Query 011673
Match_columns 480
No_of_seqs 301 out of 1189
Neff 7.8
Searched_HMMs 46136
Date Fri Mar 29 03:58:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011673.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011673hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1338 Uncharacterized conser 100.0 4.9E-31 1.1E-35 258.0 15.6 251 6-325 6-273 (466)
2 KOG1337 N-methyltransferase [G 100.0 2.6E-28 5.6E-33 258.6 21.2 280 6-356 3-322 (472)
3 PF00856 SET: SET domain; Int 99.6 1.3E-15 2.7E-20 136.5 8.7 49 253-309 112-162 (162)
4 smart00317 SET SET (Su(var)3-9 98.1 4.3E-06 9.2E-11 70.7 4.7 48 255-308 69-116 (116)
5 PF09273 Rubis-subs-bind: Rubi 97.2 0.00091 2E-08 57.9 6.4 95 341-476 2-122 (128)
6 KOG2589 Histone tail methylase 94.5 0.04 8.7E-07 55.2 4.0 53 255-327 193-245 (453)
7 KOG1085 Predicted methyltransf 93.2 0.071 1.5E-06 51.8 3.0 51 261-318 335-386 (392)
8 KOG1079 Transcriptional repres 90.1 0.27 5.8E-06 53.2 3.6 42 259-309 665-709 (739)
9 KOG4442 Clathrin coat binding 88.6 0.41 8.9E-06 52.0 3.6 41 260-309 194-237 (729)
10 smart00317 SET SET (Su(var)3-9 85.9 1 2.2E-05 37.3 4.0 35 26-61 2-37 (116)
11 KOG1080 Histone H3 (Lys4) meth 78.2 1.8 3.9E-05 50.0 3.4 45 258-309 938-983 (1005)
12 COG2940 Proteins containing SE 75.4 1.7 3.7E-05 46.7 2.1 46 258-310 404-450 (480)
13 KOG1083 Putative transcription 62.2 6.9 0.00015 44.8 3.3 45 259-312 1250-1297(1306)
14 KOG1082 Histone H3 (Lys9) meth 60.6 7.9 0.00017 40.0 3.3 52 260-313 273-324 (364)
15 cd08305 Pyrin Pyrin: a protein 39.3 66 0.0014 25.0 4.6 51 427-478 8-61 (73)
16 KOG2084 Predicted histone tail 35.1 50 0.0011 34.7 4.6 60 253-322 199-265 (482)
17 KOG1338 Uncharacterized conser 31.7 4.6 0.0001 41.4 -3.7 71 253-334 269-343 (466)
18 KOG1085 Predicted methyltransf 30.2 55 0.0012 32.4 3.4 29 24-53 256-285 (392)
19 PF10905 DUF2695: Protein of u 29.6 47 0.001 24.2 2.2 19 9-28 32-50 (53)
20 KOG2461 Transcription factor B 26.0 53 0.0011 34.4 2.7 32 290-321 124-155 (396)
21 PF02758 PYRIN: PAAD/DAPIN/Pyr 25.6 1.2E+02 0.0026 24.0 4.2 53 426-478 11-70 (83)
22 PF09652 Cas_VVA1548: Putative 24.2 39 0.00085 27.6 1.1 41 8-58 5-47 (93)
23 PF10281 Ish1: Putative stress 21.2 80 0.0017 21.0 2.0 17 9-25 6-22 (38)
No 1
>KOG1338 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.97 E-value=4.9e-31 Score=258.00 Aligned_cols=251 Identities=19% Similarity=0.214 Sum_probs=192.9
Q ss_pred hhCHHHHHHHHHHCC-cccc-CeeEEEcc---CCCceEEEEccCC-CCCeEEEcccccccCccccccCCCCC--hhhhhh
Q 011673 6 EAKLEPFLQWLQVNK-VELR-GCKIKYSD---ESKGFGIFSSNEF-SDGVLLVVPLDLAITPMRVLQDPLIG--PECRAM 77 (480)
Q Consensus 6 ~~~~~~fl~Wl~~~G-~~~~-~v~i~~~~---~~~GrGl~At~dI-~ge~l~~IP~~~~lt~~~~~~~~~~g--~~~~~~ 77 (480)
.+..+.|+.|++.-+ .+.+ +|.+.+.+ +..|+|++|+++| +||.||.+|++.+|+..+... .+ |...+.
