Query 036161
Match_columns 247
No_of_seqs 193 out of 1451
Neff 6.8
Searched_HMMs 46136
Date Fri Mar 29 10:03:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036161.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036161hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN03003 Probable polygalactur 100.0 2.4E-44 5.2E-49 339.4 24.5 197 1-211 141-394 (456)
2 PLN02793 Probable polygalactur 100.0 1.2E-42 2.6E-47 328.7 24.1 194 1-208 180-425 (443)
3 PLN02155 polygalacturonase 100.0 1.3E-42 2.9E-47 324.1 23.4 192 1-207 148-393 (394)
4 PLN02188 polygalacturonase/gly 100.0 1.4E-42 3E-47 325.0 23.0 192 1-206 158-404 (404)
5 PLN02218 polygalacturonase ADP 100.0 1.5E-42 3.3E-47 326.9 23.0 187 1-206 195-431 (431)
6 PLN03010 polygalacturonase 100.0 1.3E-41 2.9E-46 318.3 24.1 193 1-207 160-404 (409)
7 PF00295 Glyco_hydro_28: Glyco 100.0 2.8E-38 6E-43 289.3 18.7 178 1-195 95-322 (326)
8 COG5434 PGU1 Endopygalactoruna 99.9 8.2E-26 1.8E-30 216.8 13.2 133 1-135 241-405 (542)
9 PLN03003 Probable polygalactur 99.6 1.4E-14 3.1E-19 137.5 17.3 146 1-169 107-293 (456)
10 PLN02218 polygalacturonase ADP 99.6 1.6E-14 3.6E-19 136.8 17.2 97 58-170 240-348 (431)
11 PLN03010 polygalacturonase 99.6 7.3E-14 1.6E-18 131.5 18.3 158 2-182 134-344 (409)
12 PLN02793 Probable polygalactur 99.6 1.1E-13 2.4E-18 131.6 17.1 96 58-169 225-332 (443)
13 PLN02155 polygalacturonase 99.5 2E-13 4.4E-18 128.1 15.3 99 57-170 192-302 (394)
14 PLN02188 polygalacturonase/gly 99.5 2.1E-12 4.5E-17 121.7 18.3 98 58-169 203-312 (404)
15 PF00295 Glyco_hydro_28: Glyco 99.4 2E-12 4.3E-17 118.7 13.0 95 58-168 140-246 (326)
16 PF03718 Glyco_hydro_49: Glyco 99.2 5.2E-10 1.1E-14 106.8 14.8 117 4-135 326-497 (582)
17 COG5434 PGU1 Endopygalactoruna 98.7 2.6E-07 5.6E-12 89.7 12.4 127 23-168 239-399 (542)
18 TIGR03805 beta_helix_1 paralle 97.5 0.003 6.4E-08 58.0 13.4 157 3-166 59-282 (314)
19 smart00656 Amb_all Amb_all dom 96.9 0.024 5.1E-07 48.4 12.5 83 2-105 35-139 (190)
20 PF12541 DUF3737: Protein of u 96.9 0.0032 6.8E-08 56.1 7.2 19 3-22 94-112 (277)
21 PF03718 Glyco_hydro_49: Glyco 96.7 0.01 2.2E-07 57.7 9.1 112 58-180 371-513 (582)
22 PF12708 Pectate_lyase_3: Pect 96.2 0.013 2.7E-07 49.6 6.2 26 2-28 116-141 (225)
23 PF13229 Beta_helix: Right han 96.2 0.026 5.6E-07 44.6 7.6 115 1-136 3-121 (158)
24 TIGR03808 RR_plus_rpt_1 twin-a 95.3 0.084 1.8E-06 50.6 8.5 89 1-92 138-270 (455)
25 PF12541 DUF3737: Protein of u 95.3 0.055 1.2E-06 48.4 6.8 29 69-105 18-46 (277)
26 COG3866 PelB Pectate lyase [Ca 93.6 0.75 1.6E-05 42.1 10.0 21 2-23 120-140 (345)
27 PF00544 Pec_lyase_C: Pectate 93.6 0.13 2.9E-06 44.0 5.1 87 5-105 44-153 (200)
28 TIGR03805 beta_helix_1 paralle 92.8 1.8 3.9E-05 39.7 11.6 22 69-90 115-136 (314)
29 PF05048 NosD: Periplasmic cop 92.1 1.2 2.6E-05 38.5 9.0 80 3-103 40-120 (236)
30 PF03211 Pectate_lyase: Pectat 90.8 1.5 3.3E-05 38.2 8.2 95 34-139 73-182 (215)
31 PF12708 Pectate_lyase_3: Pect 90.6 2.9 6.3E-05 35.0 9.8 14 42-55 127-141 (225)
32 PF13229 Beta_helix: Right han 90.6 0.58 1.2E-05 36.7 5.2 20 72-92 34-53 (158)
33 TIGR03808 RR_plus_rpt_1 twin-a 84.3 19 0.00041 34.9 12.0 120 4-136 112-269 (455)
34 PF05048 NosD: Periplasmic cop 80.9 12 0.00027 32.1 8.8 80 42-136 50-130 (236)
35 PF00544 Pec_lyase_C: Pectate 67.3 16 0.00035 31.1 5.9 62 68-134 44-134 (200)
36 PRK10123 wcaM putative colanic 66.5 1.1E+02 0.0023 28.4 11.0 14 7-21 151-164 (464)
37 PF09251 PhageP22-tail: Salmon 66.2 38 0.00082 32.8 8.5 55 69-123 263-345 (549)
38 smart00656 Amb_all Amb_all dom 64.5 17 0.00037 30.8 5.5 61 69-134 39-120 (190)
39 COG3866 PelB Pectate lyase [Ca 58.7 1.1E+02 0.0023 28.4 9.7 62 69-135 124-205 (345)
40 PF09251 PhageP22-tail: Salmon 58.1 1.3E+02 0.0028 29.2 10.4 54 70-128 311-367 (549)
41 PLN02773 pectinesterase 46.8 1.7E+02 0.0038 27.0 9.3 48 4-57 99-151 (317)
42 smart00710 PbH1 Parallel beta- 46.1 27 0.00058 18.3 2.6 22 70-91 2-23 (26)
43 PF01696 Adeno_E1B_55K: Adenov 34.7 3.4E+02 0.0074 25.9 9.4 92 52-165 67-160 (386)
44 PF07602 DUF1565: Protein of u 34.0 3.4E+02 0.0074 24.1 9.0 17 3-20 93-109 (246)
45 PLN02480 Probable pectinestera 26.6 4E+02 0.0087 24.9 8.4 51 4-56 129-185 (343)
46 PRK10123 wcaM putative colanic 25.4 1.5E+02 0.0032 27.5 5.1 14 68-81 149-162 (464)
47 PF05342 Peptidase_M26_N: M26 23.7 1E+02 0.0022 27.5 3.7 30 151-180 211-249 (250)
No 1
>PLN03003 Probable polygalacturonase At3g15720
Probab=100.00 E-value=2.4e-44 Score=339.40 Aligned_cols=197 Identities=28% Similarity=0.484 Sum_probs=171.0
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCC-------------CCCCcccce---------eeEEeeCCceEEEcCCC
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSI-------------APNTDGIDP---------DCYIESGNGLVAVKSGW 58 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n-------------~~NtDGIdi---------nc~i~~gDD~Iaiksg~ 58 (247)
|+|.+|+|++ |+||+++|||+||+++.+|++ +|||||||+ ||+|.+||||||||+|
T Consensus 141 l~f~~~~nv~-I~gitl~NSp~w~i~i~~c~nV~i~~l~I~ap~~spNTDGIDi~~S~nV~I~n~~I~tGDDCIaiksg- 218 (456)
T PLN03003 141 LKFRSCNNLR-LSGLTHLDSPMAHIHISECNYVTISSLRINAPESSPNTDGIDVGASSNVVIQDCIIATGDDCIAINSG- 218 (456)
T ss_pred EEEEecCCcE-EeCeEEecCCcEEEEEeccccEEEEEEEEeCCCCCCCCCcEeecCcceEEEEecEEecCCCeEEeCCC-
Confidence 5799999999 999999999999999999998 799999999 9999999999999998
Q ss_pred CCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecC----CCEEEEEEEec-----------ccCCCCCccEEEEEEEEE
Q 036161 59 DHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMS----GRIFNVTVDHL-----------DTDKGRGGNIENIIIRNI 123 (247)
Q Consensus 59 ~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~----g~v~NV~v~n~-----------Kt~~G~gG~v~nI~f~nI 123 (247)
++||+|+||+|.. +|||+|||++. +.|+||+|+|| |||+|++|+|+||+|+||
T Consensus 219 ----------s~NI~I~n~~c~~--GHGISIGSlg~~g~~~~V~NV~v~n~~~~~T~nGvRIKT~~Gg~G~v~nItf~nI 286 (456)
T PLN03003 219 ----------TSNIHISGIDCGP--GHGISIGSLGKDGETATVENVCVQNCNFRGTMNGARIKTWQGGSGYARMITFNGI 286 (456)
T ss_pred ----------CccEEEEeeEEEC--CCCeEEeeccCCCCcceEEEEEEEeeEEECCCcEEEEEEeCCCCeEEEEEEEEeE
Confidence 7999999999986 59999999975 45999999999 999999999999999999
Q ss_pred EEecccccEEEEecCCCC-CCCCCC-CCCCCeEEeEEEEEEEEEecCCCC-------------EEEEeeEEEecC----C
Q 036161 124 KMERVKIPIKISRGSNGH-PDEGRD-PKAIPKIRGISFVNVFSVNTTKAP-------------ICMKNVSLLVLA----P 184 (247)
Q Consensus 124 ~~~~v~~pi~I~~~y~~~-~~~~~~-~~~~~~I~nItf~nI~~t~~~~~~-------------I~l~nV~i~~~~----~ 184 (247)
+|+++.+||.|+++|+.. +...+. +...+.|+||+|+||+|+.+...+ |+|+||+|+... .
T Consensus 287 ~m~nV~~pI~Idq~Y~~~~~~~~~~~~~s~v~IsnI~f~NI~GTs~~~~ai~l~Cs~~~PC~nI~l~ni~l~~~~~g~~~ 366 (456)
T PLN03003 287 TLDNVENPIIIDQFYNGGDSDNAKDRKSSAVEVSKVVFSNFIGTSKSEYGVDFRCSERVPCTEIFLRDMKIETASSGSGQ 366 (456)
T ss_pred EecCccceEEEEcccCCCCCCCcccCCCCCcEEEeEEEEeEEEEeCccceEEEEeCCCCCeeeEEEEEEEEEecCCCCCC
Confidence 999999999999999753 222222 234579999999999998765432 999999998752 2
Q ss_pred CcceEEEeeecccCceeC-CCCCCCCCC
Q 036161 185 SVKWQCQFVSGFNGQVFP-LPCPQLQNK 211 (247)
Q Consensus 185 ~~~~~csnv~g~~~~v~p-~pC~~~~~~ 211 (247)
...|+|+||+|.+..+.| .||.++...
T Consensus 367 ~~~~~C~Nv~G~~~~~~~~~~C~~~~~~ 394 (456)
T PLN03003 367 VAQGQCLNVRGASTIAVPGLECLELSTD 394 (456)
T ss_pred ccCcEEeccccccCceECCCCccccCCC
Confidence 357999999999755554 589988664
No 2
>PLN02793 Probable polygalacturonase
Probab=100.00 E-value=1.2e-42 Score=328.71 Aligned_cols=194 Identities=27% Similarity=0.412 Sum_probs=168.6
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCC-------------CCCCcccce---------eeEEeeCCceEEEcCCC
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSI-------------APNTDGIDP---------DCYIESGNGLVAVKSGW 58 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n-------------~~NtDGIdi---------nc~i~~gDD~Iaiksg~ 58 (247)
|+|.+|+|++ |+||+++|||+|++++.+|+| +|||||||+ ||+|++||||||||++
T Consensus 180 i~f~~~~nv~-v~gitl~nSp~~~i~~~~~~nv~i~~l~I~~p~~spNTDGIdi~~s~nV~I~n~~I~~gDDcIaik~~- 257 (443)
T PLN02793 180 ITFHKCKDLR-VENLNVIDSQQMHIAFTNCRRVTISGLKVIAPATSPNTDGIHISASRGVVIKDSIVRTGDDCISIVGN- 257 (443)
T ss_pred EEEEeeccEE-EECeEEEcCCCeEEEEEccCcEEEEEEEEECCCCCCCCCcEeeeccceEEEEeCEEeCCCCeEEecCC-
Confidence 5789999999 999999999999999999999 699999999 9999999999999997
Q ss_pred CCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeee----cCCCEEEEEEEec-----------ccCCCCCccEEEEEEEEE
Q 036161 59 DHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGRE----MSGRIFNVTVDHL-----------DTDKGRGGNIENIIIRNI 123 (247)
Q Consensus 59 ~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~----~~g~v~NV~v~n~-----------Kt~~G~gG~v~nI~f~nI 123 (247)
++||+|+||+|.. +|||+|||+ +.++|+||+|+|| |||+|++|.|+||+|+||
T Consensus 258 ----------s~nI~I~n~~c~~--GhGisIGSlg~~~~~~~V~nV~v~n~~~~~t~~GirIKt~~g~~G~v~nItf~ni 325 (443)
T PLN02793 258 ----------SSRIKIRNIACGP--GHGISIGSLGKSNSWSEVRDITVDGAFLSNTDNGVRIKTWQGGSGNASKITFQNI 325 (443)
T ss_pred ----------cCCEEEEEeEEeC--CccEEEecccCcCCCCcEEEEEEEccEEeCCCceEEEEEeCCCCEEEEEEEEEeE
Confidence 8999999999986 599999997 4578999999999 999999999999999999
Q ss_pred EEecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCCCC-------------EEEEeeEEEecCC-CcceE
Q 036161 124 KMERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTKAP-------------ICMKNVSLLVLAP-SVKWQ 189 (247)
Q Consensus 124 ~~~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~~~-------------I~l~nV~i~~~~~-~~~~~ 189 (247)
+|+++.+||.|+++|+........++..+.|+||+|+||+++++...+ |+|+||+|+.... ...+.
