Query 043719
Match_columns 183
No_of_seqs 109 out of 273
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 07:41:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043719.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043719hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 smart00452 STI Soybean trypsin 100.0 4.2E-57 9.1E-62 366.4 19.3 161 18-183 1-171 (172)
2 cd00178 STI Soybean trypsin in 100.0 1E-56 2.2E-61 364.0 19.1 160 17-182 1-172 (172)
3 PF00197 Kunitz_legume: Trypsi 100.0 1E-56 2.2E-61 364.8 18.2 161 17-182 1-176 (176)
4 PF07951 Toxin_R_bind_C: Clost 90.8 9.3 0.0002 32.4 12.6 137 15-162 7-170 (214)
5 COG2824 PhnA Uncharacterized Z 67.4 7.9 0.00017 29.6 3.5 24 14-37 41-64 (112)
6 KOG3858 Ephrin, ligand for Eph 67.4 7 0.00015 33.6 3.6 55 21-76 116-177 (233)
7 PRK10220 hypothetical protein; 45.8 37 0.0008 26.0 3.9 23 16-38 42-64 (111)
8 TIGR00686 phnA alkylphosphonat 44.6 32 0.0007 26.2 3.5 23 16-38 41-63 (109)
9 PF14009 DUF4228: Domain of un 44.2 15 0.00032 28.4 1.7 19 21-39 64-82 (181)
10 PF00812 Ephrin: Ephrin; Inte 42.9 16 0.00036 29.0 1.8 24 22-45 101-124 (145)
11 PF03831 PhnA: PhnA protein; 39.4 14 0.00031 24.9 0.8 31 17-47 1-31 (56)
12 PF10657 RC-P840_PscD: Photosy 29.2 47 0.001 26.1 2.3 26 22-47 24-49 (144)
13 PHA02823 chemokine binding pro 27.2 1.8E+02 0.0038 25.1 5.5 60 9-78 67-133 (255)
14 PF10813 DUF2733: Protein of u 27.1 31 0.00067 20.8 0.7 18 15-32 12-29 (32)
15 PF05550 Peptidase_C53: Pestiv 26.7 38 0.00082 27.4 1.4 23 8-30 14-36 (168)
16 PF09466 Yqai: Hypothetical pr 26.5 68 0.0015 22.7 2.5 22 15-36 23-44 (71)
17 PF11197 DUF2835: Protein of u 25.8 58 0.0013 22.7 2.0 19 117-135 41-59 (68)
18 PRK11354 kil FtsZ inhibitor pr 23.5 65 0.0014 22.8 1.9 47 23-74 19-70 (73)
19 KOG3352 Cytochrome c oxidase, 23.3 90 0.0019 25.2 2.9 19 117-135 109-132 (153)
No 1
>smart00452 STI Soybean trypsin inhibitor (Kunitz) family of protease inhibitors.
Probab=100.00 E-value=4.2e-57 Score=366.35 Aligned_cols=161 Identities=43% Similarity=0.746 Sum_probs=145.7
Q ss_pred eEcCCCCcccCCCcEEEEecccCCCCcEEEcc-CCCCCCceeEEcCCCCCCCCccEEEEcCcCCCCeeecCCcEEEEEec
Q 043719 18 VLDTNGQALQRGLEYYILPEDNATGGGLTLVE-RNDSCPLYVGQKETSGSEGLFPVTFSPFVGEENIVRESHDFIVTFSA 96 (183)
Q Consensus 18 VlDt~G~~L~~g~~YyI~pa~~g~GGGl~l~~-~n~~CPl~Vvq~~~~~~~G~lPV~Fsp~~~~~~~I~e~t~LnI~F~~ 96 (183)
|+|++||||++|.+|||+|+++|.||||+|++ +|++||++|+|++++..+| +||+|+|++.++.+|+|+++|||+|..
