Query 045008
Match_columns 182
No_of_seqs 129 out of 547
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 08:56:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045008.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045008hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03018 Dirigent: Dirigent-li 100.0 4.5E-54 9.7E-59 339.1 19.5 144 36-182 1-144 (144)
2 PF06351 Allene_ox_cyc: Allene 97.4 0.0028 6.1E-08 51.0 10.9 119 35-165 5-127 (176)
3 PLN02343 allene oxide cyclase 96.7 0.041 8.8E-07 46.0 11.7 90 69-165 85-178 (229)
4 PF11528 DUF3224: Protein of u 79.7 27 0.00058 27.3 9.4 87 89-180 40-131 (134)
5 PF07172 GRP: Glycine rich pro 68.8 3.9 8.6E-05 30.2 2.1 13 1-13 1-13 (95)
6 PF08239 SH3_3: Bacterial SH3 23.4 65 0.0014 20.0 1.8 17 80-96 4-20 (55)
7 PF06347 SH3_4: Bacterial SH3 19.8 70 0.0015 20.2 1.4 17 80-96 6-22 (55)
8 COG2372 CopC Uncharacterized p 15.3 4.4E+02 0.0095 20.5 5.1 42 20-62 29-70 (127)
9 PLN03161 Probable xyloglucan e 14.7 1.2E+02 0.0026 26.8 2.0 18 1-18 1-18 (291)
10 PF06597 Clostridium_P47: Clos 14.7 4.3E+02 0.0094 24.7 5.8 53 123-181 33-92 (456)
No 1
>PF03018 Dirigent: Dirigent-like protein; InterPro: IPR004265 This family contains a number of proteins which are induced during disease response in plants.
Probab=100.00 E-value=4.5e-54 Score=339.05 Aligned_cols=144 Identities=51% Similarity=0.870 Sum_probs=135.9
Q ss_pred CceEEEEEeeeccCCCCcceEEEeecCCCCCCCCCceeEEEEeeccccCCCCCCCceEeEEEEEEEecCCCceEEEEEEE
Q 045008 36 TTTNLQFYFHDTLSGQNPSAVRIAQATDTDKSPTLFGVLMMADDPLTETPDPKSKLVGRAQGLYGSASQDQLGLIMSMSF 115 (182)
Q Consensus 36 k~t~l~fY~Hd~~~gpn~t~~~v~~~~~~~~s~~~FG~~~v~d~~lt~gp~~~S~~vGraqG~~~~~~~~~~~~~~~~~~ 115 (182)
|++||+|||||+++|||+|+++|+.++.++. .+||+++|+|||||+||+++||+||||||+|+.+++++.+|++++++
T Consensus 1 ~~t~l~fY~H~~~~g~n~t~~~v~~~~~~~~--~~FG~~~V~D~~lt~gp~~~S~~VGraqG~~~~~s~~~~~~~~~~~~ 78 (144)
T PF03018_consen 1 KETHLHFYMHDIVSGPNPTAVVVAEPPGPSS--SGFGTVVVFDDPLTEGPDPDSKLVGRAQGFYVSASLDGSSWFMSFTL 78 (144)
T ss_pred CceEEEEEeeecCCCCCCCEEEeccCCCCCC--CCCcEEEEEeeceEcCCCCCCccceEEEEEEEeecccCccEEEEEEE
Confidence 7899999999999999999999998775433 38999999999999999999999999999999999999999999999
Q ss_pred EEecccccCceEEEecCcCCCCCceeeeeecccceeeeeeEEEEEEEEEeeCCCCCeEEEEEEEEEC
Q 045008 116 VFVDGSYNGSSISLLGNNRAMNPVREMPIVGGTGAFRLARGYAIAQTHWMDLKSGDAIVGYNVTVIH 182 (182)
Q Consensus 116 vF~~g~~~GStl~v~G~~~~~~~~~E~~VVGGTG~Fr~ArG~a~~~t~~~d~~~~~~i~e~~V~v~h 182 (182)
+|++++||||||+++|+++..+++||||||||||+|||||||++++++ .+..++++|+|||||++|
T Consensus 79 vF~~g~~~GStl~v~G~~~~~~~~~e~~VVGGTG~Fr~ArG~~~~~~~-~~~~~~~~v~e~~v~~~h 144 (144)
T PF03018_consen 79 VFEDGEYNGSTLSVMGRDPFFEPVRELAVVGGTGEFRMARGYAKLRTV-FDSSGGNAVLELNVHLFH 144 (144)
T ss_pred EEEecccCCCeEEEeCCCcccCcccEEeEecCCCeEcceEEEEEEEEE-eecCCCCEEEEEEEEEEC
Confidence 999999999999999999999999999999999999999999999999 445578999999999998
No 2
>PF06351 Allene_ox_cyc: Allene oxide cyclase; InterPro: IPR009410 This family consists of several plant specific allene oxide cyclase proteins (5.3.99.6 from EC). The allene oxide cyclase (AOC)-catalysed step in jasmonate (JA) biosynthesis is important in the wound response of tomato [].; GO: 0016853 isomerase activity, 0009507 chloroplast; PDB: 2GIN_A 2DIO_B 2BRJ_B 2Q4I_B 1Z8K_A 1ZVC_A.
