Query 036592
Match_columns 519
No_of_seqs 206 out of 386
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 03:34:17 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036592.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036592hhsearch_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 6.8E-57 1.5E-61 451.8 3.2 300 125-443 5-345 (351)
2 KOG3849 GDP-fucose protein O-f 98.3 5.6E-06 1.2E-10 84.5 12.3 286 117-441 27-368 (386)
3 PF05830 NodZ: Nodulation prot 97.1 0.019 4.2E-07 59.9 15.9 256 119-432 2-290 (321)
4 PLN02232 ubiquinone biosynthes 59.3 24 0.00051 32.7 5.9 99 257-369 49-153 (160)
5 KOG3705 Glycoprotein 6-alpha-L 57.2 24 0.00052 39.0 6.1 129 261-428 340-475 (580)
6 PF14771 DUF4476: Domain of un 56.9 19 0.00041 30.8 4.5 36 341-391 39-74 (95)
7 PRK15451 tRNA cmo(5)U34 methyl 43.5 34 0.00074 33.8 4.5 82 267-363 142-230 (247)
8 PF00799 Gemini_AL1: Geminivir 37.9 36 0.00078 31.1 3.3 29 339-368 14-42 (114)
9 PF02845 CUE: CUE domain; Int 37.5 18 0.0004 26.7 1.2 38 375-416 4-41 (42)
10 PF06180 CbiK: Cobalt chelatas 37.0 94 0.002 32.0 6.6 130 315-449 25-205 (262)
11 PF10892 DUF2688: Protein of u 29.2 39 0.00085 27.8 1.9 16 338-354 42-57 (60)
12 PRK10556 hypothetical protein; 28.0 40 0.00088 30.5 1.9 26 342-371 3-28 (111)
13 smart00874 B5 tRNA synthetase 27.7 63 0.0014 25.8 2.9 24 334-358 12-35 (71)
14 PF00667 FAD_binding_1: FAD bi 26.3 1.5E+02 0.0032 29.0 5.7 113 340-475 52-175 (219)
15 COG2884 FtsE Predicted ATPase 26.2 36 0.00078 34.5 1.5 18 124-142 136-153 (223)
16 PF09400 DUF2002: Protein of u 24.1 38 0.00082 30.9 1.1 26 342-371 3-28 (111)
17 PF12038 DUF3524: Domain of un 23.8 83 0.0018 30.8 3.4 77 360-441 60-143 (168)
18 PF00036 EF-hand_1: EF hand; 22.6 56 0.0012 22.6 1.5 26 452-477 4-29 (29)
19 PF10365 DUF2436: Domain of un 20.9 31 0.00068 33.1 -0.1 21 156-176 30-50 (161)
20 PF05577 Peptidase_S28: Serine 20.9 1.3E+02 0.0027 32.2 4.4 65 117-184 26-106 (434)
21 KOG0187 40S ribosomal protein 20.4 2.3E+02 0.0051 26.7 5.4 85 258-369 40-124 (134)
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=6.8e-57 Score=451.78 Aligned_cols=300 Identities=35% Similarity=0.630 Sum_probs=209.1
Q ss_pred EecCcchhhHHHHhHHHHHHHHhCCcEEecccCCCCccCCCCC-----CCccccHHHHHHhcccccEEeccCChhhhhhh
Q 036592 125 SCNGGLNQMRAAICDMVAIARYLNVTLIVPELDKTSFWNDPSE-----FKDIFDVDHFIASLRDEVRILKELPPRLKTRV 199 (519)
Q Consensus 125 ~~nGGLNQqR~~IcDaVavARlLNATLViP~L~~~s~W~D~S~-----F~DIFDvdhFI~sL~~dVrIVk~LP~~~~~~~ 199 (519)
.+.||+||||+++++||++|++||+|||||.+...+.|++.++ |+++||++||++.++++|++.+.+|.......
T Consensus 5 p~~GGfnNQr~~~~~a~~~A~~LnRTLVLPp~~~~~~~~~~~~~~~ipf~~~fD~~~l~~~~~~vi~~~ef~~~~~~~~~ 84 (351)
T PF10250_consen 5 PCMGGFNNQRMGFENAVVFAKALNRTLVLPPFIKHYHWKDQSKQRHIPFSDFFDVEHLRKFLRPVITMEEFLPKHWDEVF 84 (351)
T ss_dssp --SSSHHHHHHHHHHHHHHHHHHT-EEE--EEEEESSSS----EEEEEHHHHB-HHHHTTTS--EE-HHHHHHHHS-GGG
T ss_pred CCCCCHHHHHHHHHHHHHHHHHhCCEEEcCCccccccccccccccccChhhhccHHHHHHHhhCceehheeccchhcccc
Confidence 3899999999999999999999999999999999999999987 99999999999999999999998876554421
Q ss_pred hc---------------------------CcccccCCCC-cCChhHHHhhchhhhccc------eeEEEcccCcccccCC
Q 036592 200 EL---------------------------GMLYSLPPIS-WSDISYYHNQILPLLQKH------KVVHLNKTDARLANNG 245 (519)
Q Consensus 200 ~~---------------------------~~~~~~~p~~-ws~~~yY~~~vlP~l~k~------~Vi~l~~~d~RLa~d~ 245 (519)
.. ....+..+.. |+.+.+|.++++|.+.++ +++.|.++..++..+.
