Query 008217
Match_columns 573
No_of_seqs 263 out of 1119
Neff 8.4
Searched_HMMs 46136
Date Thu Mar 28 20:59:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008217.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008217hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03097 FHY3 Protein FAR-RED 100.0 8E-120 2E-124 1001.5 46.7 514 1-540 165-680 (846)
2 PF10551 MULE: MULE transposas 99.9 7.9E-23 1.7E-27 171.6 8.1 90 146-237 1-93 (93)
3 PF00872 Transposase_mut: Tran 99.7 2.6E-18 5.7E-23 180.4 3.1 184 140-326 163-352 (381)
4 COG3328 Transposase and inacti 99.1 6.2E-10 1.4E-14 115.1 11.0 198 140-341 146-348 (379)
5 smart00575 ZnF_PMZ plant mutat 98.9 4.4E-10 9.6E-15 71.1 2.0 26 432-457 2-27 (28)
6 PF04434 SWIM: SWIM zinc finge 98.3 3.8E-07 8.1E-12 63.3 3.1 29 428-456 12-40 (40)
7 PF01610 DDE_Tnp_ISL3: Transpo 97.0 0.00061 1.3E-08 67.7 3.7 96 142-242 1-98 (249)
8 PF13610 DDE_Tnp_IS240: DDE do 93.6 0.025 5.4E-07 50.9 0.7 81 139-223 1-81 (140)
9 PF00665 rve: Integrase core d 91.4 1.1 2.3E-05 38.4 8.2 75 139-214 6-81 (120)
10 PF06782 UPF0236: Uncharacteri 88.9 7.4 0.00016 42.4 13.7 141 179-327 235-381 (470)
11 PF04937 DUF659: Protein of un 80.2 16 0.00034 33.4 9.5 108 133-243 27-139 (153)
12 PHA02517 putative transposase 71.8 38 0.00082 33.8 10.8 71 139-211 110-180 (277)
13 COG3316 Transposase and inacti 71.4 9.3 0.0002 36.6 5.7 83 139-226 70-152 (215)
14 COG5431 Uncharacterized metal- 67.5 3.9 8.5E-05 34.0 2.0 31 415-451 40-75 (117)
15 COG4279 Uncharacterized conser 44.5 9.2 0.0002 37.3 0.6 24 430-456 124-147 (266)
16 PRK14702 insertion element IS2 37.2 1.5E+02 0.0033 29.5 8.1 71 139-210 87-162 (262)
17 PF03050 DDE_Tnp_IS66: Transpo 33.3 31 0.00068 34.4 2.5 41 196-242 116-156 (271)
18 PRK09409 IS2 transposase TnpB; 32.4 2.1E+02 0.0045 29.2 8.4 71 139-210 126-201 (301)
19 COG4715 Uncharacterized conser 30.5 1.9E+02 0.004 32.0 7.7 34 420-455 62-95 (587)
20 PF12762 DDE_Tnp_IS1595: ISXO2 28.0 1.8E+02 0.0038 25.9 6.3 50 158-212 36-86 (151)
21 PF03106 WRKY: WRKY DNA -bindi 22.0 63 0.0014 24.3 1.8 17 6-22 43-59 (60)
22 PF02171 Piwi: Piwi domain; I 21.3 4.7E+02 0.01 26.2 8.7 69 141-209 79-156 (302)
23 PF13670 PepSY_2: Peptidase pr 21.1 4.2E+02 0.0092 20.9 7.2 38 393-431 41-79 (83)
24 KOG4027 Uncharacterized conser 21.0 1.1E+02 0.0023 27.9 3.2 37 144-180 70-109 (187)
No 1
>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional
Probab=100.00 E-value=7.5e-120 Score=1001.49 Aligned_cols=514 Identities=32% Similarity=0.554 Sum_probs=465.1
Q ss_pred CEEEE-ECCeEEEEEEecccCCCCCCcchhhhhccccccccccCCcccccCCcccceecccccCCCccccccccccCCcc
Q 008217 1 MRFTV-SNGVWVISHINFEHNHELAKPEERQFLRSCRKIFEASGGVDVGRRRTKPLSYLGNDFGGDRNVQFAKKDMGNYL 79 (573)
Q Consensus 1 ~~~~~-~~~~w~v~~~~~~HNH~l~~~~~~~~l~s~r~l~~~~~~i~~~~~~~~~~~~l~~~~g~~~~~~~~~~di~n~~ 79 (573)
|+|++ ++|+|.|+.|+++|||||.++..+.. ..|+ .+..+....++..+++.++.|..|+.
T Consensus 165 m~Vk~~~~gkW~V~~fv~eHNH~L~p~~~~~~--~~r~----------------~~~~~~~~~~~~~~v~~~~~d~~~~~ 226 (846)
T PLN03097 165 MHVKRRPDGKWVIHSFVKEHNHELLPAQAVSE--QTRK----------------MYAAMARQFAEYKNVVGLKNDSKSSF 226 (846)
T ss_pred EEEEEcCCCeEEEEEEecCCCCCCCCccccch--hhhh----------------hHHHHHhhhhccccccccchhhcchh
Confidence 35666 78999999999999999997643210 0001 01122334556677878888889998
Q ss_pred hhhhccCCCCCcHHHHHHHHHhhccCCCCceEEEEecCCCCeeEeEecccccHHHHhhcCCEEEecceeccccCCceeee
Q 008217 80 PREMGNMMEPGDVQGLLNYFRRKKCEDPSFFYAVQVNQLNQATNFFWRDGRSKLDYDCFGDVVSFDATFRLNKYNLICAP 159 (573)
Q Consensus 80 ~~~r~~~~~~~d~~~l~~~l~~~~~~np~f~~~~~~d~~~~~~~ifw~~~~~~~~~~~f~dvi~iD~Ty~tn~y~~pl~~ 159 (573)
.+.|++.+..||+++|++||+++|.+||+|||++++|++|+++||||+|++|+.+|.+|||||+|||||+||+|+|||++
T Consensus 227 ~~~r~~~~~~gD~~~ll~yf~~~q~~nP~Ffy~~qlDe~~~l~niFWaD~~sr~~Y~~FGDvV~fDTTY~tN~y~~Pfa~ 306 (846)
T PLN03097 227 DKGRNLGLEAGDTKILLDFFTQMQNMNSNFFYAVDLGEDQRLKNLFWVDAKSRHDYGNFSDVVSFDTTYVRNKYKMPLAL 306 (846)
T ss_pred hHHHhhhcccchHHHHHHHHHHHHhhCCCceEEEEEccCCCeeeEEeccHHHHHHHHhcCCEEEEeceeeccccCcEEEE
