Query 010411
Match_columns 511
No_of_seqs 208 out of 388
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 00:13:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010411.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010411hhsearch_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 9.5E-57 2.1E-61 451.1 0.9 300 99-417 5-345 (351)
2 KOG3849 GDP-fucose protein O-f 98.1 5.4E-05 1.2E-09 77.3 14.4 279 92-415 28-368 (386)
3 PF05830 NodZ: Nodulation prot 97.2 0.0084 1.8E-07 62.4 15.1 254 93-406 2-290 (321)
4 KOG3705 Glycoprotein 6-alpha-L 65.0 27 0.00058 38.5 8.1 130 234-403 340-476 (580)
5 PLN02232 ubiquinone biosynthes 60.9 23 0.0005 32.8 6.1 100 229-342 48-153 (160)
6 PF14771 DUF4476: Domain of un 54.2 22 0.00048 30.3 4.4 36 314-364 39-74 (95)
7 PRK15451 tRNA cmo(5)U34 methyl 46.1 30 0.00065 34.2 4.5 82 240-336 142-230 (247)
8 PF00667 FAD_binding_1: FAD bi 40.4 48 0.001 32.3 4.9 114 313-449 52-175 (219)
9 PF00799 Gemini_AL1: Geminivir 35.7 41 0.00088 30.7 3.3 29 312-341 14-42 (114)
10 PF00036 EF-hand_1: EF hand; 31.5 38 0.00083 23.4 1.9 25 426-450 4-28 (29)
11 smart00874 B5 tRNA synthetase 30.4 52 0.0011 26.2 2.8 24 307-331 12-35 (71)
12 PF10892 DUF2688: Protein of u 29.3 39 0.00085 27.6 1.9 16 311-327 42-57 (60)
13 PF13833 EF-hand_8: EF-hand do 24.6 77 0.0017 23.6 2.7 29 422-450 22-53 (54)
14 PF06180 CbiK: Cobalt chelatas 22.6 2.5E+02 0.0054 28.9 6.8 131 288-423 25-205 (262)
15 PF03484 B5: tRNA synthetase B 21.8 62 0.0014 26.3 1.8 25 307-332 12-36 (70)
16 COG0763 LpxB Lipid A disacchar 20.9 1.2E+02 0.0025 33.3 4.1 100 333-432 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=9.5e-57 Score=451.08 Aligned_cols=300 Identities=37% Similarity=0.667 Sum_probs=209.8
Q ss_pred EecCcchhhHHHHHHHHHHHHHhcCceeecccCCCcccCCCCC-----CCccccHHHHHHhccccceEeccCchhhhhhc
Q 010411 99 SCNGGLNQMRAAICDMVTVAQLLNLTLVVPELDKTSFWADPSN-----FEDIFNVRHFIDSLRDEVRIVRRLPKKYSRKY 173 (511)
Q Consensus 99 ~~nGGLNqqR~~IcDaV~vAr~LNATLViP~L~~~s~W~D~S~-----F~dIFDvdhFI~sL~~dVrIvk~LP~~~~~~~ 173 (511)
.|.||+||||+++++||++|++||+|||||.+...+.|++.++ |+++||++||++.++++|++.+.+|..+....
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 3889999999999999999999999999999999999999987 99999999999999999999988886554321
Q ss_pred CC----------------------------CCCccCCCC-cCChHHHHhhcccccccc------ceEEEeccCcccccCC
Q 010411 174 GY----------------------------SPMEMPPVS-WSNEKYYLQQILPHFSKH------KVLHFNRTDTRLANNG 218 (511)
Q Consensus 174 ~~----------------------------~~~~~~p~~-ws~~~yY~~~ilP~l~k~------~Vi~l~~~d~RLa~d~ 218 (511)
.. ...+..+.. |+.+.+|+++++|.+.++ +++.|.++..++..+.
