Query 046562
Match_columns 180
No_of_seqs 131 out of 548
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 13:22:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/046562.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/046562hhsearch_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 3.2E-54 7E-59 338.3 19.7 144 33-179 1-144 (144)
2 PF06351 Allene_ox_cyc: Allene 97.8 0.0014 3E-08 52.4 14.4 120 31-162 4-127 (176)
3 PLN02343 allene oxide cyclase 96.9 0.025 5.4E-07 47.0 12.1 90 66-162 85-178 (229)
4 PF11528 DUF3224: Protein of u 73.2 41 0.0009 26.1 9.5 86 86-179 40-133 (134)
5 PF07172 GRP: Glycine rich pro 71.5 2.5 5.5E-05 31.0 1.6 9 7-15 1-9 (95)
6 PF05984 Cytomega_UL20A: Cytom 49.2 19 0.0004 26.3 2.7 23 7-29 1-23 (100)
7 PF10731 Anophelin: Thrombin i 38.6 30 0.00066 23.6 2.2 17 7-23 1-17 (65)
8 PF08139 LPAM_1: Prokaryotic m 36.0 20 0.00043 20.1 0.9 21 4-24 3-23 (25)
9 PF08239 SH3_3: Bacterial SH3 25.8 63 0.0014 20.0 2.1 17 77-93 4-20 (55)
10 PF06347 SH3_4: Bacterial SH3 25.6 58 0.0013 20.5 1.9 17 77-93 6-22 (55)
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=3.2e-54 Score=338.32 Aligned_cols=144 Identities=48% Similarity=0.840 Sum_probs=136.1
Q ss_pred CeeEEEEEeeeeCCCCCCceEEeccCCCCCCccCCceeEEEEeeeeeeCCCCCCcceeeEEEEEEEecCCCceEEEEEEE
Q 046562 33 KETNLVLYVHDYFTGRDTSAITVAGKDGPTSHILRFGTIAVVDDAVTEGPTIDSKQIGRAQGIYVNSQLDGKALYMAFSL 112 (180)
Q Consensus 33 ~~~~l~fY~Hd~~~g~n~t~~~v~~~~~~~~~~~~FG~~~v~Dd~lt~gp~~~S~~VGraqG~~~~~s~~~~~~~~~~~~ 112 (180)
|++||+|||||+++|||+|+++|+.++.++. .+||+++|+||||||||+++||+||||||+|+.+++++.+|++++++
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 7899999999999999999999999876532 38999999999999999999999999999999999999999999999
Q ss_pred EEecCcccCcEEEEecccccccceeeeEEeeccceeeeeEEEEEEEEEEeccCCCCeEEEEEEEEEe
Q 046562 113 IFTDGEFKGSTLEIQGSDIFAMKQREFGVVSGTGHFRFVKGYGIMETQFLDVANLNGIIKLNVTVKH 179 (180)
Q Consensus 113 vF~~g~~~GStl~v~G~~~~~~~~~E~aVVGGTG~Fr~ArGya~~~t~~~~~~~~~~i~e~~v~v~h 179 (180)
+|++++||||||+++|+++..+++||||||||||+|||||||++++++ .+..+.++|+|||||++|
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 999999999999999999988999999999999999999999999999 345568999999999998
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=97.83 E-value=0.0014 Score=52.36 Aligned_cols=120 Identities=21% Similarity=0.351 Sum_probs=72.6
