.2 257 104-418 2-290 (321)
4 PLN02232 ubiquinone biosynthes 65.1 26 0.00056 32.4 7.2 101 240-354 47-153 (160)
5 KOG3705 Glycoprotein 6-alpha-L 64.7 22 0.00048 39.1 7.4 130 246-415 340-476 (580)
6 PF14771 DUF4476: Domain of un 57.1 18 0.00039 30.8 4.4 36 326-376 39-74 (95)
7 PRK15451 tRNA cmo(5)U34 methyl 44.8 35 0.00075 33.7 4.8 87 245-348 133-230 (247)
8 PF00799 Gemini_AL1: Geminivir 39.2 33 0.00072 31.2 3.3 29 324-353 14-42 (114)
9 PF00667 FAD_binding_1: FAD bi 35.1 67 0.0015 31.3 5.0 115 325-462 52-176 (219)
10 PF06180 CbiK: Cobalt chelatas 30.0 1.3E+02 0.0029 30.9 6.4 132 300-436 25-206 (262)
11 PF10892 DUF2688: Protein of u 29.6 37 0.0008 27.7 1.8 16 323-339 42-57 (60)
12 COG2884 FtsE Predicted ATPase 28.0 32 0.00069 34.7 1.4 18 109-127 136-153 (223)
13 PF00036 EF-hand_1: EF hand; 26.7 48 0.001 22.9 1.7 27 437-463 3-29 (29)
14 smart00874 B5 tRNA synthetase 26.0 66 0.0014 25.6 2.7 24 319-343 12-35 (71)
15 PLN02233 ubiquinone biosynthes 21.2 3.9E+02 0.0084 26.8 7.7 37 240-276 148-184 (261)
16 PF05577 Peptidase_S28: Serine 20.7 1.4E+02 0.003 31.8 4.7 65 102-169 26-106 (434)
17 PF13833 EF-hand_8: EF-hand do 20.5 97 0.0021 23.0 2.5 25 438-462 29-53 (54)
18 TIGR02752 MenG_heptapren 2-hep 20.5 3.5E+02 0.0076 25.8 7.0 31 245-275 122-152 (231)
19 KOG0187 40S ribosomal protein 20.4 2.5E+02 0.0054 26.4 5.5 82 246-354 43-124 (134)
20 COG0763 LpxB Lipid A disacchar 20.1 1.6E+02 0.0035 32.2 4.9 100 345-444 2-138 (381)
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=2.3e-57 Score=454.83 Aligned_cols=300 Identities=34% Similarity=0.615 Sum_probs=210.1
Q ss_pred ecCcchhhHHHHhHHHHHHHHhCCcEEecccCCCCccCCCCC-----CCccccHHHHHHhccccceeeccCChhhHhhhh
Q 010586 111 CNGGLNQMRAAICDMVAIARYLNVTLIVPELDKTSFWADPSE-----FQDIFDVDHFITSLRDEVRILKELPPRLKKRVE 185 (506)
Q Consensus 111 ~nGGLNQqR~~IcDaVavARlLNATLViP~l~~~s~W~D~S~-----F~DIFDvdhFI~sL~~dVrIvk~LP~~~~~~~~ 185 (506)
|.||+||||+++++||++|++||+|||||.+...+.|++.++ |+++||++||++.++++|++.+.+|........
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 899999999999999999999999999999999999999987 999999999999999999999888765544211
Q ss_pred c---------------------------CcccccCCCC-cCChhhHHhhchhhhhhc------eeEEEeecCcccccCCC
Q 010586 186 M---------------------------GRVLSMPPIS-WSDISYYHNQILPLVQKY------KVVHLNRTDARLANNGQ 231 (506)
Q Consensus 186 ~---------------------------~~~~~~~p~~-ws~~~yY~~~ilP~l~k~------~Vi~l~~~d~RLa~d~l 231 (506)
. ....+..+.. |+.+.+|.++++|.+.++ +++.|.++..++..+.+
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 1 0112222222 788889999999999887 99999999999998888
Q ss_pred CcccchhhceecccccccchHHHHHHHHHHHHHH-hcCCeEEEeecchhhhHhhhcCCCCCChHHHHHHHHHHhcCccch
Q 010586 232 PLEIQKLRCRVNFSALRFTSQIEDLGKRVIKLLR-QNGPFLVLHLRYEMDMLAFSGCTQGCNKEEVEELTRMRYAYPWWK 310 (506)
Q Consensus 232 P~~iQrLRCrvnf~ALrF~~~I~~Lg~~lV~RLr-~~GpfvALHLR~E~DMlAfsgC~~g~~~~E~~eL~~~R~~~~~wk 310 (506)
+.++|| +|+|+++|+++|++++++++ ..++|||+|||+|+|| +++|.+++ +...|+.+|. |.
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 899987 99999999999999999999 7899999999999999 88999955 6666777775 35
Q ss_pred hccCChHhhhcCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccccCccccchHHHHhCCcccccccCCChhchhhhcccc
Q 010586 311 EKIINSDLKRKDGLCPLTPEETALILRALDIDPNMQIYIAAGEIYGGERRMANLAKAYPKLVRKETLLEPSDLRFFQNHS 390 (506)
Q Consensus 311 ~k~i~~~~~R~~G~CPLTPeEvgl~L~alGf~~~T~IYlAsgeiyGG~~~l~~L~~~FPnl~tKe~L~s~eEL~pf~~~s 390 (506)
++.+++...+..+.||++|++++.+++++|+.+.|.||||++++|||.+.|++|++.||++++|+++.+.+|+++|.+
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 667888889999999999999999999999999999999999999999999999999999999999999999998877
Q ss_pred hhhhhhhhhhhccCCcceeCCCCchhhhHhHhhhhcCCc
Q 010586 391 SQMAALDYLVSLESDIFVPTYDGNMAKVVEGHRRFLGYK 429 (506)
Q Consensus 391 s~~AALDY~Vcl~SDvFV~t~~GNfa~~V~GhR~y~G~~ 429 (506)
+++|+||++||++||+||+|..++|+.+|+++|+|.|+.
