Query 027232
Match_columns 226
No_of_seqs 189 out of 301
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 06:54:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027232.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027232hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4772 Predicted tRNA-splicin 100.0 3.5E-37 7.5E-42 279.0 5.2 189 29-225 63-287 (364)
2 PF12928 tRNA_int_end_N2: tRNA 99.9 6.8E-23 1.5E-27 150.8 6.6 66 32-97 5-71 (72)
3 PRK09297 tRNA-splicing endonuc 99.4 1.7E-13 3.6E-18 115.7 4.1 71 68-139 27-97 (169)
4 TIGR00324 endA tRNA intron end 99.4 6.1E-13 1.3E-17 112.5 4.5 87 46-139 12-98 (170)
5 PRK09300 tRNA splicing endonuc 99.1 3.7E-11 8E-16 111.1 5.0 66 69-140 27-92 (330)
6 COG1676 SEN2 tRNA splicing end 99.0 4.8E-10 1E-14 95.9 7.5 71 69-140 39-109 (181)
7 PRK09300 tRNA splicing endonuc 98.9 6.8E-10 1.5E-14 102.8 3.8 61 73-139 196-256 (330)
8 PF02778 tRNA_int_endo_N: tRNA 98.6 5.8E-08 1.3E-12 70.7 5.0 40 68-108 27-67 (67)
9 PRK09539 tRNA-splicing endonuc 96.4 0.0016 3.4E-08 53.1 1.3 24 117-140 32-55 (124)
10 KOG4685 tRNA splicing endonucl 95.9 0.0048 1E-07 55.7 2.5 64 74-139 111-175 (271)
11 PF01974 tRNA_int_endo: tRNA i 92.9 0.021 4.5E-07 42.7 -0.9 21 119-139 1-21 (85)
12 KOG4133 tRNA splicing endonucl 87.7 0.38 8.3E-06 43.8 2.3 22 120-141 194-215 (290)
13 PRK15047 N-hydroxyarylamine O- 42.0 14 0.00031 33.7 1.4 44 97-140 46-91 (281)
14 KOG4772 Predicted tRNA-splicin 37.5 16 0.00036 34.5 1.1 40 180-219 219-262 (364)
15 PF13953 PapC_C: PapC C-termin 35.1 52 0.0011 23.2 3.2 37 55-99 15-52 (68)
16 PF13592 HTH_33: Winged helix- 32.1 25 0.00054 24.4 1.1 40 101-141 4-43 (60)
17 PRK07708 hypothetical protein; 27.4 99 0.0021 27.2 4.3 52 75-128 21-79 (219)
18 TIGR03882 cyclo_dehyd_2 bacter 25.3 22 0.00047 30.5 -0.2 37 101-139 42-78 (193)
19 PF08513 LisH: LisH; InterPro 23.8 18 0.00038 21.6 -0.8 14 122-135 4-17 (27)
20 COG2162 NhoA Arylamine N-acety 22.7 48 0.001 30.6 1.4 48 98-145 48-99 (275)
21 PF11625 DUF3253: Protein of u 20.2 57 0.0012 24.9 1.2 26 81-107 48-73 (83)
No 1
>KOG4772 consensus Predicted tRNA-splicing endonuclease subunit [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.5e-37 Score=278.99 Aligned_cols=189 Identities=38% Similarity=0.569 Sum_probs=141.4
Q ss_pred cccCcccceeecCCeEEEEEeCCCCeEEEEcccCcceeeeeEEeCCeEEEehHHHHHHHhcCcE-EEEcCCCcccCHHHH
Q 027232 29 YMSGFISKLQFRKDISKAHWNNELGMAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGAL-YLLDNNDLCLPLKEI 107 (226)
Q Consensus 29 ~~~~s~~R~~~~k~~s~a~W~pe~~~a~v~~~rG~~~~~~G~~~~~~l~L~peEALYL~ErG~L-~l~~~~g~~LSlqe~ 107 (226)
+..+|.+|.++++...+|.|+.+.+||+|.+++|++|+|||+++.|++||.+||||||+|||.+ .+..+.|++||++++