T Consensus 326 ~m~nv~~pI~I~q~Y~~~~~~~~~~ts~v~I~nI~~~nI~Gt~~~~~ai~l~cs~~~pc~ni~l~nI~l~~~~g~~~~~~ 405 (443)
T PLN02793 326 FMENVSNPIIIDQYYCDSRKPCANQTSAVKVENISFVHIKGTSATEEAIKFACSDSSPCEGLYLEDVQLLSSTGDFTESF 405 (443)
T ss_pred EEecCCceEEEEeeecCCCCCCCCCCCCeEEEeEEEEEEEEEEcccccEEEEeCCCCCEeeEEEEeeEEEecCCCCCCcE
Confidence 999999999999999753221122334568999999999999854321 9999999997632 35689
Q ss_pred EEeeeccc-CceeCCCCCCC
Q 036161 190 CQFVSGFN-GQVFPLPCPQL 208 (247)
Q Consensus 190 csnv~g~~-~~v~p~pC~~~ 208 (247)
|+|++|.. +.+.|.||.+-
T Consensus 406 C~n~~g~~~~~~~p~~C~~~ 425 (443)
T PLN02793 406 CWEAYGSSSGQVYPPPCFSD 425 (443)
T ss_pred EEccEEeECCeEcCCccccC
Confidence 99999997 56889999853
No 3
>PLN02155 polygalacturonase
Probab=100.00 E-value=1.3e-42 Score=324.06 Aligned_cols=192 Identities=22% Similarity=0.339 Sum_probs=166.1
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCC-------------CCCCcccce---------eeEEeeCCceEEEcCCC
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSI-------------APNTDGIDP---------DCYIESGNGLVAVKSGW 58 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n-------------~~NtDGIdi---------nc~i~~gDD~Iaiksg~ 58 (247)
|+|.+|+|++ |+||+++|||+|++|+.+|+| +|||||||+ ||+|++||||||||++
T Consensus 148 i~~~~~~nv~-i~gitl~nSp~w~i~~~~~~nv~i~~v~I~~p~~~~NtDGidi~~s~nV~I~~~~I~~gDDcIaik~g- 225 (394)
T PLN02155 148 ISFNSAKDVI-ISGVKSMNSQVSHMTLNGCTNVVVRNVKLVAPGNSPNTDGFHVQFSTGVTFTGSTVQTGDDCVAIGPG- 225 (394)
T ss_pred eeEEEeeeEE-EECeEEEcCCCeEEEEECeeeEEEEEEEEECCCCCCCCCccccccceeEEEEeeEEecCCceEEcCCC-
Confidence 5799999999 999999999999999999998 699999999 9999999999999998
Q ss_pred CCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeee----cCCCEEEEEEEec-----------ccCCC-CCccEEEEEEEE
Q 036161 59 DHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGRE----MSGRIFNVTVDHL-----------DTDKG-RGGNIENIIIRN 122 (247)
Q Consensus 59 ~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~----~~g~v~NV~v~n~-----------Kt~~G-~gG~v~nI~f~n 122 (247)
++||+|+||+|.. +|||+|||+ +.++|+||+|+|| |||.+ ++|+|+||+|+|
T Consensus 226 ----------s~nI~I~n~~c~~--GhGisIGS~g~~~~~~~V~nV~v~n~~~~~t~~GirIKT~~~~~gG~v~nI~f~n 293 (394)
T PLN02155 226 ----------TRNFLITKLACGP--GHGVSIGSLAKELNEDGVENVTVSSSVFTGSQNGVRIKSWARPSTGFVRNVFFQD 293 (394)
T ss_pred ----------CceEEEEEEEEEC--CceEEeccccccCCCCcEEEEEEEeeEEeCCCcEEEEEEecCCCCEEEEEEEEEe
Confidence 7999999999986 599999997 3688999999999 99865 789999999999
Q ss_pred EEEecccccEEEEecCCCCCCCCCC-CCCCCeEEeEEEEEEEEEecCCCC-------------EEEEeeEEEecCC-Ccc
Q 036161 123 IKMERVKIPIKISRGSNGHPDEGRD-PKAIPKIRGISFVNVFSVNTTKAP-------------ICMKNVSLLVLAP-SVK 187 (247)
Q Consensus 123 I~~~~v~~pi~I~~~y~~~~~~~~~-~~~~~~I~nItf~nI~~t~~~~~~-------------I~l~nV~i~~~~~-~~~ 187 (247)
|+|+++++||.|+++|+.... .+. +...+.|+||+|+||+++.+...+ |+|+||+|+.... ...
T Consensus 294 i~m~~v~~pI~i~q~Y~~~~~-~~~~~~s~v~i~~It~~ni~gt~~~~~a~~l~c~~~~pc~~I~l~nv~i~~~~~~~~~ 372 (394)
T PLN02155 294 LVMKNVENPIIIDQNYCPTHE-GCPNEYSGVKISQVTYKNIQGTSATQEAMKLVCSKSSPCTGITLQDIKLTYNKGTPAT 372 (394)
T ss_pred EEEcCccccEEEEecccCCCC-CCcCCCCCeEEEEEEEEeeEEEecCCceEEEEeCCCCCEEEEEEEeeEEEecCCCccC
Confidence 999999999999999975322 121 223468999999999999874322 9999999997643 357
Q ss_pred eEEEeeecccCce-eCCCCCC
Q 036161 188 WQCQFVSGFNGQV-FPLPCPQ 207 (247)
Q Consensus 188 ~~csnv~g~~~~v-~p~pC~~ 207 (247)
++|+||+|.+..+ .|.||.+
T Consensus 373 ~~C~n~~G~~~~~~~p~~c~~ 393 (394)
T PLN02155 373 SFCFNAVGKSLGVIQPTSCLN 393 (394)
T ss_pred cEEeccEeEEcccCCcccccC
Confidence 9999999996444 7888964
No 4
>PLN02188 polygalacturonase/glycoside hydrolase family protein
Probab=100.00 E-value=1.4e-42 Score=324.98 Aligned_cols=192 Identities=24% Similarity=0.391 Sum_probs=166.9
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCC-------------CCCCcccce---------eeEEeeCCceEEEcCCC
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSI-------------APNTDGIDP---------DCYIESGNGLVAVKSGW 58 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n-------------~~NtDGIdi---------nc~i~~gDD~Iaiksg~ 58 (247)
|+|..|+|+. |+|||++|||+|++|+.+|++ +|||||||+ ||+|++||||||+|++
T Consensus 158 i~f~~~~nv~-i~gitl~nSp~w~i~~~~~~~v~i~~v~I~~~~~spNtDGidi~~s~nV~I~n~~I~~GDDcIaiksg- 235 (404)
T PLN02188 158 VKFVNMNNTV-VRGITSVNSKFFHIALVECRNFKGSGLKISAPSDSPNTDGIHIERSSGVYISDSRIGTGDDCISIGQG- 235 (404)
T ss_pred EEEEeeeeEE-EeCeEEEcCCCeEEEEEccccEEEEEEEEeCCCCCCCCCcEeeeCcccEEEEeeEEeCCCcEEEEccC-
Confidence 5789999999 999999999999999999998 689999999 9999999999999998
Q ss_pred CCCCccCCCCeeeEEEEeEEEeCCCCCeEEEee----ecCCCEEEEEEEec-----------ccCCC--CCccEEEEEEE
Q 036161 59 DHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGR----EMSGRIFNVTVDHL-----------DTDKG--RGGNIENIIIR 121 (247)
Q Consensus 59 ~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS----~~~g~v~NV~v~n~-----------Kt~~G--~gG~v~nI~f~ 121 (247)
++||+|+|++|.. +|||+||| |+.++|+||+|+|| |||+| ++|.|+||+|+
T Consensus 236 ----------~~nI~I~n~~c~~--ghGisiGSlG~~~~~~~V~nV~v~n~~~~~t~~GiriKt~~g~~~~G~v~nI~f~ 303 (404)
T PLN02188 236 ----------NSQVTITRIRCGP--GHGISVGSLGRYPNEGDVTGLVVRDCTFTGTTNGIRIKTWANSPGKSAATNMTFE 303 (404)
T ss_pred ----------CccEEEEEEEEcC--CCcEEeCCCCCCCcCCcEEEEEEEeeEEECCCcEEEEEEecCCCCceEEEEEEEE
Confidence 6899999999975 59999999 77889999999999 89987 45899999999
Q ss_pred EEEEecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCCCC-------------EEEEeeEEEecCC--Cc
Q 036161 122 NIKMERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTKAP-------------ICMKNVSLLVLAP--SV 186 (247)
Q Consensus 122 nI~~~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~~~-------------I~l~nV~i~~~~~--~~ 186 (247)
||+|+++++||.|+++|+.++...-.+...+.|+||+|+||+++.+...+ |+|+||+|+...+ +.
T Consensus 304 ni~m~~v~~pI~i~~~Y~~~~~~~~~~~s~v~I~nIt~~nI~gt~~~~~a~~l~cs~~~pc~ni~~~nV~i~~~~g~~~~ 383 (404)
T PLN02188 304 NIVMNNVTNPIIIDQKYCPFYSCESKYPSGVTLSDIYFKNIRGTSSSQVAVLLKCSRGVPCQGVYLQDVHLDLSSGEGGT 383 (404)
T ss_pred eEEecCccceEEEEccccCCCCCCcCCCCCcEEEeEEEEEEEEEecCceEEEEEECCCCCEeeEEEEeeEEEecCCCCCc
Confidence 99999999999999999764321111223578999999999999864321 9999999987632 35
Q ss_pred ceEEEeeeccc-CceeCCCCC
Q 036161 187 KWQCQFVSGFN-GQVFPLPCP 206 (247)
Q Consensus 187 ~~~csnv~g~~-~~v~p~pC~ 206 (247)
.|.|+||+|.+ +.+.|.||+
T Consensus 384 ~~~C~nv~g~~~g~~~p~~C~ 404 (404)
T PLN02188 384 SSSCENVRAKYIGTQIPPPCP 404 (404)
T ss_pred CceeEcceeEEcccCcCCCCC
Confidence 79999999996 688899996
No 5
>PLN02218 polygalacturonase ADPG
Probab=100.00 E-value=1.5e-42 Score=326.88 Aligned_cols=187 Identities=26% Similarity=0.413 Sum_probs=163.3
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCC-------------CCCCcccce---------eeEEeeCCceEEEcCCC
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSI-------------APNTDGIDP---------DCYIESGNGLVAVKSGW 58 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n-------------~~NtDGIdi---------nc~i~~gDD~Iaiksg~ 58 (247)
|+|++|+|++ |+||+++|||+|++++.+|+| +|||||||+ ||+|.+||||||||+|
T Consensus 195 i~f~~~~nv~-I~gitl~nSp~w~i~~~~~~nV~i~~v~I~a~~~spNTDGIdi~ss~nV~I~n~~I~tGDDcIaIksg- 272 (431)
T PLN02218 195 LTFYNSKSLI-VKNLRVRNAQQIQISIEKCSNVQVSNVVVTAPADSPNTDGIHITNTQNIRVSNSIIGTGDDCISIESG- 272 (431)
T ss_pred EEEEccccEE-EeCeEEEcCCCEEEEEEceeeEEEEEEEEeCCCCCCCCCcEeecccceEEEEccEEecCCceEEecCC-
Confidence 4789999999 999999999999999999999 689999999 9999999999999998
Q ss_pred CCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecC----CCEEEEEEEec-----------ccCCCCCccEEEEEEEEE
Q 036161 59 DHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMS----GRIFNVTVDHL-----------DTDKGRGGNIENIIIRNI 123 (247)
Q Consensus 59 ~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~----g~v~NV~v~n~-----------Kt~~G~gG~v~nI~f~nI 123 (247)
++||+|+||+|.. +|||+||||+. ++|+||+|+|| |||+|++|+|+||+|+||
T Consensus 273 ----------s~nI~I~n~~c~~--GHGisIGS~g~~~~~~~V~nV~v~n~~~~~t~nGvRIKT~~Gg~G~v~nI~f~ni 340 (431)
T PLN02218 273 ----------SQNVQINDITCGP--GHGISIGSLGDDNSKAFVSGVTVDGAKLSGTDNGVRIKTYQGGSGTASNIIFQNI 340 (431)
T ss_pred ----------CceEEEEeEEEEC--CCCEEECcCCCCCCCceEEEEEEEccEEecCCcceEEeecCCCCeEEEEEEEEeE
Confidence 8999999999985 59999999974 57999999999 999999999999999999
Q ss_pred EEecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCCCC-------------EEEEeeEEEecCCCcceEE
Q 036161 124 KMERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTKAP-------------ICMKNVSLLVLAPSVKWQC 190 (247)
Q Consensus 124 ~~~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~~~-------------I~l~nV~i~~~~~~~~~~c 190 (247)
+|+++++||.|+++|+.++.... ++..+.|+||+|+||+++++...+ |+|+||+|+.. ...|
T Consensus 341 ~m~~V~~pI~Idq~Y~~~~~~~~-~~s~v~I~nI~~~NI~gtsa~~~ai~l~cs~~~pc~nI~l~nV~i~~~----~~~c 415 (431)
T PLN02218 341 QMENVKNPIIIDQDYCDKSKCTS-QQSAVQVKNVVYRNISGTSASDVAITFNCSKNYPCQGIVLDNVNIKGG----KATC 415 (431)
T ss_pred EEEcccccEEEEeeccCCCCCCC-CCCCeEEEEEEEEeEEEEecCCcEEEEEECCCCCEeeEEEEeEEEECC----eeeE
Confidence 99999999999999986543222 234568999999999999764321 89999999863 4579
Q ss_pred EeeecccCceeCCCCC
Q 036161 191 QFVSGFNGQVFPLPCP 206 (247)
Q Consensus 191 snv~g~~~~v~p~pC~ 206 (247)
+||++....+.+++|.
T Consensus 416 ~n~~~~~~~~~~p~c~ 431 (431)
T PLN02218 416 TNANVVDKGAVSPQCN 431 (431)
T ss_pred EEeeEEEcccCCCCCC
Confidence 9999987555555784
No 6
>PLN03010 polygalacturonase
Probab=100.00 E-value=1.3e-41 Score=318.29 Aligned_cols=193 Identities=25% Similarity=0.391 Sum_probs=167.7
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCC-------------CCCCcccce---------eeEEeeCCceEEEcCCC
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSI-------------APNTDGIDP---------DCYIESGNGLVAVKSGW 58 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n-------------~~NtDGIdi---------nc~i~~gDD~Iaiksg~ 58 (247)
|+|.+|+|++ |+||+++|||+|++++.+|++ +|||||||+ ||+|.+||||||||++
T Consensus 160 l~~~~~~nv~-v~gitl~nsp~~~i~i~~~~nv~i~~i~I~a~~~s~NTDGiDi~~s~nV~I~n~~I~~gDDcIaiksg- 237 (409)
T PLN03010 160 LHISKCDNLT-INGITSIDSPKNHISIKTCNYVAISKINILAPETSPNTDGIDISYSTNINIFDSTIQTGDDCIAINSG- 237 (409)
T ss_pred EEEEeecCeE-EeeeEEEcCCceEEEEeccccEEEEEEEEeCCCCCCCCCceeeeccceEEEEeeEEecCCCeEEecCC-
Confidence 5789999999 999999999999999999998 689999999 9999999999999998
Q ss_pred CCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCC----EEEEEEEec-----------ccCCCCCccEEEEEEEEE
Q 036161 59 DHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGR----IFNVTVDHL-----------DTDKGRGGNIENIIIRNI 123 (247)
Q Consensus 59 ~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~----v~NV~v~n~-----------Kt~~G~gG~v~nI~f~nI 123 (247)
+.|+.|+++.|.. +|||+|||++.++ |+||+|+|| |||+|++|+|+||+|+||
T Consensus 238 ----------s~ni~I~~~~C~~--gHGisIGS~g~~~~~~~V~nV~v~n~~i~~t~~GirIKt~~G~~G~v~nItf~nI 305 (409)
T PLN03010 238 ----------SSNINITQINCGP--GHGISVGSLGADGANAKVSDVHVTHCTFNQTTNGARIKTWQGGQGYARNISFENI 305 (409)
T ss_pred ----------CCcEEEEEEEeEC--cCCEEEccCCCCCCCCeeEEEEEEeeEEeCCCcceEEEEecCCCEEEEEeEEEeE
Confidence 6789999999975 5999999997654 999999999 999999999999999999
Q ss_pred EEecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCCCC-------------EEEEeeEEEecC-CCcceE
Q 036161 124 KMERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTKAP-------------ICMKNVSLLVLA-PSVKWQ 189 (247)
Q Consensus 124 ~~~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~~~-------------I~l~nV~i~~~~-~~~~~~ 189 (247)
+|+++++||.|+++|+........++....|+||+|+||+++.+...+ |+|+||+|+... .++.+.
