Query 041058
Match_columns 203
No_of_seqs 139 out of 683
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 03:23:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041058.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041058hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd09218 TLP-PA allergenic/anti 100.0 2.8E-81 6.1E-86 532.9 15.2 197 5-202 1-219 (219)
2 smart00205 THN Thaumatin famil 100.0 7.8E-80 1.7E-84 523.9 15.8 197 6-203 1-218 (218)
3 cd09219 TLP-F thaumatin-like p 100.0 9.7E-80 2.1E-84 525.4 14.7 195 6-203 1-229 (229)
4 PF00314 Thaumatin: Thaumatin 100.0 2.3E-76 4.9E-81 501.9 7.0 193 10-203 1-213 (213)
5 cd09215 Thaumatin-like the swe 100.0 2.3E-60 5E-65 386.7 13.5 147 6-202 1-157 (157)
6 cd09217 TLP-P thaumatin and al 100.0 3.4E-55 7.5E-60 354.6 13.4 147 6-203 1-151 (151)
7 cd08961 GH64-TLP-SF glycoside 100.0 9E-50 1.9E-54 323.5 13.1 142 6-201 1-153 (153)
8 PF04681 Bys1: Blastomyces yea 98.1 9.4E-05 2E-09 60.5 12.1 45 77-122 72-119 (155)
9 cd09214 GH64-like glycosyl hyd 76.4 2.6 5.7E-05 38.3 3.3 31 81-113 125-155 (319)
10 cd00407 Urease_beta Urease bet 75.3 9 0.0002 29.3 5.4 45 3-47 21-93 (101)
11 cd09214 GH64-like glycosyl hyd 73.7 2.4 5.3E-05 38.5 2.3 38 163-200 275-317 (319)
12 TIGR00192 urease_beta urease, 73.2 11 0.00024 28.9 5.4 45 3-47 21-93 (101)
13 cd09216 GH64-LPHase-like glyco 71.8 2.9 6.2E-05 38.6 2.3 31 81-113 113-143 (353)
14 PRK13202 ureB urease subunit b 70.5 14 0.0003 28.5 5.4 45 3-47 22-94 (104)
15 PRK13203 ureB urease subunit b 70.1 14 0.00031 28.3 5.4 45 3-47 21-93 (102)
16 cd09220 GH64-GluB-like glycosi 67.9 3.9 8.5E-05 38.0 2.3 31 80-112 115-145 (369)
17 cd09220 GH64-GluB-like glycosi 66.0 6.8 0.00015 36.4 3.5 23 163-185 320-344 (369)
18 cd09216 GH64-LPHase-like glyco 65.4 6.7 0.00014 36.3 3.3 22 164-185 310-333 (353)
19 PF00699 Urease_beta: Urease b 64.6 14 0.00031 28.2 4.5 44 3-46 20-91 (100)
20 PRK13201 ureB urease subunit b 64.6 20 0.00042 28.9 5.4 45 3-47 21-93 (136)
21 PRK13204 ureB urease subunit b 61.7 23 0.00049 29.2 5.4 45 3-47 44-116 (159)
22 PRK13198 ureB urease subunit b 57.8 29 0.00062 28.6 5.3 45 3-47 49-121 (158)
23 PRK13205 ureB urease subunit b 57.6 30 0.00064 28.5 5.4 46 3-48 21-94 (162)
24 PRK13986 urease subunit alpha; 52.6 35 0.00076 29.7 5.3 45 3-47 126-198 (225)
25 cd05468 pVHL von Hippel-Landau 43.2 57 0.0012 25.9 5.0 45 3-48 8-57 (141)
26 PF01847 VHL: von Hippel-Linda 39.9 67 0.0015 26.4 4.9 42 3-45 14-60 (156)
27 PF00947 Pico_P2A: Picornaviru 39.8 11 0.00025 29.9 0.4 18 56-73 83-100 (127)
28 PF06282 DUF1036: Protein of u 38.4 38 0.00082 26.1 3.1 34 3-36 3-44 (115)
29 PF14874 PapD-like: Flagellar- 31.7 1.5E+02 0.0032 21.2 5.3 36 3-38 23-69 (102)
30 PF05991 NYN_YacP: YacP-like N 31.5 15 0.00034 29.8 -0.0 10 99-108 2-11 (166)
31 PF11142 DUF2917: Protein of u 31.1 47 0.001 22.9 2.3 21 26-46 2-29 (63)
32 COG0832 UreB Urea amidohydrola 29.9 1.5E+02 0.0032 22.9 5.0 47 3-49 21-95 (106)
33 PF10633 NPCBM_assoc: NPCBM-as 26.0 1.3E+02 0.0027 20.8 3.9 35 4-38 9-56 (78)
34 TIGR03096 nitroso_cyanin nitro 22.3 2.5E+02 0.0054 22.5 5.3 46 4-52 71-120 (135)
35 PF08460 SH3_5: Bacterial SH3 21.1 1.2E+02 0.0025 21.1 2.8 47 3-49 6-54 (65)
36 PLN02303 urease 20.0 2E+02 0.0044 29.8 5.3 47 3-49 151-225 (837)
No 1
>cd09218 TLP-PA allergenic/antifungal thaumatin-like proteins: plant and animal homologs. This subfamily is represented by the thaumatin-like proteins (TLPs), Cherry Allergen Pru Av 2 TLP, Peach PpAZ44 TLP (a propylene-induced TLP in abscission), the Caenorhabditis elegans thaumatin family member (thn-6), and other plant and animal homologs. TLPs are involved in host defense and a wide range of developmental processes in fungi, plants, and animals. Due to their inducible expression by environmental stresses such as pathogen/pest attack, drought and cold, plant TLPs are classified as the pathogenesis-related (PR) protein family 5 (PR5). Several members of the plant TLP family have been reported as food allergens from fruits (i.e., cherry, Pru av 2; bell pepper, Cap a1; tomatoes, Lyc e NP24) and pollen allergens from conifers (i.e., mountain cedar, Jun a 3; Arizona cypress, Cup a3; Japanese cedar, Cry j3). TLPs are three-domain, crescent-fold structures with either an electronegative, ele
Probab=100.00 E-value=2.8e-81 Score=532.91 Aligned_cols=197 Identities=40% Similarity=0.943 Sum_probs=186.8
Q ss_pred EEEEEeCCCCceeeeeeC--------CCCeeecCCCeeEEEe--ecceeeeeeecccCCCCCCcCCccCCCCCccccCCC
Q 041058 5 AFEIQNNCIYTVWAAANP--------GGGKELHQHQSWHINL--TDAGSIWARTNCNFNANGTGNCESGDCDGVLNCASN 74 (203)
Q Consensus 5 ~~ti~N~C~~tVwp~~~p--------~~g~~L~~g~s~~~~v--~wsGriW~RtgCs~~~~g~~~C~TGdCgg~l~C~~~ 74 (203)
+|||+|||+||||||+++ .+||+|+||++++|.| .|+|||||||+|+||+.|+++|+||||+|+|+|++.
T Consensus 1 tfti~N~C~~tVWp~~~~~~g~~~l~~gGf~L~~g~s~~~~vp~~WsGriWaRTgC~~~~~g~~~C~TGDCgg~l~C~g~ 80 (219)
T cd09218 1 TFTIYNKCPFTVWPGILGNAGHPQLGGGGFELAPGQSRTIDAPSGWSGRFWGRTGCSFDSSGKGSCATGDCGGGLECNGA 80 (219)
T ss_pred CEEEEECCCCCccceecCCCCCCCCCCCCEEcCCCCeEEEeCCCCcceeeeeccCCCCCCCCccccccCCCCCeeecCCC
Confidence 599999999999999975 3799999999999999 899999999999999999999999999999999974
Q ss_pred -CCCCcceEEEEeccCCCcccccccccccccCceeeeecC--CCccCCccCccccccCCCCCCCCCC------CccCccc
Q 041058 75 -ASPPVTLAEYSLNVSSNFDLFSISLMKGFNIPMELKGTS--SMCTQVIKCAGDINGLCPNELRHPG------GCNNPCT 145 (203)
Q Consensus 75 -g~~p~TlaEftl~~~~~~d~YdVSlVdG~NlP~~i~p~~--g~C~~~~~C~~dl~~~CP~~L~~~~------gC~SaC~ 145 (203)
|.||+|||||+|++.+++|||||||||||||||+|+|++ +.| +.++|.+|||+.||+||++++ ||+|||+
T Consensus 81 ~g~pP~TlaEftl~~~~~~d~YdvSlVdGfNlP~~i~P~~~~~~C-~~~~C~~din~~CP~~L~v~~~~g~vv~C~SaC~ 159 (219)
T cd09218 81 GGAPPATLAEFTLGGSGGQDFYDVSLVDGYNLPVSITPQGGSGGC-RTAGCVADLNAVCPAELQVKNSGGRVVACKSACL 159 (219)
T ss_pred CCCCCceeEEEEeccCCCCcceeeeeeccccCCEEEEecCCCCCC-CCCcccCcccccCCHHHeeccCCCcEeeecCHHH
Confidence 579999999999987789999999999999999999976 369 999999999999999999862 8999999
Q ss_pred ccCCCCccccCC---CCCCCCchhHHHHHhcCcccccCCCCCCCCceecCCCCceEEEec
Q 041058 146 LFKNDQFCCNVD---RRSCGATAYSKIFKNLCPNVYTYPMDDPASTLACPTGTGYKVVFC 202 (203)
Q Consensus 146 ~~~~~~~CC~g~---p~~C~pt~ys~~fk~~CP~AYsya~DD~tstftC~~~~~y~vtFC 202 (203)
+|++|||||+|+ |++|+|+.||++||++||+||+|||||++|+|+|+++++|+|+||
T Consensus 160 ~f~~~~~CC~g~~~~p~~C~pt~ys~~FK~~CP~Aysya~Dd~~s~~tC~~~~~Y~I~FC 219 (219)
T cd09218 160 AFNTDEYCCRGAYGTPETCKPTTYSRLFKNACPQAYSYAYDDPTSTFTCSSGANYVITFC 219 (219)
T ss_pred hhCCccceecCCCCCCCcCCCcchhHHHHhhCccccccCCCCCCcceEcCCCCCEEEEeC
Confidence 999999999997 899999999999999999999999999999999998899999998
No 2
>smart00205 THN Thaumatin family. The thaumatin family gathers proteins related to plant pathogenesis. The thaumatin family includes very basic members with extracellular and vacuolar localization. Thaumatin itsel is a potent sweet-tasting protein. Several members of this family display significant in vitro activity of inhibiting hyphal growth or spore germination of various fungi probably by a membrane permeabilizing mechanism.
