Query psy8426
Match_columns 278
No_of_seqs 285 out of 1518
Neff 6.9
Searched_HMMs 46136
Date Fri Aug 16 18:34:11 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8426.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8426hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2589|consensus 100.0 1.4E-56 3.1E-61 409.7 11.7 251 1-260 65-325 (453)
2 KOG4442|consensus 100.0 2.7E-29 5.8E-34 245.9 8.5 172 14-201 82-262 (729)
3 KOG1080|consensus 99.8 9.2E-21 2E-25 195.8 10.0 123 75-198 873-1004(1005)
4 smart00317 SET SET (Su(var)3-9 99.8 7.6E-20 1.7E-24 143.4 9.9 102 76-177 8-116 (116)
5 KOG1082|consensus 99.7 2.5E-17 5.4E-22 156.4 6.7 124 77-200 185-355 (364)
6 PF00856 SET: SET domain; Int 99.6 2.9E-16 6.2E-21 128.3 5.6 48 131-178 112-162 (162)
7 KOG1083|consensus 99.5 2.2E-15 4.8E-20 153.2 2.6 110 74-183 1184-1299(1306)
8 KOG1079|consensus 99.5 1.8E-14 4E-19 141.5 6.6 96 78-180 604-711 (739)
9 KOG1085|consensus 99.5 7.2E-14 1.6E-18 125.8 8.3 104 77-180 265-379 (392)
10 COG2940 Proteins containing SE 99.4 1E-13 2.2E-18 136.2 2.6 122 77-198 341-479 (480)
11 KOG1141|consensus 98.7 6.6E-09 1.4E-13 104.6 2.2 68 131-198 1183-1261(1262)
12 KOG2461|consensus 97.9 3.8E-06 8.1E-11 80.7 2.1 103 74-181 36-146 (396)
13 KOG1081|consensus 97.8 6.2E-06 1.3E-10 80.9 1.3 70 130-199 364-437 (463)
14 KOG2084|consensus 97.4 0.00031 6.8E-09 67.8 6.8 59 137-196 205-274 (482)
15 KOG1337|consensus 92.8 0.079 1.7E-06 52.2 2.9 42 138-179 237-278 (472)
16 KOG1338|consensus 74.0 2.4 5.3E-05 40.9 2.5 43 136-179 217-260 (466)
17 smart00508 PostSET Cysteine-ri 64.2 3.8 8.3E-05 24.1 1.0 16 185-200 3-18 (26)
18 PF08666 SAF: SAF domain; Int 61.1 5.3 0.00011 27.5 1.5 16 160-175 3-18 (63)
19 KOG2155|consensus 50.4 11 0.00023 37.3 2.0 44 137-180 204-252 (631)
20 PF12854 PPR_1: PPR repeat 41.6 33 0.00071 20.8 2.7 21 3-23 12-32 (34)
21 PF03128 CXCXC: CXCXC repeat; 38.5 13 0.00029 18.5 0.4 12 181-192 3-14 (14)
22 KOG1141|consensus 38.0 17 0.00038 38.4 1.5 31 71-102 803-833 (1262)
23 smart00858 SAF This domain fam 33.8 29 0.00063 23.5 1.7 16 160-175 3-18 (64)
24 TIGR00756 PPR pentatricopeptid 32.0 52 0.0011 18.6 2.4 23 2-24 4-26 (35)
25 PF08756 YfkB: YfkB-like domai 28.2 51 0.0011 27.5 2.4 13 185-197 120-132 (153)
26 TIGR02059 swm_rep_I cyanobacte 27.4 71 0.0015 25.0 3.0 23 158-180 76-98 (101)
27 PF02847 MA3: MA3 domain; Int 26.0 85 0.0018 23.9 3.3 32 2-33 6-37 (113)
28 KOG1083|consensus 25.5 49 0.0011 36.1 2.3 35 66-100 1261-1296(1306)
29 COG0057 GapA Glyceraldehyde-3- 25.5 2.6E+02 0.0056 26.6 6.9 56 47-102 36-101 (335)
30 TIGR03586 PseI pseudaminic aci 23.4 1.1E+02 0.0024 28.9 4.1 52 42-95 237-291 (327)
31 PF13041 PPR_2: PPR repeat fam 22.2 87 0.0019 20.1 2.3 22 3-24 8-29 (50)
32 smart00544 MA3 Domain in DAP-5 21.9 1.4E+02 0.003 22.8 3.8 29 2-30 6-34 (113)
33 smart00668 CTLH C-terminal to 21.5 1.4E+02 0.003 19.6 3.4 46 4-63 7-52 (58)
34 PF01535 PPR: PPR repeat; Int 21.4 95 0.0021 17.2 2.2 23 2-24 4-26 (31)
No 1
>KOG2589|consensus
Probab=100.00 E-value=1.4e-56 Score=409.70 Aligned_cols=251 Identities=49% Similarity=0.831 Sum_probs=231.7
Q ss_pred CHHHHHHHhhcCCHHHHHHHhhccCCCccHHHHHHHHHhhcCCchhhhhhHHHHHHhhhhhhcC----CCcccceeeecC
Q psy8426 1 MKSIVHNLILHVPIQLACHLLNKLNPSFWAFCVQALLAQRFNIGRILDMGTQHHRYSYRIQYLP----ELKPCYRYSLEG 76 (278)
Q Consensus 1 ~~~~~~~~~~~~~~~~a~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~f~~h~~~yl~~~~~----~i~~~~Rys~~~ 76 (278)
||.|++.|+++.|++.|+ +.|+.+.|+.+|+ .++++.+..+|++|+++||.+|+| +|.+|+||+.++
T Consensus 65 l~~i~k~f~~q~dld~A~---k~i~~g~w~~~~l------~~~~~~~~~~f~~Hi~ryLr~fl~dsgf~I~~c~rYs~e~ 135 (453)
T KOG2589|consen 65 LKIITKYFIEQTDLDQAI---KNILQGRWLDHLL------RNLNKTSLKAFTDHIVRYLRMFLPDSGFEICSCNRYSSES 135 (453)
T ss_pred HHHHHHHHHHhhhHHHHH---HHHHhcchhhHHH------hhCChhHHHHHHHHHHHHHHHhcccCCceEeecccccccc
Confidence 588999999999999999 9999999999999 577999999999999999999999 999999999998
Q ss_pred CcCeeEEeCccCCCCCeEEeceeEEeecCHHHHHHHHhcCCCCceeeeccccCcceeecCccccCCCCCCCCeEEEEcCc
Q psy8426 77 NRGARIVATRKWEKNDNIAYLVGCIAELTKEEEKRLLHTGLNDFSVMYSCRKNCAQLWLGPAAYINHDCRPNCRFVATER 156 (278)
Q Consensus 77 ~~G~Gl~A~r~I~~Ge~I~e~~G~i~~l~~~e~~~~~~~~~ndfsi~~s~~~~~~~l~~g~arfiNHSC~PN~~~~~~g~ 156 (278)
+.|+.|+|++.|.+||.|..++|+|+++++.++..++..+.|||+||||++++++++|+|||+||||+|.|||+|+..|.
