Query 046583
Match_columns 400
No_of_seqs 219 out of 1458
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 13:37:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046583.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046583hhsearch_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 1.3E-62 2.7E-67 507.3 26.3 335 1-346 249-624 (846)
2 PF00872 Transposase_mut: Tran 99.9 2.8E-25 6E-30 216.4 4.5 200 20-222 133-349 (381)
3 PF10551 MULE: MULE transposas 99.9 8.6E-24 1.9E-28 165.1 8.5 90 51-144 1-93 (93)
4 COG3328 Transposase and inacti 99.7 1.5E-16 3.3E-21 152.3 11.4 188 31-222 129-328 (379)
5 smart00575 ZnF_PMZ plant mutat 99.1 3.6E-11 7.8E-16 70.7 2.3 28 303-330 1-28 (28)
6 PF04434 SWIM: SWIM zinc finge 98.4 2.1E-07 4.5E-12 60.0 2.8 30 298-327 10-39 (40)
7 PF01610 DDE_Tnp_ISL3: Transpo 97.5 0.00016 3.5E-09 66.6 5.2 93 47-147 1-96 (249)
8 PF06782 UPF0236: Uncharacteri 97.0 0.007 1.5E-07 61.0 11.6 171 46-222 182-377 (470)
9 PF13610 DDE_Tnp_IS240: DDE do 96.5 0.0016 3.4E-08 54.5 2.1 81 44-130 1-81 (140)
10 PRK14702 insertion element IS2 91.7 4.9 0.00011 37.3 13.2 76 43-119 86-164 (262)
11 PRK09409 IS2 transposase TnpB; 91.5 6.1 0.00013 37.5 13.9 77 42-119 124-203 (301)
12 COG3316 Transposase and inacti 90.3 0.8 1.7E-05 40.7 6.1 84 43-133 69-152 (215)
13 PF00665 rve: Integrase core d 90.1 1.7 3.7E-05 34.4 7.7 76 43-121 5-81 (120)
14 PHA02517 putative transposase 88.8 4.2 9.1E-05 37.9 10.3 73 43-119 109-181 (277)
15 PF03050 DDE_Tnp_IS66: Transpo 85.6 0.91 2E-05 42.3 3.8 86 43-149 66-156 (271)
16 PF04937 DUF659: Protein of un 82.6 10 0.00022 32.1 8.5 110 34-148 24-137 (153)
17 PF12762 DDE_Tnp_IS1595: ISXO2 71.6 12 0.00027 31.1 6.1 69 45-120 4-87 (151)
18 PRK13907 rnhA ribonuclease H; 71.5 35 0.00075 27.5 8.6 78 46-127 3-81 (128)
19 COG5431 Uncharacterized metal- 64.0 3 6.5E-05 32.2 0.7 33 292-326 41-78 (117)
20 PRK00766 hypothetical protein; 60.8 98 0.0021 27.3 9.6 89 45-133 10-128 (194)
21 COG4715 Uncharacterized conser 58.3 18 0.00038 36.9 5.0 38 289-328 53-96 (587)
22 COG4279 Uncharacterized conser 58.1 6.4 0.00014 35.7 1.8 21 303-326 125-145 (266)
23 COG3915 Uncharacterized protei 36.7 47 0.001 27.3 3.4 38 35-73 96-135 (155)
24 PF13082 DUF3931: Protein of u 34.6 1.2E+02 0.0026 20.3 4.5 28 58-85 35-62 (66)
25 PF13358 DDE_3: DDE superfamil 31.4 53 0.0011 26.4 3.2 55 60-118 37-91 (146)
26 PRK07708 hypothetical protein; 29.4 2.6E+02 0.0057 25.1 7.5 100 28-128 53-161 (219)
27 PF08459 UvrC_HhH_N: UvrC Heli 28.4 1.4E+02 0.003 25.3 5.2 46 84-129 52-101 (155)
28 PRK00203 rnhA ribonuclease H; 25.7 2.1E+02 0.0046 23.7 6.0 68 45-117 4-72 (150)
29 KOG4027 Uncharacterized conser 25.3 1E+02 0.0022 26.1 3.7 36 49-84 70-108 (187)
30 PF01949 DUF99: Protein of unk 23.5 3.9E+02 0.0085 23.4 7.2 55 45-99 5-59 (187)
31 COG3464 Transposase and inacti 22.6 1.3E+02 0.0029 29.8 4.7 89 43-141 150-238 (402)
32 PHA02762 hypothetical protein; 22.0 2.6E+02 0.0057 18.9 4.8 27 58-87 24-50 (62)
33 COG0621 MiaB 2-methylthioadeni 20.9 8.6E+02 0.019 24.4 9.9 108 62-179 192-325 (437)
34 PF13877 RPAP3_C: Potential Mo 20.7 67 0.0015 24.3 1.7 32 163-194 5-36 (94)
No 1
>PLN03097 FHY3 Protein FAR-RED ELONGATED HYPOCOTYL 3; Provisional
Probab=100.00 E-value=1.3e-62 Score=507.32 Aligned_cols=335 Identities=14% Similarity=0.231 Sum_probs=296.6
Q ss_pred CCccCCCcEEEEEeccCCCCCccceeEEEEeehhhHHHHHhcCccEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEE
Q 046583 1 MEDINDRNIVIIETTTDHPLSPEVFNRMFVFLYDTAYAFKTRCRKLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFC 80 (400)
Q Consensus 1 ~~~~NPg~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a 80 (400)
|+..||+|+|++++|+ ++++.++||+++.++.+|. +|+|||.+|+||++|+|++||..++|+|+|+|.+++|||
T Consensus 249 ~q~~nP~Ffy~~qlDe-----~~~l~niFWaD~~sr~~Y~-~FGDvV~fDTTY~tN~y~~Pfa~FvGvNhH~qtvlfGca 322 (846)
T PLN03097 249 MQNMNSNFFYAVDLGE-----DQRLKNLFWVDAKSRHDYG-NFSDVVSFDTTYVRNKYKMPLALFVGVNQHYQFMLLGCA 322 (846)
T ss_pred HHhhCCCceEEEEEcc-----CCCeeeEEeccHHHHHHHH-hcCCEEEEeceeeccccCcEEEEEEEecCCCCeEEEEEE
Confidence 5789999999999998 8999999999999999999 799999999999999999999999999999999999999
Q ss_pred EeeccchhcHHHHHHHHhhcccccCCCCeEEEccCchhHHHHHHhhcCCcchhhcHhhhhhhhhccCC-----ChhHHHH
Q 046583 81 EVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDNGVDEAVEEFLPYAVYRQCCFSLYGRMVGKFP-----DVGVHSA 155 (400)
Q Consensus 81 ~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~~l~~Ai~~vfP~a~h~~C~~Hi~~n~~~~~~-----~~~~~~~ 155 (400)
|+.+|+.+||.|+|+.|+++| +++.|.+||||++.+|.+||++|||++.|++|+|||.+|+.+++. .+.+...
T Consensus 323 Ll~dEt~eSf~WLf~tfl~aM--~gk~P~tIiTDqd~am~~AI~~VfP~t~Hr~C~wHI~~~~~e~L~~~~~~~~~f~~~ 400 (846)
T PLN03097 323 LISDESAATYSWLMQTWLRAM--GGQAPKVIITDQDKAMKSVISEVFPNAHHCFFLWHILGKVSENLGQVIKQHENFMAK 400 (846)
T ss_pred EcccCchhhHHHHHHHHHHHh--CCCCCceEEecCCHHHHHHHHHHCCCceehhhHHHHHHHHHHHhhHHhhhhhHHHHH
Confidence 999999999999999999996 579999999999999999999999999999999999999998875 3578999
Q ss_pred HHHHhh-cccHHHHHHHHHHHH-hcchhhhhHhhcC--CccceeeeeCCCCcccccccCChHHHHHHHHhh--ccCChHH
Q 046583 156 FWGACR-STDRKNFIYHMSIIE-TVNIECHNWLKDT--DTKTWALFSMPQWVKSTEVTKSSSEQLRIWLSK--FLDLNVA 229 (400)
Q Consensus 156 ~~~~~~-a~~~~~f~~~~~~l~-~~~~~~~~~l~~~--~~~~W~~~~~~~~~~~~~~Ttn~~Es~N~~lk~--~r~~pi~ 229 (400)
|..+++ +.++++|+..|..|. +++.+.++||+.+ .+++|+++|++..+..|+.||+++||+|+.|++ .+..++.