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 10 011222223 788889999999999886 9999999999999988
Q ss_pred CCchhhhhhhhhcccccccchHHHHHHHHHHHHHh-hcCCeEEEecccchhhhhhhccCCCCChhHHHHHHHHHhcCccc
Q 010411 219 IPFDLQKLRCRVNFQGLKFTPKIETLGYELVRILQ-EKGPFVALHLRYEMDMLAFSGCTHGCSMGEAEELKRLRYAYPWW 297 (511)
Q Consensus 219 lp~eiQrLRCrvnf~ALrF~~~I~~Lg~~lV~RLr-~~G~fiAlHLR~E~DMLAfsgC~~g~~~~E~~eL~~~R~~~~~w 297 (511)
.+.++|| +|+|+++|+++|++++++|. ..++|||+|||+|+|| +++|.+++ +...|+.+|. +
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 6667777775 3
Q ss_pred cccccChHHHhcCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccccCCccchHHHHHhCCcccccccCCChhhhhhhccc
Q 010411 298 REKEIVSEERRSQGLCPLTPEEAALVLQALGIDKDTHIYIAAGEIYGGEKRLAALRAAFPRIVRKEMLLDPAELQLFQNH 377 (511)
Q Consensus 298 k~k~i~~~~~R~~G~CPLTPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~l~~Lr~~FPnl~tKe~L~s~eEL~pf~~~ 377 (511)
.++.+++...|..+.||++|++++.+++++|+.+.|.||||++++|||.+.|++|++.||++++|+++.+.+|+++|.+
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 6677888899999999999999999999999999999999999999999999999999999999999999999998877
Q ss_pred cchhhhhhheeccCCCeeeecCCCchhhhhhhhhcccCCc
Q 010411 378 SSQMAALDFMVSTASDIFIPTYDGNMAKVVEGHRRYLGFK 417 (511)
Q Consensus 378 ss~~AALDY~Vcl~SDvFv~t~~GNfa~~V~GhR~y~G~~ 417 (511)
+++|+||++||++||+||+|..++|+.+|+++|+|.|+.
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 999999999999999999999888999999999999954
No 2
>KOG3849 consensus GDP-fucose protein O-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=98.13 E-value=5.4e-05 Score=77.30 Aligned_cols=279 Identities=22% Similarity=0.348 Sum_probs=151.8
Q ss_pred CCcEEEE-EecCcchhhHHHHHHHHHHHHHhcCceeecccC---CCcccCCCCCCCccccHH------------HHHHhc
Q 010411 92 SNGFLKV-SCNGGLNQMRAAICDMVTVAQLLNLTLVVPELD---KTSFWADPSNFEDIFNVR------------HFIDSL 155 (511)
Q Consensus 92 snGyl~V-~~nGGLNqqR~~IcDaV~vAr~LNATLViP~L~---~~s~W~D~S~F~dIFDvd------------hFI~sL 155 (511)
.||||+. .|-|-+.||-....-..|.|+.||.|||+|..- +-.+-+---.|+..|.++ .|.+-|
T Consensus 28 P~GYl~yCPCMGRFGNQaDhFLGsLAFAKaLnRTL~lPpwiEy~~pe~~n~~vpf~~yF~vepl~~YhRVitm~dFm~kl 107 (386)
T KOG3849|consen 28 PAGYLLYCPCMGRFGNQADHFLGSLAFAKALNRTLVLPPWIEYKHPETKNLMVPFEFYFQVEPLAKYHRVITMQDFMKKL 107 (386)
T ss_pred CCccEEEccccccccchHHHHHHHHHHHHHhcccccCCcchhccCCcccccccchhheeecccHhhhhhheeHHHHHHHh
Confidence 3999988 699999999999999999999999999999652 111111124788888775 344444
Q ss_pred cccc-----e--EeccC-----chhh---hh-hcCCCCC-ccCCCCcCChHHH----------------Hhhcccccccc
Q 010411 156 RDEV-----R--IVRRL-----PKKY---SR-KYGYSPM-EMPPVSWSNEKYY----------------LQQILPHFSKH 202 (511)
Q Consensus 156 ~~dV-----r--Ivk~L-----P~~~---~~-~~~~~~~-~~~p~~ws~~~yY----------------~~~ilP~l~k~ 202 (511)
..+. | |..+- |++- ++ ....+++ ..-.++.....|| ++...| ++|
T Consensus 108 apthwp~~~Rva~c~k~a~qr~pdkp~Ch~KeGNPFGPfWDqfhvsFv~sE~f~~i~Fd~~~~~~~~kW~~kfp~--eey 185 (386)
T KOG3849|consen 108 APTHWPGTPRVAICDKSAAQRSPDKPGCHSKEGNPFGPFWDQFHVSFVGSEYFGDIGFDLNQMGSRKKWLEKFPS--EEY 185 (386)
T ss_pred CcccCCCCcceeeeehhhhccCCCCCCCcccCCCCCCCchhheEeeeeccccccccccchhhcchHHHHHhhCCc--ccC
Confidence 4332 1 11110 1110 00 0001111 0000111222222 122111 456
Q ss_pred ceEEEeccCcccccCCCCchhhhhhhhhcccccccchHHHHHHHHHHHHHhhcCCeEEEecccchhhhhhhccCCCCChh
Q 010411 203 KVLHFNRTDTRLANNGIPFDLQKLRCRVNFQGLKFTPKIETLGYELVRILQEKGPFVALHLRYEMDMLAFSGCTHGCSMG 282 (511)
Q Consensus 203 ~Vi~l~~~d~RLa~d~lp~eiQrLRCrvnf~ALrF~~~I~~Lg~~lV~RLr~~G~fiAlHLR~E~DMLAfsgC~~g~~~~ 282 (511)
-|+.|++.-...---+.--.+|| -|+.++.|.+-|++.+.-=-. .||+++|||...||+-- |.+.-...
