Query 039479
Match_columns 182
No_of_seqs 205 out of 458
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 10:05:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039479.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039479hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1021 Acetylglucosaminyltran 100.0 2.3E-29 5E-34 230.8 11.4 130 52-181 97-230 (464)
2 PF03016 Exostosin: Exostosin 99.9 4.1E-26 8.9E-31 193.1 9.5 110 67-181 2-123 (302)
3 KOG2264 Exostosin EXT1L [Signa 90.8 3.6 7.7E-05 40.3 11.3 140 9-174 125-279 (907)
4 PF00919 UPF0004: Uncharacteri 83.8 1.9 4.1E-05 32.0 4.0 43 71-122 1-43 (98)
5 KOG1022 Acetylglucosaminyltran 79.2 4.5 9.8E-05 39.2 5.7 90 66-172 95-184 (691)
6 PRK14333 (dimethylallyl)adenos 45.5 34 0.00075 31.5 4.6 43 71-122 8-50 (448)
7 PRK14862 rimO ribosomal protei 43.2 44 0.00096 30.8 4.9 48 66-122 4-51 (440)
8 PRK14338 (dimethylallyl)adenos 41.1 46 0.001 30.8 4.7 43 71-122 22-64 (459)
9 PRK14340 (dimethylallyl)adenos 39.1 51 0.0011 30.5 4.6 43 71-122 8-50 (445)
10 PRK14335 (dimethylallyl)adenos 37.6 55 0.0012 30.3 4.6 43 71-122 2-44 (455)
11 PRK14332 (dimethylallyl)adenos 37.5 58 0.0013 30.2 4.8 47 67-122 8-54 (449)
12 PRK14328 (dimethylallyl)adenos 36.4 59 0.0013 29.8 4.6 43 71-122 3-45 (439)
13 KOG4247 Mitochondrial DNA poly 36.3 29 0.00063 27.6 2.2 56 3-58 45-125 (175)
14 PRK14336 (dimethylallyl)adenos 36.1 62 0.0013 29.6 4.7 43 71-122 3-45 (418)
15 PRK14334 (dimethylallyl)adenos 35.5 64 0.0014 29.6 4.7 42 71-122 2-44 (440)
16 PRK14337 (dimethylallyl)adenos 34.6 66 0.0014 29.7 4.6 42 71-122 5-46 (446)
17 PRK14325 (dimethylallyl)adenos 33.5 71 0.0015 29.3 4.6 43 71-122 5-47 (444)
18 PRK14331 (dimethylallyl)adenos 31.5 82 0.0018 28.9 4.7 42 71-122 2-44 (437)
19 TIGR00089 RNA modification enz 30.9 79 0.0017 28.7 4.4 42 71-122 1-43 (429)
20 TIGR01578 MiaB-like-B MiaB-lik 30.0 82 0.0018 28.8 4.4 31 90-122 12-43 (420)
21 PF09671 Spore_GerQ: Spore coa 29.4 29 0.00063 25.3 1.1 12 164-175 45-56 (81)
22 PRK14329 (dimethylallyl)adenos 27.9 1E+02 0.0022 28.7 4.7 43 70-122 24-67 (467)
23 TIGR01125 MiaB-like tRNA modif 27.5 94 0.002 28.3 4.3 32 90-122 12-43 (430)
24 TIGR02728 spore_gerQ spore coa 26.9 34 0.00074 25.0 1.1 11 164-174 43-53 (82)
25 PRK14326 (dimethylallyl)adenos 26.8 1.2E+02 0.0026 28.7 5.0 47 67-122 11-57 (502)
26 TIGR01574 miaB-methiolase tRNA 25.9 1.1E+02 0.0023 28.2 4.4 32 90-122 12-44 (438)
27 PRK14327 (dimethylallyl)adenos 25.1 1.3E+02 0.0029 28.5 5.0 47 67-122 64-110 (509)
No 1
>KOG1021 consensus Acetylglucosaminyltransferase EXT1/exostosin 1 [Carbohydrate transport and metabolism; Cell wall/membrane/envelope biogenesis; Extracellular structures]
Probab=99.96 E-value=2.3e-29 Score=230.81 Aligned_cols=130 Identities=36% Similarity=0.647 Sum_probs=117.5
Q ss_pred cccChhhhhhchHhhhcCceEEEecCCCCCCCCCC--CCCCchhhHHHHHHHHh-hCCCcccCCcCCcceEEEceeeeee
Q 039479 52 IYRNANAFHRSYLLMEKLFKIYVYEEGEPPMFHDG--PCKSIYSTEGRFIHEME-RSNTYKTKDPEKALVYFLPFSVVMM 128 (182)
Q Consensus 52 ~y~n~~~f~~sy~~m~~~lKIYVY~lg~pp~~h~~--~~~~~Ya~E~~F~~~Ll-~~s~~rT~DP~eAdlFfvPf~~~~~ 128 (182)
++++...|..+|..|++.+|||+|.+|+++.+|.+ .+++||++|++||++|+ ..++|||.||++||+||||||+++.