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 899999999999999999999888999999999999965
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=98.30 E-value=6.5e-06 Score=83.74 Aligned_cols=286 Identities=20% Similarity=0.324 Sum_probs=152.6
Q ss_pred cCCcEEEE-EecCcchhhHHHHhHHHHHHHHhCCcEEecccC---CCCccCCCCCCCccccHH------------HHHHh
Q 010586 102 KNNGYLMV-SCNGGLNQMRAAICDMVAIARYLNVTLIVPELD---KTSFWADPSEFQDIFDVD------------HFITS 165 (506)
Q Consensus 102 ~snGyL~V-~~nGGLNQqR~~IcDaVavARlLNATLViP~l~---~~s~W~D~S~F~DIFDvd------------hFI~s 165 (506)
..||||+. -|-|-+.||-..+.-..|.|+.||.|||+|-.- +-.+-+---.|+..|.++ .|+..
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 57999998 799999999999999999999999999999652 111111124788888765 34444
Q ss_pred ccccc-----ee--e-cc----CChhh--Hhhhhc--CcccccCCCCcCChhhHH------hhc---hhhh-----hhce
Q 010586 166 LRDEV-----RI--L-KE----LPPRL--KKRVEM--GRVLSMPPISWSDISYYH------NQI---LPLV-----QKYK 215 (506)
Q Consensus 166 L~~dV-----rI--v-k~----LP~~~--~~~~~~--~~~~~~~p~~ws~~~yY~------~~i---lP~l-----~k~~ 215 (506)
|..+. || . |+ -|..- ..++.+ +.....--++.....||- ++. -..+ ++|-
T Consensus 107 lapthwp~~~Rva~c~k~a~qr~pdkp~Ch~KeGNPFGPfWDqfhvsFv~sE~f~~i~Fd~~~~~~~~kW~~kfp~eeyP 186 (386)
T KOG3849|consen 107 LAPTHWPGTPRVAICDKSAAQRSPDKPGCHSKEGNPFGPFWDQFHVSFVGSEYFGDIGFDLNQMGSRKKWLEKFPSEEYP 186 (386)
T ss_pred hCcccCCCCcceeeeehhhhccCCCCCCCcccCCCCCCCchhheEeeeeccccccccccchhhcchHHHHHhhCCcccCc
Confidence 44332 11 1 10 01100 000000 000000001112222221 111 1111 2466
Q ss_pred eEEEeecCccc--ccCCCCcccchhhceecccccccchHHHHHHHHHHHHHHhcCCeEEEeecchhhhHhhhcCCCCCCh
Q 010586 216 VVHLNRTDARL--ANNGQPLEIQKLRCRVNFSALRFTSQIEDLGKRVIKLLRQNGPFLVLHLRYEMDMLAFSGCTQGCNK 293 (506)
Q Consensus 216 Vi~l~~~d~RL--a~d~lP~~iQrLRCrvnf~ALrF~~~I~~Lg~~lV~RLr~~GpfvALHLR~E~DMlAfsgC~~g~~~ 293 (506)
|+.|++.-... -.+.+ .||| -|+.++.|.+.|++.+.-=-. .|||++|||...||+-- |.+--..
T Consensus 187 VLAf~gAPA~FPv~~e~~--~lQk--------Yl~WS~r~~e~~k~fI~a~L~-rpfvgiHLRng~DWvra--Cehikd~ 253 (386)
T KOG3849|consen 187 VLAFSGAPAPFPVKGEVW--SLQK--------YLRWSSRITEQAKKFISANLA-RPFVGIHLRNGADWVRA--CEHIKDT 253 (386)
T ss_pred eeeecCCCCCCccccccc--cHHH--------HHHHHHHHHHHHHHHHHHhcC-cceeEEEeecCchHHHH--HHHhccc
Confidence 66666432211 01111 3565 388999999999887653222 49999999999999865 7542110
Q ss_pred HHHHHHHHHHhcCccchh-ccCChHhhhc-----CCCCCCCHHHHHHHH-HHcC-CCCCceEEEEeccccCccccchHHH
Q 010586 294 EEVEELTRMRYAYPWWKE-KIINSDLKRK-----DGLCPLTPEETALIL-RALD-IDPNMQIYIAAGEIYGGERRMANLA 365 (506)
Q Consensus 294 ~E~~eL~~~R~~~~~wk~-k~i~~~~~R~-----~G~CPLTPeEvgl~L-~alG-f~~~T~IYlAsgeiyGG~~~l~~L~ 365 (506)
.. | .-+.. .-+ ...+. ...|-=+-+||-.-+ +..| ...-..+|+|+-. +.-+..|.
