Query 007865
Match_columns 587
No_of_seqs 299 out of 1103
Neff 8.2
Searched_HMMs 46136
Date Thu Mar 28 16:22:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007865.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/007865hhsearch_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 3E-120 6E-125 1010.8 48.1 511 1-537 165-677 (846)
2 PF10551 MULE: MULE transposas 99.9 9.1E-23 2E-27 172.2 8.0 90 146-237 1-93 (93)
3 PF00872 Transposase_mut: Tran 99.6 4E-17 8.6E-22 172.5 1.0 184 140-326 163-352 (381)
4 COG3328 Transposase and inacti 99.0 2.2E-09 4.8E-14 111.7 11.0 198 140-342 146-349 (379)
5 smart00575 ZnF_PMZ plant mutat 98.9 6.3E-10 1.4E-14 70.9 2.0 26 432-457 2-27 (28)
6 PF04434 SWIM: SWIM zinc finge 98.3 5.7E-07 1.2E-11 62.8 3.1 30 427-456 11-40 (40)
7 PF01610 DDE_Tnp_ISL3: Transpo 97.0 0.00045 9.8E-09 69.0 3.3 95 143-242 2-98 (249)
8 PF13610 DDE_Tnp_IS240: DDE do 93.2 0.028 6.1E-07 50.9 0.3 81 139-223 1-81 (140)
9 PF00665 rve: Integrase core d 90.5 1.4 3E-05 38.0 8.0 75 139-214 6-81 (120)
10 PF06782 UPF0236: Uncharacteri 86.2 17 0.00037 39.9 14.6 140 180-327 236-381 (470)
11 PF04937 DUF659: Protein of un 80.7 15 0.00032 33.8 9.6 108 133-243 27-139 (153)
12 COG3316 Transposase and inacti 59.7 18 0.00038 35.0 5.1 83 139-226 70-152 (215)
13 COG5431 Uncharacterized metal- 58.9 6.8 0.00015 32.9 1.9 31 415-451 40-75 (117)
14 COG4279 Uncharacterized conser 44.6 9.9 0.00022 37.3 0.9 24 430-456 124-147 (266)
15 PHA02517 putative transposase 31.7 1.2E+02 0.0027 30.3 6.6 71 139-211 110-180 (277)
16 PRK14702 insertion element IS2 28.2 2.3E+02 0.005 28.3 7.8 72 139-211 87-163 (262)
17 COG4715 Uncharacterized conser 27.5 2.3E+02 0.0049 31.5 7.8 34 420-455 62-95 (587)
18 PF03050 DDE_Tnp_IS66: Transpo 26.8 42 0.0009 33.7 2.1 41 196-242 116-156 (271)
19 PRK09409 IS2 transposase TnpB; 24.9 3E+02 0.0065 28.1 8.1 72 139-211 126-202 (301)
20 KOG4027 Uncharacterized conser 23.1 78 0.0017 29.0 2.8 38 144-181 70-110 (187)
21 PF03106 WRKY: WRKY DNA -bindi 22.7 60 0.0013 24.6 1.8 17 6-22 43-59 (60)
22 PF12762 DDE_Tnp_IS1595: ISXO2 21.9 2.4E+02 0.0052 25.2 6.0 50 158-212 36-86 (151)
23 PF11433 DUF3198: Protein of u 21.5 1.2E+02 0.0025 21.8 2.8 44 252-296 6-49 (51)
No 1
>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional
Probab=100.00 E-value=2.9e-120 Score=1010.80 Aligned_cols=511 Identities=32% Similarity=0.563 Sum_probs=462.9
Q ss_pred CEEEE-ECCeEEEEEeeCCCCCCCCCCccccccccccccccccCCcccccCCcccceecccccCCCccccccccccCCcc
Q 007865 1 MRFTV-SNGVWVISHINFEHNHELAKPEERQFLRSCRKIFEASGGVDVGRRRTKPLSYLGNDFGGDRNVQFAKKDMGNYL 79 (587)
Q Consensus 1 v~~r~-~~~~w~v~~~~~~HNH~l~~~~~~~~l~s~r~l~~~~~~i~~~~~~~~~~~~l~~~~g~~~~~~~~~~di~N~~ 79 (587)
|++++ .+|+|+|+.|+.+|||||.++..... + .|++ +..+....++..+++.++.|..|+.