T Consensus 1 VlDt~G~~l~~G~~YyI~p~~~g~GGGl~l~~~~n~~CPl~VvQ~~~~~~~G-lPV~Fs~~~~~~~ii~e~t~lnI~F~~ 79 (172)
T smart00452 1 VLDTDGNPLRNGGTYYILPAIRGHGGGLTLAATGNEICPLTVVQSPNEVDNG-LPVKFSPPNPSDFIIRESTDLNIEFDA 79 (172)
T ss_pred CCCCCCCCCcCCCcEEEEEccccCCCCEEEccCCCCCCCCeeEECCCCCCCc-eeEEEeecCCCCCEEecCceEEEEeCC
Confidence 79999999999999999999999889999998 7999999999999999999 999999987678999999999999998
Q ss_pred ccCCCCCCcEEEcccCCCCCceEEEEcCCC----cceEEEEeCC---cceEEeccCCcCCCcCcceeeeeEEEe-CCeEE
Q 043719 97 FTTCIQSTAWRVGESDPKTGRRFIVTGGVP----GFFRIDRNGT---SYNLGWCPSMACPNCRLRCGFAGILIE-NGKRL 168 (183)
Q Consensus 97 ~~~C~~st~W~V~~~~~~~~~~~v~tgg~~----g~FkIek~~~---~YKLvfCp~~~~~~c~~~C~dvGi~~~-~g~rl 168 (183)
.+.|++|++|+|++ ++..++++|+|||.+ +||||||++. .|||+|||. +|+ ...|.|||++.| +|.||
T Consensus 80 ~~~C~~st~W~V~~-~~~~~~~~V~~gg~~~~~~~~FkIek~~~~~~~YKLv~Cp~-~~~--~~~C~~vGi~~d~~g~rr 155 (172)
T smart00452 80 PPLCAQSTVWTVDE-DSAPEGLAVKTGGYPGVRDSWFKIEKYSGESNGYKLVYCPN-GSD--DDKCGDVGIFIDPEGGRR 155 (172)
T ss_pred CCCCCCCCEEEEec-CCccccEEEEeCCcCCCCCCeEEEEECCCCCCCEEEEEcCC-CCC--CCccCccCeEECCCCcEE
Confidence 88999999999986 445677999999844 5999999984 799999997 554 678999999987 89888
Q ss_pred EEeCC-CCeeEEEEEC
Q 043719 169 LALDG-PALPFVFKRA 183 (183)
Q Consensus 169 l~l~~-~p~~V~F~ka 183 (183)
||+++ +||.|+|+||
T Consensus 156 L~ls~~~p~~v~F~k~ 171 (172)
T smart00452 156 LVLSNENPLVVVFKKA 171 (172)
T ss_pred EEEcCCCCeEEEEEEC
Confidence 88865 6999999997
No 2
>cd00178 STI Soybean trypsin inhibitor (Kunitz) family of protease inhibitors. Inhibit proteases by binding with high affinity to their active sites. Trefoil fold, common to interleukins and fibroblast growth factors.
Probab=100.00 E-value=1e-56 Score=363.99 Aligned_cols=160 Identities=44% Similarity=0.812 Sum_probs=145.2
Q ss_pred ceEcCCCCcccCCCcEEEEecccCCCCcEEEcc-CCCCCCceeEEcCCCCCCCCccEEEEcCcCCCCeeecCCcEEEEEe
Q 043719 17 PVLDTNGQALQRGLEYYILPEDNATGGGLTLVE-RNDSCPLYVGQKETSGSEGLFPVTFSPFVGEENIVRESHDFIVTFS 95 (183)
Q Consensus 17 ~VlDt~G~~L~~g~~YyI~pa~~g~GGGl~l~~-~n~~CPl~Vvq~~~~~~~G~lPV~Fsp~~~~~~~I~e~t~LnI~F~ 95 (183)
+|||++||||++|.+|||+|+++|.||||++++ +|++||++|+|++++..+| +||+|+|++.++.+|+|+++|||+|.
T Consensus 1 ~VlD~~G~~l~~g~~YyI~p~~~g~GGGl~l~~~~~~~CPl~VvQ~~~~~~~G-lPv~Fs~~~~~~~~I~e~t~lnI~F~ 79 (172)
T cd00178 1 PVLDTDGNPLRNGGRYYILPAIRGGGGGLTLAATGNETCPLTVVQSPSELDRG-LPVKFSPPNPKSDVIRESTDLNIEFD 79 (172)
T ss_pred CcCcCCCCCCcCCCeEEEEEceeCCCCcEEEcCCCCCCCCCeeEECCCCCCCC-eeEEEEeCCCCCCEEECCCcEEEEeC
Confidence 699999999999999999999999899999998 7899999999999999999 99999998767899999999999999
Q ss_pred cccCC-CCCCcEEEcccCCCCCceEEEEcCCCc-----ceEEEEeCC---cceEEeccCCcCCCcCcceeeeeEEEe-CC
Q 043719 96 AFTTC-IQSTAWRVGESDPKTGRRFIVTGGVPG-----FFRIDRNGT---SYNLGWCPSMACPNCRLRCGFAGILIE-NG 165 (183)
Q Consensus 96 ~~~~C-~~st~W~V~~~~~~~~~~~v~tgg~~g-----~FkIek~~~---~YKLvfCp~~~~~~c~~~C~dvGi~~~-~g 165 (183)
.++.| ++|++|+|+++++ .++++|+|||.++ ||||||++. .|||+|||. +| ...|+|||++.| +|
T Consensus 80 ~~~~c~~~st~W~V~~~~~-~~~~~V~~Gg~~~~~~~~~FkIek~~~~~~~YKL~~Cp~-~~---~~~C~~VGi~~d~~g 154 (172)
T cd00178 80 APTWCCGSSTVWKVDRDST-PEGLFVTTGGVKGNTLNSWFKIEKVSEGLNAYKLVFCPS-SC---DSKCGDVGIFIDPEG 154 (172)
T ss_pred CCCcCCCCCCEEEEeccCC-ccCeEEEeCCcCCCcccceEEEEECCCCCCcEEEEEcCC-CC---CCceeecccEECCCC
Confidence 88777 9999999988765 6679999998654 999999984 799999997 44 679999999986 78
Q ss_pred eEEEEeCC-CCeeEEEEE
Q 043719 166 KRLLALDG-PALPFVFKR 182 (183)
Q Consensus 166 ~rll~l~~-~p~~V~F~k 182 (183)
.|||++++ +||.|+|+|
T Consensus 155 ~rrL~l~~~~p~~V~F~k 172 (172)