T Consensus 254 ~~-------~---hlfASpQCl--Gy~~~~gaLt~e~C~Psk~~I~rqik~~v~si~dakSVfVAsDs----~hmi~Eln 317 (386)
T KOG3849|consen 254 TN-------R---HLFASPQCL--GYGHHLGALTKEICSPSKQQILRQIKEKVGSIGDAKSVFVASDS----DHMIDELN 317 (386)
T ss_pred CC-------C---ccccChhhc--cccccccccchhhhCccHHHHHHHHHHHHhhhcccceEEEeccc----hhhhHHHH
Confidence 00 0 00000 000 00111 123544444443221 1222 2234479999876 23333343
Q ss_pred -HhCCcccccccCCChhchhhhcccchhhhhhhhhhhccCCcceeCCCCchhhhHhHhhhhcCC
Q 010586 366 -KAYPKLVRKETLLEPSDLRFFQNHSSQMAALDYLVSLESDIFVPTYDGNMAKVVEGHRRFLGY 428 (506)
Q Consensus 366 -~~FPnl~tKe~L~s~eEL~pf~~~ss~~AALDY~Vcl~SDvFV~t~~GNfa~~V~GhR~y~G~ 428 (506)
+++|-=+.-..| + -.-+-+|..|.-+||.||++--++|+..|--.|-..|+
T Consensus 318 ~aL~~~~i~vh~l------~------pdd~y~dLaIlGqadhFiGNCvSsfsafvKRERD~~Gr 369 (386)
T KOG3849|consen 318 EALKPYEIEVHRL------E------PDDMYTDLAILGQADHFIGNCVSSFSAFVKRERDHAGR 369 (386)
T ss_pred HhhcccceeEEec------C------cccchhhhhhhcccchhhhhhHHHHHHHHhhhhcccCC
Confidence 333321111111 1 12356899999999999999999999999999988883
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=97.05 E-value=0.018 Score=59.92 Aligned_cols=257 Identities=17% Similarity=0.255 Sum_probs=126.6
Q ss_pred CcEEEEEecCcchhhHHHHhHHHHHHHHhCCcEEecccCCCCccCCC----CCCCccccHHHHHHhcc--ccceeeccCC
Q 010586 104 NGYLMVSCNGGLNQMRAAICDMVAIARYLNVTLIVPELDKTSFWADP----SEFQDIFDVDHFITSLR--DEVRILKELP 177 (506)
Q Consensus 104 nGyL~V~~nGGLNQqR~~IcDaVavARlLNATLViP~l~~~s~W~D~----S~F~DIFDvdhFI~sL~--~dVrIvk~LP 177 (506)
+.|++..--+|+|.-==+++-|-.+|+-.|.||||= |+++ ..|...|++ |-+-.+ ..|+|.-+
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 568888999999999999999999999999999983 7775 567666654 444444 34454422
Q ss_pred hhhHhhhhcCcccccCCCCcCChhh---H---------Hhhchhhhh------hceeEEEeecCcccccCCCCcccchhh
Q 010586 178 PRLKKRVEMGRVLSMPPISWSDISY---Y---------HNQILPLVQ------KYKVVHLNRTDARLANNGQPLEIQKLR 239 (506)
Q Consensus 178 ~~~~~~~~~~~~~~~~p~~ws~~~y---Y---------~~~ilP~l~------k~~Vi~l~~~d~RLa~d~lP~~iQrLR 239 (506)
+.+.. ...+...-|.-|-.+.- | .+++.-+++ ...||+-.=...+... ++. |
T Consensus 71 d~i~~---~~~~g~~fp~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~~~~c~~-----~ae--R 140 (321)
T PF05830_consen 71 DRINQ---FSFPGPFFPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWRCDE-----EAE--R 140 (321)
T ss_dssp GGGGT-------SSEESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTSS-H-----HHH--H
T ss_pred chhhh---hcCCCCcChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCcchh-----HHH--H
Confidence 11100 00011111222322221 1 111222333 2457776655555432 233 2
Q ss_pred ceecccccccchHHHHHHHHHHHHHHhcCCeEEEeecch--hhhHhhhcCCCCCChHHHHHHHHHHhcCccchhccCChH
Q 010586 240 CRVNFSALRFTSQIEDLGKRVIKLLRQNGPFLVLHLRYE--MDMLAFSGCTQGCNKEEVEELTRMRYAYPWWKEKIINSD 317 (506)
Q Consensus 240 Crvnf~ALrF~~~I~~Lg~~lV~RLr~~GpfvALHLR~E--~DMlAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~ 317 (506)
--|..|+-+++|++..+.+.+.-=...+=|++|-|.- +|.+.+ +|++ .+.| ..|.+..
T Consensus 141 --~if~slkpR~eIqarID~iy~ehf~g~~~IGVHVRhGngeD~~~h-~~~~--~D~e-~~L~~V~-------------- 200 (321)
T PF05830_consen 141 --EIFSSLKPRPEIQARIDAIYREHFAGYSVIGVHVRHGNGEDIMDH-APYW--ADEE-RALRQVC-------------- 200 (321)
T ss_dssp --HHHHHS-B-HHHHHHHHHHHHHHTTTSEEEEEEE------------------HHHH-HHHHHHH--------------
T ss_pred --HHHHhCCCCHHHHHHHHHHHHHHcCCCceEEEEEeccCCcchhcc-Cccc--cCch-HHHHHHH--------------
Confidence 3589999999999999988877655567899999942 233333 2222 1110 0111111
Q ss_pred hhhcCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccccCccccchHHHHhCCcccccccCCChhchhhhcccc-----hh
Q 010586 318 LKRKDGLCPLTPEETALILRALDIDPNMQIYIAAGEIYGGERRMANLAKAYPKLVRKETLLEPSDLRFFQNHS-----SQ 392 (506)
Q Consensus 318 ~~R~~G~CPLTPeEvgl~L~alGf~~~T~IYlAsgeiyGG~~~l~~L~~~FPnl~tKe~L~s~eEL~pf~~~s-----s~ 392 (506)
.....++++-...++.|+||+=. ...++-+++.||.+++-++=..+..-.++.+.. -.
T Consensus 201 -------------~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~~gg~ 263 (321)
T PF05830_consen 201 -------------TAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGIEGGE 263 (321)
T ss_dssp -------------HHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE----------------HHHHHHHHH
T ss_pred -------------HHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCCcCcccccccchHH
Confidence 11122355556678999999887 366899999999988765434322211222211 13
Q ss_pred hhhhhhhhhccCCcce-eCCCCchhhh
Q 010586 393 MAALDYLVSLESDIFV-PTYDGNMAKV 418 (506)
Q Consensus 393 ~AALDY~Vcl~SDvFV-~t~~GNfa~~ 418 (506)
.|-+|-+...++|+-| .+-.+.|++.