T Consensus 186 PVLAf~gAPA~FPv~~e~~~lQk--------Yl~WS~r~~e~~k~fI~a~L~-rpfvgiHLRng~DWvra--Cehikd~~ 254 (386)
T KOG3849|consen 186 PVLAFSGAPAPFPVKGEVWSLQK--------YLRWSSRITEQAKKFISANLA-RPFVGIHLRNGADWVRA--CEHIKDTT 254 (386)
T ss_pred ceeeecCCCCCCccccccccHHH--------HHHHHHHHHHHHHHHHHHhcC-cceeEEEeecCchHHHH--HHHhcccC
Confidence 77777643222100011124665 488999999999887654322 39999999999999864 75421100
Q ss_pred HHHHHHHHHhcCccccc-cccChHHHhc-----CCCCCCCHHHHH----HHHHHcCCCCCceEEEEeccccCCccchHHH
Q 010411 283 EAEELKRLRYAYPWWRE-KEIVSEERRS-----QGLCPLTPEEAA----LVLQALGIDKDTHIYIAAGEIYGGEKRLAAL 352 (511)
Q Consensus 283 E~~eL~~~R~~~~~wk~-k~i~~~~~R~-----~G~CPLTPeEvg----l~LralGf~~~T~IYlAsGeiyGg~~~l~~L 352 (511)
. | .-+.. .-+ ...+. ...|-=+-+||- +-.+.+| .-..+|+|+-. +.-+..|
T Consensus 255 ~-------~---hlfASpQCl--Gy~~~~gaLt~e~C~Psk~~I~rqik~~v~si~--dakSVfVAsDs----~hmi~El 316 (386)
T KOG3849|consen 255 N-------R---HLFASPQCL--GYGHHLGALTKEICSPSKQQILRQIKEKVGSIG--DAKSVFVASDS----DHMIDEL 316 (386)
T ss_pred C-------C---ccccChhhc--cccccccccchhhhCccHHHHHHHHHHHHhhhc--ccceEEEeccc----hhhhHHH
Confidence 0 0 00000 000 01111 124533344442 2222333 23469999866 2323334
Q ss_pred H-HhCCcccccccCCChhhhhhhccccc--hhhhhhheeccCCCeeeecCCCchhhhhhhhhcccC
Q 010411 353 R-AAFPRIVRKEMLLDPAELQLFQNHSS--QMAALDFMVSTASDIFIPTYDGNMAKVVEGHRRYLG 415 (511)
Q Consensus 353 r-~~FPnl~tKe~L~s~eEL~pf~~~ss--~~AALDY~Vcl~SDvFv~t~~GNfa~~V~GhR~y~G 415 (511)
. +++|-=+. -|+. .-+-+|..|.-+||.||++--++|+..|--.|-..|
T Consensus 317 n~aL~~~~i~--------------vh~l~pdd~y~dLaIlGqadhFiGNCvSsfsafvKRERD~~G 368 (386)
T KOG3849|consen 317 NEALKPYEIE--------------VHRLEPDDMYTDLAILGQADHFIGNCVSSFSAFVKRERDHAG 368 (386)
T ss_pred HHhhccccee--------------EEecCcccchhhhhhhcccchhhhhhHHHHHHHHhhhhcccC
Confidence 3 33332111 1221 235789999999999999999999999999998888
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=97.25 E-value=0.0084 Score=62.37 Aligned_cols=254 Identities=17% Similarity=0.258 Sum_probs=127.6
Q ss_pred CcEEEEEecCcchhhHHHHHHHHHHHHHhcCceeecccCCCcccCCC----CCCCccccHHHHHHhcc--ccceEeccCc
Q 010411 93 NGFLKVSCNGGLNQMRAAICDMVTVAQLLNLTLVVPELDKTSFWADP----SNFEDIFNVRHFIDSLR--DEVRIVRRLP 166 (511)
Q Consensus 93 nGyl~V~~nGGLNqqR~~IcDaV~vAr~LNATLViP~L~~~s~W~D~----S~F~dIFDvdhFI~sL~--~dVrIvk~LP 166 (511)
+.||+..--+|+|.-=-+++-|-.+|+-.|.||||= |+++ ..|...|++ |-+-.. ..|+|.-+-
T Consensus 2 ~r~~~~r~r~g~gd~l~~la~aw~~a~~~~r~l~id-------w~~s~~~~~~f~n~f~~--ffepv~~i~~~~~~~~d- 71 (321)
