Query 006742
Match_columns 633
No_of_seqs 201 out of 341
Neff 5.7
Searched_HMMs 46136
Date Thu Mar 28 13:50:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006742.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006742hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2031 Tyrosyl-DNA phosphodie 100.0 4E-108 8E-113 871.3 27.8 504 62-623 2-518 (519)
2 PF06087 Tyr-DNA_phospho: Tyro 100.0 2.4E-96 5E-101 807.0 12.1 401 161-599 1-443 (443)
3 cd00060 FHA Forkhead associate 97.6 0.00013 2.8E-09 63.3 6.1 94 7-108 2-101 (102)
4 TIGR01663 PNK-3'Pase polynucle 97.1 0.00058 1.3E-08 77.7 5.5 94 3-106 11-106 (526)
5 PF00498 FHA: FHA domain; Int 97.1 0.00077 1.7E-08 55.1 4.4 62 33-98 2-67 (68)
6 PF13091 PLDc_2: PLD-like doma 94.6 0.029 6.3E-07 50.6 3.1 38 479-531 73-110 (126)
7 TIGR03354 VI_FHA type VI secre 91.2 0.42 9.1E-06 53.0 6.5 88 10-100 4-96 (396)
8 PLN02927 antheraxanthin epoxid 91.0 0.59 1.3E-05 55.2 7.8 97 8-107 535-644 (668)
9 smart00240 FHA Forkhead associ 88.7 0.56 1.2E-05 35.8 3.6 38 37-74 10-48 (52)
10 PRK13912 nuclease NucT; Provis 87.0 0.72 1.6E-05 45.3 4.1 38 478-530 117-154 (177)
11 smart00155 PLDc Phospholipase 85.2 0.71 1.5E-05 31.7 2.1 25 479-507 3-27 (28)
12 COG1716 FOG: FHA domain [Signa 85.1 1.2 2.5E-05 43.4 4.5 67 31-103 90-159 (191)
13 PF00614 PLDc: Phospholipase D 84.1 0.92 2E-05 31.6 2.3 25 249-276 2-26 (28)
14 smart00155 PLDc Phospholipase 80.1 2.2 4.8E-05 29.2 3.0 25 249-276 2-26 (28)
15 COG1502 Cls Phosphatidylserine 79.7 1.4 3E-05 48.6 3.0 40 479-533 353-392 (438)
16 PF09565 RE_NgoFVII: NgoFVII r 77.2 2.4 5.3E-05 45.3 3.8 42 482-532 82-123 (296)
17 PRK01642 cls cardiolipin synth 77.2 2.1 4.6E-05 48.6 3.6 38 479-531 398-435 (483)
18 cd00138 PLDc Phospholipase D. 74.4 3.3 7.1E-05 39.5 3.6 38 479-531 112-149 (176)
19 PRK11263 cardiolipin synthase 74.1 2.9 6.2E-05 46.7 3.5 39 479-532 286-324 (411)
20 cd00138 PLDc Phospholipase D. 69.2 5.7 0.00012 37.8 3.9 38 249-289 111-149 (176)
21 PF13091 PLDc_2: PLD-like doma 65.2 9.4 0.0002 34.1 4.3 37 250-289 73-110 (126)
22 PRK12452 cardiolipin synthetas 63.2 6.4 0.00014 45.2 3.5 39 479-532 424-462 (509)
23 PRK09428 pssA phosphatidylseri 61.6 9.2 0.0002 43.3 4.3 42 476-532 351-392 (451)
24 PRK13912 nuclease NucT; Provis 54.7 10 0.00022 37.1 2.8 81 194-280 52-145 (177)
25 PHA02820 phospholipase-D-like 35.0 35 0.00076 38.3 3.5 29 249-283 111-139 (424)
26 PF09565 RE_NgoFVII: NgoFVII r 34.8 34 0.00074 36.7 3.2 27 251-277 80-107 (296)
27 PHA02820 phospholipase-D-like 30.4 43 0.00093 37.7 3.2 37 479-530 112-148 (424)
28 TIGR02500 type_III_yscD type I 28.6 74 0.0016 35.5 4.6 37 24-60 14-54 (410)
29 COG3886 Predicted HKD family n 24.6 62 0.0013 32.7 2.8 32 478-510 117-148 (198)
30 PF10382 DUF2439: Protein of u 20.7 1.9E+02 0.0041 25.1 4.7 60 44-108 10-72 (83)
No 1
>KOG2031 consensus Tyrosyl-DNA phosphodiesterase [Replication, recombination and repair]
Probab=100.00 E-value=3.6e-108 Score=871.31 Aligned_cols=504 Identities=38% Similarity=0.619 Sum_probs=404.0
Q ss_pred EEEeecCCcEEEee--CCcccccCcccccccccCCccccCCCCccceeeeeccccccccCCCCCcccchhhhhhhccccc
Q 006742 62 SLVVDGTNPVVVKS--GDQRKKLSSNEHVSIADGDIIELIPGHHFFKYVTLSRSQKRVSNDGATNGELSSKKMRQQDEQD 139 (633)
Q Consensus 62 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 139 (633)
++++.++++..++| ..++.+.-...+....+++.++.+++++..+.+.+ +++. .+.+
T Consensus 2 s~ss~~~~~~p~~s~~~~~~s~~~~~~~isa~~~~~~~~~~n~~~~~~~~l-------~g~~--------------~~~~ 60 (519)
T KOG2031|consen 2 SLSSNFNGLKPERSDVAEEKSQRKKSSRISAENDNAAPVTENHHKDDCVIL-------KGSR--------------DIKL 60 (519)
T ss_pred ccccCCCCcccccccccchhcccccCccccccCcccccccccccchhhhhc-------CCCc--------------cccc
Confidence 35667788888888 45566667788888899999999999999975543 1111 1122
Q ss_pred CCCCCCcccccccccCCCCCCCCceEEEEecCCCCCCCCCeeEecC---CchhhhhhhhcccCHHhhhccCCCCCCCCeE
Q 006742 140 NENGKNSEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRD---GDIIVAILSNYMVDIDWLLPACPVLAKIPHV 216 (633)
Q Consensus 140 ~~~~~~~~~~~~~~~~~~~~~~~~F~Lt~i~g~~~~~N~~~Itl~D---gdl~~ailfnF~~Dl~WLl~~~p~~~~~~~v 216 (633)
+...+...|+....+.+......+++..-+.+++.+.+..+..|-+ |++..++|||||+|++||+.+||..-..+.|
T Consensus 61 t~~e~~~~~~~~~~~~p~~~~ft~v~~~s~~~~~s~~s~sl~~il~~i~g~~v~silfsfmvdid~Lv~~y~~~~~~~~i 140 (519)
T KOG2031|consen 61 TNQEKDDSERILTNDNPKGAVFTTVKGDSVPRYDSMGSVSLMEILADIFGTPVNSILFSFMVDIDWLVGQYPPSVRIKPI 140 (519)
T ss_pred CccccccHHHHhccCCcccccccccccccccccCcccchHHHHHHHHhhCCchhheEEEEEeEHHHHHhhCcchhccCce
Confidence 2333334445455554444433444444444444434433333333 9999999999999999999999865555668
Q ss_pred EEEeCCCCchhhhhhhcCCCceEEecCCCCCCCCCccceeEEEEeCCccEEEEeCCCCCccccccccceEEeecccCCCC
Q 006742 217 LVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQ 296 (633)
Q Consensus 217 ~Vv~ge~~~~~~~~~~~~~~n~~l~~p~mp~~fGtHHSKmmLL~y~dglRVVI~TANLi~~DW~~~tQ~vW~qDfP~~~~ 296 (633)
+++||+.++.........+.+++++.+.||++|||||+|||+|+|++|+|||||||||++.||+++||++|+++++++..