T cd00178 155 VRRLVLSDDNPLVVVFKK 172 (172)
T ss_pred cEEEEEcCCCCeEEEEeC
Confidence 88888865 899999997
No 3
>PF00197 Kunitz_legume: Trypsin and protease inhibitor; InterPro: IPR002160 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. The Kunitz-type soybean trypsin inhibitor (STI) family consists mainly of proteinase inhibitors from Leguminosae seeds []. They belong to MEROPS inhibitor family I3, clan IC. They exhibit proteinase inhibitory activity against serine proteinases; trypsin (MEROPS peptidase family S1, IPR001254 from INTERPRO) and subtilisin (MEROPS peptidase family S8, IPR000209 from INTERPRO), thiol proteinases (MEROPS peptidase family C1, IPR000668 from INTERPRO) and aspartic proteinases (MEROPS peptidase family A1, IPR001461 from INTERPRO) []. Inhibitors from cereals are active against subtilisin and endogenous alpha-amylases, while some also inhibit tissue plasminogen activator. The inhibitors are usually specific for either trypsin or chymotrypsin, and some are effective against both. They are thought to protect the seeds against consumption by animal predators, while at the same time existing as seed storage proteins themselves - all the actively inhibitory members contain 2 disulphide bridges. The existence of a member with no inhibitory activity, winged bean albumin 1, suggests that the inhibitors may have evolved from seed storage proteins. Proteins from the Kunitz family contain from 170 to 200 amino acid residues and one or two intra-chain disulphide bonds. The best conserved region is found in their N-terminal section. The crystal structures of soybean trypsin inhibitor (STI), trypsin inhibitor DE-3 from the Kaffir tree Erythrina caffra (ETI) [] and the bifunctional proteinase K/alpha-amylase inhibitor from wheat (PK13) have been solved, showing them to share the same 12-stranded beta-sheet structure as those of interleukin-1 and heparin-binding growth factors []. The beta-sheets are arranged in 3 similar lobes around a central axis, 6 strands forming an anti-parallel beta-barrel. Despite the structural similarity, STI shows no interleukin-1 bioactivity, presumably as a result of their primary sequence disparities. The active inhibitory site containing the scissile bond is located in the loop between beta-strands 4 and 5 in STI and ETI. The STIs belong to a superfamily that also contains the interleukin-1 proteins, heparin binding growth factors (HBGF) and histactophilin, all of which have very similar structures, but share no sequence similarity with the STI family.; GO: 0004866 endopeptidase inhibitor activity; PDB: 3TC2_B 3S8J_A 3S8K_A 1TIE_A 2GZB_A 3E8L_C 2IWT_B 3BX1_C 1AVA_D 3IIR_A ....
Probab=100.00 E-value=1e-56 Score=364.79 Aligned_cols=161 Identities=47% Similarity=0.856 Sum_probs=143.0
Q ss_pred ceEcCCCCcccCCCcEEEEecccCCCCcEEEcc-CCCCCCceeEEcCCCCCCCCccEEEEcC--cCCCCeeecCCcEEEE
Q 043719 17 PVLDTNGQALQRGLEYYILPEDNATGGGLTLVE-RNDSCPLYVGQKETSGSEGLFPVTFSPF--VGEENIVRESHDFIVT 93 (183)
Q Consensus 17 ~VlDt~G~~L~~g~~YyI~pa~~g~GGGl~l~~-~n~~CPl~Vvq~~~~~~~G~lPV~Fsp~--~~~~~~I~e~t~LnI~ 93 (183)
||+|+|||||++|.+|||+|+++|.||||+|++ +|++|||+|+|++++..+| +||+|+|+ ...+.+|||+++|||+
T Consensus 1 pVlD~~G~~l~~g~~YyI~p~~~~~GGGl~l~~~~n~~CPl~Vvq~~~~~~~G-lPv~Fs~~~~~~~~~~ir~st~l~I~ 79 (176)
T PF00197_consen 1 PVLDTDGNPLRNGGEYYILPAIRGAGGGLTLAKTGNETCPLDVVQSPSELSRG-LPVKFSPPYRNSFDTVIRESTDLNIE 79 (176)
T ss_dssp B-BETTSCB-BTTSEEEEEESSTGCSEEEEEECCTTSSSSEEEEEESSTTS-B-SEEEEEESSSSSSTBCTBTTSEEEEE