T Consensus 306 ~m~~v~~pI~I~q~Y~~~~~~~~~~~s~v~Isdi~~~ni~GT~~~~~~i~l~Cs~~~pC~ni~~~~v~l~~~~g~~~~~~ 385 (409)
T PLN03010 306 TLINTKNPIIIDQQYIDKGKLDATKDSAVAISNVKYVGFRGTTSNENAITLKCSAITHCKDVVMDDIDVTMENGEKPKVE 385 (409)
T ss_pred EEecCCccEEEEeeccCCCCCCCCCCCceEEEeEEEEeeEEEeCCCccEEEEeCCCCCEeceEEEEEEEEecCCCccceE
Confidence 999999999999999753322222345568999999999999654221 999999999764 346899
Q ss_pred EEeeeccc-CceeCCCCCC
Q 036161 190 CQFVSGFN-GQVFPLPCPQ 207 (247)
Q Consensus 190 csnv~g~~-~~v~p~pC~~ 207 (247)
|.|+.|.+ +.+.|.+|.+
T Consensus 386 C~nv~g~~~~~~~~~~C~~ 404 (409)
T PLN03010 386 CQNVEGESSDTDLMRDCFK 404 (409)
T ss_pred eeCccccccCCCCCCcccc
Confidence 99999976 6677888985
No 7
>PF00295 Glyco_hydro_28: Glycosyl hydrolases family 28; InterPro: IPR000743 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 28 GH28 from CAZY comprises enzymes with several known activities; polygalacturonase (3.2.1.15 from EC); exo-polygalacturonase (3.2.1.67 from EC); exo-polygalacturonase (3.2.1.82 from EC); rhamnogalacturonase (EC not defined). Polygalacturonase (PG) (pectinase) [, ] catalyses the random hydrolysis of 1,4-alpha-D-galactosiduronic linkages in pectate and other galacturonans. In fruit, polygalacturonase plays an important role in cell wall metabolism during ripening. In plant bacterial pathogens such as Erwinia carotovora or Ralstonia solanacearum (Pseudomonas solanacearum) and fungal pathogens such as Aspergillus niger, polygalacturonase is involved in maceration and soft-rotting of plant tissue. Exo-poly-alpha-D-galacturonosidase (3.2.1.82 from EC) (exoPG) [] hydrolyses peptic acid from the non-reducing end, releasing digalacturonate. PG and exoPG share a few regions of sequence similarity, and belong to family 28 of the glycosyl hydrolases.; GO: 0004650 polygalacturonase activity, 0005975 carbohydrate metabolic process; PDB: 1KCC_A 1KCD_A 1K5C_A 1HG8_A 2IQ7_A 2UVF_B 1RMG_A 1CZF_B 3JUR_C 1BHE_A ....
Probab=100.00 E-value=2.8e-38 Score=289.35 Aligned_cols=178 Identities=37% Similarity=0.543 Sum_probs=152.9
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCC-------------CCCCcccce---------eeEEeeCCceEEEcCCC
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSI-------------APNTDGIDP---------DCYIESGNGLVAVKSGW 58 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n-------------~~NtDGIdi---------nc~i~~gDD~Iaiksg~ 58 (247)
|+|.+|+|++ |+||+++|||+|++++.+|+| .+||||||+ ||+|++||||||||++
T Consensus 95 i~~~~~~~~~-i~~i~~~nsp~w~~~~~~~~nv~i~~i~I~~~~~~~NtDGid~~~s~nv~I~n~~i~~gDD~Iaiks~- 172 (326)
T PF00295_consen 95 IRFNNCKNVT-IEGITIRNSPFWHIHINDCDNVTISNITINNPANSPNTDGIDIDSSKNVTIENCFIDNGDDCIAIKSG- 172 (326)
T ss_dssp EEEEEEEEEE-EESEEEES-SSESEEEESEEEEEEESEEEEEGGGCTS--SEEEESEEEEEEESEEEESSSESEEESSE-
T ss_pred eeeeeecceE-EEeeEecCCCeeEEEEEccCCeEEcceEEEecCCCCCcceEEEEeeeEEEEEEeecccccCccccccc-
Confidence 5789999999 999999999999999999998 699999999 9999999999999998
Q ss_pred CCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCC----CEEEEEEEec-----------ccCCCCCccEEEEEEEEE
Q 036161 59 DHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSG----RIFNVTVDHL-----------DTDKGRGGNIENIIIRNI 123 (247)
Q Consensus 59 ~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g----~v~NV~v~n~-----------Kt~~G~gG~v~nI~f~nI 123 (247)
..||+|+||+|.. +|||+|||++.+ .|+||+|+|| ||++|++|.|+||+||||
T Consensus 173 ----------~~ni~v~n~~~~~--ghGisiGS~~~~~~~~~i~nV~~~n~~i~~t~~gi~iKt~~~~~G~v~nI~f~ni 240 (326)
T PF00295_consen 173 ----------SGNILVENCTCSG--GHGISIGSEGSGGSQNDIRNVTFENCTIINTDNGIRIKTWPGGGGYVSNITFENI 240 (326)
T ss_dssp ----------ECEEEEESEEEES--SSEEEEEEESSSSE--EEEEEEEEEEEEESESEEEEEEEETTTSEEEEEEEEEEE
T ss_pred ----------ccceEEEeEEEec--cccceeeeccCCccccEEEeEEEEEEEeeccceEEEEEEecccceEEeceEEEEE
Confidence 5599999999986 599999999876 4999999999 899999999999999999
Q ss_pred EEecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCC-CC------------EEEEeeEEEecCCCcceEE
Q 036161 124 KMERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTK-AP------------ICMKNVSLLVLAPSVKWQC 190 (247)
Q Consensus 124 ~~~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~-~~------------I~l~nV~i~~~~~~~~~~c 190 (247)
+|+++.+||.|++.|..... ...++..+.|+||+|+||+++.... +. |+|+||+|+. ....+.|
T Consensus 241 ~~~~v~~pi~i~~~y~~~~~-~~~~~~~~~i~nI~~~nitg~~~~~~~i~i~~~~~~~~~ni~f~nv~i~~--g~~~~~c 317 (326)
T PF00295_consen 241 TMENVKYPIFIDQDYRDGGP-CGKPPSGVSISNITFRNITGTSAGSSAISIDCSPGSPCSNITFENVNITG--GKKPAQC 317 (326)
T ss_dssp EEEEESEEEEEEEEECTTEE-SSCSSSSSEEEEEEEEEEEEEESTSEEEEEE-BTTSSEEEEEEEEEEEES--SBSESEE
T ss_pred EecCCceEEEEEeccccccc-cCcccCCceEEEEEEEeeEEEeccceEEEEEECCcCcEEeEEEEeEEEEc--CCcCeEE
Confidence 99999999999999876211 1122345689999999999998762 11 9999999998 2568999
Q ss_pred Eeeec
Q 036161 191 QFVSG 195 (247)
Q Consensus 191 snv~g 195 (247)
.|+..
T Consensus 318 ~nv~~ 322 (326)
T PF00295_consen 318 KNVPS 322 (326)
T ss_dssp BSCCT
T ss_pred ECCCC
Confidence 99753
No 8
>COG5434 PGU1 Endopygalactorunase [Cell envelope biogenesis, outer membrane]
Probab=99.93 E-value=8.2e-26 Score=216.77 Aligned_cols=133 Identities=39% Similarity=0.651 Sum_probs=124.2
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCC-----------CC-CCcccce---------eeEEeeCCceEEEcCCCC
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSI-----------AP-NTDGIDP---------DCYIESGNGLVAVKSGWD 59 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n-----------~~-NtDGIdi---------nc~i~~gDD~Iaiksg~~ 59 (247)
+.|..|+||+ ++|+++.|+|.|++|+..|+| .+ |+||||+ +|+|++|||||++|+|..
T Consensus 241 ~~l~~c~NV~-~~g~~i~ns~~~~~h~~~~~nl~~~nl~I~~~~~~NtDG~d~~sc~NvlI~~~~fdtgDD~I~iksg~~ 319 (542)
T COG5434 241 VVLKGCRNVL-LEGLNIKNSPLWTVHPVDCDNLTFRNLTIDANRFDNTDGFDPGSCSNVLIEGCRFDTGDDCIAIKSGAG 319 (542)
T ss_pred EEEeccceEE-EeeeEecCCCcEEEeeecccCceecceEEECCCCCCCCccccccceeEEEeccEEecCCceEEeecccC
Confidence 4789999999 999999999999999999998 33 9999999 999999999999999998
Q ss_pred CCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEec-----------ccCCCCCccEEEEEEEEEEEecc
Q 036161 60 HDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHL-----------DTDKGRGGNIENIIIRNIKMERV 128 (247)
Q Consensus 60 ~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~-----------Kt~~G~gG~v~nI~f~nI~~~~v 128 (247)
.++.+..+|++||.|+||++..+ +.++.+|||+.++|+||++||| ||..++||.++||+|++++|.++
T Consensus 320 ~~~~~~~~~~~~i~i~~c~~~~g-hG~~v~Gse~~ggv~ni~ved~~~~~~d~GLRikt~~~~gG~v~nI~~~~~~~~nv 398 (542)
T COG5434 320 LDGKKGYGPSRNIVIRNCYFSSG-HGGLVLGSEMGGGVQNITVEDCVMDNTDRGLRIKTNDGRGGGVRNIVFEDNKMRNV 398 (542)
T ss_pred CcccccccccccEEEecceeccc-ccceEeeeecCCceeEEEEEeeeeccCcceeeeeeecccceeEEEEEEecccccCc
Confidence 88877889999999999999988 8889999999999999999999 88899999999999999999999
Q ss_pred cccEEEE
Q 036161 129 KIPIKIS 135 (247)
Q Consensus 129 ~~pi~I~ 135 (247)
..+..|.
T Consensus 399 ~t~~~i~ 405 (542)
T COG5434 399 KTKLSIN 405 (542)
T ss_pred ccceeee
Confidence 7666555
No 9
>PLN03003 Probable polygalacturonase At3g15720
Probab=99.62 E-value=1.4e-14 Score=137.50 Aligned_cols=146 Identities=17% Similarity=0.223 Sum_probs=109.4
Q ss_pred CeEeeecCcEEeeceEEeCC---CCc--------eEEEecCCC-------CCC----------Ccccce-eeEEeeCCce
Q 036161 1 VELMNSNNILIISNLAFCNS---PFR--------TIHPVYCSI-------APN----------TDGIDP-DCYIESGNGL 51 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~ns---p~w--------~i~~~~c~n-------~~N----------tDGIdi-nc~i~~gDD~ 51 (247)
|.|.+.+++. |.|==.++. ..| .+++..|+| ..| .+++.+ +-+|.+-.
T Consensus 107 I~f~~~~~i~-I~G~GtIDGqG~~wW~~~~~rP~~l~f~~~~nv~I~gitl~NSp~w~i~i~~c~nV~i~~l~I~ap~-- 183 (456)
T PLN03003 107 ILFTDIEGLV-IEGDGEINGQGSSWWEHKGSRPTALKFRSCNNLRLSGLTHLDSPMAHIHISECNYVTISSLRINAPE-- 183 (456)
T ss_pred EEEEcccceE-EeccceEeCCchhhhhcccCCceEEEEEecCCcEEeCeEEecCCcEEEEEeccccEEEEEEEEeCCC--
Confidence 4577888888 877434432 224 477888888 122 233333 44443321
Q ss_pred EEEcCCCCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEecccCCCCC------------ccEEEEE
Q 036161 52 VAVKSGWDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHLDTDKGRG------------GNIENII 119 (247)
Q Consensus 52 Iaiksg~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~g------------G~v~nI~ 119 (247)
...++||++... ++||+|+||.+.++ ++||+|++. -+||+|+|+.+.+|+| +.|+||+
T Consensus 184 ----~spNTDGIDi~~-S~nV~I~n~~I~tG-DDCIaiksg----s~NI~I~n~~c~~GHGISIGSlg~~g~~~~V~NV~ 253 (456)
T PLN03003 184 ----SSPNTDGIDVGA-SSNVVIQDCIIATG-DDCIAINSG----TSNIHISGIDCGPGHGISIGSLGKDGETATVENVC 253 (456)
T ss_pred ----CCCCCCcEeecC-cceEEEEecEEecC-CCeEEeCCC----CccEEEEeeEEECCCCeEEeeccCCCCcceEEEEE
Confidence 246899999876 89999999999999 999999985 4899999997777654 3599999
Q ss_pred EEEEEEecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCC
Q 036161 120 IRNIKMERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTK 169 (247)
Q Consensus 120 f~nI~~~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~ 169 (247)
|+|++|.+..++++|+++.+ +.+.++||+|+||++.++..
T Consensus 254 v~n~~~~~T~nGvRIKT~~G----------g~G~v~nItf~nI~m~nV~~ 293 (456)
T PLN03003 254 VQNCNFRGTMNGARIKTWQG----------GSGYARMITFNGITLDNVEN 293 (456)
T ss_pred EEeeEEECCCcEEEEEEeCC----------CCeEEEEEEEEeEEecCccc
Confidence 99999999999999998532 23689999999999997654
No 10
>PLN02218 polygalacturonase ADPG
Probab=99.62 E-value=1.6e-14 Score=136.78 Aligned_cols=97 Identities=19% Similarity=0.238 Sum_probs=84.4
Q ss_pred CCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEecccCCCCC------------ccEEEEEEEEEEE
Q 036161 58 WDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHLDTDKGRG------------GNIENIIIRNIKM 125 (247)
Q Consensus 58 ~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~g------------G~v~nI~f~nI~~ 125 (247)
.++||++... ++||+|+||++.++ +++|+|+|. -+||+|+||.+.+|+| +.|+||+|+|+++
T Consensus 240 pNTDGIdi~s-s~nV~I~n~~I~tG-DDcIaIksg----s~nI~I~n~~c~~GHGisIGS~g~~~~~~~V~nV~v~n~~~ 313 (431)
T PLN02218 240 PNTDGIHITN-TQNIRVSNSIIGTG-DDCISIESG----SQNVQINDITCGPGHGISIGSLGDDNSKAFVSGVTVDGAKL 313 (431)
T ss_pred CCCCcEeecc-cceEEEEccEEecC-CceEEecCC----CceEEEEeEEEECCCCEEECcCCCCCCCceEEEEEEEccEE
Confidence 5899999865 89999999999999 999999984 5899999997777765 4799999999999
Q ss_pred ecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCCC
Q 036161 126 ERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTKA 170 (247)
Q Consensus 126 ~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~~ 170 (247)
.+..++++|+++-+ +.+.++||+|+||++.++..+
T Consensus 314 ~~t~nGvRIKT~~G----------g~G~v~nI~f~ni~m~~V~~p 348 (431)
T PLN02218 314 SGTDNGVRIKTYQG----------GSGTASNIIFQNIQMENVKNP 348 (431)
T ss_pred ecCCcceEEeecCC----------CCeEEEEEEEEeEEEEccccc
Confidence 99999999998421 236899999999999987654
No 11
>PLN03010 polygalacturonase
Probab=99.59 E-value=7.3e-14 Score=131.51 Aligned_cols=158 Identities=17% Similarity=0.285 Sum_probs=115.8
Q ss_pred eEeeecCcEEeeceEEeCC---CCc-eEEEecCCC----------CC-------CCcccce-eeEEeeCCceEEEcCCCC
Q 036161 2 ELMNSNNILIISNLAFCNS---PFR-TIHPVYCSI----------AP-------NTDGIDP-DCYIESGNGLVAVKSGWD 59 (247)
Q Consensus 2 ~~~~~~nv~~I~giti~ns---p~w-~i~~~~c~n----------~~-------NtDGIdi-nc~i~~gDD~Iaiksg~~ 59 (247)
.|.+.+||. |.|==.++. ..| .+++..|+| +| +.+++.+ +..|.+-. ..++
T Consensus 134 ~f~~v~nv~-I~G~G~IDG~G~~ww~~l~~~~~~nv~v~gitl~nsp~~~i~i~~~~nv~i~~i~I~a~~------~s~N 206 (409)
T PLN03010 134 SFSTVSGLM-IDGSGTIDGRGSSFWEALHISKCDNLTINGITSIDSPKNHISIKTCNYVAISKINILAPE------TSPN 206 (409)
T ss_pred EEecccccE-EeeceEEeCCCccccceEEEEeecCeEEeeeEEEcCCceEEEEeccccEEEEEEEEeCCC------CCCC
Confidence 466778888 877545543 235 488899998 22 3444444 55554422 2378
Q ss_pred CCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEecccCCCCC------------ccEEEEEEEEEEEec
Q 036161 60 HDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHLDTDKGRG------------GNIENIIIRNIKMER 127 (247)
Q Consensus 60 ~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~g------------G~v~nI~f~nI~~~~ 127 (247)
+||++... ++||+|+||++.++ +++|+|++.+ .|+.|+++.+.+|+| +.|+||+|+|++|.+
T Consensus 207 TDGiDi~~-s~nV~I~n~~I~~g-DDcIaiksgs----~ni~I~~~~C~~gHGisIGS~g~~~~~~~V~nV~v~n~~i~~ 280 (409)
T PLN03010 207 TDGIDISY-STNINIFDSTIQTG-DDCIAINSGS----SNINITQINCGPGHGISVGSLGADGANAKVSDVHVTHCTFNQ 280 (409)
T ss_pred CCceeeec-cceEEEEeeEEecC-CCeEEecCCC----CcEEEEEEEeECcCCEEEccCCCCCCCCeeEEEEEEeeEEeC
Confidence 99999865 89999999999999 9999999953 355666554444433 359999999999999
Q ss_pred ccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCCCC-------------------EEEEeeEEEec
Q 036161 128 VKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTKAP-------------------ICMKNVSLLVL 182 (247)
Q Consensus 128 v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~~~-------------------I~l~nV~i~~~ 182 (247)
..++++|+.+.+ +.+.++||+|+||++.++..+. +.++||+++..