T Consensus 401 f~~cv~~s~t~eEFE~~W~~mi~ky~L~~n~WL~~LY~~RekWapaY~k~~F~agm~sTqRSES~Ns~fk~yv~~~tsL~ 480 (846)
T PLN03097 401 FEKCIYRSWTEEEFGKRWWKILDRFELKEDEWMQSLYEDRKQWVPTYMRDAFLAGMSTVQRSESINAFFDKYVHKKTTVQ 480 (846)
T ss_pred HHHHHhCCCCHHHHHHHHHHHHHhhcccccHHHHHHHHhHhhhhHHHhcccccCCcccccccccHHHHHHHHhCcCCCHH
Confidence 999887 789999999998875 6789999999998 899999999999999999999999999999998 5778899
Q ss_pred HHHHHHHHHHHHHHHHHHhhh-----------------ccccCCccChhHHHHHhhhhcccCcceeEEeecCC----cce
Q 046583 230 QRYTTITRTIAEMFQRRYLAG-----------------WEWVYDKITPTARQQIIHNVFQSDGWNVDVPSNNA----VSF 288 (400)
Q Consensus 230 ~~~e~i~~~~~~~~~~r~~~~-----------------~~~~~~~~tp~~~~~l~~~~~~~~~~~~~v~~~~~----~~f 288 (400)
.|++.+...+..+..+..+.. .+. +..|||.++++| |+++..+..|.+...+. ..|
T Consensus 481 ~Fv~qye~~l~~~~ekE~~aD~~s~~~~P~l~t~~piEkQA-s~iYT~~iF~kF--Q~El~~~~~~~~~~~~~dg~~~~y 557 (846)
T PLN03097 481 EFVKQYETILQDRYEEEAKADSDTWNKQPALKSPSPLEKSV-SGVYTHAVFKKF--QVEVLGAVACHPKMESQDETSITF 557 (846)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhcccCCcccccccHHHHHH-HHHhHHHHHHHH--HHHHHHhhheEEeeeccCCceEEE
Confidence 999988777765554433221 111 388999999999 99999888887765432 357
Q ss_pred -EEe--cCeEEEEEcc----CCccccCccccCCCCchhHHHHHhhcCC--ChhhhhhhhhcHHHHhh
Q 046583 289 -VSR--HGFVFEVNRE----LMTCSCRLWQLSGIPCEHACRCIHSWAD--KLDKYVHRLWSVDEYRS 346 (400)
Q Consensus 289 -V~~--~~~~~~V~l~----~~~CsC~~~~~~GiPC~Halav~~~~~~--~~~~~v~~~yt~~~~~~ 346 (400)
|.+ ....|.|..+ ..+|+|++|+..||||+|||+|+...++ .|+.||.++||+++-..
T Consensus 558 ~V~~~~~~~~~~V~~d~~~~~v~CsC~kFE~~GILCrHaLkVL~~~~v~~IP~~YILkRWTKdAK~~ 624 (846)
T PLN03097 558 RVQDFEKNQDFTVTWNQTKLEVSCICRLFEYKGYLCRHALVVLQMCQLSAIPSQYILKRWTKDAKSR 624 (846)
T ss_pred EEEEecCCCcEEEEEecCCCeEEeeccCeecCccchhhHHHHHhhcCcccCchhhhhhhchhhhhhc
Confidence 765 3456777554 4699999999999999999999999887 59999999999998653
No 2
>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=99.91 E-value=2.8e-25 Score=216.43 Aligned_cols=200 Identities=19% Similarity=0.250 Sum_probs=174.3
Q ss_pred CCccceeEEEEeehhhHHHHHh----cC-ccEEEeeceeecCCcC-----eEEEEEEEecCCCCeeEeEEEEeeccchhc
Q 046583 20 LSPEVFNRMFVFLYDTAYAFKT----RC-RKLITIDGWEIDGPYK-----SVMLVAVCRDGNDAVLPIAFCEVQEENLDS 89 (400)
Q Consensus 20 ~~~~~~~~~f~~~~~~~~~~~~----~~-~~vi~iD~t~~~~~y~-----~~ll~a~g~d~~~~~~~la~a~~~~E~~es 89 (400)
.+.+.++++.=...+.+++|++ .. .|+|++||+|.+.+.+ ..+++|+|+|.+|+..+||+.+.+.|+.++
T Consensus 133 ~S~s~vSri~~~~~~~~~~w~~R~L~~~~y~~l~iD~~~~kvr~~~~~~~~~~~v~iGi~~dG~r~vLg~~~~~~Es~~~ 212 (381)
T PF00872_consen 133 VSKSTVSRITKQLDEEVEAWRNRPLESEPYPYLWIDGTYFKVREDGRVVKKAVYVAIGIDEDGRREVLGFWVGDRESAAS 212 (381)
T ss_pred cCchhhhhhhhhhhhhHHHHhhhccccccccceeeeeeecccccccccccchhhhhhhhhcccccceeeeecccCCccCE
Confidence 4567888888888899999985 34 5799999999987754 468999999999999999999999999999
Q ss_pred HHHHHHHHhhcccccCCCCeEEEccCchhHHHHHHhhcCCcchhhcHhhhhhhhhccCCCh---hHHHHHHHHhhcccHH
Q 046583 90 WAFFLTNLTYGLRFERGEGLCILADGDNGVDEAVEEFLPYAVYRQCCFSLYGRMVGKFPDV---GVHSAFWGACRSTDRK 166 (400)
Q Consensus 90 w~w~l~~l~~~l~~~~~~~~~iisD~~~~l~~Ai~~vfP~a~h~~C~~Hi~~n~~~~~~~~---~~~~~~~~~~~a~~~~ 166 (400)
|.-||+.|+++ |...+..||+|+++||.+||+++||++.+|+|++|+++|+.++++.+ .+...++.+..+.+.+
T Consensus 213 W~~~l~~L~~R---Gl~~~~lvv~Dg~~gl~~ai~~~fp~a~~QrC~vH~~RNv~~~v~~k~~~~v~~~Lk~I~~a~~~e 289 (381)
T PF00872_consen 213 WREFLQDLKER---GLKDILLVVSDGHKGLKEAIREVFPGAKWQRCVVHLMRNVLRKVPKKDRKEVKADLKAIYQAPDKE 289 (381)
T ss_pred eeecchhhhhc---cccccceeeccccccccccccccccchhhhhheechhhhhccccccccchhhhhhccccccccccc
Confidence 99999999986 45779999999999999999999999999999999999999998754 5777888888888887
Q ss_pred HHHHHHHHHH----hcchhhhhHhhcCCccceeeeeCCCCcccccccCChHHHHHHHHhh
Q 046583 167 NFIYHMSIIE----TVNIECHNWLKDTDTKTWALFSMPQWVKSTEVTKSSSEQLRIWLSK 222 (400)
Q Consensus 167 ~f~~~~~~l~----~~~~~~~~~l~~~~~~~W~~~~~~~~~~~~~~Ttn~~Es~N~~lk~ 222 (400)
++...++.+. ...|++.+++++...+.|+..-|+...+--+.|||.+||+|+.||.
T Consensus 290 ~a~~~l~~f~~~~~~kyp~~~~~l~~~~~~~~tf~~fP~~~~~~i~TTN~iEsln~~irr 349 (381)
T PF00872_consen 290 EAREALEEFAEKWEKKYPKAAKSLEENWDELLTFLDFPPEHRRSIRTTNAIESLNKEIRR 349 (381)
T ss_pred hhhhhhhhcccccccccchhhhhhhhccccccceeeecchhccccchhhhccccccchhh
Confidence 7777777764 3578899999998888888888877777778899999999999997
No 3
>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=99.90 E-value=8.6e-24 Score=165.13 Aligned_cols=90 Identities=29% Similarity=0.447 Sum_probs=85.0
Q ss_pred ceeecCCcCeEEEE---EEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccccCCCCeEEEccCchhHHHHHHhhc
Q 046583 51 GWEIDGPYKSVMLV---AVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDNGVDEAVEEFL 127 (400)
Q Consensus 51 ~t~~~~~y~~~ll~---a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~~l~~Ai~~vf 127 (400)
|||++|+| ++++. ++|+|++|+.+|+||+++++|+.++|.|||+.+++.++ .. |.+||||+++|+.+||+++|
T Consensus 1 ~T~~tn~~-~~l~~~~~~~~~d~~~~~~~v~~~l~~~e~~~~~~~~l~~~~~~~~--~~-p~~ii~D~~~~~~~Ai~~vf 76 (93)
T PF10551_consen 1 GTYKTNKY-GPLLYLMIAVGIDGNGRGFPVAFALVSSESEESYEWFLEKLKEAMP--QK-PKVIISDFDKALINAIKEVF 76 (93)
T ss_pred Cccccccc-cccceeceEEEEcCCCCEEEEEEEEEcCCChhhhHHHHHHhhhccc--cC-ceeeeccccHHHHHHHHHHC
Confidence 79999999 88885 99999999999999999999999999999999999864 35 99999999999999999999
Q ss_pred CCcchhhcHhhhhhhhh
Q 046583 128 PYAVYRQCCFSLYGRMV 144 (400)
Q Consensus 128 P~a~h~~C~~Hi~~n~~ 144 (400)
|++.|++|.||+.+|++
T Consensus 77 P~~~~~~C~~H~~~n~k 93 (93)
T PF10551_consen 77 PDARHQLCLFHILRNIK 93 (93)
T ss_pred CCceEehhHHHHHHhhC
Confidence 99999999999999974
No 4
>COG3328 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=99.68 E-value=1.5e-16 Score=152.26 Aligned_cols=188 Identities=15% Similarity=0.206 Sum_probs=151.3
Q ss_pred eehhhHHHHHh---cCccEEEeeceeecCC--cCeEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccccC
Q 046583 31 FLYDTAYAFKT---RCRKLITIDGWEIDGP--YKSVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFER 105 (400)
Q Consensus 31 ~~~~~~~~~~~---~~~~vi~iD~t~~~~~--y~~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~ 105 (400)
.+.+.+.+|.. +..+++++||+|++-+ -+.++++|+|++.+|+...+|+.+.+.|+ ..|.-||..|+.. +.