T Consensus 6 ~d~~~~fl~w~k~t~eletSpKi~~ndl~~v~~~~G~g~vAtesIkkgE~Lf~~prdsvLsvtts~l---i~~lps~~rv 82 (466)
T KOG1338|consen 6 SDLAKRFLLWGKLTLELETSPKIDNNDLPWVERIAGAGIVATESIKKGESLFAYPRDSVLSVTTSAL---ITPLPSDIRV 82 (466)
T ss_pred ccHHHHHHHHHHHhhheeecccccccccchhhhhcccceeeehhhcCCceEEEecCccEEeeehHHh---cccchHHHHH
Confidence 345789999999987 6666 57666543 2358999999999 899999999999999887532 22 122222
Q ss_pred hcCCCCChHHHHHHHHHHHhhcCC-CCcHhhHhhcCC--CCCCCCCCCHHHHhcCCCCchHHHHHHHHHHHHHHHHHHHH
Q 011673 78 FEDGEVDDRFLMILFLTVERLRKN-SSWKPYLDMLPT--TFGNPLWFTDDELLELKGTTLYRATELQKQNLLTLYDDKVK 154 (480)
Q Consensus 78 ~~~~~l~~~~~Lal~Ll~E~~~~~-S~W~pYl~~LP~--~~~tPl~w~~~el~~L~gt~l~~~~~~~~~~~~~~y~~~~~ 154 (480)
+- ..++.|..|++.|++|..-++ |+|+|||+.+|+ ..++|+||+++|++.|.-+.++..+.++++++.++|...++
T Consensus 83 ~L-ne~gsw~~Lllvll~E~~~pq~SrWrPYfs~wp~p~rm~spifWdEnEl~~Ll~stvlee~~Kd~aeI~~~~i~~i~ 161 (466)
T KOG1338|consen 83 LL-NEVGSWGMLLLVLLREKKMPQKSRWRPYFSRWPQPARMHSPIFWDENELSMLLCSTVLEETVKDKAEIEKDFIFVIQ 161 (466)
T ss_pred Hh-hcCCcHHHHHHHHHHHhhcccccccccHHHhCCChhhcCCCccCCchHHHHHhhcccchhhHhHHHHHHHHHHHHHH
Confidence 22 257799999999999997665 999999999998 48899999999998654444445488999999999999999
Q ss_pred HHHHHhhccC-----CChhhHHHHHHhhhcCCCCCCCCCCCcccccccccccccccccccccccccchhhcccchhhhhh
Q 011673 155 DLVKKLLVLD-----GDSERANSIFWTRALNIPLPHSYVFPQNQEDLNKYDSINNSAELSNDHNSRGELINGLNDIKNEA 229 (480)
Q Consensus 155 ~l~~~~~~~~-----~~~~~a~~~v~SRa~~~~~~~s~~fp~~~~~~~~~~~~~~~~S~~~~~~~~~~~~~~~~~~~~~a 229 (480)
++.+.+|.++ ++|..+++++.+.+|.++...+. + ++ +
T Consensus 162 pf~~~~p~vfs~~slEdF~y~~Al~laysfdve~~~s~-------~----------~~------------------e--- 203 (466)
T KOG1338|consen 162 PFKQHCPIVFSRPSLEDFMYAYALGLAYSFDVEFLLSL-------D----------NL------------------E--- 203 (466)
T ss_pred HHHHhCcchhcccCHHHHHHHHHHHHHHheeeehhcch-------h----------hh------------------h---
Confidence 9999988876 35678999999999977554320 0 00 0
Q ss_pred hhhhccccCCCcccCCCCCCccccceechhhhccCCCCC-CceeEEEcCCCccccCCcceeEEEeecccCCCCCeeeecc
Q 011673 230 QRVNSQVNGATSTLTSTQGETLWIEGLVPGIDFCNHDLK-AAATWEVDGTGLITGVPFSMYLLSVERSSFHSEKEISISY 308 (480)
Q Consensus 230 ~~~~s~~~~~~~~~~~~~~~~~~~~~LvP~~D~lNH~~~-~~~~~~~d~~g~~~~~~~s~~l~~~a~~~i~~GeEIfisY 308 (480)
... +......+|+|.+||+||+.. .++...++. +|+.|+|+++|.+|+|||++|
T Consensus 204 -------ee~--------e~e~ngk~m~p~ad~lNhd~~k~nanl~y~~----------NcL~mva~r~iekgdev~n~d 258 (466)
T KOG1338|consen 204 -------EES--------EIECNGKLMTPIADFLNHDGLKANANLRYED----------NCLEMVADRNIEKGDEVDNSD 258 (466)
T ss_pred -------hhh--------ccccCcccccchhhhhccchhhcccceeccC----------cceeeeecCCCCCcccccccc
Confidence 000 111113599999999999987 667666654 269999999999999999999
Q ss_pred CCCCcHHHHHhCCccCC
Q 011673 309 GNKGNEELLYLYGFVID 325 (480)
Q Consensus 309 G~~sN~eLL~~YGFv~~ 325 (480)
|-|+|+ |++||.+.-
T Consensus 259 g~~p~~--l~~l~ka~c 273 (466)
T KOG1338|consen 259 GLKPMG--LLKLTKALC 273 (466)
T ss_pred ccCcch--hhhhhhhcc
Confidence 999999 788887763
No 2
>KOG1337 consensus N-methyltransferase [General function prediction only]
Probab=99.96 E-value=2.6e-28 Score=258.56 Aligned_cols=280 Identities=24% Similarity=0.346 Sum_probs=191.8
Q ss_pred hhCHHHHHHHHHHCCccccC-eeEEEccCCCceEEEEc-cCC-CCCeEEEcccccccCccccccCCCCChh---------
Q 011673 6 EAKLEPFLQWLQVNKVELRG-CKIKYSDESKGFGIFSS-NEF-SDGVLLVVPLDLAITPMRVLQDPLIGPE--------- 73 (480)
Q Consensus 6 ~~~~~~fl~Wl~~~G~~~~~-v~i~~~~~~~GrGl~At-~dI-~ge~l~~IP~~~~lt~~~~~~~~~~g~~--------- 73 (480)
.+++.+|++|.+.+|+..+. +.++.... .|.++.|. ..+ ..+.+..+....-.........+..|..
T Consensus 3 ~~~l~~~l~~~~~~~~~~~~~~~~~~~~~-~g~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~ 81 (472)
T KOG1337|consen 3 VDVLSALLRWAQCNGISLSSSLDLRPDEL-KGLVRWAASESIASSENIKSLKFWLTGNGLSSSKSSLPGNDIDEWPLLVS 81 (472)
T ss_pred hhHHHHhhhHHhccCccCCcccccCcccc-CcceeeeecccCCCccccccceeccccCCcchhhhccccccccccchhhh
Confidence 46789999999999999873 55555543 67777776 333 4443333333322222222111111110
Q ss_pred hhh--------------hhcC--CCCChH-HHHHHHHHHHhhcCC-CCcHhhHhhcCCCCCCCCCCCHHHHhcCCCCchH
Q 011673 74 CRA--------------MFED--GEVDDR-FLMILFLTVERLRKN-SSWKPYLDMLPTTFGNPLWFTDDELLELKGTTLY 135 (480)
Q Consensus 74 ~~~--------------~~~~--~~l~~~-~~Lal~Ll~E~~~~~-S~W~pYl~~LP~~~~tPl~w~~~el~~L~gt~l~ 135 (480)
.+. .... -..+.. ..+++++++++..+. |.|+||+..||+++++|++|+.+++..|.+++..