T Consensus 97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~E~~~~~~~~~~~~~~Rt~dp~~Ad~f~vPf~~~~~ 176 (464)
T KOG1021|consen 97 TSPNNKKFMCSYKLNEKRGKVYVYHEGNKPLFHTPSWCLTDQYASEGIFHNRMLRRESAFRTLDPLEADAFYVPFYASLD 176 (464)
T ss_pred ccCcchhhhhhhhhhcccCceEEecCCCCccccCCCcccccchhHHHHHHHHHhcccCceecCChhhCcEEEEcceeeEe
Confidence 58999999999999999999999999988999987 78999999999999997 3368999999999999999999998
Q ss_pred e-eccccCCCCchhHHHHHHHHHHHHHHhcCchhhcCCCCCeEEEcCCCCCCCC
Q 039479 129 V-EHLYVPGAHEINAIGHSIVDYISIISHKYPFWNRSLGADHFMLSCHDWVRNS 181 (182)
Q Consensus 129 ~-~~ly~p~~~~~~~l~~~l~dyv~~I~~kyPyWnRs~GaDHf~v~cHD~g~~~ 181 (182)
+ ++++.++......+...+.+||..+.++||||||++|+|||||+|||||+..
T Consensus 177 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~p~W~Rs~G~DH~~v~~~~~~~~~ 230 (464)
T KOG1021|consen 177 YNRALLWPDERVNAILRSILQDYIVALLSKQPYWNRSSGRDHFFVACHDWGDFR 230 (464)
T ss_pred hhhhcccCCcccchHHHHHHHHHHHHHHhcCchhhccCCCceEEEeCCcchhee
Confidence 7 6667776544556778899999999999999999999999999999999753
No 2
>PF03016 Exostosin: Exostosin family; InterPro: IPR004263 Hereditary multiple exostoses (EXT) is an autosomal dominant disorder that is characterised by the appearance of multiple outgrowths of the long bones (exostoses) at their epiphyses []. Mutations in two homologous genes, EXT1 and EXT2, are responsible for the EXT syndrome. The human and mouse EXT genes have at least two homologs in the invertebrate Caenorhabditis elegans, indicating that they do not function exclusively as regulators of bone growth. EXT1 and EXT2 have both been shown to encode glycosyltransferases involved in the chain elongation step of heparan sulphate biosynthesis [].; GO: 0016020 membrane
Probab=99.93 E-value=4.1e-26 Score=193.12 Aligned_cols=110 Identities=33% Similarity=0.589 Sum_probs=87.6
Q ss_pred hcCceEEEecCCCCCCCCCCC------------CCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEceeeeeeeecccc
Q 039479 67 EKLFKIYVYEEGEPPMFHDGP------------CKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLPFSVVMMVEHLYV 134 (182)
Q Consensus 67 ~~~lKIYVY~lg~pp~~h~~~------------~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvPf~~~~~~~~ly~ 134 (182)
.++||||||++ ||.|+... ..++|++|.+|++.|+. +++||.||+|||+||||+++++......
T Consensus 2 ~~~lkVYVY~l--p~~~~~~~~~~~~~~~~~~~~~~~~~~e~~l~~~l~~-s~~~T~dp~eAdlF~vP~~~~~~~~~~~- 77 (302)
T PF03016_consen 2 HRGLKVYVYPL--PPKFNKDLLDPREDEQCSWYETSQYALEVILHEALLN-SPFRTDDPEEADLFFVPFYSSCYFHHWW- 77 (302)
T ss_pred CCCCEEEEEeC--CccccccceeccccccCCCcccccchHHHHHHHHHHh-CCcEeCCHHHCeEEEEEccccccccccc-
Confidence 47899999999 77776222 35799999999999996 7899999999999999999999751111
Q ss_pred CCCCchhHHHHHHHHHHHHHHhcCchhhcCCCCCeEEEcCCCCCCCC
Q 039479 135 PGAHEINAIGHSIVDYISIISHKYPFWNRSLGADHFMLSCHDWVRNS 181 (182)
Q Consensus 135 p~~~~~~~l~~~l~dyv~~I~~kyPyWnRs~GaDHf~v~cHD~g~~~ 181 (182)
...........+.+++..+.+++|||||++|+||||+.+||||.+.