T Consensus 85 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~ 164 (351)
T PF10250_consen 85 RLQYCWSPWESGSWDDNMKDGNPFGPFWDKFPIKFDPCEFWSSPSLYLEDVLPELREWNENSEHPVIAFTGFESRLPDNY 164 (351)
T ss_dssp -EEEESS-B--------TTSSTTHHHHHHHTT---SEEE-E-TTSTTTT-STTHHHHHHHHTT-SEEEESS-SS-SS--G
T ss_pred chhhcccccccccchhhccccccccccccccceeeccccccCCchhhHHHhhhHHhhhccccccccceeccccccchhcc
Confidence 11 0112222222 788889999999999886 9999999999999988
Q ss_pred CChhhhhhhhhhcccccccchHHHHHHHHHHHHHH-hcCCeEEEeccchhhhHhhhcCCCCCChHHHHHHHHHHhhCccc
Q 036592 246 LPLEFQKLRCRVNFKALKFTSQIEELGRRVVKILR-EKGPFLVLHLRYEMDMLAFSGCTHGCNIEEVEELTQMRYAYPWW 324 (519)
Q Consensus 246 lP~eiQrLRCrvnf~ALrF~~~I~~lg~~lV~RLr-~~G~fiALHLR~E~DMlAfsgC~~g~~~~E~~eL~~~R~~~~~w 324 (519)
++.++|| +|+|+++|+++|+++++++. ..++|||+|||+|+|| +++|.+++ +...|+.+|. |
T Consensus 165 ~~~~~~r--------~l~~~~~i~~~a~~~i~~~~~~~~~yiavHlR~~~D~--~~~C~~~~---~~~~~~~~~~----~ 227 (351)
T PF10250_consen 165 LDRDLQR--------YLRFSPEIRELADKFIKRLLAGGGPYIAVHLRRGKDW--FSACEFKG---ERHLLASPRC----W 227 (351)
T ss_dssp GGGGGGG--------G--B-HHHHHHHHHHHHHH----SSEEEEEE--SHHH--HHHHCT-T-------TTTHHH----H
T ss_pred cCccceE--------EEecCHHHHHHHHHHHHHhhcccCceEEEeecccCch--HhhcccCC---chHHHHHhHh----h
Confidence 8999987 99999999999999999999 7899999999999999 89999955 5666777775 3
Q ss_pred ccccCChHHHhhCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccccCcccchhHHHHhCCccccccccc-hhhhhhhhcc
Q 036592 325 KEKVINSEMKRKEGLCPLTPEETALVLTALGIDHNVQIYIAAGEIYGGQRRMAALAEAFPNLVRKETLL-KSDLKFFQNH 403 (519)
Q Consensus 325 k~k~i~~~~~R~~G~CPLTPeEvgl~L~alGf~~~T~IYlAsgeiyGGe~~l~~Lr~~FPnl~tKe~L~-~eEL~pf~~~ 403 (519)
.++.+++...|..|.||++|++++.+++++|+.+.|.||||++++|||.+.|++|++.||++++|+++. .+|+++|.+
T Consensus 228 ~~~~~~~~~~~~~~~~p~~~~~~~~i~~~~~~~~~~~vYiAtd~~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~- 306 (351)
T PF10250_consen 228 GKKSINPEKKRRNGCCPSTPQEAKQILRALGKNNTTVVYIATDEIYGGERRLDPLKNMFPNVVTKDDLLSHEELEPLND- 306 (351)
T ss_dssp -GGGTT-----HHHHS--HHHHHHHHHHHHHHHT-SEEEEEESS-----------HHHHHHHHGGGT--EE--S------
T ss_pred ccccccchhhhhcCCCCChHHHHHHHHHHhccCCCCEEEEecCcccccchhHHHHHHHhhhhEeccccCCHHHhhhccc-
Confidence 566788888999999999999999999999999999999999999999999999999999999999999 899998877
Q ss_pred chhhhhhhhhhhccCcccccCCCCchhhhhhHhhhhcCCc
Q 036592 404 SSQMAALDYLVSLESDIFIPTYDGNMAKVVEGHRRFLGFK 443 (519)
Q Consensus 404 ss~~AALDY~Vcl~SDvFV~t~~GNfa~~V~GhR~y~G~~ 443 (519)
.++|+||++||++||+||+|..++|+.+|+++|+|.|+.
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=98.32 E-value=5.6e-06 Score=84.46 Aligned_cols=286 Identities=21% Similarity=0.323 Sum_probs=152.8
Q ss_pred cCCcEEEE-EecCcchhhHHHHhHHHHHHHHhCCcEEecccC---CCCccCCCCCCCccccHH------------HHHHh
Q 036592 117 KNNGYLMV-SCNGGLNQMRAAICDMVAIARYLNVTLIVPELD---KTSFWNDPSEFKDIFDVD------------HFIAS 180 (519)
Q Consensus 117 ~snGYl~V-~~nGGLNQqR~~IcDaVavARlLNATLViP~L~---~~s~W~D~S~F~DIFDvd------------hFI~s 180 (519)
..||||+. .|-|-+.||-..+.-..|.|+.||.|||+|..- +-.+-+---.|+..|.++ .|+.-
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 45999998 799999999999999999999999999999642 111111123788888775 34444
Q ss_pred ccccc-----E--EeccC-----Chhh--hhhhhc--CcccccCCCCcCChhHHHh------hc---hhhh-----ccce
Q 036592 181 LRDEV-----R--ILKEL-----PPRL--KTRVEL--GMLYSLPPISWSDISYYHN------QI---LPLL-----QKHK 230 (519)
Q Consensus 181 L~~dV-----r--IVk~L-----P~~~--~~~~~~--~~~~~~~p~~ws~~~yY~~------~v---lP~l-----~k~~ 230 (519)
|.++. | |..+- |..- ..++.+ +.....--++.....||-. +. ...+ ++|-
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 1 11110 1100 000100 0000000011122222210 00 1111 3467
Q ss_pred eEEEcccCcccccCCCChhhhhhhhhhcccccccchHHHHHHHHHHHHHHhcCCeEEEeccchhhhHhhhcCCCCCChHH
Q 036592 231 VVHLNKTDARLANNGLPLEFQKLRCRVNFKALKFTSQIEELGRRVVKILREKGPFLVLHLRYEMDMLAFSGCTHGCNIEE 310 (519)
Q Consensus 231 Vi~l~~~d~RLa~d~lP~eiQrLRCrvnf~ALrF~~~I~~lg~~lV~RLr~~G~fiALHLR~E~DMlAfsgC~~g~~~~E 310 (519)
|+.|++.-...---+.--.||| -|+.+++|.+.|++.+.-=-. .|||++|||...||+-- |.+--....