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~s~w~~~i~~l~~~~~~p~~~~~~~v~~l~~~~~~ 161 (472)
T KOG1337|consen 82 IRLIKGEKLLLVPPLLLLIAKRKPYNDLLPIALALFLLLEWAHGEISKWKPYISTLPSQYNSPLLWSEDEVKSLLSTPLF 161 (472)
T ss_pred hhhhhhhhhccCCchhhhccccccCccccHHHHHHHHHHhhhccccccchhhhhhchhhcCCccccCHHHHHHhhcchhh
Confidence 000 0000 011223 789999999998764 9999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccC----------CChhhHHHHHHhhhcCCCCCCCCCCCccccccccccccccc
Q 011673 136 RATELQKQNLLTLYDDKVKDLVKKLLVLD----------GDSERANSIFWTRALNIPLPHSYVFPQNQEDLNKYDSINNS 205 (480)
Q Consensus 136 ~~~~~~~~~~~~~y~~~~~~l~~~~~~~~----------~~~~~a~~~v~SRa~~~~~~~s~~fp~~~~~~~~~~~~~~~ 205 (480)
..+..++..++..+.++. .+....+..+ ..+.|+++++.||+|+.........
T Consensus 162 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~d~~~~~~~~w~~~~~~sr~~~~~~~~~~~~---------------- 224 (472)
T KOG1337|consen 162 EIVASRRQNLVNKSAELL-EVLQSHPSLFGSDLFDTFTFSAFKWAYSIVNSRAFYLPSLQRLTA---------------- 224 (472)
T ss_pred HHHHHHHHHhhhhHHHHH-HHHHhccccccccccCccchHHHHHHHHHHhhhhhcccccccccc----------------
Confidence 988888877777665543 3444443322 1257999999999997643321000
Q ss_pred ccccccccccchhhcccchhhhhhhhhhccccCCCcccCCCCCCccccceechhhhccCCCCCCceeEEEcCCCccccCC
Q 011673 206 AELSNDHNSRGELINGLNDIKNEAQRVNSQVNGATSTLTSTQGETLWIEGLVPGIDFCNHDLKAAATWEVDGTGLITGVP 285 (480)
Q Consensus 206 ~S~~~~~~~~~~~~~~~~~~~~~a~~~~s~~~~~~~~~~~~~~~~~~~~~LvP~~D~lNH~~~~~~~~~~d~~g~~~~~~ 285 (480)
.+ . . ...+|+|++||+||+++. +.+.++....
T Consensus 225 -------------------------------~~---~-----~---~~~~L~P~~D~~NH~~~~-~~~~~~~~d~----- 256 (472)
T KOG1337|consen 225 -------------------------------GD---P-----D---DNEALAPLIDLLNHSPEV-IKAGYNQEDE----- 256 (472)
T ss_pred -------------------------------CC---C-----C---cchhhhhhHHhhccCchh-ccccccCCCC-----
Confidence 00 0 1 135999999999999998 3333332211
Q ss_pred cceeEEEeecccCCCCCeeeeccCCCCcHHHHHhCCccCCCCCCCceEEeccccccCCCCCchHHHHHHHH
Q 011673 286 FSMYLLSVERSSFHSEKEISISYGNKGNEELLYLYGFVIDNNPDDYLMIHYPAEAIHSIPLSDSKALLLEE 356 (480)
Q Consensus 286 ~s~~l~~~a~~~i~~GeEIfisYG~~sN~eLL~~YGFv~~~Np~D~v~i~l~~~~~~~~~~~~~k~~ll~~ 356 (480)
.+.+++.++|++||||||+||+++|++||.+||||.++||+|.|.++ ..+...++.+..|...+..
T Consensus 257 ---~~~l~~~~~v~~geevfi~YG~~~N~eLL~~YGFv~~~N~~d~v~l~--~~l~~~~~~~~~~~~~~~~ 322 (472)
T KOG1337|consen 257 ---AVELVAERDVSAGEEVFINYGPKSNAELLLHYGFVEEDNPYDSVTLK--LALPPEDVSYLDKSDVLKK 322 (472)
T ss_pred ---cEEEEEeeeecCCCeEEEecCCCchHHHHHhcCCCCCCCCcceEEEe--ecccccccchhHHHHHHhh
Confidence 37888999999999999999999999999999999999999999977 5566677776666554443
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=99.61 E-value=1.3e-15 Score=136.49 Aligned_cols=49 Identities=31% Similarity=0.371 Sum_probs=40.7
Q ss_pred cceechhhhccCCCCCCceeEEEc--CCCccccCCcceeEEEeecccCCCCCeeeeccC
Q 011673 253 IEGLVPGIDFCNHDLKAAATWEVD--GTGLITGVPFSMYLLSVERSSFHSEKEISISYG 309 (480)
Q Consensus 253 ~~~LvP~~D~lNH~~~~~~~~~~d--~~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG 309 (480)
..+|+|++||+||+..+||.+.++ +.+ ..++++|.++|++|||||++||
T Consensus 112 ~~~l~p~~d~~NHsc~pn~~~~~~~~~~~--------~~~~~~a~r~I~~GeEi~isYG 162 (162)
T PF00856_consen 112 GIALYPFADMLNHSCDPNCEVSFDFDGDG--------GCLVVRATRDIKKGEEIFISYG 162 (162)
T ss_dssp EEEEETGGGGSEEESSTSEEEEEEEETTT--------TEEEEEESS-B-TTSBEEEEST
T ss_pred ccccCcHhHheccccccccceeeEeeccc--------ceEEEEECCccCCCCEEEEEEC
Confidence 369999999999999999988876 222 1589999999999999999999
No 4
>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain. Putative methyl transferase, based on outlier plant homologues
Probab=98.07 E-value=4.3e-06 Score=70.69 Aligned_cols=48 Identities=13% Similarity=0.064 Sum_probs=39.1
Q ss_pred eechhhhccCCCCCCceeEEEcCCCccccCCcceeEEEeecccCCCCCeeeecc
Q 011673 255 GLVPGIDFCNHDLKAAATWEVDGTGLITGVPFSMYLLSVERSSFHSEKEISISY 308 (480)
Q Consensus 255 ~LvP~~D~lNH~~~~~~~~~~d~~g~~~~~~~s~~l~~~a~~~i~~GeEIfisY 308 (480)