T Consensus 165 m~Vk~~~~gkW~V~~fv~eHNH~L~p~~~~~~-~-~r~~----------------~~~~~~~~~~~~~v~~~~~d~~~~~ 226 (846)
T PLN03097 165 MHVKRRPDGKWVIHSFVKEHNHELLPAQAVSE-Q-TRKM----------------YAAMARQFAEYKNVVGLKNDSKSSF 226 (846)
T ss_pred EEEEEcCCCeEEEEEEecCCCCCCCCccccch-h-hhhh----------------HHHHHhhhhccccccccchhhcchh
Confidence 35666 78999999999999999997653220 0 0111 1122234456667778888999998
Q ss_pred hhhhhccCCCCcHHHHHHHHhhhccCCCCcEEEEEeccccceeeeEecccccHHHHHhcCCeeeeccccccccCCceeeE
Q 007865 80 PREMGNMMEPGDVQGLLNYFRRKKCEDPSFFYAVQVNQLNQATNFFWRDGRSKLDYDCFGDVVSFDATFRLNKYNLICAP 159 (587)
Q Consensus 80 ~~~r~~~~~~~d~~~l~~~l~~~~~~np~f~~~~~~d~~~~~~~ifw~~~~~~~~~~~f~dvi~~D~Ty~tn~y~~pl~~ 159 (587)
.+.|+..+..||+++|++||+++|.+||+|||++++|++|+|+||||+|++|+.+|.+|||||+|||||+||+|+|||++
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 EEEEcCCCCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHHHcccCccccccchHHHHHHHH
Q 007865 160 FVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIETVFMKTRHRLSTGHIVKDARRN 239 (587)
Q Consensus 160 ~~Gvn~~~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a~~~Ai~~vfP~~~h~~C~~Hi~~n~~~~ 239 (587)
|+|||||+|+++|||||+.+|+.|||.|||++|+++|+|+.|++||||+|.||++||++|||+|.|++|.|||++|+.++
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-cHHHHHHHHHHHhcCCCHHHHHHHHHHHHhhcCCCchHHHHHHHhhhccccccccccccccccccCCCCcchh
Q 007865 240 LANQFA-NLEFMKYLNKCFYECHDETEFQVSWDDMINKFSLGDHLWLKKLYSLRDKWCLVFNSDTFSANIDSVQRSDSID 318 (587)
Q Consensus 240 l~~~~~-~~~~~~~~~~~v~~~~t~~eFe~~w~~l~~~~~l~~~~wl~~l~~~r~~W~~ay~~~~f~~g~~tt~r~Es~n 318 (587)
|+..+. .+.|..+|.+|||++.+++|||..|..|+++|+|++|+||+.||+.|++||++|+++.|++||+||+|+||+|
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 998753 4689999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhccCCCCCHHhHHHHHHHHHHhhhhhhhhhhhcccCCcceeehhhhHHHHHHHhchHHHHHHHHHHHHhccccceE
Q 007865 319 TVFHQVSTKRMDVISFVQHFEEKTKEMHLDELEDDHFCKHVVPRLQVWNGILNHAVYVYTSKIFNFFEMELLGCMGVRMK 398 (587)
Q Consensus 319 ~~lK~~~~~~~~l~~f~~~~~~~~~~~~~~E~~~d~~s~~~~p~~~~~~~~e~qa~~vyT~~if~~fq~el~~~~~~~~~ 398 (587)
++||+|++++++|..|+++|+++++.++++|+++|+.+.++.|.+++.+|||+||+++|||+||++||+|+..++++.+.
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 99999999999999999999999999999999999999999999999999999999999999999999999999887665
Q ss_pred EEeeCCcEEEEEEEEecceeeEEEEEeCCCCceeeecccccccCcchhhHHHHhhhCCccccCccccccccccccccCcc
Q 007865 399 EVCKDGEVCIYEAIEEGQQKVCKINYNLSTQDISCSCKLFERMGILCRHALKAFDFNNLTQIPVQYILKRWTKEAKKGIV 478 (587)
Q Consensus 399 ~~~~~~~~y~v~~~~~~~~~~~~V~~~~~~~~~~CsC~~fe~~GipC~Hil~Vl~~~~v~~iP~~yil~RWtk~ak~~~~ 478 (587)
....++..+++.+...+..+.|.|.+|.+...++|+|++||+.||||+|||+||.++||.+||++|||+||||+||...+
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 55444554444433333457899999999999999999999999999999999999999999999999999999998766
Q ss_pred cccCCcccCCCCCccccchHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHH
Q 007865 479 VRVSNERHGLSSNTVKSVQSLRLSELMHMGSNVYSIASLSDSGTKIVKEKLAEAMELLE 537 (587)
Q Consensus 479 ~~~~~~~~~~~~~~~~~~~~~ry~~l~~~~~~~~~~a~~s~e~~~~~~~~l~~~~~~~~ 537 (587)
.+.... ...+.+.||+.||++++++|++|+.|+|.|..|+++|+++...+.