T PF05830_consen 2 QRFVVSRRRTGLGDCLWSLAAAWRYAKRTGRTLVID-------WRGSCYLDQPFTNAFPV--FFEPVEDIAGVRVICDD- 71 (321)
T ss_dssp --EEEEE--S-HHHHHHHHHHHHHHHHHHT-EEEEE--------BT-TT-SSTTSBSHHH--HB---SEETTEEEE-SG-
T ss_pred CceEEEeccCCchhHHHHHHHHHHHHHHhCCeEEEE-------cCCceecCCcccccCCc--ccchhhhhcCceeEecc-
Confidence 468888888999999999999999999999999995 8776 577777765 444444 344544110
Q ss_pred hhhhhhcCCCCCccCCCCcCChH---------H-HH--hhcccccc------ccceEEEeccCcccccCCCCchhhhhhh
Q 010411 167 KKYSRKYGYSPMEMPPVSWSNEK---------Y-YL--QQILPHFS------KHKVLHFNRTDTRLANNGIPFDLQKLRC 228 (511)
Q Consensus 167 ~~~~~~~~~~~~~~~p~~ws~~~---------y-Y~--~~ilP~l~------k~~Vi~l~~~d~RLa~d~lp~eiQrLRC 228 (511)
.+....-.. ..-|.-|-.+. + +. +++--+++ ...||+..=..++... ++.
T Consensus 72 -~i~~~~~~g--~~fp~~w~~p~~~~~~~pd~qi~re~d~l~~lf~~~~d~~a~~vv~d~c~~~~c~~-----~ae---- 139 (321)
T PF05830_consen 72 -RINQFSFPG--PFFPAWWNKPSIDCVYRPDEQIFRERDELRQLFQSQEDHEANTVVCDACLMWRCDE-----EAE---- 139 (321)
T ss_dssp -GGGT----S--SEESGGGGS-GGGGS---HHHHHHHHHHHHHHHHSSS--S-SEEEE-S--TTSS-H-----HHH----
T ss_pred -hhhhhcCCC--CcChhHHhCCCcceecCChHHHhhhhHHHHHHhhcccccccchhhhHhhcCCcchh-----HHH----
Confidence 011000000 11111222221 1 11 11112222 4568887776666432 333
Q ss_pred hhcccccccchHHHHHHHHHHHHHhhcCCeEEEecccc--hhhhhhhccCCCCChhHHHHHHHHHhcCccccccccChHH
Q 010411 229 RVNFQGLKFTPKIETLGYELVRILQEKGPFVALHLRYE--MDMLAFSGCTHGCSMGEAEELKRLRYAYPWWREKEIVSEE 306 (511)
Q Consensus 229 rvnf~ALrF~~~I~~Lg~~lV~RLr~~G~fiAlHLR~E--~DMLAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~~ 306 (511)
|--|..|+-+++|++..+.+-+.-=.+..=|++|-|.- +|.+.+ +|. |....
T Consensus 140 R~if~slkpR~eIqarID~iy~ehf~g~~~IGVHVRhGngeD~~~h-~~~--------------------~~D~e----- 193 (321)
T PF05830_consen 140 REIFSSLKPRPEIQARIDAIYREHFAGYSVIGVHVRHGNGEDIMDH-APY--------------------WADEE----- 193 (321)
T ss_dssp HHHHHHS-B-HHHHHHHHHHHHHHTTTSEEEEEEE------------------------------------HHHH-----
T ss_pred HHHHHhCCCCHHHHHHHHHHHHHHcCCCceEEEEEeccCCcchhcc-Ccc--------------------ccCch-----
Confidence 34799999999999999988777655566899999942 233333 222 22210
Q ss_pred HhcCCCCCCCHHHHH---HHHHHcCCCCCceEEEEeccccCCccchHHHHHhCCcccccccCCChhhhhhhccc-----c
Q 010411 307 RRSQGLCPLTPEEAA---LVLQALGIDKDTHIYIAAGEIYGGEKRLAALRAAFPRIVRKEMLLDPAELQLFQNH-----S 378 (511)
Q Consensus 307 ~R~~G~CPLTPeEvg---l~LralGf~~~T~IYlAsGeiyGg~~~l~~Lr~~FPnl~tKe~L~s~eEL~pf~~~-----s 378 (511)
.+=..|- ..++++-...++.|+||+-. .+.++-+++.||.+++-+.=..+..-.++.+. .