T Consensus 136 ~~gAkivst~~w~~ndkIe~LvGcIaeLse~eE~~ll~~g~nDFSvmyStRk~caqLwLGPaafINHDCrpnCkFvs~g~ 215 (453)
T KOG2589|consen 136 QNGAKIVSTKSWSRNDKIELLVGCIAELSEAEERSLLRGGGNDFSVMYSTRKRCAQLWLGPAAFINHDCRPNCKFVSTGR 215 (453)
T ss_pred CCCceEEeeccccCCccHHHhhhhhhhcChhhhHHHHhccCCceeeeeecccchhhheeccHHhhcCCCCCCceeecCCC
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred eEEEEEEecCCCCCCeeeeecCcCCCCCcceeecCcCCCCcccccccCCCCCCCC--CCCCccccchhHHHHHhhHhhH-
Q psy8426 157 DTACVKVLRDIEQGEEITCFYGEDFFGDKNCLCECDTCEIRMKGAFAQSSVEPQT--TQPSRYCLRDTDMRLNKRKLHK- 233 (278)
Q Consensus 157 ~~~~i~A~RdI~~GEEITi~Y~~~~~~~~~c~C~c~~C~~~~~g~~~~~~~~~~~--~~~~~y~lr~~~~r~~r~k~~~- 233 (278)
.+++|+++|||+||||||+.||++|||..++.|.|.+|++.+.|+|+.....+.. ....+|.+++++.|++|-+...
T Consensus 216 ~tacvkvlRDIePGeEITcFYgs~fFG~~N~~CeC~TCER~g~gaFk~~~g~~s~~p~~s~ky~lret~~r~nr~~~s~~ 295 (453)
T KOG2589|consen 216 DTACVKVLRDIEPGEEITCFYGSGFFGENNEECECVTCERRGTGAFKKLAGLPSCSPKISSKYSLRETDPRSNRYKISGE 295 (453)
T ss_pred ceeeeehhhcCCCCceeEEeecccccCCCCceeEEeecccccccchhhccCCCCCCCcccccchhhhhhhhhhhheeccc
Confidence 8999999999999999999999999999999999999999999999987554432 3467999999999999988775
Q ss_pred ---HHhhhhhccCCCCCCCCCCCCccceee
Q psy8426 234 ---KLNRLLLASDKNDTNSSDNSSKYSLVQ 260 (278)
Q Consensus 234 ---~~~~~~~~~~~~~~~s~~~~~~~~~~~ 260 (278)
.+..+..+.+.+++.++...+.++|+.
T Consensus 296 ~~~~l~~~s~~~~~~~~~~s~~~~~~~L~~ 325 (453)
T KOG2589|consen 296 DSSNLNSWSSSGELDDASSSELDEEFSLFI 325 (453)
T ss_pred ccccCCccccCCCCCCCCchhhccccceec
Confidence 455566777777777777777777764
No 2
>KOG4442|consensus
Probab=99.96 E-value=2.7e-29 Score=245.89 Aligned_cols=172 Identities=20% Similarity=0.221 Sum_probs=138.8
Q ss_pred HHHHHHHhhccCCCccHHHHHHHHHhhcCCchhhhhhHHHHHHhhhhhhcCCCcccceeeecCCcCeeEEeCccCCCCCe
Q psy8426 14 IQLACHLLNKLNPSFWAFCVQALLAQRFNIGRILDMGTQHHRYSYRIQYLPELKPCYRYSLEGNRGARIVATRKWEKNDN 93 (278)
Q Consensus 14 ~~~a~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~f~~h~~~yl~~~~~~i~~~~Rys~~~~~G~Gl~A~r~I~~Ge~ 93 (278)
..-...|++.+|+.+...+++. -+-...++++|++|.+.-..+|+. .++||||+|.++|++|+|
T Consensus 82 ~~cg~~CiNr~t~iECs~~~C~-----~cg~~C~NQRFQkkqyA~vevF~T-----------e~KG~GLRA~~dI~~g~F 145 (729)
T KOG4442|consen 82 CACGEDCINRMTSIECSDRECP-----RCGVYCKNQRFQKKQYAKVEVFLT-----------EKKGCGLRAEEDIPKGQF 145 (729)
T ss_pred cccCccccchhhhcccCCccCC-----CccccccchhhhhhccCceeEEEe-----------cCcccceeeccccCCCcE
Confidence 3334467788888888877763 145788999999998776655553 278999999999999999
Q ss_pred EEeceeEEeecCHHHHHH--HHhcCCCCceeeecc--ccCcceeecCccccCCCCCCCCeEE---EEcCceEEEEEEecC
Q psy8426 94 IAYLVGCIAELTKEEEKR--LLHTGLNDFSVMYSC--RKNCAQLWLGPAAYINHDCRPNCRF---VATERDTACVKVLRD 166 (278)
Q Consensus 94 I~e~~G~i~~l~~~e~~~--~~~~~~ndfsi~~s~--~~~~~~l~~g~arfiNHSC~PN~~~---~~~g~~~~~i~A~Rd 166 (278)
|+||.|+|++..+.+.+. |...+..+|.+|.-. ...+|+..++.||||||||+|||++ .+.+..+|+|||.|.
T Consensus 146 I~EY~GEVI~~~Ef~kR~~~Y~~d~~kh~Yfm~L~~~e~IDAT~KGnlaRFiNHSC~PNa~~~KWtV~~~lRvGiFakk~ 225 (729)
T KOG4442|consen 146 ILEYIGEVIEEKEFEKRVKRYAKDGIKHYYFMALQGGEYIDATKKGNLARFINHSCDPNAEVQKWTVPDELRVGIFAKKV 225 (729)
T ss_pred EeeeccccccHHHHHHHHHHHHhcCCceEEEEEecCCceecccccCcHHHhhcCCCCCCceeeeeeeCCeeEEEEeEecc
Confidence 999999998766665433 344456677777633 2346888999999999999999986 445778999999999
Q ss_pred CCCCCeeeeecCcCCCCC--cceeecCcCCCCccccc
Q psy8426 167 IEQGEEITCFYGEDFFGD--KNCLCECDTCEIRMKGA 201 (278)
Q Consensus 167 I~~GEEITi~Y~~~~~~~--~~c~C~c~~C~~~~~g~ 201 (278)
|.+|||||+||....+|. ..|.|+.++|+|+++|.