T Consensus 627 ~~~~~~--------~~~~~~~Ryn~L~r~a~kla~~as~S~E~y~~a~~~L~e~~~~~~ 677 (846)
T PLN03097 627 LGEESE--------QVQSRVQRYNDLCQRALKLSEEASLSQESYNIAFRALEEAFGNCI 677 (846)
T ss_pred Cccccc--------cccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHH
Confidence 542211 123567899999999999999999999999999999999988774
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=9.1e-23 Score=172.19 Aligned_cols=90 Identities=31% Similarity=0.517 Sum_probs=86.8
Q ss_pred cccccccCCceeeE---EEEEcCCCCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHHHccc
Q 007865 146 ATFRLNKYNLICAP---FVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIETVFMK 222 (587)
Q Consensus 146 ~Ty~tn~y~~pl~~---~~Gvn~~~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a~~~Ai~~vfP~ 222 (587)
+||+||+| +|++. ++|+|++|+.+++|++++.+|+.++|.|+|+.+++.++.+ |.+||||++.|+.+||+++||+
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 007865 223 TRHRLSTGHIVKDAR 237 (587)
Q Consensus 223 ~~h~~C~~Hi~~n~~ 237 (587)
+.|++|.||++||++
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=99.63 E-value=4e-17 Score=172.53 Aligned_cols=184 Identities=14% Similarity=0.174 Sum_probs=148.8
Q ss_pred CeeeeccccccccC-----CceeeEEEEEcCCCCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHHHHH
Q 007865 140 DVVSFDATFRLNKY-----NLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSK 214 (587)
Q Consensus 140 dvi~~D~Ty~tn~y-----~~pl~~~~Gvn~~~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a~~~ 214 (587)
++|++|++|.+-+. +.++++++|||.+|+..++|+.+...|+.++|.-+|..+++- |-+.|..||+|..+|+.+
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 57899999987553 467899999999999999999999999999999999988654 335799999999999999
Q ss_pred HHHHHcccCccccccchHHHHHHHHhhhccCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHhhcCCCchHHHHHHHhhh-c
Q 007865 215 AIETVFMKTRHRLSTGHIVKDARRNLANQFANLEFMKYLNKCFYECHDETEFQVSWDDMINKFSLGDHLWLKKLYSLR-D 293 (587)
Q Consensus 215 Ai~~vfP~~~h~~C~~Hi~~n~~~~l~~~~~~~~~~~~~~~~v~~~~t~~eFe~~w~~l~~~~~l~~~~wl~~l~~~r-~ 293 (587)
||+++||++.++.|.+|+++|+.+++... ..+.+..+++. |+.+.+.++....++.+.+++........+.|-+.. +
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 33578888876 677999999999999999988776655544432211 1
Q ss_pred cccccccccccccccccCCCCcchhhhhhhccC
Q 007865 294 KWCLVFNSDTFSANIDSVQRSDSIDTVFHQVST 326 (587)
Q Consensus 294 ~W~~ay~~~~f~~g~~tt~r~Es~n~~lK~~~~ 326 (587)
.|...-++...+.-+.|||.+||+|+.+|+...
T Consensus 320 ~~tf~~fP~~~~~~i~TTN~iEsln~~irrr~~ 352 (381)
T PF00872_consen 320 LLTFLDFPPEHRRSIRTTNAIESLNKEIRRRTK 352 (381)
T ss_pred ccceeeecchhccccchhhhccccccchhhhcc
Confidence 222222344455677899999999999998654
No 4
>COG3328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=98.99 E-value=2.2e-09 Score=111.71 Aligned_cols=198 Identities=14% Similarity=0.134 Sum_probs=139.7
Q ss_pred Ceeeecccccccc--CCceeeEEEEEcCCCCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHH
Q 007865 140 DVVSFDATFRLNK--YNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIE 217 (587)
Q Consensus 140 dvi~~D~Ty~tn~--y~~pl~~~~Gvn~~~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a~~~Ai~ 217 (587)
.+|++|++|.+-+ -+..++.++||+.+|+..++|+.+-..|+ ..|.-+|..|+.. +-.....+++|..+++.+||.
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 5799999999877 56778999999999999999999999999 7777555554433 334556677799999999999
Q ss_pred HHcccCccccccchHHHHHHHHhhhccCcHHHHHHHHHHHhcCCCHHHHHHHHHHHHhhcCCCchHHHHHHHhhhc-ccc
Q 007865 218 TVFMKTRHRLSTGHIVKDARRNLANQFANLEFMKYLNKCFYECHDETEFQVSWDDMINKFSLGDHLWLKKLYSLRD-KWC 296 (587)
Q Consensus 218 ~vfP~~~h~~C~~Hi~~n~~~~l~~~~~~~~~~~~~~~~v~~~~t~~eFe~~w~~l~~~~~l~~~~wl~~l~~~r~-~W~ 296 (587)
.+||.+.++.|..|+.+|+..+.... ..+....+++. ++.+.+.++-...|..+.+.+......-++.+.+..+ .|.