Probab=97.41 E-value=0.0028 Score=50.99 Aligned_cols=119 Identities=23% Similarity=0.276 Sum_probs=73.2
Q ss_pred CCceEEEEEeeeccCCCCcceEEEeecCCCCCCCCCceeEEEEeeccccCCCCCCCceEeEEEEEEEecC----CCceEE
Q 045008 35 ETTTNLQFYFHDTLSGQNPSAVRIAQATDTDKSPTLFGVLMMADDPLTETPDPKSKLVGRAQGLYGSASQ----DQLGLI 110 (182)
Q Consensus 35 ~k~t~l~fY~Hd~~~gpn~t~~~v~~~~~~~~s~~~FG~~~v~d~~lt~gp~~~S~~vGraqG~~~~~~~----~~~~~~ 110 (182)
.|...|+.|=-+.+.--.|.-.++- ..+....|..+=|.|+|++|.. -+.+|--+|+-+.-.. .+-.+=
T Consensus 5 ~kvqel~vyeiNErdR~SPa~L~ls-----~k~~nslGDlvpFsNklY~g~l--~~rlGitaG~Cvliq~~p~k~GdryE 77 (176)
T PF06351_consen 5 TKVQELSVYEINERDRGSPAYLRLS-----QKSVNSLGDLVPFSNKLYDGDL--QKRLGITAGICVLIQHVPEKKGDRYE 77 (176)
T ss_dssp ---EEEEEEEE--S-S--S--B--S-----SSSSS-TT-EEEEEEEEEETTS--S-EEEEEEEEEEEEEEECCCTEEEEE
T ss_pred cceEEEEEEEEcccccCCCcEEEcc-----cccchhcccccccccccccchh--hhhhcccceEEEEEEeccccCCceEE
Confidence 5666777774333321122223332 1233558999999999999975 6789999999765432 233444
Q ss_pred EEEEEEEecccccCceEEEecCcCCCCCceeeeeecccceeeeeeEEEEEEEEEe
Q 045008 111 MSMSFVFVDGSYNGSSISLLGNNRAMNPVREMPIVGGTGAFRLARGYAIAQTHWM 165 (182)
Q Consensus 111 ~~~~~vF~~g~~~GStl~v~G~~~~~~~~~E~~VVGGTG~Fr~ArG~a~~~t~~~ 165 (182)
-.+++.|.+ | | .|+|+|..-..+ ..-++|.||||-|+.|+|-++++.+-+
T Consensus 78 aiySfyfGd--y-G-hISvqGpy~t~e-DtyLAVTGGtGiF~g~~GqVkL~qivf 127 (176)
T PF06351_consen 78 AIYSFYFGD--Y-G-HISVQGPYLTYE-DTYLAVTGGTGIFEGVYGQVKLHQIVF 127 (176)
T ss_dssp EEEEEE-GG--G-E-EEEEEEEEETTS--EEEEEEEEEETTTT-EEEEEEEEEET
T ss_pred EEEEEEecc--c-c-eEEEeccccccc-ceeEEEeccCceeecceEEEEEEEeec
Confidence 566777744 3 4 699999986654 468999999999999999999887754
No 3
>PLN02343 allene oxide cyclase
Probab=96.70 E-value=0.041 Score=46.02 Aligned_cols=90 Identities=26% Similarity=0.280 Sum_probs=70.3
