Query 021345
Match_columns 314
No_of_seqs 123 out of 220
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 09:30:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021345.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021345hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00188 enhanced disease resi 100.0 3.4E-82 7.3E-87 650.1 20.2 236 14-257 481-716 (719)
2 PF07059 DUF1336: Protein of u 100.0 2.4E-81 5.2E-86 576.4 19.9 207 34-246 1-227 (227)
3 PRK06153 hypothetical protein; 22.4 2.2E+02 0.0048 29.2 6.2 54 195-253 272-325 (393)
4 PF06348 DUF1059: Protein of u 21.2 18 0.00039 26.8 -1.3 27 215-241 8-34 (57)
5 COG5639 Uncharacterized conser 19.7 42 0.00091 26.7 0.4 22 133-154 52-73 (77)
6 PF01994 Trm56: tRNA ribose 2' 18.6 75 0.0016 27.5 1.7 23 133-155 87-112 (120)
7 COG1303 Uncharacterized protei 17.7 69 0.0015 29.2 1.3 23 133-155 141-166 (179)
8 PF04308 DUF458: Protein of un 16.7 75 0.0016 28.1 1.3 34 188-225 94-127 (144)
9 COG3522 Predicted component of 13.7 3.5E+02 0.0076 28.3 5.4 65 118-196 344-414 (446)
10 COG1521 Pantothenate kinase ty 13.5 3.1E+02 0.0067 26.3 4.6 101 116-222 19-131 (251)
No 1
>PLN00188 enhanced disease resistance protein (EDR2); Provisional
Probab=100.00 E-value=3.4e-82 Score=650.08 Aligned_cols=236 Identities=38% Similarity=0.695 Sum_probs=224.7
Q ss_pred hhhhcCCCcccCCCCCCCCCccCCCCCceeeeCCCCcCCCccccCCCCccceeeeeEeeeCccchhhhcccchhHHHHHH
Q 021345 14 KKVKSGGAVPYLEPDNCSNGWATPPGDMFMVRGPDYLSTKVKIPAGEYILKPLGFDWVKSYTKIGAVLNHQNNRVRKAIE 93 (314)
Q Consensus 14 ~~~~~~~~lp~~~~~~~~~~Ws~p~~~~F~VRG~~Yl~dkkKvps~~~l~~lvgvDlf~s~~ki~hIa~~~~~~v~~~~~ 93 (314)
.-...+|+||..+++++.+||++|++++|+|||++||+||+|+||+++||+++|||||++++|++|||+||+++++.+
T Consensus 481 d~~~~~g~l~~~~~~~~~ncWs~Pd~~~F~VRG~~Yl~Dk~KvPAg~~l~~lvgvDwfks~~ridhVa~r~~~~vq~a-- 558 (719)
T PLN00188 481 DLSCFSGNLRRDDRDKARDCWRISDGNNFKVRSKNFCYDKSKIPAGKHLMDLVAVDWFKDTKRMDHVARRKGCAAQVA-- 558 (719)
T ss_pred cccccccccccCCCCCCCCCccCCCCcceEEcCCCcccCCccccCCccceeeEEEEEEcCCchhhHhhcCCCchhhhh--