Confidence 88888889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEcCCCCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHHhcccCccccccchHHHHHHHh
Q 008217 160 FVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIETVFMKTRHRLSTGHIVKDARRN 239 (573)
Q Consensus 160 ~~Gv~~~~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~al~~Ai~~vfP~~~h~~C~~Hi~kn~~~~ 239 (573)
|+|||||+|+++|||||+.+|+.++|.|||++|+++|+|+.|.+||||+|.||.+||++|||+|.|++|.|||++|+.++
T Consensus 307 FvGvNhH~qtvlfGcaLl~dEt~eSf~WLf~tfl~aM~gk~P~tIiTDqd~am~~AI~~VfP~t~Hr~C~wHI~~~~~e~ 386 (846)
T PLN03097 307 FVGVNQHYQFMLLGCALISDESAATYSWLMQTWLRAMGGQAPKVIITDQDKAMKSVISEVFPNAHHCFFLWHILGKVSEN 386 (846)
T ss_pred EEEecCCCCeEEEEEEEcccCchhhHHHHHHHHHHHhCCCCCceEEecCCHHHHHHHHHHCCCceehhhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhccC-cHHHHHHHHHHhccCCCHHHHHHHHHHHHhhcccCchHHHHHHhhcccccccccccCccccccccCCCCcchh
Q 008217 240 LANQFA-NLEFMKYLNKCFYECHDETEFQVSWDDMINKFSLGDHLWLKKLYSLRDKWCLVFNSDTFSANIDSVQRSDSID 318 (573)
Q Consensus 240 ~~~~~~-~~~~~~~~~~~v~~s~t~~eFe~~w~~l~~~~~~~~~~~l~~l~~~r~~W~~~y~~~~f~~g~~tt~r~Es~n 318 (573)
++..+. .+.|..+|++||+++.+++|||..|..|+++|+|++|+||+.||+.|++||++|+++.|++||.||+|+||+|
T Consensus 387 L~~~~~~~~~f~~~f~~cv~~s~t~eEFE~~W~~mi~ky~L~~n~WL~~LY~~RekWapaY~k~~F~agm~sTqRSES~N 466 (846)
T PLN03097 387 LGQVIKQHENFMAKFEKCIYRSWTEEEFGKRWWKILDRFELKEDEWMQSLYEDRKQWVPTYMRDAFLAGMSTVQRSESIN 466 (846)
T ss_pred hhHHhhhhhHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhcccccHHHHHHHHhHhhhhHHHhcccccCCcccccccccHH
Confidence 998853 4689999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhcccCCCCcHHhHHHHHHHHHhhhhhhhhhhcccccCcccccchhhhHHHHHHhhccHHHHHHHHHHHHhccccceE
Q 008217 319 TVFHQVSTKRMDVISFVQHFEEKTKEMHLDELEDDHFCKHVVPRLQVWNGILNHAVYVYTSKIFNFFEMELLGCMGVRMK 398 (573)
Q Consensus 319 ~~lK~~~~~~~~l~~f~~~~~~~~~~~~~~e~~~d~~s~~~~p~~~~~~~~e~q~~~iyT~~~f~~fq~el~~~~~~~~~ 398 (573)
++||+|++++++|.+|+++|+++++.++++|+++|+.+.++.|.+++++|+|+||+++||++||++||+|+..++++.+.
T Consensus 467 s~fk~yv~~~tsL~~Fv~qye~~l~~~~ekE~~aD~~s~~~~P~l~t~~piEkQAs~iYT~~iF~kFQ~El~~~~~~~~~ 546 (846)
T PLN03097 467 AFFDKYVHKKTTVQEFVKQYETILQDRYEEEAKADSDTWNKQPALKSPSPLEKSVSGVYTHAVFKKFQVEVLGAVACHPK 546 (846)
T ss_pred HHHHHHhCcCCCHHHHHHHHHHHHHHHHHHHHHhhhhcccCCcccccccHHHHHHHHHhHHHHHHHHHHHHHHhhheEEe
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999887766
Q ss_pred EEeeCCcEEEEEEEEecceeeEEEEEecCCCeEEeecccccccCcchhhHHHHhhhCCCccCCccccccccccccccCcc
Q 008217 399 EVCKDGEVCIYEAIEEGQQKVCKINYNLSTQDISCSCKLFERMGILCRHALKAFDFNNLTQIPVQYILKRWTKEAKKGIV 478 (573)
Q Consensus 399 ~~~~~~~~y~v~~~~~~~~~~~~V~~~~~~~~~~CsC~~fe~~GipCrHil~Vl~~~~v~~iP~~yil~RWtk~ak~~~~ 478 (573)
....++..+++.+...+..+.|.|.+|.....++|+|++||+.||||+|||+||.++||.+||++||++||||+||...+
T Consensus 547 ~~~~dg~~~~y~V~~~~~~~~~~V~~d~~~~~v~CsC~kFE~~GILCrHaLkVL~~~~v~~IP~~YILkRWTKdAK~~~~ 626 (846)
T PLN03097 547 MESQDETSITFRVQDFEKNQDFTVTWNQTKLEVSCICRLFEYKGYLCRHALVVLQMCQLSAIPSQYILKRWTKDAKSRHL 626 (846)
T ss_pred eeccCCceEEEEEEEecCCCcEEEEEecCCCeEEeeccCeecCccchhhHHHHHhhcCcccCchhhhhhhchhhhhhccc
Confidence 65444554444443333456899999999999999999999999999999999999999999999999999999998766
Q ss_pred cccCCccccCCCCccccchHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHHhhhH
Q 008217 479 VRVSNERHGLSSNTVKSVQSLRLSELMHMGSNVYSIASLSDSGTKIVKEKLAEAMELLEKDE 540 (573)
Q Consensus 479 ~~~~~~~~~~~~~~~~~~~~~Ry~~l~~~~~~~~~~a~~s~e~~~~~~~~l~~~~~~~~~~e 540 (573)
...... ..++.+.||+.||++++++|++||.|+|.|..|+++|+++...+....
T Consensus 627 ~~~~~~--------~~~~~~~Ryn~L~r~a~kla~~as~S~E~y~~a~~~L~e~~~~~~~~~ 680 (846)
T PLN03097 627 LGEESE--------QVQSRVQRYNDLCQRALKLSEEASLSQESYNIAFRALEEAFGNCISMN 680 (846)
T ss_pred Cccccc--------cccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 532211 123567899999999999999999999999999999999998875443
No 2
>PF10551 MULE: MULE transposase domain; InterPro: IPR018289 This entry represents a domain found in Mutator-like elements (MULE)-encoded tranposases, some of which also contain a zinc-finger motif [, ]. This domain is also found in a transposase for the insertion sequence element IS256 in transposon Tn4001 [].