T ss_pred CcCCCCCCCCcCCCCEEEEeCccCCCCeeEecCCCCCCCChheEEccCCCCCc-eeEEEEeCCcccCCCeeEcceEEEEE
Confidence 699999999999999999999999999999998 7899999999999999999 99999993 4467899999999999
Q ss_pred EecccCCCCCCcEEEcccCCCCCceEEEEcCCCc------ceEEEEeCC----cceEEeccCCcCCCcCcceeeeeEEEe
Q 043719 94 FSAFTTCIQSTAWRVGESDPKTGRRFIVTGGVPG------FFRIDRNGT----SYNLGWCPSMACPNCRLRCGFAGILIE 163 (183)
Q Consensus 94 F~~~~~C~~st~W~V~~~~~~~~~~~v~tgg~~g------~FkIek~~~----~YKLvfCp~~~~~~c~~~C~dvGi~~~ 163 (183)
|...+.|.++++|+|++.++++++ +|+|||..| ||||||++. .|||+|||. .|+ ...|.||||+.|
T Consensus 80 F~~~~~c~~~~~W~V~~~~~~~~~-~V~~gg~~~~~~~~~~FkIek~~~~~~~~YKLvfCp~-~~~--~~~C~dvGi~~d 155 (176)
T PF00197_consen 80 FSSPTSCACSTVWKVVKDDPETGQ-FVKTGGVKGPETVDSWFKIEKYEDGFNNAYKLVFCPS-VCC--DSLCGDVGIYFD 155 (176)
T ss_dssp ESSECTTSSSSBEEEEEETTTTEE-EEEEESSSSSGCGCCEEEEEEESSSSTTEEEEEEESS-SSS--TSSEEEEEEEEE
T ss_pred EccCCCCCccCEEEEeecCcccce-EEEeCCcccCCccCcEEEEEEeCCCCCCcEEEEECCC-ccc--cCccceeeEEEc
Confidence 999999999999999999888765 999998665 999999985 599999997 443 899999999987
Q ss_pred -CCeEEEEeCC-CCeeEEEEE
Q 043719 164 -NGKRLLALDG-PALPFVFKR 182 (183)
Q Consensus 164 -~g~rll~l~~-~p~~V~F~k 182 (183)
+|+|||++++ +||.|+|||
T Consensus 156 ~~g~rrL~l~~~~p~~V~F~K 176 (176)
T PF00197_consen 156 DNGNRRLALSDDNPFVVVFQK 176 (176)
T ss_dssp TTSEEEEEEESSSB-EEEEEE
T ss_pred CCCeEEEEECCCCcEEEEEEC
Confidence 8988888866 999999998
No 4
>PF07951 Toxin_R_bind_C: Clostridium neurotoxin, C-terminal receptor binding; InterPro: IPR013104 The Clostridium neurotoxin family is composed of tetanus neurotoxins and seven serotypes of botulinum neurotoxin. The structure of the botulinum neurotoxin reveals a four domain protein. The N-terminal catalytic domain (IPR000395 from INTERPRO), the central translocation domains and two receptor-binding domains []. This domain is the C-terminal receptor-binding domain, which adopts a modified beta-trefoil fold with a six stranded beta-barrel and a beta-hairpin triplet capping the domain []. The first step in the intoxication process is a binding event between this domain and the pre-synaptic nerve ending []. ; PDB: 3AZW_A 3N7L_A 3AZV_A 3N7M_A 3RSJ_B 3FUQ_A 3RMX_D 3OBT_A 3RMY_B 3OGG_A ....
Probab=90.82 E-value=9.3 Score=32.41 Aligned_cols=137 Identities=12% Similarity=0.148 Sum_probs=78.0
Q ss_pred CCceEcCCCCcccCCCcEEEEecccC------CCCcEEEcc-CCCCCCceeEEcCCCCCCCCccEEEEcCc---CCCCee
Q 043719 15 SPPVLDTNGQALQRGLEYYILPEDNA------TGGGLTLVE-RNDSCPLYVGQKETSGSEGLFPVTFSPFV---GEENIV 84 (183)
Q Consensus 15 ~~~VlDt~G~~L~~g~~YyI~pa~~g------~GGGl~l~~-~n~~CPl~Vvq~~~~~~~G~lPV~Fsp~~---~~~~~I 84 (183)
...+.|-=||+|+-..+||++++..- ...++.... ...+=-+.+.....++..| ++|++.-.. ..+..|
T Consensus 7 ~niLKDfWGN~L~YdkeYYl~N~~~~n~yi~~~~~~~~~~n~~r~~~~~ni~~n~r~LY~G-~k~iIkr~~~~~~~Dn~V 85 (214)
T PF07951_consen 7 TNILKDFWGNYLRYDKEYYLLNVLYPNKYIKRKSDSILSINNQRGTGVFNIYLNYRDLYTG-IKFIIKRYADNSNNDNRV 85 (214)
T ss_dssp TTB-BBTTSSB-BTTSEEEEEESSSTTEEEEEETTSEEEEEEEEEEEEEEEESEETSSSSS--EEEEEESSTSSSTSSB-
T ss_pred ccHHHHhcCCccccCceeEEEecCCcccceeecccceeeecccccccceeeeeeehhhccC-ceEEEEEccCCCCCccee
Confidence 57889999999999999999998532 123332211 1011012233333568899 888887433 477899
Q ss_pred ecCCcEEEEEecccCCCCCCcEEEcc-----cCCCCCceEEEE---cC---CC---cceEEEEeC--Ccc-eEEeccCCc
Q 043719 85 RESHDFIVTFSAFTTCIQSTAWRVGE-----SDPKTGRRFIVT---GG---VP---GFFRIDRNG--TSY-NLGWCPSMA 147 (183)
Q Consensus 85 ~e~t~LnI~F~~~~~C~~st~W~V~~-----~~~~~~~~~v~t---gg---~~---g~FkIek~~--~~Y-KLvfCp~~~ 147 (183)
|.+..+.|.|... ...|.|-- .+.+..+-.+-+ +- .. +.|+|++.. ..| ...||...