Q ss_pred CCceeEEEEeeccccCCCCCCCceEeEEEEEEEecC----CCceEEEEEEEEEecccccCceEEEecCcCCCCCceeeee
Q 045008 69 TLFGVLMMADDPLTETPDPKSKLVGRAQGLYGSASQ----DQLGLIMSMSFVFVDGSYNGSSISLLGNNRAMNPVREMPI 144 (182)
Q Consensus 69 ~~FG~~~v~d~~lt~gp~~~S~~vGraqG~~~~~~~----~~~~~~~~~~~vF~~g~~~GStl~v~G~~~~~~~~~E~~V 144 (182)
...|+++=|.|.|++|- --|.+|--.|+-+.-.. .+..+=-.+++.|.| | | .|+|||..-.-++ .-++|
T Consensus 85 ~sLGDlVPFsNKlY~g~--L~kRlGiTaG~Cvliq~~pek~gDryEa~ySfyfGD--y-G-HisvqGpyltyeD-t~Lai 157 (229)
T PLN02343 85 NALGDLVPFTNKLYTGD--LKKRLGITAGLCVLIQHVPEKKGDRYEAIYSFYFGD--Y-G-HISVQGPYLTYED-TYLAI 157 (229)
T ss_pred ccccceeccccccccch--hhhhhcccceeEEEEEeccccCCceeEEEEEEEecC--c-c-eeEEecccccccc-ceEEe
Confidence 45899999999999986 35678988998665432 244566777888854 3 4 5999999866544 58999
Q ss_pred ecccceeeeeeEEEEEEEEEe
Q 045008 145 VGGTGAFRLARGYAIAQTHWM 165 (182)
Q Consensus 145 VGGTG~Fr~ArG~a~~~t~~~ 165 (182)
.||+|-|+.|+|-+++..+.+
T Consensus 158 TGGsGiFega~GqvkL~qivf 178 (229)
T PLN02343 158 TGGSGIFEGAYGQVKLHQIVF 178 (229)
T ss_pred ecCcceeecceeEEEEeeeee
Confidence 999999999999999887654
No 4
>PF11528 DUF3224: Protein of unknown function (DUF3224); InterPro: IPR021607 This bacterial family of proteins has no known function. ; PDB: 2OOJ_B 2Q03_B.
Probab=79.73 E-value=27 Score=27.26 Aligned_cols=87 Identities=20% Similarity=0.201 Sum_probs=50.2
Q ss_pred CCceEeEEEEEEEecC-CCceEEEEEEEEE-ecccccCc-eEEEecCcCCCCCceeeeee--cccceeeeeeEEEEEEEE
Q 045008 89 SKLVGRAQGLYGSASQ-DQLGLIMSMSFVF-VDGSYNGS-SISLLGNNRAMNPVREMPIV--GGTGAFRLARGYAIAQTH 163 (182)
Q Consensus 89 S~~vGraqG~~~~~~~-~~~~~~~~~~~vF-~~g~~~GS-tl~v~G~~~~~~~~~E~~VV--GGTG~Fr~ArG~a~~~t~ 163 (182)
-.+.|++++-++.+-. ++.+.+..+.-+= .-+..+|| .|+-.|.........+|-|| -|||++...+|-..++..