T Consensus 281 t~~GirIKt~~G----------~~G~v~nItf~nI~m~~v~~pI~I~q~Y~~~~~~~~~~~s~v~Isdi~~~ni 344 (409)
T PLN03010 281 TTNGARIKTWQG----------GQGYARNISFENITLINTKNPIIIDQQYIDKGKLDATKDSAVAISNVKYVGF 344 (409)
T ss_pred CCcceEEEEecC----------CCEEEEEeEEEeEEEecCCccEEEEeeccCCCCCCCCCCCceEEEeEEEEee
Confidence 999999998532 2368999999999999865432 77888888764
No 12
>PLN02793 Probable polygalacturonase
Probab=99.56 E-value=1.1e-13 Score=131.59 Aligned_cols=96 Identities=16% Similarity=0.267 Sum_probs=83.4
Q ss_pred CCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEecccCCCCC------------ccEEEEEEEEEEE
Q 036161 58 WDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHLDTDKGRG------------GNIENIIIRNIKM 125 (247)
Q Consensus 58 ~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~g------------G~v~nI~f~nI~~ 125 (247)
.++||++... ++||+|+||++.++ +++|+|++. -+||+|+|+.+.+|+| +.|+||+|+|++|
T Consensus 225 pNTDGIdi~~-s~nV~I~n~~I~~g-DDcIaik~~----s~nI~I~n~~c~~GhGisIGSlg~~~~~~~V~nV~v~n~~~ 298 (443)
T PLN02793 225 PNTDGIHISA-SRGVVIKDSIVRTG-DDCISIVGN----SSRIKIRNIACGPGHGISIGSLGKSNSWSEVRDITVDGAFL 298 (443)
T ss_pred CCCCcEeeec-cceEEEEeCEEeCC-CCeEEecCC----cCCEEEEEeEEeCCccEEEecccCcCCCCcEEEEEEEccEE
Confidence 6899999865 89999999999999 999999874 4899999998777765 4699999999999
Q ss_pred ecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCC
Q 036161 126 ERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTK 169 (247)
Q Consensus 126 ~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~ 169 (247)
.+..++++|+++.+ +.+.++||+|+||+++++..
T Consensus 299 ~~t~~GirIKt~~g----------~~G~v~nItf~ni~m~nv~~ 332 (443)
T PLN02793 299 SNTDNGVRIKTWQG----------GSGNASKITFQNIFMENVSN 332 (443)
T ss_pred eCCCceEEEEEeCC----------CCEEEEEEEEEeEEEecCCc
Confidence 99999999998532 23689999999999998754
No 13
>PLN02155 polygalacturonase
Probab=99.53 E-value=2e-13 Score=128.06 Aligned_cols=99 Identities=17% Similarity=0.241 Sum_probs=83.4
Q ss_pred CCCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEecccCCCCC------------ccEEEEEEEEEE
Q 036161 57 GWDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHLDTDKGRG------------GNIENIIIRNIK 124 (247)
Q Consensus 57 g~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~g------------G~v~nI~f~nI~ 124 (247)
++++||++... ++||+|+||++.++ +++|+|++. -+||+|+|+.+.+|+| |.|+||+++|++
T Consensus 192 ~~NtDGidi~~-s~nV~I~~~~I~~g-DDcIaik~g----s~nI~I~n~~c~~GhGisIGS~g~~~~~~~V~nV~v~n~~ 265 (394)
T PLN02155 192 SPNTDGFHVQF-STGVTFTGSTVQTG-DDCVAIGPG----TRNFLITKLACGPGHGVSIGSLAKELNEDGVENVTVSSSV 265 (394)
T ss_pred CCCCCcccccc-ceeEEEEeeEEecC-CceEEcCCC----CceEEEEEEEEECCceEEeccccccCCCCcEEEEEEEeeE
Confidence 47899999865 99999999999999 999999984 4899999996665544 469999999999
Q ss_pred EecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCCC
Q 036161 125 MERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTKA 170 (247)
Q Consensus 125 ~~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~~ 170 (247)
|.+..++++|+++.+ ...+.++||+|+||+++++..+
T Consensus 266 ~~~t~~GirIKT~~~---------~~gG~v~nI~f~ni~m~~v~~p 302 (394)
T PLN02155 266 FTGSQNGVRIKSWAR---------PSTGFVRNVFFQDLVMKNVENP 302 (394)
T ss_pred EeCCCcEEEEEEecC---------CCCEEEEEEEEEeEEEcCcccc
Confidence 999999999998422 1236899999999999987543
No 14
>PLN02188 polygalacturonase/glycoside hydrolase family protein
Probab=99.48 E-value=2.1e-12 Score=121.66 Aligned_cols=98 Identities=23% Similarity=0.382 Sum_probs=81.6
Q ss_pred CCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEecccCCCCC------------ccEEEEEEEEEEE
Q 036161 58 WDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHLDTDKGRG------------GNIENIIIRNIKM 125 (247)
Q Consensus 58 ~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~g------------G~v~nI~f~nI~~ 125 (247)
.++||++... ++||+|+||++.++ ++||+|++.. +||+|+|+.+.+|+| +.|+||+|+|+++
T Consensus 203 pNtDGidi~~-s~nV~I~n~~I~~G-DDcIaiksg~----~nI~I~n~~c~~ghGisiGSlG~~~~~~~V~nV~v~n~~~ 276 (404)
T PLN02188 203 PNTDGIHIER-SSGVYISDSRIGTG-DDCISIGQGN----SQVTITRIRCGPGHGISVGSLGRYPNEGDVTGLVVRDCTF 276 (404)
T ss_pred CCCCcEeeeC-cccEEEEeeEEeCC-CcEEEEccCC----ccEEEEEEEEcCCCcEEeCCCCCCCcCCcEEEEEEEeeEE
Confidence 5899999865 89999999999999 9999998843 799999996655543 5699999999999
Q ss_pred ecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCC
Q 036161 126 ERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTK 169 (247)
Q Consensus 126 ~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~ 169 (247)
.+..++++|+++.+. + ..+.++||+|+||++.++..
T Consensus 277 ~~t~~GiriKt~~g~-~-------~~G~v~nI~f~ni~m~~v~~ 312 (404)
T PLN02188 277 TGTTNGIRIKTWANS-P-------GKSAATNMTFENIVMNNVTN 312 (404)
T ss_pred ECCCcEEEEEEecCC-C-------CceEEEEEEEEeEEecCccc
Confidence 999999999985321 1 23689999999999998654
No 15
>PF00295 Glyco_hydro_28: Glycosyl hydrolases family 28; InterPro: IPR000743 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Glycoside hydrolase family 28 GH28 from CAZY comprises enzymes with several known activities; polygalacturonase (3.2.1.15 from EC); exo-polygalacturonase (3.2.1.67 from EC); exo-polygalacturonase (3.2.1.82 from EC); rhamnogalacturonase (EC not defined). Polygalacturonase (PG) (pectinase) [, ] catalyses the random hydrolysis of 1,4-alpha-D-galactosiduronic linkages in pectate and other galacturonans. In fruit, polygalacturonase plays an important role in cell wall metabolism during ripening. In plant bacterial pathogens such as Erwinia carotovora or Ralstonia solanacearum (Pseudomonas solanacearum) and fungal pathogens such as Aspergillus niger, polygalacturonase is involved in maceration and soft-rotting of plant tissue. Exo-poly-alpha-D-galacturonosidase (3.2.1.82 from EC) (exoPG) [] hydrolyses peptic acid from the non-reducing end, releasing digalacturonate. PG and exoPG share a few regions of sequence similarity, and belong to family 28 of the glycosyl hydrolases.; GO: 0004650 polygalacturonase activity, 0005975 carbohydrate metabolic process; PDB: 1KCC_A 1KCD_A 1K5C_A 1HG8_A 2IQ7_A 2UVF_B 1RMG_A 1CZF_B 3JUR_C 1BHE_A ....
Probab=99.42 E-value=2e-12 Score=118.72 Aligned_cols=95 Identities=21% Similarity=0.289 Sum_probs=78.2
Q ss_pred CCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEecccCCCCC---------c---cEEEEEEEEEEE
Q 036161 58 WDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHLDTDKGRG---------G---NIENIIIRNIKM 125 (247)
Q Consensus 58 ~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~g---------G---~v~nI~f~nI~~ 125 (247)
.++||++... ++||+|+||.+.++ +++|+|++... ||+++||..+.|+| + .|+||+|+|+++
T Consensus 140 ~NtDGid~~~-s~nv~I~n~~i~~g-DD~Iaiks~~~----ni~v~n~~~~~ghGisiGS~~~~~~~~~i~nV~~~n~~i 213 (326)
T PF00295_consen 140 PNTDGIDIDS-SKNVTIENCFIDNG-DDCIAIKSGSG----NILVENCTCSGGHGISIGSEGSGGSQNDIRNVTFENCTI 213 (326)
T ss_dssp TS--SEEEES-EEEEEEESEEEESS-SESEEESSEEC----EEEEESEEEESSSEEEEEEESSSSE--EEEEEEEEEEEE
T ss_pred CCcceEEEEe-eeEEEEEEeecccc-cCccccccccc----ceEEEeEEEeccccceeeeccCCccccEEEeEEEEEEEe
Confidence 6789998865 99999999999999 99999999654 99999995544432 2 599999999999
Q ss_pred ecccccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecC
Q 036161 126 ERVKIPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTT 168 (247)
Q Consensus 126 ~~v~~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~ 168 (247)
.+..++++|++..+ ..+.|+||+|+||+++++.
T Consensus 214 ~~t~~gi~iKt~~~----------~~G~v~nI~f~ni~~~~v~ 246 (326)
T PF00295_consen 214 INTDNGIRIKTWPG----------GGGYVSNITFENITMENVK 246 (326)
T ss_dssp ESESEEEEEEEETT----------TSEEEEEEEEEEEEEEEES
T ss_pred eccceEEEEEEecc----------cceEEeceEEEEEEecCCc
Confidence 99999999998431 2468999999999999765
No 16
>PF03718 Glyco_hydro_49: Glycosyl hydrolase family 49; InterPro: IPR005192 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is a family of dextranase (3.2.1.11 from EC) and isopullulanase (3.2.1.57 from EC) which are all members of glycoside hydrolase family 49 (GH49 from CAZY). Dextranase hydrolyses alpha-1,6-glycosidic bonds in dextran polymers.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 1X0C_A 1WMR_A 2Z8G_B 1OGM_X 1OGO_X.
Probab=99.18 E-value=5.2e-10 Score=106.84 Aligned_cols=117 Identities=19% Similarity=0.259 Sum_probs=72.2
Q ss_pred eeecCcEEeeceEEeCCCCceEEEecCCC----------------CCCCcccce-------eeEEeeCCceEEEcCCCCC
Q 036161 4 MNSNNILIISNLAFCNSPFRTIHPVYCSI----------------APNTDGIDP-------DCYIESGNGLVAVKSGWDH 60 (247)
Q Consensus 4 ~~~~nv~~I~giti~nsp~w~i~~~~c~n----------------~~NtDGIdi-------nc~i~~gDD~Iaiksg~~~ 60 (247)
..+.+++ ++|+||.++|+|++.+..-.+ -.|||||.+ ||++++.||+|-+.
T Consensus 326 ~g~q~~~-~~GiTI~~pP~~Sm~l~g~~~~~~~~~i~nyKqVGaW~~qtDGi~ly~nS~i~dcF~h~nDD~iKlY----- 399 (582)
T PF03718_consen 326 NGGQTLT-CEGITINDPPFHSMDLYGNENDKFSMNISNYKQVGAWYFQTDGIELYPNSTIRDCFIHVNDDAIKLY----- 399 (582)
T ss_dssp SSSEEEE-EES-EEE--SS-SEEEESSSGGGEEEEEEEEEEE---CTT----B--TT-EEEEEEEEESS-SEE-------
T ss_pred CCcceEE-EEeeEecCCCcceEEecCCccccccceeeceeeeeeEEeccCCccccCCCeeeeeEEEecCchhhee-----
Confidence 3466889 999999999999999984432 679999999 99999999998554
Q ss_pred CCccCCCCeeeEEEEeEEEeCC-CCCeEEEeeecCCCEEEEEEEec--------c--------------cCCC--C----
Q 036161 61 DGIAMARPSSNIAVRRVSGTTP-TCSGVGIGREMSGRIFNVTVDHL--------D--------------TDKG--R---- 111 (247)
Q Consensus 61 ~G~~~~~ps~nI~I~n~~~~~~-~~~gIsIGS~~~g~v~NV~v~n~--------K--------------t~~G--~---- 111 (247)
-+++.|+||++|.. .+.-|.+|.. ...++||+|+|+ + .+.+ .
T Consensus 400 --------hS~v~v~~~ViWk~~Ngpiiq~GW~-pr~isnv~veni~IIh~r~~~~~~~~n~~I~~ss~~y~~~~s~~~a 470 (582)
T PF03718_consen 400 --------HSNVSVSNTVIWKNENGPIIQWGWT-PRNISNVSVENIDIIHNRWIWHNNYVNTAILGSSPFYDDMASTKTA 470 (582)
T ss_dssp --------STTEEEEEEEEEE-SSS-SEE--CS----EEEEEEEEEEEEE---SSGGCTTT-ECEEE--BTTS-SSS--B
T ss_pred --------ecCcceeeeEEEecCCCCeEEeecc-ccccCceEEeeeEEEeeeeecccCCCCceeEecccccccccCCCCC
Confidence 26999999999974 2344777764 446899999998 0 0100 0
Q ss_pred --CccEEEEEEEEEEEecccc-cEEEE
Q 036161 112 --GGNIENIIIRNIKMERVKI-PIKIS 135 (247)
Q Consensus 112 --gG~v~nI~f~nI~~~~v~~-pi~I~ 135 (247)
.-.||+++|+|++.++... .++|.