T Consensus 141 ~l~~G~~d~~~~~~~~K~~~l~~~~~~~LpipF~thHtKm~~l~y~~G~rvvv~taNl~~~Dw~~ktQ~~w~sp~~~~~~ 220 (519)
T KOG2031|consen 141 TLVHGEPDEARLLAQTKAPILVTVKLASLPIPFGTHHTKMIILFYEEGCRVVVHTANLIHDDWNNKTQGFWCSPLLKIGD 220 (519)
T ss_pred EEEecCCchHHHHhhhhccceeeeecccccccccccccceEEEeccCccEEEEecCCcceecccccccceeecCCccccc
Confidence 89999987443333344567999999999999999999999999999999999999999999999999999999888766
Q ss_pred CCCCCCCCcHHHHHHHHHhCCCCccccCCCCCCCccccccccccccccccceEEEEccCCCCCCCccccccHHHHHHHHh
Q 006742 297 NNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQ 376 (633)
Q Consensus 297 ~s~~~~t~Fk~DL~~YL~ay~~~~~~~~~p~l~~~~i~~~~L~~yDFS~a~v~LVaSVPG~h~g~~~~~~G~~~L~~~L~ 376 (633)
.....++.|+.||++||++|++|.+. .|++.|++||||.++|+||+||||++.|.....|||+||+++|+
T Consensus 221 ~~g~~~~~Fk~DLi~YL~~Y~~~~l~----------~~i~~lkk~DfS~i~v~fIgStPG~f~gs~~~~WGh~kL~kiL~ 290 (519)
T KOG2031|consen 221 KKGVSPTGFKQDLIEYLNSYRLPQLK----------EWIASLKKVDFSAINVRFIGSTPGKFQGSGLLSWGHNKLKKILK 290 (519)
T ss_pred CCCCCCCchHHHHHHHHHHhccchhH----------HHHHHHHhcchhhceEEEEeecCCcccCcccccccHHHHHHHHH
Confidence 67789999999999999999987543 34689999999999999999999998887776799999999999
Q ss_pred hccccCCCcccCeEEEecCCCcCChHHHHHHHhcccCCCCCCCCCCCC--CCceEEccCchhhhcCcccccCCCcccCCC
Q 006742 377 ECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGI--GEPLIVWPTVEDVRCSLEGYAAGNAIPSPQ 454 (633)
Q Consensus 377 ~~~~~~~~~~~~i~~Q~SSIGsl~~~wL~~f~~sl~~g~~~~~~~~~~--~~~~IIfPT~e~Vr~S~~G~~~GGsi~~~~ 454 (633)
++......++++++||+||+|+|+..|...|...+.....++..+.|. ++++|||||+||||+|++||++||||||..
T Consensus 291 ~~~~~~~~~r~~~v~q~sS~gsl~~~~~~~~~~~f~~~l~kdt~~~gk~~~~~yiIfPTveeVrtS~~G~~~Ggsipy~~ 370 (519)
T KOG2031|consen 291 EHAASPYLERTPVVGQSSSIGSLGSLWSAWFIGDFVESLAKDTTPPGKLRPPFYIIFPTVEEVRTSLLGYAGGGSLPYGK 370 (519)
T ss_pred hhccCcccccCceeeeeeccccccchhhhhhhhhhccchhhccCCCCCCCCCeeEEcccHHHhhccccccccCceecccc
Confidence 987656668899999999999999887776666665555555554432 468999999999999999999999999987
Q ss_pred ccch-hHhHHHHHhhhcCCCCCCCCCCCcceeEEeec--CCceeEEEEeccccchhhhhccccCCc---eeeeeeeeeee
Q 006742 455 KNVD-KDFLKKYWAKWKASHTGRSRAMPHIKTFARYN--GQKLAWFLLTSANLSKAAWGALQKNNS---QLMIRSYELGV 528 (633)
Q Consensus 455 ~~~~-~~~l~~~~~kw~~~~s~R~~a~PHiKty~R~~--~~~i~W~lltSaNLSkaAWG~l~k~~~---ql~IrNyElGV 528 (633)
++.+ +.|+++|||||.+.+++|+|||||||||||++ ++.+.|||||||||||||||+++++++ ||||||||+||
T Consensus 371 ~~~~kq~~lk~y~~kW~A~~s~R~ramPHiKtYmr~~~d~q~l~W~LlTSANLSKaAWG~l~kn~sk~~~LmIRsYEaGV 450 (519)
T KOG2031|consen 371 NTNEKQPWLKKYLCKWKAMDSRRSRAMPHIKTYMRFNLDDQKLAWFLLTSANLSKAAWGTLSKNKSKQPQLMIRSYEAGV 450 (519)
T ss_pred hhhhhhHHHHHHHHhhhhhhhhccccCCcceeeeeecCCCCEEEEEEEeccccchhhhhhhccCCCCCchheeeecccce
Confidence 7666 47999999999999999999999999999998 789999999999999999999999875 89999999999
Q ss_pred EEcCCcccCCCccccccCCCCcccccCCccchhhccceeeeeecCCCCCCCCCCcceeeccccCCCCCCCCCCCCCceec
Q 006742 529 LILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWD 608 (633)
Q Consensus 529 L~~P~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~vPy~LP~~~Y~~~D~PW~~~ 608 (633)
||+|.++.+..+++ ++..+|..+.. ....+.|||||||||+||++.|+||+++
T Consensus 451 Lf~p~~~~~~kt~k------------------------~~~~tf~~~~~---~~~v~~vpvpydlPp~pY~~~d~~~~~~ 503 (519)
T KOG2031|consen 451 LFLPRFFANLKTFK------------------------VVEDTFPRDNN---GDGVIAVPVPYDLPPVPYSPKDEPFFTD 503 (519)
T ss_pred Eecchhhhcccccc------------------------ccceecccccC---CCCcceeccccCCCCcCCCccCCceeec
Confidence 99999765422221 12223333322 2235789999999999999999999999
Q ss_pred CCCCCcccCCCCccc
Q 006742 609 KRYTKKDVYGQVWPR 623 (633)
Q Consensus 609 ~~y~~pD~~G~~w~~ 623 (633)
+.+.++||+|++|++
T Consensus 504 ~~~~~~d~lG~vW~p 518 (519)
T KOG2031|consen 504 IYRQGPDWLGCVWTP 518 (519)
T ss_pred ccccCCcceeeccCC
Confidence 777889999999986
No 2
>PF06087 Tyr-DNA_phospho: Tyrosyl-DNA phosphodiesterase; InterPro: IPR010347 Covalent intermediates between topoisomerase I and DNA can become dead-end complexes that lead to cell death. Tyrosyl-DNA phosphodiesterase can hydrolyse the bond between topoisomerase I and DNA [].; GO: 0008081 phosphoric diester hydrolase activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3SQ8_A 3SQ5_B 3SQ3_A 1Q32_D 3SQ7_A 1QZQ_A 1RGU_B 1RG2_B 1MU9_B 1RFI_B ....
Probab=100.00 E-value=2.4e-96 Score=807.00 Aligned_cols=401 Identities=42% Similarity=0.704 Sum_probs=287.4
Q ss_pred CCceEEEEecCCCCC--CCCCeeEecC----CchhhhhhhhcccCHHhhhccCCCC-CCCCeEEEEeCCCCc-hhhhhhh
Q 006742 161 PSTFRLLRVQGLPAW--ANTSCVSIRD----GDIIVAILSNYMVDIDWLLPACPVL-AKIPHVLVIHGESDG-TLEHMKR 232 (633)
Q Consensus 161 ~~~F~Lt~i~g~~~~--~N~~~Itl~D----gdl~~ailfnF~~Dl~WLl~~~p~~-~~~~~v~Vv~ge~~~-~~~~~~~ 232 (633)
|++|.++++.+++.. .|.++|||+| ++|+.|++||||+|++|||++|+.. ++...|++++|+.+. ....+..