T Consensus 78 -~~~~~~~~~~~~~~~~~~~~~~~p~w~r~~G~dH~~~~~~~~g~~~ 123 (302)
T PF03016_consen 78 -GSPNSGADRDSLSDALRHLLASYPYWNRSGGRDHFFVNSHDRGGCS 123 (302)
T ss_pred -CCccchhhHHHHHHHHHHHHhcCchhhccCCCCeEEEecccccccc
Confidence 1112223455667778888899999999999999999999988753
No 3
>KOG2264 consensus Exostosin EXT1L [Signal transduction mechanisms]
Probab=90.79 E-value=3.6 Score=40.25 Aligned_cols=140 Identities=16% Similarity=0.297 Sum_probs=74.4
Q ss_pred hccchhhhhHHHHHHHHHHHHHhhhhccCc-----c---CCCCCCC----CCCCCcccChhhhhhchHhhhcCceEEEec
Q 039479 9 SQMNQFNWVEASLVRARSSIREAALVRNLT-----S---VHQDPDY----VPRGPIYRNANAFHRSYLLMEKLFKIYVYE 76 (182)
Q Consensus 9 ~~~~~~~~~~~~l~~ar~~i~~a~~~~~~~-----~---~~~~~~~----~~~~~~y~n~~~f~~sy~~m~~~lKIYVY~ 76 (182)
.+...|++++-+..+|+.+.+++....+-. + .+....- .-.++--||---++| -.....|-||||+
T Consensus 125 ~~q~eL~~Lk~~ieqaq~~~~El~~~n~pkl~LP~sllP~~~pr~l~pp~~~~~c~lhncfdySR--CsltSgfPVYvyd 202 (907)
T KOG2264|consen 125 QKQLELSALKGEIEQAQRQLEELRETNNPKLFLPFSLLPLQIPRELEPPSQISPCQLHNCFDYSR--CSLTSGFPVYVYD 202 (907)
T ss_pred HhHHHHHHHHhHHHHHHHHHHHHHhhcCCceeeccccCcccCcccCCCccccCcccchhcccccc--ccccCCceeEEec
Confidence 445567778888888888888886532210 1 1000000 112333444433332 1234668999999
Q ss_pred CCCCCCCCCCCCCCchhhHHHHHHHHhh---CCCcccCCcCCcceEEEceeeeeeeeccccCCCCchhHHHHHHHHHHHH
Q 039479 77 EGEPPMFHDGPCKSIYSTEGRFIHEMER---SNTYKTKDPEKALVYFLPFSVVMMVEHLYVPGAHEINAIGHSIVDYISI 153 (182)
Q Consensus 77 lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~---~s~~rT~DP~eAdlFfvPf~~~~~~~~ly~p~~~~~~~l~~~l~dyv~~ 153 (182)
- .++.. | +...+|.-+-+.. ...+.|+||+.|=++.+=. .-+-.|....+..+..+.
T Consensus 203 ~---D~~~~----G-~~~d~~lk~~fq~t~~~n~~~ve~pd~ACiyi~lv------ge~q~P~~l~p~elekly------ 262 (907)
T KOG2264|consen 203 S---DIITS----G-QSEDEWLKQVFQETIPNNVYLVETPDKACIYIHLV------GEIQSPVVLTPAELEKLY------ 262 (907)
T ss_pred c---ceeec----c-cchHHHHHHHHHHhcccceeEeeCCCccEEEEEEe------ccccCCCcCChHhhhhhh------
Confidence 6 32322 2 2333343323321 2468999999997765421 112234333333433321
Q ss_pred HHhcCchhhcCCCCCeEEEcC
Q 039479 154 ISHKYPFWNRSLGADHFMLSC 174 (182)
Q Consensus 154 I~~kyPyWnRs~GaDHf~v~c 174 (182)
.-|+| |+.|++|+++.-
T Consensus 263 ---slp~w-~~dg~Nhvl~Nl 279 (907)
T KOG2264|consen 263 ---SLPHW-RTDGFNHVLFNL 279 (907)
T ss_pred ---cCccc-cCCCcceEEEEc
Confidence 35999 689999999754
No 4
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=83.77 E-value=1.9 Score=32.02 Aligned_cols=43 Identities=26% Similarity=0.359 Sum_probs=28.4
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+.-+|= -.+++-+| .+...|....--.|.+|++||++.|=
T Consensus 1 Kv~i~T~GC--------~~N~~Dse-~i~~~l~~~G~~~~~~~e~AD~iiiN 43 (98)
T PF00919_consen 1 KVYIETLGC--------QMNQYDSE-RIASILQAAGYEIVDDPEEADVIIIN 43 (98)
T ss_pred CEEEEECCC--------cccHHHHH-HHHHHHHhcCCeeecccccCCEEEEE
Confidence 456666542 12678788 44555654334689999999999663
No 5
>KOG1022 consensus Acetylglucosaminyltransferase EXT2/exostosin 2 [Carbohydrate transport and metabolism; Cell wall/membrane/envelope biogenesis; Extracellular structures]
Probab=79.24 E-value=4.5 Score=39.17 Aligned_cols=90 Identities=19% Similarity=0.199 Sum_probs=48.1
Q ss_pred hhcCceEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEceeeeeeeeccccCCCCchhHHHH
Q 039479 66 MEKLFKIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLPFSVVMMVEHLYVPGAHEINAIGH 145 (182)
Q Consensus 66 m~~~lKIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvPf~~~~~~~~ly~p~~~~~~~l~~ 145 (182)
.-.+.|||+|.+|+--.-..-....-.+.|++-+.+--..|..-|.|+++|=+| +|-+--+ +.+ .+..