T Consensus 86 r~~D~iy~n~~~~-----n~ey~l~~~~~Y~~~~~~~~kli~l~~l~~~~~~~~~~~vmqik~~~~~~~yc~q~f~~n~- 159 (214)
T PF07951_consen 86 RNGDYIYFNVVIN-----NKEYRLYADTMYKNSKNQSEKLIYLLRLSDSNDNINQYIVMQIKNYNSQGTYCSQIFKSNN- 159 (214)
T ss_dssp BTTEEEEEEEEET-----TEEEEEEEETEECTTSSSSEEEEEEEEEECSCTTTCEECEEEEEEEEESTSSEEEEEEEST-
T ss_pred ecCCEEEEEEEeC-----CceEEEEeeeecccccccchheeeEEecccCCCCcCceEEEEEEecccccchhhhhhhhcC-
Confidence 9999999998643 35788711 122222334422 21 12 389999986 445 67777542
Q ss_pred CCCcCcceeeeeEEE
Q 043719 148 CPNCRLRCGFAGILI 162 (183)
Q Consensus 148 ~~~c~~~C~dvGi~~ 162 (183)
...=+=||++.
T Consensus 160 ----~n~iGLiG~h~ 170 (214)
T PF07951_consen 160 ----TNTIGLIGFHR 170 (214)
T ss_dssp ----SCEEEEEEEEE
T ss_pred ----CCcEEEEEEec
Confidence 22223366666
No 5
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=67.44 E-value=7.9 Score=29.56 Aligned_cols=24 Identities=25% Similarity=0.304 Sum_probs=19.8
Q ss_pred CCCceEcCCCCcccCCCcEEEEec
Q 043719 14 LSPPVLDTNGQALQRGLEYYILPE 37 (183)
Q Consensus 14 ~~~~VlDt~G~~L~~g~~YyI~pa 37 (183)
....|.|.+||.|+.|-.-.|+--
T Consensus 41 ~~~~v~DsnGn~L~dGDsV~lIKD 64 (112)
T COG2824 41 EALIVKDSNGNLLADGDSVTLIKD 64 (112)
T ss_pred CceEEEcCCCcEeccCCeEEEEEe
Confidence 346899999999999988777654
No 6
>KOG3858 consensus Ephrin, ligand for Eph receptor tyrosine kinase [Signal transduction mechanisms]
Probab=67.36 E-value=7 Score=33.55 Aligned_cols=55 Identities=31% Similarity=0.435 Sum_probs=36.1
Q ss_pred CCCCcccCCCcEEEEecccCCCCcE-------EEccCCCCCCceeEEcCCCCCCCCccEEEEc
Q 043719 21 TNGQALQRGLEYYILPEDNATGGGL-------TLVERNDSCPLYVGQKETSGSEGLFPVTFSP 76 (183)
Q Consensus 21 t~G~~L~~g~~YyI~pa~~g~GGGl-------~l~~~n~~CPl~Vvq~~~~~~~G~lPV~Fsp 76 (183)
..|-+-++|.+||+++...|.-.|+ -.. .+..+-..|.|++......=.++.+.|
T Consensus 116 p~G~EF~pG~~YY~IStStg~~~g~~~~~ggvc~~-~~mk~~~~V~~~~~~~~~~~~~~~~~p 177 (233)
T KOG3858|consen 116 PLGFEFQPGHTYYYISTSTGDAEGLCNLRGGVCVT-RNMKLLMKVGQSPRSGVTPEKPVSEEP 177 (233)
T ss_pred CCCccccCCCeEEEEeCCCccccccchhhCCEecc-CCceEEEEecccCCCCccccccccccc
Confidence 3699999999999999987753344 322 255677788998754211115555555
No 7
>PRK10220 hypothetical protein; Provisional
Probab=45.77 E-value=37 Score=26.01 Aligned_cols=23 Identities=30% Similarity=0.274 Sum_probs=18.7
Q ss_pred CceEcCCCCcccCCCcEEEEecc
Q 043719 16 PPVLDTNGQALQRGLEYYILPED 38 (183)
Q Consensus 16 ~~VlDt~G~~L~~g~~YyI~pa~ 38 (183)
..|.|.+|++|..|-+--++=-.