T Consensus 1 P~~~~~~~i~~~~~~~~~~~~~itl~dil~~~~l~~~~~~nf~~D~~wll~~~~~~~~~~~~i~~v~g~~~~~~~~~~~~ 80 (443)
T PF06087_consen 1 PFKLYLTTIYDLPPRSNNNPDTITLEDILGDPDLEEALLFNFMIDLDWLLSQFPPSTRKNIPITIVHGTKDPPDKREIRQ 80 (443)
T ss_dssp SCEEEEBTTTTS-GG--GTTTEE-HHHHCSGTTEEEEEEE-SSEEHHHHHCCS-CCGTTCEEEEEECTSEEHHHHHHHHH
T ss_pred CcceEEeeecCCCccccCCCCcEeHHHHcCCccHHHHHhhhheeeHHHHHHhCCHhhcccceEEEEeCCCcchhhhhhhh
Confidence 578999999999987 7899999999 6899999999999999999999753 333368888884332 2222322
Q ss_pred --cCCCceEEecCCCCCCCCCccceeEEEEeCCc-cEEEEeCCCCCccccccccceEEeecc-cCCCC---CCCCCCCCc
Q 006742 233 --NKPANWILHKPPLPISFGTHHSKAMLLIYPRG-VRIIVHTANLIHVDWNNKSQGLWMQDF-PLKDQ---NNLSEECGF 305 (633)
Q Consensus 233 --~~~~n~~l~~p~mp~~fGtHHSKmmLL~y~dg-lRVVI~TANLi~~DW~~~tQ~vW~qDf-P~~~~---~s~~~~t~F 305 (633)
...+|+++|.|+||.+|||||||||||+|+|| ||||||||||+++||+++||+||+||| |++.. .....+++|
T Consensus 81 ~~~~~~nv~~~~~~mp~~~g~hHsKm~ll~y~~~~lRVvI~TaNl~~~Dw~~~~q~vw~~d~lP~~~~~~~~~~~~~~~F 160 (443)
T PF06087_consen 81 QAAIYPNVKLIFPPMPIPFGTHHSKMMLLFYEDGSLRVVIPTANLTPYDWNNKTQGVWIQDFLPRLPSSKSSSEESGSRF 160 (443)
T ss_dssp HHCCHTTEEEEEE---STT--B--EEEEEEETTCEEEEEEESS-BSHHHHCSSB-EEEE---E-B-ECTS-S--SSTTHH
T ss_pred hcccCCCeEEEccCCCcccccccceeEEEEeCCccEEEEEECCCCCHHHHCCcceeEEEecccCcccccccccCCCCCch
Confidence 35679999999999999999999999999999 999999999999999999999999998 98754 234578999
Q ss_pred HHHHHHHHHhCCCCccccCCCCCCCccccccccccccccccceEEEEccCCCCCCCccccccHHHHHHHHhhccccC---
Q 006742 306 ENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEK--- 382 (633)
Q Consensus 306 k~DL~~YL~ay~~~~~~~~~p~l~~~~i~~~~L~~yDFS~a~v~LVaSVPG~h~g~~~~~~G~~~L~~~L~~~~~~~--- 382 (633)
++||++||++|+.+.... +++.|++||||.++|+||+||||+|. .+..+|||++|+++|+++....
T Consensus 161 ~~dL~~yL~~y~~~~~~~----------~~~~l~~yDFS~~~v~lV~SvPG~h~-~~~~~~G~~~L~~~L~~~~~~~~~~ 229 (443)
T PF06087_consen 161 KKDLVAYLNSYGKSPLDK----------LIERLRKYDFSSARVHLVASVPGKHK-EDKDKWGHMRLRKVLKRLGLPSNKD 229 (443)
T ss_dssp HHHHHHHHHTT--HHHHH----------CHHHHHTEE-CCGTSEEEEE-SECCC-GGGGGSHHHHHHHHHHHCCTT---T
T ss_pred HHHHHHHHHHhCCcchhH----------HHHHHHhcCCccCceEEEeccCcccc-CCCcchhHHHHHHHHHhccccccCC
Confidence 999999999998543211 14789999999999999999999999 5566899999999999987754
Q ss_pred CCcccCeEEEecCCCcCC---hHHH-HHHHhcccCCCCC-C----------CCCCCCCCceEEccCchhhhcCcccccCC
Q 006742 383 GFKKSPLVYQFSSLGSLD---EKWM-AELSSSMSSGFSE-D----------KTPLGIGEPLIVWPTVEDVRCSLEGYAAG 447 (633)
Q Consensus 383 ~~~~~~i~~Q~SSIGsl~---~~wL-~~f~~sl~~g~~~-~----------~~~~~~~~~~IIfPT~e~Vr~S~~G~~~G 447 (633)
.....+|+||+||||+++ ..|| .+|+.+|...... . ......++++|||||+||||+|.+||.+|
T Consensus 230 ~~~~~~~~~Q~SSIGs~~~~~~~Wl~~~f~~sl~~~~~~~~~~~~~~~~~~~~~~~~~~~~IvfPT~e~Vr~S~~G~~~g 309 (443)
T PF06087_consen 230 KDKESDIVCQFSSIGSLGSSPKDWLTSEFLTSLYPASFSSPSTPSSKSSSSQQENNRPPLKIVFPTVEEVRNSPEGYNGG 309 (443)
T ss_dssp TCCCCEEEEE-SBB---SSSTTTTTTTHHHHHCCHHCCT------HHHHHHHCCHHTEEEEEE--BCHHHCTSTTGGGGG
T ss_pred cCCCCeEEEEcccccccCcchhhhHHHHHHHHHhhccccccccccccccccccccCCCCceEECCCHHHHhhCccCCcCc
Confidence 346789999999999994 4588 4788887654320 0 01112357899999999999999999999
Q ss_pred CcccCCCc----cchhHhHHHHHhhhcCC--CCCCCCCCCcceeEEeec---CCceeEEEEeccccchhhhhccccCCce
Q 006742 448 NAIPSPQK----NVDKDFLKKYWAKWKAS--HTGRSRAMPHIKTFARYN---GQKLAWFLLTSANLSKAAWGALQKNNSQ 518 (633)
Q Consensus 448 Gsi~~~~~----~~~~~~l~~~~~kw~~~--~s~R~~a~PHiKty~R~~---~~~i~W~lltSaNLSkaAWG~l~k~~~q 518 (633)
||||++.+ +..+.||+++||+|.+. .++|++++||+|+|+|++ .+.++|+|+||||||+||||+.+++++|
T Consensus 310 gsi~~~~~~~~~~~~~~~l~~~~~~w~~~~~~~~R~~~~pH~K~y~~~~~~~~~~~~W~~lgShNLS~aAWG~~~~~~~~ 389 (443)
T PF06087_consen 310 GSIPFKYKWWEPNFPQEWLRPYFHKWYASDDPSGRSRAPPHIKTYMRFSKNDFKSLGWFYLGSHNLSKAAWGKRSKNGSQ 389 (443)
T ss_dssp GGSB--HC--GHHCCHHHHHHCCE-EEEC-TGCTTTTS-B--EEEEEEE-TTTSEECEEEEES--BSHHHH-EEETTTTC
T ss_pred eeEEecchhccccchHHHHHHHHhhhccccccCCCCCcCcceEEEEEecCCCCCccceEEeCcccCCHHHhcccccCCce
Confidence 99999865 34467999999999998 899999999999999997 5789999999999999999999999999
Q ss_pred eeeeeeeeeeEEcCCcccCCCccccccCCCCcccccCCccchhhccceeeeeecCCCCCCCCCCcceeeccccCCCCCCC
Q 006742 519 LMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRY 598 (633)
Q Consensus 519 l~IrNyElGVL~~P~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~vPy~LP~~~Y 598 (633)
++||||||||||+|..+.. ...|.+...... ........+.|||||+||++||
T Consensus 390 l~i~nyElGVl~~P~~~~~--~~~~~~~~~~~~-------------------------~~~~~~~~~~v~vPf~lP~~~Y 442 (443)
T PF06087_consen 390 LSIRNYELGVLFLPSSFGV--MLPVFSLDDPVY-------------------------RSISSTNTVPVPVPFDLPPTPY 442 (443)
T ss_dssp CEESSBEEEEEEEGGGCTS--SSSCEEEECCG--------------------------------GGGCEEESS-SSEEE-
T ss_pred eeecceEEEEEEecCcccc--cccccccccccc-------------------------cccccCCCceEEecCCCCCcCc
Confidence 9999999999999986541 112221111100 0112344678999999999999
Q ss_pred C
Q 006742 599 S 599 (633)
Q Consensus 599 ~ 599 (633)
+
T Consensus 443 ~ 443 (443)
T PF06087_consen 443 G 443 (443)
T ss_dssp -
T ss_pred C
Confidence 6
No 3
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins localize to the nucleus, where they participate in establishing or maintaining cell cycle checkpoints, DNA repair, or transcriptional regulation. Members of the FHA family include: Dun1, Rad53, Cds1, Mek1, KAPP(kinase-associated protein phosphatase),and Ki-67 (a human nuclear protein related to cell proliferation).