T Consensus 187 VLAf~gAPA~FPv~~e~~~lQk--------Yl~WS~r~~e~~k~fI~a~L~-rpfvgiHLRng~DWvra--Cehikd~~~ 255 (386)
T KOG3849|consen 187 VLAFSGAPAPFPVKGEVWSLQK--------YLRWSSRITEQAKKFISANLA-RPFVGIHLRNGADWVRA--CEHIKDTTN 255 (386)
T ss_pred eeeecCCCCCCccccccccHHH--------HHHHHHHHHHHHHHHHHHhcC-cceeEEEeecCchHHHH--HHHhcccCC
Confidence 7777643221100011114665 488999999999887654322 49999999999999865 754211000
Q ss_pred HHHHHHHHhhCcccccccCChHHHhhC-----CCCCCCHHHHH----HHHHHcCCCCCceEEEEeccccCcccchhHHH-
Q 036592 311 VEELTQMRYAYPWWKEKVINSEMKRKE-----GLCPLTPEETA----LVLTALGIDHNVQIYIAAGEIYGGQRRMAALA- 380 (519)
Q Consensus 311 ~~eL~~~R~~~~~wk~k~i~~~~~R~~-----G~CPLTPeEvg----l~L~alGf~~~T~IYlAsgeiyGGe~~l~~Lr- 380 (519)
. -| .+-|..-+ ..+.. ..|-=+-+|+- +-.+.+| .--.+|+|+-. +.-+..|.
T Consensus 256 ~-hl----fASpQClG------y~~~~gaLt~e~C~Psk~~I~rqik~~v~si~--dakSVfVAsDs----~hmi~Eln~ 318 (386)
T KOG3849|consen 256 R-HL----FASPQCLG------YGHHLGALTKEICSPSKQQILRQIKEKVGSIG--DAKSVFVASDS----DHMIDELNE 318 (386)
T ss_pred C-cc----ccChhhcc------ccccccccchhhhCccHHHHHHHHHHHHhhhc--ccceEEEeccc----hhhhHHHHH
Confidence 0 00 00000000 01111 23433333332 2223333 23368999865 23334443
Q ss_pred HhCCccccccccchhhhhhhhccchhhhhhhhhhhccCcccccCCCCchhhhhhHhhhhcC
Q 036592 381 EAFPNLVRKETLLKSDLKFFQNHSSQMAALDYLVSLESDIFIPTYDGNMAKVVEGHRRFLG 441 (519)
Q Consensus 381 ~~FPnl~tKe~L~~eEL~pf~~~ss~~AALDY~Vcl~SDvFV~t~~GNfa~~V~GhR~y~G 441 (519)
+++|-=+.-..|-++ -+-+|..|.-+||.||++--++|+..|--.|-..|
T Consensus 319 aL~~~~i~vh~l~pd-----------d~y~dLaIlGqadhFiGNCvSsfsafvKRERD~~G 368 (386)
T KOG3849|consen 319 ALKPYEIEVHRLEPD-----------DMYTDLAILGQADHFIGNCVSSFSAFVKRERDHAG 368 (386)
T ss_pred hhcccceeEEecCcc-----------cchhhhhhhcccchhhhhhHHHHHHHHhhhhcccC
Confidence 344432221222121 35679999999999999999999999999998888
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=97.10 E-value=0.019 Score=59.88 Aligned_cols=256 Identities=18% Similarity=0.253 Sum_probs=128.0
Q ss_pred CcEEEEEecCcchhhHHHHhHHHHHHHHhCCcEEecccCCCCccCCC----CCCCccccHHHHHHhcc--cccEEeccCC
Q 036592 119 NGYLMVSCNGGLNQMRAAICDMVAIARYLNVTLIVPELDKTSFWNDP----SEFKDIFDVDHFIASLR--DEVRILKELP 192 (519)
Q Consensus 119 nGYl~V~~nGGLNQqR~~IcDaVavARlLNATLViP~L~~~s~W~D~----S~F~DIFDvdhFI~sL~--~dVrIVk~LP 192 (519)
+.|++..--+|+|.-==+++-|-.+|+-.|.||||= |+++ -.|...|++ |-+-.+ ..|+|.-.
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 6665 467766654 444444 34554411
Q ss_pred hhhhhhhhcCcccccCCCCcCChh---------H-HH--hhchhhhc------cceeEEEcccCcccccCCCChhhhhhh
Q 036592 193 PRLKTRVELGMLYSLPPISWSDIS---------Y-YH--NQILPLLQ------KHKVVHLNKTDARLANNGLPLEFQKLR 254 (519)
Q Consensus 193 ~~~~~~~~~~~~~~~~p~~ws~~~---------y-Y~--~~vlP~l~------k~~Vi~l~~~d~RLa~d~lP~eiQrLR 254 (519)
+.+.. +..+...-|.-|-.+. + +. +++--+++ ...||+..=..++.. .++.
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 DRINQ---FSFPGPFFPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWRCD-----EEAE--- 139 (321)
T ss_dssp GGGGT-------SSEESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTSS------HHHH---
T ss_pred chhhh---hcCCCCcChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCcch-----hHHH---
Confidence 11111 0001111122222222 1 11 11222332 356888776666643 2344
Q ss_pred hhhcccccccchHHHHHHHHHHHHHHhcCCeEEEeccch--hhhHhhhcCCCCCChHHHHHHHHHHhhCcccccccCChH
Q 036592 255 CRVNFKALKFTSQIEELGRRVVKILREKGPFLVLHLRYE--MDMLAFSGCTHGCNIEEVEELTQMRYAYPWWKEKVINSE 332 (519)
Q Consensus 255 Crvnf~ALrF~~~I~~lg~~lV~RLr~~G~fiALHLR~E--~DMlAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~ 332 (519)
|-.|..|+-+++|++..+.+-+.-=...+=|++|-|.- +|.+.+ +|.+ .+.| ..|.+..