T Consensus 226 I~~GEEITFDYqf~rYGr~AQ~CyCgeanC~G~IGgk 262 (729)
T KOG4442|consen 226 IKPGEEITFDYQFDRYGRDAQPCYCGEANCRGWIGGK 262 (729)
T ss_pred cCCCceeeEecccccccccccccccCCcccccccCCC
Confidence 999999999999999884 68999999999999774
No 3
>KOG1080|consensus
Probab=99.83 E-value=9.2e-21 Score=195.84 Aligned_cols=123 Identities=25% Similarity=0.288 Sum_probs=94.1
Q ss_pred cCCcCeeEEeCccCCCCCeEEeceeEEeecCH--HHHHHHHhcC---CCCceeeeccccCcceeecCccccCCCCCCCCe
Q psy8426 75 EGNRGARIVATRKWEKNDNIAYLVGCIAELTK--EEEKRLLHTG---LNDFSVMYSCRKNCAQLWLGPAAYINHDCRPNC 149 (278)
Q Consensus 75 ~~~~G~Gl~A~r~I~~Ge~I~e~~G~i~~l~~--~e~~~~~~~~---~ndfsi~~s~~~~~~~l~~g~arfiNHSC~PN~ 149 (278)
...|||||||.+.|.+||+|+||.|+++.-.- ..+..|...+ ...|.+.+ .+.-+|+-.+|.||||||||.|||
T Consensus 873 s~iH~wglfa~~~i~~~dmViEY~Ge~vR~~iad~RE~~Y~~~gi~~sYlfrid~-~~ViDAtk~gniAr~InHsC~PNC 951 (1005)
T KOG1080|consen 873 SGIHGWGLFAMENIAAGDMVIEYRGELVRSSIADLREARYERMGIGDSYLFRIDD-EVVVDATKKGNIARFINHSCNPNC 951 (1005)
T ss_pred ccccccceeeccCccccceEEEeeceehhhhHHHHHHHHHhccCcccceeeeccc-ceEEeccccCchhheeecccCCCc
Confidence 34579999999999999999999999975433 3345554443 12222221 122235556699999999999999
Q ss_pred EE---EEcCceEEEEEEecCCCCCCeeeeecCcCCCCC-cceeecCcCCCCcc
Q psy8426 150 RF---VATERDTACVKVLRDIEQGEEITCFYGEDFFGD-KNCLCECDTCEIRM 198 (278)
Q Consensus 150 ~~---~~~g~~~~~i~A~RdI~~GEEITi~Y~~~~~~~-~~c~C~c~~C~~~~ 198 (278)
.. .+.|..+|+|+|.|+|.+|||||+||-...-+. -.|.|+.++|+|.+
T Consensus 952 yakvi~V~g~~~IvIyakr~I~~~EElTYDYkF~~e~~kipClCgap~Crg~~ 1004 (1005)
T KOG1080|consen 952 YAKVITVEGDKRIVIYSKRDIAAGEELTYDYKFPTEDDKIPCLCGAPNCRGFL 1004 (1005)
T ss_pred eeeEEEecCeeEEEEEEecccccCceeeeeccccccccccccccCCCcccccc
Confidence 76 345778999999999999999999999866554 58999999999965
No 4
>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain. Putative methyl transferase, based on outlier plant homologues
Probab=99.82 E-value=7.6e-20 Score=143.36 Aligned_cols=102 Identities=29% Similarity=0.364 Sum_probs=73.4
Q ss_pred CCcCeeEEeCccCCCCCeEEeceeEEeecCHHHHHHH--HhcCCCCceeeecc--ccCcceeecCccccCCCCCCCCeEE
Q psy8426 76 GNRGARIVATRKWEKNDNIAYLVGCIAELTKEEEKRL--LHTGLNDFSVMYSC--RKNCAQLWLGPAAYINHDCRPNCRF 151 (278)
Q Consensus 76 ~~~G~Gl~A~r~I~~Ge~I~e~~G~i~~l~~~e~~~~--~~~~~ndfsi~~s~--~~~~~~l~~g~arfiNHSC~PN~~~ 151 (278)
.++|+||+|+++|++|++|.+|.|.+........... .........++... ..-++..+++.+|||||||.|||.+
T Consensus 8 ~~~G~gl~a~~~i~~g~~i~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~~~~~~~~~~iNHsc~pN~~~ 87 (116)
T smart00317 8 PGKGWGVRATEDIPKGEFIGEYVGEIITSEEAEERSKAYDTDGADSFYLFEIDSDLCIDARRKGNIARFINHSCEPNCEL 87 (116)
T ss_pred CCCcEEEEECCccCCCCEEEEEEeEEECHHHHHHHHHHHHhcCCCCEEEEECCCCEEEeCCccCcHHHeeCCCCCCCEEE
Confidence 4679999999999999999999999976554444322 11111112222221 1122444678899999999999998
Q ss_pred EEc---CceEEEEEEecCCCCCCeeeeec
Q psy8426 152 VAT---ERDTACVKVLRDIEQGEEITCFY 177 (278)
Q Consensus 152 ~~~---g~~~~~i~A~RdI~~GEEITi~Y 177 (278)
... +..++.++|+|+|++|||||++|
T Consensus 88 ~~~~~~~~~~~~~~a~r~I~~GeEi~i~Y 116 (116)
T smart00317 88 LFVEVNGDSRIVIFALRDIKPGEELTIDY 116 (116)
T ss_pred EEEEECCCcEEEEEECCCcCCCCEEeecC
Confidence 554 32369999999999999999999
No 5
>KOG1082|consensus
Probab=99.69 E-value=2.5e-17 Score=156.37 Aligned_cols=124 Identities=23% Similarity=0.337 Sum_probs=88.0
Q ss_pred CcCeeEEeCccCCCCCeEEeceeEEeecCHHHHH----HHHhcCCCCceee-----------------------eccccC
Q psy8426 77 NRGARIVATRKWEKNDNIAYLVGCIAELTKEEEK----RLLHTGLNDFSVM-----------------------YSCRKN 129 (278)
Q Consensus 77 ~~G~Gl~A~r~I~~Ge~I~e~~G~i~~l~~~e~~----~~~~~~~ndfsi~-----------------------~s~~~~ 129 (278)
.+||||++...|++|++|+||.|+++...+.+.. .+.......+.+. ......
T Consensus 185 ~kGwgvRs~~~I~~G~fvcEyaGe~~t~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 264 (364)
T KOG1082|consen 185 EKGWGVRTLDPIPAGEFVCEYAGEVLTSEEAQRRTHLREYLDDDCDAYSIADREWVDESPVGNTFVAPSLPGGPGRELLI 264 (364)
T ss_pred CceeeecccccccCCCeeEEEeeEecChHHhhhccccccccccccccchhhhccccccccccccccccccccCCCcceEE
Confidence 3799999999999999999999999765554422 1111111111010 011112
Q ss_pred cceeecCccccCCCCCCCCeEEEEc--C-----ceEEEEEEecCCCCCCeeeeecCcCC-------------CCCcceee
Q psy8426 130 CAQLWLGPAAYINHDCRPNCRFVAT--E-----RDTACVKVLRDIEQGEEITCFYGEDF-------------FGDKNCLC 189 (278)
Q Consensus 130 ~~~l~~g~arfiNHSC~PN~~~~~~--g-----~~~~~i~A~RdI~~GEEITi~Y~~~~-------------~~~~~c~C 189 (278)
++...+|.+|||||||.||+.+... + ..++.++|+++|.||||||++|+..+ .....|.|
T Consensus 265 da~~~GNv~RfinHSC~PN~~~~~v~~~~~~~~~~~i~ffa~~~I~p~~ELT~dYg~~~~~~~~~~~~~~~~~~~~~c~c 344 (364)
T KOG1082|consen 265 DAKPHGNVARFINHSCSPNLLYQAVFQDEFVLLYLRIGFFALRDISPGEELTLDYGKAYKLLVQDGANIYTPVMKKNCNC 344 (364)
T ss_pred chhhcccccccccCCCCccceeeeeeecCCccchheeeeeeccccCCCcccchhhcccccccccccccccccccchhhcC
Confidence 3556678899999999999987432 2 35789999999999999999999764 23457889
Q ss_pred cCcCCCCcccc
Q psy8426 190 ECDTCEIRMKG 200 (278)
Q Consensus 190 ~c~~C~~~~~g 200 (278)
+...|++....