Probab=100.00 E-value=7.8e-80 Score=523.93 Aligned_cols=197 Identities=51% Similarity=1.075 Sum_probs=185.9
Q ss_pred EEEEeCCCCceeeeeeCC-------CCeeecCCCeeEEEe--ec-ceeeeeeecccCCCCCCcCCccCCCCCccccCCC-
Q 041058 6 FEIQNNCIYTVWAAANPG-------GGKELHQHQSWHINL--TD-AGSIWARTNCNFNANGTGNCESGDCDGVLNCASN- 74 (203)
Q Consensus 6 ~ti~N~C~~tVwp~~~p~-------~g~~L~~g~s~~~~v--~w-sGriW~RtgCs~~~~g~~~C~TGdCgg~l~C~~~- 74 (203)
|||+|||+||||||++|. +||+|+||++++|.+ .| +|||||||||+||++|+++|+||||+|+|+|++.
T Consensus 1 fti~N~C~~tVWp~~~~~g~~~l~~gGf~L~~g~s~~~~~p~~w~sGriW~RtgC~~d~~G~~~C~TGdCgG~l~C~g~g 80 (218)
T smart00205 1 FEFVNNCPYTVWAAALPSGKPQLSGGGFELNSGASWQLDAPPGTKMGRIWARTGCNFDASGRGRCATGDCGGVLQCNGWG 80 (218)
T ss_pred CEEEcCCCCceeceecCCCCcccCCCcEecCCCCeEEEECCCCCccceEecccCCCcCCCCccccccCCCCCeeecCCCC
Confidence 799999999999999763 799999999999999 45 5999999999999999999999999999999984
Q ss_pred CCCCcceEEEEeccCCCcccccccccccccCceeeeecC--CCccCCccCccccccCCCCCCCCC-----CCccCccccc
Q 041058 75 ASPPVTLAEYSLNVSSNFDLFSISLMKGFNIPMELKGTS--SMCTQVIKCAGDINGLCPNELRHP-----GGCNNPCTLF 147 (203)
Q Consensus 75 g~~p~TlaEftl~~~~~~d~YdVSlVdG~NlP~~i~p~~--g~C~~~~~C~~dl~~~CP~~L~~~-----~gC~SaC~~~ 147 (203)
++||+|||||+|++.+++|||||||||||||||+|.|++ +.| +.++|.+|||+.||+||+++ .||+|||++|
T Consensus 81 g~pP~TlaEftl~~~~~~d~YdvSlVdGfNlP~~i~P~~~~~~C-~~~~C~~d~~~~CP~~L~v~~~g~vv~C~SaC~~f 159 (218)
T smart00205 81 GRPPATLAEFALNQFGGLDFYDVSLVDGFNIPMSFTPTGGSGDC-KGAGCTADLNAQCPAELQVPGGGSVVACNSACTVF 159 (218)
T ss_pred CCCCcceeEEEecCCCCcceeeeEeeccccCCEEEEecCCCCCc-CCCcCCCcccccCCHHHccccCCcccccccHhhcc
Confidence 589999999999987789999999999999999999974 459 99999999999999999996 3799999999
Q ss_pred CCCCccccCC---CCCCCCchhHHHHHhcCcccccCCCCCCCCceecCCCCceEEEecC
Q 041058 148 KNDQFCCNVD---RRSCGATAYSKIFKNLCPNVYTYPMDDPASTLACPTGTGYKVVFCP 203 (203)
Q Consensus 148 ~~~~~CC~g~---p~~C~pt~ys~~fk~~CP~AYsya~DD~tstftC~~~~~y~vtFCP 203 (203)
++|||||+|. |++|+|+.||++||++||+||+||+||++|+|+|+++++|+|+|||
T Consensus 160 ~~~~yCC~g~~~~~~~C~pt~ys~~FK~~CP~Aysya~Dd~~st~tC~~~~~y~V~FCp 218 (218)
T smart00205 160 GTDQYCCTGGQNNPETCPPTNYSRIFKNACPDAYSYAYDDPTSTFTCTGGTNYKVTFCP 218 (218)
T ss_pred CCCcceecCCCCCCCCCCCcchhhHHhhhCCccccCccCCCCcceEccCCCCEEEEeCC
Confidence 9999999998 8999999999999999999999999999999999998999999998
No 3
>cd09219 TLP-F thaumatin-like proteins: basidiomycete homologs. This subfamily is represented by Lentinula edodes TLG1, a thaumatin-like protein (TLP), as well as, other basidiomycete homologs. In general, TLPs are involved in host defense and a wide range of developmental processes in fungi, plants, and animals. TLG1 TLP is involved in lentinan degradation and fruiting body senescence. TLG1 expressed in Escherichia coli and Aspergillus oryzae exhibited beta-1,3-glucanase activity and demonstrated lentinan degrading activity. TLG1 is proposed to be involved in lentinan and cell wall degradation during senescence following harvest and spore diffusion. TLPs are three-domain, crescent-fold structures with either an electronegative, electropositive, or neutral cleft occurring between domains I and II. TLG1 from Lentinula edodes contains the required acidic amino acids conserved in the appropriate positions to possess an electronegative cleft. TLPs within this subfamily contain 13 conserve
Probab=100.00 E-value=9.7e-80 Score=525.43 Aligned_cols=195 Identities=35% Similarity=0.760 Sum_probs=181.9
Q ss_pred EEEEeCCCCceeeeeeC-----------CCCeeecCCCeeEEEe--ecc-eeeeeeecccCC-CCCCcCCccCCCCCccc
Q 041058 6 FEIQNNCIYTVWAAANP-----------GGGKELHQHQSWHINL--TDA-GSIWARTNCNFN-ANGTGNCESGDCDGVLN 70 (203)
Q Consensus 6 ~ti~N~C~~tVwp~~~p-----------~~g~~L~~g~s~~~~v--~ws-GriW~RtgCs~~-~~g~~~C~TGdCgg~l~ 70 (203)
|||+|||+||||||+++ .+||+|+||++++|.| .|+ |||||||||+|| ..|+++|+||||||+|+
T Consensus 1 fti~N~C~~TVWPgi~~~~g~~~~~~~~~gGf~L~pg~s~~i~vp~~w~~GRiWgRTgC~~d~~~G~~~C~TGdCgg~l~ 80 (229)
T cd09219 1 FTVKNSCSSTIWPAMFTGGNFIDAVPDQATGWEAAAGGQVEFTVPDNWTAGRIWARTGCDFSDNPGPFSCLTGGCGGGLT 80 (229)
T ss_pred CEEEeCCCCCccceecCCCCCccccccCCCCEecCCCCeEEEECCCCCcccceeccCCCCCCCCCCCCCcccCCCCceee
Confidence 79999999999999864 3799999999999999 576 999999999999 46899999999999999
Q ss_pred cCCCCCCCcceEEEEeccCCCcccccccccccccCceeeeecCCCccCCccCccccccCCCCCCCCC-------CCccCc
Q 041058 71 CASNASPPVTLAEYSLNVSSNFDLFSISLMKGFNIPMELKGTSSMCTQVIKCAGDINGLCPNELRHP-------GGCNNP 143 (203)
Q Consensus 71 C~~~g~~p~TlaEftl~~~~~~d~YdVSlVdG~NlP~~i~p~~g~C~~~~~C~~dl~~~CP~~L~~~-------~gC~Sa 143 (203)
|.+.+.||+|||||+|++. ++|||||||||||||||+|.|.. .| +.++|.+|||+.||+||+++ .|||||
T Consensus 81 C~~~g~pP~TlaEftL~~~-~~D~YdVSlVDGfNlP~~i~P~~-~C-~~~~C~~dln~~CP~~L~v~~~~~g~~vaC~Sa 157 (229)
T cd09219 81 CENSDQPPASLAEFTLIGG-KEDNYDISLVDGFNIPLNITNNI-TC-PQPQCQVDLNVLCPALLRGPLDQKGVNLGCISP 157 (229)
T ss_pred cCCCCCCCcceeeEEecCC-CCceeEEEEecccccceEeccCC-CC-CCCcccCCCcccCCHHHccccCCCCccceecCH
Confidence 9988899999999999976 78999999999999999999954 79 89999999999999999985 279999
Q ss_pred ccc-cCC--CCccccCC---CCCCCC--chhHHHHHhcCcccccCCCCCCC--CceecCC--CCceEEEecC
Q 041058 144 CTL-FKN--DQFCCNVD---RRSCGA--TAYSKIFKNLCPNVYTYPMDDPA--STLACPT--GTGYKVVFCP 203 (203)
Q Consensus 144 C~~-~~~--~~~CC~g~---p~~C~p--t~ys~~fk~~CP~AYsya~DD~t--stftC~~--~~~y~vtFCP 203 (203)
|++ |++ |||||+|+ |++|+| +.||++||++||+||||||||++ |+|||++ +++|+|+|||
T Consensus 158 C~a~~~~~~~~yCC~g~~~~p~~C~p~~t~ys~~FK~~CP~AYSYa~Dd~ssts~ftC~~~~~~~Y~ItFCP 229 (229)
T cd09219 158 CNRDKNHDDSPSCCTGSHNKPETCPQSGVGNYAYFKDNCPTAYAYAYDEKSHTALWTCGDSKSADYTVTFCP 229 (229)
T ss_pred hhhhccCCCCcccccCCCCCcCCCCCCcccHhHHHHhhCcccccccccCccccccEEeCCCCCCCEEEEeCC
Confidence 999 655 99999998 999999 88999999999999999999999 6799997 7899999998
No 4
>PF00314 Thaumatin: Thaumatin family; InterPro: IPR001938 Thaumatin [] is an intensely sweet-tasting protein, 100 000 times sweeter than sucrose on a molar basis [] found in berries from Thaumatococcus daniellii, a tropical flowering plant known as Katemfe, it is induced by attack by viroids, which are single-stranded unencapsulated RNA molecules that do not code for protein. Thaumatin consists of about 200 residues and contains 8 disulphide bonds. Like other PR proteins, thaumatin is predicted to have a mainly beta structure, with a high content of beta-turns and little helix []. Several stress-induced proteins of plants have been found to be related to thaumatins: A maize alpha-amylase/trypsin inhibitor Two tobacco pathogenesis-related proteins: PR-R major and minor forms,which are induced after infection with viruses Salt-induced protein NP24 from tomato Osmotin, a salt-induced protein from tobacco[] Osmotin-like proteins OSML13, OSML15 and OSML81 from potato [] P21, a leaf protein from soybean PWIR2, a leaf protein from wheat [] Zeamatin, a maize antifunal protein [] This protein is also referred to as pathogenesis-related group 5 (PR5), as many thaumatin-like proteins accumulate in plants in response to infection by a pathogen and possess antifungal activity []. The proteins are involved in systematically acquired resistance and stress response in plants, although their precise role is unknown [].; PDB: 3G7M_A 2I0W_A 1AUN_A 1Z3Q_A 1KWN_A 2OQN_A 1THW_A 1LY0_A 2D8O_A 1LR3_A ....