Probab=97.60 E-value=0.00013 Score=63.31 Aligned_cols=94 Identities=29% Similarity=0.426 Sum_probs=76.3
Q ss_pred eeEeeCCCCccCCCCCCcccCCC-CCccccCC----CccccccccccceeEEEecC-CcceEEEeecCCcEEEeeCCccc
Q 006742 7 GYLVPLDNNLREDNSLPKLPLSQ-GPNVIGRT----NIPVSDKRLSRKHITLTASA-DGSASLVVDGTNPVVVKSGDQRK 80 (633)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~----~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 80 (633)
.+|.+++.+ .....++|.. +.-+|||+ ++.+.|+.+||+|.+|.... ++..-+...+.|++.|+. +
T Consensus 2 ~~L~~~~~~----~~~~~~~l~~~~~~~iGr~~~~~~i~l~~~~iS~~H~~i~~~~~~~~~~~~~~s~~g~~vn~----~ 73 (102)
T cd00060 2 PRLVVLSGD----ASGRRYYLDPGGTYTIGRDSDNCDIVLDDPSVSRRHAVIRYDGDGGVVLIDLGSTNGTFVNG----Q 73 (102)
T ss_pred eEEEEecCC----CceeEEEECCCCeEEECcCCCcCCEEcCCCCeeCcceEEEEcCCCCEEEEECCCCCCeEECC----E
Confidence 356666554 4477889999 99999998 88899999999999999998 888888999999999865 3
Q ss_pred ccCcccccccccCCccccCCCCccceee
Q 006742 81 KLSSNEHVSIADGDIIELIPGHHFFKYV 108 (633)
Q Consensus 81 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~ 108 (633)
++.......+.+||++++-++.+.|++.
T Consensus 74 ~~~~~~~~~l~~gd~i~ig~~~~~~~~~ 101 (102)
T cd00060 74 RVSPGEPVRLRDGDVIRLGNTSISFRFE 101 (102)
T ss_pred ECCCCCcEECCCCCEEEECCeEEEEEEe
Confidence 3443566779999999999878777643
No 4
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase. Note that the EC number for the kinase function is: 2.7.1.78
Probab=97.10 E-value=0.00058 Score=77.74 Aligned_cols=94 Identities=24% Similarity=0.408 Sum_probs=80.5
Q ss_pred ccceeeEeeCCCCccCCCCCCcccCCCCCccccCC-CccccccccccceeEEEecCC-cceEEEeecCCcEEEeeCCccc
Q 006742 3 ATKIGYLVPLDNNLREDNSLPKLPLSQGPNVIGRT-NIPVSDKRLSRKHITLTASAD-GSASLVVDGTNPVVVKSGDQRK 80 (633)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 80 (633)
..+|.+|+|.. ++-|.|+|..|.++|||. .--|.|++-||+.+.|.|..+ |.+.+.+-|.||-.|.. .
T Consensus 11 ~~~~c~l~~~~------~~~~~~~~~~~~~~~gr~pet~i~d~~cs~~qv~l~a~~~~~~v~~k~lg~np~~~~~----~ 80 (526)
T TIGR01663 11 AARICTLKPGE------AEHHFIHLDAGALFLGRGPETGIRDRKCSKRQIELQADLEKATVALKQLGVNPCGTGG----L 80 (526)
T ss_pred ceeeeEecCCC------CCCCeeccCCCceEEccCcccccchhhhchhhheeeecccCceEEEEEccCCCcccCc----e
Confidence 35788898864 445999999999999998 456889999999999999865 78889999999988765 4
Q ss_pred ccCcccccccccCCccccCCCCccce
Q 006742 81 KLSSNEHVSIADGDIIELIPGHHFFK 106 (633)
Q Consensus 81 ~~~~~~~~~i~~~~~~~~~~~~~~~~ 106 (633)
.|..+...+..+||++||.+|.|.|.
T Consensus 81 ~~~~~~~~~l~~g~~l~~v~~~~~~~ 106 (526)
T TIGR01663 81 ELKPGGEGELGHGDLLEIVNGLHPLT 106 (526)
T ss_pred EecCCCeeeecCCCEEEEecccccee
Confidence 57778888999999999999999884
No 5
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins. It displays specificity for phosphothreonine-containing epitopes but will also recognise phosphotyrosine with relatively high affinity. It spans approximately 80-100 amino acid residues folded into an 11-stranded beta sandwich, which sometimes contain small helical insertions between the loops connecting the strands []. To date, genes encoding FHA-containing proteins have been identified in eubacterial and eukaryotic but not archaeal genomes. The domain is present in a diverse range of proteins, such as kinases, phosphatases, kinesins, transcription factors, RNA-binding proteins and metabolic enzymes which partake in many different cellular processes - DNA repair, signal transduction, vesicular transport and protein degradation are just a few examples.; GO: 0005515 protein binding; PDB: 1LGQ_B 1LGP_A 2CSW_A 2PIE_A 3FM8_A 3MDB_B 3GQS_B 1UHT_A 1WLN_A 3POA_A ....
Probab=97.06 E-value=0.00077 Score=55.09 Aligned_cols=62 Identities=34% Similarity=0.544 Sum_probs=51.0
Q ss_pred cccCC---CccccccccccceeEEEecCCcceEEEee-cCCcEEEeeCCcccccCcccccccccCCcccc
Q 006742 33 VIGRT---NIPVSDKRLSRKHITLTASADGSASLVVD-GTNPVVVKSGDQRKKLSSNEHVSIADGDIIEL 98 (633)
Q Consensus 33 ~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~ 98 (633)
+|||+ +|.+.|+.+||.|..|.-..++.+.|.-- ++|++.|+ .+++.+.+...+.+||+|++
T Consensus 2 ~iGR~~~~di~l~~~~iSr~Ha~i~~~~~~~~~i~d~~s~ngt~vn----g~~l~~~~~~~L~~gd~i~~ 67 (68)
T PF00498_consen 2 TIGRSPDCDIVLPDPSISRRHARISFDDDGQFYIEDLGSTNGTFVN----GQRLGPGEPVPLKDGDIIRF 67 (68)
T ss_dssp EEESSTTSSEEETSTTSSTTSEEEEEETTEEEEEEESSSSS-EEET----TEEESSTSEEEE-TTEEEEE
T ss_pred EEcCCCCCCEEECCHheeeeeeEEEEeceeeEEEEeCCCCCcEEEC----CEEcCCCCEEECCCCCEEEc
Confidence 47776 79999999999999999999978888874 59999883 27788888899999999875
No 6
>PF13091 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 1BYR_A 1V0T_A 1V0U_A 1V0V_A 1V0S_A 1V0R_A 1V0W_A ....