Q ss_pred CCCeeEEEEEeeeeCCCCCCceEEeccCCCCCCccCCceeEEEEeeeeeeCCCCCCcceeeEEEEEEEecC----CCceE
Q 046562 31 EAKETNLVLYVHDYFTGRDTSAITVAGKDGPTSHILRFGTIAVVDDAVTEGPTIDSKQIGRAQGIYVNSQL----DGKAL 106 (180)
Q Consensus 31 ~~~~~~l~fY~Hd~~~g~n~t~~~v~~~~~~~~~~~~FG~~~v~Dd~lt~gp~~~S~~VGraqG~~~~~s~----~~~~~ 106 (180)
..|...|++|=-+...--.|.-.++-+ ......|+.+-|.|+|++|.- -+.+|--+|+-+.-.. .+..+
T Consensus 4 p~kvqel~vyeiNErdR~SPa~L~ls~-----k~~nslGDlvpFsNklY~g~l--~~rlGitaG~Cvliq~~p~k~Gdry 76 (176)
T PF06351_consen 4 PTKVQELSVYEINERDRGSPAYLRLSQ-----KSVNSLGDLVPFSNKLYDGDL--QKRLGITAGICVLIQHVPEKKGDRY 76 (176)
T ss_dssp ----EEEEEEEE--S-S--S--B--SS-----SSSS-TT-EEEEEEEEEETTS--S-EEEEEEEEEEEEEEECCCTEEEE
T ss_pred ccceEEEEEEEEcccccCCCcEEEccc-----ccchhcccccccccccccchh--hhhhcccceEEEEEEeccccCCceE
Confidence 345566766744333211122233322 133568999999999999966 6889999999775432 23233
Q ss_pred EEEEEEEEecCcccCcEEEEecccccccceeeeEEeeccceeeeeEEEEEEEEEEe
Q 046562 107 YMAFSLIFTDGEFKGSTLEIQGSDIFAMKQREFGVVSGTGHFRFVKGYGIMETQFL 162 (180)
Q Consensus 107 ~~~~~~vF~~g~~~GStl~v~G~~~~~~~~~E~aVVGGTG~Fr~ArGya~~~t~~~ 162 (180)
=-.+++.| |+| | .|+++|..... +..-++|.||||-|+.|+|-+++..+-+
T Consensus 77 EaiySfyf--Gdy-G-hISvqGpy~t~-eDtyLAVTGGtGiF~g~~GqVkL~qivf 127 (176)
T PF06351_consen 77 EAIYSFYF--GDY-G-HISVQGPYLTY-EDTYLAVTGGTGIFEGVYGQVKLHQIVF 127 (176)
T ss_dssp EEEEEEE---GGG-E-EEEEEEEEETT-S-EEEEEEEEEETTTT-EEEEEEEEEET
T ss_pred EEEEEEEe--ccc-c-eEEEecccccc-cceeEEEeccCceeecceEEEEEEEeec
Confidence 34456667 444 4 79999998653 4568899999999999999999988754
No 3
>PLN02343 allene oxide cyclase
Probab=96.93 E-value=0.025 Score=46.95 Aligned_cols=90 Identities=19% Similarity=0.359 Sum_probs=69.4
Q ss_pred CCceeEEEEeeeeeeCCCCCCcceeeEEEEEEEecC----CCceEEEEEEEEEecCcccCcEEEEecccccccceeeeEE
Q 046562 66 LRFGTIAVVDDAVTEGPTIDSKQIGRAQGIYVNSQL----DGKALYMAFSLIFTDGEFKGSTLEIQGSDIFAMKQREFGV 141 (180)
Q Consensus 66 ~~FG~~~v~Dd~lt~gp~~~S~~VGraqG~~~~~s~----~~~~~~~~~~~vF~~g~~~GStl~v~G~~~~~~~~~E~aV 141 (180)
...|+.+-|.+.|++|.- -|.+|--.|+-+.-.. .+..+=-.+++.|- +| | .|+|||....- +..-++|
T Consensus 85 ~sLGDlVPFsNKlY~g~L--~kRlGiTaG~Cvliq~~pek~gDryEa~ySfyfG--Dy-G-HisvqGpylty-eDt~Lai 157 (229)
T PLN02343 85 NALGDLVPFTNKLYTGDL--KKRLGITAGLCVLIQHVPEKKGDRYEAIYSFYFG--DY-G-HISVQGPYLTY-EDTYLAI 157 (229)