T Consensus 345 ~~~~cr~~~~~ 355 (364)
T KOG1082|consen 345 GLEKCRGLLGS 355 (364)
T ss_pred CCHHhCcccCC
Confidence 99999997644
No 6
>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=99.63 E-value=2.9e-16 Score=128.28 Aligned_cols=48 Identities=35% Similarity=0.589 Sum_probs=41.0
Q ss_pred ceeecCccccCCCCCCCCeEEEEc---CceEEEEEEecCCCCCCeeeeecC
Q psy8426 131 AQLWLGPAAYINHDCRPNCRFVAT---ERDTACVKVLRDIEQGEEITCFYG 178 (278)
Q Consensus 131 ~~l~~g~arfiNHSC~PN~~~~~~---g~~~~~i~A~RdI~~GEEITi~Y~ 178 (278)
....++.+.|+||||.|||.+... +...+.|+|.|+|++|||||++||
T Consensus 112 ~~~l~p~~d~~NHsc~pn~~~~~~~~~~~~~~~~~a~r~I~~GeEi~isYG 162 (162)
T PF00856_consen 112 GIALYPFADMLNHSCDPNCEVSFDFDGDGGCLVVRATRDIKKGEEIFISYG 162 (162)
T ss_dssp EEEEETGGGGSEEESSTSEEEEEEEETTTTEEEEEESS-B-TTSBEEEEST
T ss_pred ccccCcHhHheccccccccceeeEeecccceEEEEECCccCCCCEEEEEEC
Confidence 456667899999999999999876 457899999999999999999997
No 7
>KOG1083|consensus
Probab=99.53 E-value=2.2e-15 Score=153.21 Aligned_cols=110 Identities=22% Similarity=0.288 Sum_probs=82.5
Q ss_pred ecCCcCeeEEeCccCCCCCeEEeceeEEeecCHHHHHHH--HhcCCCCce-eeeccccCcceeecCccccCCCCCCCCeE
Q psy8426 74 LEGNRGARIVATRKWEKNDNIAYLVGCIAELTKEEEKRL--LHTGLNDFS-VMYSCRKNCAQLWLGPAAYINHDCRPNCR 150 (278)
Q Consensus 74 ~~~~~G~Gl~A~r~I~~Ge~I~e~~G~i~~l~~~e~~~~--~~~~~ndfs-i~~s~~~~~~~l~~g~arfiNHSC~PN~~ 150 (278)
.....||||.|.++|+.|++|+||+|+|+.+.+++...+ +......+. ++.........-+++.+||+||+|.|||+
T Consensus 1184 ~gp~~G~~v~tk~PikagtfI~EYvGeVit~ke~e~~mmtl~~~d~~~~cL~I~p~l~id~~R~~n~~RfinhscKPNc~ 1263 (1306)
T KOG1083|consen 1184 RGPKKGWGVRTKEPIKAGTFIMEYVGEVITEKEFEPRMMTLYHNDDDHYCLVIDPGLFIDIPRMGNGARFINHSCKPNCE 1263 (1306)
T ss_pred ccCCCCccccccccccccchHHHHHHHHHHHHhhcccccccCCCCCcccccccCccccCChhhccccccccccccCCCCc
Confidence 445679999999999999999999999986666555411 111122222 23334444455667789999999999998
Q ss_pred E---EEcCceEEEEEEecCCCCCCeeeeecCcCCCC
Q psy8426 151 F---VATERDTACVKVLRDIEQGEEITCFYGEDFFG 183 (278)
Q Consensus 151 ~---~~~g~~~~~i~A~RdI~~GEEITi~Y~~~~~~ 183 (278)
. .++|..++.++|+|||.+|||||+||....++
T Consensus 1264 ~qkwSVNG~~Rv~L~A~rDi~kGEELtYDYN~ks~~ 1299 (1306)
T KOG1083|consen 1264 MQKWSVNGEYRVGLFALRDLPKGEELTYDYNFKSFN 1299 (1306)
T ss_pred cccccccceeeeeeeecCCCCCCceEEEeccccccC
Confidence 6 45688999999999999999999999865443
No 8
>KOG1079|consensus
Probab=99.51 E-value=1.8e-14 Score=141.50 Aligned_cols=96 Identities=24% Similarity=0.258 Sum_probs=74.8
Q ss_pred cCeeEEeCccCCCCCeEEeceeEEeecCHHHHHHHHhc---------CCCCceeeeccccCcceeecCccccCCCCCCCC
Q psy8426 78 RGARIVATRKWEKNDNIAYLVGCIAELTKEEEKRLLHT---------GLNDFSVMYSCRKNCAQLWLGPAAYINHDCRPN 148 (278)
Q Consensus 78 ~G~Gl~A~r~I~~Ge~I~e~~G~i~~l~~~e~~~~~~~---------~~ndfsi~~s~~~~~~~l~~g~arfiNHSC~PN 148 (278)
.|||+|++....++|+|.||+|+++.-.+.+.+..... ..++ .++++.+ .++.+||+|||-.||
T Consensus 604 aGwGlFlKe~v~KnefisEY~GE~IS~dEADrRGkiYDr~~cSflFnln~d-yviDs~r------kGnk~rFANHS~nPN 676 (739)
T KOG1079|consen 604 AGWGLFLKESVSKNEFISEYTGEIISHDEADRRGKIYDRYMCSFLFNLNND-YVIDSTR------KGNKIRFANHSFNPN 676 (739)
T ss_pred cccceeeccccCCCceeeeecceeccchhhhhcccccccccceeeeecccc-ceEeeee------ecchhhhccCCCCCC
Confidence 49999999999999999999999986555544332211 1223 2333333 448899999999999
Q ss_pred eEE---EEcCceEEEEEEecCCCCCCeeeeecCcC
Q psy8426 149 CRF---VATERDTACVKVLRDIEQGEEITCFYGED 180 (278)
Q Consensus 149 ~~~---~~~g~~~~~i~A~RdI~~GEEITi~Y~~~ 180 (278)
|.. +..|..+|.|+|.|.|.+|||||++|..+
T Consensus 677 CYAkvm~V~GdhRIGifAkRaIeagEELffDYrYs 711 (739)
T KOG1079|consen 677 CYAKVMMVAGDHRIGIFAKRAIEAGEELFFDYRYS 711 (739)
T ss_pred cEEEEEEecCCcceeeeehhhcccCceeeeeeccC
Confidence 975 56688899999999999999999999854
No 9
>KOG1085|consensus
Probab=99.49 E-value=7.2e-14 Score=125.82 Aligned_cols=104 Identities=23% Similarity=0.256 Sum_probs=80.6
Q ss_pred CcCeeEEeCccCCCCCeEEeceeEEeecCHHHHHHHHh-cCCCCceeeeccccCc------ceeecC-ccccCCCCCCCC
Q psy8426 77 NRGARIVATRKWEKNDNIAYLVGCIAELTKEEEKRLLH-TGLNDFSVMYSCRKNC------AQLWLG-PAAYINHDCRPN 148 (278)
Q Consensus 77 ~~G~Gl~A~r~I~~Ge~I~e~~G~i~~l~~~e~~~~~~-~~~ndfsi~~s~~~~~------~~l~~g-~arfiNHSC~PN 148 (278)
++|.||+|++.+.+|+||.||.|.++++++..+.+-.. .+.+...+||...... ++.--+ ..|.||||-.+|
T Consensus 265 gKGRGv~a~~~F~rgdFVVEY~Gdliei~eAk~rE~~Ya~De~~GcYMYyF~h~sk~yCiDAT~et~~lGRLINHS~~gN 344 (392)
T KOG1085|consen 265 GKGRGVRAKVNFERGDFVVEYRGDLIEISEAKVREEQYANDEEIGCYMYYFEHNSKKYCIDATKETPWLGRLINHSVRGN 344 (392)
T ss_pred cccceeEeecccccCceEEEEecceeeechHHHHHHHhccCcccceEEEeeeccCeeeeeecccccccchhhhcccccCc
Confidence 47999999999999999999999999999877654433 2345555666433322 111111 279999999999
Q ss_pred eEE---EEcCceEEEEEEecCCCCCCeeeeecCcC
Q psy8426 149 CRF---VATERDTACVKVLRDIEQGEEITCFYGED 180 (278)
Q Consensus 149 ~~~---~~~g~~~~~i~A~RdI~~GEEITi~Y~~~ 180 (278)
|.. .++|..++.+.|.|||.+||||++|||+.
