Query 045070
Match_columns 441
No_of_seqs 159 out of 1281
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 09:32:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045070.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045070hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1337 N-methyltransferase [G 100.0 8.8E-32 1.9E-36 280.0 25.1 386 5-434 3-447 (472)
2 KOG1338 Uncharacterized conser 100.0 3.5E-30 7.5E-35 247.5 16.3 247 3-307 3-272 (466)
3 PF00856 SET: SET domain; Int 99.6 4.5E-16 9.7E-21 137.2 6.3 29 49-78 1-29 (162)
4 PF09273 Rubis-subs-bind: Rubi 99.4 3.2E-13 7E-18 115.8 7.8 91 336-426 28-128 (128)
5 smart00317 SET SET (Su(var)3-9 98.4 3.4E-07 7.5E-12 76.1 6.0 35 41-76 4-38 (116)
6 KOG2589 Histone tail methylase 90.7 0.2 4.3E-06 49.5 3.0 23 271-293 216-238 (453)
7 KOG1085 Predicted methyltransf 85.2 0.57 1.2E-05 44.9 2.2 31 271-301 356-386 (392)
8 KOG4442 Clathrin coat binding 79.0 1.8 3.9E-05 46.5 3.3 24 270-293 215-238 (729)
9 KOG1083 Putative transcription 57.7 16 0.00035 41.3 5.1 24 272-295 1274-1297(1306)
10 KOG1085 Predicted methyltransf 47.0 22 0.00047 34.4 3.5 30 38-68 257-286 (392)
11 KOG1082 Histone H3 (Lys9) meth 43.6 17 0.00036 36.9 2.4 26 271-296 299-324 (364)
12 KOG1080 Histone H3 (Lys4) meth 43.5 17 0.00037 41.6 2.6 23 271-293 962-984 (1005)
13 smart00317 SET SET (Su(var)3-9 42.2 39 0.00084 27.0 4.1 29 37-65 83-113 (116)
14 KOG1141 Predicted histone meth 40.6 12 0.00026 41.2 0.8 51 245-304 1199-1253(1262)
15 KOG1079 Transcriptional repres 37.8 22 0.00048 38.3 2.3 23 271-293 688-710 (739)
16 COG2940 Proteins containing SE 35.6 22 0.00048 37.5 1.9 22 272-293 429-450 (480)
17 TIGR02059 swm_rep_I cyanobacte 33.1 54 0.0012 26.6 3.3 27 269-295 73-99 (101)
18 PF00856 SET: SET domain; Int 28.3 55 0.0012 27.5 2.9 29 37-65 128-158 (162)
19 KOG2461 Transcription factor B 25.5 59 0.0013 33.4 2.9 34 271-304 122-155 (396)
20 PF08666 SAF: SAF domain; Int 21.3 53 0.0012 23.5 1.2 14 51-64 3-16 (63)
No 1
>KOG1337 consensus N-methyltransferase [General function prediction only]
Probab=100.00 E-value=8.8e-32 Score=279.95 Aligned_cols=386 Identities=21% Similarity=0.232 Sum_probs=260.7
Q ss_pred HHHHHHHHHHHHHcCCccCcccccccc-------------ccccCCceeEEecCCCCcceEEEcccCCCCCeEEeccCcc
Q 045070 5 DESLEKLLKWAAEMGITDSTIQNHSRS-------------RNCLGHSLTVSHFPEAGGRGLAAARDLTKGELILRVPKTA 71 (441)
Q Consensus 5 ~~~~~~l~~W~~~~G~~~~~~~~~~~~-------------~~~~~~~l~i~~~~~~~GrGl~A~~~I~~g~~ll~IP~~~ 71 (441)
.+++.+|++|...+|+..+++. .+|. .-+..++++...+.. .+.|+.+...+..|..+...|...
T Consensus 3 ~~~l~~~l~~~~~~~~~~~~~~-~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~-~~~g~~~~~~~~~~~~~~~~~~~~ 80 (472)
T KOG1337|consen 3 VDVLSALLRWAQCNGISLSSSL-DLRPDELKGLVRWAASESIASSENIKSLKFWL-TGNGLSSSKSSLPGNDIDEWPLLV 80 (472)
T ss_pred hhHHHHhhhHHhccCccCCccc-ccCccccCcceeeeecccCCCccccccceecc-ccCCcchhhhccccccccccchhh
Confidence 4678899999999998875321 1111 001111122222222 255555555555555555555554
Q ss_pred cccccccccc--chHHHHHHhh-cCCCChh-HHHHHHHHHHhhCCCCCCchHHhhhcCCCCCcCcCCChhHHhhcCCchH
Q 045070 72 LFTTECLLKS--DQKLSLAVNR-HLFLSPS-QILIVCLLYEVGKGKSSWWYTYLMLLPRCYEILATFGPFEKQALQVDDA 147 (441)
Q Consensus 72 ~ls~~~~~~~--~~~l~~~l~~-~~~l~~~-~~Lal~Ll~e~~~~~~S~w~pYl~~LP~~~~~pl~w~~~el~~L~~~~~ 147 (441)
.++....... -+........ .+..+.. ..|+++++.++..+..|.|.+|+..||+.+++|++|...++..|++++.