.+.|+++|+||+..+|+.+.....+.. ..+.++|.|+|++||||+++|
T Consensus 69 ~~~~~~~~iNHsc~pN~~~~~~~~~~~------~~~~~~a~r~I~~GeEi~i~Y 116 (116)
T smart00317 69 RKGNIARFINHSCEPNCELLFVEVNGD------SRIVIFALRDIKPGEELTIDY 116 (116)
T ss_pred ccCcHHHeeCCCCCCCEEEEEEEECCC------cEEEEEECCCcCCCCEEeecC
Confidence 589999999999999998765432211 137888999999999999999
No 5
>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=97.18 E-value=0.00091 Score=57.94 Aligned_cols=95 Identities=26% Similarity=0.279 Sum_probs=65.2
Q ss_pred cCCCCCchHHHHHHHHhhhhhhccCccccccccccccCCCCCCCCCCcccccccccccccCCccCCcccccCCCChhHHH
Q 011673 341 IHSIPLSDSKALLLEEQKAQLRCLLPKSLLEHGFFAAGHPKDGNNDNKLEVDRISSFSWSGQRRMPSYLNKLVFPENFLT 420 (480)
Q Consensus 341 ~~~~~~~~~k~~ll~~~~~~~~~~lp~~l~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ll~ 420 (480)
.++|+.++.|.++|+.+|+... +.|..+ + ...+|++|++
T Consensus 2 ~~~D~l~~~K~~lL~~~gl~~~----------~~f~l~--------------------~-----------~~~~~~~Ll~ 40 (128)
T PF09273_consen 2 SPSDPLFEEKKQLLEEHGLSGD----------QTFDLR--------------------A-----------DGPLPPELLA 40 (128)
T ss_dssp -TTSTTHHHHHHHHHHTTS-SE----------EEEEEE--------------------C-----------CSSSHHHHHH
T ss_pred CchhhhHHHHHHHHHHCCCCCC----------ceeeee--------------------C-----------CCCCCHHHHH
Confidence 4678999999999999876411 122221 0 1128999999
Q ss_pred HHHHHhCCHHHHHHH------------------------HHHHHHHhcCCCCCCCChHHHHhhhhhhcCcc--chhHHHH
Q 011673 421 ALRTIAMQEDEISKV------------------------SSLLEELVGSGGERQPSDAEVRAAVWETCGDS--GALQLLV 474 (480)
Q Consensus 421 ~lr~l~~~~~e~~~~------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~ 474 (480)
++|+++|+++|+..+ ...|..++..+++.|||+.+...++.+-.... ..+.+.|
T Consensus 41 ~lRv~~~~~~e~~~~~~~~~~~~~~~~~~~ls~~nE~~~l~~L~~~~~~~L~~y~TtleeD~~~L~~~~~~~~~~~A~~~ 120 (128)
T PF09273_consen 41 ALRVLLMTEEELRALKSLADSSEWSDRSEPLSPENEIAALQFLIDLCEARLSAYPTTLEEDEELLQSNDLSSRRRMALQV 120 (128)
T ss_dssp HHHHHHSCHHHHHHHHHCGTTTHCCHCCC-SBHHHHHHHHHHHHHHHHHHHTTSSS-HHHHHHHCHTCCCHHHHHHHHHH
T ss_pred HHHHHHcChHHHHHHHHhhcccccccccCCCchhhHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHhcCCCcHHHHHHHHH
Confidence 999999999999988 23677777888899999998887777653322 3444444
Q ss_pred Hh
Q 011673 475 DL 476 (480)
Q Consensus 475 ~~ 476 (480)
++
T Consensus 121 R~ 122 (128)
T PF09273_consen 121 RL 122 (128)
T ss_dssp HH
T ss_pred HH
Confidence 43
No 6
>KOG2589 consensus Histone tail methylase [Chromatin structure and dynamics]
Probab=94.46 E-value=0.04 Score=55.22 Aligned_cols=53 Identities=28% Similarity=0.376 Sum_probs=40.4
Q ss_pred eechhhhccCCCCCCceeEEEcCCCccccCCcceeEEEeecccCCCCCeeeeccCCCCcHHHHHhCCccCCCC
Q 011673 255 GLVPGIDFCNHDLKAAATWEVDGTGLITGVPFSMYLLSVERSSFHSEKEISISYGNKGNEELLYLYGFVIDNN 327 (480)
Q Consensus 255 ~LvP~~D~lNH~~~~~~~~~~d~~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG~~sN~eLL~~YGFv~~~N 327 (480)
-|=| +-++||+..+||.|...+. . ...++..|+|++||||.-.||. ||.=++|
T Consensus 193 wLGP-aafINHDCrpnCkFvs~g~-~--------tacvkvlRDIePGeEITcFYgs----------~fFG~~N 245 (453)
T KOG2589|consen 193 WLGP-AAFINHDCRPNCKFVSTGR-D--------TACVKVLRDIEPGEEITCFYGS----------GFFGENN 245 (453)
T ss_pred eecc-HHhhcCCCCCCceeecCCC-c--------eeeeehhhcCCCCceeEEeecc----------cccCCCC
Confidence 4445 4589999999998765431 2 2566779999999999999997 6666666
No 7
>KOG1085 consensus Predicted methyltransferase (contains a SET domain) [General function prediction only]
Probab=93.21 E-value=0.071 Score=51.77 Aligned_cols=51 Identities=24% Similarity=0.417 Sum_probs=38.7
Q ss_pred hccCCCCCCceeEEEcC-CCccccCCcceeEEEeecccCCCCCeeeeccCCCCcHHHHH
Q 011673 261 DFCNHDLKAAATWEVDG-TGLITGVPFSMYLLSVERSSFHSEKEISISYGNKGNEELLY 318 (480)
Q Consensus 261 D~lNH~~~~~~~~~~d~-~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG~~sN~eLL~ 318 (480)
-++||+.-.|+.-.+-. +|. | -+++.|.++|.+|||+.-.||++|-+-++.