T Consensus 42 ~~vkDsnG~~L~dGDsV~viKDL 64 (111)
T PRK10220 42 LIVKDANGNLLADGDSVTIVKDL 64 (111)
T ss_pred ceEEcCCCCCccCCCEEEEEeec
Confidence 46999999999999887776543
No 8
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=44.65 E-value=32 Score=26.24 Aligned_cols=23 Identities=26% Similarity=0.281 Sum_probs=18.7
Q ss_pred CceEcCCCCcccCCCcEEEEecc
Q 043719 16 PPVLDTNGQALQRGLEYYILPED 38 (183)
Q Consensus 16 ~~VlDt~G~~L~~g~~YyI~pa~ 38 (183)
..|.|.||++|+.|-+--|+=-.
T Consensus 41 ~~~kDsnG~~L~dGDsV~liKDL 63 (109)
T TIGR00686 41 LIVKDCNGNLLANGDSVILIKDL 63 (109)
T ss_pred ceEEcCCCCCccCCCEEEEEeec
Confidence 46999999999999887776543
No 9
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=44.24 E-value=15 Score=28.41 Aligned_cols=19 Identities=32% Similarity=0.618 Sum_probs=16.1
Q ss_pred CCCCcccCCCcEEEEeccc
Q 043719 21 TNGQALQRGLEYYILPEDN 39 (183)
Q Consensus 21 t~G~~L~~g~~YyI~pa~~ 39 (183)
.-.++|++|.-||++|..+
T Consensus 64 ~~d~~L~~G~~Y~llP~~~ 82 (181)
T PF14009_consen 64 PPDEELQPGQIYFLLPMSR 82 (181)
T ss_pred CccCeecCCCEEEEEEccc
Confidence 4467899999999999865
No 10
>PF00812 Ephrin: Ephrin; InterPro: IPR001799 Ephrins are a family of proteins [] that are ligands of class V (EPH-related) receptor protein-tyrosine kinases (see IPR001426 from INTERPRO). These receptors and their ligands have been implicated in regulating neuronal axon guidance and in patterning of the developing nervous system and may also serve a patterning and compartmentalisation role outside of the nervous system as well. Ephrins are membrane-attached proteins of 205 to 340 residues. Attachment appears to be crucial for their normal function. Type-A ephrins are linked to the membrane via a glycosylphosphatidylinositol (GPI)-linkage, while type-B ephrins are type-I membrane proteins.; GO: 0016020 membrane; PDB: 3HEI_P 3CZU_B 3MBW_B 1KGY_E 1IKO_P 2WO3_B 2I85_A 2VSK_B 3GXU_B 2VSM_B ....
Probab=42.90 E-value=16 Score=28.97 Aligned_cols=24 Identities=33% Similarity=0.612 Sum_probs=18.4
Q ss_pred CCCcccCCCcEEEEecccCCCCcE
Q 043719 22 NGQALQRGLEYYILPEDNATGGGL 45 (183)
Q Consensus 22 ~G~~L~~g~~YyI~pa~~g~GGGl 45 (183)
.|-+-++|.+||+++...|.-+|+
T Consensus 101 ~G~EF~pG~~YY~ISts~g~~~g~ 124 (145)
T PF00812_consen 101 LGLEFQPGHDYYYISTSTGTQEGL 124 (145)
T ss_dssp TSSS--TTEEEEEEEEESSSSTTT
T ss_pred CCeeecCCCeEEEEEccCCCCCCc
Confidence 799999999999999988764554
No 11
>PF03831 PhnA: PhnA protein; InterPro: IPR013988 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the C-terminal domain of PhnA.; PDB: 2AKK_A 2AKL_A.
Probab=39.37 E-value=14 Score=24.93 Aligned_cols=31 Identities=29% Similarity=0.457 Sum_probs=15.3
Q ss_pred ceEcCCCCcccCCCcEEEEecccCCCCcEEE
Q 043719 17 PVLDTNGQALQRGLEYYILPEDNATGGGLTL 47 (183)
Q Consensus 17 ~VlDt~G~~L~~g~~YyI~pa~~g~GGGl~l 47 (183)
.|.|.+|++|+.|-+--++--..=.|.+.++
T Consensus 1 vv~DsnGn~L~dGDsV~~iKDLkVKG~s~~~ 31 (56)
T PF03831_consen 1 VVKDSNGNELQDGDSVTLIKDLKVKGSSFTI 31 (56)
T ss_dssp S-B-TTS-B--TTEEEEESS-EEETTTTEEE
T ss_pred CeEcCCCCCccCCCEEEEEeeeeeccCCccc
Confidence 3789999999999876665432222444544
No 12
>PF10657 RC-P840_PscD: Photosystem P840 reaction centre protein PscD; InterPro: IPR019608 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. The photosynthetic reaction centres (RCs) of aerotolerant organisms contain a heterodimeric core, built up of two strongly homologous polypeptides each of which contributes five transmembrane peptide helices to hold a pseudo-symmetric double set of redox components. Two molecules of PscD are housed within a subunit. PscD may be involved in stabilising the PscB component since it is found to co-precipitate with FMO (Fenna-Mathews-Olson BChl a-protein) and PscB. It may also be involved in the interaction with ferredoxin [].
