Query 021402
Match_columns 313
No_of_seqs 136 out of 220
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 02:40:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021402.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021402hhsearch_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 6.3E-83 1.4E-87 655.2 20.3 236 14-257 481-716 (719)
2 PF07059 DUF1336: Protein of u 100.0 8.5E-82 1.8E-86 579.1 20.0 207 34-246 1-227 (227)
3 PRK06153 hypothetical protein; 23.3 2E+02 0.0044 29.4 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 20.9 37 0.00081 27.0 0.3 22 133-154 52-73 (77)
6 COG1521 Pantothenate kinase ty 19.3 2.4E+02 0.0052 27.0 5.5 101 116-222 19-131 (251)
7 PF01994 Trm56: tRNA ribose 2' 18.8 73 0.0016 27.5 1.7 23 133-155 87-112 (120)
8 COG1303 Uncharacterized protei 17.9 68 0.0015 29.3 1.3 23 133-155 141-166 (179)
9 PF04308 DUF458: Protein of un 17.7 69 0.0015 28.4 1.3 34 188-225 94-127 (144)
10 PF03622 IBV_3B: IBV 3B protei 17.5 1.2E+02 0.0027 23.3 2.5 18 177-194 35-52 (64)
No 1
>PLN00188 enhanced disease resistance protein (EDR2); Provisional
Probab=100.00 E-value=6.3e-83 Score=655.20 Aligned_cols=236 Identities=38% Similarity=0.695 Sum_probs=225.0
Q ss_pred hhhhcCCCcccCCCCCCCCCccCCCCCceeeeCCCCcCCCccccCCCCccceeeeeEeeeCccchhhhcccchhHHHHHH
Q 021402 14 KKVKSGGAVPYLEPDNCSNGWATPPGDMFMVRGPDYLSTKVKIPAGEYILKPLGFDWVKSYTKIGAVLNHQNNRVRKAIE 93 (313)
Q Consensus 14 ~~~~~~~~lp~~~~~~~~~~Ws~p~~~~F~VRG~~Yl~dk~Kvpa~~~l~~lvgvD~f~s~~ki~hIa~~~~~~v~~~~~ 93 (313)
.-...+|+||..+++++.+||++|++++|+|||++||+||+|+||+++||+++|||||++++|++|||+||+++++.+
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 334579999999999999999999999999999999999999999999999999999999999999999999998874
Q ss_pred hhcCCCCCCeEEEEEEEecCCCCceEEEEeeeCCCCCCchhHHHHhhCChhhhccceeEEeeeccchhHHHhhhCCCCce
Q 021402 94 EAFPTGDKPFVWAFNLQVPSKENYSAIAYFVATKPIPEGSLVDRFLKGDDAFRLSRLKLIANIVQGPWIVKKAVGEQAIC 173 (313)
Q Consensus 94 ~~~~~~~~Pf~fiVNlqvP~~p~~slV~Yf~~~e~~p~~~Ll~rFl~GDD~fRN~RfKLIp~Vv~GpwiVr~avG~kp~~ 173 (313)
.++.||+||||||||++|+||+|+||+++ +++.++||+||++|||+|||+||||||+|++||||||++||++| |
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 48899999999999999999999999999999999999999997 9
Q ss_pred eeecceeeeEEecCCEEEEEEEccchHHHHHHHHHhhcccceEEEeeeEeeccCCCCccccchhceeeecccCCCCcccc
Q 021402 174 VIGRALSCNYCVGENFLEVDMDIGSSMVAKAIVHLAFGYITTLTVDLAFLLESQTESELPEQILGAFRFSELNPASACLV 253 (313)
Q Consensus 174 lLGr~l~~~Y~~g~nYlEiDVDI~sS~vAr~il~l~~g~~k~LvvD~gFvIEG~~eeELPE~lLG~vRl~~lD~~~A~~~ 253 (313)
||||+|+|+||+|+||||||||||||+||++|++||+||+++|||||||+|||+++|||||||||||||++||+++|...