T Consensus 345 l~TKvv~Idg~pHLiLvA~rdIa~GEELlYDYGDR 379 (392)
T KOG1085|consen 345 LKTKVVEIDGSPHLILVARRDIAQGEELLYDYGDR 379 (392)
T ss_pred ceeeEEEecCCceEEEEeccccccchhhhhhcccc
Confidence 975 45688999999999999999999999984
No 10
>COG2940 Proteins containing SET domain [General function prediction only]
Probab=99.39 E-value=1e-13 Score=136.16 Aligned_cols=122 Identities=27% Similarity=0.368 Sum_probs=89.2
Q ss_pred CcCeeEEeCccCCCCCeEEeceeEEeecCHHHHHHHHh-cCCC--Cceeeec-cccCcceeecCccccCCCCCCCCeEEE
Q psy8426 77 NRGARIVATRKWEKNDNIAYLVGCIAELTKEEEKRLLH-TGLN--DFSVMYS-CRKNCAQLWLGPAAYINHDCRPNCRFV 152 (278)
Q Consensus 77 ~~G~Gl~A~r~I~~Ge~I~e~~G~i~~l~~~e~~~~~~-~~~n--dfsi~~s-~~~~~~~l~~g~arfiNHSC~PN~~~~ 152 (278)
.+|+|+||...|++|++|.+|.|.+....+.....-.. ...+ .|..... .........++.+||+||||.|||...
T Consensus 341 ~~~~g~fa~~~i~~~e~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~g~~~r~~nHS~~pN~~~~ 420 (480)
T COG2940 341 IKGYGVFALESIKKGEFIIEYHGEIIRRKEAREREENYDLLGNEFSFGLLEDKDKVRDSQKAGDVARFINHSCTPNCEAS 420 (480)
T ss_pred ccccceeehhhccchHHHHHhcCcccchHHHHhhhccccccccccchhhccccchhhhhhhcccccceeecCCCCCccee
Confidence 46999999999999999999999886554443322211 1111 1111111 222334556678999999999999986
Q ss_pred EcCc---eEEEEEEecCCCCCCeeeeecCcCCCCC----------cceeecCcCCCCcc
Q psy8426 153 ATER---DTACVKVLRDIEQGEEITCFYGEDFFGD----------KNCLCECDTCEIRM 198 (278)
Q Consensus 153 ~~g~---~~~~i~A~RdI~~GEEITi~Y~~~~~~~----------~~c~C~c~~C~~~~ 198 (278)
.... ..+.++|+|||.+|||||++|+..++.. ++|.|+|..|++.+
T Consensus 421 ~~~~~g~~~~~~~~~rDI~~geEl~~dy~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 479 (480)
T COG2940 421 PIEVNGIFKISIYAIRDIKAGEELTYDYGPSLEDNRELKKLLEKRWGCACGEDRCSHTM 479 (480)
T ss_pred cccccccceeeecccccchhhhhhccccccccccchhhhhhhhhhhccccCCCccCCCC
Confidence 5533 4788999999999999999999877652 58999999999865
No 11
>KOG1141|consensus
Probab=98.68 E-value=6.6e-09 Score=104.56 Aligned_cols=68 Identities=22% Similarity=0.369 Sum_probs=52.1
Q ss_pred ceeecCccccCCCCCCCCeEE--EEcC-----ceEEEEEEecCCCCCCeeeeecCcCCC----CCcceeecCcCCCCcc
Q psy8426 131 AQLWLGPAAYINHDCRPNCRF--VATE-----RDTACVKVLRDIEQGEEITCFYGEDFF----GDKNCLCECDTCEIRM 198 (278)
Q Consensus 131 ~~l~~g~arfiNHSC~PN~~~--~~~g-----~~~~~i~A~RdI~~GEEITi~Y~~~~~----~~~~c~C~c~~C~~~~ 198 (278)
|..-+|.+||+||||.||..+ |+.. .+-+.+|+-+-|++|.|||++|+..-- ....|.||..+|++.+
T Consensus 1183 Ak~eGNlGRfLNHSC~PNl~VQnVfvdTHdlrfPwVAFFt~kyVkAgtELTWDY~Ye~g~v~~keL~C~CGa~~CrgrL 1261 (1262)
T KOG1141|consen 1183 AKQEGNLGRFLNHSCDPNLHVQNVFVDTHDLRFPWVAFFTRKYVKAGTELTWDYQYEQGQVATKELTCHCGAENCRGRL 1261 (1262)
T ss_pred cccccchhhhhccCCCccceeeeeeeeccccCCchhhhhhhhhhccCceeeeeccccccccccceEEEecChhhhhccc
Confidence 334456799999999999876 3322 234678999999999999999996422 2357999999999864
No 12
>KOG2461|consensus
Probab=97.94 E-value=3.8e-06 Score=80.73 Aligned_cols=103 Identities=17% Similarity=0.245 Sum_probs=71.2
Q ss_pred ecCCcCeeEEeCccCCCCCeEEeceeEE-eecC-HHHHHHHH---hcCCCCceeeeccccCcceeecCccccCCCCCCC-
Q psy8426 74 LEGNRGARIVATRKWEKNDNIAYLVGCI-AELT-KEEEKRLL---HTGLNDFSVMYSCRKNCAQLWLGPAAYINHDCRP- 147 (278)
Q Consensus 74 ~~~~~G~Gl~A~r~I~~Ge~I~e~~G~i-~~l~-~~e~~~~~---~~~~ndfsi~~s~~~~~~~l~~g~arfiNHSC~P- 147 (278)
.....|.||.+...|.+|+....|.|++ .... +.....+. +...+.+.+++.+.. -..|+.||+|=.++.
T Consensus 36 sv~~~~lgV~s~~~i~~G~~FGP~~G~~~~~~~~~~~n~~y~W~I~~~d~~~~~iDg~d~----~~sNWmRYV~~Ar~~e 111 (396)
T KOG2461|consen 36 SVPVTGLGVWSNASILPGTSFGPFEGEIIASIDSKSANNRYMWEIFSSDNGYEYIDGTDE----EHSNWMRYVNSARSEE 111 (396)
T ss_pred ccCCccccccccccccCcccccCccCccccccccccccCcceEEEEeCCCceEEeccCCh----hhcceeeeecccCChh
Confidence 3445689999999999999999999986 2111 11111111 111234444443222 245889999998886
Q ss_pred --CeEEEEcCceEEEEEEecCCCCCCeeeeecCcCC
Q psy8426 148 --NCRFVATERDTACVKVLRDIEQGEEITCFYGEDF 181 (278)
Q Consensus 148 --N~~~~~~g~~~~~i~A~RdI~~GEEITi~Y~~~~ 181 (278)
|......+ ..|+.+++|+|.+||||.|.|+++|
T Consensus 112 eQNL~A~Q~~-~~Ifyrt~r~I~p~eELlVWY~~e~ 146 (396)
T KOG2461|consen 112 EQNLLAFQIG-ENIFYRTIRDIRPNEELLVWYGSEY 146 (396)
T ss_pred hhhHHHHhcc-CceEEEecccCCCCCeEEEEeccch
Confidence 66555444 4689999999999999999999976
No 13
>KOG1081|consensus
Probab=97.82 E-value=6.2e-06 Score=80.86 Aligned_cols=70 Identities=26% Similarity=0.417 Sum_probs=55.7
Q ss_pred cceeecCccccCCCCCCCCeEE---EEcCceEEEEEEecCCCCCCeeeeecCcCCC-CCcceeecCcCCCCccc
Q psy8426 130 CAQLWLGPAAYINHDCRPNCRF---VATERDTACVKVLRDIEQGEEITCFYGEDFF-GDKNCLCECDTCEIRMK 199 (278)
Q Consensus 130 ~~~l~~g~arfiNHSC~PN~~~---~~~g~~~~~i~A~RdI~~GEEITi~Y~~~~~-~~~~c~C~c~~C~~~~~ 199 (278)
++...++..+|+||+|.|||+- ...+..++.++|.+.|++|||+|++|...-. ....|.|+...|.+...