T Consensus 129 ~~~e~v~~~~~r~l~~~~~v~~D~~~~k~r~v~~~~~~ia~Gv~~eG~reilg~~~~~~e~-~~w~~~l~~l~~r---gl 204 (379)
T COG3328 129 RLDEKVKAWQNRPLGDYPYVYLDAKYVKVRSVRNKAVYIAIGVTEEGRREILGIWVGVRES-KFWLSFLLDLKNR---GL 204 (379)
T ss_pred HHHHHHHHHHhccccCceEEEEecceeehhhhhhheeeeeeccCcccchhhhceeeecccc-hhHHHHHHHHHhc---cc
Confidence 34555666654 4568999999999988 35689999999999999999999999999 9999999999876 34
Q ss_pred CCCeEEEccCchhHHHHHHhhcCCcchhhcHhhhhhhhhccCCChh---HHHHHHHHhhcccHHHHHHHHHH----HHhc
Q 046583 106 GEGLCILADGDNGVDEAVEEFLPYAVYRQCCFSLYGRMVGKFPDVG---VHSAFWGACRSTDRKNFIYHMSI----IETV 178 (400)
Q Consensus 106 ~~~~~iisD~~~~l~~Ai~~vfP~a~h~~C~~Hi~~n~~~~~~~~~---~~~~~~~~~~a~~~~~f~~~~~~----l~~~ 178 (400)
.....+++|+++|+.+||.++||.+.+|+|..|+.+|+..+.+.++ ....+..+..+.+.++....+.. +...
T Consensus 205 ~~v~l~v~Dg~~gl~~aI~~v~p~a~~Q~C~vH~~Rnll~~v~~k~~d~i~~~~~~I~~a~~~e~~~~~~~~~~~~w~~~ 284 (379)
T COG3328 205 SDVLLVVVDGLKGLPEAISAVFPQAAVQRCIVHLVRNLLDKVPRKDQDAVLSDLRSIYIAPDAEEALLALLAFSELWGKR 284 (379)
T ss_pred cceeEEecchhhhhHHHHHHhccHhhhhhhhhHHHhhhhhhhhhhhhHHHHhhhhhhhccCCcHHHHHHHHHHHHhhhhh
Confidence 6677888899999999999999999999999999999999877553 44455555556665555555544 4445
Q ss_pred chhhhhHhhcCCccceeeeeCCCCcccccccCChHHHHHHHHhh
Q 046583 179 NIECHNWLKDTDTKTWALFSMPQWVKSTEVTKSSSEQLRIWLSK 222 (400)
Q Consensus 179 ~~~~~~~l~~~~~~~W~~~~~~~~~~~~~~Ttn~~Es~N~~lk~ 222 (400)
.|....|+.+...+.|...-|+...+--+.|||.+|++|+.++.
T Consensus 285 yP~i~~~~~~~~~~~~~F~~fp~~~r~~i~ttN~IE~~n~~ir~ 328 (379)
T COG3328 285 YPAILKSWRNALEELLPFFAFPSEIRKIIYTTNAIESLNKLIRR 328 (379)
T ss_pred cchHHHHHHHHHHHhcccccCcHHHHhHhhcchHHHHHHHHHHH
Confidence 78888888888777777766755555567899999999998875
No 5
>smart00575 ZnF_PMZ plant mutator transposase zinc finger.
Probab=99.11 E-value=3.6e-11 Score=70.75 Aligned_cols=28 Identities=50% Similarity=0.832 Sum_probs=25.5
Q ss_pred CccccCccccCCCCchhHHHHHhhcCCC
Q 046583 303 MTCSCRLWQLSGIPCEHACRCIHSWADK 330 (400)
Q Consensus 303 ~~CsC~~~~~~GiPC~Halav~~~~~~~ 330 (400)
.+|||++||..||||+|+|+|+...+++
T Consensus 1 ~~CsC~~~~~~gipC~H~i~v~~~~~~~ 28 (28)
T smart00575 1 KTCSCRKFQLSGIPCRHALAAAIHIGLS 28 (28)
T ss_pred CcccCCCcccCCccHHHHHHHHHHhCCC
Confidence 4799999999999999999999988763
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=98.40 E-value=2.1e-07 Score=60.04 Aligned_cols=30 Identities=33% Similarity=0.727 Sum_probs=26.9
Q ss_pred EEccCCccccCccccCCCCchhHHHHHhhc
Q 046583 298 VNRELMTCSCRLWQLSGIPCEHACRCIHSW 327 (400)
Q Consensus 298 V~l~~~~CsC~~~~~~GiPC~Halav~~~~ 327 (400)
+++...+|||..|+..|.||+|++|++...
T Consensus 10 ~~~~~~~CsC~~~~~~~~~CkHi~av~~~~ 39 (40)
T PF04434_consen 10 VSIEQASCSCPYFQFRGGPCKHIVAVLLAL 39 (40)
T ss_pred ccccccEeeCCCccccCCcchhHHHHHHhh
Confidence 566788999999999999999999998764
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=97.46 E-value=0.00016 Score=66.64 Aligned_cols=93 Identities=17% Similarity=0.160 Sum_probs=70.9
Q ss_pred EEeeceeecCCcCeEEEEEEEecC--CCCeeEeEEEEeeccchhcHHHHHHHH-hhcccccCCCCeEEEccCchhHHHHH
Q 046583 47 ITIDGWEIDGPYKSVMLVAVCRDG--NDAVLPIAFCEVQEENLDSWAFFLTNL-TYGLRFERGEGLCILADGDNGVDEAV 123 (400)
Q Consensus 47 i~iD~t~~~~~y~~~ll~a~g~d~--~~~~~~la~a~~~~E~~esw~w~l~~l-~~~l~~~~~~~~~iisD~~~~l~~Ai 123 (400)
|+||=+......+. ++.+-+|. +++. .++++++-+.++..-||..+ -.. ......+|++|...+..+||
T Consensus 1 lgiDE~~~~~g~~~--y~t~~~d~~~~~~~---il~i~~~r~~~~l~~~~~~~~~~~---~~~~v~~V~~Dm~~~y~~~~ 72 (249)
T PF01610_consen 1 LGIDEFAFRKGHRS--YVTVVVDLDTDTGR---ILDILPGRDKETLKDFFRSLYPEE---ERKNVKVVSMDMSPPYRSAI 72 (249)
T ss_pred CeEeeeeeecCCcc--eeEEEEECccCCce---EEEEcCCccHHHHHHHHHHhCccc---cccceEEEEcCCCccccccc
Confidence 57887777554443 44455555 4433 24588999999998888877 332 23677899999999999999
Q ss_pred HhhcCCcchhhcHhhhhhhhhccC
Q 046583 124 EEFLPYAVYRQCCFSLYGRMVGKF 147 (400)
Q Consensus 124 ~~vfP~a~h~~C~~Hi~~n~~~~~ 147 (400)
++.||+|.+..-.||+++++.+.+
T Consensus 73 ~~~~P~A~iv~DrFHvvk~~~~al 96 (249)
T PF01610_consen 73 REYFPNAQIVADRFHVVKLANRAL 96 (249)
T ss_pred cccccccccccccchhhhhhhhcc
Confidence 999999999999999999987643
No 8
>PF06782 UPF0236: Uncharacterised protein family (UPF0236); InterPro: IPR009620 This is a group of proteins of unknown function.