T Consensus 95 ~~~~~KvyIy~l~~~vd~~s~~~~~T~s~ey~~lleA~~~S~yyt~n~N~aclf-~Ps~d~l------nQn-----~l~~ 162 (691)
T KOG1022|consen 95 LFFETKVYIYMLGDIVDAKSIDKGATWSPEYIALLEAWHLSFYYTFNYNGACLF-MPSSDEL------NQN-----PLSW 162 (691)
T ss_pred cccccceeEEehhhhhhhhcccccccccHHHHHHHHHHHhccceecCCCceEEE-ecchhhh------ccC-----cchH
Confidence 345689999999762211011112346677653332223478999999999764 5632111 111 1111
Q ss_pred HHHHHHHHHHhcCchhhcCCCCCeEEE
Q 039479 146 SIVDYISIISHKYPFWNRSLGADHFML 172 (182)
Q Consensus 146 ~l~dyv~~I~~kyPyWnRs~GaDHf~v 172 (182)
.+. ..+.++--.|.| |++|..+
T Consensus 163 kl~---~~ala~l~~wdr--g~nH~~f 184 (691)
T KOG1022|consen 163 KLE---KVALAKLLVWDR--GVNHEGF 184 (691)
T ss_pred HHH---HHHHhcccchhc--ccceeeE
Confidence 221 123344558998 8888764
No 6
>PRK14333 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=45.50 E-value=34 Score=31.49 Aligned_cols=43 Identities=12% Similarity=0.030 Sum_probs=29.8
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+.-+|=+ .++|-+|. +...|....--.|.+|++||++.|=
T Consensus 8 ~~~i~t~GC~--------~N~~ds~~-~~~~l~~~G~~~~~~~~~ADiiiiN 50 (448)
T PRK14333 8 SYWITTFGCQ--------MNKADSER-MAGILEDMGYQWAEDELQADLVLYN 50 (448)
T ss_pred EEEEEEcCCC--------CcHHHHHH-HHHHHHHCcCEECCCcccCCEEEEE
Confidence 8888888631 27788873 3445554223488999999999885
No 7
>PRK14862 rimO ribosomal protein S12 methylthiotransferase; Provisional
Probab=43.23 E-value=44 Score=30.78 Aligned_cols=48 Identities=19% Similarity=0.200 Sum_probs=32.8
Q ss_pred hhcCceEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 66 MEKLFKIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 66 m~~~lKIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|...-|||+..+|=+ .+++-+| .+...|....--.|.+|++||++.|=
T Consensus 4 ~~~~~~~~i~t~GC~--------~N~~dse-~~~~~l~~~G~~~~~~~~~aD~ivin 51 (440)
T PRK14862 4 MTAAPKIGFVSLGCP--------KALVDSE-RILTQLRAEGYEISPSYDGADLVIVN 51 (440)
T ss_pred CCCCCEEEEEEcCCC--------CcHHHHH-HHHHHHHHCcCEECCCcccCCEEEEe
Confidence 444558998888631 3778888 33455554223488889999999984
No 8
>PRK14338 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=41.06 E-value=46 Score=30.83 Aligned_cols=43 Identities=19% Similarity=0.257 Sum_probs=29.3
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+.-+|= -.+++-+|. +...|....--.|.+|++||+..|=
T Consensus 22 ~~~i~t~GC--------~~N~~dse~-~~~~l~~~G~~~~~~~~~AD~~iiN 64 (459)
T PRK14338 22 RYYVWTVGC--------QMNVSDSER-LEAALQGVGYSPAERPEDADFIVLN 64 (459)
T ss_pred EEEEEecCC--------CCCHHHHHH-HHHHHHHCcCEECCCcccCCEEEEe
Confidence 588877753 137788883 4555554223478999999999874
No 9
>PRK14340 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=39.14 E-value=51 Score=30.51 Aligned_cols=43 Identities=16% Similarity=0.130 Sum_probs=29.7
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+--+|= -.+++-+| .+...|....--.|.+|++||++.|=
T Consensus 8 ~~~i~tlGC--------~~N~~dse-~~~~~l~~~G~~~~~~~~~ADviiiN 50 (445)
T PRK14340 8 KFYIHTFGC--------QMNQADSE-IITALLQDEGYVPAASEEDADIVLLN 50 (445)