T Consensus 194 --------~~L~~V~~ai~~ak~~~~~k~~~IFLATDS----aeVid~fr~~FPdiiti~k~F~~~~~g~Lhs~~~g~~g 261 (321)
T PF05830_consen 194 --------RALRQVCTAIDKAKALAPPKPVRIFLATDS----AEVIDQFRKKFPDIITIPKQFPASQAGPLHSAAVGIEG 261 (321)
T ss_dssp --------HHHHHHHHHHHHHHTS--SS-EEEEEEES-----HHHHHHHHHHSTTEE----------------HHHHHHH
T ss_pred --------HHHHHHHHHHHHHHhccCCCCeeEEEecCc----HHHHHHHHHHCCCeEEcccccCCCCCCcCcccccccch
Confidence 0001111 22345556678999999987 36799999999998876543332221122221 1
Q ss_pred chhhhhhheeccCCCeee-ecCCCchhhh
Q 010411 379 SQMAALDFMVSTASDIFI-PTYDGNMAKV 406 (511)
Q Consensus 379 s~~AALDY~Vcl~SDvFv-~t~~GNfa~~ 406 (511)
-..|-+|-+...++|+-| .+-.+.|++.
T Consensus 262 g~~ALIDM~LLSrCD~LIr~~ptS~Fsr~ 290 (321)
T PF05830_consen 262 GESALIDMYLLSRCDYLIRFPPTSAFSRY 290 (321)
T ss_dssp HHHHHHHHHHHTTSSEEEEESTT-GGGHH
T ss_pred HHHHHHHHHHHHhCCeEEEcCCCchhhhH
Confidence 136889999999999999 5555556543
No 4
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=64.98 E-value=27 Score=38.51 Aligned_cols=130 Identities=16% Similarity=0.226 Sum_probs=77.8
Q ss_pred ccccchHHHHHHHHHHHHHhhcCCeEEEecccchhhhhhhccCCCCChhHHHHHHHHHhcCccccccccChHHHhcCCCC
Q 010411 234 GLKFTPKIETLGYELVRILQEKGPFVALHLRYEMDMLAFSGCTHGCSMGEAEELKRLRYAYPWWREKEIVSEERRSQGLC 313 (511)
Q Consensus 234 ALrF~~~I~~Lg~~lV~RLr~~G~fiAlHLR~E~DMLAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~~~~R~~G~C 313 (511)
.+||+|-.++--++-.+.|--..|-|++|.|-.. .-|+++---.++.|=. |-|
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 5788888887555544444445599999998742 2233322223443322 211
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEEeccccCCccchHHHHHhCCcccccccCCChhhhhhhcc----cc--ch-hhhhhh
Q 010411 314 PLTPEEAALVLQALGIDKDTHIYIAAGEIYGGEKRLAALRAAFPRIVRKEMLLDPAELQLFQN----HS--SQ-MAALDF 386 (511)
Q Consensus 314 PLTPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~l~~Lr~~FPnl~tKe~L~s~eEL~pf~~----~s--s~-~AALDY 386 (511)
+-=.+|..=|=+-.-+||||+-+. ..+..-+.-|||.+ +.+..|.+.-.. +. |. ---+|.
T Consensus 393 -----~~f~~le~rg~~~~rRiflAsDDp----~vv~EAk~kYPnYe----~igd~eia~~A~l~nRYTd~sL~GvIlDI 459 (580)
T KOG3705|consen 393 -----IWFKVLEKRGKPLERRIFLASDDP----TVVPEAKNKYPNYE----VIGDTEIAKTAQLNNRYTDASLMGVILDI 459 (580)
T ss_pred -----HHHHHHHHhCCchhheEEEecCCc----hhchHhhccCCCcE----EeccHHHHHHhhccccchhhhhhheeeee
Confidence 112233333445556899999985 55677789999874 344445533222 21 22 345788
Q ss_pred eeccCCCeeeecCCCch
Q 010411 387 MVSTASDIFIPTYDGNM 403 (511)
Q Consensus 387 ~Vcl~SDvFv~t~~GNf 403 (511)
.+.+.+|..|.|+++-.