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~s~w~~~i~~l~~~~~~p~~~~~~~v~~l~~~~~ 160 (472)
T KOG1337|consen 81 SIRLIKGEKLLLVPPLLLLIAKRKPYNDLLPIALALFLLLEWAHGEISKWKPYISTLPSQYNSPLLWSEDEVKSLLSTPL 160 (472)
T ss_pred hhhhhhhhhhccCCchhhhccccccCccccHHHHHHHHHHhhhccccccchhhhhhchhhcCCccccCHHHHHHhhcchh
Confidence 4444222100 0011111111 1223333 7899999999987777999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC-----CCCcccCHHHHHHHHHHHhhcceeeCCC---------CCcccCCccccc
Q 045070 148 IWAAEKAVSKAESEWKQAIKLMEELK-----LKPQLLSFKAWLWASATVSSRTMHISWD---------EAGCLCPVGDLF 213 (441)
Q Consensus 148 ~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~~~~t~e~f~WA~~~v~SRa~~~~~~---------~~~~LvP~~Dm~ 213 (441)
...+..+.+.++..|..+..++.... ...+.+++++|.||+++|+||+|+.+.. +...|+|++||+
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~w~~~~~~sr~~~~~~~~~~~~~~~~~~~~L~P~~D~~ 240 (472)
T KOG1337|consen 161 FEIVASRRQNLVNKSAELLEVLQSHPSLFGSDLFDTFTFSAFKWAYSIVNSRAFYLPSLQRLTAGDPDDNEALAPLIDLL 240 (472)
T ss_pred hHHHHHHHHHhhhhHHHHHHHHHhccccccccccCccchHHHHHHHHHHhhhhhccccccccccCCCCcchhhhhhHHhh
Confidence 99888888777776666666554421 1123489999999999999999998654 246899999999
Q ss_pred ccCCCCCCCCCCCCcccccCCCCCCCCCCCCCCccccchhhhccccccCCCCcccCCceEEEEEecccCCCceEEeccCC
Q 045070 214 NYAAPGEGEESNIGIEDVEGWMPAPCLPKGDTTDVLDSEKFNAHLHRLTDGRFEEDVNSYCFYARNNYKRGEQVLLSYGT 293 (441)
Q Consensus 214 NH~~~~~~~~~~~~~~~~~~~~p~~d~~n~~~~~~~~~~~f~~~~~~~~~g~~~~~~~~~~l~a~~~i~~Geev~isYG~ 293 (441)
||++... .++|+..++.+.+++.++|++|+||||+||+
T Consensus 241 NH~~~~~------------------------------------------~~~~~~~d~~~~l~~~~~v~~geevfi~YG~ 278 (472)
T KOG1337|consen 241 NHSPEVI------------------------------------------KAGYNQEDEAVELVAERDVSAGEEVFINYGP 278 (472)
T ss_pred ccCchhc------------------------------------------cccccCCCCcEEEEEeeeecCCCeEEEecCC
Confidence 9986421 0124445568999999999999999999999
Q ss_pred CCcHHHHHhcCcccCCCCCCeEEeccCCCCcc-----------CCCCCCccee-ecCCCCCCHHHHHHHHHhcCCchhh-
Q 045070 294 YTNLELLEHYGFLLNENPNDKVFISLEPGMYS-----------CCSWPRESQY-VDQNGKPSFSLLSALRLWMTPVNQR- 360 (441)
Q Consensus 294 ~sN~~LL~~YGFv~~~Np~D~v~l~~~~~l~~-----------~~~~~~~~~~-~~~~g~~~~~LL~~lRv~~~~~~e~- 360 (441)
++|.+||++||||.++||+|.|.+.+.+.... ....+....+ +...+.+....+...+++.+.....