T ss_pred EEEEEecCC--------CCcHHHHH-HHHHHHHHCcCEECCCcccCCEEEEE
Confidence 588877753 23778888 44555554333488889999999885
No 10
>PRK14335 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=37.61 E-value=55 Score=30.33 Aligned_cols=43 Identities=12% Similarity=0.059 Sum_probs=27.9
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+--+|= -.++|-+| .+...|....--.|.+|++||+..|=
T Consensus 2 ~~~i~t~GC--------~~N~~dse-~~~~~l~~~G~~~~~~~~~ADv~iiN 44 (455)
T PRK14335 2 TYFFETYGC--------QMNVAESA-SMEQLLLARGWTKAVDAETCDVLIIN 44 (455)
T ss_pred EEEEEEcCC--------CCcHHHHH-HHHHHHHHCcCEECCCcccCCEEEEe
Confidence 566655542 13778888 33455554223488999999999875
No 11
>PRK14332 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=37.51 E-value=58 Score=30.20 Aligned_cols=47 Identities=26% Similarity=0.314 Sum_probs=31.9
Q ss_pred hcCceEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 67 EKLFKIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 67 ~~~lKIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
.+..|||+--+|=+ .+++-+|.+ ...|....--.|.+|++||+..|=
T Consensus 8 ~~~~~~~i~t~GC~--------~N~~dse~~-~~~l~~~G~~~~~~~~~ADvviiN 54 (449)
T PRK14332 8 KKLGKVYIETYGCQ--------MNEYDSGIV-SSLMRDAEYSTSNDPENSDIIFLN 54 (449)
T ss_pred cCCCEEEEEecCCC--------CCHHHHHHH-HHHHHHCcCEECCCcccCCEEEEE
Confidence 45678888888632 367778843 455554223478899999999874
No 12
>PRK14328 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=36.37 E-value=59 Score=29.84 Aligned_cols=43 Identities=14% Similarity=0.097 Sum_probs=28.3
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+.-+|= -.++|-+|.+ ...|....--.|.++++||+..|=
T Consensus 3 ~~~~~t~GC--------~~N~~ds~~~-~~~l~~~G~~~~~~~~~ADv~iiN 45 (439)
T PRK14328 3 KYFIETYGC--------QMNEEDSEKL-AGMLKSMGYERTENREEADIIIFN 45 (439)
T ss_pred EEEEEEeCC--------CCCHHHHHHH-HHHHHHCcCEECCCcCcCCEEEEe
Confidence 477777752 1377888843 445554223488889999999875
No 13
>KOG4247 consensus Mitochondrial DNA polymerase accessory subunit [Replication, recombination and repair]
Probab=36.27 E-value=29 Score=27.62 Aligned_cols=56 Identities=29% Similarity=0.369 Sum_probs=35.5
Q ss_pred ccchhhhccchhhhh-------HHHHHHHHHHHHHhhhhcc-----------------C-ccCCCCCCCCCCCCcccChh
Q 039479 3 HPQVFSSQMNQFNWV-------EASLVRARSSIREAALVRN-----------------L-TSVHQDPDYVPRGPIYRNAN 57 (182)
Q Consensus 3 ~~~~~~~~~~~~~~~-------~~~l~~ar~~i~~a~~~~~-----------------~-~~~~~~~~~~~~~~~y~n~~ 57 (182)
|||+-.+-..-|+++ |+..+.-|++||-|.+..- + +.-..+.|+.|...+|||++
T Consensus 45 mpqidaklinhlerlslvrfdseqavanlrssirvakrlelvdvegvepmhtvwedqecptfedveedplpieevfrnas 124 (175)
T KOG4247|consen 45 MPQIDAKLINHLERLSLVRFDSEQAVANLRSSIRVAKRLELVDVEGVEPMHTVWEDQECPTFEDVEEDPLPIEEVFRNAS 124 (175)
T ss_pred cchhhHHHHHHHHhhhheeecHHHHHHHHHHHHhHHhheeeeeccCccchhhhcccccCCcccccccCCcCHHHHHhccc
Confidence 567665555555543 5677788999998876310 1 11112357888888999988
Q ss_pred h
Q 039479 58 A 58 (182)
Q Consensus 58 ~ 58 (182)
.