Confidence 334578999999999999999999999999999999999999999999999999999999999999999999998874
Q ss_pred hhcCCCCCCeEEEEEEEecCCCCceEEEEeeeCCCCCCchhHHHHhhCChhhhccceeEEeeeccchhHHHhhhCCCCce
Q 021345 94 EAFPTGDKPFVWAFNLQVPSKENYSAIAYFVATKPIPEGSLVDRFLKGDDAFRLSRLKLIANIVQGPWIVKKAVGEQAIC 173 (314)
Q Consensus 94 ~~~~~~~~Pf~fiVNlqvP~~p~~slV~Yf~~~e~~p~~~Ll~rFl~GDD~fRN~RfKLIp~Vv~GpwiVrkaVG~kp~~ 173 (314)
.++.||+||||||||++|+||+|+||+++ +++.++||+||++|||+|||+||||||+|++||||||++||++| |
T Consensus 559 ----~~k~~F~fiVNlQvPg~~~ys~V~Yf~~~-~l~~~sLl~rF~~GDD~fRnsRfKLIP~Iv~GpWiVk~aVG~~p-~ 632 (719)
T PLN00188 559 ----AEKGLFSFVVNLQVPGSTHYSMVFYFVTK-ELVPGSLLQRFVDGDDEFRNSRLKLIPSVPKGSWIVRQSVGSTP-C 632 (719)
T ss_pred ----cccCCcEEEEEEEccCCCceEEEEEEecc-CCCCchHHHHhccCchhHhhCceEEeccccCCceEEEeccCCcc-e
Confidence 23458999999999999999999999985 58899999999999999999999999999999999999999987 9
Q ss_pred eeecceeeeEEecCCEEEEEEEccchHHHHHHHHHhhcccceEEEeeeEeeccCCCCccccchhceeeecccCCCCcccc
Q 021345 174 VIGRALSCNYCVGENFLEVDMDIGSSMVAKAIVHLAFGYITTLTVDLAFLLESQTESELPEQILGAFRFSELNPASACLV 253 (314)
Q Consensus 174 llGr~l~~~Y~~g~nYlEiDVDI~sS~vAr~il~l~~gy~k~LvvD~gFvIEG~~eeELPE~lLG~vRl~~lD~~~A~~~ 253 (314)
||||+|+|+||+|+||||||||||||+||++|++||+||+++|||||||+|||+++|||||||||||||++||+++|...
T Consensus 633 llGk~l~~~Y~~g~nylEvdvDi~ss~va~~v~~l~~g~~~~lvvD~af~ie~~~~eELPE~llG~~Rl~~i~~~~A~~~ 712 (719)
T PLN00188 633 LLGKAVDCNYIRGPKYLEIDVDIGSSTVANGVLGLVIGVITTLVVDMAFLVQANTYEELPERLIGAVRVSHVELSSAIVP 712 (719)
T ss_pred EeeeecceeEecCCCeEEEEEeeccHHHHHHHHHHHHhhhhheEEEEEEEEecCChhhCchhheeeEEecccchhhcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999887
Q ss_pred cCCC
Q 021345 254 EPGS 257 (314)
Q Consensus 254 ~~~~ 257 (314)
+..+
T Consensus 713 ~~~~ 716 (719)
T PLN00188 713 KLDP 716 (719)
T ss_pred CCCC
Confidence 6554
No 2
>PF07059 DUF1336: Protein of unknown function (DUF1336); InterPro: IPR009769 This entry represents the C terminus (approximately 250 residues) of a number of hypothetical plant proteins of unknown function.