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 99999999999999999999988763 22244455554 7778999999999998887655444332222222111 221
Q ss_pred -ccccccccccccccCCCCcchhhhhhhccCC--CCCHHhHHHHHHHHH
Q 007865 297 -LVFNSDTFSANIDSVQRSDSIDTVFHQVSTK--RMDVISFVQHFEEKT 342 (587)
Q Consensus 297 -~ay~~~~f~~g~~tt~r~Es~n~~lK~~~~~--~~~l~~f~~~~~~~~ 342 (587)
-+|-+.. ..-+.|||-+|++|+.++..... ..+-..++..+...+
T Consensus 302 F~~fp~~~-r~~i~ttN~IE~~n~~ir~~~~~~~~fpn~~sv~k~~y~~ 349 (379)
T COG3328 302 FFAFPSEI-RKIIYTTNAIESLNKLIRRRTKVVGIFPNEESVEKLVYLV 349 (379)
T ss_pred cccCcHHH-HhHhhcchHHHHHHHHHHHHHhhhccCCCHHHHHHHHHHH
Confidence 1111111 12367999999999988865443 444555555444333
No 5
>smart00575 ZnF_PMZ plant mutator transposase zinc finger.
Probab=98.90 E-value=6.3e-10 Score=70.91 Aligned_cols=26 Identities=50% Similarity=0.855 Sum_probs=24.8
Q ss_pred eeecccccccCcchhhHHHHhhhCCc
Q 007865 432 SCSCKLFERMGILCRHALKAFDFNNL 457 (587)
Q Consensus 432 ~CsC~~fe~~GipC~Hil~Vl~~~~v 457 (587)
+|+|++||..||||+|+|+|+...++
T Consensus 2 ~CsC~~~~~~gipC~H~i~v~~~~~~ 27 (28)
T smart00575 2 TCSCRKFQLSGIPCRHALAAAIHIGL 27 (28)
T ss_pred cccCCCcccCCccHHHHHHHHHHhCC
Confidence 79999999999999999999999876
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=98.29 E-value=5.7e-07 Score=62.84 Aligned_cols=30 Identities=33% Similarity=0.569 Sum_probs=26.4
Q ss_pred CCCceeeecccccccCcchhhHHHHhhhCC
Q 007865 427 STQDISCSCKLFERMGILCRHALKAFDFNN 456 (587)
Q Consensus 427 ~~~~~~CsC~~fe~~GipC~Hil~Vl~~~~ 456 (587)
.....+|+|..|+..|.||+|+++|+...+
T Consensus 11 ~~~~~~CsC~~~~~~~~~CkHi~av~~~~~ 40 (40)
T PF04434_consen 11 SIEQASCSCPYFQFRGGPCKHIVAVLLALN 40 (40)
T ss_pred cccccEeeCCCccccCCcchhHHHHHHhhC
Confidence 356889999999999999999999987653
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=97.02 E-value=0.00045 Score=69.00 Aligned_cols=95 Identities=18% Similarity=0.107 Sum_probs=66.0
Q ss_pred eeccccccccCCceeeEEEEEcC--CCCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHHHc
Q 007865 143 SFDATFRLNKYNLICAPFVGVNH--HWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIETVF 220 (587)
Q Consensus 143 ~~D~Ty~tn~y~~pl~~~~Gvn~--~~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a~~~Ai~~vf 220 (587)
.||=+.....+.- +..+-+|. +...++ +++.+-+.+++.-+|..+...-....+++|++|-..+...||++.|
T Consensus 2 giDE~~~~~g~~~--y~t~~~d~~~~~~~il---~i~~~r~~~~l~~~~~~~~~~~~~~~v~~V~~Dm~~~y~~~~~~~~ 76 (249)
T PF01610_consen 2 GIDEFAFRKGHRS--YVTVVVDLDTDTGRIL---DILPGRDKETLKDFFRSLYPEEERKNVKVVSMDMSPPYRSAIREYF 76 (249)
T ss_pred eEeeeeeecCCcc--eeEEEEECccCCceEE---EEcCCccHHHHHHHHHHhCccccccceEEEEcCCCccccccccccc
Confidence 4555444332321 33344554 444443 5788888887766665541111345789999999999999999999
Q ss_pred ccCccccccchHHHHHHHHhhh
Q 007865 221 MKTRHRLSTGHIVKDARRNLAN 242 (587)
Q Consensus 221 P~~~h~~C~~Hi~~n~~~~l~~ 242 (587)
|+|.+..-.|||++++.+.+..