T Consensus 335 RLINHS~~gNl~TKvv~Idg~----p---HLiLvA~rdIa~GEELlYDYGDRSkesi~~ 386 (392)
T KOG1085|consen 335 RLINHSVRGNLKTKVVEIDGS----P---HLILVARRDIAQGEELLYDYGDRSKESIAK 386 (392)
T ss_pred hhhcccccCcceeeEEEecCC----c---eEEEEeccccccchhhhhhccccchhHHhh
Confidence 47999998776443221 232 2 388999999999999999999998877654
No 8
>KOG1079 consensus Transcriptional repressor EZH1 [Transcription]
Probab=90.15 E-value=0.27 Score=53.19 Aligned_cols=42 Identities=19% Similarity=0.327 Sum_probs=33.4
Q ss_pred hhhccCCCCCCceeEEE---cCCCccccCCcceeEEEeecccCCCCCeeeeccC
Q 011673 259 GIDFCNHDLKAAATWEV---DGTGLITGVPFSMYLLSVERSSFHSEKEISISYG 309 (480)
Q Consensus 259 ~~D~lNH~~~~~~~~~~---d~~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG 309 (480)
.+=+.||+..+||...+ .+++ .+-+.|.|.|.+|||+|..|+
T Consensus 665 k~rFANHS~nPNCYAkvm~V~Gdh---------RIGifAkRaIeagEELffDYr 709 (739)
T KOG1079|consen 665 KIRFANHSFNPNCYAKVMMVAGDH---------RIGIFAKRAIEAGEELFFDYR 709 (739)
T ss_pred hhhhccCCCCCCcEEEEEEecCCc---------ceeeeehhhcccCceeeeeec
Confidence 35689999999987653 4433 256789999999999999997
No 9
>KOG4442 consensus Clathrin coat binding protein/Huntingtin interacting protein HIP1, involved in regulation of endocytosis [Intracellular trafficking, secretion, and vesicular transport]
Probab=88.57 E-value=0.41 Score=52.03 Aligned_cols=41 Identities=22% Similarity=0.362 Sum_probs=31.1
Q ss_pred hhccCCCCCCcee---EEEcCCCccccCCcceeEEEeecccCCCCCeeeeccC
Q 011673 260 IDFCNHDLKAAAT---WEVDGTGLITGVPFSMYLLSVERSSFHSEKEISISYG 309 (480)
Q Consensus 260 ~D~lNH~~~~~~~---~~~d~~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG 309 (480)
+=|+||+.++||. |.+.+.- .+=+-+.+.|++||||...|+
T Consensus 194 aRFiNHSC~PNa~~~KWtV~~~l---------RvGiFakk~I~~GEEITFDYq 237 (729)
T KOG4442|consen 194 ARFINHSCDPNAEVQKWTVPDEL---------RVGIFAKKVIKPGEEITFDYQ 237 (729)
T ss_pred HHhhcCCCCCCceeeeeeeCCee---------EEEEeEecccCCCceeeEecc
Confidence 5679999999974 6776421 133447899999999999987
No 10
>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain. Putative methyl transferase, based on outlier plant homologues
Probab=85.87 E-value=1 Score=37.29 Aligned_cols=35 Identities=11% Similarity=0.194 Sum_probs=26.7
Q ss_pred eeEEEccCCCceEEEEccCC-CCCeEEEcccccccCc
Q 011673 26 CKIKYSDESKGFGIFSSNEF-SDGVLLVVPLDLAITP 61 (480)
Q Consensus 26 v~i~~~~~~~GrGl~At~dI-~ge~l~~IP~~~~lt~ 61 (480)
+++...+ +.|+|++|+++| +|+.|+..|-.++...
T Consensus 2 ~~~~~~~-~~G~gl~a~~~i~~g~~i~~~~g~~~~~~ 37 (116)
T smart00317 2 LEVFKSP-GKGWGVRATEDIPKGEFIGEYVGEIITSE 37 (116)
T ss_pred cEEEecC-CCcEEEEECCccCCCCEEEEEEeEEECHH
Confidence 3445556 499999999999 8998888887765543
No 11
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=78.24 E-value=1.8 Score=49.98 Aligned_cols=45 Identities=16% Similarity=0.180 Sum_probs=34.1
Q ss_pred hhhhccCCCCCCceeEEEcC-CCccccCCcceeEEEeecccCCCCCeeeeccC
Q 011673 258 PGIDFCNHDLKAAATWEVDG-TGLITGVPFSMYLLSVERSSFHSEKEISISYG 309 (480)
Q Consensus 258 P~~D~lNH~~~~~~~~~~d~-~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG 309 (480)
=++=++||+..+||+-.+-. +|. ..++++|.++|.+||||+-+|-
T Consensus 938 niAr~InHsC~PNCyakvi~V~g~-------~~IvIyakr~I~~~EElTYDYk 983 (1005)
T KOG1080|consen 938 NIARFINHSCNPNCYAKVITVEGD-------KRIVIYSKRDIAAGEELTYDYK 983 (1005)
T ss_pred chhheeecccCCCceeeEEEecCe-------eEEEEEEecccccCceeeeecc
Confidence 35778999999999765321 121 1488999999999999997775
No 12
>COG2940 Proteins containing SET domain [General function prediction only]
Probab=75.36 E-value=1.7 Score=46.66 Aligned_cols=46 Identities=15% Similarity=0.213 Sum_probs=34.5
Q ss_pred hhhhccCCCCCCceeEEEcC-CCccccCCcceeEEEeecccCCCCCeeeeccCC
Q 011673 258 PGIDFCNHDLKAAATWEVDG-TGLITGVPFSMYLLSVERSSFHSEKEISISYGN 310 (480)
Q Consensus 258 P~~D~lNH~~~~~~~~~~d~-~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG~ 310 (480)
.+.=++||+..+|+...... .|.+ .+..++.++|++||||.++||.