T Consensus 63 fd~lSvprl~~~~~~~ia~wn~e~gmAeVekk~Gkl~~TmG~adsgklyl~~eEalYL~ErG~l~~cg~e~~I~~sl~dL 142 (364)
T KOG4772|consen 63 FDGLSVPRLQFRVGSEIAGWNVELGMAEVEKKRGKLWTTMGIADSGKLYLFIEEALYLSERGELQSCGHEDDIVISLKDL 142 (364)
T ss_pred HhcCCchHHHHhhhhHHHHHHHhcCeeeEeecCCcceeeeeeeccCceEEeHHHHHHHHHhhhhhhhcCccchhhHHHHH
Confidence 4468999999999999999999999999999999999999999999999999999999999944 445567899999999
Q ss_pred HHHHHhccCCCCccceeeehhhhcCCeEEeecCCCceecCCCCcccccCCCccccccc--------------cccc----
Q 027232 108 YEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGVPWIVKIPKGRDINITSDPVSLQVT--------------PKRH---- 169 (226)
Q Consensus 108 y~l~~~~~~~~~~~kY~VY~~Lkr~GYiV~R~~~~w~~~~~~~~~~~~~~~~~~~~~~--------------~~~~---- 169 (226)
|+.+..+.. +|++|.||+||||+||||+||+++...++ ...+..+||.+. .+++
T Consensus 143 ys~~~s~~~--s~enYlVyahLkrlGfiv~rhn~~~~~~~------e~~~~~kiw~~k~a~~~~L~~p~~i~es~~f~~~ 214 (364)
T KOG4772|consen 143 YSEIASEKY--SMENYLVYAHLKRLGFIVKRHNVPAAVKT------EFFPLKKIWTLKDAITWRLLSPSKIQESSCFSEF 214 (364)
T ss_pred HHHHhhhhc--chhHHHHHHHHHhcceeeeccCCCccccc------ccccHHHHHHHHHHHhccCCCchhhhhhhhhhhh
Confidence 999997554 59999999999999999999997622111 111111111111 1100
Q ss_pred --CccCC----------CCCChhh-HH---HHHhhcc-cCCCceeEEEeCCCCCCccCCCCCCceEEEEeecc
Q 027232 170 --GVMDV----------EPKEESS-LV---ALFYNIQ-INEVRPVFDVYLPNRKFKKSCPGDPSFLLYLTCKY 225 (226)
Q Consensus 170 --~~~~~----------~~~~y~~-i~---~~l~~i~-~~~~~i~F~VyKP~~~FkKssP~~PDF~i~V~nk~ 225 (226)
+...+ -++++.+ +| .+.+.++ .+|+.++|++|||.++|+||.|+.|||+|||+|+-
T Consensus 215 ~~r~~~~s~LL~d~~~~d~~~v~Dp~yLp~~~~k~~~k~spie~tfs~~kpfS~fgks~~s~pdf~v~v~~~~ 287 (364)
T KOG4772|consen 215 FYRRDTVSKLLYDMLICDARSVFDPVYLPNSQFKEFQKSSPIEPTFSFVKPFSNFGKSDPSLPDFQVFVYNKN 287 (364)
T ss_pred hhhhhHHHHHHHhhhhcccccccchhcCcchhhhhhcccCCCCCcceeecccccccCCCCCCCceeEEEEecc
Confidence 00000 0111111 00 0111111 37999999999999999999999999999999973
No 2
>PF12928 tRNA_int_end_N2: tRNA-splicing endonuclease subunit sen54 N-term; InterPro: IPR024336 tRNA-splicing endonucleases (3.1.27.9 from EC) catalyse the endonucleolytic cleavage of pre tRNA at the 5' and 3' splice sites to release the intron and produces two half tRNA molecules bearing 5' hydroxyl and 2', 3'-cyclic phosphate termini [, ]. The genes encoding these proteins are homologous in eukaryotes and archea. The eukaryotic tRNA-splicing endonucleases are heterotetrameric while the archaeal endonucleases can be split into homodimeric and homotetrameric subgroups. This entry represents the N-terminal domain of Sen54, a non-catalytic subunit of the tRNA-splicing endonuclease complex. Defects in human Sen54 are a cause of pontocerebellar hypoplasia type 4 [].