Probab=99.88 E-value=7.9e-23 Score=171.55 Aligned_cols=90 Identities=31% Similarity=0.517 Sum_probs=86.9
Q ss_pred ceeccccCCceeee---EEEEcCCCCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHHhccc
Q 008217 146 ATFRLNKYNLICAP---FVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIETVFMK 222 (573)
Q Consensus 146 ~Ty~tn~y~~pl~~---~~Gv~~~~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~al~~Ai~~vfP~ 222 (573)
+||+||+| +|++. ++|+|++|+.+|+|++++.+|+.++|.|+|+.+++.++.+ |.+||||++.|+.+||+++||+
T Consensus 1 ~T~~tn~~-~~l~~~~~~~~~d~~~~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~~~-p~~ii~D~~~~~~~Ai~~vfP~ 78 (93)
T PF10551_consen 1 GTYKTNKY-GPLLYLMIAVGIDGNGRGFPVAFALVSSESEESYEWFLEKLKEAMPQK-PKVIISDFDKALINAIKEVFPD 78 (93)
T ss_pred Cccccccc-cccceeceEEEEcCCCCEEEEEEEEEcCCChhhhHHHHHHhhhccccC-ceeeeccccHHHHHHHHHHCCC
Confidence 69999999 88886 9999999999999999999999999999999999999987 9999999999999999999999
Q ss_pred CccccccchHHHHHH
Q 008217 223 TRHRLSTGHIVKDAR 237 (573)
Q Consensus 223 ~~h~~C~~Hi~kn~~ 237 (573)
+.|++|.||++||++
T Consensus 79 ~~~~~C~~H~~~n~k 93 (93)
T PF10551_consen 79 ARHQLCLFHILRNIK 93 (93)
T ss_pred ceEehhHHHHHHhhC
Confidence 999999999999974
No 3
>PF00872 Transposase_mut: Transposase, Mutator family; InterPro: IPR001207 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element. Transposases have been grouped into various families [, , ]. The mutator family of transposases consists of a number of elements that include, mutator from maize, IsT2 from Thiobacillus ferrooxidans, Is256 from Staphylococcus aureus, Is1201 from Lactobacillus helveticus, Is1081 from Mycobacterium bovis, IsRm3 from Rhizobium meliloti and others. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=99.71 E-value=2.6e-18 Score=180.38 Aligned_cols=184 Identities=14% Similarity=0.174 Sum_probs=149.9
Q ss_pred CEEEecceeccccC-----CceeeeEEEEcCCCCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHHHHH
Q 008217 140 DVVSFDATFRLNKY-----NLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSK 214 (573)
Q Consensus 140 dvi~iD~Ty~tn~y-----~~pl~~~~Gv~~~~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~al~~ 214 (573)
++|++|++|.+-+. +.++++++|||.+|+..++|+.+...|+.++|.-+|..+++. |-..|..||+|..+|+..
T Consensus 163 ~~l~iD~~~~kvr~~~~~~~~~~~v~iGi~~dG~r~vLg~~~~~~Es~~~W~~~l~~L~~R-Gl~~~~lvv~Dg~~gl~~ 241 (381)
T PF00872_consen 163 PYLWIDGTYFKVREDGRVVKKAVYVAIGIDEDGRREVLGFWVGDRESAASWREFLQDLKER-GLKDILLVVSDGHKGLKE 241 (381)
T ss_pred cceeeeeeecccccccccccchhhhhhhhhcccccceeeeecccCCccCEeeecchhhhhc-cccccceeeccccccccc
Confidence 47899999987653 456889999999999999999999999999999999998765 445799999999999999
Q ss_pred HHHHhcccCccccccchHHHHHHHhhhhccCcHHHHHHHHHHhccCCCHHHHHHHHHHHHhhcccCchHHHHHHhhcc-c
Q 008217 215 AIETVFMKTRHRLSTGHIVKDARRNLANQFANLEFMKYLNKCFYECHDETEFQVSWDDMINKFSLGDHLWLKKLYSLR-D 293 (573)
Q Consensus 215 Ai~~vfP~~~h~~C~~Hi~kn~~~~~~~~~~~~~~~~~~~~~v~~s~t~~eFe~~w~~l~~~~~~~~~~~l~~l~~~r-~ 293 (573)
||+++||++.++.|.+|+++|+.+++... ..+.+..+++. |+.+.+.++....++.+.+++....+...+.|-+.. +
T Consensus 242 ai~~~fp~a~~QrC~vH~~RNv~~~v~~k-~~~~v~~~Lk~-I~~a~~~e~a~~~l~~f~~~~~~kyp~~~~~l~~~~~~ 319 (381)
T PF00872_consen 242 AIREVFPGAKWQRCVVHLMRNVLRKVPKK-DRKEVKADLKA-IYQAPDKEEAREALEEFAEKWEKKYPKAAKSLEENWDE 319 (381)
T ss_pred cccccccchhhhhheechhhhhccccccc-cchhhhhhccc-cccccccchhhhhhhhcccccccccchhhhhhhhcccc
Confidence 99999999999999999999999998653 33578888877 677899999999999999988776665444432211 2
Q ss_pred ccccccccCccccccccCCCCcchhhhhhcccC
Q 008217 294 KWCLVFNSDTFSANIDSVQRSDSIDTVFHQVST 326 (573)
Q Consensus 294 ~W~~~y~~~~f~~g~~tt~r~Es~n~~lK~~~~ 326 (573)
.|...-++...+.-+.|||.+||+|+.+|+...
T Consensus 320 ~~tf~~fP~~~~~~i~TTN~iEsln~~irrr~~ 352 (381)
T PF00872_consen 320 LLTFLDFPPEHRRSIRTTNAIESLNKEIRRRTK 352 (381)
T ss_pred ccceeeecchhccccchhhhccccccchhhhcc
Confidence 233222455556677899999999999998654
No 4
>COG3328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=99.07 E-value=6.2e-10 Score=115.09 Aligned_cols=198 Identities=13% Similarity=0.110 Sum_probs=141.0
Q ss_pred CEEEecceecccc--CCceeeeEEEEcCCCCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHH
Q 008217 140 DVVSFDATFRLNK--YNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIE 217 (573)
Q Consensus 140 dvi~iD~Ty~tn~--y~~pl~~~~Gv~~~~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~al~~Ai~ 217 (573)
.++++|++|.+-+ -+..++.++||+.+|+..++|+.+-..|+ ..|.-+|..|+.. |-.....+++|...++.+||.
T Consensus 146 ~~v~~D~~~~k~r~v~~~~~~ia~Gv~~eG~reilg~~~~~~e~-~~w~~~l~~l~~r-gl~~v~l~v~Dg~~gl~~aI~ 223 (379)
T COG3328 146 PYVYLDAKYVKVRSVRNKAVYIAIGVTEEGRREILGIWVGVRES-KFWLSFLLDLKNR-GLSDVLLVVVDGLKGLPEAIS 223 (379)
T ss_pred eEEEEecceeehhhhhhheeeeeeccCcccchhhhceeeecccc-hhHHHHHHHHHhc-cccceeEEecchhhhhHHHHH
Confidence 5899999999988 45778899999999999999999999999 8888666666544 334566777799999999999
Q ss_pred HhcccCccccccchHHHHHHHhhhhccCcHHHHHHHHHHhccCCCHHHHHHHHHHHHhhcccCchHHHHHHhhcc-cccc
Q 008217 218 TVFMKTRHRLSTGHIVKDARRNLANQFANLEFMKYLNKCFYECHDETEFQVSWDDMINKFSLGDHLWLKKLYSLR-DKWC 296 (573)
Q Consensus 218 ~vfP~~~h~~C~~Hi~kn~~~~~~~~~~~~~~~~~~~~~v~~s~t~~eFe~~w~~l~~~~~~~~~~~l~~l~~~r-~~W~ 296 (573)
.+||.+.++.|..|+.+|+..+.... ..+....+++. ++.+.+.++-...|..+.+.+....+.-++.+.+.. +.|.