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 6889999999999999 5666666654
No 4
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=65.08 E-value=26 Score=32.42 Aligned_cols=101 Identities=13% Similarity=-0.005 Sum_probs=61.1
Q ss_pred ceecccccccchHHHHHHHHHHHHHHhcCCeEEEeecchhhhHhh----hcCCCCCChHHHH--HHHHHHhcCccchhcc
Q 010586 240 CRVNFSALRFTSQIEDLGKRVIKLLRQNGPFLVLHLRYEMDMLAF----SGCTQGCNKEEVE--ELTRMRYAYPWWKEKI 313 (506)
Q Consensus 240 Crvnf~ALrF~~~I~~Lg~~lV~RLr~~GpfvALHLR~E~DMlAf----sgC~~g~~~~E~~--eL~~~R~~~~~wk~k~ 313 (506)
.-++..+|++.++..+.-+.+.+.|+..|.++-++.-.+...+.. .-|....-+-+.- ...+|++-
T Consensus 47 ~v~~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~yl-------- 118 (160)
T PLN02232 47 AVTMGYGLRNVVDRLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEYL-------- 118 (160)
T ss_pred EEEecchhhcCCCHHHHHHHHHHHcCcCeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHhH--------
Confidence 345556788888888888999999999999988877654322110 1111100000000 00111110
Q ss_pred CChHhhhcCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccc
Q 010586 314 INSDLKRKDGLCPLTPEETALILRALDIDPNMQIYIAAGEI 354 (506)
Q Consensus 314 i~~~~~R~~G~CPLTPeEvgl~L~alGf~~~T~IYlAsgei 354 (506)
..+... +++|+|+..+|+..||.+-+.-+++.|-.
T Consensus 119 -----~~si~~-f~~~~el~~ll~~aGF~~~~~~~~~~g~~ 153 (160)
T PLN02232 119 -----KYSING-YLTGEELETLALEAGFSSACHYEISGGFM 153 (160)
T ss_pred -----HHHHHH-CcCHHHHHHHHHHcCCCcceEEECcchHh
Confidence 001112 48999999999999999998888887763
No 5
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=64.72 E-value=22 Score=39.11 Aligned_cols=130 Identities=17% Similarity=0.240 Sum_probs=77.3
Q ss_pred ccccchHHHHHHHHHHHHHHhcCCeEEEeecchhhhHhhhcCCCCCChHHHHHHHHHHhcCccchhccCChHhhhcCCCC
Q 010586 246 ALRFTSQIEDLGKRVIKLLRQNGPFLVLHLRYEMDMLAFSGCTQGCNKEEVEELTRMRYAYPWWKEKIINSDLKRKDGLC 325 (506)
Q Consensus 246 ALrF~~~I~~Lg~~lV~RLr~~GpfvALHLR~E~DMlAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~~~R~~G~C 325 (506)
-+||.|-.++.-++-.+.|--..|-|++|.|--. .-|+++---.++.|=. |-
T Consensus 340 L~Rpqp~t~~~l~~a~k~lg~~~PivGvhvRRTD---------KVGTEAAfH~~eEYM~----~v--------------- 391 (580)
T KOG3705|consen 340 LMRPQPATQEKLDKALKSLGLDKPIVGVHVRRTD---------KVGTEAAFHALEEYME----WV--------------- 391 (580)
T ss_pred HhCCChhhHHHHHHHHHhCCCCCceeeEEEEecc---------cccchhhhhhHHHHHH----HH---------------
Confidence 5788888887555544444445699999998742 2223322223333332 21
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEEeccccCccccchHHHHhCCcccccccCCChhchhhhc---c-cc--hhh-hhhhh
Q 010586 326 PLTPEETALILRALDIDPNMQIYIAAGEIYGGERRMANLAKAYPKLVRKETLLEPSDLRFFQ---N-HS--SQM-AALDY 398 (506)
Q Consensus 326 PLTPeEvgl~L~alGf~~~T~IYlAsgeiyGG~~~l~~L~~~FPnl~tKe~L~s~eEL~pf~---~-~s--s~~-AALDY 398 (506)
|+-=.+|..=|=+-.-+||||+-+. ..+..-+.-|||.+ +.+..|.+.-. + |. |.+ --+|.
T Consensus 392 ----E~~f~~le~rg~~~~rRiflAsDDp----~vv~EAk~kYPnYe----~igd~eia~~A~l~nRYTd~sL~GvIlDI 459 (580)
T KOG3705|consen 392 ----EIWFKVLEKRGKPLERRIFLASDDP----TVVPEAKNKYPNYE----VIGDTEIAKTAQLNNRYTDASLMGVILDI 459 (580)
T ss_pred ----HHHHHHHHHhCCchhheEEEecCCc----hhchHhhccCCCcE----EeccHHHHHHhhccccchhhhhhheeeee
Confidence 1112233333445556899999984 55677788999864 44445554322 2 22 222 44688
Q ss_pred hhhccCCcceeCCCCch
Q 010586 399 LVSLESDIFVPTYDGNM 415 (506)
Q Consensus 399 ~Vcl~SDvFV~t~~GNf 415 (506)
.+.+.+|..|.|+++--
T Consensus 460 h~LS~~d~LVCTFSSQV 476 (580)
T KOG3705|consen 460 HILSKVDYLVCTFSSQV 476 (580)
T ss_pred eeecccceEEEechHHH
Confidence 88899999999887743
No 6
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=57.12 E-value=18 Score=30.84 Aligned_cols=36 Identities=22% Similarity=0.365 Sum_probs=32.6
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEEeccccCccccchHHHHhCCccccccc
Q 010586 326 PLTPEETALILRALDIDPNMQIYIAAGEIYGGERRMANLAKAYPKLVRKET 376 (506)
Q Consensus 326 PLTPeEvgl~L~alGf~~~T~IYlAsgeiyGG~~~l~~L~~~FPnl~tKe~ 376 (506)
++|-.+++-+|+...|+ +.+|..|+.++|++++++.