Probab=99.88 E-value=6.8e-23 Score=150.83 Aligned_cols=66 Identities=38% Similarity=0.535 Sum_probs=63.5
Q ss_pred CcccceeecCCeEEEEEeCCCCeEEEEcccCcceeeee-EEeCCeEEEehHHHHHHHhcCcEEEEcC
Q 027232 32 GFISKLQFRKDISKAHWNNELGMAEVVEKKGKMWTTTG-IVRNGKTYCSIEETLFLAEIGALYLLDN 97 (226)
Q Consensus 32 ~s~~R~~~~k~~s~a~W~pe~~~a~v~~~rG~~~~~~G-~~~~~~l~L~peEALYL~ErG~L~l~~~ 97 (226)
++.+|+|+.|++++|+|+|+.++|+|+++||+||++|| ...++++||+|||||||+|||+|+|+|+
T Consensus 5 Ls~~R~~~~k~~~~a~w~p~~~~a~v~~~rG~~~~~mG~~~~~~~~~L~pEEalyLvErGsL~l~~~ 71 (72)
T PF12928_consen 5 LSYERVHKSKNLSRAIWDPELRMAEVTHPRGKFFQTMGRADRGGKLWLLPEEALYLVERGSLDLWWP 71 (72)
T ss_pred hhcccccccCCEEEEEEECCCCEEEEECCcCCcHHhcCCccCCCeEEEeHHHHHHHHhcCcEEEEeC
Confidence 58899999999999999999999999999999999999 6799999999999999999999999975
No 3
>PRK09297 tRNA-splicing endonuclease subunit alpha; Reviewed
Probab=99.40 E-value=1.7e-13 Score=115.70 Aligned_cols=71 Identities=28% Similarity=0.340 Sum_probs=62.2
Q ss_pred eeEEeCCeEEEehHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHhccCCCCccceeeehhhhcCCeEEeec
Q 027232 68 TGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH 139 (226)
Q Consensus 68 ~G~~~~~~l~L~peEALYL~ErG~L~l~~~~g~~LSlqe~y~l~~~~~~~~~~~kY~VY~~Lkr~GYiV~R~ 139 (226)
+|+..++.|.|+|+||+||+++|.|+|.+.++.+||++++++.+... +..+..+|.||+|||++||+|+..
T Consensus 27 yG~~~~~~L~Ls~~Ea~yL~~~g~L~v~~~~~~~~s~~el~~~~~~~-~~~F~~~y~VY~dLr~rG~~vk~G 97 (169)
T PRK09297 27 YGKLLGNPLELSLIEALYLVEKGWLEVVDKDGELLSFEELYELAREI-IEKFDIKYLVYKDLRDRGYIVKSG 97 (169)
T ss_pred cCCccCCcEEEcHHHHHHHHHCCCEEEEcCCCcccCHHHHHHHHHhc-cccHHHHhHHHHHHHHCCCccCCC
Confidence 34455589999999999999999999998778889999999998853 346899999999999999999875
No 4
>TIGR00324 endA tRNA intron endonuclease. The enzyme catalyses the endonucleolytic cleavage of pre tRNA at the 5' and 3' splice sites to release the intron and produces two half tRNA molecules bearing 5' hydroxyl and 2', 3'-cyclic phosphate termini. The genes are homologous in Eucarya and Archea. The two yeast genes have been functionally studied (PubMed:97344075) and are two subunits of a heterotetramer enzyme in yeast the other two subunits of which have no known homologs.
Probab=99.35 E-value=6.1e-13 Score=112.51 Aligned_cols=87 Identities=17% Similarity=0.242 Sum_probs=69.6
Q ss_pred EEEeCCCCeEEEEcccCcceeeeeEEeCCeEEEehHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHhccCCCCccceee
Q 027232 46 AHWNNELGMAEVVEKKGKMWTTTGIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEV 125 (226)
Q Consensus 46 a~W~pe~~~a~v~~~rG~~~~~~G~~~~~~l~L~peEALYL~ErG~L~l~~~~g~~LSlqe~y~l~~~~~~~~~~~kY~V 125 (226)
.+|+.+..... ..+|.|.+ ..++.+.|+|+||+||+++|.|+|.+.++.+||++++++.+.... ..++.+|.|
T Consensus 12 ~v~~~~~~~~l--~~~~~yG~----~~~~~l~LsliEa~yL~~~g~l~v~~~~~~~ls~~el~~~~~~~~-~~f~~~y~V 84 (170)
T TIGR00324 12 IVKKKTIISDL--TTREEYGN----LDGDSLNLSLIESLYLIDLGKLRLIRSDSEPLSREELSDLARKVE-RGFMRKYLV 84 (170)
T ss_pred EECCcchhhHH--HhcccCCC----CcCCccEEeHHHHHHHHhCCcEEEEcCCCCcCCHHHHHHHHHhcc-ccHHHhhHH
Confidence 34666533322 24566544 445789999999999999999999877788999999999988543 358999999
Q ss_pred ehhhhcCCeEEeec
Q 027232 126 YRHLKSLGYIVGRH 139 (226)
Q Consensus 126 Y~~Lkr~GYiV~R~ 139 (226)
|+|||++||+|+..