T Consensus 224 ~v~p~a~~Q~C~vH~~Rnll~~v~~k-~~d~i~~~~~~-I~~a~~~e~~~~~~~~~~~~w~~~yP~i~~~~~~~~~~~~~ 301 (379)
T COG3328 224 AVFPQAAVQRCIVHLVRNLLDKVPRK-DQDAVLSDLRS-IYIAPDAEEALLALLAFSELWGKRYPAILKSWRNALEELLP 301 (379)
T ss_pred HhccHhhhhhhhhHHHhhhhhhhhhh-hhHHHHhhhhh-hhccCCcHHHHHHHHHHHHhhhhhcchHHHHHHHHHHHhcc
Confidence 99999999999999999999887663 22345555554 677889999999999888765544432222222111 1221
Q ss_pred cccccCccccccccCCCCcchhhhhhcccCC--CCcHHhHHHHHHHH
Q 008217 297 LVFNSDTFSANIDSVQRSDSIDTVFHQVSTK--RMDVISFVQHFEEK 341 (573)
Q Consensus 297 ~~y~~~~f~~g~~tt~r~Es~n~~lK~~~~~--~~~l~~f~~~~~~~ 341 (573)
..=++.....-+.|||-+|++|..++..... ..+-.+++..+...
T Consensus 302 F~~fp~~~r~~i~ttN~IE~~n~~ir~~~~~~~~fpn~~sv~k~~y~ 348 (379)
T COG3328 302 FFAFPSEIRKIIYTTNAIESLNKLIRRRTKVVGIFPNEESVEKLVYL 348 (379)
T ss_pred cccCcHHHHhHhhcchHHHHHHHHHHHHHhhhccCCCHHHHHHHHHH
Confidence 1111111113457999999999988865443 44555555544433
No 5
>smart00575 ZnF_PMZ plant mutator transposase zinc finger.
Probab=98.93 E-value=4.4e-10 Score=71.07 Aligned_cols=26 Identities=50% Similarity=0.855 Sum_probs=24.8
Q ss_pred EeecccccccCcchhhHHHHhhhCCC
Q 008217 432 SCSCKLFERMGILCRHALKAFDFNNL 457 (573)
Q Consensus 432 ~CsC~~fe~~GipCrHil~Vl~~~~v 457 (573)
+|+|++||..||||+|+|+|+...++
T Consensus 2 ~CsC~~~~~~gipC~H~i~v~~~~~~ 27 (28)
T smart00575 2 TCSCRKFQLSGIPCRHALAAAIHIGL 27 (28)
T ss_pred cccCCCcccCCccHHHHHHHHHHhCC
Confidence 79999999999999999999999886
No 6
>PF04434 SWIM: SWIM zinc finger; InterPro: IPR007527 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the SWIM (SWI2/SNF2 and MuDR) zinc-binding domain, which is found in a variety of prokaryotic and eukaryotic proteins, such as mitogen-activated protein kinase kinase kinase 1 (or MEKK1). It is also found in the related protein MEX (MEKK1-related protein X), a testis-expressed protein that acts as an E3 ubiquitin ligase through the action of E2 ubiquitin-conjugating enzymes in the proteasome degradation pathway; the SWIM domain is critical for MEX ubiquitination []. SWIM domains are also found in the homologous recombination protein Sws1 [], as well as in several hypothetical proteins. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=98.34 E-value=3.8e-07 Score=63.29 Aligned_cols=29 Identities=31% Similarity=0.564 Sum_probs=26.0
Q ss_pred CCeEEeecccccccCcchhhHHHHhhhCC
Q 008217 428 TQDISCSCKLFERMGILCRHALKAFDFNN 456 (573)
Q Consensus 428 ~~~~~CsC~~fe~~GipCrHil~Vl~~~~ 456 (573)
....+|+|..|+..|.||+|+++|+...+
T Consensus 12 ~~~~~CsC~~~~~~~~~CkHi~av~~~~~ 40 (40)
T PF04434_consen 12 IEQASCSCPYFQFRGGPCKHIVAVLLALN 40 (40)
T ss_pred ccccEeeCCCccccCCcchhHHHHHHhhC
Confidence 56889999999999999999999987653
No 7
>PF01610 DDE_Tnp_ISL3: Transposase; InterPro: IPR002560 Autonomous mobile genetic elements such as transposon or insertion sequences (IS) encode an enzyme, transposase, that is required for excising and inserting the mobile element. Transposases have been grouped into various families [, , ]. This family includes the IS204 [], IS1001 [], IS1096 [] and IS1165 [] transposases. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=96.97 E-value=0.00061 Score=67.69 Aligned_cols=96 Identities=17% Similarity=0.094 Sum_probs=66.7
Q ss_pred EEecceeccccCCceeeeEEEEcC--CCCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHHh
Q 008217 142 VSFDATFRLNKYNLICAPFVGVNH--HWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIETV 219 (573)
Q Consensus 142 i~iD~Ty~tn~y~~pl~~~~Gv~~--~~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~al~~Ai~~v 219 (573)
|+||=+........ +..+-+|. +...+ ++++.+-+.+++.-+|..+...-....+++|++|-.++...||++.
T Consensus 1 lgiDE~~~~~g~~~--y~t~~~d~~~~~~~i---l~i~~~r~~~~l~~~~~~~~~~~~~~~v~~V~~Dm~~~y~~~~~~~ 75 (249)
T PF01610_consen 1 LGIDEFAFRKGHRS--YVTVVVDLDTDTGRI---LDILPGRDKETLKDFFRSLYPEEERKNVKVVSMDMSPPYRSAIREY 75 (249)
T ss_pred CeEeeeeeecCCcc--eeEEEEECccCCceE---EEEcCCccHHHHHHHHHHhCccccccceEEEEcCCCcccccccccc
Confidence 34555544433331 23334444 44444 3578888888877666654211133578999999999999999999
Q ss_pred cccCccccccchHHHHHHHhhhh
Q 008217 220 FMKTRHRLSTGHIVKDARRNLAN 242 (573)
Q Consensus 220 fP~~~h~~C~~Hi~kn~~~~~~~ 242 (573)
||+|.+..-.|||++++.+.+..