T Consensus 39 ~~T~~Qv~~il~~f~fd---------------~~kl~~lk~l~p~i~D~~n 74 (95)
T PF14771_consen 39 CFTCAQVKQILSLFSFD---------------NDKLKALKLLYPYIVDPQN 74 (95)
T ss_pred ceeHHHHHHHHHHcCCC---------------HHHHHHHHHHhhhccCHHH
Confidence 49999999999999998 4579999999999999963
No 7
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=44.82 E-value=35 Score=33.69 Aligned_cols=87 Identities=13% Similarity=0.189 Sum_probs=50.1
Q ss_pred cccccch--HHHHHHHHHHHHHHhcCCeEEEe-ecchhh-----hHhhhcCC---CCCChHHHHHHHHHHhcCccchhcc
Q 010586 245 SALRFTS--QIEDLGKRVIKLLRQNGPFLVLH-LRYEMD-----MLAFSGCT---QGCNKEEVEELTRMRYAYPWWKEKI 313 (506)
Q Consensus 245 ~ALrF~~--~I~~Lg~~lV~RLr~~GpfvALH-LR~E~D-----MlAfsgC~---~g~~~~E~~eL~~~R~~~~~wk~k~ 313 (506)
.+|.|.+ +.+.+-+.+.+.|+..|.++..+ .+.+.+ ++..+... .|.+++|.++ .|
T Consensus 133 ~~l~~l~~~~~~~~l~~i~~~LkpGG~l~l~e~~~~~~~~~~~~~~~~~~~~~~~~g~s~~ei~~---~~---------- 199 (247)
T PRK15451 133 FTLQFLEPSERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGELLFNMHHDFKRANGYSELEISQ---KR---------- 199 (247)
T ss_pred hHHHhCCHHHHHHHHHHHHHhcCCCCEEEEEEecCCCcchhHHHHHHHHHHHHHHcCCCHHHHHH---HH----------
Confidence 3455543 45677788888888889887764 443321 22211111 1222222211 11
Q ss_pred CChHhhhcCCCCCCCHHHHHHHHHHcCCCCCceEE
Q 010586 314 INSDLKRKDGLCPLTPEETALILRALDIDPNMQIY 348 (506)
Q Consensus 314 i~~~~~R~~G~CPLTPeEvgl~L~alGf~~~T~IY 348 (506)
+.+.+-..|+|++|...+|+..||..-..+|
T Consensus 200 ----~~~~~~~~~~~~~~~~~~L~~aGF~~v~~~~ 230 (247)
T PRK15451 200 ----SMLENVMLTDSVETHKARLHKAGFEHSELWF 230 (247)
T ss_pred ----HHHHhhcccCCHHHHHHHHHHcCchhHHHHH
Confidence 1233456789999999999999999655443
No 8
>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=39.17 E-value=33 Score=31.18 Aligned_cols=29 Identities=31% Similarity=0.358 Sum_probs=16.8
Q ss_pred CCCCCHHHHHHHHHHcCCCCCceEEEEecc
Q 010586 324 LCPLTPEETALILRALDIDPNMQIYIAAGE 353 (506)
Q Consensus 324 ~CPLTPeEvgl~L~alGf~~~T~IYlAsge 353 (506)
.|||+|||+...|+++--+ ....||..+.
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 5999999999999999754 4677886664
No 9
>PF00667 FAD_binding_1: FAD binding domain; InterPro: IPR003097 This domain is found in sulphite reductase, NADPH cytochrome P450 reductase, nitric oxide synthase and methionine synthase reductase. Flavoprotein pyridine nucleotide cytochrome reductases [] (FPNCR) catalyse the interchange of reducing equivalents between one-electron carriers and the two-electron-carrying nicotinamide dinucleotides. The enzymes include ferredoxin:NADP+reductases (FNR) [], plant and fungal NAD(P)H:nitrate reductases [, ], NADH:cytochrome b5 reductases [], NADPH:P450 reductases [], NADPH:sulphite reductases [], nitric oxide synthases [], phthalate dioxygenase reductase [], and various other flavoproteins.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3QFR_B 3FJO_A 3QFC_B 3QE2_B 3QFS_A 3QFT_A 2B5O_B 2QTZ_A 2QTL_A 2BPO_B ....
Probab=35.14 E-value=67 Score=31.27 Aligned_cols=115 Identities=21% Similarity=0.310 Sum_probs=65.1
Q ss_pred CCCCHHHHHHHHHHcCCCCCceEEEEeccc-------cCccccchHHHHhCCcccccccCCChhchhhhcccch---hhh
Q 010586 325 CPLTPEETALILRALDIDPNMQIYIAAGEI-------YGGERRMANLAKAYPKLVRKETLLEPSDLRFFQNHSS---QMA 394 (506)
Q Consensus 325 CPLTPeEvgl~L~alGf~~~T~IYlAsgei-------yGG~~~l~~L~~~FPnl~tKe~L~s~eEL~pf~~~ss---~~A 394 (506)
|+=.|++|..+|+.||.+.++.|-|-..+- ++.. .+|+..|-...+=....+.+-|..+..+.+ ..+
T Consensus 52 P~N~~~~V~~~l~~lgl~~d~~v~~~~~~~~~~~~~~~~~~---~tl~~~l~~~~Di~~~p~~~~l~~la~~~~~~~~k~ 128 (219)
T PF00667_consen 52 PPNDPEEVERLLKRLGLDPDEPVTLKPKEQNNSVKPPFPSP---ITLRDLLTHYLDITSPPSRSFLRALAEFATDEEEKE 128 (219)
T ss_dssp -SSEHHHHHHHHHHHTSGTTSEEEEEESSTTSSCCSSSSSS---EEHHHHHHHTB-TSSB--HHHHHHHHCTBSSHHHHH
T ss_pred ccCCHHHHHHHHHHhCCCcceEEEEEecccccccccccccc---eeeeeeeeeeeecccccccceeeeeeecCCCHHHHH
Confidence 455678899999999999999999998882 1222 233333333332223333444444444433 345
Q ss_pred hhhhhhhccCCcceeCCCCchhhhHhHhhhhcCCcceeeccHHHHHHHHHhhcCCCCChHHHHHHHHH
Q 010586 395 ALDYLVSLESDIFVPTYDGNMAKVVEGHRRFLGYKKTILLERKLLVDLIDQYSNGSLTWDEFSAAVKE 462 (506)
Q Consensus 395 ALDY~Vcl~SDvFV~t~~GNfa~~V~GhR~y~G~~kTI~Pdrk~l~~L~~~~~~~~~~w~~f~~~v~~ 462 (506)
.|..+.+. .|...|.. .+.-.++.+++++..|..-.+.++.|-+.+..