Probab=100.00 E-value=2.3e-76 Score=501.86 Aligned_cols=193 Identities=46% Similarity=1.024 Sum_probs=161.3
Q ss_pred eCCCCceeeeeeCC--------CCeeecCCCeeEEEe--ecceeeeeeecccCCCCCCcCCccCCCCCccccCC-CCCCC
Q 041058 10 NNCIYTVWAAANPG--------GGKELHQHQSWHINL--TDAGSIWARTNCNFNANGTGNCESGDCDGVLNCAS-NASPP 78 (203)
Q Consensus 10 N~C~~tVwp~~~p~--------~g~~L~~g~s~~~~v--~wsGriW~RtgCs~~~~g~~~C~TGdCgg~l~C~~-~g~~p 78 (203)
|||+||||||+++. +||+|+||++++|.+ .|+|||||||||++++.|.++|+||||+|+++|.+ .+++|
T Consensus 1 N~C~~tvWp~~~~~~~~~~~~~~g~~l~~g~s~~~~~p~~WsGriW~RTgC~~~~~g~~~C~TGdCgg~~~C~~~~~~~P 80 (213)
T PF00314_consen 1 NNCPFTVWPAILPNAGSPPLSTGGFRLDPGQSWSLTVPAGWSGRIWARTGCSFDGGGRGSCATGDCGGRLECNGAGGSPP 80 (213)
T ss_dssp E-SSS-EEEEEETTTSSSEEEEEEEEE-TTEEEEEE--TTESEEEEEEEEEEEETTSBEEEEES-STTBSSSSS----SS
T ss_pred CcCCCCeeeeecCCCCCCcCCCCCEEcCCCCeEEEecCccccceeeecCCCcCCCCCCcccccCCCCcccccccccCccc
Confidence 99999999999873 689999999999999 88999999999999999999999999999999998 46899
Q ss_pred cceEEEEeccCCCcccccccccccccCceeeeec-CCCccCCccCccccccCCCCCCCCC-----CCccCcccccCCCCc
Q 041058 79 VTLAEYSLNVSSNFDLFSISLMKGFNIPMELKGT-SSMCTQVIKCAGDINGLCPNELRHP-----GGCNNPCTLFKNDQF 152 (203)
Q Consensus 79 ~TlaEftl~~~~~~d~YdVSlVdG~NlP~~i~p~-~g~C~~~~~C~~dl~~~CP~~L~~~-----~gC~SaC~~~~~~~~ 152 (203)
+|||||+|++.+++|||||||||||||||+|+|+ +..| +..+|.+||+..||.||+++ .+|+|+|.+|++++|
T Consensus 81 ~TlaEftl~~~~~~d~YDVSlVdGfNlP~~i~p~~~~~C-~~~~C~~di~~~CP~~l~v~~~~~vv~C~SaC~~~~~~~~ 159 (213)
T PF00314_consen 81 ATLAEFTLNGSNGQDFYDVSLVDGFNLPMSISPSGGSNC-RSPGCPADINSWCPSELQVKNSDGVVGCKSACDAFNTDEY 159 (213)
T ss_dssp --EEEEEEEETTTEEEEEEESTT-BSS-EEEEESSSSSS-SSEEE-S-HHHHE-CCCEEETTSSTTEE--HHHHH-SHHH
T ss_pred ceeEEEEeccCCCcceEEEEeeeeecCChhhccCCCCcc-ccccCccccccccchhheeeccCceeeecccceeccCCcc
Confidence 9999999987788999999999999999999999 4689 99999999999999999984 379999999999999
Q ss_pred cccCC---CCCCCCchhHHHHHhcCcccccCCCCCCCCceecCCCCceEEEecC
Q 041058 153 CCNVD---RRSCGATAYSKIFKNLCPNVYTYPMDDPASTLACPTGTGYKVVFCP 203 (203)
Q Consensus 153 CC~g~---p~~C~pt~ys~~fk~~CP~AYsya~DD~tstftC~~~~~y~vtFCP 203 (203)
||+|+ |++|+++.|+++||++||+||+|||||++|+|+|+++++|+|+|||
T Consensus 160 CC~g~~~~~~~C~~~~ys~~fK~~CP~AYsya~DD~~s~ftC~~~~~y~ItFCP 213 (213)
T PF00314_consen 160 CCRGAYNTPDTCPPTNYSQFFKKACPDAYSYAYDDQTSTFTCPAGTNYTITFCP 213 (213)
T ss_dssp HTTCCS-TTSCS---HHHHHHHHH-TTSBSSTTSHTTT-EEEETT-EEEEEEST
T ss_pred ccccccCCCcccccchhhhhhhhhCcccccccccCCCcceECCCCCCEEEEeCc
Confidence 99997 8999999999999999999999999999999999999999999999
No 5
>cd09215 Thaumatin-like the sweet-tasting protein, thaumatin, and thaumatin-like proteins involved in host defense. This family is represented by the sweet-tasting protein thaumatin from the African berry Thaumatococcus daniellii and thaumatin-like proteins (TLPs) involved in host defense and a wide range of developmental processes in fungi, plants, and animals. Plant TLPs are classified as pathogenesis-related (PR) protein family 5 (PR5), their expression is induced by environmental stresses such as pathogen/pest attack, drought and cold. TLPs included in this family are such proteins as zeamatin, found in high concentrations in cereal seeds; osmotin, a salt-induced protein in osmotically stressed plants; and PpAZ44, a propylene-induced TLP in abscission of young fruit. Several members of the plant TLP family have been reported as food allergens from fruits (i.e., cherry, Pru av 2; bell pepper, Cap a1; tomatoes, Lyc e NP24) and pollen allergens from conifers (i.e., mountain cedar, Jun
Probab=100.00 E-value=2.3e-60 Score=386.67 Aligned_cols=147 Identities=46% Similarity=0.972 Sum_probs=135.4
Q ss_pred EEEEeCCCCceeeeeeC-------CCCeeecCCCeeEEEe--ecceeeeeeecccCCC-CCCcCCccCCCCCccccCCCC
Q 041058 6 FEIQNNCIYTVWAAANP-------GGGKELHQHQSWHINL--TDAGSIWARTNCNFNA-NGTGNCESGDCDGVLNCASNA 75 (203)
Q Consensus 6 ~ti~N~C~~tVwp~~~p-------~~g~~L~~g~s~~~~v--~wsGriW~RtgCs~~~-~g~~~C~TGdCgg~l~C~~~g 75 (203)
|||+|||+||||||+++ .+||+|+||++++|.+ .|+|||||||+|+||+ .|+++|+||||+|+++|++.|
T Consensus 1 ~ti~N~C~~tVWPg~~~~~g~~~~~gGf~L~~g~s~~~~~p~~wsGriWgRTgC~~~~~~g~~~C~TGdCgg~l~C~g~g 80 (157)
T cd09215 1 FTITNRCPYTIWPAIFTQVGKGPYTGGFELNPGETKSFDVSAGWQGRIWARTNCSFNANSGGNACLTGDCNGGLNCQGTG 80 (157)
T ss_pred CEEEcCCCCCeeceecCCCCCCCCCCCEecCCCCeeEEecCCCCeEeeecccccccCCCCCCCCcccCCCCceeecCCCC
Confidence 79999999999999975 4799999999999999 7999999999999998 799999999999999999878
Q ss_pred CCCcceEEEEeccCCCcccccccccccccCceeeeecCCCccCCccCccccccCCCCCCCCCCCccCcccccCCCCcccc
Q 041058 76 SPPVTLAEYSLNVSSNFDLFSISLMKGFNIPMELKGTSSMCTQVIKCAGDINGLCPNELRHPGGCNNPCTLFKNDQFCCN 155 (203)
Q Consensus 76 ~~p~TlaEftl~~~~~~d~YdVSlVdG~NlP~~i~p~~g~C~~~~~C~~dl~~~CP~~L~~~~gC~SaC~~~~~~~~CC~ 155 (203)
.||+|||||+|++.+++|||||||||||||||+|+|+++.| +.++|.+
T Consensus 81 ~pp~TlaEftl~~~~~~d~YdVSlVdG~NlP~~i~P~~~~C-~~~~C~~------------------------------- 128 (157)
T cd09215 81 GPPATLAEFTLSGGGGLDYYDISLVDGYNLPMSITPQPGEC-PTPICAA------------------------------- 128 (157)
T ss_pred CCCcceEEEEecCCCCcceeEEEeeccccCCEEEecCCCCC-CCCcccc-------------------------------
Confidence 89999999999987788999999999999999999976557 5444431
Q ss_pred CCCCCCCCchhHHHHHhcCcccccCCCCCCCCceecCCCCceEEEec
Q 041058 156 VDRRSCGATAYSKIFKNLCPNVYTYPMDDPASTLACPTGTGYKVVFC 202 (203)
Q Consensus 156 g~p~~C~pt~ys~~fk~~CP~AYsya~DD~tstftC~~~~~y~vtFC 202 (203)
||+||||||||++|+|+|+++++|+|+||
T Consensus 129 ------------------Cp~Aysya~Dd~~s~~tC~~~~~y~v~FC 157 (157)
T cd09215 129 ------------------CPDAYSYAYDDQTSTFTCPGGAGYEVVFC 157 (157)
T ss_pred ------------------CccccccCCCCCccceECCCCCCEEEEeC
Confidence 99999999999999999998899999999
No 6
>cd09217 TLP-P thaumatin and allergenic/antifungal thaumatin-like proteins: plant homologs. This subfamily is represented by the sweet-tasting protein thaumatin from the African berry Thaumatococcus daniellii, allergenic/antifungal Thaumatin-like proteins (TLPs), and related plant proteins. TLPs are involved in host defense and a wide range of developmental processes in fungi, plants, and animals. Plant TLPs are classified as pathogenesis-related (PR) protein family 5 (PR5), their expression is induced by environmental stresses such as pathogen/pest attack, drought and cold. TLPs in this subfamily include such proteins as zeamatin, found in high concentrations in cereal seeds, and osmotin, a salt-induced protein in osmotically stressed plants. Several members of the plant TLP family have been reported as food allergens from fruits (i.e., cherry, Pru av 2; bell pepper, Cap a1; tomatoes, Lyc e NP24) and pollen allergens from conifers (i.e., mountain cedar, Jun a 3; Arizona cypress, Cup a3