T Consensus 279 ~~N~eLL~~YGFv~~~N~~d~v~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (472)
T KOG1337|consen 279 KSNAELLLHYGFVEEDNPYDSVTLKLALPPEDVSYLDKSDVLKKNGLPSSGEFSILLTGEPVSEMLLLFLLLDALSERLE 358 (472)
T ss_pred CchHHHHHhcCCCCCCCCcceEEEeecccccccchhHHHHHHhhcCCCCCceEEEeecCCchhhhhhhhhhhccccccch
Confidence 99999999999999999999999988875321 1122222222 3333444444444444334333222
Q ss_pred ----hhh---c---cccccCCccChhhHHHHHHHHHHH-HHHHHhcCCCCHHHHHHHHhhhccc----ccHHHHHHHHHH
Q 045070 361 ----RSV---G---HLAYSGHQLSVDNEISVMKWLSNN-CLGMLNSLPTSKEEDALLLCAIDKI----QDIYTAMELKKV 425 (441)
Q Consensus 361 ----~~~---~---~~~~~~~~ls~~nE~~~~~~L~~~-~~~~L~~~~ttleeD~~~L~~~~~~----~~~~~~~~~k~~ 425 (441)
... . .....+.+++.++|...+..+... |...+..+.+++++|+.++...... ....++..+|||
T Consensus 359 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~~~~~vl~~~~l~~~~~~~~k~~~~~~~i 438 (472)
T KOG1337|consen 359 SELVCEETSISRSCEEFLSGLPVSLDNEQKLLYGLQKLLCSLTLRVFKALIDEDESVLKDNILSKLLELLEKLRTLEKRI 438 (472)
T ss_pred hhhhhhhcccccccccccccCceeecchHHHHHHHhhccccchhcccchhhhhhhhhhcccccchhhhhhhhhhhhHHHH
Confidence 111 1 111345678889999999999999 9999999999999999999966432 336667777788
Q ss_pred Hhhcchhhh
Q 045070 426 LSDFGGEVC 434 (441)
Q Consensus 426 ~~~~~~~~~ 434 (441)
|.++-+.++
T Consensus 439 L~~~~~~~~ 447 (472)
T KOG1337|consen 439 LEKSLKLLR 447 (472)
T ss_pred HHHHHHHHH
Confidence 877777665
No 2
>KOG1338 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.97 E-value=3.5e-30 Score=247.53 Aligned_cols=247 Identities=17% Similarity=0.219 Sum_probs=193.4
Q ss_pred hhHHH-HHHHHHHHHHcC-CccCccccccccccccCCceeEEecCC---CCcceEEEcccCCCCCeEEeccCcccccccc
Q 045070 3 EEDES-LEKLLKWAAEMG-ITDSTIQNHSRSRNCLGHSLTVSHFPE---AGGRGLAAARDLTKGELILRVPKTALFTTEC 77 (441)
Q Consensus 3 ~~~~~-~~~l~~W~~~~G-~~~~~~~~~~~~~~~~~~~l~i~~~~~---~~GrGl~A~~~I~~g~~ll~IP~~~~ls~~~ 77 (441)
+++.. ...|+.|++..+ ++++ |+|.+.+.+- ..|+|++|+++|++|+.|+.+|+++++++.+
T Consensus 3 ~~~~d~~~~fl~w~k~t~eletS-------------pKi~~ndl~~v~~~~G~g~vAtesIkkgE~Lf~~prdsvLsvtt 69 (466)
T KOG1338|consen 3 RNVSDLAKRFLLWGKLTLELETS-------------PKIDNNDLPWVERIAGAGIVATESIKKGESLFAYPRDSVLSVTT 69 (466)
T ss_pred CccccHHHHHHHHHHHhhheeec-------------ccccccccchhhhhcccceeeehhhcCCceEEEecCccEEeeeh
Confidence 33444 788999999987 8886 4787776552 2489999999999999999999999999987
Q ss_pred ccccchHHHHHHhh-cCCCChhHHHHHHHHHHhhCCCCCCchHHhhhcCCC--CCcCcCCChhHHhhcCCchHHHHHHHH
Q 045070 78 LLKSDQKLSLAVNR-HLFLSPSQILIVCLLYEVGKGKSSWWYTYLMLLPRC--YEILATFGPFEKQALQVDDAIWAAEKA 154 (441)
Q Consensus 78 ~~~~~~~l~~~l~~-~~~l~~~~~Lal~Ll~e~~~~~~S~w~pYl~~LP~~--~~~pl~w~~~el~~L~~~~~~~~~~~~ 154 (441)
...--| +++..+. ...++.|..|++.|++|...+.+|+|+||++.+|+. .++|+||+++|++.|..+.++....+.
T Consensus 70 s~li~~-lps~~rv~Lne~gsw~~Lllvll~E~~~pq~SrWrPYfs~wp~p~rm~spifWdEnEl~~Ll~stvlee~~Kd 148 (466)
T KOG1338|consen 70 SALITP-LPSDIRVLLNEVGSWGMLLLVLLREKKMPQKSRWRPYFSRWPQPARMHSPIFWDENELSMLLCSTVLEETVKD 148 (466)
T ss_pred HHhccc-chHHHHHHhhcCCcHHHHHHHHHHHhhcccccccccHHHhCCChhhcCCCccCCchHHHHHhhcccchhhHhH
Confidence 632111 2222221 256889999999999999766669999999999986 578999999999998877777778888
Q ss_pred HHHHHHHHHHHH-HHHHhcCCCCcccCHHHHHHHHHHHhhcceeeCCC--------------CCcccCCcccccccCCCC
Q 045070 155 VSKAESEWKQAI-KLMEELKLKPQLLSFKAWLWASATVSSRTMHISWD--------------EAGCLCPVGDLFNYAAPG 219 (441)
Q Consensus 155 ~~~~~~~~~~~~-~~l~~~~~~~~~~t~e~f~WA~~~v~SRa~~~~~~--------------~~~~LvP~~Dm~NH~~~~ 219 (441)
...|++.|..++ |++..++---..+++|+|..+++++.+.+|.++.. .+.+|+|.+||+||+...