T Consensus 76 ~P~A~iv~DrFHvvk~~~~al~~ 98 (249)
T PF01610_consen 76 FPNAQIVADRFHVVKLANRALDK 98 (249)
T ss_pred ccccccccccchhhhhhhhcchh
Confidence 99999999999999999886554
No 8
>PF13610 DDE_Tnp_IS240: DDE domain
Probab=93.62 E-value=0.025 Score=50.91 Aligned_cols=81 Identities=16% Similarity=0.153 Sum_probs=66.3
Q ss_pred CCEEEecceeccccCCceeeeEEEEcCCCCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHH
Q 008217 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIET 218 (573)
Q Consensus 139 ~dvi~iD~Ty~tn~y~~pl~~~~Gv~~~~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~al~~Ai~~ 218 (573)
|+.+.+|=||.+-+ |-..++...||.+|+ ++++-+-..-+..+=..||+..++..+ ..|..|+||+.++...|+++
T Consensus 1 ~~~w~~DEt~iki~-G~~~yl~~aiD~~~~--~l~~~ls~~Rd~~aA~~Fl~~~l~~~~-~~p~~ivtDk~~aY~~A~~~ 76 (140)
T PF13610_consen 1 GDSWHVDETYIKIK-GKWHYLWRAIDAEGN--ILDFYLSKRRDTAAAKRFLKRALKRHR-GEPRVIVTDKLPAYPAAIKE 76 (140)
T ss_pred CCEEEEeeEEEEEC-CEEEEEEEeeccccc--chhhhhhhhcccccceeeccccceeec-cccceeecccCCccchhhhh
Confidence 67899999998744 224467889999999 777888888788777778777766654 68999999999999999999
Q ss_pred hcccC
Q 008217 219 VFMKT 223 (573)
Q Consensus 219 vfP~~ 223 (573)
.+|..
T Consensus 77 l~~~~ 81 (140)
T PF13610_consen 77 LNPEG 81 (140)
T ss_pred ccccc
Confidence 99974
No 9
>PF00665 rve: Integrase core domain; InterPro: IPR001584 Integrase comprises three domains capable of folding independently and whose three-dimensional structures are known. However, the manner in which the N-terminal, catalytic, and C-terminal domains interact in the holoenzyme remains obscure. Numerous studies indicate that the enzyme functions as a multimer, minimally a dimer. The integrase proteins from Human immunodeficiency virus 1 (HIV-1) and Avian sarcoma virus (ASV) have been studied most carefully with respect to the structural basis of catalysis. Although the active site of ASV integrase does not undergo significant conformational changes on binding the required metal cofactor, that of HIV-1 does. This active site-mediated conformational change in HIV-1 reorganises the catalytic core and C-terminal domains and appears to promote an interaction that is favourable for catalysis []. Retroviral integrase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The presence of retrovirus integrase-related gene sequences in eukaryotes is known. Bacterial transposases involved in the transposition of the insertion sequence also belong to this group. HIV integrase catalyses the incorporation of virally derived DNA into the human genome. This unique step in the virus life cycle provides a variety of points for intervention and hence is an attractive target for the development of new therapeutics for the treatment of AIDS []. Substrate recognition by the retroviral integrase enzyme is critical for retroviral integration. To catalyse this recombination event, integrase must recognise and act on two types of substrates, viral DNA and host DNA, yet the necessary interactions exhibit markedly different degrees of specificity [].; GO: 0015074 DNA integration; PDB: 3AO3_A 3OVN_A 3AO5_A 3AO4_A 3AO1_A 1C6V_D 3HPG_A 3HPH_A 3OYD_A 3OYF_B ....
Probab=91.42 E-value=1.1 Score=38.41 Aligned_cols=75 Identities=13% Similarity=0.136 Sum_probs=55.0
Q ss_pred CCEEEecceecc-ccCCceeeeEEEEcCCCCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHHHHH
Q 008217 139 GDVVSFDATFRL-NKYNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSK 214 (573)
Q Consensus 139 ~dvi~iD~Ty~t-n~y~~pl~~~~Gv~~~~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~al~~ 214 (573)
+..+.+|.+... ...+.....++.+|..-+.+ +++.+-..++.+.+..+|.......++..|.+|+||+..+...
T Consensus 6 ~~~~~~D~~~~~~~~~~~~~~~~~~iD~~S~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~~i~tD~g~~f~~ 81 (120)
T PF00665_consen 6 GERWQIDFTPMPIPDKGGRVYLLVFIDDYSRFI-YAFPVSSKETAEAALRALKRAIEKRGGRPPRVIRTDNGSEFTS 81 (120)
T ss_dssp TTEEEEEEEEETGGCTT-CEEEEEEEETTTTEE-EEEEESSSSHHHHHHHHHHHHHHHHS-SE-SEEEEESCHHHHS
T ss_pred CCEEEEeeEEEecCCCCccEEEEEEEECCCCcE-EEEEeecccccccccccccccccccccccceeccccccccccc
Confidence 468889998555 44555788888888776654 4667776678888888888777777766699999999998753
No 10
>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function.
Probab=88.91 E-value=7.4 Score=42.42 Aligned_cols=141 Identities=13% Similarity=0.175 Sum_probs=81.5
Q ss_pred cCCcchHHHHHHHHHHHhCCCC--CcEEeccccHHHHHHHHHhcccCccccccchHHHHHHHhhhhccCcHHHHHHHHHH
Q 008217 179 DESTHSYVWLFESFLESMGNTQ--PKTIFTNENEAMSKAIETVFMKTRHRLSTGHIVKDARRNLANQFANLEFMKYLNKC 256 (573)
Q Consensus 179 ~E~~es~~w~l~~~~~~~~~~~--p~~iitD~~~al~~Ai~~vfP~~~h~~C~~Hi~kn~~~~~~~~~~~~~~~~~~~~~ 256 (573)
....+-|.-+.+.+-..-.... -.++..|+.+.+.+++. .||++.|.|..||+.+.+.+.++.. .+....+.++
T Consensus 235 ~~~~~~~~~v~~~i~~~Y~~~~~~~iiingDGa~WIk~~~~-~~~~~~~~LD~FHl~k~i~~~~~~~---~~~~~~~~~a 310 (470)
T PF06782_consen 235 ESAEEFWEEVLDYIYNHYDLDKTTKIIINGDGASWIKEGAE-FFPKAEYFLDRFHLNKKIKQALSHD---PELKEKIRKA 310 (470)
T ss_pred cchHHHHHHHHHHHHHhcCcccceEEEEeCCCcHHHHHHHH-hhcCceEEecHHHHHHHHHHHhhhC---hHHHHHHHHH
Confidence 3444556555554443333222 34677999999988776 9999999999999999999988763 2455555566
Q ss_pred hccCCCHHHHHHHHHHHHhhcccCc-hHHHHHHhh-cccccc--cccccCccccccccCCCCcchhhhhhcccCC
Q 008217 257 FYECHDETEFQVSWDDMINKFSLGD-HLWLKKLYS-LRDKWC--LVFNSDTFSANIDSVQRSDSIDTVFHQVSTK 327 (573)
Q Consensus 257 v~~s~t~~eFe~~w~~l~~~~~~~~-~~~l~~l~~-~r~~W~--~~y~~~~f~~g~~tt~r~Es~n~~lK~~~~~ 327 (573)
++ ..+..+++...+.+...-.... .+-+..+.. ....|- .+|... .|+......|+.+..+...+++
T Consensus 311 l~-~~d~~~l~~~L~~~~~~~~~~~~~~~i~~~~~Yl~~n~~~i~~y~~~---~~~~g~g~ee~~~~~~s~RmK~ 381 (470)
T PF06782_consen 311 LK-KGDKKKLETVLDTAESCAKDEEERKKIRKLRKYLLNNWDGIKPYRER---EGLRGIGAEESVSHVLSYRMKS 381 (470)
T ss_pred HH-hcCHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHCHHHhhhhhhc---cCCCccchhhhhhhHHHHHhcC
Confidence 65 4566677766666554332221 111222111 122332 223211 2333334478888887665554
No 11
>PF04937 DUF659: Protein of unknown function (DUF 659); InterPro: IPR007021 These are transposase-like proteins with no known function.