T Consensus 404 ~~~r~~nHS~~pN~~~~~~~~~g~~-------~~~~~~~rDI~~geEl~~dy~~ 450 (480)
T COG2940 404 DVARFINHSCTPNCEASPIEVNGIF-------KISIYAIRDIKAGEELTYDYGP 450 (480)
T ss_pred cccceeecCCCCCcceecccccccc-------eeeecccccchhhhhhcccccc
Confidence 34448999999998776433 3311 3667789999999999999985
No 13
>KOG1083 consensus Putative transcription factor ASH1/LIN-59 [Transcription]
Probab=62.18 E-value=6.9 Score=44.84 Aligned_cols=45 Identities=24% Similarity=0.419 Sum_probs=33.4
Q ss_pred hhhccCCCCCCcee---EEEcCCCccccCCcceeEEEeecccCCCCCeeeeccCCCC
Q 011673 259 GIDFCNHDLKAAAT---WEVDGTGLITGVPFSMYLLSVERSSFHSEKEISISYGNKG 312 (480)
Q Consensus 259 ~~D~lNH~~~~~~~---~~~d~~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG~~s 312 (480)
.+-+.||+.++||. |.++ |.. .+.+.|.++|.+||||+-.|-.++
T Consensus 1250 ~~RfinhscKPNc~~qkwSVN--G~~-------Rv~L~A~rDi~kGEELtYDYN~ks 1297 (1306)
T KOG1083|consen 1250 GARFINHSCKPNCEMQKWSVN--GEY-------RVGLFALRDLPKGEELTYDYNFKS 1297 (1306)
T ss_pred cccccccccCCCCcccccccc--cee-------eeeeeecCCCCCCceEEEeccccc
Confidence 34467899988864 5665 432 266779999999999999997653
No 14
>KOG1082 consensus Histone H3 (Lys9) methyltransferase SUV39H1/Clr4, required for transcriptional silencing [Chromatin structure and dynamics; Transcription]
Probab=60.56 E-value=7.9 Score=39.97 Aligned_cols=52 Identities=13% Similarity=0.179 Sum_probs=34.6
Q ss_pred hhccCCCCCCceeEEEcCCCccccCCcceeEEEeecccCCCCCeeeeccCCCCc
Q 011673 260 IDFCNHDLKAAATWEVDGTGLITGVPFSMYLLSVERSSFHSEKEISISYGNKGN 313 (480)
Q Consensus 260 ~D~lNH~~~~~~~~~~d~~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG~~sN 313 (480)
+=++||+..+|+.|..--.+.+ .+.-..+.+.|.++|.+|+|+...||..-+
T Consensus 273 ~RfinHSC~PN~~~~~v~~~~~--~~~~~~i~ffa~~~I~p~~ELT~dYg~~~~ 324 (364)
T KOG1082|consen 273 ARFINHSCSPNLLYQAVFQDEF--VLLYLRIGFFALRDISPGEELTLDYGKAYK 324 (364)
T ss_pred cccccCCCCccceeeeeeecCC--ccchheeeeeeccccCCCcccchhhccccc
Confidence 4479999999877653111111 011113566789999999999999997544
No 15
>cd08305 Pyrin Pyrin: a protein-protein interaction domain. The Pyrin domain (or PYD), also called DAPIN or PAAD, is a subfamily of the Death Domain (DD) superfamily and it functions in several signaling pathways. The Pyrin domain is found at the N-terminus of a variety of proteins and serves as a linker that recruits other domains into signaling complexes. Pyrin-containing proteins include NALPs, ASC (Apoptosis-associated speck-like protein containing a CARD), and the interferon-inducible p200 (IFI-200) family of proteins which includes the human IFI-16, myeloid cell nuclear differentiation antigen (MNDA) and absent in melanoma (AIM) 2. NALPs are members of the NBS-LRR family of proteins possessing a tripartite domain structure including a C-terminal LRR (leucine-rich repeats), a central nucleotide-binding site (NBS) domain or NACHT (for neuronal apoptosis inhibitor protein, CIITA, HET-E and TP1), and an N-terminal protein-protein interaction domain, which is a Pyrin domain in the case
Probab=39.28 E-value=66 Score=25.01 Aligned_cols=51 Identities=18% Similarity=0.339 Sum_probs=38.8
Q ss_pred CCHHHHHHHHHHHHH---HhcCCCCCCCChHHHHhhhhhhcCccchhHHHHHhhh
Q 011673 427 MQEDEISKVSSLLEE---LVGSGGERQPSDAEVRAAVWETCGDSGALQLLVDLLQ 478 (480)