Probab=97.00 E-value=0.007 Score=61.01 Aligned_cols=171 Identities=17% Similarity=0.149 Sum_probs=111.6
Q ss_pred EEEeeceeecCC--cC----eEE-EEEEE---ecC-CCCeeEeEE-EEe---eccchhcHHHHHHHHhhcccccCCCCeE
Q 046583 46 LITIDGWEIDGP--YK----SVM-LVAVC---RDG-NDAVLPIAF-CEV---QEENLDSWAFFLTNLTYGLRFERGEGLC 110 (400)
Q Consensus 46 vi~iD~t~~~~~--y~----~~l-l~a~g---~d~-~~~~~~la~-a~~---~~E~~esw~w~l~~l~~~l~~~~~~~~~ 110 (400)
+|-.||+|...+ -+ ..+ .+=-| ... .+....+.- .++ ...+.+-|.-+.+.+.+...+....-++
T Consensus 182 yIEaDg~~v~~qg~~~~~~e~k~~~vheG~~~~~~~~~R~~L~n~~~f~~~~~~~~~~~~~~v~~~i~~~Y~~~~~~~ii 261 (470)
T PF06782_consen 182 YIEADGVHVKLQGKKKKKKEVKLFVVHEGWEKEKPGGKRNKLKNKRHFVSGVGESAEEFWEEVLDYIYNHYDLDKTTKII 261 (470)
T ss_pred EEecCcceecccccccccceeeEEEEEeeeeeeeccCCcceeecchheecccccchHHHHHHHHHHHHHhcCcccceEEE
Confidence 456789998644 21 122 33345 122 223333322 233 3566788999999998877654454688
Q ss_pred EEccCchhHHHHHHhhcCCcchhhcHhhhhhhhhccCC-ChhHHHHHHHHhhcccHHHHHHHHHHHHhc--ch-------
Q 046583 111 ILADGDNGVDEAVEEFLPYAVYRQCCFSLYGRMVGKFP-DVGVHSAFWGACRSTDRKNFIYHMSIIETV--NI------- 180 (400)
Q Consensus 111 iisD~~~~l~~Ai~~vfP~a~h~~C~~Hi~~n~~~~~~-~~~~~~~~~~~~~a~~~~~f~~~~~~l~~~--~~------- 180 (400)
+.+|+...+.+++. .+|++.|++..+|+.+.+.+.++ .+.+.+.++++.+..+..+++..++.+.+. .+
T Consensus 262 ingDGa~WIk~~~~-~~~~~~~~LD~FHl~k~i~~~~~~~~~~~~~~~~al~~~d~~~l~~~L~~~~~~~~~~~~~~~i~ 340 (470)
T PF06782_consen 262 INGDGASWIKEGAE-FFPKAEYFLDRFHLNKKIKQALSHDPELKEKIRKALKKGDKKKLETVLDTAESCAKDEEERKKIR 340 (470)
T ss_pred EeCCCcHHHHHHHH-hhcCceEEecHHHHHHHHHHHhhhChHHHHHHHHHHHhcCHHHHHHHHHHHHHhhhchHHHHHHH
Confidence 99999999998877 89999999999999999998875 456777777887888888888888877643 11
Q ss_pred hhhhHhhcCCccceeeeeCCCCcccccccCChHHHHHHHHhh
Q 046583 181 ECHNWLKDTDTKTWALFSMPQWVKSTEVTKSSSEQLRIWLSK 222 (400)
Q Consensus 181 ~~~~~l~~~~~~~W~~~~~~~~~~~~~~Ttn~~Es~N~~lk~ 222 (400)
+...||..+.... ..|- . +-|.......|+.++++..
T Consensus 341 ~~~~Yl~~n~~~i--~~y~-~--~~~~~g~g~ee~~~~~~s~ 377 (470)
T PF06782_consen 341 KLRKYLLNNWDGI--KPYR-E--REGLRGIGAEESVSHVLSY 377 (470)
T ss_pred HHHHHHHHCHHHh--hhhh-h--ccCCCccchhhhhhhHHHH
Confidence 2455665542211 1111 1 1344555668888877654
No 9
>PF13610 DDE_Tnp_IS240: DDE domain
Probab=96.47 E-value=0.0016 Score=54.50 Aligned_cols=81 Identities=19% Similarity=0.101 Sum_probs=68.8
Q ss_pred ccEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccccCCCCeEEEccCchhHHHHH
Q 046583 44 RKLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDNGVDEAV 123 (400)
Q Consensus 44 ~~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~~l~~Ai 123 (400)
++.+.+|-||.+.+-+ ..+..-++|.+++ +|++-+...-+...=..||+.+.+.. ...|..|+||+.++...|+
T Consensus 1 ~~~w~~DEt~iki~G~-~~yl~~aiD~~~~--~l~~~ls~~Rd~~aA~~Fl~~~l~~~---~~~p~~ivtDk~~aY~~A~ 74 (140)
T PF13610_consen 1 GDSWHVDETYIKIKGK-WHYLWRAIDAEGN--ILDFYLSKRRDTAAAKRFLKRALKRH---RGEPRVIVTDKLPAYPAAI 74 (140)
T ss_pred CCEEEEeeEEEEECCE-EEEEEEeeccccc--chhhhhhhhcccccceeeccccceee---ccccceeecccCCccchhh
Confidence 4678999999986533 4555778999999 89999999999999999999887753 2679999999999999999
Q ss_pred HhhcCCc
Q 046583 124 EEFLPYA 130 (400)
Q Consensus 124 ~~vfP~a 130 (400)
+++.+.-
T Consensus 75 ~~l~~~~ 81 (140)
T PF13610_consen 75 KELNPEG 81 (140)
T ss_pred hhccccc
Confidence 9999874
No 10
>PRK14702 insertion element IS2 transposase InsD; Provisional
Probab=91.67 E-value=4.9 Score=37.28 Aligned_cols=76 Identities=12% Similarity=0.017 Sum_probs=51.7
Q ss_pred CccEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEEEeec-cchhcHHHHHHHHhhc-ccc-cCCCCeEEEccCchhH
Q 046583 43 CRKLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFCEVQE-ENLDSWAFFLTNLTYG-LRF-ERGEGLCILADGDNGV 119 (400)
Q Consensus 43 ~~~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~~~~-E~~esw~w~l~~l~~~-l~~-~~~~~~~iisD~~~~l 119 (400)
-..++..|-||.....++.++.++-+|.... .++||++... .+.+.-.-+|+...+. .+. ....|.+|.||+...-
T Consensus 86 pn~~W~~DiT~~~~~~g~~~Yl~~viD~~sR-~ivg~~is~~~~~~~~v~~~l~~A~~~~~~~~~~~~~~iihSD~Gsqy 164 (262)
T PRK14702 86 SNQRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQDVMLGAVERRFGNDLPSSPVEWLTDNGSCY 164 (262)
T ss_pred CCCEEEeeeEEEEecCCcEEEEEEEEecccc-eeeeEEeccCcCCHHHHHHHHHHHHHHHhcccCCCCCeEEEcCCCccc
Confidence 4578999999987654556888888887776 5789999874 5666655566543322 221 1245788999987653
No 11
>PRK09409 IS2 transposase TnpB; Reviewed
Probab=91.48 E-value=6.1 Score=37.49 Aligned_cols=77 Identities=12% Similarity=0.035 Sum_probs=53.0
Q ss_pred cCccEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEEEeec-cchhcHHHHHHH-Hhhcccc-cCCCCeEEEccCchh
Q 046583 42 RCRKLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFCEVQE-ENLDSWAFFLTN-LTYGLRF-ERGEGLCILADGDNG 118 (400)
Q Consensus 42 ~~~~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~~~~-E~~esw~w~l~~-l~~~l~~-~~~~~~~iisD~~~~ 118 (400)
....+++.|-||....-++.++.++-+|...+ .+|||++... .+.+.-.-+|+. +....+. ....|.+|.||+...