Probab=80.16 E-value=16 Score=33.36 Aligned_cols=108 Identities=11% Similarity=0.078 Sum_probs=74.9
Q ss_pred HHHhhcCCEEEecceeccccCCceeeeEEEEcCCCCeeeEeEeeecc--CCcchHHHHHHHHHHHhCCCCCcEEeccccH
Q 008217 133 LDYDCFGDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLD--ESTHSYVWLFESFLESMGNTQPKTIFTNENE 210 (573)
Q Consensus 133 ~~~~~f~dvi~iD~Ty~tn~y~~pl~~~~Gv~~~~~~~~~g~al~~~--E~~es~~w~l~~~~~~~~~~~p~~iitD~~~ 210 (573)
..+...|=-|..|+= ++..+.+++.|+-....|-.++-.. -.++ .+.+.+.-+|+...+.+|......||||-..
T Consensus 27 ~~w~~~Gcsi~~DgW--td~~~~~lInf~v~~~~g~~Flksv-d~s~~~~~a~~l~~ll~~vIeeVG~~nVvqVVTDn~~ 103 (153)
T PF04937_consen 27 KSWKRTGCSIMSDGW--TDRKGRSLINFMVYCPEGTVFLKSV-DASSIIKTAEYLFELLDEVIEEVGEENVVQVVTDNAS 103 (153)
T ss_pred HHHHhcCEEEEEecC--cCCCCCeEEEEEEEcccccEEEEEE-ecccccccHHHHHHHHHHHHHHhhhhhhhHHhccCch
Confidence 344555656666664 5566677777776666555543332 2222 4556666667777777777777889999999
Q ss_pred HHHHHHH---HhcccCccccccchHHHHHHHhhhhc
Q 008217 211 AMSKAIE---TVFMKTRHRLSTGHIVKDARRNLANQ 243 (573)
Q Consensus 211 al~~Ai~---~vfP~~~h~~C~~Hi~kn~~~~~~~~ 243 (573)
.+++|-+ +-+|.....-|.-|-+.-+.+.+..+
T Consensus 104 ~~~~a~~~L~~k~p~ifw~~CaaH~inLmledi~k~ 139 (153)
T PF04937_consen 104 NMKKAGKLLMEKYPHIFWTPCAAHCINLMLEDIGKL 139 (153)
T ss_pred hHHHHHHHHHhcCCCEEEechHHHHHHHHHHHHhcC
Confidence 9988844 55788888899999998888887764
No 12
>PHA02517 putative transposase OrfB; Reviewed
Probab=71.84 E-value=38 Score=33.84 Aligned_cols=71 Identities=10% Similarity=-0.038 Sum_probs=42.2
Q ss_pred CCEEEecceeccccCCceeeeEEEEcCCCCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHH
Q 008217 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEA 211 (573)
Q Consensus 139 ~dvi~iD~Ty~tn~y~~pl~~~~Gv~~~~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~a 211 (573)
++++..|.||....-+ ..++++-+|...+ .++|+.+-..++.+...-.|+......+...+..|.||+...
T Consensus 110 n~~w~~D~t~~~~~~g-~~yl~~iiD~~sr-~i~~~~~~~~~~~~~~~~~l~~a~~~~~~~~~~i~~sD~G~~ 180 (277)
T PHA02517 110 NQLWVADFTYVSTWQG-WVYVAFIIDVFAR-RIVGWRVSSSMDTDFVLDALEQALWARGRPGGLIHHSDKGSQ 180 (277)
T ss_pred CCeEEeceeEEEeCCC-CEEEEEecccCCC-eeeecccCCCCChHHHHHHHHHHHHhcCCCcCcEeecccccc
Confidence 5789999999765433 3456666666655 456777776677665444444433333322334666887653
No 13
>COG3316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=71.39 E-value=9.3 Score=36.64 Aligned_cols=83 Identities=12% Similarity=0.153 Sum_probs=57.3
Q ss_pred CCEEEecceeccccCCceeeeEEEEcCCCCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHH
Q 008217 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIET 218 (573)
Q Consensus 139 ~dvi~iD~Ty~tn~y~~pl~~~~Gv~~~~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~al~~Ai~~ 218 (573)
++.+-+|=||.+-+-+.. +.-..||..|+ ++.+-|...-+...=.-||..+++.. ..|.+|+||+.+....|+++
T Consensus 70 ~~~w~vDEt~ikv~gkw~-ylyrAid~~g~--~Ld~~L~~rRn~~aAk~Fl~kllk~~--g~p~v~vtDka~s~~~A~~~ 144 (215)
T COG3316 70 GDSWRVDETYIKVNGKWH-YLYRAIDADGL--TLDVWLSKRRNALAAKAFLKKLLKKH--GEPRVFVTDKAPSYTAALRK 144 (215)
T ss_pred ccceeeeeeEEeeccEee-ehhhhhccCCC--eEEEEEEcccCcHHHHHHHHHHHHhc--CCCceEEecCccchHHHHHh
Confidence 356667777776433222 23345566655 44556666656666667777777765 58999999999999999999
Q ss_pred hcccCccc
Q 008217 219 VFMKTRHR 226 (573)
Q Consensus 219 vfP~~~h~ 226 (573)
+-+...|+
T Consensus 145 l~~~~ehr 152 (215)
T COG3316 145 LGSEVEHR 152 (215)
T ss_pred cCcchhee
Confidence 99976665
No 14
>COG5431 Uncharacterized metal-binding protein [Function unknown]
Probab=67.46 E-value=3.9 Score=34.02 Aligned_cols=31 Identities=23% Similarity=0.428 Sum_probs=22.5
Q ss_pred cceeeEEEEEecCCCeEEeeccccc-----ccCcchhhHHHH
Q 008217 415 GQQKVCKINYNLSTQDISCSCKLFE-----RMGILCRHALKA 451 (573)
Q Consensus 415 ~~~~~~~V~~~~~~~~~~CsC~~fe-----~~GipCrHil~V 451 (573)
|+++.|.+..+ -|||..|- .-.-||.|++.+
T Consensus 40 G~~rdYIl~~g------fCSCp~~~~svvl~Gk~~C~Hi~gl 75 (117)
T COG5431 40 GKERDYILEGG------FCSCPDFLGSVVLKGKSPCAHIIGL 75 (117)
T ss_pred ccccceEEEcC------cccCHHHHhHhhhcCcccchhhhhe
Confidence 55667887543 89999987 334579999865
No 15
>COG4279 Uncharacterized conserved protein [Function unknown]
Probab=44.46 E-value=9.2 Score=37.26 Aligned_cols=24 Identities=21% Similarity=0.555 Sum_probs=20.0
Q ss_pred eEEeecccccccCcchhhHHHHhhhCC
Q 008217 430 DISCSCKLFERMGILCRHALKAFDFNN 456 (573)
Q Consensus 430 ~~~CsC~~fe~~GipCrHil~Vl~~~~ 456 (573)
...|||..+. .||.||-+|.-+++
T Consensus 124 ~~dCSCPD~a---nPCKHi~AvyY~la 147 (266)
T COG4279 124 STDCSCPDYA---NPCKHIAAVYYLLA 147 (266)
T ss_pred ccccCCCCcc---cchHHHHHHHHHHH
Confidence 4579999985 79999999987754
No 16
>PRK14702 insertion element IS2 transposase InsD; Provisional
Probab=37.23 E-value=1.5e+02 Score=29.51 Aligned_cols=71 Identities=8% Similarity=-0.067 Sum_probs=47.1
Q ss_pred CCEEEecceeccccCCceeeeEEEEcCCCCeeeEeEeeecc-CCcchHHHHHHHHHHHh-C---CCCCcEEeccccH
Q 008217 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLD-ESTHSYVWLFESFLESM-G---NTQPKTIFTNENE 210 (573)
Q Consensus 139 ~dvi~iD~Ty~tn~y~~pl~~~~Gv~~~~~~~~~g~al~~~-E~~es~~w~l~~~~~~~-~---~~~p~~iitD~~~ 210 (573)
..+.+.|-||....-+..++..+-+|.+.+ .++|+++-.. .+.+...-+|+..+... + ...|.+|.||+-.