T Consensus 364 d~~~~~n~sr~~nh~~~~~v~~~k~~~~~~t~~~~~a~~~i~~g~e~t~~~n~~~~~~~~~~~~~~e~~~~~~~ 437 (463)
T KOG1081|consen 364 DAGPKGNYSRFLNHSCQPNVETEKWQVIGDTRVGLFAPRQIEAGEELTFNYNGNCEGNEKRCCCGSENCTETKG 437 (463)
T ss_pred ccccccchhhhhcccCCCceeechhheecccccccccccccccchhhhheeeccccCCcceEeecccccccCCc
Confidence 3555668899999999999986 3446678899999999999999999997644 45678888777777553
No 14
>KOG2084|consensus
Probab=97.42 E-value=0.00031 Score=67.78 Aligned_cols=59 Identities=29% Similarity=0.534 Sum_probs=48.0
Q ss_pred ccccCCCCCCCCeEEEEcCceEEEEEEecCCCCCC-eeeeecCcCCCCC----------cceeecCcCCCC
Q psy8426 137 PAAYINHDCRPNCRFVATERDTACVKVLRDIEQGE-EITCFYGEDFFGD----------KNCLCECDTCEI 196 (278)
Q Consensus 137 ~arfiNHSC~PN~~~~~~g~~~~~i~A~RdI~~GE-EITi~Y~~~~~~~----------~~c~C~c~~C~~ 196 (278)
...++||||.||+.+...+. ...+.+...+.+++ ||+++|.+.+|+. +.|.|.|+.|..
T Consensus 205 ~~~~~~hsC~pn~~~~~~~~-~~~~~~~~~~~~~~~~l~~~y~~~~~~~~~r~~~l~~~~~f~c~c~rc~d 274 (482)
T KOG2084|consen 205 GSSLFNHSCFPNISVIFDGR-GLALLVPAGIDAGEEELTISYTDPLLSTASRQKQLRQSKLFSCQCPRCLD 274 (482)
T ss_pred cchhcccCCCCCeEEEECCc-eeEEEeecccCCCCCEEEEeecccccCHHHHHHHHhhccceeeecCCCCC
Confidence 35599999999999777775 45677778887776 9999999987763 349999999995
No 15
>KOG1337|consensus
Probab=92.80 E-value=0.079 Score=52.24 Aligned_cols=42 Identities=24% Similarity=0.261 Sum_probs=33.8
Q ss_pred cccCCCCCCCCeEEEEcCceEEEEEEecCCCCCCeeeeecCc
Q psy8426 138 AAYINHDCRPNCRFVATERDTACVKVLRDIEQGEEITCFYGE 179 (278)
Q Consensus 138 arfiNHSC~PN~~~~~~g~~~~~i~A~RdI~~GEEITi~Y~~ 179 (278)
.-+.||+|.+.-.........+.+++.++|.+||||+++||.
T Consensus 237 ~D~~NH~~~~~~~~~~~~d~~~~l~~~~~v~~geevfi~YG~ 278 (472)
T KOG1337|consen 237 IDLLNHSPEVIKAGYNQEDEAVELVAERDVSAGEEVFINYGP 278 (472)
T ss_pred HHhhccCchhccccccCCCCcEEEEEeeeecCCCeEEEecCC
Confidence 568999999943333333347899999999999999999997
No 16
>KOG1338|consensus
Probab=74.00 E-value=2.4 Score=40.90 Aligned_cols=43 Identities=28% Similarity=0.343 Sum_probs=32.0
Q ss_pred CccccCCCCCC-CCeEEEEcCceEEEEEEecCCCCCCeeeeecCc
Q psy8426 136 GPAAYINHDCR-PNCRFVATERDTACVKVLRDIEQGEEITCFYGE 179 (278)
Q Consensus 136 g~arfiNHSC~-PN~~~~~~g~~~~~i~A~RdI~~GEEITi~Y~~ 179 (278)
+.|-|+||+-. .|+.... +...+.++|.|+|++|+|+.-.||.
T Consensus 217 p~ad~lNhd~~k~nanl~y-~~NcL~mva~r~iekgdev~n~dg~ 260 (466)
T KOG1338|consen 217 PIADFLNHDGLKANANLRY-EDNCLEMVADRNIEKGDEVDNSDGL 260 (466)
T ss_pred chhhhhccchhhcccceec-cCcceeeeecCCCCCcccccccccc
Confidence 44789999644 3444333 2356799999999999999999973
No 17
>smart00508 PostSET Cysteine-rich motif following a subset of SET domains.
Probab=64.22 E-value=3.8 Score=24.14 Aligned_cols=16 Identities=25% Similarity=0.671 Sum_probs=13.5
Q ss_pred cceeecCcCCCCcccc
Q psy8426 185 KNCLCECDTCEIRMKG 200 (278)
Q Consensus 185 ~~c~C~c~~C~~~~~g 200 (278)
+.|.|+.++|++.+..
T Consensus 3 ~~C~CGs~~CRG~l~~ 18 (26)
T smart00508 3 QPCLCGAPNCRGFLGX 18 (26)
T ss_pred eeeeCCCccccceecc
Confidence 5799999999998743
No 18
>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=61.15 E-value=5.3 Score=27.48 Aligned_cols=16 Identities=44% Similarity=0.520 Sum_probs=11.9
Q ss_pred EEEEecCCCCCCeeee
Q psy8426 160 CVKVLRDIEQGEEITC 175 (278)
Q Consensus 160 ~i~A~RdI~~GEEITi 175 (278)
.++|.|||++|+.|+-
T Consensus 3 vvVA~~di~~G~~i~~ 18 (63)
T PF08666_consen 3 VVVAARDIPAGTVITA 18 (63)
T ss_dssp EEEESSTB-TT-BECT
T ss_pred EEEEeCccCCCCEEcc
Confidence 5789999999999853
No 19
>KOG2155|consensus
Probab=50.40 E-value=11 Score=37.26 Aligned_cols=44 Identities=20% Similarity=0.265 Sum_probs=33.3
Q ss_pred ccccCCCCCCCCeEEEEc-----CceEEEEEEecCCCCCCeeeeecCcC
Q psy8426 137 PAAYINHDCRPNCRFVAT-----ERDTACVKVLRDIEQGEEITCFYGED 180 (278)
Q Consensus 137 ~arfiNHSC~PN~~~~~~-----g~~~~~i~A~RdI~~GEEITi~Y~~~ 180 (278)
.++.+.||-.||.++.+- .-.--.++-+|+...|||||-++...
T Consensus 204 fGsrvrHsdePnf~~aPf~fmPq~vaYsimwp~k~~~tgeE~trDfasg 252 (631)
T KOG2155|consen 204 FGSRVRHSDEPNFRIAPFMFMPQNVAYSIMWPTKPVNTGEEITRDFASG 252 (631)
T ss_pred hhhhhccCCCCcceeeeheecchhcceeEEeeccCCCCchHHHHHHhhc
Confidence 378899999999887432 11122568899999999999987764
No 20
>PF12854 PPR_1: PPR repeat
Probab=41.60 E-value=33 Score=20.82 Aligned_cols=21 Identities=10% Similarity=0.202 Sum_probs=17.8
Q ss_pred HHHHHHhhcCCHHHHHHHhhc
Q psy8426 3 SIVHNLILHVPIQLACHLLNK 23 (278)
Q Consensus 3 ~~~~~~~~~~~~~~a~~~~~~ 23 (278)
.+|+.|++.++++.|+++|+.