T Consensus 77 P~A~iv~DrFHvvk~~~~al~~ 98 (249)
T PF01610_consen 77 PNAQIVADRFHVVKLANRALDK 98 (249)
T ss_pred cccccccccchhhhhhhhcchh
Confidence 9999999999999999986654
No 8
>PF13610 DDE_Tnp_IS240: DDE domain
Probab=93.19 E-value=0.028 Score=50.86 Aligned_cols=81 Identities=16% Similarity=0.153 Sum_probs=65.8
Q ss_pred CCeeeeccccccccCCceeeEEEEEcCCCCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHH
Q 007865 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIET 218 (587)
Q Consensus 139 ~dvi~~D~Ty~tn~y~~pl~~~~Gvn~~~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a~~~Ai~~ 218 (587)
|+.+.+|=||..-+ +-..+....||.+|+ ++++-+-..-+..+=..||+..++... ..|..|+||+.++...|+++
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 67889999997744 234567888999999 777778777777777777777666654 68999999999999999999
Q ss_pred HcccC
Q 007865 219 VFMKT 223 (587)
Q Consensus 219 vfP~~ 223 (587)
.+|..
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=90.50 E-value=1.4 Score=37.97 Aligned_cols=75 Identities=13% Similarity=0.136 Sum_probs=54.5
Q ss_pred CCeeeecccccc-ccCCceeeEEEEEcCCCCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHHHHH
Q 007865 139 GDVVSFDATFRL-NKYNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSK 214 (587)
Q Consensus 139 ~dvi~~D~Ty~t-n~y~~pl~~~~Gvn~~~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a~~~ 214 (587)
+..+.+|.+... ...+...+.++.+|..-..+ +++.+-..++.+.+.-+|.......++..|.+|+||+..+...
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 467888888544 34455788888888776654 4677777778888888888777777766699999999998863
No 10
>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function.
Probab=86.20 E-value=17 Score=39.87 Aligned_cols=140 Identities=13% Similarity=0.170 Sum_probs=80.6
Q ss_pred CccchHHHHHHHHHHHhCCCC--CcEEeccccHHHHHHHHHHcccCccccccchHHHHHHHHhhhccCcHHHHHHHHHHH
Q 007865 180 ESTHSYVWLFESFLESMGNTQ--PKTIFTNENEAMSKAIETVFMKTRHRLSTGHIVKDARRNLANQFANLEFMKYLNKCF 257 (587)
Q Consensus 180 Et~es~~w~l~~~~~~m~~~~--P~~iitD~~~a~~~Ai~~vfP~~~h~~C~~Hi~~n~~~~l~~~~~~~~~~~~~~~~v 257 (587)
...+-|.-+.+.+-+.-.-.. -..+..|+.+.+++++. .||++.|.|..||+.+.+.+.++.. ++....+.+++
T Consensus 236 ~~~~~~~~v~~~i~~~Y~~~~~~~iiingDGa~WIk~~~~-~~~~~~~~LD~FHl~k~i~~~~~~~---~~~~~~~~~al 311 (470)
T PF06782_consen 236 SAEEFWEEVLDYIYNHYDLDKTTKIIINGDGASWIKEGAE-FFPKAEYFLDRFHLNKKIKQALSHD---PELKEKIRKAL 311 (470)
T ss_pred chHHHHHHHHHHHHHhcCcccceEEEEeCCCcHHHHHHHH-hhcCceEEecHHHHHHHHHHHhhhC---hHHHHHHHHHH
Confidence 334445544444433332222 24567999999988776 9999999999999999999988763 24555555666
Q ss_pred hcCCCHHHHHHHHHHHHhhcCCCc-hHHHHHHHh-hhcccc--ccccccccccccccCCCCcchhhhhhhccCC
Q 007865 258 YECHDETEFQVSWDDMINKFSLGD-HLWLKKLYS-LRDKWC--LVFNSDTFSANIDSVQRSDSIDTVFHQVSTK 327 (587)
Q Consensus 258 ~~~~t~~eFe~~w~~l~~~~~l~~-~~wl~~l~~-~r~~W~--~ay~~~~f~~g~~tt~r~Es~n~~lK~~~~~ 327 (587)
. .....+++...+.+...-.... .+-+..+.. ....|- .+|... .|+....-.|+.++.+...+++
T Consensus 312 ~-~~d~~~l~~~L~~~~~~~~~~~~~~~i~~~~~Yl~~n~~~i~~y~~~---~~~~g~g~ee~~~~~~s~RmK~ 381 (470)
T PF06782_consen 312 K-KGDKKKLETVLDTAESCAKDEEERKKIRKLRKYLLNNWDGIKPYRER---EGLRGIGAEESVSHVLSYRMKS 381 (470)
T ss_pred H-hcCHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHCHHHhhhhhhc---cCCCccchhhhhhhHHHHHhcC
Confidence 5 4566777777766654332221 122222211 223332 233221 2333333467888877655544
No 11
>PF04937 DUF659: Protein of unknown function (DUF 659); InterPro: IPR007021 These are transposase-like proteins with no known function.