Probab=29.24 E-value=47 Score=26.13 Aligned_cols=26 Identities=27% Similarity=0.526 Sum_probs=22.5
Q ss_pred CCCcccCCCcEEEEecccCCCCcEEE
Q 043719 22 NGQALQRGLEYYILPEDNATGGGLTL 47 (183)
Q Consensus 22 ~G~~L~~g~~YyI~pa~~g~GGGl~l 47 (183)
.||++--..+|||-+|.|+.-|-|-+
T Consensus 24 sGNa~HK~eKYfITsAkRD~~g~Lql 49 (144)
T PF10657_consen 24 SGNAVHKAEKYFITSAKRDRYGKLQL 49 (144)
T ss_pred cCchhhhhheeEEeeeecccCCceEE
Confidence 79999999999999999988776654
No 13
>PHA02823 chemokine binding protein; Provisional
Probab=27.24 E-value=1.8e+02 Score=25.08 Aligned_cols=60 Identities=20% Similarity=0.341 Sum_probs=35.9
Q ss_pred cCCCCCCCceEcCCCCc-----ccCCCcEEEEecccCCCCcEEEccCCCCCCceeEEcCCCCCCCCc--cEEEEcCc
Q 043719 9 QPSDDLSPPVLDTNGQA-----LQRGLEYYILPEDNATGGGLTLVERNDSCPLYVGQKETSGSEGLF--PVTFSPFV 78 (183)
Q Consensus 9 ~~~~~~~~~VlDt~G~~-----L~~g~~YyI~pa~~g~GGGl~l~~~n~~CPl~Vvq~~~~~~~G~l--PV~Fsp~~ 78 (183)
|.++.+++.++ .|++ ...+..||-+. ||||.+.-+--.||- +.+-++..+| - -+||++.+
T Consensus 67 ~~dd~~~e~~~--~~d~s~le~~~~~ttyytiv-----gGGL~~~fgft~Cp~--iksise~~~g-~tV~arlsS~~ 133 (255)
T PHA02823 67 SEDDPSEEEEY--EGDESFLEGFVIPTTYYTIV-----GGGLSMNFGFTKCPT--IKSISESADG-NTVNARLSSVS 133 (255)
T ss_pred cCCCCCcceee--cCccchhccccCCceEEEEE-----cCcEEEEecccCCCc--eeeeeEecCC-CEEEEEeeccC
Confidence 34555566666 4442 33467888763 789988776667992 3333455455 4 45777654
No 14
>PF10813 DUF2733: Protein of unknown function (DUF2733); InterPro: IPR024360 The UL11 gene product of herpes simplex virus is a membrane-associated tegument protein that is incorporated into the HSV virion and functions in viral envelopment []. UL11 is acylated, which is crucial for lipid raft association [].
Probab=27.05 E-value=31 Score=20.76 Aligned_cols=18 Identities=17% Similarity=0.414 Sum_probs=13.9
Q ss_pred CCceEcCCCCcccCCCcE
Q 043719 15 SPPVLDTNGQALQRGLEY 32 (183)
Q Consensus 15 ~~~VlDt~G~~L~~g~~Y 32 (183)
..++.|.+|+++.--.+|
T Consensus 12 ~n~l~Dv~G~~Inl~~dF 29 (32)
T PF10813_consen 12 HNPLKDVKGNPINLYKDF 29 (32)
T ss_pred CCcccccCCCEEechhcc
Confidence 578999999998754443
No 15
>PF05550 Peptidase_C53: Pestivirus Npro endopeptidase C53; InterPro: IPR008751 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 group of cysteine peptidases belong to MEROPS peptidase family C53 (clan C-). The active site residues occur in the order E, H, C in the sequence which is unlike that in any other family. They are unique to pestiviruses. The N-terminal cysteine peptidase (Npro) encoded by the bovine viral diarrhoea virus genome is responsible for the self-cleavage that releases the N terminus of the core protein. This unique protease is dispensable for viral replication, and its coding region can be replaced by a ubiquitin gene directly fused in frame to the core [, , , ].; GO: 0016032 viral reproduction, 0019082 viral protein processing
Probab=26.65 E-value=38 Score=27.38 Aligned_cols=23 Identities=26% Similarity=0.368 Sum_probs=18.3
Q ss_pred ccCCCCCCCceEcCCCCcccCCC
Q 043719 8 AQPSDDLSPPVLDTNGQALQRGL 30 (183)
Q Consensus 8 ~~~~~~~~~~VlDt~G~~L~~g~ 30 (183)
-|......+||+|.+|+||.-..