T Consensus 471 dp~~ti~~~~~~nv~~EG~~~~l~ri~ 497 (582)
T PF03718_consen 471 DPSTTIRNMTFSNVRCEGMCPCLFRIY 497 (582)
T ss_dssp EEEEEEEEEEEEEEEEECCE-ECEEE-
T ss_pred CcccceeeEEEEeEEEecccceeEEEe
Confidence 1367888999999887654 44554
No 17
>COG5434 PGU1 Endopygalactorunase [Cell envelope biogenesis, outer membrane]
Probab=98.66 E-value=2.6e-07 Score=89.73 Aligned_cols=127 Identities=19% Similarity=0.214 Sum_probs=95.7
Q ss_pred ceEEEecCCC-------CCCCccc--ce---------eeEEeeCCceEEEcCCCCCCCccCCCCeeeEEEEeEEEeCCCC
Q 036161 23 RTIHPVYCSI-------APNTDGI--DP---------DCYIESGNGLVAVKSGWDHDGIAMARPSSNIAVRRVSGTTPTC 84 (247)
Q Consensus 23 w~i~~~~c~n-------~~NtDGI--di---------nc~i~~gDD~Iaiksg~~~~G~~~~~ps~nI~I~n~~~~~~~~ 84 (247)
-++.+..|+| ..|++=+ ++ |-.|.+-++- ++||++... ++|++|++|+|..+ +
T Consensus 239 ~~~~l~~c~NV~~~g~~i~ns~~~~~h~~~~~nl~~~nl~I~~~~~~-------NtDG~d~~s-c~NvlI~~~~fdtg-D 309 (542)
T COG5434 239 RTVVLKGCRNVLLEGLNIKNSPLWTVHPVDCDNLTFRNLTIDANRFD-------NTDGFDPGS-CSNVLIEGCRFDTG-D 309 (542)
T ss_pred ceEEEeccceEEEeeeEecCCCcEEEeeecccCceecceEEECCCCC-------CCCcccccc-ceeEEEeccEEecC-C
Confidence 4677888888 2222222 22 5555544332 678887754 99999999999998 9
Q ss_pred CeEEEeeecCC-------CEEEEEEEecccCCCC---------CccEEEEEEEEEEEecccccEEEEecCCCCCCCCCCC
Q 036161 85 SGVGIGREMSG-------RIFNVTVDHLDTDKGR---------GGNIENIIIRNIKMERVKIPIKISRGSNGHPDEGRDP 148 (247)
Q Consensus 85 ~gIsIGS~~~g-------~v~NV~v~n~Kt~~G~---------gG~v~nI~f~nI~~~~v~~pi~I~~~y~~~~~~~~~~ 148 (247)
++|.|.|.... .-+||+|+||-...|+ +|.|+||++||..|.+...+++|+....
T Consensus 310 D~I~iksg~~~~~~~~~~~~~~i~i~~c~~~~ghG~~v~Gse~~ggv~ni~ved~~~~~~d~GLRikt~~~--------- 380 (542)
T COG5434 310 DCIAIKSGAGLDGKKGYGPSRNIVIRNCYFSSGHGGLVLGSEMGGGVQNITVEDCVMDNTDRGLRIKTNDG--------- 380 (542)
T ss_pred ceEEeecccCCcccccccccccEEEecceecccccceEeeeecCCceeEEEEEeeeeccCcceeeeeeecc---------
Confidence 99999985432 3599999999444443 3899999999999999999999998532
Q ss_pred CCCCeEEeEEEEEEEEEecC
Q 036161 149 KAIPKIRGISFVNVFSVNTT 168 (247)
Q Consensus 149 ~~~~~I~nItf~nI~~t~~~ 168 (247)
..+.++||+|+++++.++.
T Consensus 381 -~gG~v~nI~~~~~~~~nv~ 399 (542)
T COG5434 381 -RGGGVRNIVFEDNKMRNVK 399 (542)
T ss_pred -cceeEEEEEEecccccCcc
Confidence 2378999999999999874
No 18
>TIGR03805 beta_helix_1 parallel beta-helix repeat-containing protein. Members of this protein family contain a tandem pair of beta-helix repeats (see TIGR03804). Each repeat is expected to consist of three beta strands that form a single turn as they form a right-handed helix of stacked beta-structure. Member proteinsa occur regularly in two-gene pairs along with another uncharacterized protein family; both protein families exhibit either lipoprotein or regular signal peptides, suggesting transit through the plasma membrane, and the two may be fused. The function of the pair is unknown.
Probab=97.46 E-value=0.003 Score=57.98 Aligned_cols=157 Identities=24% Similarity=0.241 Sum_probs=90.3
Q ss_pred EeeecCcEEeeceEEeCCCCceEEEecCCC------------C----CCCcccce---------eeEEeeC-CceEEEcC
Q 036161 3 LMNSNNILIISNLAFCNSPFRTIHPVYCSI------------A----PNTDGIDP---------DCYIESG-NGLVAVKS 56 (247)
Q Consensus 3 ~~~~~nv~~I~giti~nsp~w~i~~~~c~n------------~----~NtDGIdi---------nc~i~~g-DD~Iaiks 56 (247)
+..+++|+ |+|+++.+++.+.+.+..|++ . ...+||.+ +|+++.. |++|-++.
T Consensus 59 ~v~a~~Vt-I~~ltI~~~~~~GI~v~~s~~i~I~n~~i~~~~~~~~~~~~~GI~~~~s~~v~I~~n~i~g~~d~GIyv~~ 137 (314)
T TIGR03805 59 LVTSDDVT-LSDLAVENTKGDGVKVKGSDGIIIRRLRVEWTGGPKSSNGAYGIYPVESTNVLVEDSYVRGASDAGIYVGQ 137 (314)
T ss_pred EEEeCCeE-EEeeEEEcCCCCeEEEeCCCCEEEEeeEEEeccCccccCCcceEEEeccCCEEEECCEEECCCcccEEECC
Confidence 45689999 999999999999999999987 1 23578877 7788764 44677665
Q ss_pred CC-----------CCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecC---CCEEEEEEEec-----ccC----CC---
Q 036161 57 GW-----------DHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMS---GRIFNVTVDHL-----DTD----KG--- 110 (247)
Q Consensus 57 g~-----------~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~---g~v~NV~v~n~-----Kt~----~G--- 110 (247)
.. +.+|+++-. +.++.|++.++... ..|+.+-+... ..-++++|++. .++ .|
T Consensus 138 s~~~~v~nN~~~~n~~GI~i~~-S~~~~v~~N~~~~N-~~Gi~v~~~p~~~~~~s~~~~v~~N~i~~n~~~n~~~~gn~v 215 (314)
T TIGR03805 138 SQNIVVRNNVAEENVAGIEIEN-SQNADVYNNIATNN-TGGILVFDLPGLPQPGGSNVRVFDNIIFDNNTPNFAPAGSIV 215 (314)
T ss_pred CCCeEEECCEEccCcceEEEEe-cCCcEEECCEEecc-ceeEEEeecCCCCcCCccceEEECCEEECCCCCCCcccCCce
Confidence 32 234444432 45555555555543 45555532211 12345666555 111 01
Q ss_pred ----CC-ccE----EEEEEEEEEEecccc-cEEEEecCCC-----CCCCCCCCCCCCeEEeEEEEEEEEEe
Q 036161 111 ----RG-GNI----ENIIIRNIKMERVKI-PIKISRGSNG-----HPDEGRDPKAIPKIRGISFVNVFSVN 166 (247)
Q Consensus 111 ----~g-G~v----~nI~f~nI~~~~v~~-pi~I~~~y~~-----~~~~~~~~~~~~~I~nItf~nI~~t~ 166 (247)
.| |.+ +++.|+|=++.+... +|.+..+... .++..|. |..++|.+.|=++.+
T Consensus 216 ~~~~~g~Gi~i~~~~~v~I~~N~i~~n~~~~i~~~~~~~~~~~~~~~~~~~~----~~~~~v~i~~N~~~~ 282 (314)
T TIGR03805 216 ASVPAGTGVVVMANRDVEIFGNVISNNDTANVLISSYHSTGLPDQPPDDGFD----PYPRNISIHDNTFSD 282 (314)
T ss_pred ecCCCCcEEEEEcccceEEECCEEeCCcceeEEEEecccccCCCCCcCCCcc----CCCcceEEEccEeec
Confidence 11 333 677777777776654 6666543211 1122333 344677666555544
No 19
>smart00656 Amb_all Amb_all domain.
Probab=96.91 E-value=0.024 Score=48.36 Aligned_cols=83 Identities=18% Similarity=0.274 Sum_probs=58.6
Q ss_pred eEeeecCcEEeeceEEeCCCCceEEEecCCCCCCCcccce---------eeEEeeC----------CceEEEcCCCCCCC
Q 036161 2 ELMNSNNILIISNLAFCNSPFRTIHPVYCSIAPNTDGIDP---------DCYIESG----------NGLVAVKSGWDHDG 62 (247)
Q Consensus 2 ~~~~~~nv~~I~giti~nsp~w~i~~~~c~n~~NtDGIdi---------nc~i~~g----------DD~Iaiksg~~~~G 62 (247)
.+..++||. |++|+|.+...+ ...+.|+|.+ +|.++.+ |.++.+|.+
T Consensus 35 ~i~~~~NVI-irnl~i~~~~~~--------~~~~~D~i~~~~~~~VwIDHct~s~~~~~~~~~~~~D~~~di~~~----- 100 (190)
T smart00656 35 TIKSVSNVI-IRNLTIHDPKPV--------YGSDGDAISIDGSSNVWIDHVSLSGCTVTGFGDDTYDGLIDIKNG----- 100 (190)
T ss_pred EEEecceEE-EeCCEEECCccC--------CCCCCCEEEEeCCCeEEEEccEeEcceeccCCCCCCCccEEECcc-----
Confidence 456688999 999999986532 0134566655 7888876 666677765
Q ss_pred ccCCCCeeeEEEEeEEEeCCCCCeEEEeeec---CCCEEEEEEEec
Q 036161 63 IAMARPSSNIAVRRVSGTTPTCSGVGIGREM---SGRIFNVTVDHL 105 (247)
Q Consensus 63 ~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~---~g~v~NV~v~n~ 105 (247)
+.+|+|++|+|... +-+.-+|+.. .+...+|++.++
T Consensus 101 ------s~~vTvs~~~f~~h-~~~~liG~~d~~~~~~~~~vT~h~N 139 (190)
T smart00656 101 ------STYVTISNNYFHNH-WKVMLLGHSDSDTDDGKMRVTIAHN 139 (190)
T ss_pred ------cccEEEECceEecC-CEEEEEccCCCccccccceEEEECc
Confidence 78999999999764 6678888742 223457777777
No 20
>PF12541 DUF3737: Protein of unknown function (DUF3737) ; InterPro: IPR022208 This family of proteins is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 281 and 297 amino acids in length.
Probab=96.91 E-value=0.0032 Score=56.14 Aligned_cols=19 Identities=16% Similarity=0.240 Sum_probs=14.3
Q ss_pred EeeecCcEEeeceEEeCCCC
Q 036161 3 LMNSNNILIISNLAFCNSPF 22 (247)
Q Consensus 3 ~~~~~nv~~I~giti~nsp~ 22 (247)
|..|++|. +++++|-|++-
T Consensus 94 fR~~~~i~-L~nv~~~~A~E 112 (277)
T PF12541_consen 94 FRECSNIT-LENVDIPDADE 112 (277)
T ss_pred hhcccCcE-EEeeEeCCCcc
Confidence 56778888 88888877773
No 21
>PF03718 Glyco_hydro_49: Glycosyl hydrolase family 49; InterPro: IPR005192 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This is a family of dextranase (3.2.1.11 from EC) and isopullulanase (3.2.1.57 from EC) which are all members of glycoside hydrolase family 49 (GH49 from CAZY). Dextranase hydrolyses alpha-1,6-glycosidic bonds in dextran polymers.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds; PDB: 1X0C_A 1WMR_A 2Z8G_B 1OGM_X 1OGO_X.
Probab=96.66 E-value=0.01 Score=57.71 Aligned_cols=112 Identities=21% Similarity=0.280 Sum_probs=59.5
Q ss_pred CCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEec---ccCCC-------CCccEEEEEEEEEEEec
Q 036161 58 WDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHL---DTDKG-------RGGNIENIIIRNIKMER 127 (247)
Q Consensus 58 ~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~---Kt~~G-------~gG~v~nI~f~nI~~~~ 127 (247)
+++||+.. .+|=+|+||-+... +++|++=- +++.++|+ |.+.| ....++||+|+|+.+-.
T Consensus 371 ~qtDGi~l---y~nS~i~dcF~h~n-DD~iKlYh------S~v~v~~~ViWk~~Ngpiiq~GW~pr~isnv~veni~IIh 440 (582)
T PF03718_consen 371 FQTDGIEL---YPNSTIRDCFIHVN-DDAIKLYH------SNVSVSNTVIWKNENGPIIQWGWTPRNISNVSVENIDIIH 440 (582)
T ss_dssp TT----B-----TT-EEEEEEEEES-S-SEE--S------TTEEEEEEEEEE-SSS-SEE--CS---EEEEEEEEEEEEE
T ss_pred eccCCccc---cCCCeeeeeEEEec-Cchhheee------cCcceeeeEEEecCCCCeEEeeccccccCceEEeeeEEEe
Confidence 37889876 46778899999986 89997642 45666666 32222 23679999999999986
Q ss_pred cc---------ccEEEE-ecCCCCCCCCCCCCCCCeEEeEEEEEEEEEecCCCC-----------EEEEeeEEE
Q 036161 128 VK---------IPIKIS-RGSNGHPDEGRDPKAIPKIRGISFVNVFSVNTTKAP-----------ICMKNVSLL 180 (247)
Q Consensus 128 v~---------~pi~I~-~~y~~~~~~~~~~~~~~~I~nItf~nI~~t~~~~~~-----------I~l~nV~i~ 180 (247)
.+ .+|.-. .+|.+-... -...+.-.|++++|+||++.+..... +.++||.|.
T Consensus 441 ~r~~~~~~~~n~~I~~ss~~y~~~~s~-~~adp~~ti~~~~~~nv~~EG~~~~l~ri~plqn~~nl~ikN~~~~ 513 (582)
T PF03718_consen 441 NRWIWHNNYVNTAILGSSPFYDDMAST-KTADPSTTIRNMTFSNVRCEGMCPCLFRIYPLQNYDNLVIKNVHFE 513 (582)
T ss_dssp ---SSGGCTTT-ECEEE--BTTS-SSS---BEEEEEEEEEEEEEEEEECCE-ECEEE--SEEEEEEEEEEEEEC
T ss_pred eeeecccCCCCceeEecccccccccCC-CCCCcccceeeEEEEeEEEecccceeEEEeecCCCcceEEEEeecc
Confidence 63 244333 234221110 00111126999999999999864332 566666665
No 22
>PF12708 Pectate_lyase_3: Pectate lyase superfamily protein; PDB: 3EQN_A 3EQO_A 2PYG_A 2PYH_A 3SUC_A 3GQ7_A 3GQ9_A 3GQA_A 3GQ8_A 2VBE_A ....