T Consensus 87 n~~W~~DiT~~~~~~g~~~Yl~~viD~~sR-~ivg~~is~~~~~~~~v~~~l~~A~~~~~~~~~~~~~~iihSD~Gs 162 (262)
T PRK14702 87 NQRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQDVMLGAVERRFGNDLPSSPVEWLTDNGS 162 (262)
T ss_pred CCEEEeeeEEEEecCCcEEEEEEEEecccc-eeeeEEeccCcCCHHHHHHHHHHHHHHHhcccCCCCCeEEEcCCCc
Confidence 468889999876554556777778887776 5668888763 45555555555444332 2 2357888999874
No 17
>PF03050 DDE_Tnp_IS66: Transposase IS66 family ; InterPro: IPR004291 Transposase proteins are necessary for efficient DNA transposition. This family includes the bacterial insertion sequence (IS) element, IS66, from Agrobacterium tumefaciens []. IS66 may cause genetic and structural variations of the T region and the vir region of the octopine Ti plasmids []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=33.30 E-value=31 Score=34.36 Aligned_cols=41 Identities=17% Similarity=0.319 Sum_probs=31.4
Q ss_pred hCCCCCcEEeccccHHHHHHHHHhcccCccccccchHHHHHHHhhhh
Q 008217 196 MGNTQPKTIFTNENEAMSKAIETVFMKTRHRLSTGHIVKDARRNLAN 242 (573)
Q Consensus 196 ~~~~~p~~iitD~~~al~~Ai~~vfP~~~h~~C~~Hi~kn~~~~~~~ 242 (573)
+++ -+.+++||+-.+-.. +..+.|+.|.-|+.+.+.+-...
T Consensus 116 L~~-~~GilvsD~y~~Y~~-----~~~~~hq~C~AH~~R~~~~~~~~ 156 (271)
T PF03050_consen 116 LGD-FSGILVSDGYSAYNK-----LAGITHQLCWAHLRRDFQDAAES 156 (271)
T ss_pred hcc-cceeeeccccccccc-----ccccccccccccccccccccccc
Confidence 444 446999999887644 33889999999999998776554
No 18
>PRK09409 IS2 transposase TnpB; Reviewed
Probab=32.41 E-value=2.1e+02 Score=29.15 Aligned_cols=71 Identities=10% Similarity=-0.030 Sum_probs=47.4
Q ss_pred CCEEEecceeccccCCceeeeEEEEcCCCCeeeEeEeeecc-CCcchHHHHHHHHHHH-hCC---CCCcEEeccccH
Q 008217 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLD-ESTHSYVWLFESFLES-MGN---TQPKTIFTNENE 210 (573)
Q Consensus 139 ~dvi~iD~Ty~tn~y~~pl~~~~Gv~~~~~~~~~g~al~~~-E~~es~~w~l~~~~~~-~~~---~~p~~iitD~~~ 210 (573)
..+.+.|-||....-+.-++..+-+|...+ .++|+++-.. .+.+...-+|+..+.. .++ ..|.+|-||+-.
T Consensus 126 N~~W~tDiT~~~~~~g~~~Yl~~ViD~~sR-~ivg~~~s~~~~~~~~v~~~l~~a~~~~~~~~~~~~~~iihSDrGs 201 (301)
T PRK09409 126 NQRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQDVMLGAVERRFGNDLPSSPVEWLTDNGS 201 (301)
T ss_pred CCEEEeeeEEEEeCCCCEEEEEEEeecccc-eEEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCcEEecCCCc
Confidence 478999999976544445677777887776 5778888765 5666655566543333 232 246788999874
No 19
>COG4715 Uncharacterized conserved protein [Function unknown]
Probab=30.52 E-value=1.9e+02 Score=31.97 Aligned_cols=34 Identities=12% Similarity=0.281 Sum_probs=24.5
Q ss_pred EEEEEecCCCeEEeecccccccCcchhhHHHHhhhC
Q 008217 420 CKINYNLSTQDISCSCKLFERMGILCRHALKAFDFN 455 (573)
Q Consensus 420 ~~V~~~~~~~~~~CsC~~fe~~GipCrHil~Vl~~~ 455 (573)
+.|++.....+.+|+|.. .. +=-|+|+.+|+...
T Consensus 62 v~vtL~~~~~ss~CTCP~-~~-~gaCKH~VAvvl~~ 95 (587)
T COG4715 62 VRVTLEGGALSSICTCPY-GG-SGACKHVVAVVLEY 95 (587)
T ss_pred EEEEeecCCcCceeeCCC-CC-CcchHHHHHHHHHH
Confidence 445555455788999998 33 34699999998754
No 20
>PF12762 DDE_Tnp_IS1595: ISXO2-like transposase domain; InterPro: IPR024445 This domain probably functions as an integrase that is found in a wide variety of transposases, including ISXO2.