T Consensus 85 Y~dLR~rG~~vk~G 98 (170)
T TIGR00324 85 YKDLRDRGYVVKTG 98 (170)
T ss_pred HHHHHHCCCEecCC
Confidence 99999999999876
No 5
>PRK09300 tRNA splicing endonuclease; Reviewed
Probab=99.14 E-value=3.7e-11 Score=111.12 Aligned_cols=66 Identities=17% Similarity=0.250 Sum_probs=58.5
Q ss_pred eEEeCCeEEEehHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHhccCCCCccceeeehhhhcCCeEEeecC
Q 027232 69 GIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHG 140 (226)
Q Consensus 69 G~~~~~~l~L~peEALYL~ErG~L~l~~~~g~~LSlqe~y~l~~~~~~~~~~~kY~VY~~Lkr~GYiV~R~~ 140 (226)
|+..++.|.|+|.||+||+|+|.|++. . .||++++++.+... ..+..+|.||++||++||+|+..+
T Consensus 27 G~~~g~~L~LslvEalYL~~~g~l~v~-~---~~~~eel~~~~~~~--~~f~~~y~VY~dLR~rGy~vk~gg 92 (330)
T PRK09300 27 GRPKGDGLELAPVEAAYLLFRGKIEIV-D---GLGFRDLFARASLR--PNFELRYLVYKDLRERGYYVQPGD 92 (330)
T ss_pred CcCCCCeeEEcHHHHHHHHHcCCEEEe-c---CCCHHHHHHHhhhc--ccchheehHHHHHHHCCceeccCC
Confidence 777779999999999999999999998 2 29999999998864 358899999999999999999854
No 6
>COG1676 SEN2 tRNA splicing endonuclease [Translation, ribosomal structure and biogenesis]
Probab=99.05 E-value=4.8e-10 Score=95.95 Aligned_cols=71 Identities=28% Similarity=0.357 Sum_probs=62.6
Q ss_pred eEEeCCeEEEehHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHhccCCCCccceeeehhhhcCCeEEeecC
Q 027232 69 GIVRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHG 140 (226)
Q Consensus 69 G~~~~~~l~L~peEALYL~ErG~L~l~~~~g~~LSlqe~y~l~~~~~~~~~~~kY~VY~~Lkr~GYiV~R~~ 140 (226)
|...+..|.|++.||+||.|+|.|.+...++.++|+++++.+..... ..+..+|.||++||++||+|+..-
T Consensus 39 ~~~~~~~l~ls~~ea~yl~e~g~l~~~~~~~~~~s~eel~~~~~~~~-~~f~~~y~VY~dLr~rG~vvktG~ 109 (181)
T COG1676 39 GTTERDPLQLSLIEALYLAERGFLKVESRDGKILSFEELMDLGAEKE-ESFDERYLVYRDLRDRGYVVKTGL 109 (181)
T ss_pred cccccccceecHHHHHHHhhcceEeeccCCCccccHHHHHHHHhhcc-cccceeeeehhhHHhCceEECccc
Confidence 33444889999999999999999999988889999999999988654 458999999999999999998654
No 7
>PRK09300 tRNA splicing endonuclease; Reviewed
Probab=98.92 E-value=6.8e-10 Score=102.77 Aligned_cols=61 Identities=23% Similarity=0.284 Sum_probs=54.8
Q ss_pred CCeEEEehHHHHHHHhcCcEEEEcCCCcccCHHHHHHHHHhccCCCCccceeeehhhhcCCeEEeec
Q 027232 73 NGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH 139 (226)
Q Consensus 73 ~~~l~L~peEALYL~ErG~L~l~~~~g~~LSlqe~y~l~~~~~~~~~~~kY~VY~~Lkr~GYiV~R~ 139 (226)
+..|.|+++||+||+++|.|+| ..||++++.+.+..... .+..+|.||+|||.+||+|+..
T Consensus 196 ~~~L~LslvEA~yL~~~g~L~v-----~~~~~~el~~~~~~~~~-~F~~~y~VY~dLR~rG~~vk~G 256 (330)
T PRK09300 196 GRRLQLSLVEAAYLLERGVLSV-----EILDADEFVERAREVEG-EFDRKLAVYRDLRERGFVPKTG 256 (330)
T ss_pred CCceeECHHHHHHHHhCCCEEE-----eeCCHHHHHHHHhhccc-chHhhhHHHHHHHHCCCEecCC
Confidence 4499999999999999999999 36999999999986443 4899999999999999999987
No 8
>PF02778 tRNA_int_endo_N: tRNA intron endonuclease, N-terminal domain; InterPro: IPR006678 This entry represents a 2-layer alpha/beta domain found at the N-terminal in homotetrameric tRNA-intron endonucleases [], and as domains 1 (N-terminal) and 3 in the homodimeric enzymes []. tRNA-intron endonucleases (3.1.27.9 from EC) remove tRNA introns by cleaving pre-tRNA at the 5'- and 3'-splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2',3' cyclic phosphate and 5'-hydroxyl termini []. These enzymes recognise a pseudosymmetric substrate in which 2 bulged loops of 3 bases are separated by a stem of 4 bp []. Although homotetrameric enzymes contain four active sites, only two participate in the cleavage, and should therefore, be considered as a dimer of dimers.; GO: 0000213 tRNA-intron endonuclease activity, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 1A79_D 2CV8_A 3P1Z_B 3AJV_B 3IEY_A 2ZYZ_D 2GJW_D 1R0V_A 3P1Y_C 1R11_B ....