T Consensus 149 ~aeI~~~~i~~i~pf~~~~p~vfs~~slEdF~y~~Al~laysfdve~~~s~~~~eee~e~e~ngk~m~p~ad~lNhd~~k 228 (466)
T KOG1338|consen 149 KAEIEKDFIFVIQPFKQHCPIVFSRPSLEDFMYAYALGLAYSFDVEFLLSLDNLEEESEIECNGKLMTPIADFLNHDGLK 228 (466)
T ss_pred HHHHHHHHHHHHHHHHHhCcchhcccCHHHHHHHHHHHHHHheeeehhcchhhhhhhhccccCcccccchhhhhccchhh
Confidence 889999998765 55555422124589999999999999999998643 146899999999998652
Q ss_pred CCCCCCCCcccccCCCCCCCCCCCCCCccccchhhhccccccCCCCcccCCceEEEEEecccCCCceEEeccCCCCcHHH
Q 045070 220 EGEESNIGIEDVEGWMPAPCLPKGDTTDVLDSEKFNAHLHRLTDGRFEEDVNSYCFYARNNYKRGEQVLLSYGTYTNLEL 299 (441)
Q Consensus 220 ~~~~~~~~~~~~~~~~p~~d~~n~~~~~~~~~~~f~~~~~~~~~g~~~~~~~~~~l~a~~~i~~Geev~isYG~~sN~~L 299 (441)
+++. ++ | +++|+.+.|.|+|.+|+||+++||.|+|.
T Consensus 229 -------------------------~nan------------l~---y--~~NcL~mva~r~iekgdev~n~dg~~p~~-- 264 (466)
T KOG1338|consen 229 -------------------------ANAN------------LR---Y--EDNCLEMVADRNIEKGDEVDNSDGLKPMG-- 264 (466)
T ss_pred -------------------------cccc------------ee---c--cCcceeeeecCCCCCccccccccccCcch--
Confidence 1221 11 2 35899999999999999999999999988
Q ss_pred HHhcCccc
Q 045070 300 LEHYGFLL 307 (441)
Q Consensus 300 L~~YGFv~ 307 (441)
|++||.+.
T Consensus 265 l~~l~ka~ 272 (466)
T KOG1338|consen 265 LLKLTKAL 272 (466)
T ss_pred hhhhhhhc
Confidence 66666544
No 3
>PF00856 SET: SET domain; InterPro: IPR001214 The SET domain appears generally as one part of a larger multidomain protein, and recently there were described three structures of very different proteins with distinct domain compositions: Neurospora crassa DIM-5, a member of the Su(var) family of HKMTs which methylate histone H3 on lysine 9,human SET7 (also called SET9), which methylates H3 on lysine 4 and garden pea Rubisco LSMT, an enzyme that does not modify histones, but instead methylates lysine 14 in the flexible tail of the large subunit of the enzyme Rubisco. The SET domain itself turned out to be an uncommon structure. Although in all three studies, electron density maps revealed the location of the AdoMet or AdoHcy cofactor, the SET domain bears no similarity at all to the canonical/AdoMet-dependent methyltransferase fold. Strictly conserved in the C-terminal motif of the SET domain tyrosine could be involved in abstracting a proton from the protonated amino group of the substrate lysine, promoting its nucleophilic attack on the sulphonium methyl group of the AdoMet cofactor. In contrast to the AdoMet-dependent protein methyltranferases of the classical type, which tend to bind their polypeptide substrates on top of the cofactor, it is noted from the Rubisco LSMT structure that the AdoMet seems to bind in a separate cleft, suggesting how a polypeptide substrate could be subjected to multiple rounds of methylation without having to be released from the enzyme. In contrast, SET7/9 is able to add only a single methyl group to its substrate. It has been demonstrated that association of SET domain and myotubularin-related proteins modulates growth control []. The SET domain-containing Drosophila melanogaster (Fruit fly) protein, enhancer of zeste, has a function in segment determination and the mammalian homologue may be involved in the regulation of gene transcription and chromatin structure. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity [], []. ; GO: 0005515 protein binding; PDB: 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3H6L_A 3SMT_A 3K5K_A ....
Probab=99.62 E-value=4.5e-16 Score=137.19 Aligned_cols=29 Identities=48% Similarity=0.911 Sum_probs=25.8
Q ss_pred cceEEEcccCCCCCeEEeccCccccccccc
Q 045070 49 GRGLAAARDLTKGELILRVPKTALFTTECL 78 (441)
Q Consensus 49 GrGl~A~~~I~~g~~ll~IP~~~~ls~~~~ 78 (441)
||||+|+++|++|++|+ ||..++++...+
T Consensus 1 GrGl~At~dI~~Ge~I~-~p~~~~~~~~~~ 29 (162)
T PF00856_consen 1 GRGLFATRDIKAGEVIL-IPRPAILTPDEV 29 (162)
T ss_dssp SEEEEESS-B-TTEEEE-EESEEEEEHHHH
T ss_pred CEEEEECccCCCCCEEE-EECcceEEehhh
Confidence 89999999999999999 999999999876
No 4
>PF09273 Rubis-subs-bind: Rubisco LSMT substrate-binding; InterPro: IPR015353 This domain adopts a multihelical structure, with an irregular array of long and short alpha-helices. It allows binding of the protein to substrate, such as the N-terminal tails of histones H3 and H4 and the large subunit of the Rubisco holoenzyme complex []. ; PDB: 3QXY_A 3RC0_A 1P0Y_A 2H2E_C 2H23_A 1MLV_C 2H2J_B 2H21_B 1OZV_C 3SMT_A.