Probab=80.66 E-value=15 Score=33.76 Aligned_cols=108 Identities=11% Similarity=0.078 Sum_probs=74.9
Q ss_pred HHHHhcCCeeeeccccccccCCceeeEEEEEcCCCCeeEEeeeeccc--CccchHHHHHHHHHHHhCCCCCcEEeccccH
Q 007865 133 LDYDCFGDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLD--ESTHSYVWLFESFLESMGNTQPKTIFTNENE 210 (587)
Q Consensus 133 ~~~~~f~dvi~~D~Ty~tn~y~~pl~~~~Gvn~~~~~~~~g~al~~~--Et~es~~w~l~~~~~~m~~~~P~~iitD~~~ 210 (587)
..+...|=-|..|+= ++..+.+++.|+-....|-.++-.. -.++ .+.+.+.-+|+...+.++...-..||||...
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 344555655666664 5566677877776666655553332 2222 4556666667777777777777789999999
Q ss_pred HHHHHHH---HHcccCccccccchHHHHHHHHhhhc
Q 007865 211 AMSKAIE---TVFMKTRHRLSTGHIVKDARRNLANQ 243 (587)
Q Consensus 211 a~~~Ai~---~vfP~~~h~~C~~Hi~~n~~~~l~~~ 243 (587)
.+++|-+ +-+|.....-|.-|-+.-+.+.+..+
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 55788888899999998888888764
No 12
>COG3316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=59.66 E-value=18 Score=35.04 Aligned_cols=83 Identities=12% Similarity=0.164 Sum_probs=54.5
Q ss_pred CCeeeeccccccccCCceeeEEEEEcCCCCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHHHHHHHHH
Q 007865 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAMSKAIET 218 (587)
Q Consensus 139 ~dvi~~D~Ty~tn~y~~pl~~~~Gvn~~~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a~~~Ai~~ 218 (587)
++.+.+|=||.+-+-+. .+....||..|++ +.+-|...-+...=.-||..+++.. ..|.+|+||+.+....|+++
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 GDSWRVDETYIKVNGKW-HYLYRAIDADGLT--LDVWLSKRRNALAAKAFLKKLLKKH--GEPRVFVTDKAPSYTAALRK 144 (215)
T ss_pred ccceeeeeeEEeeccEe-eehhhhhccCCCe--EEEEEEcccCcHHHHHHHHHHHHhc--CCCceEEecCccchHHHHHh
Confidence 35566666776533222 1233445655554 3445555545555566677777665 68999999999999999999
Q ss_pred HcccCccc
Q 007865 219 VFMKTRHR 226 (587)
Q Consensus 219 vfP~~~h~ 226 (587)
+-+...|+
T Consensus 145 l~~~~ehr 152 (215)
T COG3316 145 LGSEVEHR 152 (215)
T ss_pred cCcchhee
Confidence 99977665
No 13
>COG5431 Uncharacterized metal-binding protein [Function unknown]
Probab=58.91 E-value=6.8 Score=32.88 Aligned_cols=31 Identities=23% Similarity=0.428 Sum_probs=22.0
Q ss_pred cceeeEEEEEeCCCCceeeeccccc-----ccCcchhhHHHH
Q 007865 415 GQQKVCKINYNLSTQDISCSCKLFE-----RMGILCRHALKA 451 (587)
Q Consensus 415 ~~~~~~~V~~~~~~~~~~CsC~~fe-----~~GipC~Hil~V 451 (587)
|.+++|.+..+ -|||..|- .-.-||.|++.+
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 45667877542 89999886 234579999765
No 14
>COG4279 Uncharacterized conserved protein [Function unknown]
Probab=44.60 E-value=9.9 Score=37.28 Aligned_cols=24 Identities=21% Similarity=0.555 Sum_probs=20.2
Q ss_pred ceeeecccccccCcchhhHHHHhhhCC
Q 007865 430 DISCSCKLFERMGILCRHALKAFDFNN 456 (587)
Q Consensus 430 ~~~CsC~~fe~~GipC~Hil~Vl~~~~ 456 (587)
...|||..+. .||.||-+|.-++.