Probab=100.00 E-value=3.4e-55 Score=354.60 Aligned_cols=147 Identities=54% Similarity=1.184 Sum_probs=134.8
Q ss_pred EEEEeCCCCceeeeeeC-CCCeeecCCCeeEEEe---ecceeeeeeecccCCCCCCcCCccCCCCCccccCCCCCCCcce
Q 041058 6 FEIQNNCIYTVWAAANP-GGGKELHQHQSWHINL---TDAGSIWARTNCNFNANGTGNCESGDCDGVLNCASNASPPVTL 81 (203)
Q Consensus 6 ~ti~N~C~~tVwp~~~p-~~g~~L~~g~s~~~~v---~wsGriW~RtgCs~~~~g~~~C~TGdCgg~l~C~~~g~~p~Tl 81 (203)
|+|+|||+||||||++| .+||+|+||++++|.+ +|+|||||||+|+||++|+++|+||||+|+++|.+.|.||+||
T Consensus 1 ~~~~N~C~~tvWp~~~~~~gG~~L~~g~~~~~~~p~~~w~griW~RTgC~~~~~g~~~C~TGdCgg~l~C~~~g~pp~Tl 80 (151)
T cd09217 1 FTITNNCGYTVWPAATPVGGGRQLNPGQSWTIDVPAGTAGGRIWGRTGCSFDASGRGSCQTGDCGGVLSCTGSGKPPATL 80 (151)
T ss_pred CEEEeCCCCcccceEecCCCCEeCCCCCeEEEEcCCCCceEEEeeecCCCcCCCCCCcccccCCCCeeecCCCCCCCcee
Confidence 79999999999999998 6899999999999999 4999999999999999999999999999999999878999999
Q ss_pred EEEEeccCCCcccccccccccccCceeeeecCCCccCCccCccccccCCCCCCCCCCCccCcccccCCCCccccCCCCCC
Q 041058 82 AEYSLNVSSNFDLFSISLMKGFNIPMELKGTSSMCTQVIKCAGDINGLCPNELRHPGGCNNPCTLFKNDQFCCNVDRRSC 161 (203)
Q Consensus 82 aEftl~~~~~~d~YdVSlVdG~NlP~~i~p~~g~C~~~~~C~~dl~~~CP~~L~~~~gC~SaC~~~~~~~~CC~g~p~~C 161 (203)
+||+|+. +++|||||||||||||||+|+|++..| +.++|..
T Consensus 81 ~E~tl~~-~~~d~YdISlVdG~NlP~~i~P~~~~C-~~~~C~~------------------------------------- 121 (151)
T cd09217 81 AEYTLNQ-SGQDFYDISLVDGFNVPMDFSPTGGGC-HAIPCAA------------------------------------- 121 (151)
T ss_pred EEEEecC-CCCccEEEEeecccccceEEecCCCCC-CCCcCCC-------------------------------------
Confidence 9999986 578999999999999999999976567 5544442
Q ss_pred CCchhHHHHHhcCcccccCCCCCCCCceecCCCCceEEEecC
Q 041058 162 GATAYSKIFKNLCPNVYTYPMDDPASTLACPTGTGYKVVFCP 203 (203)
Q Consensus 162 ~pt~ys~~fk~~CP~AYsya~DD~tstftC~~~~~y~vtFCP 203 (203)
. ||+||+|++|| .++|+|+.+++|+|+|||
T Consensus 122 --d---------C~~ay~~~~D~-~~~~~C~~~~~~~v~fCp 151 (151)
T cd09217 122 --N---------CPDAYSYPKDP-TTTFTCPGGTNYRIVFCP 151 (151)
T ss_pred --C---------CchHhcCCCCC-CceEeCCCCCCEEEEeCC
Confidence 1 99999999984 799999999999999998
No 7
>cd08961 GH64-TLP-SF glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins. This superfamily includes glycoside hydrolases of family 64 (GH64), these are mostly bacterial beta-1,3-glucanases which cleave long-chain polysaccharide beta-1,3-glucans, into specific pentasaccharide oligomers and are implicated in fungal cell wall degradation. Also included in this superfamily are thaumatin, the sweet-tasting protein from the African berry Thaumatococcus daniellii, and thaumatin-like proteins (TLPs) which are involved in host defense and a wide range of developmental processes in fungi, plants, and animals. Like GH64s, some TLPs also hydrolyze the beta-1,3-glucans of the type commonly found in fungal walls. Plant TLPs are classified as pathogenesis-related (PR) protein family 5 (PR5), their expression is induced by environmental stresses such as pathogen/pest attack, drought and cold. Several members of the plant TLP
Probab=100.00 E-value=9e-50 Score=323.55 Aligned_cols=142 Identities=36% Similarity=0.630 Sum_probs=125.4
Q ss_pred EEEEeCCCCceeeeeeCC--------CCeeecCCCeeEEEe--ecceeeeeeecccCCCCCCcCCccCCCCCccccCC-C
Q 041058 6 FEIQNNCIYTVWAAANPG--------GGKELHQHQSWHINL--TDAGSIWARTNCNFNANGTGNCESGDCDGVLNCAS-N 74 (203)
Q Consensus 6 ~ti~N~C~~tVwp~~~p~--------~g~~L~~g~s~~~~v--~wsGriW~RtgCs~~~~g~~~C~TGdCgg~l~C~~-~ 74 (203)
|+|+|||+|||||++++. +||+|+||++++|.+ .|+||||+||+|+++..+++.|+||||++ +.|.+ .
T Consensus 1 ~ti~NnC~~tVWp~i~~~~~~~~~~~gg~~L~pG~s~si~vP~~wsGRIW~RtgC~~~~~g~g~C~TGdcgg-~~c~g~~ 79 (153)
T cd08961 1 LTITNNCGYQVWIYNLGTELSSAPDASGPGLAPGRSTTIQIPKGFSGRIWFRTGCSMDFSGTTGCLTQDPGV-VNPTDPN 79 (153)
T ss_pred CEEEeCCCCcCcceECCCCCCCCccCcccccCCCCcEEEEecCCceEEEEEecCCcccCCCCccccccCCCC-cccCCCC
Confidence 799999999999999762 799999999999999 69999999999999988999999999998 66665 5
Q ss_pred CCCCcceEEEEeccCCCcccccccccccccCceeeeecCCCccCCccCccccccCCCCCCCCCCCccCcccccCCCCccc
Q 041058 75 ASPPVTLAEYSLNVSSNFDLFSISLMKGFNIPMELKGTSSMCTQVIKCAGDINGLCPNELRHPGGCNNPCTLFKNDQFCC 154 (203)
Q Consensus 75 g~~p~TlaEftl~~~~~~d~YdVSlVdG~NlP~~i~p~~g~C~~~~~C~~dl~~~CP~~L~~~~gC~SaC~~~~~~~~CC 154 (203)
+.||+|||||+|++.+++|||||||||||||||+|+|..+.
T Consensus 80 g~pp~TlaEfTl~~~~~~dfydISlVDGfNlP~~i~p~~~~--------------------------------------- 120 (153)
T cd08961 80 RDPPFTLAEFTLNDFNSGDFIDSSLVDGFNAPMTVGPRRGD--------------------------------------- 120 (153)
T ss_pred CCCCcceEEEEecCCCCcceEEEEeecccCCCEEEEeccCC---------------------------------------
Confidence 68999999999997668899999999999999999996421
Q ss_pred cCCCCCCCCchhHHHHHhcCcccccCCCCCCCCceecCCCCceEEEe
Q 041058 155 NVDRRSCGATAYSKIFKNLCPNVYTYPMDDPASTLACPTGTGYKVVF 201 (203)
Q Consensus 155 ~g~p~~C~pt~ys~~fk~~CP~AYsya~DD~tstftC~~~~~y~vtF 201 (203)
..|++.. |||+|||||+.++|+|+++.+|.|+|
T Consensus 121 ----g~C~~~~----------~~~~~~~~~~~~~~~c~~~~~~~~~~ 153 (153)
T cd08961 121 ----GTCLSTG----------DAYSYAFDDHESTFTCGGGRNYSLTF 153 (153)
T ss_pred ----CCccccc----------cccccCCCCccceEEcCCCCceEEeC
Confidence 0122211 99999999999999999999999998
No 8
>PF04681 Bys1: Blastomyces yeast-phase-specific protein; InterPro: IPR006771 The pathogenic dimorphic fungal organism Blastomyces dermatitidis exists as a budding yeast at 37 degrees C and as a mycelium at 25 degrees C. Bys1 is expressed specifically in the high temperature, unicellular yeast morphology and codes for a protein of 18.6 kDa that contains multiple putative phosphorylation sites, a hydrophobic N terminus, and two 34-amino-acid domains with similarly spaced nine-amino-acid degenerative repeating motifs []. The molecular function of this protein is not known.