Probab=99.43 E-value=3.2e-13 Score=115.80 Aligned_cols=91 Identities=30% Similarity=0.422 Sum_probs=74.1
Q ss_pred ecCCCCCCHHHHHHHHHhcCCchhhhhhcccc------ccCCccChhhHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHhh
Q 045070 336 VDQNGKPSFSLLSALRLWMTPVNQRRSVGHLA------YSGHQLSVDNEISVMKWLSNNCLGMLNSLPTSKEEDALLLCA 409 (441)
Q Consensus 336 ~~~~g~~~~~LL~~lRv~~~~~~e~~~~~~~~------~~~~~ls~~nE~~~~~~L~~~~~~~L~~~~ttleeD~~~L~~ 409 (441)
+..+|.++++|++++||++++++|+..+.... ....++|.+||.+++++|..+|...|++||||+|||+++|++
T Consensus 28 l~~~~~~~~~Ll~~lRv~~~~~~e~~~~~~~~~~~~~~~~~~~ls~~nE~~~l~~L~~~~~~~L~~y~TtleeD~~~L~~ 107 (128)
T PF09273_consen 28 LRADGPLPPELLAALRVLLMTEEELRALKSLADSSEWSDRSEPLSPENEIAALQFLIDLCEARLSAYPTTLEEDEELLQS 107 (128)
T ss_dssp EECCSSSHHHHHHHHHHHHSCHHHHHHHHHCGTTTHCCHCCC-SBHHHHHHHHHHHHHHHHHHHTTSSS-HHHHHHHCHT
T ss_pred eeCCCCCCHHHHHHHHHHHcChHHHHHHHHhhcccccccccCCCchhhHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHhc
Confidence 34444459999999999999999887654321 134689999999999999999999999999999999999999
Q ss_pred hcccc----cHHHHHHHHHHH
Q 045070 410 IDKIQ----DIYTAMELKKVL 426 (441)
Q Consensus 410 ~~~~~----~~~~~~~~k~~~ 426 (441)
..... ++++|+++|+||
T Consensus 108 ~~~~~~~~~A~~~R~~EK~IL 128 (128)
T PF09273_consen 108 NDLSSRRRMALQVRLGEKRIL 128 (128)
T ss_dssp CCCHHHHHHHHHHHHHHHHHH
T ss_pred CCCcHHHHHHHHHHHHhHhcC
Confidence 87754 488889998886
No 5
>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain. Putative methyl transferase, based on outlier plant homologues
Probab=98.44 E-value=3.4e-07 Score=76.14 Aligned_cols=35 Identities=31% Similarity=0.420 Sum_probs=26.9
Q ss_pred EEecCCCCcceEEEcccCCCCCeEEeccCccccccc
Q 045070 41 VSHFPEAGGRGLAAARDLTKGELILRVPKTALFTTE 76 (441)
Q Consensus 41 i~~~~~~~GrGl~A~~~I~~g~~ll~IP~~~~ls~~ 76 (441)
+...++ .|+||+|+++|++|+.|+..|-..+....
T Consensus 4 ~~~~~~-~G~gl~a~~~i~~g~~i~~~~g~~~~~~~ 38 (116)
T smart00317 4 VFKSPG-KGWGVRATEDIPKGEFIGEYVGEIITSEE 38 (116)
T ss_pred EEecCC-CcEEEEECCccCCCCEEEEEEeEEECHHH
Confidence 333453 59999999999999999988877665543
No 6
>KOG2589 consensus Histone tail methylase [Chromatin structure and dynamics]
Probab=90.74 E-value=0.2 Score=49.48 Aligned_cols=23 Identities=22% Similarity=0.527 Sum_probs=21.6
Q ss_pred ceEEEEEecccCCCceEEeccCC
Q 045070 271 NSYCFYARNNYKRGEQVLLSYGT 293 (441)
Q Consensus 271 ~~~~l~a~~~i~~Geev~isYG~ 293 (441)
+...+++.|||++||||+..||.
T Consensus 216 ~tacvkvlRDIePGeEITcFYgs 238 (453)
T KOG2589|consen 216 DTACVKVLRDIEPGEEITCFYGS 238 (453)
T ss_pred ceeeeehhhcCCCCceeEEeecc
Confidence 67889999999999999999998
No 7
>KOG1085 consensus Predicted methyltransferase (contains a SET domain) [General function prediction only]
Probab=85.24 E-value=0.57 Score=44.87 Aligned_cols=31 Identities=23% Similarity=0.453 Sum_probs=27.4
Q ss_pred ceEEEEEecccCCCceEEeccCCCCcHHHHH
Q 045070 271 NSYCFYARNNYKRGEQVLLSYGTYTNLELLE 301 (441)
Q Consensus 271 ~~~~l~a~~~i~~Geev~isYG~~sN~~LL~ 301 (441)
.-+.|.|.++|.+|||++..||.+|-+-++.