Probab=94.56 E-value=0.029 Score=50.55 Aligned_cols=38 Identities=34% Similarity=0.500 Sum_probs=26.9
Q ss_pred CCCcceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEEc
Q 006742 479 AMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLIL 531 (633)
Q Consensus 479 a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~~ 531 (633)
...|.|+|+-.+ + .+++||+||+..||. +|+|+||++.
T Consensus 73 ~~~H~K~~i~d~-~---~~iiGS~N~t~~~~~-----------~n~E~~~~~~ 110 (126)
T PF13091_consen 73 NRLHAKFYIIDD-K---VAIIGSANLTSSSFR-----------RNYELGVIID 110 (126)
T ss_dssp S-B--EEEEETT-T---EEEEES--CSCCCSC-----------TSEEEEEEEE
T ss_pred cCCCcceEEecC-c---cEEEcCCCCCcchhc-----------CCcceEEEEE
Confidence 467999998742 2 899999999999992 5999999984
No 7
>TIGR03354 VI_FHA type VI secretion system FHA domain protein. Members of this protein family are FHA (forkhead-associated) domain-containing proteins that are part of type VI secretion loci in a considerable number of bacteria, most of which are known pathogens. Species include Pseudomonas aeruginosa PAO1, Aeromonas hydrophila, Yersinia pestis, Burkholderia mallei, etc.
Probab=91.18 E-value=0.42 Score=53.01 Aligned_cols=88 Identities=20% Similarity=0.264 Sum_probs=67.1
Q ss_pred eeCCCCccCCCCCCcccCCCCCccccC---CCccccccc--cccceeEEEecCCcceEEEeecCCcEEEeeCCcccccCc
Q 006742 10 VPLDNNLREDNSLPKLPLSQGPNVIGR---TNIPVSDKR--LSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSS 84 (633)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (633)
+=+|...-+.+....+++..+..+||| +++++.|.. +||.|.+|+-. +|...|.--.+|.+.|+..+.| +..
T Consensus 4 ~v~n~~~l~~g~~~~~~f~~~~~~IGR~~~~d~~l~d~~~~VS~~Ha~I~~~-~g~~~l~DlStNGT~VN~sg~~--l~~ 80 (396)
T TIGR03354 4 TVLNAHQLTPGIAAQKTFGTNGGTIGRSEDCDWVLPDPERHVSGRHARIRYR-DGAYLLTDLSTNGVFLNGSGSP--LGR 80 (396)
T ss_pred EEeccccCCCCcceEEEECCCCEEEecCCCCCEEeCCCCCCcchhhcEEEEE-CCEEEEEECCCCCeEECCCCCC--CCC
Confidence 334555556777789999999999999 578888887 99999999987 5666666668899999754433 445
Q ss_pred ccccccccCCccccCC
Q 006742 85 NEHVSIADGDIIELIP 100 (633)
Q Consensus 85 ~~~~~i~~~~~~~~~~ 100 (633)
+..+.+.+||+|.+=+
T Consensus 81 ~~~~~L~~GD~I~iG~ 96 (396)
T TIGR03354 81 GNPVRLEQGDRLRLGD 96 (396)
T ss_pred CCceEcCCCCEEEECC
Confidence 5567799999988844
No 8
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase
Probab=91.04 E-value=0.59 Score=55.17 Aligned_cols=97 Identities=19% Similarity=0.290 Sum_probs=73.3
Q ss_pred eEeeCCCCccCCCCCCcccC---CCCCccccCCC--------ccccccccccceeEEEecCCcceEEEeecCCcEEEee-
Q 006742 8 YLVPLDNNLREDNSLPKLPL---SQGPNVIGRTN--------IPVSDKRLSRKHITLTASADGSASLVVDGTNPVVVKS- 75 (633)
Q Consensus 8 ~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~- 75 (633)
||+|..... .....|+| -..|=+|||+. |++.|..+|+.|.+++-..+.-.---..-||--.|+.
T Consensus 535 ~l~~~~~~~---~~~~~~~l~~~~~~p~~iG~~~~~~~~~~~i~i~~~~vS~~Ha~i~~~~~~~~~~Dl~S~nGT~v~~~ 611 (668)
T PLN02927 535 YLIPHGDDC---CVSETLCLTKDEDQPCIVGSEPDQDFPGMRIVIPSSQVSKMHARVIYKDGAFFLMDLRSEHGTYVTDN 611 (668)
T ss_pred EEEecCCCC---cccceeeeecCCCCCeEecCCCCcCCCCceEEecCCccChhHeEEEEECCEEEEEECCCCCccEEeCC
Confidence 788874433 33566888 78888999973 3889999999999999884433322344567777776
Q ss_pred CCcccccCcccccccccCCccccCCCCcc-cee
Q 006742 76 GDQRKKLSSNEHVSIADGDIIELIPGHHF-FKY 107 (633)
Q Consensus 76 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~-~~~ 107 (633)
+++|=++.|+..+.+.+||+|++=..++. |+-
T Consensus 612 ~~~r~~~~p~~~~~l~~~d~I~~g~~~~~~fr~ 644 (668)
T PLN02927 612 EGRRYRATPNFPARFRSSDIIEFGSDKKAAFRV 644 (668)
T ss_pred CCceEecCCCCceEeCCCCEEEeCCCcceeEEE
Confidence 45566789999999999999999888766 763
No 9
>smart00240 FHA Forkhead associated domain. Found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain.
Probab=88.75 E-value=0.56 Score=35.81 Aligned_cols=38 Identities=26% Similarity=0.389 Sum_probs=31.2
Q ss_pred CCccccccccccceeEEEecCCcceEEEeec-CCcEEEe
Q 006742 37 TNIPVSDKRLSRKHITLTASADGSASLVVDG-TNPVVVK 74 (633)
Q Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 74 (633)
.++.+.|..+||+|..|....++.+.+.--+ +|.+.|+
T Consensus 10 ~~i~~~~~~vs~~H~~i~~~~~~~~~i~d~~s~~gt~vn 48 (52)
T smart00240 10 CDIQLPGPSISRRHAEIVYDGGGRFYLIDLGSTNGTFVN 48 (52)
T ss_pred CCEEeCCCCcchhHcEEEECCCCeEEEEECCCCCCeeEC
Confidence 4599999999999999999999866666655 7887664
No 10
>PRK13912 nuclease NucT; Provisional
Probab=87.03 E-value=0.72 Score=45.26 Aligned_cols=38 Identities=29% Similarity=0.305 Sum_probs=30.6
Q ss_pred CCCCcceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEE
Q 006742 478 RAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLI 530 (633)
Q Consensus 478 ~a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~ 530 (633)
...+|.|+++-.. .|+++||+|++..++. .|+|+||++
T Consensus 117 ~~~~H~K~~viD~----~~~~iGS~N~t~~s~~-----------~N~E~~lii 154 (177)
T PRK13912 117 YGIMHQKVAIIDD----KIVVLGSANWSKNAFE-----------NNYEVLLIT 154 (177)
T ss_pred ccccceeEEEEcC----CEEEEeCCCCChhHhc-----------cCCceEEEE
Confidence 3468999987532 4899999999987774 399999987
No 11
>smart00155 PLDc Phospholipase D. Active site motifs. Phosphatidylcholine-hydrolyzing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, aspartic acid, and/or asparagine residues which may contribute to the active site. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not be
Probab=85.22 E-value=0.71 Score=31.68 Aligned_cols=25 Identities=24% Similarity=0.190 Sum_probs=19.7
Q ss_pred CCCcceeEEeecCCceeEEEEeccccchh
Q 006742 479 AMPHIKTFARYNGQKLAWFLLTSANLSKA 507 (633)
Q Consensus 479 a~PHiKty~R~~~~~i~W~lltSaNLSka 507 (633)
...|.|+++-.+ .|+++||+||+..