T Consensus 140 -R~if~slkpR~eIqarID~iy~ehf~g~~~IGVHVRhGngeD~~~h-~~~~--~D~e-~~L~~V~-------------- 200 (321)
T PF05830_consen 140 -REIFSSLKPRPEIQARIDAIYREHFAGYSVIGVHVRHGNGEDIMDH-APYW--ADEE-RALRQVC-------------- 200 (321)
T ss_dssp -HHHHHHS-B-HHHHHHHHHHHHHHTTTSEEEEEEE------------------HHHH-HHHHHHH--------------
T ss_pred -HHHHHhCCCCHHHHHHHHHHHHHHcCCCceEEEEEeccCCcchhcc-Cccc--cCch-HHHHHHH--------------
Confidence 24799999999999999988777655566899999942 233333 2322 1111 0111111
Q ss_pred HHhhCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccccCcccchhHHHHhCCccccccccc-hhhhhhhhc-----cchh
Q 036592 333 MKRKEGLCPLTPEETALVLTALGIDHNVQIYIAAGEIYGGQRRMAALAEAFPNLVRKETLL-KSDLKFFQN-----HSSQ 406 (519)
Q Consensus 333 ~~R~~G~CPLTPeEvgl~L~alGf~~~T~IYlAsgeiyGGe~~l~~Lr~~FPnl~tKe~L~-~eEL~pf~~-----~ss~ 406 (519)
.....++++-...++.|+||+-. ...++-+++.||.+++-++=. +..-.++.+ ..-.
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 11122345556678999999977 467899999999988765433 211112221 1223
Q ss_pred hhhhhhhhhccCcccc-cCCCCchhhh
Q 036592 407 MAALDYLVSLESDIFI-PTYDGNMAKV 432 (519)
Q Consensus 407 ~AALDY~Vcl~SDvFV-~t~~GNfa~~ 432 (519)
.|-+|-+....+|+-| .+-.+.|.+.
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 5555555553
No 4
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=59.27 E-value=24 Score=32.75 Aligned_cols=99 Identities=12% Similarity=0.016 Sum_probs=59.0
Q ss_pred hcccccccchHHHHHHHHHHHHHHhcCCeEEEeccchhhhHhh----hcCCCCCChHHHH--HHHHHHhhCcccccccCC
Q 036592 257 VNFKALKFTSQIEELGRRVVKILREKGPFLVLHLRYEMDMLAF----SGCTHGCNIEEVE--ELTQMRYAYPWWKEKVIN 330 (519)
Q Consensus 257 vnf~ALrF~~~I~~lg~~lV~RLr~~G~fiALHLR~E~DMlAf----sgC~~g~~~~E~~--eL~~~R~~~~~wk~k~i~ 330 (519)
+...+|++.++..+.-+.+.+.|+..|.++.++.-.+...+.. .-|....-+-+.- ...+|++-
T Consensus 49 ~~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~yl---------- 118 (160)
T PLN02232 49 TMGYGLRNVVDRLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEYL---------- 118 (160)
T ss_pred EecchhhcCCCHHHHHHHHHHHcCcCeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHhH----------
Confidence 4445677778888888899999999999988877554322110 0111100000000 00111110
Q ss_pred hHHHhhCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccc
Q 036592 331 SEMKRKEGLCPLTPEETALVLTALGIDHNVQIYIAAGEI 369 (519)
Q Consensus 331 ~~~~R~~G~CPLTPeEvgl~L~alGf~~~T~IYlAsgei 369 (519)
..+... +++|+|...+|+..||.+-+.-+++.|-.
T Consensus 119 ---~~si~~-f~~~~el~~ll~~aGF~~~~~~~~~~g~~ 153 (160)
T PLN02232 119 ---KYSING-YLTGEELETLALEAGFSSACHYEISGGFM 153 (160)
T ss_pred ---HHHHHH-CcCHHHHHHHHHHcCCCcceEEECcchHh
Confidence 011112 48999999999999999998888887753
No 5
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=57.21 E-value=24 Score=39.00 Aligned_cols=129 Identities=17% Similarity=0.210 Sum_probs=73.3
Q ss_pred ccccchHHHHHHHHHHHHHHhcCCeEEEeccchhhhHhhhcCCCCCChHHHHHHHHHHhhCcccccccCChHHHhhCCCC
Q 036592 261 ALKFTSQIEELGRRVVKILREKGPFLVLHLRYEMDMLAFSGCTHGCNIEEVEELTQMRYAYPWWKEKVINSEMKRKEGLC 340 (519)
Q Consensus 261 ALrF~~~I~~lg~~lV~RLr~~G~fiALHLR~E~DMlAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~~~R~~G~C 340 (519)
-+||+|-.++--++-.+.|--..|-|++|.|--. .-|+++---.++.|=. |-|
T Consensus 340 L~Rpqp~t~~~l~~a~k~lg~~~PivGvhvRRTD---------KVGTEAAfH~~eEYM~----~vE-------------- 392 (580)
T KOG3705|consen 340 LMRPQPATQEKLDKALKSLGLDKPIVGVHVRRTD---------KVGTEAAFHALEEYME----WVE-------------- 392 (580)
T ss_pred HhCCChhhHHHHHHHHHhCCCCCceeeEEEEecc---------cccchhhhhhHHHHHH----HHH--------------
Confidence 4788888887555544444445599999998742 2222222222333332 211
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEEeccccCcccchhHHHHhCCccccccccchhhh---hhhhc----cchhhhhhhhh
Q 036592 341 PLTPEETALVLTALGIDHNVQIYIAAGEIYGGQRRMAALAEAFPNLVRKETLLKSDL---KFFQN----HSSQMAALDYL 413 (519)
Q Consensus 341 PLTPeEvgl~L~alGf~~~T~IYlAsgeiyGGe~~l~~Lr~~FPnl~tKe~L~~eEL---~pf~~----~ss~~AALDY~ 413 (519)
+--.+|..=|=+-.-+||||+-+. ..+..-|.-|||.. -+..-|. +.+.+ .|..---+|..