Probab=98.62 E-value=5.8e-08 Score=70.71 Aligned_cols=40 Identities=25% Similarity=0.419 Sum_probs=35.4
Q ss_pred eeE-EeCCeEEEehHHHHHHHhcCcEEEEcCCCcccCHHHHH
Q 027232 68 TGI-VRNGKTYCSIEETLFLAEIGALYLLDNNDLCLPLKEIY 108 (226)
Q Consensus 68 ~G~-~~~~~l~L~peEALYL~ErG~L~l~~~~g~~LSlqe~y 108 (226)
+|+ ..+++|.|+++||+||+++|.|+|. .+|.+||+++++
T Consensus 27 YG~~~~~~~L~LslvEa~YL~~~g~l~v~-~~g~~ls~~el~ 67 (67)
T PF02778_consen 27 YGKPLDDERLQLSLVEALYLLEKGKLEVY-EDGKKLSFEELW 67 (67)
T ss_dssp -SEECETSCEEEEHHHHHHHHHTTSEEEE-TTSCEE-HHHHH
T ss_pred CCCCCCCCcEEEeHHHHHHHHhCCcEEEe-eCCcCCCHHHhC
Confidence 456 6889999999999999999999999 899999999985
No 9
>PRK09539 tRNA-splicing endonuclease subunit beta; Reviewed
Probab=96.36 E-value=0.0016 Score=53.07 Aligned_cols=24 Identities=21% Similarity=0.254 Sum_probs=21.2
Q ss_pred CCCccceeeehhhhcCCeEEeecC
Q 027232 117 GCSWELFEVYRHLKSLGYIVGRHG 140 (226)
Q Consensus 117 ~~~~~kY~VY~~Lkr~GYiV~R~~ 140 (226)
..++.+|.||+|||++||+|+...
T Consensus 32 ~~~~~kylVYkDLR~RGyvVk~G~ 55 (124)
T PRK09539 32 LVNWDKVDVFVDLKQRGRKTIDGI 55 (124)
T ss_pred hcccceEEEehhHHhCCCeeccCC
Confidence 357999999999999999998864
No 10
>KOG4685 consensus tRNA splicing endonuclease SEN2 [Translation, ribosomal structure and biogenesis]
Probab=95.94 E-value=0.0048 Score=55.72 Aligned_cols=64 Identities=22% Similarity=0.330 Sum_probs=53.7
Q ss_pred CeEEEehHHHHHHH-hcCcEEEEcCCCcccCHHHHHHHHHhccCCCCccceeeehhhhcCCeEEeec
Q 027232 74 GKTYCSIEETLFLA-EIGALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH 139 (226)
Q Consensus 74 ~~l~L~peEALYL~-ErG~L~l~~~~g~~LSlqe~y~l~~~~~~~~~~~kY~VY~~Lkr~GYiV~R~ 139 (226)
.-|.|+||||.||. .-+.|.|. .+-.+++-.+++..+..-.+ -|---|.+|.|||..|+||+..
T Consensus 111 ~~LqLs~eEAffL~y~lkci~I~-~~k~l~~~v~~w~am~~~~~-~F~~~y~~y~hlrskGWvvrsG 175 (271)
T KOG4685|consen 111 EWLQLSPEEAFFLSYALKCIKIS-LNKCLLNEVDLWTAMRSLQP-NFGKLYKAYHHLRSKGWVVRSG 175 (271)
T ss_pred hHhhcCHHHHHHHHhhhceeEEe-hhhccccHHHHHHHHhhcch-hhHHHHHHHHHHHHcCcEeccc
Confidence 46899999999996 56888998 55678999999998876544 3788899999999999999973
No 11
>PF01974 tRNA_int_endo: tRNA intron endonuclease, catalytic C-terminal domain; InterPro: IPR006677 This entry represents a 3-layer alpha/beta/alpha domain found as the catalytic domain at the C-terminal in homotetrameric tRNA-intron endonucleases [], and as domains 2 and 4 (C-terminal) in the homodimeric enzymes []. tRNA-intron endonucleases (3.1.27.9 from EC) remove tRNA introns by cleaving pre-tRNA at the 5'- and 3'-splice sites to release the intron. The products are an intron and two tRNA half-molecules bearing 2',3' cyclic phosphate and 5'-hydroxyl termini []. These enzymes recognise a pseudosymmetric substrate in which 2 bulged loops of 3 bases are separated by a stem of 4 bp []. Although homotetrameric enzymes contain four active sites, only two participate in the cleavage, and should therefore, be considered as a dimer of dimers.; GO: 0000213 tRNA-intron endonuclease activity, 0006388 tRNA splicing, via endonucleolytic cleavage and ligation; PDB: 3IEY_B 3IF0_X 2CV8_A 3P1Z_B 3AJV_B 2GJW_D 1R0V_A 3P1Y_C 1R11_B 1RLV_A ....