T Consensus 129 ~L~~l~~~-----------------~~~~~~~~---~~~~~~~t~~dil~~fps~~~pl~~ll~~lp~ 176 (219)
T PF00667_consen 129 RLLELASD-----------------EGKDDYKD---YIWRERRTLLDILEDFPSCKPPLEELLELLPP 176 (219)
T ss_dssp HHHHCTSS-----------------HHHHHHHH---HTTTTTHCHHHHHHHSTTBTC-HHHHHHHS-B
T ss_pred HHHHhcch-----------------hhhhhhhh---hhhcccCcHHHHHhhCcccCCCHHHhhhhCCC
Confidence 55554322 33333332 22234677889998887777888888877643
No 10
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=30.00 E-value=1.3e+02 Score=30.85 Aligned_cols=132 Identities=25% Similarity=0.405 Sum_probs=68.2
Q ss_pred HHHHhcCccchhc------cCChHhhhcCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccccCccccchHHHH-------
Q 010586 300 TRMRYAYPWWKEK------IINSDLKRKDGLCPLTPEETALILRALDIDPNMQIYIAAGEIYGGERRMANLAK------- 366 (506)
Q Consensus 300 ~~~R~~~~~wk~k------~i~~~~~R~~G~CPLTPeEvgl~L~alGf~~~T~IYlAsgeiyGG~~~l~~L~~------- 366 (506)
+++|.++|.|.-. .|-...++..|..-.+|+|+=.=|++-||. .|||-+--|..|++. .-|++
T Consensus 25 ~~~~~~fp~~~V~~AfTS~~I~~kl~~~~g~~i~~~~eaL~~L~~~G~~---~V~VQplhiipG~Ey-~~l~~~v~~~~~ 100 (262)
T PF06180_consen 25 KAVREAFPDYDVRRAFTSRIIRKKLAERDGIKIDSPEEALAKLADEGYT---EVVVQPLHIIPGEEY-EKLRATVEAYKH 100 (262)
T ss_dssp HHHHHCSTTSEEEEEES-HHHHHHHHHCHT-----HHHHHHHHHHCT-----EEEEEE--SCSSHHH-HHHHHHHHHHCC
T ss_pred HHHHHHCCCCcEEEEchHHHHHHHHHhcCCCCcCCHHHHHHHHHHCCCC---EEEEeecceeCcHhH-HHHHHHHHHhhc
Confidence 3455566665321 222223344477789999999999999997 899998888888763 33433
Q ss_pred hCCcccccccCCC-------hhchhh-------------------hcccchh------hhhhhhhhhcc--CCcceeCCC
Q 010586 367 AYPKLVRKETLLE-------PSDLRF-------------------FQNHSSQ------MAALDYLVSLE--SDIFVPTYD 412 (506)
Q Consensus 367 ~FPnl~tKe~L~s-------~eEL~p-------------------f~~~ss~------~AALDY~Vcl~--SDvFV~t~~ 412 (506)
.|..+.--.-|++ .++.+. |-+|++. -++|+++..-. -+|||+|-.
T Consensus 101 ~F~~i~~g~PLL~~~g~~~~~~D~~~va~aL~~~~~~~~~~~a~vlmGHGt~h~an~~Y~~l~~~l~~~~~~~v~vgtvE 180 (262)
T PF06180_consen 101 DFKKIVLGRPLLYTMGQENSPEDYEAVAEALAEEFPKKRKDEAVVLMGHGTPHPANAAYSALQAMLKKHGYPNVFVGTVE 180 (262)
T ss_dssp CSSEEEEE--SCSS-----SHHHHHHHHHHHHCCS-TT-TTEEEEEEE---SCHHHHHHHHHHHHHHCCT-TTEEEEETT
T ss_pred cCCeEEecccccccccccCChHHHHHHHHHHHHhccccCCCCEEEEEeCCCCCCccHHHHHHHHHHHhCCCCeEEEEEeC
Confidence 3533332333333 222211 3455542 35677777666 479999999
Q ss_pred C--chhhhHhHhhhhcCCcc-eeeccH
Q 010586 413 G--NMAKVVEGHRRFLGYKK-TILLER 436 (506)
Q Consensus 413 G--Nfa~~V~GhR~y~G~~k-TI~Pdr 436 (506)
| ++..++.--+. .|.+| ++.|=+
T Consensus 181 G~P~~~~vi~~L~~-~g~k~V~L~PlM 206 (262)
T PF06180_consen 181 GYPSLEDVIARLKK-KGIKKVHLIPLM 206 (262)
T ss_dssp SSSBHHHHHHHHHH-HT-SEEEEEEES
T ss_pred CCCCHHHHHHHHHh-cCCCeEEEEecc
Confidence 8 57776653333 35554 666643
No 11
>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=29.60 E-value=37 Score=27.75 Aligned_cols=16 Identities=56% Similarity=0.839 Sum_probs=13.4
Q ss_pred CCCCCCHHHHHHHHHHc
Q 010586 323 GLCPLTPEETALILRAL 339 (506)
Q Consensus 323 G~CPLTPeEvgl~L~al 339 (506)
|-| +||||-+.+++++
T Consensus 42 ~~C-itpEE~~~I~e~~ 57 (60)
T PF10892_consen 42 GDC-ITPEEDREILEAT 57 (60)
T ss_pred hcc-CCHHHHHHHHHHH
Confidence 457 9999999999875
No 12
>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]
Probab=27.97 E-value=32 Score=34.71 Aligned_cols=18 Identities=33% Similarity=0.525 Sum_probs=14.7
Q ss_pred EEecCcchhhHHHHhHHHH
Q 010586 109 VSCNGGLNQMRAAICDMVA 127 (506)
Q Consensus 109 V~~nGGLNQqR~~IcDaVa 127 (506)
..++|| .|||.+|+.|++
T Consensus 136 ~~LSGG-EQQRvaIARAiV 153 (223)
T COG2884 136 SQLSGG-EQQRVAIARAIV 153 (223)
T ss_pred cccCch-HHHHHHHHHHHc
Confidence 467787 899999998864
No 13
>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=26.71 E-value=48 Score=22.86 Aligned_cols=27 Identities=22% Similarity=0.407 Sum_probs=21.2
Q ss_pred HHHHHHHHhhcCCCCChHHHHHHHHHH
Q 010586 437 KLLVDLIDQYSNGSLTWDEFSAAVKES 463 (506)
Q Consensus 437 k~l~~L~~~~~~~~~~w~~f~~~v~~~ 463 (506)
+.+.+.||.=.+|.|+.+||...++++
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 345566887779999999999988763
No 14