T Consensus 124 ~pN~~W~tDiT~~~~~~g~~~Yl~~ViD~~sR-~ivg~~~s~~~~~~~~v~~~l~~a~~~~~~~~~~~~~~iihSDrGsq 202 (301)
T PRK09409 124 ESNQRWCSDGFEFCCDNGERLRVTFALDCCDR-EALHWAVTTGGFNSETVQDVMLGAVERRFGNDLPSSPVEWLTDNGSC 202 (301)
T ss_pred CCCCEEEeeeEEEEeCCCCEEEEEEEeecccc-eEEEEEeccCCCCHHHHHHHHHHHHHHHhccCCCCCCcEEecCCCcc
Confidence 35679999999986654556788888888777 5889999876 566665566654 3333221 123578899998765
Q ss_pred H
Q 046583 119 V 119 (400)
Q Consensus 119 l 119 (400)
-
T Consensus 203 y 203 (301)
T PRK09409 203 Y 203 (301)
T ss_pred c
Confidence 3
No 12
>COG3316 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=90.29 E-value=0.8 Score=40.69 Aligned_cols=84 Identities=17% Similarity=0.046 Sum_probs=65.1
Q ss_pred CccEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccccCCCCeEEEccCchhHHHH
Q 046583 43 CRKLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDNGVDEA 122 (400)
Q Consensus 43 ~~~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~~l~~A 122 (400)
-++++.||-||.+.+-+.. ..-.++|.+ ..++.+-+...-+...=.-||..+++.. ..|.+|+||+.+....|
T Consensus 69 ~~~~w~vDEt~ikv~gkw~-ylyrAid~~--g~~Ld~~L~~rRn~~aAk~Fl~kllk~~----g~p~v~vtDka~s~~~A 141 (215)
T COG3316 69 AGDSWRVDETYIKVNGKWH-YLYRAIDAD--GLTLDVWLSKRRNALAAKAFLKKLLKKH----GEPRVFVTDKAPSYTAA 141 (215)
T ss_pred cccceeeeeeEEeeccEee-ehhhhhccC--CCeEEEEEEcccCcHHHHHHHHHHHHhc----CCCceEEecCccchHHH
Confidence 3467999999998765443 222345655 4578888888888888888999888763 57889999999999999
Q ss_pred HHhhcCCcchh
Q 046583 123 VEEFLPYAVYR 133 (400)
Q Consensus 123 i~~vfP~a~h~ 133 (400)
+.++-+.+.|+
T Consensus 142 ~~~l~~~~ehr 152 (215)
T COG3316 142 LRKLGSEVEHR 152 (215)
T ss_pred HHhcCcchhee
Confidence 99998865554
No 13
>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=90.09 E-value=1.7 Score=34.41 Aligned_cols=76 Identities=13% Similarity=-0.049 Sum_probs=55.3
Q ss_pred CccEEEeeceeec-CCcCeEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccccCCCCeEEEccCchhHHH
Q 046583 43 CRKLITIDGWEID-GPYKSVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDNGVDE 121 (400)
Q Consensus 43 ~~~vi~iD~t~~~-~~y~~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~~l~~ 121 (400)
....+.+|.+... ...++...+.+.+|..-.. .+++.+-..++.+....+|+......+ ...|.+|++|+..+...
T Consensus 5 p~~~~~~D~~~~~~~~~~~~~~~~~~iD~~S~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~p~~i~tD~g~~f~~ 81 (120)
T PF00665_consen 5 PGERWQIDFTPMPIPDKGGRVYLLVFIDDYSRF-IYAFPVSSKETAEAALRALKRAIEKRG--GRPPRVIRTDNGSEFTS 81 (120)
T ss_dssp TTTEEEEEEEEETGGCTT-CEEEEEEEETTTTE-EEEEEESSSSHHHHHHHHHHHHHHHHS---SE-SEEEEESCHHHHS
T ss_pred CCCEEEEeeEEEecCCCCccEEEEEEEECCCCc-EEEEEeecccccccccccccccccccc--cccceeccccccccccc
Confidence 5678999999776 3455688888889976655 667888888888888888886655432 22399999999998764
No 14
>PHA02517 putative transposase OrfB; Reviewed
Probab=88.82 E-value=4.2 Score=37.87 Aligned_cols=73 Identities=15% Similarity=-0.037 Sum_probs=48.6
Q ss_pred CccEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccccCCCCeEEEccCchhH
Q 046583 43 CRKLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDNGV 119 (400)
Q Consensus 43 ~~~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~~l 119 (400)
...++..|.||..... +..++++.+|...+. ++||.+...++.+...-.|+......+ ...+.+|.||+....
T Consensus 109 pn~~w~~D~t~~~~~~-g~~yl~~iiD~~sr~-i~~~~~~~~~~~~~~~~~l~~a~~~~~--~~~~~i~~sD~G~~y 181 (277)
T PHA02517 109 PNQLWVADFTYVSTWQ-GWVYVAFIIDVFARR-IVGWRVSSSMDTDFVLDALEQALWARG--RPGGLIHHSDKGSQY 181 (277)
T ss_pred CCCeEEeceeEEEeCC-CCEEEEEecccCCCe-eeecccCCCCChHHHHHHHHHHHHhcC--CCcCcEeeccccccc
Confidence 4568999999986543 456677777766554 778988888888865555555443322 223456778987653
No 15
>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=85.59 E-value=0.91 Score=42.27 Aligned_cols=86 Identities=15% Similarity=0.136 Sum_probs=59.7
Q ss_pred CccEEEeeceeec----CCc-CeEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccccCCCCeEEEccCch
Q 046583 43 CRKLITIDGWEID----GPY-KSVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDN 117 (400)
Q Consensus 43 ~~~vi~iD~t~~~----~~y-~~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~ 117 (400)
-.+|+.+|-|..+ ++. ++-+-++++-+ .+.|.+.++-+.+.-.-+|.. -.-+++||+..
T Consensus 66 ~~~~~~~DET~~~vl~~~~g~~~~~Wv~~~~~------~v~f~~~~sR~~~~~~~~L~~----------~~GilvsD~y~ 129 (271)
T PF03050_consen 66 SSPVVHADETGWRVLDKGKGKKGYLWVFVSPE------VVLFFYAPSRSSKVIKEFLGD----------FSGILVSDGYS 129 (271)
T ss_pred ccceeccCCceEEEeccccccceEEEeeeccc------eeeeeecccccccchhhhhcc----------cceeeeccccc
Confidence 5789999999988 544 34455555444 566666676666654444333 22489999998
Q ss_pred hHHHHHHhhcCCcchhhcHhhhhhhhhccCCC
Q 046583 118 GVDEAVEEFLPYAVYRQCCFSLYGRMVGKFPD 149 (400)
Q Consensus 118 ~l~~Ai~~vfP~a~h~~C~~Hi~~n~~~~~~~ 149 (400)
+=.. +.++.|+.|+.|+.|.+.+....
T Consensus 130 ~Y~~-----~~~~~hq~C~AH~~R~~~~~~~~ 156 (271)
T PF03050_consen 130 AYNK-----LAGITHQLCWAHLRRDFQDAAES 156 (271)
T ss_pred cccc-----ccccccccccccccccccccccc
Confidence 8654 23889999999999999876653
No 16
>PF04937 DUF659: Protein of unknown function (DUF 659); InterPro: IPR007021 These are transposase-like proteins with no known function.
Probab=82.65 E-value=10 Score=32.11 Aligned_cols=110 Identities=13% Similarity=0.160 Sum_probs=71.7
Q ss_pred hhHHHHHhcCccEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEEEee-ccchhcHHHHHHHHhhcccccCCCCeEEE
Q 046583 34 DTAYAFKTRCRKLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFCEVQ-EENLDSWAFFLTNLTYGLRFERGEGLCIL 112 (400)
Q Consensus 34 ~~~~~~~~~~~~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~~~-~E~~esw~w~l~~l~~~l~~~~~~~~~ii 112 (400)
..++.|. ..+=-|..||-- +..+..++.++-.-+.|-.|.=..-.-. ..+.+...-+|+...+.+ +....+-||
T Consensus 24 ~~k~~w~-~~Gcsi~~DgWt--d~~~~~lInf~v~~~~g~~Flksvd~s~~~~~a~~l~~ll~~vIeeV--G~~nVvqVV 98 (153)
T PF04937_consen 24 EHKKSWK-RTGCSIMSDGWT--DRKGRSLINFMVYCPEGTVFLKSVDASSIIKTAEYLFELLDEVIEEV--GEENVVQVV 98 (153)
T ss_pred HHHHHHH-hcCEEEEEecCc--CCCCCeEEEEEEEcccccEEEEEEecccccccHHHHHHHHHHHHHHh--hhhhhhHHh
Confidence 3455676 578889999974 4555566666555555655543332222 235555556666665554 456677799
Q ss_pred ccCchhHHHHHH---hhcCCcchhhcHhhhhhhhhccCC
Q 046583 113 ADGDNGVDEAVE---EFLPYAVYRQCCFSLYGRMVGKFP 148 (400)
Q Consensus 113 sD~~~~l~~Ai~---~vfP~a~h~~C~~Hi~~n~~~~~~ 148 (400)
||-...+.+|-+ +-+|+..+.-|..|-+.-+.+.+.