Probab=92.86 E-value=0.021 Score=42.65 Aligned_cols=21 Identities=43% Similarity=0.877 Sum_probs=17.8
Q ss_pred CccceeeehhhhcCCeEEeec
Q 027232 119 SWELFEVYRHLKSLGYIVGRH 139 (226)
Q Consensus 119 ~~~kY~VY~~Lkr~GYiV~R~ 139 (226)
|+.+|.||++||++||+|+..
T Consensus 1 F~~~y~vY~dLr~rG~~v~~G 21 (85)
T PF01974_consen 1 FWRKYAVYRDLRSRGYVVKPG 21 (85)
T ss_dssp HHHHHHHHHHHHHTT-EEEEE
T ss_pred CchhhHHHHHHHHCCCEECcc
Confidence 357899999999999999977
No 12
>KOG4133 consensus tRNA splicing endonuclease [Translation, ribosomal structure and biogenesis]
Probab=87.70 E-value=0.38 Score=43.83 Aligned_cols=22 Identities=18% Similarity=0.370 Sum_probs=19.3
Q ss_pred ccceeeehhhhcCCeEEeecCC
Q 027232 120 WELFEVYRHLKSLGYIVGRHGV 141 (226)
Q Consensus 120 ~~kY~VY~~Lkr~GYiV~R~~~ 141 (226)
..+|.+|++|.++||.+-..+.
T Consensus 194 ~lrY~iyKdLwdrGfyLs~ggr 215 (290)
T KOG4133|consen 194 ELRYSIYKDLWDRGFYLSPGGR 215 (290)
T ss_pred hhHHHHHHHHHHcCceeCcccc
Confidence 6799999999999999987663
No 13
>PRK15047 N-hydroxyarylamine O-acetyltransferase; Provisional
Probab=42.01 E-value=14 Score=33.67 Aligned_cols=44 Identities=20% Similarity=0.153 Sum_probs=35.4
Q ss_pred CCCcccCHHHHHHHHHhccC--CCCccceeeehhhhcCCeEEeecC
Q 027232 97 NNDLCLPLKEIYEKIANEKS--GCSWELFEVYRHLKSLGYIVGRHG 140 (226)
Q Consensus 97 ~~g~~LSlqe~y~l~~~~~~--~~~~~kY~VY~~Lkr~GYiV~R~~ 140 (226)
...++|+++.++.++..... -|+...-.-|.-|+.+||-|....
T Consensus 46 g~~i~ld~~~l~~KlV~~~RGGyCfE~N~Lf~~~L~~LGF~v~~~~ 91 (281)
T PRK15047 46 PREIQLDDQSLEEKLVIARRGGYCFEQNGLFERVLRELGFNVRSLL 91 (281)
T ss_pred CCCCCCCHHHHHHHHhcCCCCEEcHhHHHHHHHHHHHcCCcEEEEE
Confidence 45678999999999986332 378888889999999999998554
No 14
>KOG4772 consensus Predicted tRNA-splicing endonuclease subunit [Translation, ribosomal structure and biogenesis]
Probab=37.45 E-value=16 Score=34.51 Aligned_cols=40 Identities=48% Similarity=0.915 Sum_probs=32.4
Q ss_pred hhHHHHHhhcccCCCceeEE-EeCCCCCCc---cCCCCCCceEE
Q 027232 180 SSLVALFYNIQINEVRPVFD-VYLPNRKFK---KSCPGDPSFLL 219 (226)
Q Consensus 180 ~~i~~~l~~i~~~~~~i~F~-VyKP~~~Fk---KssP~~PDF~i 219 (226)
.+...+|..+.+..-++.|+ ||.|++.|+ |++|..|.|..