Probab=100.00 E-value=2.4e-81 Score=576.41 Aligned_cols=207 Identities=45% Similarity=0.847 Sum_probs=199.6
Q ss_pred ccCCCCCceeeeCCCCcCCCccccCCCCccceeeeeEeeeCccchhhhcccchhHHHHHHhhcCCCCCCeEEEEEEEecC
Q 021345 34 WATPPGDMFMVRGPDYLSTKVKIPAGEYILKPLGFDWVKSYTKIGAVLNHQNNRVRKAIEEAFPTGDKPFVWAFNLQVPS 113 (314)
Q Consensus 34 Ws~p~~~~F~VRG~~Yl~dkkKvps~~~l~~lvgvDlf~s~~ki~hIa~~~~~~v~~~~~~~~~~~~~Pf~fiVNlqvP~ 113 (314)
||+|++++|+|||++||+||+|+||+++||+++|||||++++|++|||+|+.+++++... .+.||+||||||||+
T Consensus 1 Ws~p~~~~FkVRG~~Yl~DkkKvpa~~~l~~lvgvDlf~s~~~~~hia~~~~~~~~~~~~-----~~~P~~fIVNlqvP~ 75 (227)
T PF07059_consen 1 WSEPDASTFKVRGPNYLKDKKKVPAGPPLFELVGVDLFKSDKKIDHIARRPSSPVQKALE-----KGVPFTFIVNLQVPG 75 (227)
T ss_pred CCCCCCCEEEEeCCCcccCCCCCcCCCcceeeEEEEEEecCCcchhhhhCcCCccccccc-----cCCCcEEEEEEEccC
Confidence 999999999999999999999999999999999999999999999999999998877543 357999999999999
Q ss_pred ----------CCCceEEEEeeeCCCCCC------chhHHHHhhCC---hhhhccceeEEeeeccchhHHHhhh-CCCCce
Q 021345 114 ----------KENYSAIAYFVATKPIPE------GSLVDRFLKGD---DAFRLSRLKLIANIVQGPWIVKKAV-GEQAIC 173 (314)
Q Consensus 114 ----------~p~~slV~Yf~~~e~~p~------~~Ll~rFl~GD---D~fRN~RfKLIp~Vv~GpwiVrkaV-G~kp~~ 173 (314)
.|+||+|+||++++++.. .+||+||++|| |+|||+||||||+|+|||||||++| |+|| |
T Consensus 76 ~p~~~f~~~~~~~~s~V~Yf~~~~~~~~~~~~~~~~ll~rF~~gd~~~d~frn~RfKlIp~vv~gpwivr~~v~~~kP-~ 154 (227)
T PF07059_consen 76 YPPSMFGEIDGPGYSLVLYFRMPEPIEDDDSPPFGRLLHRFLNGDEVEDAFRNERFKLIPRVVNGPWIVRKAVYNGKP-V 154 (227)
T ss_pred CccccccccccCCceEEEEEecCCccccccCchhHHHHHHHHhcCccchhhhhccEEEEEEEcCCchhhhhhhcCCCc-e
Confidence 899999999999987765 79999999999 9999999999999999999999999 8887 9
Q ss_pred eeecceeeeEEecCCEEEEEEEccchHHHHHHHHHhhcccceEEEeeeEeeccCCCCccccchhceeeecccC
Q 021345 174 VIGRALSCNYCVGENFLEVDMDIGSSMVAKAIVHLAFGYITTLTVDLAFLLESQTESELPEQILGAFRFSELN 246 (314)
Q Consensus 174 llGr~l~~~Y~~g~nYlEiDVDI~sS~vAr~il~l~~gy~k~LvvD~gFvIEG~~eeELPE~lLG~vRl~~lD 246 (314)
|||++++|+||+|+||||||||||||++||+++++|+||+++|+|||||+|||+++||||||||||+||+|||
T Consensus 155 lig~~~~~~y~~g~~y~E~dvdi~ss~~a~~~~~~~~~~~~~lvvd~gf~ieg~~~~ELPE~lLg~~Rl~~id 227 (227)
T PF07059_consen 155 LIGKKLQHRYFRGPNYLEIDVDIHSSYIARKVLHLVRGYLKKLVVDMGFVIEGQTEEELPERLLGCVRLNHID 227 (227)
T ss_pred eecCccceEEeeCCCeEEEEEEeccHHHHHHHHHHHHhhhceEEEEEEEEecCCChhhCchheEeEEEeeecC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999998
No 3
>PRK06153 hypothetical protein; Provisional
Probab=22.37 E-value=2.2e+02 Score=29.17 Aligned_cols=54 Identities=13% Similarity=0.081 Sum_probs=39.8
Q ss_pred EccchHHHHHHHHHhhcccceEEEeeeEeeccCCCCccccchhceeeecccCCCCcccc
Q 021345 195 DIGSSMVAKAIVHLAFGYITTLTVDLAFLLESQTESELPEQILGAFRFSELNPASACLV 253 (314)
Q Consensus 195 DI~sS~vAr~il~l~~gy~k~LvvD~gFvIEG~~eeELPE~lLG~vRl~~lD~~~A~~~ 253 (314)
|.-.+.-+|.+++-..-....-.||+|..|+-.. .. +-||+|+..+.+.....+
T Consensus 272 dcvDn~~aR~~ln~~a~~~gIP~Id~G~~l~~~~-g~----l~G~~Rvt~~~p~~~~~~ 325 (393)
T PRK06153 272 VCVDKGSSRKLIVDYLEALGIPFIDVGMGLELSN-GS----LGGILRVTLSTPDKRDHV 325 (393)
T ss_pred EcCCCHHHHHHHHHHHHHcCCCEEEeeecceecC-CC----cCcEEEEEEecCCccccc
Confidence 3333677788777666666778899999998872 22 468999999999876544
No 4
>PF06348 DUF1059: Protein of unknown function (DUF1059); InterPro: IPR009409 This entry consists of short hypothetical archaeal and bacterial proteins of unknown function.