T Consensus 356 pHLiLvA~rdIa~GEELlYDYGDRSkesi~~ 386 (392)
T KOG1085|consen 356 PHLILVARRDIAQGEELLYDYGDRSKESIAK 386 (392)
T ss_pred ceEEEEeccccccchhhhhhccccchhHHhh
Confidence 5789999999999999999999998776653
No 8
>KOG4442 consensus Clathrin coat binding protein/Huntingtin interacting protein HIP1, involved in regulation of endocytosis [Intracellular trafficking, secretion, and vesicular transport]
Probab=78.99 E-value=1.8 Score=46.46 Aligned_cols=24 Identities=21% Similarity=0.335 Sum_probs=20.6
Q ss_pred CceEEEEEecccCCCceEEeccCC
Q 045070 270 VNSYCFYARNNYKRGEQVLLSYGT 293 (441)
Q Consensus 270 ~~~~~l~a~~~i~~Geev~isYG~ 293 (441)
...+-+.+.+.|++||||+..|+-
T Consensus 215 ~lRvGiFakk~I~~GEEITFDYqf 238 (729)
T KOG4442|consen 215 ELRVGIFAKKVIKPGEEITFDYQF 238 (729)
T ss_pred eeEEEEeEecccCCCceeeEeccc
Confidence 356778899999999999999984
No 9
>KOG1083 consensus Putative transcription factor ASH1/LIN-59 [Transcription]
Probab=57.71 E-value=16 Score=41.30 Aligned_cols=24 Identities=17% Similarity=0.375 Sum_probs=21.1
Q ss_pred eEEEEEecccCCCceEEeccCCCC
Q 045070 272 SYCFYARNNYKRGEQVLLSYGTYT 295 (441)
Q Consensus 272 ~~~l~a~~~i~~Geev~isYG~~s 295 (441)
.+.|.|.|+|.+||||+..|.-++
T Consensus 1274 Rv~L~A~rDi~kGEELtYDYN~ks 1297 (1306)
T KOG1083|consen 1274 RVGLFALRDLPKGEELTYDYNFKS 1297 (1306)
T ss_pred eeeeeecCCCCCCceEEEeccccc
Confidence 577899999999999999998754
No 10
>KOG1085 consensus Predicted methyltransferase (contains a SET domain) [General function prediction only]
Probab=46.96 E-value=22 Score=34.41 Aligned_cols=30 Identities=20% Similarity=0.364 Sum_probs=25.0
Q ss_pred ceeEEecCCCCcceEEEcccCCCCCeEEecc
Q 045070 38 SLTVSHFPEAGGRGLAAARDLTKGELILRVP 68 (441)
Q Consensus 38 ~l~i~~~~~~~GrGl~A~~~I~~g~~ll~IP 68 (441)
.+.+..+-+ .||||+|+..++.|+.|+.--
T Consensus 257 gl~~~~~dg-KGRGv~a~~~F~rgdFVVEY~ 286 (392)
T KOG1085|consen 257 GLLEVYKDG-KGRGVRAKVNFERGDFVVEYR 286 (392)
T ss_pred ceeEEeecc-ccceeEeecccccCceEEEEe
Confidence 677777765 699999999999999988643
No 11
>KOG1082 consensus Histone H3 (Lys9) methyltransferase SUV39H1/Clr4, required for transcriptional silencing [Chromatin structure and dynamics; Transcription]
Probab=43.56 E-value=17 Score=36.93 Aligned_cols=26 Identities=27% Similarity=0.456 Sum_probs=22.1
Q ss_pred ceEEEEEecccCCCceEEeccCCCCc
Q 045070 271 NSYCFYARNNYKRGEQVLLSYGTYTN 296 (441)
Q Consensus 271 ~~~~l~a~~~i~~Geev~isYG~~sN 296 (441)
-.+.+.|.++|.+|+|++..||.--+
T Consensus 299 ~~i~ffa~~~I~p~~ELT~dYg~~~~ 324 (364)
T KOG1082|consen 299 LRIGFFALRDISPGEELTLDYGKAYK 324 (364)
T ss_pred heeeeeeccccCCCcccchhhccccc
Confidence 45778899999999999999998533
No 12
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=43.49 E-value=17 Score=41.59 Aligned_cols=23 Identities=17% Similarity=0.446 Sum_probs=20.5
Q ss_pred ceEEEEEecccCCCceEEeccCC
Q 045070 271 NSYCFYARNNYKRGEQVLLSYGT 293 (441)
Q Consensus 271 ~~~~l~a~~~i~~Geev~isYG~ 293 (441)
..++++|.|+|.+||||+..|--
T Consensus 962 ~~IvIyakr~I~~~EElTYDYkF 984 (1005)
T KOG1080|consen 962 KRIVIYSKRDIAAGEELTYDYKF 984 (1005)
T ss_pred eEEEEEEecccccCceeeeeccc
Confidence 47999999999999999988864
No 13
>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain. Putative methyl transferase, based on outlier plant homologues
Probab=42.23 E-value=39 Score=26.99 Aligned_cols=29 Identities=21% Similarity=0.202 Sum_probs=20.4
Q ss_pred CceeEEecCCCC--cceEEEcccCCCCCeEE
Q 045070 37 HSLTVSHFPEAG--GRGLAAARDLTKGELIL 65 (441)
Q Consensus 37 ~~l~i~~~~~~~--GrGl~A~~~I~~g~~ll 65 (441)
|++.+......+ ...++|+++|++||.|.