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 021402 254 EPGS 257 (313)
Q Consensus 254 ~~~~ 257 (313)
+..+
T Consensus 713 ~~~~ 716 (719)
T PLN00188 713 KLDP 716 (719)
T ss_pred CCCC
Confidence 7654
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=8.5e-82 Score=579.08 Aligned_cols=207 Identities=45% Similarity=0.847 Sum_probs=199.7
Q ss_pred ccCCCCCceeeeCCCCcCCCccccCCCCccceeeeeEeeeCccchhhhcccchhHHHHHHhhcCCCCCCeEEEEEEEecC
Q 021402 34 WATPPGDMFMVRGPDYLSTKVKIPAGEYILKPLGFDWVKSYTKIGAVLNHQNNRVRKAIEEAFPTGDKPFVWAFNLQVPS 113 (313)
Q Consensus 34 Ws~p~~~~F~VRG~~Yl~dk~Kvpa~~~l~~lvgvD~f~s~~ki~hIa~~~~~~v~~~~~~~~~~~~~Pf~fiVNlqvP~ 113 (313)
||+|++++|+|||+|||+||+|+||+++||+++|||||++++|++|||+|+.+++++... .+.||+||||||||+
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 999999999999999999999999999999999999999999999999999999877543 357999999999999
Q ss_pred ----------CCCceEEEEeeeCCCCCC------chhHHHHhhCC---hhhhccceeEEeeeccchhHHHhhh-CCCCce
Q 021402 114 ----------KENYSAIAYFVATKPIPE------GSLVDRFLKGD---DAFRLSRLKLIANIVQGPWIVKKAV-GEQAIC 173 (313)
Q Consensus 114 ----------~p~~slV~Yf~~~e~~p~------~~Ll~rFl~GD---D~fRN~RfKLIp~Vv~GpwiVr~av-G~kp~~ 173 (313)
.|+||+|+||++++++.. .+||+||++|| |+|||+||||||+|+|||||||++| |+|| |
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 899999999999988765 79999999999 9999999999999999999999999 8887 9
Q ss_pred eeecceeeeEEecCCEEEEEEEccchHHHHHHHHHhhcccceEEEeeeEeeccCCCCccccchhceeeecccC
Q 021402 174 VIGRALSCNYCVGENFLEVDMDIGSSMVAKAIVHLAFGYITTLTVDLAFLLESQTESELPEQILGAFRFSELN 246 (313)
Q Consensus 174 lLGr~l~~~Y~~g~nYlEiDVDI~sS~vAr~il~l~~g~~k~LvvD~gFvIEG~~eeELPE~lLG~vRl~~lD 246 (313)
|||++++|+||+|+||||||||||||++||+++++|+||+++|+|||||+|||+++||||||||||+||++||
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=23.29 E-value=2e+02 Score=29.40 Aligned_cols=54 Identities=13% Similarity=0.081 Sum_probs=40.0
Q ss_pred EccchHHHHHHHHHhhcccceEEEeeeEeeccCCCCccccchhceeeecccCCCCcccc
Q 021402 195 DIGSSMVAKAIVHLAFGYITTLTVDLAFLLESQTESELPEQILGAFRFSELNPASACLV 253 (313)
Q Consensus 195 DI~sS~vAr~il~l~~g~~k~LvvD~gFvIEG~~eeELPE~lLG~vRl~~lD~~~A~~~ 253 (313)
|.-.+.-+|.+++-..-....-.||+|..|+-.. .. +-||+|+..+.+.....+
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 3333677788777666666778899999999872 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=21.20 E-value=18 Score=26.78 Aligned_cols=27 Identities=30% Similarity=0.475 Sum_probs=21.6
Q ss_pred eEEEeeeEeeccCCCCccccchhceee
Q 021402 215 TLTVDLAFLLESQTESELPEQILGAFR 241 (313)
Q Consensus 215 ~LvvD~gFvIEG~~eeELPE~lLG~vR 241 (313)
.+..|.+|.+.|.+++||-+++---.|
T Consensus 8 d~g~~C~~~~~a~tedEll~~~~~Ha~ 34 (57)
T PF06348_consen 8 DVGPDCGFVIRAETEDELLEAVVEHAR 34 (57)
T ss_pred ccCCCCCeEEeeCCHHHHHHHHHHHHH
Confidence 356789999999999999988764433
No 5
>COG5639 Uncharacterized conserved small protein [Function unknown]
Probab=20.86 E-value=37 Score=27.04 Aligned_cols=22 Identities=32% Similarity=0.578 Sum_probs=18.2
Q ss_pred hhHHHHhhCChhhhccceeEEe
Q 021402 133 SLVDRFLKGDDAFRLSRLKLIA 154 (313)
Q Consensus 133 ~Ll~rFl~GDD~fRN~RfKLIp 154 (313)
-.|++|+.||-.|+..|=|..|
T Consensus 52 ~MLe~Fla~DR~F~kark~~~p 73 (77)
T COG5639 52 HMLEAFLAGDRGFAKARKKAAP 73 (77)
T ss_pred HHHHHHHhccHHHHHHHHhcCC
Confidence 4689999999999988876544
No 6
>COG1521 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]
Probab=19.28 E-value=2.4e+02 Score=27.04 Aligned_cols=101 Identities=17% Similarity=0.157 Sum_probs=61.0
Q ss_pred CceEEEEeeeCCCCC-----CchhHHHHhhCChhhhccceeEEeeeccch------hHHHhhhCCCCceeeecceeeeEE
Q 021402 116 NYSAIAYFVATKPIP-----EGSLVDRFLKGDDAFRLSRLKLIANIVQGP------WIVKKAVGEQAICVIGRALSCNYC 184 (313)
Q Consensus 116 ~~slV~Yf~~~e~~p-----~~~Ll~rFl~GDD~fRN~RfKLIp~Vv~Gp------wiVr~avG~kp~~lLGr~l~~~Y~ 184 (313)
+-.++.+|++..... -...++.++.++ .+|.=+..+|..|+ .+ -++++....+|.++.+++....+.