T Consensus 219 ~~~s~LL~d~~~~d~~~v~Dp~yLp~~~~k~~~k~spie~tfs~ 262 (364)
T KOG4772|consen 219 DTVSKLLYDMLICDARSVFDPVYLPNSQFKEFQKSSPIEPTFSF 262 (364)
T ss_pred hHHHHHHHhhhhcccccccchhcCcchhhhhhcccCCCCCccee
Confidence 45556666666788999999 999999888 99999997764
No 15
>PF13953 PapC_C: PapC C-terminal domain; PDB: 3L48_E 2XET_A 3RFZ_E 2KT6_A.
Probab=35.11 E-value=52 Score=23.24 Aligned_cols=37 Identities=30% Similarity=0.426 Sum_probs=27.2
Q ss_pred EEEEcccCcceeeeeEE-eCCeEEEehHHHHHHHhcCcEEEEcCCC
Q 027232 55 AEVVEKKGKMWTTTGIV-RNGKTYCSIEETLFLAEIGALYLLDNND 99 (226)
Q Consensus 55 a~v~~~rG~~~~~~G~~-~~~~l~L~peEALYL~ErG~L~l~~~~g 99 (226)
|.|....|. .+|.. .+|.+||.-.. +.|.|.|.|.++
T Consensus 15 A~v~~~~g~---~~g~Vg~~G~vyl~~~~-----~~~~L~V~w~~~ 52 (68)
T PF13953_consen 15 ASVSDEDGN---NIGIVGQDGQVYLSGLP-----PKGTLTVKWGDG 52 (68)
T ss_dssp -EEEETTSS---EEEEB-GCGEEEEEEE------TCEEEEEESTSC
T ss_pred cEEEcCCCC---EEEEEcCCCEEEEECCC-----CCcEEEEEECCC
Confidence 445555665 56777 68999999887 799999998765
No 16
>PF13592 HTH_33: Winged helix-turn helix
Probab=32.07 E-value=25 Score=24.36 Aligned_cols=40 Identities=33% Similarity=0.399 Sum_probs=30.4
Q ss_pred ccCHHHHHHHHHhccCCCCccceeeehhhhcCCeEEeecCC
Q 027232 101 CLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRHGV 141 (226)
Q Consensus 101 ~LSlqe~y~l~~~~~~~~~~~kY~VY~~Lkr~GYiV~R~~~ 141 (226)
..+..++-+.+.. .-|+.+..=.||.-|+|+||.-++...
T Consensus 4 ~wt~~~i~~~I~~-~fgv~ys~~~v~~lL~r~G~s~~kp~~ 43 (60)
T PF13592_consen 4 RWTLKEIAAYIEE-EFGVKYSPSGVYRLLKRLGFSYQKPRP 43 (60)
T ss_pred cccHHHHHHHHHH-HHCCEEcHHHHHHHHHHcCCccccCCC
Confidence 4566667666654 446778888999999999999887764
No 17
>PRK07708 hypothetical protein; Validated
Probab=27.39 E-value=99 Score=27.19 Aligned_cols=52 Identities=29% Similarity=0.242 Sum_probs=39.3
Q ss_pred eEEEehHHHHHHHhc-------CcEEEEcCCCcccCHHHHHHHHHhccCCCCccceeeehh
Q 027232 75 KTYCSIEETLFLAEI-------GALYLLDNNDLCLPLKEIYEKIANEKSGCSWELFEVYRH 128 (226)
Q Consensus 75 ~l~L~peEALYL~Er-------G~L~l~~~~g~~LSlqe~y~l~~~~~~~~~~~kY~VY~~ 128 (226)
.-|+..+|||.|+|- ..|+..|++|...|+.|+-.+...... -.+...||-|
T Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~k~~~~~~~~~~~--ep~~~~vY~D 79 (219)
T PRK07708 21 SDWMNIEEALQLAEDFEKTGRVKELEFYDEMDTEWSLKELKKLSKEVEE--EPHEILVYFD 79 (219)
T ss_pred eccccHHHHHHHHHHHhhcCCceeEEEecCCCCEeeHHHHhhhhhhhcc--CCCcEEEEEe
Confidence 458999999999983 456778889999999999998775332 2455666654
No 18
>TIGR03882 cyclo_dehyd_2 bacteriocin biosynthesis cyclodehydratase domain. This model describes a ThiF-like domain of a fusion protein found in clusters associated with the production of TOMMs (thiazole/oxazole-modified microcins), small bacteriocins with characteristic heterocycle modifications. This domain is presumed to act as a cyclodehydratase, as do members of the SagC family modeled by TIGR03603.