Probab=21.23 E-value=18 Score=26.78 Aligned_cols=27 Identities=30% Similarity=0.475 Sum_probs=21.7
Q ss_pred eEEEeeeEeeccCCCCccccchhceee
Q 021345 215 TLTVDLAFLLESQTESELPEQILGAFR 241 (314)
Q Consensus 215 ~LvvD~gFvIEG~~eeELPE~lLG~vR 241 (314)
.+..|.+|.+.|.+++||-+++---.|
T Consensus 8 d~g~~C~~~~~a~tedEll~~~~~Ha~ 34 (57)
T PF06348_consen 8 DVGPDCGFVIRAETEDELLEAVVEHAR 34 (57)
T ss_pred ccCCCCCeEEeeCCHHHHHHHHHHHHH
Confidence 356789999999999999988764443
No 5
>COG5639 Uncharacterized conserved small protein [Function unknown]
Probab=19.72 E-value=42 Score=26.72 Aligned_cols=22 Identities=32% Similarity=0.578 Sum_probs=18.3
Q ss_pred hhHHHHhhCChhhhccceeEEe
Q 021345 133 SLVDRFLKGDDAFRLSRLKLIA 154 (314)
Q Consensus 133 ~Ll~rFl~GDD~fRN~RfKLIp 154 (314)
-.|++|+.||-.|+..|=|..|
T Consensus 52 ~MLe~Fla~DR~F~kark~~~p 73 (77)
T COG5639 52 HMLEAFLAGDRGFAKARKKAAP 73 (77)
T ss_pred HHHHHHHhccHHHHHHHHhcCC
Confidence 4789999999999988876544
No 6
>PF01994 Trm56: tRNA ribose 2'-O-methyltransferase, aTrm56; InterPro: IPR002845 This entry represents tRNA ribose 2'-O-methyltransferase aTrm56, which specifically catalyzes the AdoMet-dependent 2'-O-ribose methylation of cytidine at position 56 in tRNAs. The crystal structure of Pyrococcus horikoshii aTrm56 complexed with S-adenosyl-L-methionine has been determined to 2.48 A resolution. aTrm56 consists of the SPOUT domain, which contains the characteristic deep trefoil knot, and a unique C-terminal beta-hairpin []. A conserved cytidine at position 56 of tRNA contributes to the maintenance of the L-shaped tertiary structure. aTrm56 catalyzes the 2'-O-methylation of the cytidine residue in archaeal tRNA, using S-adenosyl-L-methionine. Biochemical assays showed that aTrm56 forms a dimer and prefers the L-shaped tRNA to the lambda form as its substrate [, ].; GO: 0008175 tRNA methyltransferase activity, 0002128 tRNA nucleoside ribose methylation, 0005737 cytoplasm; PDB: 2YY8_A 2O3A_B.