Q Consensus 427 ~~~~e~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 478 (480)
++++||++..+.|.. .+.....++. ..++-.-.-+.+|...|+.+.+.+++
T Consensus 8 L~~~efk~FK~~L~~~~~~~~~~~~~~a-~~~la~lL~~~y~~~~a~~~t~~i~~ 61 (73)
T cd08305 8 ITDEELKRFKSLLANDLFLETKAQLEYT-RIQIADLMEQKFGAVSALDKLINIFE 61 (73)
T ss_pred cCHHHHHHHHHHHHhcCCCCCccccccc-HHHHHHHHHHHcChhHHHHHHHHHHH
Confidence 689999999988886 2333344444 55777778889999999999988875
No 16
>KOG2084 consensus Predicted histone tail methylase containing SET domain [Chromatin structure and dynamics]
Probab=35.09 E-value=50 Score=34.70 Aligned_cols=60 Identities=27% Similarity=0.373 Sum_probs=42.9
Q ss_pred cceechhhhccCCCCCCceeEEEcCCCccccCCcceeEEEeecccCCCCC-eeeeccCC--CC----cHHHHHhCCc
Q 011673 253 IEGLVPGIDFCNHDLKAAATWEVDGTGLITGVPFSMYLLSVERSSFHSEK-EISISYGN--KG----NEELLYLYGF 322 (480)
Q Consensus 253 ~~~LvP~~D~lNH~~~~~~~~~~d~~g~~~~~~~s~~l~~~a~~~i~~Ge-EIfisYG~--~s----N~eLL~~YGF 322 (480)
..+|.|..=++||+..+++...+++.+ ..+.+...+.+++ +++++|-. .+ ...|-..|.|
T Consensus 199 ~~~l~~~~~~~~hsC~pn~~~~~~~~~----------~~~~~~~~~~~~~~~l~~~y~~~~~~~~~r~~~l~~~~~f 265 (482)
T KOG2084|consen 199 GRGLFPGSSLFNHSCFPNISVIFDGRG----------LALLVPAGIDAGEEELTISYTDPLLSTASRQKQLRQSKLF 265 (482)
T ss_pred eeeecccchhcccCCCCCeEEEECCce----------eEEEeecccCCCCCEEEEeecccccCHHHHHHHHhhccce
Confidence 358999999999999999887666544 3444567777766 99999985 22 2345555666
No 17
>KOG1338 consensus Uncharacterized conserved protein [Function unknown]
Probab=31.66 E-value=4.6 Score=41.41 Aligned_cols=71 Identities=14% Similarity=0.019 Sum_probs=52.3
Q ss_pred cceechhhhccCCCCCC--ceeEEEcCCCccccCCcceeEEEeecccCCCCCeeeeccCCCCcHHHHHhCC-ccCC-CCC
Q 011673 253 IEGLVPGIDFCNHDLKA--AATWEVDGTGLITGVPFSMYLLSVERSSFHSEKEISISYGNKGNEELLYLYG-FVID-NNP 328 (480)
Q Consensus 253 ~~~LvP~~D~lNH~~~~--~~~~~~d~~g~~~~~~~s~~l~~~a~~~i~~GeEIfisYG~~sN~eLL~~YG-Fv~~-~Np 328 (480)
.++|+|+++|.|-.-.. ++....|..+. ..|++.|.+ |.|..++||...+.++...|| |+-. --|
T Consensus 269 ~ka~c~gihm~~g~~~l~niv~~l~D~~~d---------~tm~~~R~i--l~ql~nt~teld~~e~~~syd~ftkkE~~p 337 (466)
T KOG1338|consen 269 TKALCVGIHMVWGILKLYNIVQILMDVPND---------DTMRNMRLI--LLQLHNTRTELDINEFHSSYDTFTKKEVKP 337 (466)
T ss_pred hhhccceeeeecceeecchHHHHHhcCCCc---------chHHHHHHH--HHHhccchhhhhhHHHHHhhhhhhhccccc
Confidence 36999999999988652 23222232221 467788888 999999999999999999999 5543 468
Q ss_pred CCceEE
Q 011673 329 DDYLMI 334 (480)
Q Consensus 329 ~D~v~i 334 (480)
++.+-|
T Consensus 338 ~~g~lv 343 (466)
T KOG1338|consen 338 AIGKLV 343 (466)
T ss_pred cceeee
Confidence 887655
No 18
>KOG1085 consensus Predicted methyltransferase (contains a SET domain) [General function prediction only]
Probab=30.21 E-value=55 Score=32.35 Aligned_cols=29 Identities=24% Similarity=0.363 Sum_probs=23.4
Q ss_pred cCeeEEEccCCCceEEEEccCC-CCCeEEEc
Q 011673 24 RGCKIKYSDESKGFGIFSSNEF-SDGVLLVV 53 (480)
Q Consensus 24 ~~v~i~~~~~~~GrGl~At~dI-~ge~l~~I 53 (480)
.++.+..+.+ .||||+|+..+ .|+-|+.-
T Consensus 256 egl~~~~~dg-KGRGv~a~~~F~rgdFVVEY 285 (392)
T KOG1085|consen 256 EGLLEVYKDG-KGRGVRAKVNFERGDFVVEY 285 (392)
T ss_pred cceeEEeecc-ccceeEeecccccCceEEEE
Confidence 3577888875 99999999999 78877553
No 19
>PF10905 DUF2695: Protein of unknown function (DUF2695); InterPro: IPR024248 This bacterial family of proteins has no known function.