Probab=98.07 E-value=9.4e-05 Score=60.48 Aligned_cols=45 Identities=20% Similarity=0.285 Sum_probs=35.3
Q ss_pred CCcceEEEEeccCCCcccccccccccccC---ceeeeecCCCccCCccC
Q 041058 77 PPVTLAEYSLNVSSNFDLFSISLMKGFNI---PMELKGTSSMCTQVIKC 122 (203)
Q Consensus 77 ~p~TlaEftl~~~~~~d~YdVSlVdG~Nl---P~~i~p~~g~C~~~~~C 122 (203)
.|.|..||+|...+.+.|||+|-|.|... +|.|.|.+..| +.+.|
T Consensus 72 ~pqt~FaYtL~~d~~~VwYDLSdvfGdPF~G~~v~v~ps~~~C-p~I~W 119 (155)
T PF04681_consen 72 SPQTIFAYTLVDDNNQVWYDLSDVFGDPFAGHKVTVNPSDPSC-PSIVW 119 (155)
T ss_pred CceeEEEEEecCCCceEEEECccccCCCcCCCEEEEecCCCCC-CceEC
Confidence 58999999998766689999999999754 37788877777 54433
No 9
>cd09214 GH64-like glycosyl hydrolase 64 family. This family is represented by the laminaripentaose-producing, beta-1,3-glucanase (LPHase) of Streptomyces matensis and related bacterial and ascomycete proteins. LPHase is a member of glycoside hydrolase family 64 (GH64), it is an inverting enzyme involved in the cleavage of long-chain polysaccharide beta-1,3-glucans, into specific pentasaccharide oligomers. LPHase is a two-domain crescent fold structure: one domain is composed of 10 beta-strands, eight coming from the N-terminus of the protein and two from the C-terminal region, and the protein has a second inserted domain; this cd includes both domains. This protein has an electronegative, substrate-binding cleft, and conserved Glu and Asp residues involved in the cleavage of the beta-1,3-glucan, laminarin, a plant and fungal cell wall component. Among bacteria, many beta-1,3-glucanases are implicated in fungal cell wall degradation. Also included in this family is GluB , the beta-1,3-g
Probab=76.44 E-value=2.6 Score=38.29 Aligned_cols=31 Identities=19% Similarity=0.289 Sum_probs=26.5
Q ss_pred eEEEEeccCCCcccccccccccccCceeeeecC
Q 041058 81 LAEYSLNVSSNFDLFSISLMKGFNIPMELKGTS 113 (203)
Q Consensus 81 laEftl~~~~~~d~YdVSlVdG~NlP~~i~p~~ 113 (203)
-+|||++. ..-|-++|.||-|.+||.|+-.+
T Consensus 125 f~EFT~n~--~~l~~N~T~VD~~~lPl~l~l~~ 155 (319)
T cd09214 125 FIEFTYNA--TGLWGNTTRVDAFGIPLTLRLIG 155 (319)
T ss_pred EEEEEecC--CceEecccceeeeccCeEEEEEc
Confidence 48999983 57889999999999999997654
No 10
>cd00407 Urease_beta Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of external and internally-generated urea as a nitrogen source. The enzyme consists of three subunits, alpha, beta and gamma, which can exist as separate proteins or can be fused on a single protein chain. The alpha-beta-gamma heterotrimer forms multimers, mainly trimers. The large alpha subunit is the catalytic domain containing an active site with a bi-nickel center complexed by a carbamylated lysine. The beta and gamma subunits play a role in subunit association to form the higher order trimers.
Probab=75.27 E-value=9 Score=29.34 Aligned_cols=45 Identities=11% Similarity=0.245 Sum_probs=34.0
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWAR 47 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~R 47 (203)
..+|+|+|.-.-+|++|.. | ++..+.+||+++++.+ .-..+|+|-
T Consensus 21 ~~~l~V~NtGDRpIQVGSH~HF~E~N~aL~FDR~~A~G~RLdIpaGTavRFEPG~~k~V~LV~~~G~r~v~G~ 93 (101)
T cd00407 21 AVTLKVKNTGDRPIQVGSHYHFFEVNPALKFDREKAYGMRLDIPAGTAVRFEPGEEKEVELVPIGGKRRVYGF 93 (101)
T ss_pred EEEEEEEeCCCcceEEccccchhhcCccccccHHHcccceecccCCCeEEECCCCeEEEEEEEccCceEEEcc
Confidence 5789999999999999962 2 3466788999999987 223446543
No 11
>cd09214 GH64-like glycosyl hydrolase 64 family. This family is represented by the laminaripentaose-producing, beta-1,3-glucanase (LPHase) of Streptomyces matensis and related bacterial and ascomycete proteins. LPHase is a member of glycoside hydrolase family 64 (GH64), it is an inverting enzyme involved in the cleavage of long-chain polysaccharide beta-1,3-glucans, into specific pentasaccharide oligomers. LPHase is a two-domain crescent fold structure: one domain is composed of 10 beta-strands, eight coming from the N-terminus of the protein and two from the C-terminal region, and the protein has a second inserted domain; this cd includes both domains. This protein has an electronegative, substrate-binding cleft, and conserved Glu and Asp residues involved in the cleavage of the beta-1,3-glucan, laminarin, a plant and fungal cell wall component. Among bacteria, many beta-1,3-glucanases are implicated in fungal cell wall degradation. Also included in this family is GluB , the beta-1,3-g
Probab=73.69 E-value=2.4 Score=38.52 Aligned_cols=38 Identities=26% Similarity=0.409 Sum_probs=26.6
Q ss_pred CchhHHHHHhcCc--ccccCCCCCC---CCceecCCCCceEEE
Q 041058 163 ATAYSKIFKNLCP--NVYTYPMDDP---ASTLACPTGTGYKVV 200 (203)
Q Consensus 163 pt~ys~~fk~~CP--~AYsya~DD~---tstftC~~~~~y~vt 200 (203)
-+.||+++++.-. .||.|||||- +++..=......+|+
T Consensus 275 tN~Yar~vH~~~idg~aYaF~YDDV~~~s~~v~~~~P~~~~it 317 (319)
T cd09214 275 ANYYAQFWHAHSINGLAYGFPYDDVNGQSSTLSTTDPTHATIT 317 (319)
T ss_pred chHHHHHHHHhccCCCeeecccccccccccccccCCCceEEEE
Confidence 3679999999997 8999999984 334444444445554
No 12
>TIGR00192 urease_beta urease, beta subunit. In a number of species, including B.subtilis, Synechocystis, and Haemophilus influenzae, urease subunits beta and gamma are encoded as separate polypeptides. In Helicobacter pylori UreA and in the fission yeast Schizosaccharomyces pombe, beta subunit-like sequence follows gamma subunit-like sequence in a single chain; the fission yeast protein contains additional C-terminal regions.
Probab=73.21 E-value=11 Score=28.86 Aligned_cols=45 Identities=11% Similarity=0.224 Sum_probs=34.0
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWAR 47 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~R 47 (203)
..+|.|+|.-.-+|++|.. | ++..+.+||+++++.+ .-..+|+|-
T Consensus 21 ~~~l~V~NtGDRPIQVGSHyHF~E~N~aL~FDR~~A~G~RLdIpaGTavRFEPG~~k~V~LV~~gG~r~v~G~ 93 (101)
T TIGR00192 21 TVSVKVKNTGDRPIQVGSHFHFFEVNRALDFDRELAFGMRLDIPSGTAVRFEPGEEKSVELVAIGGNRRIYGF 93 (101)
T ss_pred EEEEEEEeCCCcceEEccccchhhcCcceeecHhhhcCcccccCCCCeEeECCCCeEEEEEEEccCceEEEcc
Confidence 5789999999999999962 2 3456778999999987 223456653
No 13
>cd09216 GH64-LPHase-like glycoside hydrolase family 64: laminaripentaose-producing, beta-1,3-glucanase (LPHase)-like. This subfamily is represented by the laminaripentaose-producing, beta-1,3-glucanase (LPHase) of Streptomyces matensis and related bacterial and ascomycete proteins. LPHase is a member of glycoside hydrolase family 64 (GH64), it is an inverting enzyme involved in the cleavage of long-chain polysaccharide beta-1,3-glucans, into specific pentasaccharide oligomers. LPHase is a two-domain crescent fold structure: one domain is composed of 10 beta-strands, eight coming from the N-terminus of the protein and two from the C-terminal region, and the protein has a second inserted domain; this cd includes both domains. This protein has an electronegative, substrate-binding cleft, and conserved Glu and Asp residues involved in the cleavage of the beta-1,3-glucan, laminarin, a plant and fungal cell wall component. Among bacteria, many beta-1,3-glucanases are implicated in fungal cel
Probab=71.76 E-value=2.9 Score=38.63 Aligned_cols=31 Identities=13% Similarity=0.195 Sum_probs=25.6
Q ss_pred eEEEEeccCCCcccccccccccccCceeeeecC
Q 041058 81 LAEYSLNVSSNFDLFSISLMKGFNIPMELKGTS 113 (203)
Q Consensus 81 laEftl~~~~~~d~YdVSlVdG~NlP~~i~p~~ 113 (203)
-+|||++. ..-|=++|.||-|.+||.|+-.+
T Consensus 113 f~EfT~n~--~gl~~N~T~VD~~~~P~~l~l~~ 143 (353)
T cd09216 113 WVEFTFND--AGLFCNTTQVDMFSAPLAIGLRG 143 (353)
T ss_pred EEEEEecC--CceEecccceeeeccceEEEEec
Confidence 48999984 35689999999999999997553
No 14
>PRK13202 ureB urease subunit beta; Reviewed
Probab=70.48 E-value=14 Score=28.45 Aligned_cols=45 Identities=11% Similarity=0.031 Sum_probs=33.8
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWAR 47 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~R 47 (203)
..+|+|+|.-.-+|++|.. | ++....+||+++++.+ .-..+|+|-
T Consensus 22 ~~~l~V~NtGDRPIQVGSHyHF~E~N~aL~FDR~~A~G~RLdIpaGTavRFEPG~~k~V~LV~~gG~r~v~G~ 94 (104)
T PRK13202 22 RLQMRIINAGDRPVQVGSHVHLPQANRALSFDRATAHGYRLDIPAATAVRFEPGIPQIVGLVPLGGRREVPGL 94 (104)
T ss_pred eEEEEEEeCCCCceEEccccchhhcCcceeecHhHhcCcccccCCCCeEEECCCCeEEEEEEEccCCeEEEcC
Confidence 4789999999999999962 2 3456778999999887 223456553
No 15
>PRK13203 ureB urease subunit beta; Reviewed
Probab=70.13 E-value=14 Score=28.31 Aligned_cols=45 Identities=13% Similarity=0.274 Sum_probs=34.1
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWAR 47 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~R 47 (203)
..++.|+|.-.-+|++|.. | ++..+.+||+++++.+ .-..+|+|-
T Consensus 21 ~~~l~V~NtGDRPIQVGSH~HF~E~N~aL~FDR~~A~G~RLdIpaGTavRFEPG~~k~V~LV~~gG~r~v~G~ 93 (102)
T PRK13203 21 TVTLTVANTGDRPIQVGSHYHFFEVNPALSFDREAARGMRLNIPAGTAVRFEPGQTREVELVPLAGARRVYGF 93 (102)
T ss_pred EEEEEEEeCCCCceEEccccchhhcCcchhccHhhhcCcccccCCCCeEeECCCCeEEEEEEEccCceEEEcc
Confidence 5789999999999999962 2 3456788999999987 223456553
No 16
>cd09220 GH64-GluB-like glycoside hydrolase family 64: beta-1,3-glucanase B (GluB)-like. This subfamily is represented by GluB, beta-1,3-glucanase B , from Lysobacter enzymogenes Strain N4-7 and related bacterial and ascomycete proteins. GluB is a member of the glycoside hydrolase family 64 (GH64) involved in the cleavage of long-chain polysaccharide beta-1,3-glucans, into specific pentasaccharide oligomers. Among bacteria, many beta-1,3-glucanases are implicated in fungal cell wall degradation. GluB possesses the conserved Glu and Asp residues required to cleave substrate beta-1,3-glucans. Recombinant GluB demonstrated higher relative activity toward the branched-chain beta-1,3 glucan substrate zymosan A than toward linear beta-1,3 glucan substrates. Based on the structure of laminaripentaose-producing, beta-1,3-glucanase (LPHase) of Streptomyces matensis, which belongs to the same family as GluB but to a different subfamily, this cd is a two-domain model. Sometimes these two domains a
Probab=67.91 E-value=3.9 Score=37.99 Aligned_cols=31 Identities=23% Similarity=0.270 Sum_probs=25.7
Q ss_pred ceEEEEeccCCCcccccccccccccCceeeeec
Q 041058 80 TLAEYSLNVSSNFDLFSISLMKGFNIPMELKGT 112 (203)
Q Consensus 80 TlaEftl~~~~~~d~YdVSlVdG~NlP~~i~p~ 112 (203)
..+|||++. ..-|=++|.||-|.+||.|+-.