T Consensus 124 ~~dCSCPD~a---nPCKHi~AvyY~la 147 (266)
T COG4279 124 STDCSCPDYA---NPCKHIAAVYYLLA 147 (266)
T ss_pred ccccCCCCcc---cchHHHHHHHHHHH
Confidence 4579999975 69999999988765
No 15
>PHA02517 putative transposase OrfB; Reviewed
Probab=31.74 E-value=1.2e+02 Score=30.25 Aligned_cols=71 Identities=10% Similarity=-0.038 Sum_probs=41.1
Q ss_pred CCeeeeccccccccCCceeeEEEEEcCCCCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHH
Q 007865 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEA 211 (587)
Q Consensus 139 ~dvi~~D~Ty~tn~y~~pl~~~~Gvn~~~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a 211 (587)
++++..|.||....-+ ..+.++-+|...+ .++|+.+-..++.+...-.|+......+...+..|.||+...
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 4788999999754433 3455666666555 456777766666664433333333333322234566888754
No 16
>PRK14702 insertion element IS2 transposase InsD; Provisional
Probab=28.22 E-value=2.3e+02 Score=28.34 Aligned_cols=72 Identities=8% Similarity=-0.064 Sum_probs=46.3
Q ss_pred CCeeeeccccccccCCceeeEEEEEcCCCCeeEEeeeeccc-CccchHHHHHHHHHHHh-C---CCCCcEEeccccHH
Q 007865 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLD-ESTHSYVWLFESFLESM-G---NTQPKTIFTNENEA 211 (587)
Q Consensus 139 ~dvi~~D~Ty~tn~y~~pl~~~~Gvn~~~~~~~~g~al~~~-Et~es~~w~l~~~~~~m-~---~~~P~~iitD~~~a 211 (587)
..+.+.|-||....-+..++..+-+|.+.. .++|+++-.. .+.+...-+|+..++.. + ...|..|.||+...
T Consensus 87 n~~W~~DiT~~~~~~g~~~Yl~~viD~~sR-~ivg~~is~~~~~~~~v~~~l~~A~~~~~~~~~~~~~~iihSD~Gsq 163 (262)
T PRK14702 87 NQRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQDVMLGAVERRFGNDLPSSPVEWLTDNGSC 163 (262)
T ss_pred CCEEEeeeEEEEecCCcEEEEEEEEecccc-eeeeEEeccCcCCHHHHHHHHHHHHHHHhcccCCCCCeEEEcCCCcc
Confidence 468889999876544446777777887776 5668888763 45555444555433332 2 23577888998753
No 17
>COG4715 Uncharacterized conserved protein [Function unknown]
Probab=27.55 E-value=2.3e+02 Score=31.52 Aligned_cols=34 Identities=12% Similarity=0.281 Sum_probs=24.5
Q ss_pred EEEEEeCCCCceeeecccccccCcchhhHHHHhhhC
Q 007865 420 CKINYNLSTQDISCSCKLFERMGILCRHALKAFDFN 455 (587)
Q Consensus 420 ~~V~~~~~~~~~~CsC~~fe~~GipC~Hil~Vl~~~ 455 (587)
+.|++.....+.+|+|.. .. +=-|.|+.+|+...
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 445555456788999998 33 34699999998764
No 18
>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=26.83 E-value=42 Score=33.67 Aligned_cols=41 Identities=17% Similarity=0.319 Sum_probs=31.3
Q ss_pred hCCCCCcEEeccccHHHHHHHHHHcccCccccccchHHHHHHHHhhh
Q 007865 196 MGNTQPKTIFTNENEAMSKAIETVFMKTRHRLSTGHIVKDARRNLAN 242 (587)
Q Consensus 196 m~~~~P~~iitD~~~a~~~Ai~~vfP~~~h~~C~~Hi~~n~~~~l~~ 242 (587)
+++ -+.+++||+-.+-.. +.++.|..|.-|+.+.+.+-...
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 446999999887654 33889999999999988776554
No 19
>PRK09409 IS2 transposase TnpB; Reviewed
Probab=24.86 E-value=3e+02 Score=28.14 Aligned_cols=72 Identities=10% Similarity=-0.027 Sum_probs=46.7
Q ss_pred CCeeeeccccccccCCceeeEEEEEcCCCCeeEEeeeeccc-CccchHHHHHHHHHHH-hCC---CCCcEEeccccHH
Q 007865 139 GDVVSFDATFRLNKYNLICAPFVGVNHHWKNMLFGCAFLLD-ESTHSYVWLFESFLES-MGN---TQPKTIFTNENEA 211 (587)
Q Consensus 139 ~dvi~~D~Ty~tn~y~~pl~~~~Gvn~~~~~~~~g~al~~~-Et~es~~w~l~~~~~~-m~~---~~P~~iitD~~~a 211 (587)
..+.+.|-||....-+.-++..+-+|.+.+ .++|+++-.. .+.+...-+|+..+.. .++ ..|..|-||+...