Probab=18.63 E-value=75 Score=27.46 Aligned_cols=23 Identities=30% Similarity=0.704 Sum_probs=14.5
Q ss_pred hhHHHHhhC---ChhhhccceeEEee
Q 021345 133 SLVDRFLKG---DDAFRLSRLKLIAN 155 (314)
Q Consensus 133 ~Ll~rFl~G---DD~fRN~RfKLIp~ 155 (314)
-+|+|++.| +-+|-+.++|+||.
T Consensus 87 vFLDrl~~G~el~~~f~~a~~~ViP~ 112 (120)
T PF01994_consen 87 VFLDRLFEGKELDREFEDAKIKVIPS 112 (120)
T ss_dssp HHHHHHCTTGCCC---TT-SCEEE--
T ss_pred HHHHHhcCCcchhhccCCCcEEEEec
Confidence 378888888 57999999999996
No 7
>COG1303 Uncharacterized protein conserved in archaea [Function unknown]
Probab=17.65 E-value=69 Score=29.22 Aligned_cols=23 Identities=26% Similarity=0.687 Sum_probs=19.7
Q ss_pred hhHHHHhhC---ChhhhccceeEEee
Q 021345 133 SLVDRFLKG---DDAFRLSRLKLIAN 155 (314)
Q Consensus 133 ~Ll~rFl~G---DD~fRN~RfKLIp~ 155 (314)
-+|+|+++| +-+|.+.++|+||.
T Consensus 141 vFLDRl~~G~~l~~~f~~aki~viP~ 166 (179)
T COG1303 141 VFLDRLFEGKELEKEFEDAKIKVIPS 166 (179)
T ss_pred HHHHHHhCCceeeeecCCceEEEeeH
Confidence 378888888 57999999999995
No 8
>PF04308 DUF458: Protein of unknown function (DUF458) ; InterPro: IPR007405 This entry is represented by Bacteriophage KVP40, Orf299. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of uncharacterised, mainly bacterial, proteins. While the functions of these proteins are unknown, an analysis has suggested that they may form a novel family within the RNASE H-like superfamily []. These proteins appear to contain all the core secondary structural elements of the RNase H-like fold and share several conserved, possible active site, residues. It was suggested, therefore, that they function as nucleases. From the taxonomic distibution of these proteins it was further inferred that they may play a role in DNA repair under stressful conditions.
Probab=16.69 E-value=75 Score=28.14 Aligned_cols=34 Identities=24% Similarity=0.495 Sum_probs=24.6
Q ss_pred CEEEEEEEccchHHHHHHHHHhhcccceEEEeeeEeec
Q 021345 188 NFLEVDMDIGSSMVAKAIVHLAFGYITTLTVDLAFLLE 225 (314)
Q Consensus 188 nYlEiDVDI~sS~vAr~il~l~~gy~k~LvvD~gFvIE 225 (314)
-=+||.+||+...-.+..+.=+.||+.. |||.-.