T Consensus 40 G~l~Gts~~~~L~~y~~~g~a~yva~E~~~Gtl~Gr~GsFvl~h~G~~~~g~~~~~~~VVPgSGTGeL~Gl~Gsg~~~~~ 119 (134)
T PF11528_consen 40 GDLEGTSTGEYLMAYDPDGSAGYVAFERFTGTLDGRSGSFVLQHSGTFDAGTASSSFTVVPGSGTGELAGLSGSGTITID 119 (134)
T ss_dssp TTEEEEEEEEEEEEEECTTEEEEEEEEEEEEEETTEEEEEEEEEEEEEETTEEEEEEEE-TT--EETTTTEEEEEEEEEE
T ss_pred eEEEEEEEEEEEEEEcCCCcEEEEEEEEEEEEECCceEEEEEEEEEEEcCCcceEEEEEeCCCCchhhcCCEEEEEEEEC
Confidence 4477888888887744 4444555443221 11123565 34444444333344689999 999999999999886553
Q ss_pred EeeCCCCCeEEEEEEEE
Q 045008 164 WMDLKSGDAIVGYNVTV 180 (182)
Q Consensus 164 ~~d~~~~~~i~e~~V~v 180 (182)
. +...++|+..+
T Consensus 120 ~-----g~h~y~f~y~l 131 (134)
T PF11528_consen 120 E-----GQHAYDFEYTL 131 (134)
T ss_dssp T-----TCEEEEEEEEE
T ss_pred C-----CCceeeEEEEC
Confidence 2 34566777654
No 5
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=68.77 E-value=3.9 Score=30.15 Aligned_cols=13 Identities=23% Similarity=0.266 Sum_probs=8.8
Q ss_pred CcchhHHHHHHHH
Q 045008 1 MAKLSTVVSLLII 13 (182)
Q Consensus 1 Ma~~~~~~~~~~~ 13 (182)
|||...+|+.++|
T Consensus 1 MaSK~~llL~l~L 13 (95)
T PF07172_consen 1 MASKAFLLLGLLL 13 (95)
T ss_pred CchhHHHHHHHHH
Confidence 9988876665543
No 6
>PF08239 SH3_3: Bacterial SH3 domain; InterPro: IPR013247 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. A homologue of the SH3 domain has been found in a number of different bacterial proteins including glycyl-glycine endopeptidase, bacteriocin and some hypothetical proteins.; PDB: 3PVQ_B 3NPF_B 3H41_A 2KQ8_A 2KRS_A 2KYB_A 2KT8_A.
Probab=23.36 E-value=65 Score=20.05 Aligned_cols=17 Identities=18% Similarity=0.432 Sum_probs=14.1
Q ss_pred ccccCCCCCCCceEeEE
Q 045008 80 PLTETPDPKSKLVGRAQ 96 (182)
Q Consensus 80 ~lt~gp~~~S~~vGraq 96 (182)
.|+.+|+.+|+.++.++
T Consensus 4 nvR~~p~~~s~~i~~l~ 20 (55)
T PF08239_consen 4 NVRSGPSTNSPVIGQLP 20 (55)
T ss_dssp EEESSSSTTSTEEEEEE
T ss_pred EEEeCCCCCChhhEEEe
Confidence 37889999999998864
No 7
>PF06347 SH3_4: Bacterial SH3 domain; InterPro: IPR010466 SH3 (src Homology-3) domains are small protein modules containing approximately 50 amino acid residues [, ]. They are found in a great variety of intracellular or membrane-associated proteins [, , ] for example, in a variety of proteins with enzymatic activity, in adaptor proteins that lack catalytic sequences and in cytoskeletal proteins, such as fodrin and yeast actin binding protein ABP-1. The SH3 domain has a characteristic fold which consists of five or six beta-strands arranged as two tightly packed anti-parallel beta sheets. The linker regions may contain short helices []. The surface of the SH3-domain bears a flat, hydrophobic ligand-binding pocket which consists of three shallow grooves defined by conservative aromatic residues in which the ligand adopts an extended left-handed helical arrangement. The ligand binds with low affinity but this may be enhanced by multiple interactions. The region bound by the SH3 domain is in all cases proline-rich and contains PXXP as a core-conserved binding motif. The function of the SH3 domain is not well understood but they may mediate many diverse processes such as increasing local concentration of proteins, altering their subcellular location and mediating the assembly of large multiprotein complexes []. This family consists of several hypothetical bacterial proteins of unknown function, but that contain an SH-3 region.