T Consensus 393 -----~~f~~le~rg~~~~rRiflAsDDp----~vv~EAk~kYPnYe---~igd~eia~~A~l~nRYTd~sL~GvIlDIh 460 (580)
T KOG3705|consen 393 -----IWFKVLEKRGKPLERRIFLASDDP----TVVPEAKNKYPNYE---VIGDTEIAKTAQLNNRYTDASLMGVILDIH 460 (580)
T ss_pred -----HHHHHHHHhCCchhheEEEecCCc----hhchHhhccCCCcE---EeccHHHHHHhhccccchhhhhhheeeeee
Confidence 111223333445556899999885 55677789999942 2222222 22222 22233456888
Q ss_pred hhccCcccccCCCCc
Q 036592 414 VSLESDIFIPTYDGN 428 (519)
Q Consensus 414 Vcl~SDvFV~t~~GN 428 (519)
+.+.+|..|.|+++-
T Consensus 461 ~LS~~d~LVCTFSSQ 475 (580)
T KOG3705|consen 461 ILSKVDYLVCTFSSQ 475 (580)
T ss_pred eecccceEEEechHH
Confidence 888888888887764
No 6
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=56.89 E-value=19 Score=30.81 Aligned_cols=36 Identities=19% Similarity=0.370 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEEeccccCcccchhHHHHhCCccccccc
Q 036592 341 PLTPEETALVLTALGIDHNVQIYIAAGEIYGGQRRMAALAEAFPNLVRKET 391 (519)
Q Consensus 341 PLTPeEvgl~L~alGf~~~T~IYlAsgeiyGGe~~l~~Lr~~FPnl~tKe~ 391 (519)
++|-.+++-+|+...|+ +.+|..|+.++|++++++.
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 3579999999999999964
No 7
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=43.47 E-value=34 Score=33.84 Aligned_cols=82 Identities=12% Similarity=0.147 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHhcCCeEEEe-ccchhh-----hHhhhcCCCCCChHHHHHHHHHHhhCcccccccCCh-HHHhhCCC
Q 036592 267 QIEELGRRVVKILREKGPFLVLH-LRYEMD-----MLAFSGCTHGCNIEEVEELTQMRYAYPWWKEKVINS-EMKRKEGL 339 (519)
Q Consensus 267 ~I~~lg~~lV~RLr~~G~fiALH-LR~E~D-----MlAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~-~~~R~~G~ 339 (519)
+.+.+-+.+.+.|+..|.++..+ .+.+.+ ++..+... . +...|.+.+|.. .+.+.+-.
T Consensus 142 ~~~~~l~~i~~~LkpGG~l~l~e~~~~~~~~~~~~~~~~~~~~--------------~-~~~g~s~~ei~~~~~~~~~~~ 206 (247)
T PRK15451 142 ERQALLDKIYQGLNPGGALVLSEKFSFEDAKVGELLFNMHHDF--------------K-RANGYSELEISQKRSMLENVM 206 (247)
T ss_pred HHHHHHHHHHHhcCCCCEEEEEEecCCCcchhHHHHHHHHHHH--------------H-HHcCCCHHHHHHHHHHHHhhc
Confidence 45677788888888889887764 333321 11111110 0 001222222221 11233456
Q ss_pred CCCCHHHHHHHHHHcCCCCCceEE
Q 036592 340 CPLTPEETALVLTALGIDHNVQIY 363 (519)
Q Consensus 340 CPLTPeEvgl~L~alGf~~~T~IY 363 (519)
-|+|++|...+|+..||..-..+|
T Consensus 207 ~~~~~~~~~~~L~~aGF~~v~~~~ 230 (247)
T PRK15451 207 LTDSVETHKARLHKAGFEHSELWF 230 (247)
T ss_pred ccCCHHHHHHHHHHcCchhHHHHH
Confidence 789999999999999999655443
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=37.94 E-value=36 Score=31.09 Aligned_cols=29 Identities=31% Similarity=0.328 Sum_probs=16.6
Q ss_pred CCCCCHHHHHHHHHHcCCCCCceEEEEecc
Q 036592 339 LCPLTPEETALVLTALGIDHNVQIYIAAGE 368 (519)
Q Consensus 339 ~CPLTPeEvgl~L~alGf~~~T~IYlAsge 368 (519)
.|||||||+...|+++--+ ....||..+.
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 5999999999999999764 4677876654
No 9
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=37.54 E-value=18 Score=26.67 Aligned_cols=38 Identities=32% Similarity=0.543 Sum_probs=24.6
Q ss_pred chhHHHHhCCccccccccchhhhhhhhccchhhhhhhhhhhc
Q 036592 375 RMAALAEAFPNLVRKETLLKSDLKFFQNHSSQMAALDYLVSL 416 (519)
Q Consensus 375 ~l~~Lr~~FPnl~tKe~L~~eEL~pf~~~ss~~AALDY~Vcl 416 (519)
.+..|+++||++ +.+.| ..-|+ ++..+..+|+|.+...