T Consensus 94 ~~~EiHiDIg~~g~T~~~i~E~vG~v~~----~G~~~k 127 (144)
T PF04308_consen 94 VDLEIHIDIGTNGKTRELIKEVVGYVEG----MGFEAK 127 (144)
T ss_pred ccEEEEEEcCCCCchHHHHHHHHHHHHH----CCceEE
Confidence 3489999999977777777777777665 555443
No 9
>COG3522 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]
Probab=13.69 E-value=3.5e+02 Score=28.25 Aligned_cols=65 Identities=18% Similarity=0.218 Sum_probs=42.8
Q ss_pred eEEEEeeeCCCCCCchhHHHHhh----C-ChhhhccceeEEeeeccchhHHHhhhCCCC-ceeeecceeeeEEecCCEEE
Q 021345 118 SAIAYFVATKPIPEGSLVDRFLK----G-DDAFRLSRLKLIANIVQGPWIVKKAVGEQA-ICVIGRALSCNYCVGENFLE 191 (314)
Q Consensus 118 slV~Yf~~~e~~p~~~Ll~rFl~----G-DD~fRN~RfKLIp~Vv~GpwiVrkaVG~kp-~~llGr~l~~~Y~~g~nYlE 191 (314)
+..||++++-..|...|-.+|.. | .|..| -+|+....+-| ..+---+-++-|+.|..|||
T Consensus 344 ~a~fvLaV~A~~p~e~Lr~~f~~q~Kvga~e~i~--------------~Lv~~~LPGipl~plp~~PrqiPy~~g~~Yf~ 409 (446)
T COG3522 344 SASFVLAVRADMPAEQLRRQFPQQTKVGAPEKIR--------------ELVNVQLPGIPLRPLPVAPRQIPYHSGYTYFE 409 (446)
T ss_pred cceEEEEEeCCCCHHHHHHHHHHhhccCChHHHH--------------HHHHhcCCCCccccCCCCCccccccCCcEEEE
Confidence 67899999888999999999974 3 34444 23444433322 01223334678999999999
Q ss_pred EEEEc
Q 021345 192 VDMDI 196 (314)
Q Consensus 192 iDVDI 196 (314)
+|-+=
T Consensus 410 ld~~~ 414 (446)
T COG3522 410 LDKSS 414 (446)
T ss_pred EeCCC
Confidence 98654
No 10
>COG1521 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]
Probab=13.46 E-value=3.1e+02 Score=26.29 Aligned_cols=101 Identities=17% Similarity=0.163 Sum_probs=61.3
Q ss_pred CceEEEEeeeCCCC-----CCchhHHHHhhCChhhhccceeEEeeeccch------hHHHhhhCCCCceeeecceeeeEE
Q 021345 116 NYSAIAYFVATKPI-----PEGSLVDRFLKGDDAFRLSRLKLIANIVQGP------WIVKKAVGEQAICVIGRALSCNYC 184 (314)
Q Consensus 116 ~~slV~Yf~~~e~~-----p~~~Ll~rFl~GDD~fRN~RfKLIp~Vv~Gp------wiVrkaVG~kp~~llGr~l~~~Y~ 184 (314)
+-.++.+|++.... +-...++.++.++ .+|.=+..+|..|+ .+ -++++....+|.++.+++....+.
T Consensus 19 ~~~~~~~~r~~t~~~~~~del~~~~~~l~~~~-~~~~~~~~~issvv-p~~~~~~~~~~~~~f~~~~~~~~~~~~~~g~~ 96 (251)
T COG1521 19 GGKVVQTWRLATEDLLTEDELGLQLHNLFDGN-SVRDIDGIVISSVV-PPLGIFLEAVLKEYFKVKPLVVISPKQLLGIR 96 (251)
T ss_pred CCeEEEEEeecccccccHHHHHHHHHHHhccc-cccccccceeeccC-ccHHHHHHHHHHHHhccCceeeechhhccCCc
Confidence 45678889886432 1134555666666 66766788999999 33 246666666665666777554444
Q ss_pred -ecCCEEEEEEEccchHHHHHHHHHhhcccceEEEeeeE
Q 021345 185 -VGENFLEVDMDIGSSMVAKAIVHLAFGYITTLTVDLAF 222 (314)
Q Consensus 185 -~g~nYlEiDVDI~sS~vAr~il~l~~gy~k~LvvD~gF 222 (314)
.-++|-|+.+|---..+|.. ...|.. -+|||+|=
T Consensus 97 ~~~~~p~elG~DR~~n~vaA~---~~~~~~-~vVVD~GT 131 (251)
T COG1521 97 VLYDNPEELGADRIANAVAAY---HKYGKA-VVVVDFGT 131 (251)
T ss_pred ccCCChhhhcHHHHHHHHHHH---HHcCCc-EEEEEcCC
Confidence 34789998777643333222 112222 68888873
Done!