T Consensus 460 h~LS~~d~LVCTFSSQV 476 (580)
T KOG3705|consen 460 HILSKVDYLVCTFSSQV 476 (580)
T ss_pred eeecccceEEEechHHH
Confidence 99999999999887743
No 5
>PLN02232 ubiquinone biosynthesis methyltransferase
Probab=60.93 E-value=23 Score=32.78 Aligned_cols=100 Identities=17% Similarity=0.048 Sum_probs=59.7
Q ss_pred hhcccccccchHHHHHHHHHHHHHhhcCCeEEEecccchhhhhh----hccCCCCChhHHH--HHHHHHhcCcccccccc
Q 010411 229 RVNFQGLKFTPKIETLGYELVRILQEKGPFVALHLRYEMDMLAF----SGCTHGCSMGEAE--ELKRLRYAYPWWREKEI 302 (511)
Q Consensus 229 rvnf~ALrF~~~I~~Lg~~lV~RLr~~G~fiAlHLR~E~DMLAf----sgC~~g~~~~E~~--eL~~~R~~~~~wk~k~i 302 (511)
.++..+|++.++..+.-+.+.+.|+..|.++-++.-.+...+.. .-|....-+-+.- ...+|++-
T Consensus 48 v~~~~~l~~~~d~~~~l~ei~rvLkpGG~l~i~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~yl--------- 118 (160)
T PLN02232 48 VTMGYGLRNVVDRLRAMKEMYRVLKPGSRVSILDFNKSNQSVTTFMQGWMIDNVVVPVATVYDLAKEYEYL--------- 118 (160)
T ss_pred EEecchhhcCCCHHHHHHHHHHHcCcCeEEEEEECCCCChHHHHHHHHHHccchHhhhhHHhCChHHHHhH---------
Confidence 34455778778888888999999999999988877554322110 1111100000000 00111110
Q ss_pred ChHHHhcCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccc
Q 010411 303 VSEERRSQGLCPLTPEEAALVLQALGIDKDTHIYIAAGEI 342 (511)
Q Consensus 303 ~~~~~R~~G~CPLTPeEvgl~LralGf~~~T~IYlAsGei 342 (511)
..+... +++|+|...+|+..||.+-+.-+++.|-.
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 48999999999999999998888887753
No 6
>PF14771 DUF4476: Domain of unknown function (DUF4476)
Probab=54.21 E-value=22 Score=30.32 Aligned_cols=36 Identities=25% Similarity=0.405 Sum_probs=32.6
Q ss_pred CCCHHHHHHHHHHcCCCCCceEEEEeccccCCccchHHHHHhCCccccccc
Q 010411 314 PLTPEEAALVLQALGIDKDTHIYIAAGEIYGGEKRLAALRAAFPRIVRKEM 364 (511)
Q Consensus 314 PLTPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~l~~Lr~~FPnl~tKe~ 364 (511)
++|-+|++-+|+...|+ +.+|..|+.++|++++++.
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 39999999999999998 4579999999999999964
No 7
>PRK15451 tRNA cmo(5)U34 methyltransferase; Provisional
Probab=46.13 E-value=30 Score=34.21 Aligned_cols=82 Identities=13% Similarity=0.107 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHHHhhcCCeEEEe-cccchh-----hhhhhccCCCCChhHHHHHHHHHhcCccccccccCh-HHHhcCCC
Q 010411 240 KIETLGYELVRILQEKGPFVALH-LRYEMD-----MLAFSGCTHGCSMGEAEELKRLRYAYPWWREKEIVS-EERRSQGL 312 (511)
Q Consensus 240 ~I~~Lg~~lV~RLr~~G~fiAlH-LR~E~D-----MLAfsgC~~g~~~~E~~eL~~~R~~~~~wk~k~i~~-~~~R~~G~ 312 (511)
+.+.+-+.+.+.|+..|.++..+ .+.+.+ ++..+... . +...|.+..|.. .+.+.+-.
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 45677788888889889887764 333321 12111111 0 001222222221 12233456
Q ss_pred CCCCHHHHHHHHHHcCCCCCceEE
Q 010411 313 CPLTPEEAALVLQALGIDKDTHIY 336 (511)
Q Consensus 313 CPLTPeEvgl~LralGf~~~T~IY 336 (511)
.|+|++|...+|+..||..-..+|
T Consensus 207 ~~~~~~~~~~~L~~aGF~~v~~~~ 230 (247)
T PRK15451 207 LTDSVETHKARLHKAGFEHSELWF 230 (247)
T ss_pred ccCCHHHHHHHHHHcCchhHHHHH
Confidence 789999999999999999654443
No 8
>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=40.37 E-value=48 Score=32.34 Aligned_cols=114 Identities=20% Similarity=0.286 Sum_probs=65.9
Q ss_pred CCCCHHHHHHHHHHcCCCCCceEEEEeccc-------cCCccchHHHHHhCCcccccccCCChhhhhhhccccc---hhh
Q 010411 313 CPLTPEEAALVLQALGIDKDTHIYIAAGEI-------YGGEKRLAALRAAFPRIVRKEMLLDPAELQLFQNHSS---QMA 382 (511)
Q Consensus 313 CPLTPeEvgl~LralGf~~~T~IYlAsGei-------yGg~~~l~~Lr~~FPnl~tKe~L~s~eEL~pf~~~ss---~~A 382 (511)
|+=.+++|..+|+.||.+.++.|-+...+- ++.. .+|+..|-...+=....+.+-|..+..+.+ ..+
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 445678899999999999999999998882 1222 234444433333333444444444444443 345
Q ss_pred hhhheeccCCCeeeecCCCchhhhhhhhhcccCCccccccchHHHHHHhhhhcCCCCChhHHHHHHH
Q 010411 383 ALDFMVSTASDIFIPTYDGNMAKVVEGHRRYLGFKKSILLDRKILVGLLDMHHNGTLSFNEFTVAVR 449 (511)
Q Consensus 383 ALDY~Vcl~SDvFv~t~~GNfa~~V~GhR~y~G~~kTI~Pdrk~l~~L~~~~~~~~~~w~~F~~~v~ 449 (511)
.|..+.+. .|...|.. .+.-.++.+++++..|..-.+.++.|-+.+.