T Consensus 115 ~f~EfT~n~--~~l~~N~S~VD~~~~P~~l~l~ 145 (369)
T cd09220 115 GFCEFTYNS--GQLYANISYVDFVGLPLGLSLT 145 (369)
T ss_pred EEEEEEecC--CceEecccceeeeccCeEEEEE
Confidence 348999984 4568999999999999999754
No 17
>cd09220 GH64-GluB-like glycoside hydrolase family 64: beta-1,3-glucanase B (GluB)-like. This subfamily is represented by GluB, beta-1,3-glucanase B , from Lysobacter enzymogenes Strain N4-7 and related bacterial and ascomycete proteins. GluB is a member of the glycoside hydrolase family 64 (GH64) involved in the cleavage of long-chain polysaccharide beta-1,3-glucans, into specific pentasaccharide oligomers. Among bacteria, many beta-1,3-glucanases are implicated in fungal cell wall degradation. GluB possesses the conserved Glu and Asp residues required to cleave substrate beta-1,3-glucans. Recombinant GluB demonstrated higher relative activity toward the branched-chain beta-1,3 glucan substrate zymosan A than toward linear beta-1,3 glucan substrates. Based on the structure of laminaripentaose-producing, beta-1,3-glucanase (LPHase) of Streptomyces matensis, which belongs to the same family as GluB but to a different subfamily, this cd is a two-domain model. Sometimes these two domains a
Probab=65.98 E-value=6.8 Score=36.40 Aligned_cols=23 Identities=35% Similarity=0.680 Sum_probs=20.5
Q ss_pred CchhHHHHHhcCc--ccccCCCCCC
Q 041058 163 ATAYSKIFKNLCP--NVYTYPMDDP 185 (203)
Q Consensus 163 pt~ys~~fk~~CP--~AYsya~DD~ 185 (203)
-+.||+++++.-+ .+|.|||||-
T Consensus 320 tNhYar~vH~~~~dg~gYaFpYDDV 344 (369)
T cd09220 320 TNHYSRIVHENNPDGRGYAFPYDDV 344 (369)
T ss_pred chHHHHHHHHhccCCCeeccccccc
Confidence 4689999999988 7899999996
No 18
>cd09216 GH64-LPHase-like glycoside hydrolase family 64: laminaripentaose-producing, beta-1,3-glucanase (LPHase)-like. This subfamily is represented by the laminaripentaose-producing, beta-1,3-glucanase (LPHase) of Streptomyces matensis and related bacterial and ascomycete proteins. LPHase is a member of glycoside hydrolase family 64 (GH64), it is an inverting enzyme involved in the cleavage of long-chain polysaccharide beta-1,3-glucans, into specific pentasaccharide oligomers. LPHase is a two-domain crescent fold structure: one domain is composed of 10 beta-strands, eight coming from the N-terminus of the protein and two from the C-terminal region, and the protein has a second inserted domain; this cd includes both domains. This protein has an electronegative, substrate-binding cleft, and conserved Glu and Asp residues involved in the cleavage of the beta-1,3-glucan, laminarin, a plant and fungal cell wall component. Among bacteria, many beta-1,3-glucanases are implicated in fungal cel
Probab=65.38 E-value=6.7 Score=36.26 Aligned_cols=22 Identities=23% Similarity=0.560 Sum_probs=19.5
Q ss_pred chhHHHHHhcCc--ccccCCCCCC
Q 041058 164 TAYSKIFKNLCP--NVYTYPMDDP 185 (203)
Q Consensus 164 t~ys~~fk~~CP--~AYsya~DD~ 185 (203)
+.||+++++.=. .||.|||||-
T Consensus 310 NhYar~vH~~~~dgk~YaF~YDDV 333 (353)
T cd09216 310 NHYAKVVHEAMADGKAYGFAFDDV 333 (353)
T ss_pred hHHHHHHHHhccCCCeeecCcccc
Confidence 679999999887 6899999995
No 19
>PF00699 Urease_beta: Urease beta subunit CAUTION: The Prosite patterns do not match this subunit of the enzyme; InterPro: IPR002019 Urease 3.5.1.5 from EC is a nickel-binding enzyme that catalyzes the hydrolysis of urea to carbon dioxide and ammonia []: Urea + H2O = CO2 + 2 NH3 Historically, it was the first enzyme to be crystallized (in 1926). It is mainly found in plant seeds and microorganisms. In plants, urease is a hexamer of identical chains. In bacteria [], it consists of either two or three different subunits (alpha IPR005847 from INTERPRO, beta, described in this entry, and gamma IPR002026 from INTERPRO). The structure of the urease complex is known []. This subunit does not appear to take part in the catalytic mechanism. This subunit is known (confusingly) as alpha in Helicobacter.; GO: 0009039 urease activity, 0016151 nickel ion binding, 0006807 nitrogen compound metabolic process; PDB: 1EJS_B 1EJW_B 1A5N_B 1A5K_B 1A5M_B 1EJR_B 1EJX_B 1A5L_B 1KRB_B 1FWA_B ....