T Consensus 83 pN~~~~~~~~~~~~~~~~~a~r~I~~GeEi~ 113 (116)
T smart00317 83 PNCELLFVEVNGDSRIVIFALRDIKPGEELT 113 (116)
T ss_pred CCEEEEEEEECCCcEEEEEECCCcCCCCEEe
Confidence 566655443321 27889999999999886
No 14
>KOG1141 consensus Predicted histone methyl transferase [Chromatin structure and dynamics]
Probab=40.59 E-value=12 Score=41.23 Aligned_cols=51 Identities=24% Similarity=0.314 Sum_probs=33.2
Q ss_pred CCccccchhhhccccccCCCCcccCCceEEEEEecccCCCceEEeccCC----CCcHHHHHhcC
Q 045070 245 TTDVLDSEKFNAHLHRLTDGRFEEDVNSYCFYARNNYKRGEQVLLSYGT----YTNLELLEHYG 304 (441)
Q Consensus 245 ~~~~~~~~~f~~~~~~~~~g~~~~~~~~~~l~a~~~i~~Geev~isYG~----~sN~~LL~~YG 304 (441)
||..+.++.+|.|.-+ | .-+.+.|.+-|++|.|++..||- -.-.+|+...|
T Consensus 1199 PNl~VQnVfvdTHdlr-----f----PwVAFFt~kyVkAgtELTWDY~Ye~g~v~~keL~C~CG 1253 (1262)
T KOG1141|consen 1199 PNLHVQNVFVDTHDLR-----F----PWVAFFTRKYVKAGTELTWDYQYEQGQVATKELTCHCG 1253 (1262)
T ss_pred ccceeeeeeeeccccC-----C----chhhhhhhhhhccCceeeeeccccccccccceEEEecC
Confidence 4555655555543322 2 34667788999999999999976 33456666655
No 15
>KOG1079 consensus Transcriptional repressor EZH1 [Transcription]
Probab=37.78 E-value=22 Score=38.32 Aligned_cols=23 Identities=17% Similarity=0.472 Sum_probs=19.8
Q ss_pred ceEEEEEecccCCCceEEeccCC
Q 045070 271 NSYCFYARNNYKRGEQVLLSYGT 293 (441)
Q Consensus 271 ~~~~l~a~~~i~~Geev~isYG~ 293 (441)
..+-++|.|.|.+|||+|..|+=
T Consensus 688 hRIGifAkRaIeagEELffDYrY 710 (739)
T KOG1079|consen 688 HRIGIFAKRAIEAGEELFFDYRY 710 (739)
T ss_pred cceeeeehhhcccCceeeeeecc
Confidence 45678999999999999999874
No 16
>COG2940 Proteins containing SET domain [General function prediction only]
Probab=35.62 E-value=22 Score=37.46 Aligned_cols=22 Identities=32% Similarity=0.608 Sum_probs=20.1
Q ss_pred eEEEEEecccCCCceEEeccCC
Q 045070 272 SYCFYARNNYKRGEQVLLSYGT 293 (441)
Q Consensus 272 ~~~l~a~~~i~~Geev~isYG~ 293 (441)
.+..++.++|.+|+||++.||.
T Consensus 429 ~~~~~~~rDI~~geEl~~dy~~ 450 (480)
T COG2940 429 KISIYAIRDIKAGEELTYDYGP 450 (480)
T ss_pred eeeecccccchhhhhhcccccc
Confidence 5778889999999999999998
No 17
>TIGR02059 swm_rep_I cyanobacterial long protein repeat. This domain appears in 29 copies in a large (10000 amino protein in Synechococcus sp. WH8102 associated with a novel flagellar system, as one of three different repeats. Similar domains are found in two different large (<3500) proteins of Synechocystis PCC6803.