T Consensus 99 TDn~~~~~~a~~~L~~k~p~ifw~~CaaH~inLmledi~ 137 (153)
T PF04937_consen 99 TDNASNMKKAGKLLMEKYPHIFWTPCAAHCINLMLEDIG 137 (153)
T ss_pred ccCchhHHHHHHHHHhcCCCEEEechHHHHHHHHHHHHh
Confidence 999999888844 447999999999998776555443
No 17
>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=71.64 E-value=12 Score=31.13 Aligned_cols=69 Identities=16% Similarity=0.172 Sum_probs=43.0
Q ss_pred cEEEeeceeecCCc--------------CeEEEEEEEecCC-CCeeEeEEEEeeccchhcHHHHHHHHhhcccccCCCCe
Q 046583 45 KLITIDGWEIDGPY--------------KSVMLVAVCRDGN-DAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFERGEGL 109 (400)
Q Consensus 45 ~vi~iD~t~~~~~y--------------~~~ll~a~g~d~~-~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~~~~~ 109 (400)
.+|-+|.||..++- .....++++++-+ +..--+...++++.+.++-.-+++... .+..
T Consensus 4 G~VEiDEty~~~~~~~~~~~~~~~gr~~~~k~~V~~~ver~~~~~~~~~~~~v~~~~~~tl~~~i~~~i-------~~gs 76 (151)
T PF12762_consen 4 GIVEIDETYFGGRKNKKPRRKGKRGRGSKNKVPVFGAVERNDGGTGRVFMFVVPDRSAETLKPIIQEHI-------EPGS 76 (151)
T ss_pred CEEEeCcCEECCcccccccCCCCCCCcCCCCcEEEEEEeecccCCceEEEEeecccccchhHHHHHHhh-------hccc
Confidence 47889999986433 2234555566655 433344445557788888655554442 3457
Q ss_pred EEEccCchhHH
Q 046583 110 CILADGDNGVD 120 (400)
Q Consensus 110 ~iisD~~~~l~ 120 (400)
+|+||..++-.
T Consensus 77 ~i~TD~~~aY~ 87 (151)
T PF12762_consen 77 TIITDGWRAYN 87 (151)
T ss_pred eeeecchhhcC
Confidence 89999998853
No 18
>PRK13907 rnhA ribonuclease H; Provisional
Probab=71.47 E-value=35 Score=27.48 Aligned_cols=78 Identities=21% Similarity=0.176 Sum_probs=45.3
Q ss_pred EEEeeceeecCCcCeEEEEEEEecCCCCeeEeEE-EEeeccchhcHHHHHHHHhhcccccCCCCeEEEccCchhHHHHHH
Q 046583 46 LITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAF-CEVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDNGVDEAVE 124 (400)
Q Consensus 46 vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~-a~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~~l~~Ai~ 124 (400)
.|.+||.+..++-.+-.-+++ .|..+... +.+ .-..+-+..-+.-++..|+.+...+ ..++.|-||- +.+.+++.
T Consensus 3 ~iy~DGa~~~~~g~~G~G~vi-~~~~~~~~-~~~~~~~~tn~~AE~~All~aL~~a~~~g-~~~v~i~sDS-~~vi~~~~ 78 (128)
T PRK13907 3 EVYIDGASKGNPGPSGAGVFI-KGVQPAVQ-LSLPLGTMSNHEAEYHALLAALKYCTEHN-YNIVSFRTDS-QLVERAVE 78 (128)
T ss_pred EEEEeeCCCCCCCccEEEEEE-EECCeeEE-EEecccccCCcHHHHHHHHHHHHHHHhCC-CCEEEEEech-HHHHHHHh
Confidence 478999998775433333333 45555432 322 1223445555777777777665322 3567788885 66666666
Q ss_pred hhc
Q 046583 125 EFL 127 (400)
Q Consensus 125 ~vf 127 (400)
..+
T Consensus 79 ~~~ 81 (128)
T PRK13907 79 KEY 81 (128)
T ss_pred HHH
Confidence 654
No 19
>COG5431 Uncharacterized metal-binding protein [Function unknown]
Probab=63.98 E-value=3 Score=32.25 Aligned_cols=33 Identities=21% Similarity=0.368 Sum_probs=23.3
Q ss_pred cCeEEEEEccCCccccCccc----c-CCCCchhHHHHHhh
Q 046583 292 HGFVFEVNRELMTCSCRLWQ----L-SGIPCEHACRCIHS 326 (400)
Q Consensus 292 ~~~~~~V~l~~~~CsC~~~~----~-~GiPC~Halav~~~ 326 (400)
.++.|+++.. -|||..|- . -.-||.|++.+-..
T Consensus 41 ~~rdYIl~~g--fCSCp~~~~svvl~Gk~~C~Hi~glk~A 78 (117)
T COG5431 41 KERDYILEGG--FCSCPDFLGSVVLKGKSPCAHIIGLKVA 78 (117)
T ss_pred cccceEEEcC--cccCHHHHhHhhhcCcccchhhhheeee
Confidence 4457877776 89999876 2 23579999875444
No 20
>PRK00766 hypothetical protein; Provisional
Probab=60.85 E-value=98 Score=27.29 Aligned_cols=89 Identities=18% Similarity=0.183 Sum_probs=49.4
Q ss_pred cEEEee-ceeecCCcCeEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccc--------------------
Q 046583 45 KLITID-GWEIDGPYKSVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRF-------------------- 103 (400)
Q Consensus 45 ~vi~iD-~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~-------------------- 103 (400)
.|+.+| +.|..+.-+-..++-+-.-++.-+.-++|..+...-.|.=.-+.+.++.....
T Consensus 10 rvlGidds~f~~~~~~~~~lvGvv~r~~~~idGv~~~~itvdG~DaT~~i~~mv~~~~~r~~i~~V~L~Git~agFNvvD 89 (194)
T PRK00766 10 RVLGIDDGTFLFKSSEKVILVGVVMRGGDWVDGVLSRWITVDGLDATEAIIEMVNSSRHKGQLRVIMLDGITYGGFNVVD 89 (194)
T ss_pred eEEEEecCccccCCCCCEEEEEEEEECCeEEeeEEEEEEEECCccHHHHHHHHHHhcccccceEEEEECCEeeeeeEEec
Confidence 578888 55554433345555555566666666677666666655555555554431100
Q ss_pred ------cCCCCeEEEccCch---hHHHHHHhhcCCcchh
Q 046583 104 ------ERGEGLCILADGDN---GVDEAVEEFLPYAVYR 133 (400)
Q Consensus 104 ------~~~~~~~iisD~~~---~l~~Ai~~vfP~a~h~ 133 (400)
...-|+.+++...+ +|.+|+++.||+...+
T Consensus 90 ~~~l~~~tg~PVI~V~r~~p~~~~ie~AL~k~f~~~~~R 128 (194)
T PRK00766 90 IEELYRETGLPVIVVMRKKPDFEAIESALKKHFSDWEER 128 (194)
T ss_pred HHHHHHHHCCCEEEEEecCCCHHHHHHHHHHHCCCHHHH
Confidence 00245555533333 6778887778775543
No 21
>COG4715 Uncharacterized conserved protein [Function unknown]
Probab=58.31 E-value=18 Score=36.86 Aligned_cols=38 Identities=24% Similarity=0.467 Sum_probs=25.7
Q ss_pred EEecCeEEE--EEcc----CCccccCccccCCCCchhHHHHHhhcC
Q 046583 289 VSRHGFVFE--VNRE----LMTCSCRLWQLSGIPCEHACRCIHSWA 328 (400)
Q Consensus 289 V~~~~~~~~--V~l~----~~~CsC~~~~~~GiPC~Halav~~~~~ 328 (400)
|..|.+.|. |.+. +..|||.. ...| -|.|++||+....
T Consensus 53 ~V~Gs~~y~v~vtL~~~~~ss~CTCP~-~~~g-aCKH~VAvvl~~~ 96 (587)
T COG4715 53 VVEGSRRYRVRVTLEGGALSSICTCPY-GGSG-ACKHVVAVVLEYL 96 (587)
T ss_pred EEeccceeeEEEEeecCCcCceeeCCC-CCCc-chHHHHHHHHHHh
Confidence 555655544 4553 36899987 4444 3999999998843
No 22
>COG4279 Uncharacterized conserved protein [Function unknown]
Probab=58.11 E-value=6.4 Score=35.68 Aligned_cols=21 Identities=29% Similarity=0.665 Sum_probs=18.0
Q ss_pred CccccCccccCCCCchhHHHHHhh
Q 046583 303 MTCSCRLWQLSGIPCEHACRCIHS 326 (400)
Q Consensus 303 ~~CsC~~~~~~GiPC~Halav~~~ 326 (400)
..|||..+ -.||.|+-||...