T Consensus 125 l 125 (175)
T KOG4247|consen 125 L 125 (175)
T ss_pred c
Confidence 4
No 14
>PRK14336 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=36.12 E-value=62 Score=29.63 Aligned_cols=43 Identities=16% Similarity=0.114 Sum_probs=28.7
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+--+|= -.+++-+| .+...|....--.|.+|++||+..|=
T Consensus 3 ~~~i~t~GC--------~~N~~dse-~~~~~l~~~G~~~~~~~~~AD~viiN 45 (418)
T PRK14336 3 GYYLWTIGC--------QMNQAESE-RLGRLFELWGYSLADKAEDAELVLVN 45 (418)
T ss_pred eEEEEecCC--------CCcHHHHH-HHHHHHHHCcCEECCCcccCCEEEEe
Confidence 577766652 13778888 44555554233488899999999875
No 15
>PRK14334 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=35.48 E-value=64 Score=29.64 Aligned_cols=42 Identities=14% Similarity=0.029 Sum_probs=28.1
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCc-ccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTY-KTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~-rT~DP~eAdlFfvP 122 (182)
|||+.-+|= -.++|-+| .+...|.. .++ .|.+|++||+..|=
T Consensus 2 ~~~i~t~GC--------~~N~~ds~-~~~~~l~~-~G~~~~~~~~~ADi~iiN 44 (440)
T PRK14334 2 KAHIITYGC--------QMNEYDTH-LVESELVS-LGAEIVDSVDEADFVLVN 44 (440)
T ss_pred eEEEEecCC--------CCcHHHHH-HHHHHHHH-CcCEECCCcccCCEEEEe
Confidence 567666652 12778787 33555554 344 88889999999874
No 16
>PRK14337 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=34.57 E-value=66 Score=29.66 Aligned_cols=42 Identities=10% Similarity=0.184 Sum_probs=28.5
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+.-+|= -.+++-+| .+...|.. ..+...++++||+..|=
T Consensus 5 ~~~i~tlGC--------~~N~~dse-~~~~~l~~-~G~~~~~~~~ADiiiiN 46 (446)
T PRK14337 5 TFHIITFGC--------QMNVNDSD-WLARALVA-RGFTEAPEEEARVFIVN 46 (446)
T ss_pred EEEEEeeCC--------CCcHHHHH-HHHHHHHH-CCCEECCcCCCCEEEEe
Confidence 688877753 13788888 44555554 45655667899999874
No 17
>PRK14325 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=33.51 E-value=71 Score=29.27 Aligned_cols=43 Identities=23% Similarity=0.282 Sum_probs=29.9
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+..+|=+ .++|-+|.+ ...|....--.|.++++||++.|=
T Consensus 5 ~~~i~t~GC~--------~N~~ds~~~-~~~l~~~g~~~~~~~~~aDvviin 47 (444)
T PRK14325 5 KLYIKTYGCQ--------MNEYDSSKM-ADLLGAEGYELTDDPEEADLILLN 47 (444)
T ss_pred EEEEEEcCCC--------CcHHHHHHH-HHHHHHCcCEECCCcCCCCEEEEE
Confidence 6888887632 378888843 455554334588899999999984
No 18
>PRK14331 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=31.55 E-value=82 Score=28.89 Aligned_cols=42 Identities=19% Similarity=0.229 Sum_probs=28.3
Q ss_pred eEEEecCCCCCCCCCCCCC-CchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCK-SIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~-~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
|||+.-+| |+ ++|-+|.+ ...|....--.|.++++||+..|=
T Consensus 2 ~~~i~t~G---------C~~N~~ds~~~-~~~l~~~G~~~~~~~~~aDviiiN 44 (437)
T PRK14331 2 KYYIKTFG---------CQMNFNDSEKI-KGILQTLGYEPADDWEEADLILVN 44 (437)
T ss_pred EEEEEecC---------CCCcHHHHHHH-HHHHHHCcCEECCCcccCCEEEEe
Confidence 67777775 43 77878743 445554223488889999998874
No 19
>TIGR00089 RNA modification enzyme, MiaB family. This subfamily is aparrently a part of a larger superfamily of enzymes utilizing both a 4Fe4S cluster and S-adenosyl methionine (SAM) to initiate radical reactions. MiaB acts on a particular isoprenylated Adenine base of certain tRNAs causing thiolation at an aromatic carbon, and probably also transferring a methyl grouyp from SAM to the thiol. The particular substrate of the three other clades is unknown but may be very closely related.