T Consensus 12 ~lI~~~Ck~G~~~~A~~l~~~ 32 (34)
T PF12854_consen 12 TLIDGYCKAGRVDEAFELFDE 32 (34)
T ss_pred HHHHHHHHCCCHHHHHHHHHh
Confidence 589999999999999966553
No 21
>PF03128 CXCXC: CXCXC repeat; InterPro: IPR004153 This repeat contains the conserved pattern CXCXC where X can be any amino acid. The repeat is found in up to five copies in Vascular endothelial growth factor C []. In the salivary glands of the dipteran Chironomus tentans, a specific messenger ribonucleoprotein (mRNP) particle, the Balbiani ring (BR) granule, can be visualized during its assembly on the gene and during its nucleocytoplasmic transport. This repeat is found over 70 copies in the balbiani ring protein 3 (Q03376 from SWISSPROT). It is also found in some silk proteins [].
Probab=38.51 E-value=13 Score=18.53 Aligned_cols=12 Identities=42% Similarity=1.265 Sum_probs=9.2
Q ss_pred CCCCcceeecCc
Q psy8426 181 FFGDKNCLCECD 192 (278)
Q Consensus 181 ~~~~~~c~C~c~ 192 (278)
.|....|.|.|+
T Consensus 3 ~wn~~tC~C~Cp 14 (14)
T PF03128_consen 3 VWNDDTCQCECP 14 (14)
T ss_pred eecCCCcCccCC
Confidence 467778899885
No 22
>KOG1141|consensus
Probab=38.03 E-value=17 Score=38.39 Aligned_cols=31 Identities=10% Similarity=0.078 Sum_probs=26.4
Q ss_pred eeeecCCcCeeEEeCccCCCCCeEEeceeEEe
Q psy8426 71 RYSLEGNRGARIVATRKWEKNDNIAYLVGCIA 102 (278)
Q Consensus 71 Rys~~~~~G~Gl~A~r~I~~Ge~I~e~~G~i~ 102 (278)
||... ++|||++.-.+|..|.+|+.|.|.++
T Consensus 803 ~fkt~-~kGWg~rclddi~~g~fVciy~g~~l 833 (1262)
T KOG1141|consen 803 RFKTI-HKGWGRRCLDDITGGNFVCIYPGGAL 833 (1262)
T ss_pred ecccc-ccccceEeeeecCCceEEEEecchhh
Confidence 44433 57999999999999999999999885
No 23
>smart00858 SAF This domain family includes a range of different proteins. Such as antifreeze proteins and flagellar FlgA proteins, and CpaB pilus proteins.
Probab=33.85 E-value=29 Score=23.54 Aligned_cols=16 Identities=44% Similarity=0.571 Sum_probs=14.0
Q ss_pred EEEEecCCCCCCeeee
Q psy8426 160 CVKVLRDIEQGEEITC 175 (278)
Q Consensus 160 ~i~A~RdI~~GEEITi 175 (278)
.++|.++|.+|+.|+-
T Consensus 3 v~va~~~i~~G~~i~~ 18 (64)
T smart00858 3 VVVAARDLPAGEVITA 18 (64)
T ss_pred EEEEeCccCCCCCcch
Confidence 4788999999999985
No 24
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=31.99 E-value=52 Score=18.62 Aligned_cols=23 Identities=13% Similarity=0.276 Sum_probs=18.4
Q ss_pred HHHHHHHhhcCCHHHHHHHhhcc
Q psy8426 2 KSIVHNLILHVPIQLACHLLNKL 24 (278)
Q Consensus 2 ~~~~~~~~~~~~~~~a~~~~~~l 24 (278)
..+|..+.+.+++++|.+.++.+
T Consensus 4 n~li~~~~~~~~~~~a~~~~~~M 26 (35)
T TIGR00756 4 NTLIDGLCKAGRVEEALELFKEM 26 (35)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHH
Confidence 46889999999999999655553
No 25
>PF08756 YfkB: YfkB-like domain; InterPro: IPR014866 YfkB is adjacent to YfkA in Bacillus subtilis. In other bacterial species, it is fused to this protein. As YfkA contains a Radical SAM domain it suggests this domain is interacts with them.
Probab=28.20 E-value=51 Score=27.46 Aligned_cols=13 Identities=31% Similarity=0.598 Sum_probs=11.2
Q ss_pred cceeecCcCCCCc
Q psy8426 185 KNCLCECDTCEIR 197 (278)
Q Consensus 185 ~~c~C~c~~C~~~ 197 (278)
.+|+|....|-|.
T Consensus 120 lnCHCp~v~ClGP 132 (153)
T PF08756_consen 120 LNCHCPAVKCLGP 132 (153)
T ss_pred ccCcCCcccccCC
Confidence 5899999999984
No 26
>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=27.37 E-value=71 Score=25.02 Aligned_cols=23 Identities=26% Similarity=0.497 Sum_probs=20.4
Q ss_pred EEEEEEecCCCCCCeeeeecCcC
Q psy8426 158 TACVKVLRDIEQGEEITCFYGED 180 (278)
Q Consensus 158 ~~~i~A~RdI~~GEEITi~Y~~~ 180 (278)
.+.+.-.+.|..|+++|++|.+.
T Consensus 76 tVTLTL~~~V~~Gq~VTVsYt~p 98 (101)
T TIGR02059 76 TITLTLAQVVEDGDEVTLSYTKN 98 (101)
T ss_pred EEEEEecccccCCCEEEEEeeCC
Confidence 67888899999999999999764
No 27
>PF02847 MA3: MA3 domain; InterPro: IPR003891 This entry represents the MI domain (after MA-3 and eIF4G), it is a protein-protein interaction module of ~130 amino acids [, , ]. It appears in several translation factors and is found in: One copy in plant and animal eIF4G 1 and 2 (DAP-5/NAT1/p97) Two copies in the animal programmed cell death protein 4 (PDCD4) or MA-3 that is induced during programmed cell death and inhibits neoplastic transformation Four tandem-repeated copies in a group of uncharacterised plant proteins The MI domain consists of seven alpha-helices, which pack into a globular form. The packing arrangement consists of repeating pairs of antiparallel helices packed one upon the other such that a superhelical axis is generated perpendicular to the alpha-helical axes []. The MI domain has also been named MA3 domain.; PDB: 2ION_A 2IOL_B 2NSZ_A 3EIQ_C 2HM8_A 2KZT_B 2IOS_A 2RG8_B 2ZU6_E 3EIJ_A ....
Probab=26.04 E-value=85 Score=23.95 Aligned_cols=32 Identities=19% Similarity=0.048 Sum_probs=23.8
Q ss_pred HHHHHHHhhcCCHHHHHHHhhccCCCccHHHH
Q psy8426 2 KSIVHNLILHVPIQLACHLLNKLNPSFWAFCV 33 (278)
Q Consensus 2 ~~~~~~~~~~~~~~~a~~~~~~l~~~~~~~~~ 33 (278)
+.++.+|...+|.+.|+++|+.|-.......+
T Consensus 6 ~~~l~ey~~~~d~~ea~~~l~el~~~~~~~~v 37 (113)
T PF02847_consen 6 FSILMEYFSSGDVDEAVECLKELKLPSQHHEV 37 (113)
T ss_dssp HHHHHHHHHHT-HHHHHHHHHHTT-GGGHHHH
T ss_pred HHHHHHHhcCCCHHHHHHHHHHhCCCccHHHH
Confidence 57899999999999999999997544444444
No 28
>KOG1083|consensus
Probab=25.49 E-value=49 Score=36.07 Aligned_cols=35 Identities=14% Similarity=0.118 Sum_probs=28.5
Q ss_pred CcccceeeecCCcCeeEEeCccCCCCCeEE-eceeE
Q psy8426 66 LKPCYRYSLEGNRGARIVATRKWEKNDNIA-YLVGC 100 (278)
Q Consensus 66 i~~~~Rys~~~~~G~Gl~A~r~I~~Ge~I~-e~~G~ 100 (278)
-.+|.||++.+-.-.||||.+||.+||.|. .|.|.