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=25.96 E-value=66 Score=25.60 Aligned_cols=24 Identities=38% Similarity=0.452 Sum_probs=20.1
Q ss_pred hhcCCCCCCCHHHHHHHHHHcCCCC
Q 010586 319 KRKDGLCPLTPEETALILRALDIDP 343 (506)
Q Consensus 319 ~R~~G~CPLTPeEvgl~L~alGf~~ 343 (506)
.+..|.. ++++|+..+|+.|||+-
T Consensus 12 ~~llG~~-i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGLD-LSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCCC-CCHHHHHHHHHHCCCeE
Confidence 4566764 99999999999999974
No 15
>PLN02233 ubiquinone biosynthesis methyltransferase
Probab=21.15 E-value=3.9e+02 Score=26.80 Aligned_cols=37 Identities=11% Similarity=0.064 Sum_probs=29.0
Q ss_pred ceecccccccchHHHHHHHHHHHHHHhcCCeEEEeec
Q 010586 240 CRVNFSALRFTSQIEDLGKRVIKLLRQNGPFLVLHLR 276 (506)
Q Consensus 240 Crvnf~ALrF~~~I~~Lg~~lV~RLr~~GpfvALHLR 276 (506)
+-+...+|...++.+++-+.+.+.|+..|.++-+..-
T Consensus 148 ~V~~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~ 184 (261)
T PLN02233 148 AITMGYGLRNVVDRLKAMQEMYRVLKPGSRVSILDFN 184 (261)
T ss_pred EEEEecccccCCCHHHHHHHHHHHcCcCcEEEEEECC
Confidence 3345566778888999999999999999998877553
No 16
>PF05577 Peptidase_S28: Serine carboxypeptidase S28; InterPro: IPR008758 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This group of serine peptidases belong to MEROPS peptidase family S28 (clan SC). The predicted active site residues for members of this family and family S10 occur in the same order in the sequence: S, D, H. These serine proteases include several eukaryotic enzymes such as lysosomal Pro-X carboxypeptidase, dipeptidyl-peptidase II, and thymus-specific serine peptidase [, , , ].; GO: 0008236 serine-type peptidase activity, 0006508 proteolysis; PDB: 3N2Z_B 3JYH_A 3N0T_C.
Probab=20.67 E-value=1.4e+02 Score=31.81 Aligned_cols=65 Identities=18% Similarity=0.259 Sum_probs=40.5
Q ss_pred cCCcEEEEEecCcchhhHHHHh--HHHHHHHHhCCcEEecccCCCCccCCCCCCCc--------------cccHHHHHHh
Q 010586 102 KNNGYLMVSCNGGLNQMRAAIC--DMVAIARYLNVTLIVPELDKTSFWADPSEFQD--------------IFDVDHFITS 165 (506)
Q Consensus 102 ~snGyL~V~~nGGLNQqR~~Ic--DaVavARlLNATLViP~l~~~s~W~D~S~F~D--------------IFDvdhFI~s 165 (506)
+..|-|++-+-|-=.-....+- -++.+|+-+||.+|+=|=+ |++++..|+| +-|.-+||+.
T Consensus 26 ~~~gpifl~~ggE~~~~~~~~~~~~~~~lA~~~~a~~v~lEHR---yYG~S~P~~~~s~~nL~yLt~~QALaD~a~F~~~ 102 (434)
T PF05577_consen 26 KPGGPIFLYIGGEGPIEPFWINNGFMWELAKEFGALVVALEHR---YYGKSQPFGDLSTENLRYLTSEQALADLAYFIRY 102 (434)
T ss_dssp -TTSEEEEEE--SS-HHHHHHH-HHHHHHHHHHTEEEEEE--T---TSTTB-TTGGGGGSTTTC-SHHHHHHHHHHHHHH
T ss_pred CCCCCEEEEECCCCccchhhhcCChHHHHHHHcCCcEEEeehh---hhcCCCCccccchhhHHhcCHHHHHHHHHHHHHH
Confidence 3447666654332222222222 4688999999999987655 8999988876 4688899999
Q ss_pred cccc
Q 010586 166 LRDE 169 (506)
Q Consensus 166 L~~d 169 (506)
++..
T Consensus 103 ~~~~ 106 (434)
T PF05577_consen 103 VKKK 106 (434)
T ss_dssp HHHH
T ss_pred HHHh
Confidence 8843
No 17
>PF13833 EF-hand_8: EF-hand domain pair; PDB: 3KF9_A 1TTX_A 1WLZ_A 1ALV_A 1NX3_A 1ALW_A 1NX2_A 1NX1_A 1NX0_A 1DF0_A ....
Probab=20.53 E-value=97 Score=23.01 Aligned_cols=25 Identities=24% Similarity=0.458 Sum_probs=18.4
Q ss_pred HHHHHHHhhcCCCCChHHHHHHHHH
Q 010586 438 LLVDLIDQYSNGSLTWDEFSAAVKE 462 (506)
Q Consensus 438 ~l~~L~~~~~~~~~~w~~f~~~v~~ 462 (506)
.|...+|.-.+|.|+|+||...++.
T Consensus 29 ~l~~~~D~~~~G~I~~~EF~~~~~~ 53 (54)
T PF13833_consen 29 RLFREFDTDGDGYISFDEFISMMQR 53 (54)
T ss_dssp HHHHHHTTSSSSSEEHHHHHHHHHH
T ss_pred HHHHhcccCCCCCCCHHHHHHHHHh
Confidence 4444456556899999999988764
No 18
>TIGR02752 MenG_heptapren 2-heptaprenyl-1,4-naphthoquinone methyltransferase. MenG is a generic term for a methyltransferase that catalyzes the last step in menaquinone biosynthesis; the exact enzymatic activity differs for different MenG because the menaquinone differ in their prenoid side chains in different species. Members of this MenG protein family are 2-heptaprenyl-1,4-naphthoquinone methyltransferase, and are found together in operons with the two subunits of the heptaprenyl diphosphate synthase in Bacillus subtilis and related species.