Probab=96.20 E-value=0.013 Score=49.61 Aligned_cols=26 Identities=31% Similarity=0.151 Sum_probs=15.3
Q ss_pred eEeeecCcEEeeceEEeCCCCceEEEe
Q 036161 2 ELMNSNNILIISNLAFCNSPFRTIHPV 28 (247)
Q Consensus 2 ~~~~~~nv~~I~giti~nsp~w~i~~~ 28 (247)
+|..++++. |+++++.|+....+.+.
T Consensus 116 ~~~~~~~~~-i~nv~~~~~~~~~i~~~ 141 (225)
T PF12708_consen 116 RFNSSQNVS-ISNVRIENSGGDGIYFN 141 (225)
T ss_dssp EETTEEEEE-EEEEEEES-SS-SEEEE
T ss_pred EEEeCCeEE-EEeEEEEccCccEEEEE
Confidence 445567777 77777777655555555
No 23
>PF13229 Beta_helix: Right handed beta helix region; PDB: 2INV_C 2INU_C 1RU4_A.
Probab=96.18 E-value=0.026 Score=44.59 Aligned_cols=115 Identities=23% Similarity=0.230 Sum_probs=66.8
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCCCCCCcccce-eeEEeeCCceEEEcCCCCCCCccCCCCeeeEEEEeEEE
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSIAPNTDGIDP-DCYIESGNGLVAVKSGWDHDGIAMARPSSNIAVRRVSG 79 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n~~NtDGIdi-nc~i~~gDD~Iaiksg~~~~G~~~~~ps~nI~I~n~~~ 79 (247)
|.+....++. |++.+|.+...+.+++..+.. +.+ ||.|..+..+|.+... .++.+++|++
T Consensus 3 i~i~~~~~~~-i~~~~i~~~~~~gi~~~~~~~------~~i~n~~i~~~~~gi~~~~~------------~~~~i~~~~~ 63 (158)
T PF13229_consen 3 ISINNGSNVT-IRNCTISNNGGDGIHVSGSSN------ITIENCTISNGGYGIYVSGG------------SNVTISNNTI 63 (158)
T ss_dssp EEETTCEC-E-EESEEEESSSSECEEE-SSCE------SEEES-EEESSTTSEEEECC------------ES-EEES-EE
T ss_pred EEEECCcCeE-EeeeEEEeCCCeEEEEEcCCC------eEEECeEEECCCcEEEEecC------------CCeEEECeEE
Confidence 4567788899 999999999888888776654 445 7888776666666653 6888888888
Q ss_pred eCCCCCeEEEeeecCCCEEEEEEEecccCCCC-Ccc-EEEEEEEEEEEeccc-ccEEEEe
Q 036161 80 TTPTCSGVGIGREMSGRIFNVTVDHLDTDKGR-GGN-IENIIIRNIKMERVK-IPIKISR 136 (247)
Q Consensus 80 ~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~-gG~-v~nI~f~nI~~~~v~-~pi~I~~ 136 (247)
... ..|+.+-......+++.+++++... |- -.. ..++++++.++.+.. .++.+..
T Consensus 64 ~~~-~~~i~~~~~~~~~i~~~~i~~~~~~-gi~~~~~~~~~~i~~n~~~~~~~~gi~~~~ 121 (158)
T PF13229_consen 64 SDN-GSGIYVSGSSNITIENNRIENNGDY-GIYISNSSSNVTIENNTIHNNGGSGIYLEG 121 (158)
T ss_dssp ES--SEEEECCS-CS-EEES-EEECSSS--SCE-TCEECS-EEES-EEECCTTSSCEEEE
T ss_pred EEc-cceEEEEecCCceecCcEEEcCCCc-cEEEeccCCCEEEEeEEEEeCcceeEEEEC
Confidence 764 3455544333334555555555211 10 012 557888888888766 5776654
No 24
>TIGR03808 RR_plus_rpt_1 twin-arg-translocated uncharacterized repeat protein. Members of this protein family have a Sec-independent twin-arginine tranlocation (TAT) signal sequence, which enables tranfer of proteins folded around prosthetic groups to cross the plasma membrane. These proteins have four copies of a repeat of about 23 amino acids that resembles the beta-helix repeat. Beta-helix refers to a structural motif in which successive beta strands wind around to stack parallel in a right-handed helix, as in AlgG and related enzymes of carbohydrate metabolism. The twin-arginine motif suggests that members of this protein family bind some unknown cofactor.
Probab=95.35 E-value=0.084 Score=50.61 Aligned_cols=89 Identities=15% Similarity=0.050 Sum_probs=60.8
Q ss_pred CeEeeecCcEEeeceEEeCCCCceEEEecCCC--------CCCCcccce----------eeEEeeCCceEEEcCC-----
Q 036161 1 VELMNSNNILIISNLAFCNSPFRTIHPVYCSI--------APNTDGIDP----------DCYIESGNGLVAVKSG----- 57 (247)
Q Consensus 1 i~~~~~~nv~~I~giti~nsp~w~i~~~~c~n--------~~NtDGIdi----------nc~i~~gDD~Iaiksg----- 57 (247)
|.+..|++++ |++.+|.+++.|.+.+..|+. ..-..+|.+ |-...+.|+.|.+.--
T Consensus 138 I~v~~a~~v~-Iedn~L~gsg~FGI~L~~~~~~I~~N~I~g~~~~~I~lw~S~g~~V~~N~I~g~RD~gi~i~r~~~~~d 216 (455)
T TIGR03808 138 IHCQGGRDVR-ITDCEITGSGGNGIWLETVSGDISGNTITQIAVTAIVSFDALGLIVARNTIIGANDNGIEILRSAIGDD 216 (455)
T ss_pred EEEccCCceE-EEeeEEEcCCcceEEEEcCcceEecceEeccccceEEEeccCCCEEECCEEEccCCCCeEEEEeeecCC
Confidence 4678899999 999999999999999999983 223333444 3333456776666621
Q ss_pred --------------------CCCCCccCCCCeeeEEEEeEEEeCCCC-CeEEEeee
Q 036161 58 --------------------WDHDGIAMARPSSNIAVRRVSGTTPTC-SGVGIGRE 92 (247)
Q Consensus 58 --------------------~~~~G~~~~~ps~nI~I~n~~~~~~~~-~gIsIGS~ 92 (247)
..-.|++..+ +.+++|++.++... . +||.+-|-
T Consensus 217 g~~v~~n~i~~i~a~~gg~~~~GNGI~~~~-a~~v~V~gN~I~~~-r~dgI~~nss 270 (455)
T TIGR03808 217 GTIVTDNRIEDIKAGPGGSGQYGNAINAFR-AGNVIVRGNRIRNC-DYSAVRGNSA 270 (455)
T ss_pred cceeeccccccccccCCCcCCccccEEEEc-cCCeEEECCEEecc-ccceEEEEcc
Confidence 1123455444 67888888888765 5 77777664
No 25
>PF12541 DUF3737: Protein of unknown function (DUF3737) ; InterPro: IPR022208 This family of proteins is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 281 and 297 amino acids in length.
Probab=95.32 E-value=0.055 Score=48.39 Aligned_cols=29 Identities=10% Similarity=0.044 Sum_probs=18.1
Q ss_pred eeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEec
Q 036161 69 SSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHL 105 (247)
Q Consensus 69 s~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~ 105 (247)
.+|+.++||++..| -++|+= -+||.+.+|
T Consensus 18 ~~d~~l~~~~f~dG-ES~LKe-------s~nI~~~~~ 46 (277)
T PF12541_consen 18 SHDLRLENCTFADG-ESPLKE-------SRNIELKNC 46 (277)
T ss_pred cCCCEEEeeEEeCC-Cccccc-------ccceEEECC
Confidence 67788888888766 555542 345555555
No 26
>COG3866 PelB Pectate lyase [Carbohydrate transport and metabolism]
Probab=93.57 E-value=0.75 Score=42.13 Aligned_cols=21 Identities=24% Similarity=0.363 Sum_probs=16.1
Q ss_pred eEeeecCcEEeeceEEeCCCCc
Q 036161 2 ELMNSNNILIISNLAFCNSPFR 23 (247)
Q Consensus 2 ~~~~~~nv~~I~giti~nsp~w 23 (247)
.+..+.||. |+||+|...+.|
T Consensus 120 ~i~~a~NVI-irNltf~~~~~~ 140 (345)
T COG3866 120 KIRDAGNVI-IRNLTFEGFYQG 140 (345)
T ss_pred EEEeCCcEE-EEeeEEEeeccC
Confidence 345678888 999999887754
No 27
>PF00544 Pec_lyase_C: Pectate lyase; InterPro: IPR002022 Pectate lyase 4.2.2.2 from EC is an enzyme involved in the maceration and soft rotting of plant tissue. Pectate lyase is responsible for the eliminative cleavage of pectate, yielding oligosaccharides with 4-deoxy-alpha-D-mann-4-enuronosyl groups at their non-reducing ends. The protein is maximally expressed late in pollen development. It has been suggested that the pollen expression of pectate lyase genes might relate to a requirement for pectin degradation during pollen tube growth []. The structure and the folding kinetics of one member of this family, pectate lyase C (pelC)1 from Erwinia chrysanthemi has been investigated in some detail [,]. PelC contains a parallel beta-helix folding motif. The majority of the regular secondary structure is composed of parallel beta-sheets (about 30%). The individual strands of the sheets are connected by unordered loops of varying length. The backbone is then formed by a large helix composed of beta-sheets. There are two disulphide bonds in pelC and 12 proline residues. One of these prolines, Pro220, is involved in a cis peptide bond. he folding mechanism of pelC involves two slow phases that have been attributed to proline isomerization. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Amb a 1, Amb a 2, Amb a 3, Cha o 1, Cup a 1, Cry j 1, Jun a 1. Two of the major allergens in the pollen of short ragweed (Ambrosia artemisiifolia) are Amb aI and Amb aII. The primary structure of Amb aII has been deduced and has been shown to share ~65% sequence identity with the Amb alpha I multigene family of allergens []. Members of the Amb aI/aII family include Nicotiana tabacum (Common tobacco) pectate lyase, which is similar to the deduced amino acid sequences of two pollen-specific pectate lyase genes identified in Solanum lycopersicum (Tomato) (Lycopersicon esculentum) []; Cry jI, a major allergenic glycoprotein of Cryptomeria japonica (Japanese cedar) - the most common pollen allergen in Japan []; and P56 and P59, which share sequence similarity with pectate lyases of plant pathogenic bacteria [].; PDB: 1O8M_A 1O8K_A 1O8E_A 1O8H_A 2PEC_A 1PLU_A 1O8I_A 1O8J_A 1O8D_A 1O8F_A ....
Probab=93.56 E-value=0.13 Score=44.04 Aligned_cols=87 Identities=25% Similarity=0.348 Sum_probs=43.5
Q ss_pred eecCcEEeeceEEeCCCCce-EEEecCCCCCCCcccce---------eeEEeeC---------CceEEEcCCCCCCCccC
Q 036161 5 NSNNILIISNLAFCNSPFRT-IHPVYCSIAPNTDGIDP---------DCYIESG---------NGLVAVKSGWDHDGIAM 65 (247)
Q Consensus 5 ~~~nv~~I~giti~nsp~w~-i~~~~c~n~~NtDGIdi---------nc~i~~g---------DD~Iaiksg~~~~G~~~ 65 (247)
.++||. |++|+|.+-+.+. -....-......|+|.+ +|.++.+ |..+-+|.+
T Consensus 44 ~~~NVI-irNl~~~~~~~~~~~~~~~~~~~~~~Dai~i~~~~nVWIDH~sfs~~~~~~~~~~~Dg~idi~~~-------- 114 (200)
T PF00544_consen 44 GASNVI-IRNLRFRNVPVDPGPDWSGDGDSSDGDAISIDNSSNVWIDHCSFSWGNFECNSDSSDGLIDIKKG-------- 114 (200)
T ss_dssp SCEEEE-EES-EEECEEEECSTEEETTEEECS--SEEEESTEEEEEES-EEEETTS-GGGSSSSSSEEEESS--------
T ss_pred CCCeEE-EECCEEEeccccCCcccCCCccccCCCeEEEEecccEEEeccEEeccccccccccCCceEEEEeC--------
Confidence 788999 9999999841100 00000000345666655 4555544 555555554
Q ss_pred CCCeeeEEEEeEEEeCCCCCeEEEeee----cCCCEEEEEEEec
Q 036161 66 ARPSSNIAVRRVSGTTPTCSGVGIGRE----MSGRIFNVTVDHL 105 (247)
Q Consensus 66 ~~ps~nI~I~n~~~~~~~~~gIsIGS~----~~g~v~NV~v~n~ 105 (247)
+.+|+|++|.+... ..+.-+|+. ...+ .+|++.+.
T Consensus 115 ---s~~vTiS~n~f~~~-~k~~l~G~~d~~~~~~~-~~vT~hhN 153 (200)
T PF00544_consen 115 ---SDNVTISNNIFDNH-NKTMLIGSSDSNSTDRG-LRVTFHHN 153 (200)
T ss_dssp ---TEEEEEES-EEEEE-EETCEESSCTTCGGGTT-EEEEEES-
T ss_pred ---CceEEEEchhcccc-ccccccCCCCCccccCC-ceEEEEeE
Confidence 67777777777653 344446653 1122 56665555
No 28
>TIGR03805 beta_helix_1 parallel beta-helix repeat-containing protein. Members of this protein family contain a tandem pair of beta-helix repeats (see TIGR03804). Each repeat is expected to consist of three beta strands that form a single turn as they form a right-handed helix of stacked beta-structure. Member proteinsa occur regularly in two-gene pairs along with another uncharacterized protein family; both protein families exhibit either lipoprotein or regular signal peptides, suggesting transit through the plasma membrane, and the two may be fused. The function of the pair is unknown.
Probab=92.78 E-value=1.8 Score=39.70 Aligned_cols=22 Identities=23% Similarity=0.312 Sum_probs=10.8
Q ss_pred eeeEEEEeEEEeCCCCCeEEEe
Q 036161 69 SSNIAVRRVSGTTPTCSGVGIG 90 (247)
Q Consensus 69 s~nI~I~n~~~~~~~~~gIsIG 90 (247)
+++++|++|++....+.||.++
T Consensus 115 s~~v~I~~n~i~g~~d~GIyv~ 136 (314)
T TIGR03805 115 STNVLVEDSYVRGASDAGIYVG 136 (314)
T ss_pred cCCEEEECCEEECCCcccEEEC
Confidence 4555555555544323355444
No 29
>PF05048 NosD: Periplasmic copper-binding protein (NosD); InterPro: IPR007742 Bacterial nitrous oxide (N(2)O) reductase is the terminal oxidoreductase of a respiratory process that generates dinitrogen from N(2)O. To attain its functional state, the enzyme is subjected to a maturation process which involves the protein-driven synthesis of a unique copper-sulphur cluster and metallation of the binuclear Cu(A) site in the periplasm. NosD is a periplasmic protein which is thought to insert copper into the exported reductase apoenzyme [].
Probab=92.08 E-value=1.2 Score=38.51 Aligned_cols=80 Identities=21% Similarity=0.101 Sum_probs=40.4
Q ss_pred EeeecCcEEeeceEEeCCCCceEEEecCCCCCCCcccce-eeEEeeCCceEEEcCCCCCCCccCCCCeeeEEEEeEEEeC
Q 036161 3 LMNSNNILIISNLAFCNSPFRTIHPVYCSIAPNTDGIDP-DCYIESGNGLVAVKSGWDHDGIAMARPSSNIAVRRVSGTT 81 (247)
Q Consensus 3 ~~~~~nv~~I~giti~nsp~w~i~~~~c~n~~NtDGIdi-nc~i~~gDD~Iaiksg~~~~G~~~~~ps~nI~I~n~~~~~ 81 (247)
+..+.+++ |++.++.+. ...+++.++.+ ..+ ++.+.....+|.+... .+.+|+++++..