Probab=30.87 E-value=79 Score=28.75 Aligned_cols=42 Identities=26% Similarity=0.323 Sum_probs=28.2
Q ss_pred eEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCc-ccCCcCCcceEEEc
Q 039479 71 KIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTY-KTKDPEKALVYFLP 122 (182)
Q Consensus 71 KIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~-rT~DP~eAdlFfvP 122 (182)
|||+..+|= -.+++-+| .+...|.. ..+ .|.++++||+..|=
T Consensus 1 ~~~~~t~GC--------~~N~~ds~-~~~~~l~~-~g~~~~~~~~~aD~v~in 43 (429)
T TIGR00089 1 KVYIETYGC--------QMNEADSE-IMAGLLKE-AGYEVTDDPEEADVIIIN 43 (429)
T ss_pred CEEEEEcCC--------CCcHHHHH-HHHHHHHH-CcCEECCCcccCCEEEEe
Confidence 456666642 13788888 44555554 445 78889999999985
No 20
>TIGR01578 MiaB-like-B MiaB-like tRNA modifying enzyme, archaeal-type. This clade is a member of a subfamily (TIGR00089) and spans the archaea and eukaryotes. The only archaeal miaB-like genes are in this clade, while eukaryotes have sequences described by this model as well as ones falling within the scope of the MiaB equivalog model.
Probab=29.97 E-value=82 Score=28.77 Aligned_cols=31 Identities=13% Similarity=-0.015 Sum_probs=22.0
Q ss_pred CchhhHHHHHHHHhhCCCc-ccCCcCCcceEEEc
Q 039479 90 SIYSTEGRFIHEMERSNTY-KTKDPEKALVYFLP 122 (182)
Q Consensus 90 ~~Ya~E~~F~~~Ll~~s~~-rT~DP~eAdlFfvP 122 (182)
++|-+|.+ ...|+. .++ .|.++++||+..|=
T Consensus 12 N~~ds~~~-~~~l~~-~G~~~~~~~~~ADviiin 43 (420)
T TIGR01578 12 NNGDSEIM-KNSLAA-YGHELVNNAEEADLAILN 43 (420)
T ss_pred cHHHHHHH-HHHHHH-CCCEECCCcccCCEEEEE
Confidence 77888843 444553 344 78899999999875
No 21
>PF09671 Spore_GerQ: Spore coat protein (Spore_GerQ); InterPro: IPR014099 Members of this protein family are the spore coat protein GerQ of endospore-forming Firmicutes (low GC Gram-positive bacteria). This protein is cross-linked by a spore coat-associated transglutaminase.
Probab=29.43 E-value=29 Score=25.32 Aligned_cols=12 Identities=33% Similarity=0.578 Sum_probs=9.4
Q ss_pred CCCCCeEEEcCC
Q 039479 164 SLGADHFMLSCH 175 (182)
Q Consensus 164 s~GaDHf~v~cH 175 (182)
..|+|||+++--
T Consensus 45 ~aGRDhiiisDp 56 (81)
T PF09671_consen 45 AAGRDHIIISDP 56 (81)
T ss_pred hcCcceEEEeCC
Confidence 469999998643
No 22
>PRK14329 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=27.92 E-value=1e+02 Score=28.67 Aligned_cols=43 Identities=16% Similarity=0.209 Sum_probs=29.3
Q ss_pred ceEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCc-ccCCcCCcceEEEc
Q 039479 70 FKIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTY-KTKDPEKALVYFLP 122 (182)
Q Consensus 70 lKIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~-rT~DP~eAdlFfvP 122 (182)
-|||+.-+|=+ .++|-+| .+...|.. ..+ .|.++++||+..|=
T Consensus 24 ~~~~i~t~GC~--------~N~~dse-~~~~~l~~-~G~~~~~~~~~ADiviiN 67 (467)
T PRK14329 24 KKLFIESYGCQ--------MNFADSE-IVASILQM-AGYNTTENLEEADLVLVN 67 (467)
T ss_pred CEEEEEecCCC--------CcHHHHH-HHHHHHHH-CcCEECCCcccCCEEEEe
Confidence 35888888631 2778787 33445553 344 78889999999875
No 23
>TIGR01125 MiaB-like tRNA modifying enzyme YliG, TIGR01125. This clade spans alpha and gamma proteobacteria, cyano bacteria, deinococcus, porphyromonas, aquifex, helicobacter, campylobacter, thermotoga, chlamydia, streptococcus coelicolor and clostridium, but does not include most other gram positive bacteria, archaea or eukaryotes.