Probab=20.50 E-value=3.5e+02 Score=25.78 Aligned_cols=31 Identities=13% Similarity=0.264 Sum_probs=22.0
Q ss_pred cccccchHHHHHHHHHHHHHHhcCCeEEEee
Q 010586 245 SALRFTSQIEDLGKRVIKLLRQNGPFLVLHL 275 (506)
Q Consensus 245 ~ALrF~~~I~~Lg~~lV~RLr~~GpfvALHL 275 (506)
..|.-.++..++-+.+.+.|+..|.++.++.
T Consensus 122 ~~l~~~~~~~~~l~~~~~~Lk~gG~l~~~~~ 152 (231)
T TIGR02752 122 FGLRNVPDYMQVLREMYRVVKPGGKVVCLET 152 (231)
T ss_pred cccccCCCHHHHHHHHHHHcCcCeEEEEEEC
Confidence 3444456666777778888888888887653
No 19
>KOG0187 consensus 40S ribosomal protein S17 [Translation, ribosomal structure and biogenesis]
Probab=20.44 E-value=2.5e+02 Score=26.43 Aligned_cols=82 Identities=16% Similarity=0.263 Sum_probs=45.3
Q ss_pred ccccchHHHHHHHHHHHHHHhcCCeEEEeecchhhhHhhhcCCCCCChHHHHHHHHHHhcCccchhccCChHhhhcCCCC
Q 010586 246 ALRFTSQIEDLGKRVIKLLRQNGPFLVLHLRYEMDMLAFSGCTQGCNKEEVEELTRMRYAYPWWKEKIINSDLKRKDGLC 325 (506)
Q Consensus 246 ALrF~~~I~~Lg~~lV~RLr~~GpfvALHLR~E~DMlAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~~~R~~G~C 325 (506)
+=++...|---...|..|++. ||+=++-.-. +++|.| -|.+| .|+.--...-|
T Consensus 43 SKkLrNkIAGyvtHLmkrIqk-GpvRGISiKL--------------QEEERE----rrdny--------VPevSaLd~d~ 95 (134)
T KOG0187|consen 43 SKKLRNKIAGYVTHLMKRIQK-GPVRGISIKL--------------QEEERE----RRDNY--------VPEVSALDQDI 95 (134)
T ss_pred chhhhhHHHHHHHHHHHHHHc-CCccceeEee--------------cHHHHH----hhccc--------Ccchhhcchhh
Confidence 445556777777788888875 6664443322 345544 12221 01111111111
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEEeccc
Q 010586 326 PLTPEETALILRALDIDPNMQIYIAAGEI 354 (506)
Q Consensus 326 PLTPeEvgl~L~alGf~~~T~IYlAsgei 354 (506)
=---.++-.||+.|||.....++++....
T Consensus 96 ieVD~dT~eMlk~lg~~~~~~~~~~~~~~ 124 (134)
T KOG0187|consen 96 IEVDPDTKEMLKLLGFGSLSGVQVTEPQV 124 (134)
T ss_pred eeeChhHHHHHHHcCCCCcCceeeeccch
Confidence 11113466899999999999998886653
No 20
>COG0763 LpxB Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]
Probab=20.12 E-value=1.6e+02 Score=32.17 Aligned_cols=100 Identities=21% Similarity=0.330 Sum_probs=66.8
Q ss_pred ceEEEEeccccC---ccccchHHHHhCCccc------------ccccCCChhchhh------h----cccchhhhhhhhh
Q 010586 345 MQIYIAAGEIYG---GERRMANLAKAYPKLV------------RKETLLEPSDLRF------F----QNHSSQMAALDYL 399 (506)
Q Consensus 345 T~IYlAsgeiyG---G~~~l~~L~~~FPnl~------------tKe~L~s~eEL~p------f----~~~ss~~AALDY~ 399 (506)
..|+|.+||.-| |..-+..|++.||++. --++|.+.+|++- + .-..-+...+-++
T Consensus 2 ~ki~i~AGE~SGDllGa~LikaLk~~~~~~efvGvgG~~m~aeG~~sl~~~~elsvmGf~EVL~~lp~llk~~~~~~~~i 81 (381)
T COG0763 2 LKIALSAGEASGDLLGAGLIKALKARYPDVEFVGVGGEKMEAEGLESLFDMEELSVMGFVEVLGRLPRLLKIRRELVRYI 81 (381)
T ss_pred ceEEEEecccchhhHHHHHHHHHHhhCCCeEEEEeccHHHHhccCccccCHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 368888777554 4456899999998653 2445555566532 1 1112235667788
Q ss_pred hhccCCcceeCCCCchhhhHhHhhhhcC-Cccee----------eccH-HHHHHHHH
Q 010586 400 VSLESDIFVPTYDGNMAKVVEGHRRFLG-YKKTI----------LLER-KLLVDLID 444 (506)
Q Consensus 400 Vcl~SDvFV~t~~GNfa~~V~GhR~y~G-~~kTI----------~Pdr-k~l~~L~~ 444 (506)
+...-|+||.-.+..|.--|+..=+-.| +.||| +|.| ..++.-.|
T Consensus 82 ~~~kpD~~i~IDsPdFnl~vak~lrk~~p~i~iihYV~PsVWAWr~~Ra~~i~~~~D 138 (381)
T COG0763 82 LANKPDVLILIDSPDFNLRVAKKLRKAGPKIKIIHYVSPSVWAWRPKRAVKIAKYVD 138 (381)
T ss_pred HhcCCCEEEEeCCCCCchHHHHHHHHhCCCCCeEEEECcceeeechhhHHHHHHHhh
Confidence 9999999999999999888887777677 44555 4667 45555444
Done!