T Consensus 3 ~~~H~K~~v~D~----~~~~iGs~N~~~~ 27 (28)
T smart00155 3 GVLHTKLMIVDD----EIAYIGSANLDGR 27 (28)
T ss_pred CcEEeEEEEEcC----CEEEEeCccCCCC
Confidence 457999887544 3899999999864
No 12
>COG1716 FOG: FHA domain [Signal transduction mechanisms]
Probab=85.07 E-value=1.2 Score=43.37 Aligned_cols=67 Identities=28% Similarity=0.360 Sum_probs=53.2
Q ss_pred CccccC---CCccccccccccceeEEEecCCcceEEEeecCCcEEEeeCCcccccCcccccccccCCccccCCCCc
Q 006742 31 PNVIGR---TNIPVSDKRLSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSNEHVSIADGDIIELIPGHH 103 (633)
Q Consensus 31 ~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~ 103 (633)
...||| +++.+.|+.+||+|..|+...+...-.-+..+|-+.|....-+. +..+.+||++.+.....
T Consensus 90 ~~tigr~~~~~i~~~~~~vSR~Ha~l~~~~~~~~~~d~~S~nGt~vn~~~v~~------~~~l~~gd~i~i~~~~~ 159 (191)
T COG1716 90 VTTIGRDPDNDIVLDDDVVSRRHAELRREGNEVFLEDLGSTNGTYVNGEKVRQ------RVLLQDGDVIRLGGTLA 159 (191)
T ss_pred eEEeccCCCCCEEcCCCccccceEEEEEeCCceEEEECCCCcceEECCeEccC------cEEcCCCCEEEECccce
Confidence 778999 67899999999999999999888887777788877776533322 56688899888876655
No 13
>PF00614 PLDc: Phospholipase D Active site motif; InterPro: IPR001736 Phosphatidylcholine-hydrolysing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, and/or asparagine residues which may contribute to the active site aspartic acid. An Escherichia coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs [, , , ].; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3HSI_C.
Probab=84.08 E-value=0.92 Score=31.64 Aligned_cols=25 Identities=32% Similarity=0.369 Sum_probs=15.0
Q ss_pred CCCccceeEEEEeCCccEEEEeCCCCCc
Q 006742 249 FGTHHSKAMLLIYPRGVRIIVHTANLIH 276 (633)
Q Consensus 249 fGtHHSKmmLL~y~dglRVVI~TANLi~ 276 (633)
+|+||+|++++ |+-+.+|.++||..
T Consensus 2 ~~~~H~K~~vv---D~~~a~vGg~nl~~ 26 (28)
T PF00614_consen 2 GGSHHQKFVVV---DDRVAFVGGANLCD 26 (28)
T ss_dssp TBEE---EEEE---TTTEEEEE---SSH
T ss_pred CcceeeEEEEE---cCCEEEECceecCC
Confidence 57899999987 55689999999863
No 14
>smart00155 PLDc Phospholipase D. Active site motifs. Phosphatidylcholine-hydrolyzing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs). PLD produces phosphatidic acid from phosphatidylcholine, which may be essential for the formation of certain types of transport vesicles or may be constitutive vesicular transport to signal transduction pathways. PC-hydrolysing PLD is a homologue of cardiolipin synthase, phosphatidylserine synthase, bacterial PLDs, and viral proteins. Each of these appears to possess a domain duplication which is apparent by the presence of two motifs containing well-conserved histidine, lysine, aspartic acid, and/or asparagine residues which may contribute to the active site. An E. coli endonuclease (nuc) and similar proteins appear to be PLD homologues but possess only one of these motifs. The profile contained here represents only the putative active site regions, since an accurate multiple alignment of the repeat units has not be
Probab=80.11 E-value=2.2 Score=29.21 Aligned_cols=25 Identities=28% Similarity=0.279 Sum_probs=20.6
Q ss_pred CCCccceeEEEEeCCccEEEEeCCCCCc
Q 006742 249 FGTHHSKAMLLIYPRGVRIIVHTANLIH 276 (633)
Q Consensus 249 fGtHHSKmmLL~y~dglRVVI~TANLi~ 276 (633)
.+.+|+|+|+. |+-.++|.|+||..
T Consensus 2 ~~~~H~K~~v~---D~~~~~iGs~N~~~ 26 (28)
T smart00155 2 DGVLHTKLMIV---DDEIAYIGSANLDG 26 (28)
T ss_pred CCcEEeEEEEE---cCCEEEEeCccCCC
Confidence 46799999886 55689999999975
No 15
>COG1502 Cls Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthases and related enzymes [Lipid metabolism]
Probab=79.69 E-value=1.4 Score=48.60 Aligned_cols=40 Identities=28% Similarity=0.335 Sum_probs=33.8
Q ss_pred CCCcceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEEcCC
Q 006742 479 AMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPS 533 (633)
Q Consensus 479 a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~~P~ 533 (633)
+..|.|+++-.+ .|+++||+||+..++.. |+|++|++...
T Consensus 353 ~~lH~K~~iiD~----~~~~vGS~N~~~rS~~l-----------N~E~~~~i~d~ 392 (438)
T COG1502 353 AFLHSKVMIIDD----RTVLVGSANLDPRSLRL-----------NFEVGLVIEDP 392 (438)
T ss_pred CcceeeEEEEcC----CEEEEeCCcCCHhHHHH-----------hhhheeEEeCH
Confidence 578999988655 47999999999999865 89999999543
No 16
>PF09565 RE_NgoFVII: NgoFVII restriction endonuclease; InterPro: IPR019065 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This domain is found in NgoFVII restriction endonuclease, which recognises GCSGC but cleavage site is unknown. It is also found as the C-terminal domain of the res subunit of some type III restriction endonucleases.
Probab=77.23 E-value=2.4 Score=45.31 Aligned_cols=42 Identities=31% Similarity=0.237 Sum_probs=30.6
Q ss_pred cceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEEcC
Q 006742 482 HIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILP 532 (633)
Q Consensus 482 HiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~~P 532 (633)
|.|+|+-..+...-=+|+||||||.- ||..+ +.||..|+.-+
T Consensus 82 HgKlY~f~k~g~~~~a~IGSANfS~~-~~~~~--------~~~E~~v~~D~ 123 (296)
T PF09565_consen 82 HGKLYIFSKNGKPFRAYIGSANFSQI-NGFTR--------RQYEAMVTCDP 123 (296)
T ss_pred ccEEEEEecCCCceEEEEeecccccc-ccccc--------cceeEEEecCh
Confidence 99999976554444599999999975 55433 58887777644
No 17
>PRK01642 cls cardiolipin synthetase; Reviewed
Probab=77.16 E-value=2.1 Score=48.55 Aligned_cols=38 Identities=18% Similarity=0.268 Sum_probs=31.4
Q ss_pred CCCcceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEEc
Q 006742 479 AMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLIL 531 (633)
Q Consensus 479 a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~~ 531 (633)
.+.|.|+.+-.+ .|+++||+||+..+|. .|+|+||++.
T Consensus 398 ~~~HaK~~ivD~----~~~~vGS~N~d~rS~~-----------~N~E~~~~i~ 435 (483)
T PRK01642 398 GLLHTKSVLVDD----ELALVGTVNLDMRSFW-----------LNFEITLVID 435 (483)
T ss_pred CceEeEEEEECC----CEEEeeCCcCCHhHHh-----------hhhcceEEEE
Confidence 467999987644 5899999999988773 4999999984
No 18
>cd00138 PLDc Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. The common features of the family members are that they can bind to a phosphodiester moiety, and that most of these enzymes are active as bi-lobed monomers or dimers.