T Consensus 14 kq~P~Gv~EPVyd~~g~plfGe~ 36 (168)
T PF05550_consen 14 KQKPAGVEEPVYDSAGNPLFGER 36 (168)
T ss_pred CCCCcccccccccCCCCCccCCc
Confidence 46566777999999999998643
No 16
>PF09466 Yqai: Hypothetical protein Yqai; InterPro: IPR018474 The hypothetical protein YqaI is expressed in bacteria, particularly Bacillus subtilis. It forms a homo-dimer, with each monomer containing an alpha helix and four beta strands.; PDB: 2DSM_B.
Probab=26.45 E-value=68 Score=22.69 Aligned_cols=22 Identities=32% Similarity=0.650 Sum_probs=12.6
Q ss_pred CCceEcCCCCcccCCCcEEEEe
Q 043719 15 SPPVLDTNGQALQRGLEYYILP 36 (183)
Q Consensus 15 ~~~VlDt~G~~L~~g~~YyI~p 36 (183)
.-++.|.-|+++.+|-.|+|.|
T Consensus 23 d~~i~D~yG~EI~~~D~y~i~~ 44 (71)
T PF09466_consen 23 DHPIEDFYGDEIFPGDDYFISP 44 (71)
T ss_dssp S-B---TTSS-B-TTS-EEE-E
T ss_pred CcceeeeeccccccCCeEEEeC
Confidence 3567889999999999999966
No 17
>PF11197 DUF2835: Protein of unknown function (DUF2835); InterPro: IPR021363 This is a bacterial family of uncharacterised proteins. One member of this family (A4VM42 from SWISSPROT) is annotated as the A subunit of Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV).
Probab=25.77 E-value=58 Score=22.70 Aligned_cols=19 Identities=37% Similarity=0.742 Sum_probs=16.9
Q ss_pred ceEEEEcCCCcceEEEEeC
Q 043719 117 RRFIVTGGVPGFFRIDRNG 135 (183)
Q Consensus 117 ~~~v~tgg~~g~FkIek~~ 135 (183)
++|++..|+.|.|+|+-.+
T Consensus 41 RpFvt~~Gv~G~F~l~~d~ 59 (68)
T PF11197_consen 41 RPFVTHDGVHGRFRLEFDD 59 (68)
T ss_pred cceecCCCceEEEEEEECC
Confidence 6799999999999999875
No 18
>PRK11354 kil FtsZ inhibitor protein; Reviewed
Probab=23.49 E-value=65 Score=22.84 Aligned_cols=47 Identities=21% Similarity=0.299 Sum_probs=32.9
Q ss_pred CCcccCCCcEEEEecccCCCCcEEEcc-CC----CCCCceeEEcCCCCCCCCccEEE
Q 043719 23 GQALQRGLEYYILPEDNATGGGLTLVE-RN----DSCPLYVGQKETSGSEGLFPVTF 74 (183)
Q Consensus 23 G~~L~~g~~YyI~pa~~g~GGGl~l~~-~n----~~CPl~Vvq~~~~~~~G~lPV~F 74 (183)
|.-+.-.+++|+.+|..-..|.|.|-. .. ..|-..|.... +| .|++-
T Consensus 19 G~~v~~~grty~ASAN~~~r~~LYl~~~~e~~~i~d~~IeVyL~~----~G-~Plt~ 70 (73)
T PRK11354 19 GDYVLHEGRTYIASANNIKKRKLYIRTLTTKTCITDCMIKVFLGR----DG-LPVKA 70 (73)
T ss_pred ceEEEEcCcEEEEEechhhCceEEEEeeeEEEEEeeeEEEEEEcC----CC-Ccccc
Confidence 566666789999999644568898865 22 24666777754 68 88753
No 19
>KOG3352 consensus Cytochrome c oxidase, subunit Vb/COX4 [Energy production and conversion]
Probab=23.27 E-value=90 Score=25.23 Aligned_cols=19 Identities=11% Similarity=0.377 Sum_probs=13.3
Q ss_pred ceEEEEcCCCc-----ceEEEEeC
Q 043719 117 RRFIVTGGVPG-----FFRIDRNG 135 (183)
Q Consensus 117 ~~~v~tgg~~g-----~FkIek~~ 135 (183)
.+.|.-+..++ ||.|+|.+
T Consensus 109 ~RiVGC~c~eD~~~V~Wmwl~Kge 132 (153)
T KOG3352|consen 109 KRIVGCGCEEDSHAVVWMWLEKGE 132 (153)
T ss_pred ceEEeecccCCCcceEEEEEEcCC
Confidence 45666655443 99999986
Done!