Probab=33.10 E-value=54 Score=26.64 Aligned_cols=27 Identities=19% Similarity=0.272 Sum_probs=22.8
Q ss_pred CCceEEEEEecccCCCceEEeccCCCC
Q 045070 269 DVNSYCFYARNNYKRGEQVLLSYGTYT 295 (441)
Q Consensus 269 ~~~~~~l~a~~~i~~Geev~isYG~~s 295 (441)
..+.+.|...+.|..||+|.++|-.-+
T Consensus 73 s~ktVTLTL~~~V~~Gq~VTVsYt~ps 99 (101)
T TIGR02059 73 SNTTITLTLAQVVEDGDEVTLSYTKNS 99 (101)
T ss_pred cccEEEEEecccccCCCEEEEEeeCCC
Confidence 345889999999999999999997643
No 18
>PF00856 SET: SET domain; InterPro: IPR001214 The SET domain appears generally as one part of a larger multidomain protein, and recently there were described three structures of very different proteins with distinct domain compositions: Neurospora crassa DIM-5, a member of the Su(var) family of HKMTs which methylate histone H3 on lysine 9,human SET7 (also called SET9), which methylates H3 on lysine 4 and garden pea Rubisco LSMT, an enzyme that does not modify histones, but instead methylates lysine 14 in the flexible tail of the large subunit of the enzyme Rubisco. The SET domain itself turned out to be an uncommon structure. Although in all three studies, electron density maps revealed the location of the AdoMet or AdoHcy cofactor, the SET domain bears no similarity at all to the canonical/AdoMet-dependent methyltransferase fold. Strictly conserved in the C-terminal motif of the SET domain tyrosine could be involved in abstracting a proton from the protonated amino group of the substrate lysine, promoting its nucleophilic attack on the sulphonium methyl group of the AdoMet cofactor. In contrast to the AdoMet-dependent protein methyltranferases of the classical type, which tend to bind their polypeptide substrates on top of the cofactor, it is noted from the Rubisco LSMT structure that the AdoMet seems to bind in a separate cleft, suggesting how a polypeptide substrate could be subjected to multiple rounds of methylation without having to be released from the enzyme. In contrast, SET7/9 is able to add only a single methyl group to its substrate. It has been demonstrated that association of SET domain and myotubularin-related proteins modulates growth control []. The SET domain-containing Drosophila melanogaster (Fruit fly) protein, enhancer of zeste, has a function in segment determination and the mammalian homologue may be involved in the regulation of gene transcription and chromatin structure. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity [], []. ; GO: 0005515 protein binding; PDB: 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3H6L_A 3SMT_A 3K5K_A ....
Probab=28.28 E-value=55 Score=27.46 Aligned_cols=29 Identities=34% Similarity=0.381 Sum_probs=18.9
Q ss_pred CceeEEec--CCCCcceEEEcccCCCCCeEE
Q 045070 37 HSLTVSHF--PEAGGRGLAAARDLTKGELIL 65 (441)
Q Consensus 37 ~~l~i~~~--~~~~GrGl~A~~~I~~g~~ll 65 (441)
|++.+... ++....-++|+++|++|+.|.
T Consensus 128 pn~~~~~~~~~~~~~~~~~a~r~I~~GeEi~ 158 (162)
T PF00856_consen 128 PNCEVSFDFDGDGGCLVVRATRDIKKGEEIF 158 (162)
T ss_dssp TSEEEEEEEETTTTEEEEEESS-B-TTSBEE
T ss_pred cccceeeEeecccceEEEEECCccCCCCEEE
Confidence 45555544 334578889999999999886
No 19
>KOG2461 consensus Transcription factor BLIMP-1/PRDI-BF1, contains C2H2-type Zn-finger and SET domains [Transcription]
Probab=25.45 E-value=59 Score=33.40 Aligned_cols=34 Identities=21% Similarity=0.298 Sum_probs=30.6
Q ss_pred ceEEEEEecccCCCceEEeccCCCCcHHHHHhcC
Q 045070 271 NSYCFYARNNYKRGEQVLLSYGTYTNLELLEHYG 304 (441)
Q Consensus 271 ~~~~l~a~~~i~~Geev~isYG~~sN~~LL~~YG 304 (441)
..+-.+|.|+|++|+|+.+-||.--+.+|...+|
T Consensus 122 ~~Ifyrt~r~I~p~eELlVWY~~e~~~~L~~~~~ 155 (396)
T KOG2461|consen 122 ENIFYRTIRDIRPNEELLVWYGSEYAEELAYGHG 155 (396)
T ss_pred CceEEEecccCCCCCeEEEEeccchHhHhcccCC
Confidence 4577899999999999999999988889888888
No 20
>PF08666 SAF: SAF domain; InterPro: IPR013974 This entry includes a range of different proteins, such as antifreeze proteins, flagellar FlgA proteins, and CpaB pilus proteins. ; PDB: 1C89_A 3NLA_A 3RDN_A 1C8A_A 3FRN_A 1WVO_A 3K3S_H 3G8R_B 1XUU_A 1XUZ_A ....
Probab=21.25 E-value=53 Score=23.47 Aligned_cols=14 Identities=43% Similarity=0.658 Sum_probs=9.2
Q ss_pred eEEEcccCCCCCeE
Q 045070 51 GLAAARDLTKGELI 64 (441)
Q Consensus 51 Gl~A~~~I~~g~~l 64 (441)
-++|+++|++|+.|
T Consensus 3 vvVA~~di~~G~~i 16 (63)
T PF08666_consen 3 VVVAARDIPAGTVI 16 (63)
T ss_dssp EEEESSTB-TT-BE
T ss_pred EEEEeCccCCCCEE
Confidence 46788888888766
Done!