Probab=64.65 E-value=14 Score=28.18 Aligned_cols=44 Identities=11% Similarity=0.256 Sum_probs=28.0
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWA 46 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~ 46 (203)
..+|+|+|.-.-+|++|.. | ++..+.+||+++++.+ .-..+|+|
T Consensus 20 ~~~l~V~N~GDRPIQVGSH~HF~E~N~aL~FDR~~A~G~RLdIPaGTavRFEPG~~k~V~LV~~gG~r~v~G 91 (100)
T PF00699_consen 20 RITLEVTNTGDRPIQVGSHYHFFEVNPALEFDREAAYGMRLDIPAGTAVRFEPGDTKEVELVPIGGNRRVYG 91 (100)
T ss_dssp EEEEEEEE-SSS-EEEETTS-GGGS-TTEES-HHHHTTEEE-SSTT-EEEE-TT-EEEEEEEE-STT-EE-S
T ss_pred EEEEEEEeCCCcceEEccccCHHHHhHHhhhhHHHhCCcccCcCCCCeEEECCCCcEEEEEEEccCCeEEEc
Confidence 4789999999999999952 2 3456788999999987 22344554
No 20
>PRK13201 ureB urease subunit beta; Reviewed
Probab=64.64 E-value=20 Score=28.88 Aligned_cols=45 Identities=13% Similarity=0.260 Sum_probs=34.2
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWAR 47 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~R 47 (203)
..+|.|+|.-.-+|++|.. | ++..+.+||+++++.+ .-..+|+|-
T Consensus 21 ~~~l~V~NtGDRPIQVGSHyHF~EvN~aL~FDR~~A~G~RLdIPAGTAVRFEPG~~k~V~LV~igG~r~V~Gf 93 (136)
T PRK13201 21 ETVIEVENTGDRPIQVGSHFHFYEANAALDFEREMAYGKHLDIPAGAAVRFEPGDKKEVQLVEYAGKRKIFGF 93 (136)
T ss_pred EEEEEEEeCCCcceEeccccchhhcCccccccHhhhcCcccccCCCCeEeECCCCeEEEEEEEccCceEEEcc
Confidence 5789999999999999962 2 3456778999999987 323456653
No 21
>PRK13204 ureB urease subunit beta; Reviewed
Probab=61.74 E-value=23 Score=29.21 Aligned_cols=45 Identities=9% Similarity=0.152 Sum_probs=34.5
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWAR 47 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~R 47 (203)
..+|+|+|.-.-+|++|.. | ++..+.+||+++++.+ .-..+|+|-
T Consensus 44 ~~~l~V~NtGDRPIQVGSHyHF~EvN~aL~FDR~~A~G~RLdIPAGTAVRFEPG~~k~V~LV~~gG~r~V~Gf 116 (159)
T PRK13204 44 RTTLTVRNTGDRPIQIGSHFHFFEVNRYLEFDRSKAFGLRLDIPANTAVRFEPGDEKEVTLVPFAGKRFIFGF 116 (159)
T ss_pred EEEEEEEeCCCCceEeccccchhhcCccccccHhhhcCcccccCCCCeEeECCCCeeEEEEEEccCceEEEcc
Confidence 5789999999999999962 2 3456788999999887 324557654
No 22
>PRK13198 ureB urease subunit beta; Reviewed
Probab=57.75 E-value=29 Score=28.58 Aligned_cols=45 Identities=4% Similarity=0.088 Sum_probs=34.3
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWAR 47 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~R 47 (203)
..+|.|+|.-.-+|++|.. | ++..+.+||+++++.+ .-..+|+|-
T Consensus 49 ~~~l~V~NtGDRPIQVGSHyHF~EvN~aL~FDR~~A~G~RLdIPAGTAVRFEPG~~k~V~LV~~gG~r~V~Gf 121 (158)
T PRK13198 49 VTKVKVRNTGDRPIQVGSHFHFFEVNRALEFDRAAAYGKRLNISSTTAIRFEPGDETEVPLIPFGGKQTLYGF 121 (158)
T ss_pred EEEEEEEeCCCCceEeccccchhhcCccccccHhhhcCcccccCCCCeEeeCCCCeeEEEEEEccCceEEEcc
Confidence 4789999999999999962 2 3456788999999987 323456654
No 23
>PRK13205 ureB urease subunit beta; Reviewed
Probab=57.57 E-value=30 Score=28.53 Aligned_cols=46 Identities=22% Similarity=0.201 Sum_probs=34.2
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWART 48 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~Rt 48 (203)
..+|+|+|.-.-+|++|.+ | ++..+.+||+++++.+ .-..+|+|-.
T Consensus 21 ~i~L~V~NtGDRPIQVGSHyHF~EvN~AL~FDR~~A~G~RLdIPAGTAVRFEPGe~ktV~LV~igG~R~V~Gfn 94 (162)
T PRK13205 21 AKTIEIINTGDRPVQIGSHFHFAEVNPSISFDRSEGYGFRLDIPSGTAVRLEPGDARTVNLVAIGGDRIVAGFR 94 (162)
T ss_pred EEEEEEEeCCCCceEeccccchhhcCccccccHHHhcCcccccCCCCeEeECCCCeEEEEEEEccCceEEEccC
Confidence 5789999999999999962 2 3456778999999887 2234566543
No 24
>PRK13986 urease subunit alpha; Provisional
Probab=52.59 E-value=35 Score=29.65 Aligned_cols=45 Identities=13% Similarity=0.162 Sum_probs=34.7
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWAR 47 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~R 47 (203)
..+++|+|.-.-+|++|.. | ++..+.+||+++++.+ .-..+|+|-
T Consensus 126 ~~~l~V~NtGDRPIQVGSHyHF~E~N~aL~FDR~~A~G~RLdIpAGTavRFEPG~~k~V~LV~~gG~r~v~G~ 198 (225)
T PRK13986 126 AVSVKVKNVGDRPVQVGSHFHFFEVNRCLEFDREKAFGKRLDIASGTAVRFEPGEEKSVELIDIGGNRRIFGF 198 (225)
T ss_pred EEEEEEEeCCCCceeeccccchhhcCchhhccHHHhcCcccccCCCCeEeECCCCeeEEEEEEccCceEEecC
Confidence 4789999999999999962 2 3567888999999887 334557664
No 25
>cd05468 pVHL von Hippel-Landau (pVHL) tumor suppressor protein. von Hippel-Landau (pVHL) protein, the gene product of VHL, is a critical regulator of the ubiquitous oxygen-sensing pathway. It is conserved throughout evolution, as its homologs are found in organisms ranging from mammals to the Drosophila melanogaster, Anopheles gambiae insects and the Caenorhabditis elegans nematode. pVHL acts as the substrate recognition component of an E3 ubiquitin ligase complex. Several proteins have been identified as pVHL-binding proteins that are subject to ubiquitin-mediated proteolysis; the best characterized putative substrates are the alpha subunits of the hypoxia-inducible factor (HIF1alpha, HIF2alpha, and HIF3alpha). In addition to HIF degradation, pVHL has been implicated to be involved in HIF independent cellular processes. Germline VHL mutations cause renal cell carcinomas, hemangioblastomas and pheochromocytomas in humans. pVHL can bind to and direct the proper deposition of fibronecti
Probab=43.15 E-value=57 Score=25.92 Aligned_cols=45 Identities=18% Similarity=0.077 Sum_probs=33.2
Q ss_pred ceEEEEEeCCCCceeeeeeCCCC-----eeecCCCeeEEEeecceeeeeee
Q 041058 3 AAAFEIQNNCIYTVWAAANPGGG-----KELHQHQSWHINLTDAGSIWART 48 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~p~~g-----~~L~~g~s~~~~v~wsGriW~Rt 48 (203)
...++|+|+.+.+|-+=++-..| ..|+||+...+. +..|..|=-.
T Consensus 8 ~~~v~F~N~t~~~v~~~Wid~~G~~~~Y~~l~pg~~~~~~-Ty~~H~W~~r 57 (141)
T cd05468 8 PSTVRFVNRTDRPVELYWIDYDGKPVSYGTLQPGETVRQN-TYVGHPWLFR 57 (141)
T ss_pred eEEEEEEeCCCCeEEEEEECCCCCEEEeeeeCCCCEEeec-ccCCCcEEEE
Confidence 36899999999999888864222 479999986544 5667778433
No 26
>PF01847 VHL: von Hippel-Lindau disease tumour suppressor protein; InterPro: IPR022772 Von Hippel-Lindau disease tumor suppressor (VHL) has two domains: a roughly 100-residue N-terminal domain rich in beta sheet (beta domain) and a smaller alpha-helical domain (alpha domain), held together by two linkers and a polar interface. A large portion of the alpha domain surface, and a small portion of the beta domain, interact with ElonginC. About half of the tumorigenic mutations map to the alpha domain and its residues that contact ElonginC. The remaining mutations map to the beta domain, and significantly, to a beta domain surface patch uninvolved in ElonginC binding. This suggests that two intact macromolecular binding sites may be required for the tumor suppressor effects of VHL []. This entry represents both beta and alpha domains of VHL.; PDB: 3ZRF_L 3ZRC_C 1LM8_V 1LQB_C 1VCB_F.
Probab=39.90 E-value=67 Score=26.42 Aligned_cols=42 Identities=21% Similarity=0.072 Sum_probs=25.9
Q ss_pred ceEEEEEeCCCCceeeeeeCCCC-----eeecCCCeeEEEeecceeee
Q 041058 3 AAAFEIQNNCIYTVWAAANPGGG-----KELHQHQSWHINLTDAGSIW 45 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~p~~g-----~~L~~g~s~~~~v~wsGriW 45 (203)
...++|.|+++.+|-+-|+--.| ..|+||+.+.++ ++.+..|
T Consensus 14 ~s~V~F~N~s~r~V~v~Wldy~G~~~~Y~~L~Pg~~~~~~-TY~tHpW 60 (156)
T PF01847_consen 14 PSFVRFVNRSPRTVDVYWLDYDGKPVPYGTLKPGQGRRQN-TYVTHPW 60 (156)
T ss_dssp EEEEEEEE-SSS-EEEEEE-TTS-EEE---B-TTEEEEEE-EETT-EE
T ss_pred ceEEEEEECCCCEEEEEEEcCCCcEeeccccCCCCeEEcc-cccCCcE
Confidence 36789999999999777654222 479999987766 4566777
No 27
>PF00947 Pico_P2A: Picornavirus core protein 2A; InterPro: IPR000081 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This domain defines cysteine peptidases belong to MEROPS peptidase family C3 (picornain, clan PA(C)), subfamilies 3CA and 3CB. The protein fold of this peptidase domain for members of this family resembles that of the serine peptidase, chymotrypsin [], the type example for clan PA. Picornaviral proteins are expressed as a single polyprotein which is cleaved by the viral 3C cysteine protease []. The poliovirus polyprotein is selectively cleaved between the Gln-|-Gly bond. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly. ; GO: 0008233 peptidase activity, 0006508 proteolysis, 0016032 viral reproduction; PDB: 2HRV_B 1Z8R_A.