T ss_pred ccccceeccccccccchh--hhhhcccceeEEEEEeccccCCceeEEEEEEEec--Cc-c-eeEEecccccc-ccceEEe
Confidence 568999999999999843 5779999998765443 23345556677884 44 4 69999998653 3458999
Q ss_pred eeccceeeeeEEEEEEEEEEe
Q 046562 142 VSGTGHFRFVKGYGIMETQFL 162 (180)
Q Consensus 142 VGGTG~Fr~ArGya~~~t~~~ 162 (180)
.||+|-|..|+|-+++..+-+
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=73.17 E-value=41 Score=26.07 Aligned_cols=86 Identities=28% Similarity=0.336 Sum_probs=51.3
Q ss_pred CcceeeEEEEEEEecC-CCceEEEEEE---EEEecCcccCcEEEEecc--cccccceeeeEEe--eccceeeeeEEEEEE
Q 046562 86 SKQIGRAQGIYVNSQL-DGKALYMAFS---LIFTDGEFKGSTLEIQGS--DIFAMKQREFGVV--SGTGHFRFVKGYGIM 157 (180)
Q Consensus 86 S~~VGraqG~~~~~s~-~~~~~~~~~~---~vF~~g~~~GStl~v~G~--~~~~~~~~E~aVV--GGTG~Fr~ArGya~~ 157 (180)
-.+.|++++-|+.+-. ++...++.+. -.+ +| -+| |+.++-. ........+|-|| -|||++...+|-..+
T Consensus 40 G~l~Gts~~~~L~~y~~~g~a~yva~E~~~Gtl-~G-r~G-sFvl~h~G~~~~g~~~~~~~VVPgSGTGeL~Gl~Gsg~~ 116 (134)
T PF11528_consen 40 GDLEGTSTGEYLMAYDPDGSAGYVAFERFTGTL-DG-RSG-SFVLQHSGTFDAGTASSSFTVVPGSGTGELAGLSGSGTI 116 (134)
T ss_dssp TTEEEEEEEEEEEEEECTTEEEEEEEEEEEEEE-TT-EEE-EEEEEEEEEEETTEEEEEEEE-TT--EETTTTEEEEEEE
T ss_pred eEEEEEEEEEEEEEEcCCCcEEEEEEEEEEEEE-CC-ceE-EEEEEEEEEEcCCcceEEEEEeCCCCchhhcCCEEEEEE
Confidence 3577888888876644 3444555543 222 22 355 3544433 3322335689999 999999999999988
Q ss_pred EEEEeccCCCCeEEEEEEEEEe
Q 046562 158 ETQFLDVANLNGIIKLNVTVKH 179 (180)
Q Consensus 158 ~t~~~~~~~~~~i~e~~v~v~h 179 (180)
+... +...++|+..+-+
T Consensus 117 ~~~~-----g~h~y~f~y~l~d 133 (134)
T PF11528_consen 117 TIDE-----GQHAYDFEYTLPD 133 (134)
T ss_dssp EEET-----TCEEEEEEEEEEE
T ss_pred EECC-----CCceeeEEEECCC
Confidence 7643 3457788877643
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=71.55 E-value=2.5 Score=30.99 Aligned_cols=9 Identities=22% Similarity=0.471 Sum_probs=5.2
Q ss_pred CchhhHHHH
Q 046562 7 PTSNFFFFI 15 (180)
Q Consensus 7 m~~~~~~~~ 15 (180)
|+|+.+++|
T Consensus 1 MaSK~~llL 9 (95)
T PF07172_consen 1 MASKAFLLL 9 (95)
T ss_pred CchhHHHHH
Confidence 666665444
No 6
>PF05984 Cytomega_UL20A: Cytomegalovirus UL20A protein; InterPro: IPR009245 This family consists of several Cytomegalovirus UL20A proteins. UL20A is thought to be a glycoprotein [].