T Consensus 4 ~v~~L~~mFP~~-~~~~I-~~~L~--~~~~~ve~ai~~LL~~ 41 (42)
T PF02845_consen 4 MVQQLQEMFPDL-DREVI-EAVLQ--ANNGDVEAAIDALLEM 41 (42)
T ss_dssp HHHHHHHHSSSS--HHHH-HHHHH--HTTTTHHHHHHHHHHH
T ss_pred HHHHHHHHCCCC-CHHHH-HHHHH--HcCCCHHHHHHHHHcC
Confidence 467899999984 33333 11232 5577888999988753
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=36.95 E-value=94 Score=32.04 Aligned_cols=130 Identities=22% Similarity=0.386 Sum_probs=69.5
Q ss_pred HHHHhhCcccccc------cCChHHHhhCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccccCcccchhHHHH-------
Q 036592 315 TQMRYAYPWWKEK------VINSEMKRKEGLCPLTPEETALVLTALGIDHNVQIYIAAGEIYGGQRRMAALAE------- 381 (519)
Q Consensus 315 ~~~R~~~~~wk~k------~i~~~~~R~~G~CPLTPeEvgl~L~alGf~~~T~IYlAsgeiyGGe~~l~~Lr~------- 381 (519)
+++|.++|.|.-. .|-...++..|..-.+|.|+=.=|++-||. .|||-+--|..|++.- -|++
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---EVVVQPLHIIPGEEYE-KLRATVEAYKH 100 (262)
T ss_dssp HHHHHCSTTSEEEEEES-HHHHHHHHHCHT-----HHHHHHHHHHCT-----EEEEEE--SCSSHHHH-HHHHHHHHHCC
T ss_pred HHHHHHCCCCcEEEEchHHHHHHHHHhcCCCCcCCHHHHHHHHHHCCCC---EEEEeecceeCcHhHH-HHHHHHHHhhc
Confidence 3455666666422 222233444577789999999999999998 8999998888887633 3433
Q ss_pred hC-------Ccccc------ccccc--hhhhh---h---------hhccchh------hhhhhhhhhcc--CcccccCCC
Q 036592 382 AF-------PNLVR------KETLL--KSDLK---F---------FQNHSSQ------MAALDYLVSLE--SDIFIPTYD 426 (519)
Q Consensus 382 ~F-------Pnl~t------Ke~L~--~eEL~---p---------f~~~ss~------~AALDY~Vcl~--SDvFV~t~~ 426 (519)
.| |.|.+ .++.. .+.|. | |-+|++. -++|+++..-. -+|||+|-.
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 24 66664 33332 11121 1 3334332 46777777776 479999999
Q ss_pred C--chhhhhhHhhhhcCCcc-eeecC
Q 036592 427 G--NMAKVVEGHRRFLGFKK-TILLN 449 (519)
Q Consensus 427 G--Nfa~~V~GhR~y~G~~k-TI~Pd 449 (519)
| ++..++.--+. .|.+| ++.|=
T Consensus 181 G~P~~~~vi~~L~~-~g~k~V~L~Pl 205 (262)
T PF06180_consen 181 GYPSLEDVIARLKK-KGIKKVHLIPL 205 (262)
T ss_dssp SSSBHHHHHHHHHH-HT-SEEEEEEE
T ss_pred CCCCHHHHHHHHHh-cCCCeEEEEec
Confidence 8 57776653333 36555 55553
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=29.22 E-value=39 Score=27.76 Aligned_cols=16 Identities=50% Similarity=0.810 Sum_probs=13.5
Q ss_pred CCCCCCHHHHHHHHHHc
Q 036592 338 GLCPLTPEETALVLTAL 354 (519)
Q Consensus 338 G~CPLTPeEvgl~L~al 354 (519)
|-| +||||-+.+++++
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
>PRK10556 hypothetical protein; Provisional
Probab=28.04 E-value=40 Score=30.54 Aligned_cols=26 Identities=38% Similarity=0.612 Sum_probs=20.5
Q ss_pred CCHHHHHHHHHHcCCCCCceEEEEeccccC
Q 036592 342 LTPEETALVLTALGIDHNVQIYIAAGEIYG 371 (519)
Q Consensus 342 LTPeEvgl~L~alGf~~~T~IYlAsgeiyG 371 (519)
|-|.||+.+|+..||..+.. +-+.||
T Consensus 3 LRPDEVArVLe~aGF~~D~v----t~~aYG 28 (111)
T PRK10556 3 LRPDEVARVLEKAGFTVDVV----TQKAYG 28 (111)
T ss_pred cChHHHHHHHHhcCceEEEe----echhcc
Confidence 67999999999999986643 345666
No 13
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=27.70 E-value=63 Score=25.80 Aligned_cols=24 Identities=38% Similarity=0.508 Sum_probs=20.2
Q ss_pred HhhCCCCCCCHHHHHHHHHHcCCCC
Q 036592 334 KRKEGLCPLTPEETALVLTALGIDH 358 (519)
Q Consensus 334 ~R~~G~CPLTPeEvgl~L~alGf~~ 358 (519)
.+..|.. ++++|+..+|+.|||+-
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 14
>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=26.26 E-value=1.5e+02 Score=29.02 Aligned_cols=113 Identities=21% Similarity=0.316 Sum_probs=61.4
Q ss_pred CCCCHHHHHHHHHHcCCCCCceEEEEeccc-------cCcccchhHHHHhCCccccccccc-hhh---hhhhhccchhhh
Q 036592 340 CPLTPEETALVLTALGIDHNVQIYIAAGEI-------YGGQRRMAALAEAFPNLVRKETLL-KSD---LKFFQNHSSQMA 408 (519)
Q Consensus 340 CPLTPeEvgl~L~alGf~~~T~IYlAsgei-------yGGe~~l~~Lr~~FPnl~tKe~L~-~eE---L~pf~~~ss~~A 408 (519)
|+=.|++|..+|+.||.+.++.|-|...+- ++.. .+|+..|-...+=..+. .+- |+.|..-....+
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 445678899999999999999999988872 1111 12233322222222222 222 233322223344
Q ss_pred hhhhhhhccCcccccCCCCchhhhhhHhhhhcCCcceeecChHHHHHHHHhhcCCCCChHHHHHHHH
Q 036592 409 ALDYLVSLESDIFIPTYDGNMAKVVEGHRRFLGFKKTILLNRRQLVDLIDQYNNGSMSWDEFASTVK 475 (519)
Q Consensus 409 ALDY~Vcl~SDvFV~t~~GNfa~~V~GhR~y~G~~kTI~Pdrk~l~~L~~~~~~~~~~w~~f~~~v~ 475 (519)
.|..+.+. .|...|.. .+.-+++.+++++..|..-.+.++.|-+.+.