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 55554332 33444432 2334567788889888777788887776654
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=35.73 E-value=41 Score=30.67 Aligned_cols=29 Identities=34% Similarity=0.381 Sum_probs=16.6
Q ss_pred CCCCCHHHHHHHHHHcCCCCCceEEEEecc
Q 010411 312 LCPLTPEEAALVLQALGIDKDTHIYIAAGE 341 (511)
Q Consensus 312 ~CPLTPeEvgl~LralGf~~~T~IYlAsGe 341 (511)
.|||+|||+...|+++--+ ....||..++
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 10
>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=31.47 E-value=38 Score=23.36 Aligned_cols=25 Identities=20% Similarity=0.363 Sum_probs=20.2
Q ss_pred HHHHHhhhhcCCCCChhHHHHHHHH
Q 010411 426 ILVGLLDMHHNGTLSFNEFTVAVRL 450 (511)
Q Consensus 426 ~l~~L~~~~~~~~~~w~~F~~~v~~ 450 (511)
.+.+.||.=.+|.|+.+||...+++
T Consensus 4 ~~F~~~D~d~dG~I~~~Ef~~~~~~ 28 (29)
T PF00036_consen 4 EAFREFDKDGDGKIDFEEFKEMMKK 28 (29)
T ss_dssp HHHHHHSTTSSSEEEHHHHHHHHHH
T ss_pred HHHHHHCCCCCCcCCHHHHHHHHHh
Confidence 4456677777999999999999876
No 11
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=30.36 E-value=52 Score=26.24 Aligned_cols=24 Identities=38% Similarity=0.538 Sum_probs=20.4
Q ss_pred HhcCCCCCCCHHHHHHHHHHcCCCC
Q 010411 307 RRSQGLCPLTPEEAALVLQALGIDK 331 (511)
Q Consensus 307 ~R~~G~CPLTPeEvgl~LralGf~~ 331 (511)
.+..|.. ++++|+..+|+.|||+-
T Consensus 12 ~~llG~~-i~~~ei~~~L~~lg~~~ 35 (71)
T smart00874 12 NRLLGLD-LSAEEIEEILKRLGFEV 35 (71)
T ss_pred HHHHCCC-CCHHHHHHHHHHCCCeE
Confidence 4566765 99999999999999974
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=29.33 E-value=39 Score=27.65 Aligned_cols=16 Identities=50% Similarity=0.841 Sum_probs=13.5
Q ss_pred CCCCCCHHHHHHHHHHc
Q 010411 311 GLCPLTPEEAALVLQAL 327 (511)
Q Consensus 311 G~CPLTPeEvgl~Lral 327 (511)
|-| +||||-+.+++++
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 13
>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=24.57 E-value=77 Score=23.60 Aligned_cols=29 Identities=28% Similarity=0.469 Sum_probs=20.1
Q ss_pred cchHHHHHH---hhhhcCCCCChhHHHHHHHH
Q 010411 422 LDRKILVGL---LDMHHNGTLSFNEFTVAVRL 450 (511)
Q Consensus 422 Pdrk~l~~L---~~~~~~~~~~w~~F~~~v~~ 450 (511)
++...+..| ||.-.+|.|+|+||...++.