Probab=19.83 E-value=70 Score=20.23 Aligned_cols=17 Identities=29% Similarity=0.468 Sum_probs=14.3
Q ss_pred ccccCCCCCCCceEeEE
Q 045008 80 PLTETPDPKSKLVGRAQ 96 (182)
Q Consensus 80 ~lt~gp~~~S~~vGraq 96 (182)
+|+.+|+.+|+++.+++
T Consensus 6 ~lr~~P~~~~~vv~~l~ 22 (55)
T PF06347_consen 6 NLRSGPSSNSPVVARLE 22 (55)
T ss_pred EEEcCCCCCCCEEEEEC
Confidence 58899999999987764
No 8
>COG2372 CopC Uncharacterized protein, homolog of Cu resistance protein CopC [General function prediction only]
Probab=15.32 E-value=4.4e+02 Score=20.55 Aligned_cols=42 Identities=7% Similarity=0.114 Sum_probs=27.5
Q ss_pred cccccchhhhhcccCCCceEEEEEeeeccCCCCcceEEEeecC
Q 045008 20 ALQAETWATRLESAKETTTNLQFYFHDTLSGQNPSAVRIAQAT 62 (182)
Q Consensus 20 ~~~~~~~p~~~~~~~~k~t~l~fY~Hd~~~gpn~t~~~v~~~~ 62 (182)
.|..+..|..-.-..+-.-++++++-|.+. ++-+.+++.++.
T Consensus 29 a~l~~s~Pad~s~v~aaP~~i~L~Fse~ve-~~fs~~~l~~~d 70 (127)
T COG2372 29 AYLVSSNPADNSVVTAAPAAITLEFSEGVE-PGFSGAKLTGPD 70 (127)
T ss_pred eeeecCCCCCcchhhcCceeEEEecCCccC-CCcceeEEECCC
Confidence 566666775433345666788899988876 444667776653
No 9
>PLN03161 Probable xyloglucan endotransglucosylase/hydrolase protein; Provisional
Probab=14.74 E-value=1.2e+02 Score=26.84 Aligned_cols=18 Identities=39% Similarity=0.423 Sum_probs=13.6
Q ss_pred CcchhHHHHHHHHHHhhc
Q 045008 1 MAKLSTVVSLLIISLVAP 18 (182)
Q Consensus 1 Ma~~~~~~~~~~~~~~~~ 18 (182)
||++..+++.+|+++++.
T Consensus 1 ~~~~~~~~~~~~~~~~~~ 18 (291)
T PLN03161 1 MASLKTLLVALFAALAAF 18 (291)
T ss_pred ChhHHHHHHHHHHHHHhc
Confidence 999998777777666554
No 10
>PF06597 Clostridium_P47: Clostridium P-47 protein; InterPro: IPR010567 This family consists of several P-47 proteins from various Clostridium species [] as well as related sequences from other bacteria. The function of this family is unknown.
Probab=14.66 E-value=4.3e+02 Score=24.65 Aligned_cols=53 Identities=23% Similarity=0.258 Sum_probs=35.4
Q ss_pred cCceEEEecCcCCCCCceeeeee-cccceeee-----eeEEEE-EEEEEeeCCCCCeEEEEEEEEE
Q 045008 123 NGSSISLLGNNRAMNPVREMPIV-GGTGAFRL-----ARGYAI-AQTHWMDLKSGDAIVGYNVTVI 181 (182)
Q Consensus 123 ~GStl~v~G~~~~~~~~~E~~VV-GGTG~Fr~-----ArG~a~-~~t~~~d~~~~~~i~e~~V~v~ 181 (182)
.|+..++.|.. .+|.|+ ||.|++-. ..|+.. .+....+..+...++|+++..+
T Consensus 33 ~~~~~~i~G~F------~~WqI~~GGdG~~irl~~PI~~g~~~~~~~~~~~~~g~~~~ieV~L~~~ 92 (456)
T PF06597_consen 33 DGSGYSISGNF------GSWQITTGGDGQNIRLKIPIKSGTFDNFKGTTYDVSGVNPIIEVKLDYF 92 (456)
T ss_pred cCCceEEEEEe------cceEEeeCCCCceEEEEEEEeeeEEEeccCcEEEecCCcEEEEEEEeec
Confidence 45567777775 468877 99998754 346655 4444556667788888887654
Done!