Probab=74.38 E-value=3.3 Score=39.46 Aligned_cols=38 Identities=26% Similarity=0.249 Sum_probs=31.3
Q ss_pred CCCcceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEEc
Q 006742 479 AMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLIL 531 (633)
Q Consensus 479 a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~~ 531 (633)
...|.|+++-.. .-+++||+|++..+|. .|.|+||++.
T Consensus 112 ~~~H~K~~iiD~----~~~~vGS~N~~~~~~~-----------~~~e~~~~~~ 149 (176)
T cd00138 112 GVLHTKLVIVDD----ETAYIGSANLDGRSLT-----------LNSEVGVVIY 149 (176)
T ss_pred cceeeeEEEEcC----CEEEEECCcCChhhhh-----------hhcceEEEEe
Confidence 578999988643 2589999999999998 4889999874
No 19
>PRK11263 cardiolipin synthase 2; Provisional
Probab=74.10 E-value=2.9 Score=46.72 Aligned_cols=39 Identities=21% Similarity=0.189 Sum_probs=31.6
Q ss_pred CCCcceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEEcC
Q 006742 479 AMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILP 532 (633)
Q Consensus 479 a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~~P 532 (633)
-+.|.|+.+-.. .|+++||+||...++. .|+|++|++.-
T Consensus 286 ~~lHaK~~viD~----~~~~vGS~Nld~rS~~-----------lN~E~~~~i~d 324 (411)
T PRK11263 286 RPLHGKVALMDD----HWATVGSSNLDPLSLS-----------LNLEANLIIRD 324 (411)
T ss_pred CCceeEEEEECC----CEEEEeCCcCCHHHhh-----------hhhhcCEEEeC
Confidence 468999988644 4999999999887753 49999999853
No 20
>cd00138 PLDc Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of phospholipids to phosphatidic acid and a hydrophilic constituent. Phosphatidic acid is a compound that is heavily involved in signal transduction. The common features of the family members are that they can bind to a phosphodiester moiety, and that most of these enzymes are active as bi-lobed monomers or dimers.
Probab=69.24 E-value=5.7 Score=37.83 Aligned_cols=38 Identities=21% Similarity=0.239 Sum_probs=29.5
Q ss_pred CCCccceeEEEEeCCccEEEEeCCCCCccccc-cccceEEee
Q 006742 249 FGTHHSKAMLLIYPRGVRIIVHTANLIHVDWN-NKSQGLWMQ 289 (633)
Q Consensus 249 fGtHHSKmmLL~y~dglRVVI~TANLi~~DW~-~~tQ~vW~q 289 (633)
.+++|+|+||. |+=.++|.|+|+....|. +...++.+.
T Consensus 111 ~~~~H~K~~ii---D~~~~~vGS~N~~~~~~~~~~e~~~~~~ 149 (176)
T cd00138 111 GGVLHTKLVIV---DDETAYIGSANLDGRSLTLNSEVGVVIY 149 (176)
T ss_pred ccceeeeEEEE---cCCEEEEECCcCChhhhhhhcceEEEEe
Confidence 58999999998 566899999999998885 334445444
No 21
>PF13091 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 1BYR_A 1V0T_A 1V0U_A 1V0V_A 1V0S_A 1V0R_A 1V0W_A ....
Probab=65.19 E-value=9.4 Score=34.10 Aligned_cols=37 Identities=19% Similarity=0.332 Sum_probs=23.3
Q ss_pred CCccceeEEEEeCCccEEEEeCCCCCccccccc-cceEEee
Q 006742 250 GTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNK-SQGLWMQ 289 (633)
Q Consensus 250 GtHHSKmmLL~y~dglRVVI~TANLi~~DW~~~-tQ~vW~q 289 (633)
+.+|.|+++. |+=.++|.|+||+...|..- +.++.+.
T Consensus 73 ~~~H~K~~i~---d~~~~iiGS~N~t~~~~~~n~E~~~~~~ 110 (126)
T PF13091_consen 73 NRLHAKFYII---DDKVAIIGSANLTSSSFRRNYELGVIID 110 (126)
T ss_dssp S-B--EEEEE---TTTEEEEES--CSCCCSCTSEEEEEEEE
T ss_pred cCCCcceEEe---cCccEEEcCCCCCcchhcCCcceEEEEE
Confidence 7899999988 34499999999999998655 3344333
No 22
>PRK12452 cardiolipin synthetase; Reviewed
Probab=63.23 E-value=6.4 Score=45.15 Aligned_cols=39 Identities=15% Similarity=0.214 Sum_probs=31.5
Q ss_pred CCCcceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEEcC
Q 006742 479 AMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILP 532 (633)
Q Consensus 479 a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~~P 532 (633)
.+.|.|+.+-.+ .|+++||+||..-++.. |||+++++.-
T Consensus 424 ~~lHaK~~ivD~----~~a~vGS~Nld~RS~~~-----------n~E~~~~i~~ 462 (509)
T PRK12452 424 GFMHAKIVLVDD----KIATIGTANMDVRSFEL-----------NYEIISVLYE 462 (509)
T ss_pred CCeeeeEEEECC----CEEEEeCcccCHhHhhh-----------hhhccEEEEC
Confidence 467999988654 39999999998877753 9999998853
No 23
>PRK09428 pssA phosphatidylserine synthase; Provisional
Probab=61.64 E-value=9.2 Score=43.31 Aligned_cols=42 Identities=31% Similarity=0.455 Sum_probs=34.0
Q ss_pred CCCCCCcceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEEcC
Q 006742 476 RSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILP 532 (633)
Q Consensus 476 R~~a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~~P 532 (633)
+...+-|.|+.+-.+ .|+++||+||-.-+|.- |+|+||++.-
T Consensus 351 ~~~~~~HaK~i~vD~----~~~~iGS~Nld~RS~~l-----------n~E~~l~i~d 392 (451)
T PRK09428 351 DGDNSYHLKGIWVDD----RWMLLTGNNLNPRAWRL-----------DLENALLIHD 392 (451)
T ss_pred cCCCcceEEEEEEeC----CEEEEcCCCCChhHhhh-----------cccceEEEEC
Confidence 345678999977432 49999999999999975 9999999853
No 24
>PRK13912 nuclease NucT; Provisional
Probab=54.72 E-value=10 Score=37.13 Aligned_cols=81 Identities=12% Similarity=0.132 Sum_probs=46.1
Q ss_pred hhcccCHHhhhccCCC--CCCCCeEEEEeCC-CCch-----hhhhhhcCCCceEEec-----CCCCCCCCCccceeEEEE
Q 006742 194 SNYMVDIDWLLPACPV--LAKIPHVLVIHGE-SDGT-----LEHMKRNKPANWILHK-----PPLPISFGTHHSKAMLLI 260 (633)
Q Consensus 194 fnF~~Dl~WLl~~~p~--~~~~~~v~Vv~ge-~~~~-----~~~~~~~~~~n~~l~~-----p~mp~~fGtHHSKmmLL~ 260 (633)
..|.+.-+.+.+.+-. .+.+ .|-|+..+ .... ...+.+ .+++..+. ......++.+|.|+||.