Probab=29.58 E-value=47 Score=24.24 Aligned_cols=19 Identities=32% Similarity=0.641 Sum_probs=15.5
Q ss_pred HHHHHHHHHHCCccccCeeE
Q 011673 9 LEPFLQWLQVNKVELRGCKI 28 (480)
Q Consensus 9 ~~~fl~Wl~~~G~~~~~v~i 28 (480)
.+++++|+++||+..+ ++|
T Consensus 32 ~~~vl~~l~~nGg~CD-CEV 50 (53)
T PF10905_consen 32 WEDVLEWLRENGGYCD-CEV 50 (53)
T ss_pred HHHHHHHHHHcCCCcc-eee
Confidence 3889999999999877 444
No 20
>KOG2461 consensus Transcription factor BLIMP-1/PRDI-BF1, contains C2H2-type Zn-finger and SET domains [Transcription]
Probab=26.00 E-value=53 Score=34.35 Aligned_cols=32 Identities=25% Similarity=0.385 Sum_probs=28.5
Q ss_pred EEEeecccCCCCCeeeeccCCCCcHHHHHhCC
Q 011673 290 LLSVERSSFHSEKEISISYGNKGNEELLYLYG 321 (480)
Q Consensus 290 l~~~a~~~i~~GeEIfisYG~~sN~eLL~~YG 321 (480)
+..++.|+|++|||+.+.||.--+.+|...+|
T Consensus 124 Ifyrt~r~I~p~eELlVWY~~e~~~~L~~~~~ 155 (396)
T KOG2461|consen 124 IFYRTIRDIRPNEELLVWYGSEYAEELAYGHG 155 (396)
T ss_pred eEEEecccCCCCCeEEEEeccchHhHhcccCC
Confidence 56678999999999999999988888888887
No 21
>PF02758 PYRIN: PAAD/DAPIN/Pyrin domain; InterPro: IPR004020 Pyrin domain was identified as putative protein-protein interaction domain at the N-terminal region of several proteins thought to function in apoptotic and inflammatory signalling pathways. Using secondary structure prediction and potential-based fold recognition methods, the PYRIN domain is predicted to be a member of the six-helix bundle death domain-fold superfamily that includes death domains (DDs), death effector domains (DEDs), and caspase recruitment domains (CARDs). Members of the death domain-fold superfamily are well established mediators of protein-protein interactions found in many proteins involved in apoptosis and inflammation, indicating further that the PYRIN domains serve a similar function. Comparison of a circular dichroism spectrum of the PYRIN domain of CARD7/DEFCAP/NAC/NALP1 with spectra of several proteins known to adopt the death domain-fold provides experimental support for the structure prediction [] It is found in interferon-inducible proteins, pyrin and myeloid cell nuclear differentiation antigen.; PDB: 2DO9_A 2YU0_A 2KN6_A 1UCP_A 2L6A_A 2KM6_A 1PN5_A 2DBG_A 3QF2_B 2HM2_Q.
Probab=25.57 E-value=1.2e+02 Score=23.98 Aligned_cols=53 Identities=21% Similarity=0.365 Sum_probs=34.8
Q ss_pred hCCHHHHHHHHHHHHHHhcCCCCCCCCh-------HHHHhhhhhhcCccchhHHHHHhhh
Q 011673 426 AMQEDEISKVSSLLEELVGSGGERQPSD-------AEVRAAVWETCGDSGALQLLVDLLQ 478 (480)
Q Consensus 426 ~~~~~e~~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~ 478 (480)
-++++||++....|......+...-|.+ .++-.-.-+.+|..+|..+.+++|+
T Consensus 11 ~L~~~efk~FK~~L~~~~~~~~~~Ip~~~le~ad~~~la~lLv~~y~~~~A~~vt~~il~ 70 (83)
T PF02758_consen 11 ELSEEEFKRFKWLLKEPVKEGFPPIPRGELEKADREDLADLLVQHYGEQRAWEVTLKILE 70 (83)
T ss_dssp TS-HHHHHHHHHHHHSTSSTTTCSSSHCHHHHSSHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHhcchhhcCCCCCCHHHHhhCCHHHHHHHHHHHcCHHHHHHHHHHHHH
Confidence 4689999999999973322232222311 1333556669999999999999886
No 22
>PF09652 Cas_VVA1548: Putative CRISPR-associated protein (Cas_VVA1548); InterPro: IPR013443 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents a conserved region of about 95 amino acids found exclusively in species with CRISPR repeats. In all bacterial species that contain this entry, the genes encoding the proteins are in the midst of a cluster of cas genes.
Probab=24.22 E-value=39 Score=27.60 Aligned_cols=41 Identities=15% Similarity=0.381 Sum_probs=27.4
Q ss_pred CHHHHHHHHHHCCccccCeeEEEccCCCceEEEEccCC-CCCeEE-Ecccccc
Q 011673 8 KLEPFLQWLQVNKVELRGCKIKYSDESKGFGIFSSNEF-SDGVLL-VVPLDLA 58 (480)
Q Consensus 8 ~~~~fl~Wl~~~G~~~~~v~i~~~~~~~GrGl~At~dI-~ge~l~-~IP~~~~ 58 (480)
+....++|+++.|+.++.+.-. .+ ..+| +|++++ ++|..++
T Consensus 5 RH~GAieW~~~qg~~iD~~v~H-ld---------~~~i~~GD~ViGtLPvhLa 47 (93)
T PF09652_consen 5 RHPGAIEWAKQQGIQIDHFVDH-LD---------PADIQPGDVVIGTLPVHLA 47 (93)
T ss_pred ecccHHHHHHHhCCCcceeecc-CC---------HHHccCCCEEEEeCcHHHH
Confidence 4456789999999887742111 11 4567 788777 8888764
No 23
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=21.23 E-value=80 Score=20.99 Aligned_cols=17 Identities=12% Similarity=0.331 Sum_probs=14.1
Q ss_pred HHHHHHHHHHCCccccC
Q 011673 9 LEPFLQWLQVNKVELRG 25 (480)
Q Consensus 9 ~~~fl~Wl~~~G~~~~~ 25 (480)
-+.|.+||.++|+..++
T Consensus 6 ~~~L~~wL~~~gi~~~~ 22 (38)
T PF10281_consen 6 DSDLKSWLKSHGIPVPK 22 (38)
T ss_pred HHHHHHHHHHcCCCCCC
Confidence 36789999999998763
Done!