T Consensus 129 ~L~~l~~~-----------------~~~~~~~~---~~~~~~~t~~dil~~fps~~~pl~~ll~~lp 175 (219)
T PF00667_consen 129 RLLELASD-----------------EGKDDYKD---YIWRERRTLLDILEDFPSCKPPLEELLELLP 175 (219)
T ss_dssp HHHHCTSS-----------------HHHHHHHH---HTTTTTHCHHHHHHHSTTBTC-HHHHHHHS-
T ss_pred HHHHhcch-----------------hhhhhhhh---hhhcccCcHHHHHhhCcccCCCHHHhhhhCC
Confidence 45444322 33333332 2223567888999888777788888887764
No 15
>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]
Probab=26.21 E-value=36 Score=34.47 Aligned_cols=18 Identities=33% Similarity=0.525 Sum_probs=14.7
Q ss_pred EEecCcchhhHHHHhHHHH
Q 036592 124 VSCNGGLNQMRAAICDMVA 142 (519)
Q Consensus 124 V~~nGGLNQqR~~IcDaVa 142 (519)
...+|| .|||.+|+.|++
T Consensus 136 ~~LSGG-EQQRvaIARAiV 153 (223)
T COG2884 136 SQLSGG-EQQRVAIARAIV 153 (223)
T ss_pred cccCch-HHHHHHHHHHHc
Confidence 467777 899999999864
No 16
>PF09400 DUF2002: Protein of unknown function (DUF2002); InterPro: IPR018994 This entry represents a group of putative cytoplasmic proteins. The structure of these proteins form an antiparallel beta sheet and contain some alpha helical regions. ; PDB: 2G7J_A.
Probab=24.14 E-value=38 Score=30.93 Aligned_cols=26 Identities=35% Similarity=0.636 Sum_probs=17.9
Q ss_pred CCHHHHHHHHHHcCCCCCceEEEEeccccC
Q 036592 342 LTPEETALVLTALGIDHNVQIYIAAGEIYG 371 (519)
Q Consensus 342 LTPeEvgl~L~alGf~~~T~IYlAsgeiyG 371 (519)
|-|.||+.+|+..||..+.. +-+.||
T Consensus 3 lrpdeva~vle~~gf~~d~v----~~~ayg 28 (111)
T PF09400_consen 3 LRPDEVARVLEKAGFERDYV----TDKAYG 28 (111)
T ss_dssp --HHHHHHHHHHTT-EEEEE----ETTEEE
T ss_pred cChHHHHHHHHhcCceEEEe----eccccc
Confidence 67999999999999986543 345566
No 17
>PF12038 DUF3524: Domain of unknown function (DUF3524); InterPro: IPR022701 This domain is functionally uncharacterised and is found in bacteria and eukaryotes. It is about 170 amino acids in length and is found associated with PF00534 from PFAM. Two conserved sequence motifs are found within this entry: HENQ and FNS. There is also a single completely conserved residue S that may be functionally important.
Probab=23.80 E-value=83 Score=30.80 Aligned_cols=77 Identities=19% Similarity=0.243 Sum_probs=59.2
Q ss_pred ceEEEEeccccCcccchhHHHHhCCccccccccc--hhh-hh-hh---hccchhhhhhhhhhhccCcccccCCCCchhhh
Q 036592 360 VQIYIAAGEIYGGQRRMAALAEAFPNLVRKETLL--KSD-LK-FF---QNHSSQMAALDYLVSLESDIFIPTYDGNMAKV 432 (519)
Q Consensus 360 T~IYlAsgeiyGGe~~l~~Lr~~FPnl~tKe~L~--~eE-L~-pf---~~~ss~~AALDY~Vcl~SDvFV~t~~GNfa~~ 432 (519)
-.+=+|++-+ .|+.|+.+.|.+-.--.++ -|. |. |- +...-+-+-++++=|+.||.-+-++.=||.+.
T Consensus 60 ~dll~aTsml-----dLa~l~gL~p~l~~~p~ilYFHENQl~YP~~~~~~rd~~~~~~ni~saLaAD~v~FNS~~nr~sF 134 (168)
T PF12038_consen 60 YDLLFATSML-----DLATLRGLRPDLANVPKILYFHENQLAYPVSPGQERDFQYGMNNIYSALAADRVVFNSAFNRDSF 134 (168)
T ss_pred CCEEEeeccc-----cHHHHHhhccCCCCCCEEEEEecCcccCCCCCCccccccHHHHHHHHHHhceeeeecchhhHHHH
Confidence 3577888876 6999999999876655555 221 21 22 22344578999999999999999999999999
Q ss_pred hhHhhhhcC
Q 036592 433 VEGHRRFLG 441 (519)
Q Consensus 433 V~GhR~y~G 441 (519)
+.|-|.|+.