T Consensus 126 N~~W~tDiT~~~~~~g~~~Yl~~ViD~~sR-~ivg~~~s~~~~~~~~v~~~l~~a~~~~~~~~~~~~~~iihSDrGsq 202 (301)
T PRK09409 126 NQRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQDVMLGAVERRFGNDLPSSPVEWLTDNGSC 202 (301)
T ss_pred CCEEEeeeEEEEeCCCCEEEEEEEeecccc-eEEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCcEEecCCCcc
Confidence 478899999965443445677777787766 5678888765 5666555555543333 232 2467888998753
No 20
>KOG4027 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.11 E-value=78 Score=28.96 Aligned_cols=38 Identities=18% Similarity=0.274 Sum_probs=31.1
Q ss_pred eccccc-cccCCcee--eEEEEEcCCCCeeEEeeeecccCc
Q 007865 144 FDATFR-LNKYNLIC--APFVGVNHHWKNMLFGCAFLLDES 181 (587)
Q Consensus 144 ~D~Ty~-tn~y~~pl--~~~~Gvn~~~~~~~~g~al~~~Et 181 (587)
||.||+ |+-|+.|- +..-|-|+.|+-.+.|+|.+.--+
T Consensus 70 ievt~KstsPygWPqivl~vfg~d~~G~d~v~GYg~~hiP~ 110 (187)
T KOG4027|consen 70 IEVTLKSTSPYGWPQIVLNVFGKDHSGKDCVTGYGMLHIPT 110 (187)
T ss_pred eEEEeccCCCCCCceEEEEEecCCcCCcceeeeeeeEecCc
Confidence 788997 58999994 456788999999999999875443
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=22.69 E-value=60 Score=24.63 Aligned_cols=17 Identities=35% Similarity=0.337 Sum_probs=11.7
Q ss_pred ECCeEEEEEeeCCCCCC
Q 007865 6 SNGVWVISHINFEHNHE 22 (587)
Q Consensus 6 ~~~~w~v~~~~~~HNH~ 22 (587)
+++.-.++...++|||+
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 46678889999999997
No 22
>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=21.87 E-value=2.4e+02 Score=25.18 Aligned_cols=50 Identities=18% Similarity=0.093 Sum_probs=30.3
Q ss_pred eEEEEEcCC-CCeeEEeeeecccCccchHHHHHHHHHHHhCCCCCcEEeccccHHH
Q 007865 158 APFVGVNHH-WKNMLFGCAFLLDESTHSYVWLFESFLESMGNTQPKTIFTNENEAM 212 (587)
Q Consensus 158 ~~~~Gvn~~-~~~~~~g~al~~~Et~es~~w~l~~~~~~m~~~~P~~iitD~~~a~ 212 (587)
.++++++.. |.+--+-...+.+.+.++..=+++.... +-.+|+||...+-
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 445555554 4333344556678888887655543322 3467899998775
No 23
>PF11433 DUF3198: Protein of unknown function (DUF3198); InterPro: IPR024504 This domain is found at the C-terminal of a family of archaeal proteins annotated as membrane proteins.; PDB: 1X9B_A.
Probab=21.50 E-value=1.2e+02 Score=21.77 Aligned_cols=44 Identities=9% Similarity=0.148 Sum_probs=26.8
Q ss_pred HHHHHHhcCCCHHHHHHHHHHHHhhcCCCchHHHHHHHhhhcccc
Q 007865 252 YLNKCFYECHDETEFQVSWDDMINKFSLGDHLWLKKLYSLRDKWC 296 (587)
Q Consensus 252 ~~~~~v~~~~t~~eFe~~w~~l~~~~~l~~~~wl~~l~~~r~~W~ 296 (587)
.|...|. +++..+|-....++..--.--+..|...|-+.+++|-
T Consensus 6 ~Fe~~In-S~SK~~Fv~nL~ELE~is~rlg~~Y~~~LeeaK~kWk 49 (51)
T PF11433_consen 6 KFESYIN-SESKSVFVRNLTELERISKRLGKSYQIRLEEAKEKWK 49 (51)
T ss_dssp HHHHHHH-S--HHHHHHHHHHHHHHHHHH-SHHHHHHHHHHHHH-
T ss_pred HHHHHhC-CccHHHHHHhHHHHHHHHHHHchHHHHHHHHHHHhhc
Confidence 4666666 8899999988887754211123467777767778884
Done!