T Consensus 40 ~~~s~~~~-I~~n~i~~~-~~GI~~~~s~~------~~i~~n~i~~n~~Gi~l~~s------------~~~~I~~N~i~~ 99 (236)
T PF05048_consen 40 VENSDNNT-ISNNTISNN-RYGIHLMGSSN------NTIENNTISNNGYGIYLMGS------------SNNTISNNTISN 99 (236)
T ss_pred EEEcCCeE-EEeeEEECC-CeEEEEEccCC------CEEEeEEEEccCCCEEEEcC------------CCcEEECCEecC
Confidence 34444444 444444444 34444444433 111 5555554466666653 334777877775
Q ss_pred CCCCeEEEeeecCCCEEEEEEE
Q 036161 82 PTCSGVGIGREMSGRIFNVTVD 103 (247)
Q Consensus 82 ~~~~gIsIGS~~~g~v~NV~v~ 103 (247)
. ..||.+.......|++=+|.
T Consensus 100 n-~~GI~l~~s~~~~I~~N~i~ 120 (236)
T PF05048_consen 100 N-GYGIYLYGSSNNTISNNTIS 120 (236)
T ss_pred C-CceEEEeeCCceEEECcEEe
Confidence 4 45776654333334444443
No 30
>PF03211 Pectate_lyase: Pectate lyase; InterPro: IPR004898 Pectate lyase is responsible for the maceration and soft-rotting of plant tissue. It catalyses the eliminative cleavage of pectate to produce oligosaccharides with 4-deoxy-alpha-D-gluc-4-enuronosyl groups at their non-reducing ends. Pectate lyase is an extracellular enzyme and is induced by pectin. It is subject to self-catabolite repression, and has been implicated in plant disease. The structure and the folding kinetics of one member of this family, pectate lyase C (pelC)1 from Erwinia chrysanthemi has been investigated in some detail []. PelC contains a parallel beta-helix folding motif. The majority of the regular secondary structure is composed of parallel beta-sheets (about 30%). The individual strands of the sheets are connected by unordered loops of varying length. The backbone is then formed by a large helix composed of beta-sheets. There are two disulphide bonds in pelC and 12 proline residues. One of these prolines, Pro220, is involved in a cis peptide bond. he folding mechanism of pelC involves two slow phases that have been attributed to proline isomerization.; GO: 0030570 pectate lyase activity, 0005576 extracellular region; PDB: 3T9G_B 3B90_B 3B8Y_A 3B4N_B 1EE6_A.
Probab=90.81 E-value=1.5 Score=38.25 Aligned_cols=95 Identities=14% Similarity=0.184 Sum_probs=46.4
Q ss_pred CCCcccce--eeEEe------eCCceEEEcCCCCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEec
Q 036161 34 PNTDGIDP--DCYIE------SGNGLVAVKSGWDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHL 105 (247)
Q Consensus 34 ~NtDGIdi--nc~i~------~gDD~Iaiksg~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~ 105 (247)
+-.|||+. +|++. .++|++.+|+. .-.++|.+.-.....+--|-.-....=.|+|+++++.
T Consensus 73 ~~~dGIHC~G~Ctl~NVwwedVcEDA~T~kg~-----------~~~~~I~ggga~~A~DKV~Q~Ng~Gtv~I~nF~a~d~ 141 (215)
T PF03211_consen 73 NQADGIHCKGSCTLENVWWEDVCEDAATFKGD-----------GGTVTIIGGGARNASDKVFQHNGGGTVTIKNFYAEDF 141 (215)
T ss_dssp S-TT-EEEESCEEEEEEEESS-SSESEEEESS-----------EEEEEEESTEEEEEEEEEEEE-SSEEEEEEEEEEEEE
T ss_pred CCcCceEEcCCEEEEEEEecccceeeeEEcCC-----------CceEEEeCCcccCCCccEEEecCceeEEEEeEEEcCC
Confidence 44588888 55554 48889999886 2244444333322101111111111113777777777
Q ss_pred -ccCCCCC------ccEEEEEEEEEEEecccccEEEEecCC
Q 036161 106 -DTDKGRG------GNIENIIIRNIKMERVKIPIKISRGSN 139 (247)
Q Consensus 106 -Kt~~G~g------G~v~nI~f~nI~~~~v~~pi~I~~~y~ 139 (247)
|-+|--| +.=|.|.+++........-.-|..+|+
T Consensus 142 GKl~RSCGnC~~~~~~~r~v~v~~~~~~~~~~~~giN~N~g 182 (215)
T PF03211_consen 142 GKLYRSCGNCSNNGGPRRHVVVNNVVAGPGNSLVGINRNYG 182 (215)
T ss_dssp EEEEEE-TTETS----EEEEEEEEEEEEEEEEEEEEEEGGT
T ss_pred CEEEEeCCCCCCCCCcceEEEEeeEEecCCcEEEEEECCCC
Confidence 5554222 345667777666554444455666665
No 31
>PF12708 Pectate_lyase_3: Pectate lyase superfamily protein; PDB: 3EQN_A 3EQO_A 2PYG_A 2PYH_A 3SUC_A 3GQ7_A 3GQ9_A 3GQA_A 3GQ8_A 2VBE_A ....
Probab=90.62 E-value=2.9 Score=34.99 Aligned_cols=14 Identities=21% Similarity=0.321 Sum_probs=6.5
Q ss_pred eeEEee-CCceEEEc
Q 036161 42 DCYIES-GNGLVAVK 55 (247)
Q Consensus 42 nc~i~~-gDD~Iaik 55 (247)
|+.+.. +.+++.+.
T Consensus 127 nv~~~~~~~~~i~~~ 141 (225)
T PF12708_consen 127 NVRIENSGGDGIYFN 141 (225)
T ss_dssp EEEEES-SS-SEEEE
T ss_pred eEEEEccCccEEEEE
Confidence 554443 45555555
No 32
>PF13229 Beta_helix: Right handed beta helix region; PDB: 2INV_C 2INU_C 1RU4_A.
Probab=90.60 E-value=0.58 Score=36.72 Aligned_cols=20 Identities=10% Similarity=0.157 Sum_probs=9.0
Q ss_pred EEEEeEEEeCCCCCeEEEeee
Q 036161 72 IAVRRVSGTTPTCSGVGIGRE 92 (247)
Q Consensus 72 I~I~n~~~~~~~~~gIsIGS~ 92 (247)
++|+||++..+ ..||.+...
T Consensus 34 ~~i~n~~i~~~-~~gi~~~~~ 53 (158)
T PF13229_consen 34 ITIENCTISNG-GYGIYVSGG 53 (158)
T ss_dssp SEEES-EEESS-TTSEEEECC
T ss_pred eEEECeEEECC-CcEEEEecC
Confidence 45555555442 445555443
No 33
>TIGR03808 RR_plus_rpt_1 twin-arg-translocated uncharacterized repeat protein. Members of this protein family have a Sec-independent twin-arginine tranlocation (TAT) signal sequence, which enables tranfer of proteins folded around prosthetic groups to cross the plasma membrane. These proteins have four copies of a repeat of about 23 amino acids that resembles the beta-helix repeat. Beta-helix refers to a structural motif in which successive beta strands wind around to stack parallel in a right-handed helix, as in AlgG and related enzymes of carbohydrate metabolism. The twin-arginine motif suggests that members of this protein family bind some unknown cofactor.
Probab=84.33 E-value=19 Score=34.88 Aligned_cols=120 Identities=15% Similarity=0.141 Sum_probs=73.2
Q ss_pred eeecCcEEeeceEEeCCCC------ceEEEecCCC--------CCC-Ccccce--------eeEE-eeCCceEEEcCCCC
Q 036161 4 MNSNNILIISNLAFCNSPF------RTIHPVYCSI--------APN-TDGIDP--------DCYI-ESGNGLVAVKSGWD 59 (247)
Q Consensus 4 ~~~~nv~~I~giti~nsp~------w~i~~~~c~n--------~~N-tDGIdi--------nc~i-~~gDD~Iaiksg~~ 59 (247)
..+++|. |+|++|.++.. ..+++..|++ ..+ -=||.+ +..| .+.+..
T Consensus 112 i~A~nVT-IsGLtIdGsG~dl~~rdAgI~v~~a~~v~Iedn~L~gsg~FGI~L~~~~~~I~~N~I~g~~~~~-------- 182 (455)
T TIGR03808 112 EGADGIG-LSGLTLDGGGIPLPQRRGLIHCQGGRDVRITDCEITGSGGNGIWLETVSGDISGNTITQIAVTA-------- 182 (455)
T ss_pred ecCCCeE-EEeeEEEeCCCcccCCCCEEEEccCCceEEEeeEEEcCCcceEEEEcCcceEecceEeccccce--------
Confidence 5678999 99999999873 3466666766 222 245554 2222 222222
Q ss_pred CCCccCCCCeeeEEEEeEEEeCCCCCeEEEeee--cC--CCEEEEEEEecccCCCCC-----c----cEEEEEEEEEEEe
Q 036161 60 HDGIAMARPSSNIAVRRVSGTTPTCSGVGIGRE--MS--GRIFNVTVDHLDTDKGRG-----G----NIENIIIRNIKME 126 (247)
Q Consensus 60 ~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~--~~--g~v~NV~v~n~Kt~~G~g-----G----~v~nI~f~nI~~~ 126 (247)
++.. .+++.+|++.++....+.||.|--. .. ..|..=+++++|..+|.. | ...++++++=++.
T Consensus 183 ---I~lw-~S~g~~V~~N~I~g~RD~gi~i~r~~~~~dg~~v~~n~i~~i~a~~gg~~~~GNGI~~~~a~~v~V~gN~I~ 258 (455)
T TIGR03808 183 ---IVSF-DALGLIVARNTIIGANDNGIEILRSAIGDDGTIVTDNRIEDIKAGPGGSGQYGNAINAFRAGNVIVRGNRIR 258 (455)
T ss_pred ---EEEe-ccCCCEEECCEEEccCCCCeEEEEeeecCCcceeeccccccccccCCCcCCccccEEEEccCCeEEECCEEe
Confidence 3321 2789999999998754677776632 11 134444677776655532 1 3457777777777
Q ss_pred ccc-ccEEEEe
Q 036161 127 RVK-IPIKISR 136 (247)
Q Consensus 127 ~v~-~pi~I~~ 136 (247)
+++ .+|++..
T Consensus 259 ~~r~dgI~~ns 269 (455)
T TIGR03808 259 NCDYSAVRGNS 269 (455)
T ss_pred ccccceEEEEc
Confidence 777 5777654
No 34
>PF05048 NosD: Periplasmic copper-binding protein (NosD); InterPro: IPR007742 Bacterial nitrous oxide (N(2)O) reductase is the terminal oxidoreductase of a respiratory process that generates dinitrogen from N(2)O. To attain its functional state, the enzyme is subjected to a maturation process which involves the protein-driven synthesis of a unique copper-sulphur cluster and metallation of the binuclear Cu(A) site in the periplasm. NosD is a periplasmic protein which is thought to insert copper into the exported reductase apoenzyme [].
Probab=80.93 E-value=12 Score=32.09 Aligned_cols=80 Identities=18% Similarity=0.062 Sum_probs=50.8
Q ss_pred eeEEeeCCceEEEcCCCCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEecccCCCCC-ccEEEEEE
Q 036161 42 DCYIESGNGLVAVKSGWDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHLDTDKGRG-GNIENIII 120 (247)
Q Consensus 42 nc~i~~gDD~Iaiksg~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~g-G~v~nI~f 120 (247)
++.+..+..+|.+.. +++.+|+++++... ..||.+.......|++-+|++... |-- ....+.++
T Consensus 50 ~n~i~~~~~GI~~~~------------s~~~~i~~n~i~~n-~~Gi~l~~s~~~~I~~N~i~~n~~--GI~l~~s~~~~I 114 (236)
T PF05048_consen 50 NNTISNNRYGIHLMG------------SSNNTIENNTISNN-GYGIYLMGSSNNTISNNTISNNGY--GIYLYGSSNNTI 114 (236)
T ss_pred eeEEECCCeEEEEEc------------cCCCEEEeEEEEcc-CCCEEEEcCCCcEEECCEecCCCc--eEEEeeCCceEE
Confidence 556665555555554 57799999999875 689998875534566666665522 100 12234566
Q ss_pred EEEEEecccccEEEEe
Q 036161 121 RNIKMERVKIPIKISR 136 (247)
Q Consensus 121 ~nI~~~~v~~pi~I~~ 136 (247)
++-++.+...+|++..
T Consensus 115 ~~N~i~~~~~GI~l~~ 130 (236)
T PF05048_consen 115 SNNTISNNGYGIYLSS 130 (236)
T ss_pred ECcEEeCCCEEEEEEe
Confidence 6666677777888765
No 35
>PF00544 Pec_lyase_C: Pectate lyase; InterPro: IPR002022 Pectate lyase 4.2.2.2 from EC is an enzyme involved in the maceration and soft rotting of plant tissue. Pectate lyase is responsible for the eliminative cleavage of pectate, yielding oligosaccharides with 4-deoxy-alpha-D-mann-4-enuronosyl groups at their non-reducing ends. The protein is maximally expressed late in pollen development. It has been suggested that the pollen expression of pectate lyase genes might relate to a requirement for pectin degradation during pollen tube growth []. The structure and the folding kinetics of one member of this family, pectate lyase C (pelC)1 from Erwinia chrysanthemi has been investigated in some detail [,]. PelC contains a parallel beta-helix folding motif. The majority of the regular secondary structure is composed of parallel beta-sheets (about 30%). The individual strands of the sheets are connected by unordered loops of varying length. The backbone is then formed by a large helix composed of beta-sheets. There are two disulphide bonds in pelC and 12 proline residues. One of these prolines, Pro220, is involved in a cis peptide bond. he folding mechanism of pelC involves two slow phases that have been attributed to proline isomerization. Some of the proteins in this family are allergens. Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Amb a 1, Amb a 2, Amb a 3, Cha o 1, Cup a 1, Cry j 1, Jun a 1. Two of the major allergens in the pollen of short ragweed (Ambrosia artemisiifolia) are Amb aI and Amb aII. The primary structure of Amb aII has been deduced and has been shown to share ~65% sequence identity with the Amb alpha I multigene family of allergens []. Members of the Amb aI/aII family include Nicotiana tabacum (Common tobacco) pectate lyase, which is similar to the deduced amino acid sequences of two pollen-specific pectate lyase genes identified in Solanum lycopersicum (Tomato) (Lycopersicon esculentum) []; Cry jI, a major allergenic glycoprotein of Cryptomeria japonica (Japanese cedar) - the most common pollen allergen in Japan []; and P56 and P59, which share sequence similarity with pectate lyases of plant pathogenic bacteria [].; PDB: 1O8M_A 1O8K_A 1O8E_A 1O8H_A 2PEC_A 1PLU_A 1O8I_A 1O8J_A 1O8D_A 1O8F_A ....