Probab=39.78 E-value=11 Score=29.93 Aligned_cols=18 Identities=50% Similarity=1.193 Sum_probs=14.0
Q ss_pred CCcCCccCCCCCccccCC
Q 041058 56 GTGNCESGDCDGVLNCAS 73 (203)
Q Consensus 56 g~~~C~TGdCgg~l~C~~ 73 (203)
|.+.|+-|||||.|.|.-
T Consensus 83 g~Gp~~PGdCGg~L~C~H 100 (127)
T PF00947_consen 83 GEGPAEPGDCGGILRCKH 100 (127)
T ss_dssp EE-SSSTT-TCSEEEETT
T ss_pred ecccCCCCCCCceeEeCC
Confidence 567899999999999974
No 28
>PF06282 DUF1036: Protein of unknown function (DUF1036); InterPro: IPR009380 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=38.38 E-value=38 Score=26.09 Aligned_cols=34 Identities=15% Similarity=0.085 Sum_probs=27.3
Q ss_pred ceEEEEEeCCCCceeeeee--------CCCCeeecCCCeeEE
Q 041058 3 AAAFEIQNNCIYTVWAAAN--------PGGGKELHQHQSWHI 36 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~--------p~~g~~L~~g~s~~~ 36 (203)
.+-|+|-|+-++.|++++. ..|.+.|+||+-..+
T Consensus 3 ~a~~~vCN~T~~~v~vAigy~~~~~W~seGWw~i~pg~C~~v 44 (115)
T PF06282_consen 3 HAGLRVCNRTSSPVGVAIGYRDGGGWVSEGWWRIDPGECATV 44 (115)
T ss_pred cCCcEEecCCCCeEEEEEEEEcCCCcEEeeeEEeCCCceEEe
Confidence 4678999999999999973 246789999986555
No 29
>PF14874 PapD-like: Flagellar-associated PapD-like
Probab=31.74 E-value=1.5e+02 Score=21.23 Aligned_cols=36 Identities=11% Similarity=0.111 Sum_probs=25.4
Q ss_pred ceEEEEEeCCCCceeeee-eCC----------CCeeecCCCeeEEEe
Q 041058 3 AAAFEIQNNCIYTVWAAA-NPG----------GGKELHQHQSWHINL 38 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~-~p~----------~g~~L~~g~s~~~~v 38 (203)
..+|+|+|....+.-.-+ .|. ..-.|.||++.++.|
T Consensus 23 ~~~v~l~N~s~~p~~f~v~~~~~~~~~~~v~~~~g~l~PG~~~~~~V 69 (102)
T PF14874_consen 23 SRTVTLTNTSSIPARFRVRQPESLSSFFSVEPPSGFLAPGESVELEV 69 (102)
T ss_pred EEEEEEEECCCCCEEEEEEeCCcCCCCEEEECCCCEECCCCEEEEEE
Confidence 478999999887754443 111 133699999999888
No 30
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=31.49 E-value=15 Score=29.85 Aligned_cols=10 Identities=30% Similarity=0.713 Sum_probs=7.9
Q ss_pred ccccccCcee
Q 041058 99 LMKGFNIPME 108 (203)
Q Consensus 99 lVdG~NlP~~ 108 (203)
|||||||=..
T Consensus 2 lIDGYNli~~ 11 (166)
T PF05991_consen 2 LIDGYNLIHA 11 (166)
T ss_pred eEcchhhhCC
Confidence 6899998655
No 31
>PF11142 DUF2917: Protein of unknown function (DUF2917); InterPro: IPR021317 This bacterial family of proteins appears to be restricted to Proteobacteria.
Probab=31.14 E-value=47 Score=22.87 Aligned_cols=21 Identities=19% Similarity=0.515 Sum_probs=13.8
Q ss_pred eeecCCCeeEEEe-------ecceeeee
Q 041058 26 KELHQHQSWHINL-------TDAGSIWA 46 (203)
Q Consensus 26 ~~L~~g~s~~~~v-------~wsGriW~ 46 (203)
|+|.||+..++.+ --+|++|-
T Consensus 2 ~~L~~g~~~~lr~~~~~~l~v~~G~vWl 29 (63)
T PF11142_consen 2 FELAPGETLSLRAAAGQRLRVESGRVWL 29 (63)
T ss_pred EEeCCCceEEeEcCCCcEEEEccccEEE
Confidence 5677777766665 13688883
No 32
>COG0832 UreB Urea amidohydrolase (urease) beta subunit [Amino acid transport and metabolism]
Probab=29.93 E-value=1.5e+02 Score=22.91 Aligned_cols=47 Identities=11% Similarity=0.223 Sum_probs=34.9
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeeeec
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWARTN 49 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~Rtg 49 (203)
.++++|.|-=.-+|.+|.. | ++..+.+||+.+++.+ .-..+|||-.+
T Consensus 21 ~~~i~V~NtGDRPIQVGSHfHF~EvN~aL~FDR~~a~G~RLdIpagTAVRFEPG~~k~V~LV~~~G~r~v~Gf~~ 95 (106)
T COG0832 21 TVTIEVANTGDRPIQVGSHFHFFEVNRALSFDREKAYGMRLDIPAGTAVRFEPGDEKEVELVPLGGKREVYGFNG 95 (106)
T ss_pred ceEEEEeecCCCceEeecceeehhhCcceeechhhhcceEecccCCceEeeCCCCccEEEEEEccCceEEecccc
Confidence 4789999999999999952 2 3456788999999887 32345776543
No 33
>PF10633 NPCBM_assoc: NPCBM-associated, NEW3 domain of alpha-galactosidase; InterPro: IPR018905 This domain has been named NEW3, but its function is not known. It is found on proteins which are bacterial galactosidases [].; PDB: 1EUT_A 2BZD_A 1WCQ_C 2BER_A 1W8O_A 1EUU_A 1W8N_A.
Probab=25.96 E-value=1.3e+02 Score=20.85 Aligned_cols=35 Identities=14% Similarity=0.177 Sum_probs=17.7
Q ss_pred eEEEEEeCCCCceeeee----eCCCC---------eeecCCCeeEEEe
Q 041058 4 AAFEIQNNCIYTVWAAA----NPGGG---------KELHQHQSWHINL 38 (203)
Q Consensus 4 ~~~ti~N~C~~tVwp~~----~p~~g---------~~L~~g~s~~~~v 38 (203)
.+++|.|....++--.. +|.|. ..|.||++.++.+
T Consensus 9 ~~~tv~N~g~~~~~~v~~~l~~P~GW~~~~~~~~~~~l~pG~s~~~~~ 56 (78)
T PF10633_consen 9 VTLTVTNTGTAPLTNVSLSLSLPEGWTVSASPASVPSLPPGESVTVTF 56 (78)
T ss_dssp EEEEEE--SSS-BSS-EEEEE--TTSE---EEEEE--B-TTSEEEEEE
T ss_pred EEEEEEECCCCceeeEEEEEeCCCCccccCCccccccCCCCCEEEEEE
Confidence 57899999987654332 34321 2688999877665
No 34
>TIGR03096 nitroso_cyanin nitrosocyanin. Nitrosocyanin, as described from the obligate chemolithoautotroph Nitrosomonas europaea, is a red copper protein of unknown function with sequence similarity to a number of blue copper redox proteins.
Probab=22.31 E-value=2.5e+02 Score=22.50 Aligned_cols=46 Identities=15% Similarity=0.198 Sum_probs=28.3
Q ss_pred eEEEEEeC--CCCceeeeeeCCCCeeecCCCeeEEEe--ecceeeeeeecccC
Q 041058 4 AAFEIQNN--CIYTVWAAANPGGGKELHQHQSWHINL--TDAGSIWARTNCNF 52 (203)
Q Consensus 4 ~~~ti~N~--C~~tVwp~~~p~~g~~L~~g~s~~~~v--~wsGriW~RtgCs~ 52 (203)
.+|+|.|. |++++....+ +--..|.||++.++.+ .-.|++| --|+.
T Consensus 71 Vtl~vtN~d~~~H~f~i~~~-gis~~I~pGet~TitF~adKpG~Y~--y~C~~ 120 (135)
T TIGR03096 71 VKVTVENKSPISEGFSIDAY-GISEVIKAGETKTISFKADKAGAFT--IWCQL 120 (135)
T ss_pred EEEEEEeCCCCccceEECCC-CcceEECCCCeEEEEEECCCCEEEE--EeCCC
Confidence 34566675 4455444332 2246799999998877 5578887 34543
No 35
>PF08460 SH3_5: Bacterial SH3 domain; InterPro: IPR013667 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 []. The SH3 domain has been found in a number of different bacterial proteins including glycyl-glycine endopeptidase, bacteriocin and some hypothetical proteins.; GO: 0016787 hydrolase activity; PDB: 1R77_B.
Probab=21.14 E-value=1.2e+02 Score=21.06 Aligned_cols=47 Identities=11% Similarity=0.094 Sum_probs=26.2
Q ss_pred ceEEEEEeCCCCceeeeeeCCCCeeecCCCeeEEEe--ecceeeeeeec
Q 041058 3 AAAFEIQNNCIYTVWAAANPGGGKELHQHQSWHINL--TDAGSIWARTN 49 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~p~~g~~L~~g~s~~~~v--~wsGriW~Rtg 49 (203)
.-+|++.-+.+---.|.......+.|.+|++..++- .-.|.+|-+--
T Consensus 6 ~Gtft~~~~~~Ir~~p~~ss~~~~~~~~G~~V~YD~~~~~dGy~Wisy~ 54 (65)
T PF08460_consen 6 SGTFTFNTTINIRNGPSTSSPVVGTYPKGQSVNYDQVIKADGYVWISYI 54 (65)
T ss_dssp EEEE--EESC-ESSSS-TTS-EEEEE-TT-EEEEEEEEEETTEEEEEEE
T ss_pred ceEEeCCCceEEEcCCcCCCceEEEECCCCEEEEEEEEEeCCEEEEEEE
Confidence 356777665554444443333468999999988775 44788997753
No 36
>PLN02303 urease
Probab=20.04 E-value=2e+02 Score=29.77 Aligned_cols=47 Identities=13% Similarity=0.201 Sum_probs=35.2
Q ss_pred ceEEEEEeCCCCceeeeee------------------------C-CCCeeecCCCeeEEEe---ecceeeeeeec
Q 041058 3 AAAFEIQNNCIYTVWAAAN------------------------P-GGGKELHQHQSWHINL---TDAGSIWARTN 49 (203)
Q Consensus 3 a~~~ti~N~C~~tVwp~~~------------------------p-~~g~~L~~g~s~~~~v---~wsGriW~Rtg 49 (203)
..+|+|+|.-.-+|++|.. | ++..+.+||+++++.+ .-..+|+|-.+
T Consensus 151 ~~~l~v~n~gdrpiqvgSH~hf~e~N~aL~FdR~~a~G~rLdipaGtavRfePG~~~~V~lv~~~G~r~v~G~~~ 225 (837)
T PLN02303 151 AVKLKVTNTGDRPIQVGSHYHFIETNPYLVFDRRKAYGMRLNIPAGTAVRFEPGETKTVTLVSIGGNKVIRGGNG 225 (837)
T ss_pred eEEEEEeeCCCCceEeccccchHhcCchhhccHHHhcCccccCCCCCeEeECCCCeeEEEEEEccCceEEeccCc
Confidence 4789999999999999962 2 3456788999999887 22345666443
Done!