Probab=27.99 E-value=1.8e+02 Score=25.91 Aligned_cols=50 Identities=18% Similarity=0.093 Sum_probs=30.9
Q ss_pred eeEEEEcCC-CCeeeEeEeeeccCCcchHHHHHHHHHHHhCCCCCcEEeccccHHH
Q 008217 158 APFVGVNHH-WKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAM 212 (573)
Q Consensus 158 ~~~~Gv~~~-~~~~~~g~al~~~E~~es~~w~l~~~~~~~~~~~p~~iitD~~~al 212 (573)
.++++++.. |.+--+-...+.+.+.++..-+++.... +-.+|+||..++-
T Consensus 36 ~V~~~ver~~~~~~~~~~~~v~~~~~~tl~~~i~~~i~-----~gs~i~TD~~~aY 86 (151)
T PF12762_consen 36 PVFGAVERNDGGTGRVFMFVVPDRSAETLKPIIQEHIE-----PGSTIITDGWRAY 86 (151)
T ss_pred EEEEEEeecccCCceEEEEeecccccchhHHHHHHhhh-----ccceeeecchhhc
Confidence 345555554 4333444556688888887666554332 3468999998875
No 21
>PF03106 WRKY: WRKY DNA -binding domain; InterPro: IPR003657 The WRKY domain is a 60 amino acid region that is defined by the conserved amino acid sequence WRKYGQK at its N-terminal end, together with a novel zinc-finger- like motif. The WRKY domain is found in one or two copies in a superfamily of plant transcription factors involved in the regulation of various physiological programs that are unique to plants, including pathogen defence, senescence, trichome development and the biosynthesis of secondary metabolites. The WRKY domain binds specifically to the DNA sequence motif (T)(T)TGAC(C/T), which is known as the W box. The invariant TGAC core of the W box is essential for function and WRKY binding []. Some proteins known to contain a WRKY domain include Arabidopsis thaliana ZAP1 (Zinc-dependent Activator Protein-1) and AtWRKY44/TTG2, a protein involved in trichome development and anthocyanin pigmentation; and wild oat ABF1-2, two proteins involved in the gibberelic acid-induced expression of the alpha-Amy2 gene. Structural studies indicate that this domain is a four-stranded beta-sheet with a zinc binding pocket, forming a novel zinc and DNA binding structure []. The WRKYGQK residues correspond to the most N-terminal beta-strand, which enables extensive hydrophobic interactions, contributing to the structural stability of the beta-sheet.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2AYD_A 1WJ2_A 2LEX_A.
Probab=22.05 E-value=63 Score=24.34 Aligned_cols=17 Identities=35% Similarity=0.337 Sum_probs=11.9
Q ss_pred ECCeEEEEEEecccCCC
Q 008217 6 SNGVWVISHINFEHNHE 22 (573)
Q Consensus 6 ~~~~w~v~~~~~~HNH~ 22 (573)
+++.-.++...++|||+
T Consensus 43 ~d~~~~~vtY~G~H~h~ 59 (60)
T PF03106_consen 43 DDPNIVIVTYEGEHNHP 59 (60)
T ss_dssp TCCCEEEEEEES--SS-
T ss_pred CCCCEEEEEEeeeeCCC
Confidence 46778899999999997
No 22
>PF02171 Piwi: Piwi domain; InterPro: IPR003165 This domain is found in the stem cell self-renewal protein Piwi and its relatives in Drosophila melanogaster []. It has been found in the C-terminal of a number of proteins which also contain the PAZ domain (IPR003100 from INTERPRO) in their central region, for example the Argonaute proteins. Several of these proteins have been implicated in the development and maintenance of stem cells through the RNA-mediated gene-quelling mechanisms associated with the protein DICER. ; GO: 0005515 protein binding; PDB: 4F1N_B 3LUH_B 4EI1_A 3QX8_A 3LUC_C 3LUJ_B 3LUD_B 3QX9_A 3LUG_B 3LUK_B ....
Probab=21.31 E-value=4.7e+02 Score=26.22 Aligned_cols=69 Identities=13% Similarity=0.148 Sum_probs=39.7
Q ss_pred EEEecceeccccC-Cce-eeeEEEE-cCCCCeeeEeEeeec--cCCcch----HHHHHHHHHHHhCCCCCcEEecccc
Q 008217 141 VVSFDATFRLNKY-NLI-CAPFVGV-NHHWKNMLFGCAFLL--DESTHS----YVWLFESFLESMGNTQPKTIFTNEN 209 (573)
Q Consensus 141 vi~iD~Ty~tn~y-~~p-l~~~~Gv-~~~~~~~~~g~al~~--~E~~es----~~w~l~~~~~~~~~~~p~~iitD~~ 209 (573)
||.+|.++..... ..| ++.+++. |.++..+.-.+.+.. .|..+. +.++|+.|.+..+...|..||.=+|
T Consensus 79 iIGidv~h~~~~~~~~~sv~g~~~s~~~~~~~~~~~~~~~~~~~e~~~~l~~~~~~~L~~~~~~~~~~~P~~IiiyRd 156 (302)
T PF02171_consen 79 IIGIDVSHPSPGSDKNPSVVGFVASFDSDGSKYFSSVRFQDSGQEIIDNLEEIIKEALKEFKKNNGKWLPERIIIYRD 156 (302)
T ss_dssp EEEEEEEEESSTCTCSCEEEEEEEEESTTTCEEEEEEEEECTTCCCHHHHHHHHHHHHHHHHHTTTT-TTSEEEEEEE
T ss_pred EEEEEEEecCcccCCcceeeEEEEeccCccccccceeEEeccchhhhcchhhHHHHHHHHHHHHcCCCCCceEEEEEc
Confidence 7889999998876 444 4455554 444444443333332 233333 5555566666666558888776554
No 23
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=21.05 E-value=4.2e+02 Score=20.90 Aligned_cols=38 Identities=21% Similarity=0.242 Sum_probs=26.9
Q ss_pred cccceEEEee-CCcEEEEEEEEecceeeEEEEEecCCCeE
Q 008217 393 MGVRMKEVCK-DGEVCIYEAIEEGQQKVCKINYNLSTQDI 431 (573)
Q Consensus 393 ~~~~~~~~~~-~~~~y~v~~~~~~~~~~~~V~~~~~~~~~ 431 (573)
.+|.+.++.- +++.|+|... ..+++.+.|.+|+.++.+
T Consensus 41 ~G~~v~~ve~~~~g~yev~~~-~~dG~~~ev~vD~~tG~V 79 (83)
T PF13670_consen 41 QGYQVREVEFDDDGCYEVEAR-DKDGKKVEVYVDPATGEV 79 (83)
T ss_pred cCCceEEEEEcCCCEEEEEEE-ECCCCEEEEEEcCCCCeE
Confidence 4557777776 5668999843 345788999999876543
No 24
>KOG4027 consensus Uncharacterized conserved protein [Function unknown]
Probab=20.98 E-value=1.1e+02 Score=27.93 Aligned_cols=37 Identities=19% Similarity=0.268 Sum_probs=30.5
Q ss_pred ecceec-cccCCcee--eeEEEEcCCCCeeeEeEeeeccC
Q 008217 144 FDATFR-LNKYNLIC--APFVGVNHHWKNMLFGCAFLLDE 180 (573)
Q Consensus 144 iD~Ty~-tn~y~~pl--~~~~Gv~~~~~~~~~g~al~~~E 180 (573)
||.||+ |+-|+.|- +..-|-|+.|+-.+.|+|.+.--
T Consensus 70 ievt~KstsPygWPqivl~vfg~d~~G~d~v~GYg~~hiP 109 (187)
T KOG4027|consen 70 IEVTLKSTSPYGWPQIVLNVFGKDHSGKDCVTGYGMLHIP 109 (187)
T ss_pred eEEEeccCCCCCCceEEEEEecCCcCCcceeeeeeeEecC
Confidence 789998 48899994 45678999999999999987543
Done!