T Consensus 135 L~~~~~fL~ 143 (168)
T PF12038_consen 135 LDGIPSFLK 143 (168)
T ss_pred HHHHHHHHH
Confidence 999999985
No 18
>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=22.56 E-value=56 Score=22.61 Aligned_cols=26 Identities=19% Similarity=0.489 Sum_probs=20.5
Q ss_pred HHHHHHHhhcCCCCChHHHHHHHHHH
Q 036592 452 QLVDLIDQYNNGSMSWDEFASTVKEV 477 (519)
Q Consensus 452 ~l~~L~~~~~~~~~~w~~f~~~v~~~ 477 (519)
.+...||.-.+|.|+.+||...++++
T Consensus 4 ~~F~~~D~d~dG~I~~~Ef~~~~~~L 29 (29)
T PF00036_consen 4 EAFREFDKDGDGKIDFEEFKEMMKKL 29 (29)
T ss_dssp HHHHHHSTTSSSEEEHHHHHHHHHHT
T ss_pred HHHHHHCCCCCCcCCHHHHHHHHHhC
Confidence 44566777779999999999988763
No 19
>PF10365 DUF2436: Domain of unknown function (DUF2436); InterPro: IPR018832 Gingipains R and K are endopeptidases with specificity for arginyl and lysyl bonds, respectively. Like other cysteine peptidases, they require reducing conditions for activity. They are maximally active at approximately neutral pH. Gingipains R and K are secreted by the bacterium Porphyromonas gingivalis (Bacteroides gingivalis). The bacterium is a major pathogen in periodontal disease, and the many ways in which the activities of the gingipains may contribute to the disease processes have been reviewed []. These enzymes are also involved in the hemagglutinating activity of the organisms. This entry represents a central region found in gingipain K peptidases, active on lysyl bonds; they belong to the MEROPS peptidase family C25 (gingipain family, clan CD).
Probab=20.90 E-value=31 Score=33.07 Aligned_cols=21 Identities=33% Similarity=0.793 Sum_probs=18.6
Q ss_pred cCCCCccCCCCCCCccccHHH
Q 036592 156 LDKTSFWNDPSEFKDIFDVDH 176 (519)
Q Consensus 156 L~~~s~W~D~S~F~DIFDvdh 176 (519)
|..+-+|+|.|.|+-++|.||
T Consensus 30 Leah~vW~DgsGyQ~LlDaDH 50 (161)
T PF10365_consen 30 LEAHNVWGDGSGYQMLLDADH 50 (161)
T ss_pred EeccccccCCcceEEEEcCCc
Confidence 455679999999999999999
No 20
>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=20.90 E-value=1.3e+02 Score=32.23 Aligned_cols=65 Identities=18% Similarity=0.255 Sum_probs=40.9
Q ss_pred cCCcEEEEEecCcchhhHHHHh--HHHHHHHHhCCcEEecccCCCCccCCCCCCCc--------------cccHHHHHHh
Q 036592 117 KNNGYLMVSCNGGLNQMRAAIC--DMVAIARYLNVTLIVPELDKTSFWNDPSEFKD--------------IFDVDHFIAS 180 (519)
Q Consensus 117 ~snGYl~V~~nGGLNQqR~~Ic--DaVavARlLNATLViP~L~~~s~W~D~S~F~D--------------IFDvdhFI~s 180 (519)
+.+|-|++-+-|-=.-....+- -++.+|+-+||.+|+=|=+ |++++..|+| +-|.-+||+.
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 3446666654332222222222 4688999999999987655 9999988876 4688899999
Q ss_pred cccc
Q 036592 181 LRDE 184 (519)
Q Consensus 181 L~~d 184 (519)
++..
T Consensus 103 ~~~~ 106 (434)
T PF05577_consen 103 VKKK 106 (434)
T ss_dssp HHHH
T ss_pred HHHh
Confidence 8844
No 21
>KOG0187 consensus 40S ribosomal protein S17 [Translation, ribosomal structure and biogenesis]
Probab=20.35 E-value=2.3e+02 Score=26.73 Aligned_cols=85 Identities=18% Similarity=0.227 Sum_probs=46.9
Q ss_pred cccccccchHHHHHHHHHHHHHHhcCCeEEEeccchhhhHhhhcCCCCCChHHHHHHHHHHhhCcccccccCChHHHhhC
Q 036592 258 NFKALKFTSQIEELGRRVVKILREKGPFLVLHLRYEMDMLAFSGCTHGCNIEEVEELTQMRYAYPWWKEKVINSEMKRKE 337 (519)
Q Consensus 258 nf~ALrF~~~I~~lg~~lV~RLr~~G~fiALHLR~E~DMlAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~~~R~~ 337 (519)
.-.+=++...|---...|.+|++. ||+=++-.-. +++|+| -|.+| .|+.--..
T Consensus 40 II~SKkLrNkIAGyvtHLmkrIqk-GpvRGISiKL--------------QEEERE----rrdny--------VPevSaLd 92 (134)
T KOG0187|consen 40 IIPSKKLRNKIAGYVTHLMKRIQK-GPVRGISIKL--------------QEEERE----RRDNY--------VPEVSALD 92 (134)
T ss_pred eecchhhhhHHHHHHHHHHHHHHc-CCccceeEee--------------cHHHHH----hhccc--------Ccchhhcc
Confidence 334445666777777888888875 6654433322 344543 12221 01111111
Q ss_pred CCCCCCHHHHHHHHHHcCCCCCceEEEEeccc
Q 036592 338 GLCPLTPEETALVLTALGIDHNVQIYIAAGEI 369 (519)
Q Consensus 338 G~CPLTPeEvgl~L~alGf~~~T~IYlAsgei 369 (519)
.-|=---.++-.||+.|||.....++++....
T Consensus 93 ~d~ieVD~dT~eMlk~lg~~~~~~~~~~~~~~ 124 (134)
T KOG0187|consen 93 QDIIEVDPDTKEMLKLLGFGSLSGVQVTEPQV 124 (134)
T ss_pred hhheeeChhHHHHHHHcCCCCcCceeeeccch
Confidence 11111123567899999999999998887653
Done!