Probab=27.48 E-value=94 Score=28.34 Aligned_cols=32 Identities=13% Similarity=0.077 Sum_probs=21.9
Q ss_pred CchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 90 SIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 90 ~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
++|-+|. +-..|....--.|.|+++||+..|=
T Consensus 12 N~~ds~~-~~~~l~~~g~~~~~~~~~aD~viin 43 (430)
T TIGR01125 12 NLVDSEV-MLGILREAGYEVTPNYEDADYVIVN 43 (430)
T ss_pred cHHHHHH-HHHHHHHCcCEECCCcccCCEEEEe
Confidence 6787773 3444443223488899999999885
No 24
>TIGR02728 spore_gerQ spore coat protein GerQ. Members of this protein family are the spore coat protein GerQ of endospore-forming Firmicutes (low GC Gram-positive bacteria). This protein is cross-linked by a spore coat-associated transglutaminase.
Probab=26.91 E-value=34 Score=24.97 Aligned_cols=11 Identities=36% Similarity=0.631 Sum_probs=8.7
Q ss_pred CCCCCeEEEcC
Q 039479 164 SLGADHFMLSC 174 (182)
Q Consensus 164 s~GaDHf~v~c 174 (182)
..|+|||+++-
T Consensus 43 ~AGRDhiiisd 53 (82)
T TIGR02728 43 NAGRDHIVISD 53 (82)
T ss_pred hcCcceEEEcC
Confidence 35999999863
No 25
>PRK14326 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=26.80 E-value=1.2e+02 Score=28.65 Aligned_cols=47 Identities=15% Similarity=0.092 Sum_probs=30.6
Q ss_pred hcCceEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 67 EKLFKIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 67 ~~~lKIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
...-||||--+|= -.++|-+| .+...|....--.|.++++||++.|=
T Consensus 11 ~~~~~~~i~T~GC--------~~N~~dse-~~~~~L~~~G~~~~~~~e~ADvvviN 57 (502)
T PRK14326 11 RGARTYQVRTYGC--------QMNVHDSE-RLAGLLEAAGYVRAAEGQDADVVVFN 57 (502)
T ss_pred CCCCEEEEEecCC--------CCcHHHHH-HHHHHHHHCCCEECCCcCCCCEEEEE
Confidence 3334688877753 13778888 33455554223478889999999884
No 26
>TIGR01574 miaB-methiolase tRNA-N(6)-(isopentenyl)adenosine-37 thiotransferase enzyme MiaB. Hits to this model span all major groups of bacteria and eukaryotes, but not archaea, which are known to lack this particular tRNA modification. The enzyme from Thermotoga maritima has been cloned, expressed, spectroscopically characterized and shown to complement the E. coli MiaB enzyme.
Probab=25.93 E-value=1.1e+02 Score=28.15 Aligned_cols=32 Identities=16% Similarity=0.198 Sum_probs=22.1
Q ss_pred CchhhHHHHHHHHhhC-CCcccCCcCCcceEEEc
Q 039479 90 SIYSTEGRFIHEMERS-NTYKTKDPEKALVYFLP 122 (182)
Q Consensus 90 ~~Ya~E~~F~~~Ll~~-s~~rT~DP~eAdlFfvP 122 (182)
++|-+| .+...|... .--.|.++++||+..|=
T Consensus 12 N~~dse-~~~~~l~~~~G~~~~~~~~~aDv~iiN 44 (438)
T TIGR01574 12 NVRDSE-HMAALLTAKEGYALTEDAKEADVLLIN 44 (438)
T ss_pred cHHHHH-HHHHHHHhcCCcEECCCcccCCEEEEe
Confidence 778787 345555542 23488889999999874
No 27
>PRK14327 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional
Probab=25.14 E-value=1.3e+02 Score=28.52 Aligned_cols=47 Identities=26% Similarity=0.121 Sum_probs=29.4
Q ss_pred hcCceEEEecCCCCCCCCCCCCCCchhhHHHHHHHHhhCCCcccCCcCCcceEEEc
Q 039479 67 EKLFKIYVYEEGEPPMFHDGPCKSIYSTEGRFIHEMERSNTYKTKDPEKALVYFLP 122 (182)
Q Consensus 67 ~~~lKIYVY~lg~pp~~h~~~~~~~Ya~E~~F~~~Ll~~s~~rT~DP~eAdlFfvP 122 (182)
.+..||||--+|=+ .+++-+|. +...|+...--.|.+|++||+..|=
T Consensus 64 ~~~~~~~i~T~GC~--------~N~~Dse~-~~~~L~~~Gy~~~~~~~~ADviiiN 110 (509)
T PRK14327 64 GNGRKFYIRTYGCQ--------MNEHDTEV-MAGIFEALGYEPTDDTEDADVILLN 110 (509)
T ss_pred cCCCEEEEEeCCCC--------ccHHHHHH-HHHHHHHCcCEECCCcCCCCEEEEE
Confidence 34456777777521 26777773 3444543223478889999998874
Done!