T Consensus 1261 Nc~~qkwSVNG~~Rv~L~A~rDi~kGEELtYDYN~k 1296 (1306)
T KOG1083|consen 1261 NCEMQKWSVNGEYRVGLFALRDLPKGEELTYDYNFK 1296 (1306)
T ss_pred CCccccccccceeeeeeeecCCCCCCceEEEecccc
Confidence 456778999887889999999999999884 45553
No 29
>COG0057 GapA Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]
Probab=25.45 E-value=2.6e+02 Score=26.64 Aligned_cols=56 Identities=16% Similarity=0.149 Sum_probs=39.4
Q ss_pred hhhhHHHHHHhhhhh---hcCCCcccceeeecCCcCeeEEeCcc---CCCCC----eEEeceeEEe
Q psy8426 47 LDMGTQHHRYSYRIQ---YLPELKPCYRYSLEGNRGARIVATRK---WEKND----NIAYLVGCIA 102 (278)
Q Consensus 47 ~~~~f~~h~~~yl~~---~~~~i~~~~Rys~~~~~G~Gl~A~r~---I~~Ge----~I~e~~G~i~ 102 (278)
-...+..|+-+|.+. |.+++..-..--..+++|..+++.++ |+-++ +|.+.+|...
T Consensus 36 t~~~~~A~LlkyDs~hg~f~~~v~~~~~~~~v~g~~I~v~~~~~p~~l~w~d~gvdiVve~Tg~f~ 101 (335)
T COG0057 36 TDPDYLAHLLKYDSVHGRFDGEVEVKDDALVVNGKGIKVLAERDPANLPWADLGVDIVVECTGKFT 101 (335)
T ss_pred CCHHHHHHHHhhcccCCCCCCcccccCCeEEECCceEEEEecCChHHCCccccCccEEEECCCCcc
Confidence 455667788888764 55565444444445566889999866 88887 9999999765
No 30
>TIGR03586 PseI pseudaminic acid synthase.
Probab=23.36 E-value=1.1e+02 Score=28.87 Aligned_cols=52 Identities=8% Similarity=-0.055 Sum_probs=35.4
Q ss_pred CCchhhhhhHHHHHHhhhhhhcC---CCcccceeeecCCcCeeEEeCccCCCCCeEE
Q psy8426 42 NIGRILDMGTQHHRYSYRIQYLP---ELKPCYRYSLEGNRGARIVATRKWEKNDNIA 95 (278)
Q Consensus 42 ~~~~~~~~~f~~h~~~yl~~~~~---~i~~~~Rys~~~~~G~Gl~A~r~I~~Ge~I~ 95 (278)
+.+|.+...+-+.++....+.-. .+.++.+-... -..+|+|.++|++|++|.
T Consensus 237 Sl~p~e~~~lv~~ir~~~~~lg~~~k~~~~~E~~~~~--~rrsl~a~~di~~G~~it 291 (327)
T TIGR03586 237 SLEPDEFKALVKEVRNAWLALGEVNYELSEKEKKSRQ--FRRSLYVVKDIKKGETFT 291 (327)
T ss_pred cCCHHHHHHHHHHHHHHHHHhCCCCCCcCHHHhhccc--eeEEEEEccCcCCCCEec
Confidence 45788888888888877665544 33333322111 267899999999999974
No 31
>PF13041 PPR_2: PPR repeat family
Probab=22.21 E-value=87 Score=20.15 Aligned_cols=22 Identities=9% Similarity=0.182 Sum_probs=18.3
Q ss_pred HHHHHHhhcCCHHHHHHHhhcc
Q psy8426 3 SIVHNLILHVPIQLACHLLNKL 24 (278)
Q Consensus 3 ~~~~~~~~~~~~~~a~~~~~~l 24 (278)
.+|+.+.+.++++.|+++++.+
T Consensus 8 ~li~~~~~~~~~~~a~~l~~~M 29 (50)
T PF13041_consen 8 TLISGYCKAGKFEEALKLFKEM 29 (50)
T ss_pred HHHHHHHHCcCHHHHHHHHHHH
Confidence 5889999999999999666553
No 32
>smart00544 MA3 Domain in DAP-5, eIF4G, MA-3 and other proteins. Highly alpha-helical. May contain repeats and/or regions similar to MIF4G domains Ponting (TIBS) "Novel eIF4G domain homologues" in press
Probab=21.86 E-value=1.4e+02 Score=22.77 Aligned_cols=29 Identities=17% Similarity=0.021 Sum_probs=23.7
Q ss_pred HHHHHHHhhcCCHHHHHHHhhccCCCccH
Q psy8426 2 KSIVHNLILHVPIQLACHLLNKLNPSFWA 30 (278)
Q Consensus 2 ~~~~~~~~~~~~~~~a~~~~~~l~~~~~~ 30 (278)
..++.++...+|++.|.++|..|-.....
T Consensus 6 ~~~l~ey~~~~D~~ea~~~l~~L~~~~~~ 34 (113)
T smart00544 6 FLIIEEYLSSGDTDEAVHCLLELKLPEQH 34 (113)
T ss_pred HHHHHHHHHcCCHHHHHHHHHHhCCCcch
Confidence 46788999999999999999887655443
No 33
>smart00668 CTLH C-terminal to LisH motif. Alpha-helical motif of unknown function.
Probab=21.45 E-value=1.4e+02 Score=19.62 Aligned_cols=46 Identities=15% Similarity=0.168 Sum_probs=29.5
Q ss_pred HHHHHhhcCCHHHHHHHhhccCCCccHHHHHHHHHhhcCCchhhhhhHHHHHHhhhhhhc
Q psy8426 4 IVHNLILHVPIQLACHLLNKLNPSFWAFCVQALLAQRFNIGRILDMGTQHHRYSYRIQYL 63 (278)
Q Consensus 4 ~~~~~~~~~~~~~a~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~f~~h~~~yl~~~~ 63 (278)
.+..-+..+|++.|.. |+......+ ........|.-|..+|+.+..
T Consensus 7 ~i~~~i~~g~~~~a~~---------~~~~~~~~l-----~~~~~~l~f~L~~q~~lell~ 52 (58)
T smart00668 7 RIRELILKGDWDEALE---------WLSSLKPPL-----LERNSKLEFELRKQKFLELVR 52 (58)
T ss_pred HHHHHHHcCCHHHHHH---------HHHHcCHHH-----hccCCCchhHHHHHHHHHHHH
Confidence 4566777999999993 665554433 122336667777778876643
No 34
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=21.38 E-value=95 Score=17.16 Aligned_cols=23 Identities=9% Similarity=0.180 Sum_probs=18.0
Q ss_pred HHHHHHHhhcCCHHHHHHHhhcc
Q psy8426 2 KSIVHNLILHVPIQLACHLLNKL 24 (278)
Q Consensus 2 ~~~~~~~~~~~~~~~a~~~~~~l 24 (278)
..++..+.+.+++++|.+.++.+
T Consensus 4 ~~li~~~~~~~~~~~a~~~~~~M 26 (31)
T PF01535_consen 4 NSLISGYCKMGQFEEALEVFDEM 26 (31)
T ss_pred HHHHHHHHccchHHHHHHHHHHH
Confidence 35788999999999999655553
Done!