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 456788898864321 134555566666 67766788999999 33 246666666665666776554444
Q ss_pred -ecCCEEEEEEEccchHHHHHHHHHhhcccceEEEeeeE
Q 021402 185 -VGENFLEVDMDIGSSMVAKAIVHLAFGYITTLTVDLAF 222 (313)
Q Consensus 185 -~g~nYlEiDVDI~sS~vAr~il~l~~g~~k~LvvD~gF 222 (313)
.-++|-|+.+|---..+|.. ..-|.. -+|||+|=
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 34789998777643333322 112222 68888873
No 7
>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=18.75 E-value=73 Score=27.52 Aligned_cols=23 Identities=30% Similarity=0.704 Sum_probs=14.5
Q ss_pred hhHHHHhhC---ChhhhccceeEEee
Q 021402 133 SLVDRFLKG---DDAFRLSRLKLIAN 155 (313)
Q Consensus 133 ~Ll~rFl~G---DD~fRN~RfKLIp~ 155 (313)
=+|+|+++| +-+|-+.++|+||.
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 67999999999996
No 8
>COG1303 Uncharacterized protein conserved in archaea [Function unknown]
Probab=17.89 E-value=68 Score=29.28 Aligned_cols=23 Identities=26% Similarity=0.687 Sum_probs=19.8
Q ss_pred hhHHHHhhC---ChhhhccceeEEee
Q 021402 133 SLVDRFLKG---DDAFRLSRLKLIAN 155 (313)
Q Consensus 133 ~Ll~rFl~G---DD~fRN~RfKLIp~ 155 (313)
-+|+|+++| +-+|.+.++|+||.
T Consensus 141 vFLDRl~~G~~l~~~f~~aki~viP~ 166 (179)
T COG1303 141 VFLDRLFEGKELEKEFEDAKIKVIPS 166 (179)
T ss_pred HHHHHHhCCceeeeecCCceEEEeeH
Confidence 378888888 67999999999995
No 9
>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=17.71 E-value=69 Score=28.36 Aligned_cols=34 Identities=24% Similarity=0.495 Sum_probs=24.9
Q ss_pred CEEEEEEEccchHHHHHHHHHhhcccceEEEeeeEeec
Q 021402 188 NFLEVDMDIGSSMVAKAIVHLAFGYITTLTVDLAFLLE 225 (313)
Q Consensus 188 nYlEiDVDI~sS~vAr~il~l~~g~~k~LvvD~gFvIE 225 (313)
-=+||.+||+...-.+..+.=+.||+.. |||.-.
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 3489999999977777777777777766 565443
No 10
>PF03622 IBV_3B: IBV 3B protein ; InterPro: IPR005295 These proteins are the product of ORF 3B from Infectious bronchitis virus). Currently, the function of this protein remains unknown [].
Probab=17.53 E-value=1.2e+02 Score=23.28 Aligned_cols=18 Identities=22% Similarity=0.495 Sum_probs=15.3
Q ss_pred cceeeeEEecCCEEEEEE
Q 021402 177 RALSCNYCVGENFLEVDM 194 (313)
Q Consensus 177 r~l~~~Y~~g~nYlEiDV 194 (313)
.+..+-||+|.+|.|++=
T Consensus 35 DPFE~cyyrgGsfwEieS 52 (64)
T PF03622_consen 35 DPFEVCYYRGGSFWEIES 52 (64)
T ss_pred CCeeEEEEecCcEEEeec
Confidence 456889999999999973
Done!