T Consensus 125 ~dCSCPD~---anPCKHi~AvyY~ 145 (266)
T COG4279 125 TDCSCPDY---ANPCKHIAAVYYL 145 (266)
T ss_pred cccCCCCc---ccchHHHHHHHHH
Confidence 47999985 5799999999877
No 23
>COG3915 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.73 E-value=47 Score=27.25 Aligned_cols=38 Identities=5% Similarity=0.010 Sum_probs=30.5
Q ss_pred hHHHHHhcCccEE--EeeceeecCCcCeEEEEEEEecCCCC
Q 046583 35 TAYAFKTRCRKLI--TIDGWEIDGPYKSVMLVAVCRDGNDA 73 (400)
Q Consensus 35 ~~~~~~~~~~~vi--~iD~t~~~~~y~~~ll~a~g~d~~~~ 73 (400)
.+.++. .+.|++ ..||-|++.+.+||+.++.-.|.+..
T Consensus 96 p~sDi~-kynpIlA~~~nGn~M~IRerGPl~~IYplds~pe 135 (155)
T COG3915 96 PYSDIE-KYNPILAIQNNGNYMQIRERGPLWSIYPLDSSPE 135 (155)
T ss_pred cHHHhh-hcccEEEEEeCCcEEEEeccCceEEEeecCCChh
Confidence 355677 588875 56999999999999999988887654
No 24
>PF13082 DUF3931: Protein of unknown function (DUF3931)
Probab=34.64 E-value=1.2e+02 Score=20.29 Aligned_cols=28 Identities=14% Similarity=0.141 Sum_probs=20.2
Q ss_pred cCeEEEEEEEecCCCCeeEeEEEEeecc
Q 046583 58 YKSVMLVAVCRDGNDAVLPIAFCEVQEE 85 (400)
Q Consensus 58 y~~~ll~a~g~d~~~~~~~la~a~~~~E 85 (400)
|...-++.+|-.++|+..++...+..+|
T Consensus 35 yefssfvlcgetpdgrrlvlthmistde 62 (66)
T PF13082_consen 35 YEFSSFVLCGETPDGRRLVLTHMISTDE 62 (66)
T ss_pred EEEEEEEEEccCCCCcEEEEEEEecchh
Confidence 3445577888888888888877766555
No 25
>PF13358 DDE_3: DDE superfamily endonuclease
Probab=31.36 E-value=53 Score=26.37 Aligned_cols=55 Identities=16% Similarity=0.127 Sum_probs=39.1
Q ss_pred eEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccccCCCCeEEEccCchh
Q 046583 60 SVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDNG 118 (400)
Q Consensus 60 ~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~~ 118 (400)
+.+.+..+++.++...+ +...+.-+.+.|.-||+.+..... ...+.+||.|....
T Consensus 37 ~~~~~~~ai~~~~~~~~--~~~~~~~~~~~~~~~l~~~~~~~~--~~~~~~li~DNa~~ 91 (146)
T PF13358_consen 37 GRVSVWGAISYNGGIVL--FVVEGTMNSEDFIEFLEQLLRPYP--RKGRIVLIMDNASI 91 (146)
T ss_pred CEEEEEEEecccccccc--eeeeeeeccccccccccccccccc--cceEEEEecccccc
Confidence 36667777887776655 555677888888889998876532 12289999997764
No 26
>PRK07708 hypothetical protein; Validated
Probab=29.38 E-value=2.6e+02 Score=25.08 Aligned_cols=100 Identities=12% Similarity=-0.005 Sum_probs=53.3
Q ss_pred EEEeehhhHHHHHh----cCccEEEeeceeecCCcCeEEEEEEEecCCCCeeEeE----EEEeeccchhcHHHHHHHHhh
Q 046583 28 MFVFLYDTAYAFKT----RCRKLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIA----FCEVQEENLDSWAFFLTNLTY 99 (400)
Q Consensus 28 ~f~~~~~~~~~~~~----~~~~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la----~a~~~~E~~esw~w~l~~l~~ 99 (400)
+.|......+--.. --.-++++||.+..++-..-..+++-...++..+.+. +.-..+-+..-|.-++..|+.
T Consensus 53 ~~~~~k~~~~~~~~~~~ep~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~ 132 (219)
T PRK07708 53 TEWSLKELKKLSKEVEEEPHEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQE 132 (219)
T ss_pred CEeeHHHHhhhhhhhccCCCcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHH
Confidence 45666555554332 0124789999997655333333333222223332222 121246677778888888877
Q ss_pred cccccCC-CCeEEEccCchhHHHHHHhhcC
Q 046583 100 GLRFERG-EGLCILADGDNGVDEAVEEFLP 128 (400)
Q Consensus 100 ~l~~~~~-~~~~iisD~~~~l~~Ai~~vfP 128 (400)
+...+.. .++.|-+| .+.+.+.+...|+
T Consensus 133 A~e~g~~~~~V~I~~D-SqlVi~qi~g~wk 161 (219)
T PRK07708 133 LEELGVKHEPVTFRGD-SQVVLNQLAGEWP 161 (219)
T ss_pred HHHcCCCcceEEEEec-cHHHHHHhCCCce
Confidence 6543332 34667776 4556666666553
No 27
>PF08459 UvrC_HhH_N: UvrC Helix-hairpin-helix N-terminal; InterPro: IPR001162 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. The UvrC proteins contain 4 conserved regions: a central region which interacts with UvrB (Uvr domain), a Helix hairpin Helix (HhH) domain important for 5 prime incision of damage DNA and the homology regions 1 and 2 of unknown function. UvrC homology region 2 is specific for UvrC proteins, whereas UvrC homology region 1 is also shared by few other nucleases. Proteins that contain the UvrC homology region 1, IPR000305 from INTERPRO, are listed below: Prokaryotic UvrC proteins. Bacteriophage T4 END2 protein. Small subunit of ribonucleotide reductase enzyme. T4 TEV1 protein. Endonuclease specific to the thymidylate synthase (td) gene splice junction. Found in putative intron-homing endonucleases encoded by group I introns of fungi and phage. Mycobacterium hypothetical protein Y002. Exonuclease by similarity. Bacillus subtilis hypothetical protein YURQ. ; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3C65_A 2NRZ_A 2NRR_A 2NRX_A 2NRV_A 2NRT_A 2NRW_A.
Probab=28.36 E-value=1.4e+02 Score=25.30 Aligned_cols=46 Identities=26% Similarity=0.177 Sum_probs=29.9
Q ss_pred ccchhcHHHHHHHHhhccccc----CCCCeEEEccCchhHHHHHHhhcCC
Q 046583 84 EENLDSWAFFLTNLTYGLRFE----RGEGLCILADGDNGVDEAVEEFLPY 129 (400)
Q Consensus 84 ~E~~esw~w~l~~l~~~l~~~----~~~~~~iisD~~~~l~~Ai~~vfP~ 129 (400)
.+..+.|.-+-+.+.+++... ..-|-.|+.|+.+|-.+|+.+++-+
T Consensus 52 ~~~~dDy~~M~Evl~RR~~~~~~~~~~lPDLilIDGG~gQl~aa~~~l~~ 101 (155)
T PF08459_consen 52 VDGGDDYAAMREVLTRRFKRLKEEKEPLPDLILIDGGKGQLNAAKEVLKE 101 (155)
T ss_dssp -STT-HHHHHHHHHHHHHCCCHHHT----SEEEESSSHHHHHHHHHHHHC
T ss_pred CCCCcHHHHHHHHHHHHHhcccccCCCCCCEEEEcCCHHHHHHHHHHHHH
Confidence 344577777777776654321 1468889999999999999988643
No 28
>PRK00203 rnhA ribonuclease H; Reviewed
Probab=25.72 E-value=2.1e+02 Score=23.66 Aligned_cols=68 Identities=12% Similarity=-0.021 Sum_probs=31.9
Q ss_pred cEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEEE-eeccchhcHHHHHHHHhhcccccCCCCeEEEccCch
Q 046583 45 KLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFCE-VQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDN 117 (400)
Q Consensus 45 ~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~-~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~ 117 (400)
-+|++||.+..+...+-...++.. .++.. -+.... ....+..-..-+++.|+.. .....+.|.||-.-
T Consensus 4 v~iytDGs~~~n~~~~g~g~v~~~-~~~~~-~~~~~~~~~TN~~aEL~Ai~~AL~~~---~~~~~v~I~tDS~y 72 (150)
T PRK00203 4 VEIYTDGACLGNPGPGGWGAILRY-KGHEK-ELSGGEALTTNNRMELMAAIEALEAL---KEPCEVTLYTDSQY 72 (150)
T ss_pred EEEEEEecccCCCCceEEEEEEEE-CCeeE-EEecCCCCCcHHHHHHHHHHHHHHHc---CCCCeEEEEECHHH
Confidence 468999999876554444333432 22221 111111 1112222333444444432 12345778888553
No 29
>KOG4027 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.35 E-value=1e+02 Score=26.08 Aligned_cols=36 Identities=14% Similarity=0.075 Sum_probs=28.9
Q ss_pred eeceee-cCCcCeE--EEEEEEecCCCCeeEeEEEEeec
Q 046583 49 IDGWEI-DGPYKSV--MLVAVCRDGNDAVLPIAFCEVQE 84 (400)
Q Consensus 49 iD~t~~-~~~y~~~--ll~a~g~d~~~~~~~la~a~~~~ 84 (400)
||.||+ ++.|+.+ ++...|.|+-|+-...||+-+.-
T Consensus 70 ievt~KstsPygWPqivl~vfg~d~~G~d~v~GYg~~hi 108 (187)
T KOG4027|consen 70 IEVTLKSTSPYGWPQIVLNVFGKDHSGKDCVTGYGMLHI 108 (187)
T ss_pred eEEEeccCCCCCCceEEEEEecCCcCCcceeeeeeeEec
Confidence 568887 6789876 56678999999999999987754
No 30
>PF01949 DUF99: Protein of unknown function DUF99; InterPro: IPR002802 The function of the archaebacterial proteins in this family is unknown.; PDB: 2QH9_A.