T Consensus 22 ~s~~e~~~l~~~~D~~~~G~I~~~EF~~~~~~ 53 (54)
T PF13833_consen 22 LSEEEVDRLFREFDTDGDGYISFDEFISMMQR 53 (54)
T ss_dssp SCHHHHHHHHHHHTTSSSSSEEHHHHHHHHHH
T ss_pred CCHHHHHHHHHhcccCCCCCCCHHHHHHHHHh
Confidence 444444444 55556999999999988764
No 14
>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=22.60 E-value=2.5e+02 Score=28.94 Aligned_cols=131 Identities=27% Similarity=0.402 Sum_probs=68.5
Q ss_pred HHHHhcCcccccc------ccChHHHhcCCCCCCCHHHHHHHHHHcCCCCCceEEEEeccccCCccchHHHHH-------
Q 010411 288 KRLRYAYPWWREK------EIVSEERRSQGLCPLTPEEAALVLQALGIDKDTHIYIAAGEIYGGEKRLAALRA------- 354 (511)
Q Consensus 288 ~~~R~~~~~wk~k------~i~~~~~R~~G~CPLTPeEvgl~LralGf~~~T~IYlAsGeiyGg~~~l~~Lr~------- 354 (511)
+++|.++|.|.-. .|-...++..|..-.+|+|+=.=|++-||. .|||-+--|..|++.- -|++
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 4556667766432 222233444577778999999999999998 8999998888887643 3433
Q ss_pred hCCcccccccCCC-------hhhhhh-------------------hccccch------hhhhhheeccC--CCeeeecCC
Q 010411 355 AFPRIVRKEMLLD-------PAELQL-------------------FQNHSSQ------MAALDFMVSTA--SDIFIPTYD 400 (511)
Q Consensus 355 ~FPnl~tKe~L~s-------~eEL~p-------------------f~~~ss~------~AALDY~Vcl~--SDvFv~t~~ 400 (511)
.|.++.=-.-|++ .++.+. |-+|++. -++|+++..-. -+|||+|-.
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 3543333333443 333211 2335442 35677777666 479999999
Q ss_pred C--chhhhhhhhhcccCCcc-ccccc
Q 010411 401 G--NMAKVVEGHRRYLGFKK-SILLD 423 (511)
Q Consensus 401 G--Nfa~~V~GhR~y~G~~k-TI~Pd 423 (511)
| ++..++.--+. .|.+| ++.|-
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 57766653332 25443 45554
No 15
>PF03484 B5: tRNA synthetase B5 domain; InterPro: IPR005147 Domain B5 is found in phenylalanine-tRNA synthetase beta subunits. This domain has been shown to bind DNA through a winged helix-turn-helix motif []. Phenylalanine-tRNA synthetase may influence common cellular processes via DNA binding, in addition to its aminoacylation function.; GO: 0000287 magnesium ion binding, 0003723 RNA binding, 0005524 ATP binding, 0006432 phenylalanyl-tRNA aminoacylation; PDB: 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B 3PCO_D 2CXI_C 1JJC_B 1EIY_B ....
Probab=21.78 E-value=62 Score=26.29 Aligned_cols=25 Identities=28% Similarity=0.561 Sum_probs=17.2
Q ss_pred HhcCCCCCCCHHHHHHHHHHcCCCCC
Q 010411 307 RRSQGLCPLTPEEAALVLQALGIDKD 332 (511)
Q Consensus 307 ~R~~G~CPLTPeEvgl~LralGf~~~ 332 (511)
.|..|.. ++++|+.-+|+.|||.-.
T Consensus 12 ~~~lG~~-i~~~~i~~~L~~lg~~~~ 36 (70)
T PF03484_consen 12 NKLLGID-ISPEEIIKILKRLGFKVE 36 (70)
T ss_dssp HHHHTS----HHHHHHHHHHTT-EEE
T ss_pred HHHhCCC-CCHHHHHHHHHHCCCEEE
Confidence 4566765 999999999999999843
No 16
>COG0763 LpxB Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]
Probab=20.86 E-value=1.2e+02 Score=33.26 Aligned_cols=100 Identities=24% Similarity=0.305 Sum_probs=68.4
Q ss_pred ceEEEEeccccC---CccchHHHHHhCCccc------------ccccCCChhhhhh----------hccccchhhhhhhe
Q 010411 333 THIYIAAGEIYG---GEKRLAALRAAFPRIV------------RKEMLLDPAELQL----------FQNHSSQMAALDFM 387 (511)
Q Consensus 333 T~IYlAsGeiyG---g~~~l~~Lr~~FPnl~------------tKe~L~s~eEL~p----------f~~~ss~~AALDY~ 387 (511)
..|+|.+||.-| |..-+..|++.||++. --++|.+.+|+.- +.-..-+...+-++
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 368888877655 4456899999998652 3456666667631 01112235567788
Q ss_pred eccCCCeeeecCCCchhhhhhhhhcccC-Ccccc----------ccch-HHHHHHhh
Q 010411 388 VSTASDIFIPTYDGNMAKVVEGHRRYLG-FKKSI----------LLDR-KILVGLLD 432 (511)
Q Consensus 388 Vcl~SDvFv~t~~GNfa~~V~GhR~y~G-~~kTI----------~Pdr-k~l~~L~~ 432 (511)
+...-|+||.-.+..|.--|+..=+-.| +.||| +|.| .+++.-.|
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 9999999999999999888887766677 55665 3667 45555554
Done!