Probab=49.18 E-value=19 Score=26.27 Aligned_cols=23 Identities=17% Similarity=0.293 Sum_probs=16.0
Q ss_pred CchhhHHHHHHHHHHHHhccCCC
Q 046562 7 PTSNFFFFIFAAALLFIAYTFPR 29 (180)
Q Consensus 7 m~~~~~~~~~~~~~~~~~~~~~~ 29 (180)
|+..+.++-+|...+++++++++
T Consensus 1 MaRRlwiLslLAVtLtVALAAPs 23 (100)
T PF05984_consen 1 MARRLWILSLLAVTLTVALAAPS 23 (100)
T ss_pred CchhhHHHHHHHHHHHHHhhccc
Confidence 67777766677777777777543
No 7
>PF10731 Anophelin: Thrombin inhibitor from mosquito; InterPro: IPR018932 Members of this family are all inhibitors of thrombin, the peptidase that is at the end of the blood coagulation cascade and which creates the clot by cleaving fibrinogen. The interaction between thrombin and fibrinogen involves two different areas of contact - via the thrombin active site and via a second substrate-binding site known as an exosite. The inhibitor acts by blocking the exosite, rather than by interacting with the active site. The inhibitors are from mosquitoes that feed on human blood and which, by inhibiting thrombin, prevent the blood from clotting and keep it flowing.
Probab=38.63 E-value=30 Score=23.55 Aligned_cols=17 Identities=12% Similarity=0.159 Sum_probs=11.3
Q ss_pred CchhhHHHHHHHHHHHH
Q 046562 7 PTSNFFFFIFAAALLFI 23 (180)
Q Consensus 7 m~~~~~~~~~~~~~~~~ 23 (180)
||++++.+.||++.+.+
T Consensus 1 MA~Kl~vialLC~aLva 17 (65)
T PF10731_consen 1 MASKLIVIALLCVALVA 17 (65)
T ss_pred CcchhhHHHHHHHHHHH
Confidence 78888877666555544
No 8
>PF08139 LPAM_1: Prokaryotic membrane lipoprotein lipid attachment site; InterPro: IPR012640 In prokaryotes, membrane lipoproteins are synthesized with a precursor signal peptide, which is cleaved by a specific lipoprotein signal peptidase (signal peptidase II). The peptidase recognises a conserved sequence and cuts upstream of a cysteine residue to which a glyceride-fatty acid lipid is attached [,]. This lipid attachment site is found in homologues of the VirB proteins of type IV secretion systems (T4SS). Conjugal transfer across the cell envelope of Gram-negative bacteria is mediated by a supramolecular structure termed mating pair formation (Mpf) complex. Collectively, secretion pathways ancestrally related to bacterial conjugation systems are now known as T4SS. T4SS are involved in the delivery of effector molecules to eukaryotic target cells; each of these systems exports distinct DNA or protein substrates to effect a myriad of changes in host cell physiology during infection [].
Probab=35.99 E-value=20 Score=20.13 Aligned_cols=21 Identities=24% Similarity=0.238 Sum_probs=13.5
Q ss_pred CCCCchhhHHHHHHHHHHHHh
Q 046562 4 PLSPTSNFFFFIFAAALLFIA 24 (180)
Q Consensus 4 ~~~m~~~~~~~~~~~~~~~~~ 24 (180)
+.+|-+++++.+++++.++.+
T Consensus 3 ~~~mmKkil~~l~a~~~LagC 23 (25)
T PF08139_consen 3 SLSMMKKILFPLLALFMLAGC 23 (25)
T ss_pred hHHHHHHHHHHHHHHHHHhhc
Confidence 456778888776666555544
No 9
>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=25.76 E-value=63 Score=20.00 Aligned_cols=17 Identities=35% Similarity=0.612 Sum_probs=14.3
Q ss_pred eeeeCCCCCCcceeeEE
Q 046562 77 AVTEGPTIDSKQIGRAQ 93 (180)
Q Consensus 77 ~lt~gp~~~S~~VGraq 93 (180)
.|+.+|+.+|+.++.++
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 47899999999998863
No 10
>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=25.59 E-value=58 Score=20.51 Aligned_cols=17 Identities=24% Similarity=0.520 Sum_probs=14.7
Q ss_pred eeeeCCCCCCcceeeEE
Q 046562 77 AVTEGPTIDSKQIGRAQ 93 (180)
Q Consensus 77 ~lt~gp~~~S~~VGraq 93 (180)
+|+.+|+.+|+++.++.
T Consensus 6 ~lr~~P~~~~~vv~~l~ 22 (55)
T PF06347_consen 6 NLRSGPSSNSPVVARLE 22 (55)
T ss_pred EEEcCCCCCCCEEEEEC
Confidence 68999999999998864
Done!