T Consensus 52 ~~Y~~~~~~i~~aL~~Aa~RGV-~VrIlld~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~~~~~~~~~H~K~~vi- 127 (177)
T PRK13912 52 AIYSFTHKDIAKALKSAAKRGV-KISIIYDYESNHNNDQSTIGYLDK--YPNIKVCLLKGLKAKNGKYYGIMHQKVAII- 127 (177)
T ss_pred EEEEEchHHHHHHHHHHHHCCC-EEEEEEeCccccCcchhHHHHHHh--CCCceEEEecCccccCcccccccceeEEEE-
Confidence 4577777888887632 2344 44554332 2111 111111 12333221 11123568899999988
Q ss_pred eCCccEEEEeCCCCCccccc
Q 006742 261 YPRGVRIIVHTANLIHVDWN 280 (633)
Q Consensus 261 y~dglRVVI~TANLi~~DW~ 280 (633)
|+-.+++-|+|++..-+.
T Consensus 128 --D~~~~~iGS~N~t~~s~~ 145 (177)
T PRK13912 128 --DDKIVVLGSANWSKNAFE 145 (177)
T ss_pred --cCCEEEEeCCCCChhHhc
Confidence 777799999999976554
No 25
>PHA02820 phospholipase-D-like protein; Provisional
Probab=35.04 E-value=35 Score=38.34 Aligned_cols=29 Identities=28% Similarity=0.512 Sum_probs=23.5
Q ss_pred CCCccceeEEEEeCCccEEEEeCCCCCcccccccc
Q 006742 249 FGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKS 283 (633)
Q Consensus 249 fGtHHSKmmLL~y~dglRVVI~TANLi~~DW~~~t 283 (633)
-|..|+|+|+ =||-.+.|-|+|+ ||...+
T Consensus 111 ~~~~HrK~~V---IDg~~~~iGS~Ni---d~rsl~ 139 (424)
T PHA02820 111 GGVLHTKFWI---SDNTHIYLGSANM---DWRSLT 139 (424)
T ss_pred cccceeeEEE---ECCCEEEEeCCcC---Chhhhh
Confidence 3789999998 4788999999999 665543
No 26
>PF09565 RE_NgoFVII: NgoFVII restriction endonuclease; InterPro: IPR019065 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This domain is found in NgoFVII restriction endonuclease, which recognises GCSGC but cleavage site is unknown. It is also found as the C-terminal domain of the res subunit of some type III restriction endonucleases.
Probab=34.80 E-value=34 Score=36.74 Aligned_cols=27 Identities=19% Similarity=0.263 Sum_probs=22.9
Q ss_pred CccceeEEEEeCCc-cEEEEeCCCCCcc
Q 006742 251 THHSKAMLLIYPRG-VRIIVHTANLIHV 277 (633)
Q Consensus 251 tHHSKmmLL~y~dg-lRVVI~TANLi~~ 277 (633)
.-|+||.+....++ .+.+|-||||+..
T Consensus 80 ~~HgKlY~f~k~g~~~~a~IGSANfS~~ 107 (296)
T PF09565_consen 80 PYHGKLYIFSKNGKPFRAYIGSANFSQI 107 (296)
T ss_pred CcccEEEEEecCCCceEEEEeecccccc
Confidence 35999988766666 9999999999995
No 27
>PHA02820 phospholipase-D-like protein; Provisional
Probab=30.35 E-value=43 Score=37.65 Aligned_cols=37 Identities=35% Similarity=0.559 Sum_probs=26.3
Q ss_pred CCCcceeEEeecCCceeEEEEeccccchhhhhccccCCceeeeeeeeeeeEE
Q 006742 479 AMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLI 530 (633)
Q Consensus 479 a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG~l~k~~~ql~IrNyElGVL~ 530 (633)
...|.|+.+-.. .|+|+||+|+. |..+. .|.|+||.+
T Consensus 112 ~~~HrK~~VIDg----~~~~iGS~Nid---~rsl~--------~n~E~gv~i 148 (424)
T PHA02820 112 GVLHTKFWISDN----THIYLGSANMD---WRSLT--------QVKELGIAI 148 (424)
T ss_pred ccceeeEEEECC----CEEEEeCCcCC---hhhhh--------hCCceEEEE
Confidence 458999987432 47999999994 44443 246888876
No 28
>TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family. This family represents a conserved protein of bacterial type III secretion systems. Gene symbols are variable from species to species. Members are designated YscD in Yersinia, HrpQ in Pseudomonas syringae, and EscD in enteropathogenic Escherichia coli. In the Chlamydiae, this model describes the C-terminal 400 residues of a longer protein.
Probab=28.64 E-value=74 Score=35.52 Aligned_cols=37 Identities=32% Similarity=0.618 Sum_probs=32.4
Q ss_pred cccCCCCCcccc-CC---CccccccccccceeEEEecCCcc
Q 006742 24 KLPLSQGPNVIG-RT---NIPVSDKRLSRKHITLTASADGS 60 (633)
Q Consensus 24 ~~~~~~~~~~~~-~~---~~~~~~~~~~~~~~~~~~~~~~~ 60 (633)
.++|..|.-+|| ++ +|+..|..++|.|++|+...+|.
T Consensus 14 ~~~L~~g~~~iG~~~~~~di~L~d~~~~~~h~~l~v~~~~~ 54 (410)
T TIGR02500 14 ELPLPEGNLVLGTDAADCDIVLSDGGIAAVHVSLHVRLEGV 54 (410)
T ss_pred EEECCCCceEeccCCCCcEEEeCCCCccchheEEEEcCceE
Confidence 468889999999 65 78999999999999999998774
No 29
>COG3886 Predicted HKD family nuclease [DNA replication, recombination, and repair]
Probab=24.63 E-value=62 Score=32.74 Aligned_cols=32 Identities=22% Similarity=0.241 Sum_probs=24.1
Q ss_pred CCCCcceeEEeecCCceeEEEEeccccchhhhh
Q 006742 478 RAMPHIKTFARYNGQKLAWFLLTSANLSKAAWG 510 (633)
Q Consensus 478 ~a~PHiKty~R~~~~~i~W~lltSaNLSkaAWG 510 (633)
.+-.|.|-|++--...+. +.+||.|||+.|--
T Consensus 117 ~~~fH~KgYiFe~~~~~t-aiiGSsNlt~sALt 148 (198)
T COG3886 117 SANFHTKGYIFEHNTGIT-AIIGSSNLTDSALT 148 (198)
T ss_pred ccccccceeEEEecceEE-EEEccchhhhhhcc
Confidence 466799999954443333 88999999999853
No 30
>PF10382 DUF2439: Protein of unknown function (DUF2439); InterPro: IPR018838 This domain is found at the N-terminal of proteins implicated in telomere maintenance in Saccharomyces cerevisiae (Baker's yeast) [] and in meiotic chromosome segregation in Schizosaccharomyces pombe (Fission yeast) [].
Probab=20.73 E-value=1.9e+02 Score=25.11 Aligned_cols=60 Identities=17% Similarity=0.213 Sum_probs=41.9
Q ss_pred cccccceeEEEecCCcceEEEeecCCcEEEeeCCcccccCcc-ccc--ccccCCccccCCCCccceee
Q 006742 44 KRLSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSN-EHV--SIADGDIIELIPGHHFFKYV 108 (633)
Q Consensus 44 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~--~i~~~~~~~~~~~~~~~~~~ 108 (633)
+++.+||++-+ ||.+.+. ++.|-|++-.+ +..++... .+. .+..|+.++++-|.++.-..
T Consensus 10 ~q~~kK~K~W~---DG~l~~~-~~~~kv~Lyde-~~~~i~~~~~~~~~~~~~g~e~~l~~~~~LV~i~ 72 (83)
T PF10382_consen 10 HQKTKKRKKWH---DGFLKYH-SFNKKVMLYDE-DGNLIGSDFLKNSEELEEGDELELPKGGYLVQIE 72 (83)
T ss_pred ccccccceeeE---CCEEEEE-eCCCEEEEEcC-CCCEEeEEEEecCCCCCCCCEEEEcCCCEEEEEe
Confidence 56788998885 9999888 77777777765 33344322 222 37789999999888887533
Done!