Probab=23.50 E-value=3.9e+02 Score=23.37 Aligned_cols=55 Identities=16% Similarity=0.256 Sum_probs=32.1
Q ss_pred cEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhh
Q 046583 45 KLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTY 99 (400)
Q Consensus 45 ~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~ 99 (400)
.++.+|-.|....-+..+++-+-..+++.+.-++|+.+...-.|.=.-+.+.++.
T Consensus 5 RvlGidDs~f~~~~~~s~lvGvv~r~~~~idGv~~~~itvdG~DaT~~i~~m~~~ 59 (187)
T PF01949_consen 5 RVLGIDDSPFPRSDGKSVLVGVVMRGDRRIDGVAFGRITVDGMDATEAIIEMVKR 59 (187)
T ss_dssp EEEEEEEEE-SS----EEEEEEEEETT-EEEEEEEEEE-TT-S-HHHHHHHHHCC
T ss_pred EEEEEecCCCccCCCceEEEEEEEeCCeEEEEEEEEEEEECCchHHHHHHHHHHh
Confidence 4788887776554444666666677777777788888877777766666666543
No 31
>COG3464 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=22.64 E-value=1.3e+02 Score=29.76 Aligned_cols=89 Identities=16% Similarity=0.091 Sum_probs=62.2
Q ss_pred CccEEEeeceeecCCcCeEEEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhcccccCCCCeEEEccCchhHHHH
Q 046583 43 CRKLITIDGWEIDGPYKSVMLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYGLRFERGEGLCILADGDNGVDEA 122 (400)
Q Consensus 43 ~~~vi~iD~t~~~~~y~~~ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~l~~~~~~~~~iisD~~~~l~~A 122 (400)
..+.+.+|..-..-+ .+.-+.++.+|.+... -..++++-+.++-.-.|+.. |.. +...+..|...+..++
T Consensus 150 ~~~~~~~de~~~~~~-~~~~~~~i~~D~~~~~---~i~i~~~r~~~ti~~~l~~~----g~~--~v~~V~~D~~~~y~~~ 219 (402)
T COG3464 150 LPERIAIDEYKSVKR-KGGRYQTIAVDLDTRK---VIDILEGRSVRTLRRYLRRG----GSE--QVKSVSMDMFGPYASA 219 (402)
T ss_pred ccchhhhhhhHhhcc-CCceEEEEEEcCCCCc---eeeecCCccHHHHHHHHHhC----CCc--ceeEEEccccHHHHHH
Confidence 334455554433221 2344566677777533 24677888888877666666 221 6788999999999999
Q ss_pred HHhhcCCcchhhcHhhhhh
Q 046583 123 VEEFLPYAVYRQCCFSLYG 141 (400)
Q Consensus 123 i~~vfP~a~h~~C~~Hi~~ 141 (400)
+.+.+|++.+.+=-+|+.+
T Consensus 220 v~e~~pna~i~~d~fh~~~ 238 (402)
T COG3464 220 VQELFPNALIIADRFHVVQ 238 (402)
T ss_pred HHHhCCChheeeeeeeeee
Confidence 9999999999999999877
No 32
>PHA02762 hypothetical protein; Provisional
Probab=21.99 E-value=2.6e+02 Score=18.87 Aligned_cols=27 Identities=15% Similarity=0.382 Sum_probs=19.3
Q ss_pred cCeEEEEEEEecCCCCeeEeEEEEeeccch
Q 046583 58 YKSVMLVAVCRDGNDAVLPIAFCEVQEENL 87 (400)
Q Consensus 58 y~~~ll~a~g~d~~~~~~~la~a~~~~E~~ 87 (400)
..|--++.+|+|.||.+ ||--++.++.
T Consensus 24 ~eg~afvtigide~g~i---ayisiep~dk 50 (62)
T PHA02762 24 FEGEAFVTIGIDENDKI---SYISIEPLDK 50 (62)
T ss_pred ccccEEEEEeECCCCcE---EEEEecccch
Confidence 45777889999999986 4544555544
No 33
>COG0621 MiaB 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]
Probab=20.85 E-value=8.6e+02 Score=24.44 Aligned_cols=108 Identities=16% Similarity=0.099 Sum_probs=60.4
Q ss_pred EEEEEEecCCCCeeEeEEEEeeccchhcHHHHHHHHhhc-----ccccCCCCeEEEccCchhHHHHHHh---hcC--Ccc
Q 046583 62 MLVAVCRDGNDAVLPIAFCEVQEENLDSWAFFLTNLTYG-----LRFERGEGLCILADGDNGVDEAVEE---FLP--YAV 131 (400)
Q Consensus 62 ll~a~g~d~~~~~~~la~a~~~~E~~esw~w~l~~l~~~-----l~~~~~~~~~iisD~~~~l~~Ai~~---vfP--~a~ 131 (400)
=++.+|+|-+.-..-++. . ..+..-+|+.+.+. +.++...| .+-...+..|+++ ++| +..
T Consensus 192 EI~L~gqdv~aYG~D~~~-----~-~~~l~~Ll~~l~~I~G~~riR~~~~~P----~~~~d~lI~~~~~~~kv~~~lHlP 261 (437)
T COG0621 192 EIVLTGQDVNAYGKDLGG-----G-KPNLADLLRELSKIPGIERIRFGSSHP----LEFTDDLIEAIAETPKVCPHLHLP 261 (437)
T ss_pred EEEEEEEehhhccccCCC-----C-ccCHHHHHHHHhcCCCceEEEEecCCc----hhcCHHHHHHHhcCCcccccccCc
Confidence 356677774433322221 1 67788888888763 11222344 3444577888766 455 333
Q ss_pred hhhcHhhhhhhhhccCCChhHHHHHHHHhhc----------------ccHHHHHHHHHHHHhcc
Q 046583 132 YRQCCFSLYGRMVGKFPDVGVHSAFWGACRS----------------TDRKNFIYHMSIIETVN 179 (400)
Q Consensus 132 h~~C~~Hi~~n~~~~~~~~~~~~~~~~~~~a----------------~~~~~f~~~~~~l~~~~ 179 (400)
.|-..--+++.+++.+....+++.+.++..+ .|+++|+..++-+++..
T Consensus 262 vQsGsd~ILk~M~R~yt~e~~~~~i~k~R~~~Pd~~i~tDiIVGFPgETeedFe~tl~lv~e~~ 325 (437)
T COG0621 262 VQSGSDRILKRMKRGYTVEEYLEIIEKLRAARPDIAISTDIIVGFPGETEEDFEETLDLVEEVR 325 (437)
T ss_pred cccCCHHHHHHhCCCcCHHHHHHHHHHHHHhCCCceEeccEEEECCCCCHHHHHHHHHHHHHhC
Confidence 4444445666666666655555555544321 46777877777666554
No 34
>PF13877 RPAP3_C: Potential Monad-binding region of RPAP3
Probab=20.70 E-value=67 Score=24.32 Aligned_cols=32 Identities=13% Similarity=0.104 Sum_probs=25.5
Q ss_pred ccHHHHHHHHHHHHhcchhhhhHhhcCCccce
Q 046583 163 TDRKNFIYHMSIIETVNIECHNWLKDTDTKTW 194 (400)
Q Consensus 163 ~~~~~f~~~~~~l~~~~~~~~~~l~~~~~~~W 194 (400)
.+..+|+..|..+.......++||..++++..
T Consensus 5 ~~~~eF~~~w~~~~~~~~~~~~yL~~i~p~~l 36 (94)
T PF13877_consen 5 KNSYEFERDWRRLKKDPEERYEYLKSIPPDSL 36 (94)
T ss_pred CCHHHHHHHHHHHcCCHHHHHHHHHhCChHHH
Confidence 36679999999997666688999998866554
Done!