Probab=25.32 E-value=22 Score=30.47 Aligned_cols=37 Identities=24% Similarity=0.301 Sum_probs=28.1
Q ss_pred ccCHHHHHHHHHhccCCCCccceeeehhhhcCCeEEeec
Q 027232 101 CLPLKEIYEKIANEKSGCSWELFEVYRHLKSLGYIVGRH 139 (226)
Q Consensus 101 ~LSlqe~y~l~~~~~~~~~~~kY~VY~~Lkr~GYiV~R~ 139 (226)
..|++|+.+.+..... ..+-+.+-..|-++||++...
T Consensus 42 ~rt~~eI~~~l~~~~p--~~~v~~~L~~L~~~G~l~~~~ 78 (193)
T TIGR03882 42 RRTLDEIIAALAGRFP--AEEVLYALDRLERRGYLVEDA 78 (193)
T ss_pred CCCHHHHHHHhhccCC--HHHHHHHHHHHHHCCCEeccC
Confidence 7999999998875321 344667778899999999654
No 19
>PF08513 LisH: LisH; InterPro: IPR013720 The LisH motif is found in a large number of eukaryotic proteins, from metazoa, fungi and plants that have a wide range of functions. The recently solved structure of the LisH domain in the N-terminal region of LIS1 depicted it as a novel dimerization motif, and that other structural elements are likely to play an important role in dimerisation [, , ]. The LisH (lis homology) domain mediates protein dimerisation and tetramerisation. The LisH domain is found in Sif2, a component of the Set3 complex which is responsible for repressing meiotic genes. It has been shown that the LisH domain helps mediate interaction with components of the Set3 complex []. ; PDB: 2XTE_L 2XTC_B 2XTD_A 1UUJ_B.
Probab=23.78 E-value=18 Score=21.55 Aligned_cols=14 Identities=29% Similarity=0.282 Sum_probs=10.8
Q ss_pred ceeeehhhhcCCeE
Q 027232 122 LFEVYRHLKSLGYI 135 (226)
Q Consensus 122 kY~VY~~Lkr~GYi 135 (226)
.+.||.||.+.||.
T Consensus 4 n~lI~~YL~~~Gy~ 17 (27)
T PF08513_consen 4 NQLIYDYLVENGYK 17 (27)
T ss_dssp HHHHHHHHHHCT-H
T ss_pred HHHHHHHHHHCCcH
Confidence 35789999999985
No 20
>COG2162 NhoA Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.66 E-value=48 Score=30.60 Aligned_cols=48 Identities=23% Similarity=0.236 Sum_probs=35.8
Q ss_pred CCcccCHHHHHHHHHhccC-C-CCccceeeehhhhcCCeEEeecC--CCcee
Q 027232 98 NDLCLPLKEIYEKIANEKS-G-CSWELFEVYRHLKSLGYIVGRHG--VPWIV 145 (226)
Q Consensus 98 ~g~~LSlqe~y~l~~~~~~-~-~~~~kY~VY~~Lkr~GYiV~R~~--~~w~~ 145 (226)
..+.|+.+++.+++..... | |+...=..+..|+.+||.|++-- +.|..
T Consensus 48 ~~i~i~~~al~~KLv~~rRGGyCfElNglf~~vL~~lGF~v~~l~arV~~g~ 99 (275)
T COG2162 48 RPIQLDPQALEDKLVLARRGGYCFELNGLFGRVLRELGFNVRLLLARVVWGL 99 (275)
T ss_pred CCccCCHHHHHHHHHhccccceehhhhhHHHHHHHHcCCcceeeEEEEEecC
Confidence 3456999999999886433 2 67777778899999999999843 34544
No 21
>PF11625 DUF3253: Protein of unknown function (DUF3253); InterPro: IPR021660 This bacterial family of proteins has no known function. ; PDB: 2NS0_A.
Probab=20.19 E-value=57 Score=24.86 Aligned_cols=26 Identities=12% Similarity=0.080 Sum_probs=19.3
Q ss_pred HHHHHHHhcCcEEEEcCCCcccCHHHH
Q 027232 81 EETLFLAEIGALYLLDNNDLCLPLKEI 107 (226)
Q Consensus 81 eEALYL~ErG~L~l~~~~g~~LSlqe~ 107 (226)
+.|.=|++.|.|+|+ ..|.|++++++
T Consensus 48 ~~A~~L~~~G~i~I~-qkG~~Vdp~~~ 73 (83)
T PF11625_consen 48 AAARRLARAGRIEIT-QKGKPVDPETF 73 (83)
T ss_dssp HHHHHHHHTTSEEEE-ETTEE--TTT-
T ss_pred HHHHHHHHCCcEEEE-ECCEecCcccC
Confidence 357789999999999 77888877665
Done!