Probab=67.25 E-value=16 Score=31.14 Aligned_cols=62 Identities=21% Similarity=0.264 Sum_probs=37.2
Q ss_pred CeeeEEEEeEEEeC---------------CCCCeEEEeeecCCCEEEEEEEecc-cCC--------CCC-----ccEEEE
Q 036161 68 PSSNIAVRRVSGTT---------------PTCSGVGIGREMSGRIFNVTVDHLD-TDK--------GRG-----GNIENI 118 (247)
Q Consensus 68 ps~nI~I~n~~~~~---------------~~~~gIsIGS~~~g~v~NV~v~n~K-t~~--------G~g-----G~v~nI 118 (247)
.++||.|+|.++.. ...++|+|- ..+||.|.+|+ ++. ++| ....+|
T Consensus 44 ~~~NVIirNl~~~~~~~~~~~~~~~~~~~~~~Dai~i~-----~~~nVWIDH~sfs~~~~~~~~~~~Dg~idi~~~s~~v 118 (200)
T PF00544_consen 44 GASNVIIRNLRFRNVPVDPGPDWSGDGDSSDGDAISID-----NSSNVWIDHCSFSWGNFECNSDSSDGLIDIKKGSDNV 118 (200)
T ss_dssp SCEEEEEES-EEECEEEECSTEEETTEEECS--SEEEE-----STEEEEEES-EEEETTS-GGGSSSSSSEEEESSTEEE
T ss_pred CCCeEEEECCEEEeccccCCcccCCCccccCCCeEEEE-----ecccEEEeccEEeccccccccccCCceEEEEeCCceE
Confidence 48999999999986 012333332 24699999992 222 333 346799
Q ss_pred EEEEEEEecccccEEE
Q 036161 119 IIRNIKMERVKIPIKI 134 (247)
Q Consensus 119 ~f~nI~~~~v~~pi~I 134 (247)
|+++..+.+......+
T Consensus 119 TiS~n~f~~~~k~~l~ 134 (200)
T PF00544_consen 119 TISNNIFDNHNKTMLI 134 (200)
T ss_dssp EEES-EEEEEEETCEE
T ss_pred EEEchhcccccccccc
Confidence 9999998887654433
No 36
>PRK10123 wcaM putative colanic acid biosynthesis protein; Provisional
Probab=66.45 E-value=1.1e+02 Score=28.44 Aligned_cols=14 Identities=29% Similarity=0.479 Sum_probs=10.1
Q ss_pred cCcEEeeceEEeCCC
Q 036161 7 NNILIISNLAFCNSP 21 (247)
Q Consensus 7 ~nv~~I~giti~nsp 21 (247)
+|++ |++|++..+-
T Consensus 151 rnl~-id~itv~~an 164 (464)
T PRK10123 151 RNLT-IDNLTVSHAN 164 (464)
T ss_pred hccE-EccEEEeecc
Confidence 5677 8888887654
No 37
>PF09251 PhageP22-tail: Salmonella phage P22 tail-spike; InterPro: IPR015331 This entry is represented by the Bacteriophage P22, Gp9, tailspike protein (TSP). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The TSP C-terminal domain adopts a structure that consists of a single-stranded right-handed beta-helix, which in turn is made of parallel beta-strands and short turns. They are required for recognition of the 0-antigenic repeating units of the cell surface, and for subsequent infection of the bacterial cell by the phage []. ; PDB: 1QA3_A 1QRB_A 2XC1_C 1QA2_A 1TYX_A 2VFQ_A 2VFO_A 1TYU_A 2VFN_A 1QA1_A ....
Probab=66.22 E-value=38 Score=32.75 Aligned_cols=55 Identities=24% Similarity=0.387 Sum_probs=31.0
Q ss_pred eeeEEEEeEEEeCCCCCeEEEeeecC------------------------CCEEEEEEEec----ccCCCCCccEEEEEE
Q 036161 69 SSNIAVRRVSGTTPTCSGVGIGREMS------------------------GRIFNVTVDHL----DTDKGRGGNIENIII 120 (247)
Q Consensus 69 s~nI~I~n~~~~~~~~~gIsIGS~~~------------------------g~v~NV~v~n~----Kt~~G~gG~v~nI~f 120 (247)
+-|..++|.+.....-+|+-+|+.+. .-|+||.++++ --+-|.+|+|+||+.
T Consensus 263 nYnLqF~d~~~i~~~~DG~Dl~aDtg~~~~~dR~~D~~laqYp~~qLPtnHiidNi~~~~~lGVG~~~DG~~~yvsni~~ 342 (549)
T PF09251_consen 263 NYNLQFRDSVTISPVWDGFDLGADTGMGPETDRPGDYPLAQYPWHQLPTNHIIDNILVRGSLGVGIGMDGKGGYVSNITV 342 (549)
T ss_dssp EBS-EEEEEEEES-SSESEEE-SS-SSSTTS--TTS--TTTS-TT------EEEEEEEES-SSESCEEECCS-EEEEEEE
T ss_pred eeeEEEeccceEEEeecceeccCCCCCCCCccCCCCcchhhCchhhCchhhhhhhhheeccceeeeeecCCCceEeeEEe
Confidence 55777777777666677887776421 11777777777 233456677777776
Q ss_pred EEE
Q 036161 121 RNI 123 (247)
Q Consensus 121 ~nI 123 (247)
++.
T Consensus 343 ~d~ 345 (549)
T PF09251_consen 343 QDC 345 (549)
T ss_dssp ES-
T ss_pred ecc
Confidence 643
No 38
>smart00656 Amb_all Amb_all domain.
Probab=64.51 E-value=17 Score=30.79 Aligned_cols=61 Identities=20% Similarity=0.223 Sum_probs=39.9
Q ss_pred eeeEEEEeEEEeCCC------CCeEEEeeecCCCEEEEEEEec-ccCC---------CCC-----ccEEEEEEEEEEEec
Q 036161 69 SSNIAVRRVSGTTPT------CSGVGIGREMSGRIFNVTVDHL-DTDK---------GRG-----GNIENIIIRNIKMER 127 (247)
Q Consensus 69 s~nI~I~n~~~~~~~------~~gIsIGS~~~g~v~NV~v~n~-Kt~~---------G~g-----G~v~nI~f~nI~~~~ 127 (247)
++||.|+|+++..+. ..+|.+ + +.+||.+.+| -++. .++ ....+||+++..+.+
T Consensus 39 ~~NVIirnl~i~~~~~~~~~~~D~i~~--~---~~~~VwIDHct~s~~~~~~~~~~~~D~~~di~~~s~~vTvs~~~f~~ 113 (190)
T smart00656 39 VSNVIIRNLTIHDPKPVYGSDGDAISI--D---GSSNVWIDHVSLSGCTVTGFGDDTYDGLIDIKNGSTYVTISNNYFHN 113 (190)
T ss_pred cceEEEeCCEEECCccCCCCCCCEEEE--e---CCCeEEEEccEeEcceeccCCCCCCCccEEECcccccEEEECceEec
Confidence 679999999998641 245555 2 2488888888 2222 122 235788888888877
Q ss_pred ccccEEE
Q 036161 128 VKIPIKI 134 (247)
Q Consensus 128 v~~pi~I 134 (247)
..++..+
T Consensus 114 h~~~~li 120 (190)
T smart00656 114 HWKVMLL 120 (190)
T ss_pred CCEEEEE
Confidence 6665544
No 39
>COG3866 PelB Pectate lyase [Carbohydrate transport and metabolism]
Probab=58.66 E-value=1.1e+02 Score=28.45 Aligned_cols=62 Identities=18% Similarity=0.206 Sum_probs=39.3
Q ss_pred eeeEEEEeEEEeCCCC------CeEEEeeecCCCEEEEEEEec---c-cC-----CCCC-----ccEEEEEEEEEEEecc
Q 036161 69 SSNIAVRRVSGTTPTC------SGVGIGREMSGRIFNVTVDHL---D-TD-----KGRG-----GNIENIIIRNIKMERV 128 (247)
Q Consensus 69 s~nI~I~n~~~~~~~~------~gIsIGS~~~g~v~NV~v~n~---K-t~-----~G~g-----G~v~nI~f~nI~~~~v 128 (247)
..||.|+|+++..- . ++|+|=. .-+||++.+| + ++ .++| -....|++++-+..+-
T Consensus 124 a~NVIirNltf~~~-~~~d~~~D~Isi~~----~~~nIWIDH~tf~~~s~~~~~~h~DGl~Dik~~AnyITiS~n~fhdh 198 (345)
T COG3866 124 AGNVIIRNLTFEGF-YQGDPNYDAISIYD----DGHNIWIDHNTFSGGSYNASGSHGDGLVDIKKDANYITISYNKFHDH 198 (345)
T ss_pred CCcEEEEeeEEEee-ccCCCCCCcEEecc----CCeEEEEEeeEeccccccccccCCCccEEeccCCcEEEEEeeeeecC
Confidence 56888888888743 3 6777731 2367777777 1 11 1222 3456788888888887
Q ss_pred cccEEEE
Q 036161 129 KIPIKIS 135 (247)
Q Consensus 129 ~~pi~I~ 135 (247)
...+.+-
T Consensus 199 ~Kssl~G 205 (345)
T COG3866 199 DKSSLLG 205 (345)
T ss_pred Ceeeeec
Confidence 7766553
No 40
>PF09251 PhageP22-tail: Salmonella phage P22 tail-spike; InterPro: IPR015331 This entry is represented by the Bacteriophage P22, Gp9, tailspike protein (TSP). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The TSP C-terminal domain adopts a structure that consists of a single-stranded right-handed beta-helix, which in turn is made of parallel beta-strands and short turns. They are required for recognition of the 0-antigenic repeating units of the cell surface, and for subsequent infection of the bacterial cell by the phage []. ; PDB: 1QA3_A 1QRB_A 2XC1_C 1QA2_A 1TYX_A 2VFQ_A 2VFO_A 1TYU_A 2VFN_A 1QA1_A ....
Probab=58.09 E-value=1.3e+02 Score=29.25 Aligned_cols=54 Identities=30% Similarity=0.393 Sum_probs=32.3
Q ss_pred eeEEEEeEEEeCCCCCeEEEeeecC-CCEEEEEEEecccCCCCCccEE--EEEEEEEEEecc
Q 036161 70 SNIAVRRVSGTTPTCSGVGIGREMS-GRIFNVTVDHLDTDKGRGGNIE--NIIIRNIKMERV 128 (247)
Q Consensus 70 ~nI~I~n~~~~~~~~~gIsIGS~~~-g~v~NV~v~n~Kt~~G~gG~v~--nI~f~nI~~~~v 128 (247)
.|=.|+|...+. .+|+-+|-..+ +.|+||++++| +|.|.+++ +=+|.||++.+.
T Consensus 311 tnHiidNi~~~~--~lGVG~~~DG~~~yvsni~~~d~---~g~G~~~~~~~~~ftNitvId~ 367 (549)
T PF09251_consen 311 TNHIIDNILVRG--SLGVGIGMDGKGGYVSNITVQDC---AGAGIFIRGTNKVFTNITVIDT 367 (549)
T ss_dssp ---EEEEEEEES---SSESCEEECCS-EEEEEEEES----SSESEEEECCS-EEEEEEEES-
T ss_pred hhhhhhhhheec--cceeeeeecCCCceEeeEEeecc---cCCceEEeecCCceeeeEEEec
Confidence 455688988885 68998887654 56999999999 23332222 445667776654
No 41
>PLN02773 pectinesterase
Probab=46.82 E-value=1.7e+02 Score=27.00 Aligned_cols=48 Identities=15% Similarity=0.195 Sum_probs=28.2
Q ss_pred eeecCcEEeeceEEeCCCCceEEEecCCC----CCCCcccce-eeEEeeCCceEEEcCC
Q 036161 4 MNSNNILIISNLAFCNSPFRTIHPVYCSI----APNTDGIDP-DCYIESGNGLVAVKSG 57 (247)
Q Consensus 4 ~~~~nv~~I~giti~nsp~w~i~~~~c~n----~~NtDGIdi-nc~i~~gDD~Iaiksg 57 (247)
..++++. .+||||.|+..- .... .-+.|=.-+ ||.+...-|.+-.+.+
T Consensus 99 v~a~~f~-a~nlT~~Nt~~~-----~~gQAvAl~v~gDr~~f~~c~~~G~QDTL~~~~g 151 (317)
T PLN02773 99 VEGEDFI-AENITFENSAPE-----GSGQAVAIRVTADRCAFYNCRFLGWQDTLYLHYG 151 (317)
T ss_pred EECCCeE-EEeeEEEeCCCC-----CCCcEEEEEecCccEEEEccEeecccceeEeCCC
Confidence 4678999 999999998421 0001 112333333 7777666666666544
No 42
>smart00710 PbH1 Parallel beta-helix repeats. The tertiary structures of pectate lyases and rhamnogalacturonase A show a stack of parallel beta strands that are coiled into a large helix. Each coil of the helix represents a structural repeat that, in some homologues, can be recognised from sequence information alone. Conservation of asparagines might be connected with asparagine-ladders that contribute to the stability of the fold. Proteins containing these repeats most often are enzymes with polysaccharide substrates.
Probab=46.14 E-value=27 Score=18.26 Aligned_cols=22 Identities=23% Similarity=0.311 Sum_probs=16.5
Q ss_pred eeEEEEeEEEeCCCCCeEEEee
Q 036161 70 SNIAVRRVSGTTPTCSGVGIGR 91 (247)
Q Consensus 70 ~nI~I~n~~~~~~~~~gIsIGS 91 (247)
.+++|+++++.....+||.+..
T Consensus 2 ~~~~i~~n~i~~~~~~Gi~i~~ 23 (26)
T smart00710 2 SNVTIENNTIRNNGGDGIYIGG 23 (26)
T ss_pred CCEEEECCEEEeCCCCcEEEec
Confidence 4789999999876345887754
No 43
>PF01696 Adeno_E1B_55K: Adenovirus EB1 55K protein / large t-antigen; InterPro: IPR002612 This family consists of adenovirus E1B 55 kDa protein or large t-antigen. E1B 55 kDa binds p53 the tumor suppressor protein converting it from a transcriptional activator which responds to damaged DNA in to an unregulated repressor of genes with a p53 binding site []. This protects the virus against p53 induced host antiviral responses and prevents apoptosis as induced by the adenovirus E1A protein []. The E1B region of adenovirus encodes two proteins E1B 55 kDa, the large t-antigen as found in this family and E1B 19 kDa IPR002924 from INTERPRO, the small t-antigen. Both of these proteins inhibit E1A induced apoptosis.
Probab=34.71 E-value=3.4e+02 Score=25.89 Aligned_cols=92 Identities=18% Similarity=0.240 Sum_probs=0.0
Q ss_pred EEEcCCCCCCCccCCCCeeeEEEEeEEEeCCCCCeEEEeeecCCCEEEEEEEecccCCCCCccEEEEEEEEEEEeccc--
Q 036161 52 VAVKSGWDHDGIAMARPSSNIAVRRVSGTTPTCSGVGIGREMSGRIFNVTVDHLDTDKGRGGNIENIIIRNIKMERVK-- 129 (247)
Q Consensus 52 Iaiksg~~~~G~~~~~ps~nI~I~n~~~~~~~~~gIsIGS~~~g~v~NV~v~n~Kt~~G~gG~v~nI~f~nI~~~~v~-- 129 (247)
|+|.++ ....-.+.|.|+.+-..-| +|-.|-=...+++- +.+..-.-.|+- +.+.+|+|.||+.+.-.
T Consensus 67 VaL~Pg------~~Y~i~~~V~I~~~cYIiG--nGA~V~v~~~~~~~-f~v~~~~~~P~V-~gM~~VtF~ni~F~~~~~~ 136 (386)
T PF01696_consen 67 VALRPG------AVYVIRKPVNIRSCCYIIG--NGATVRVNGPDRVA-FRVCMQSMGPGV-VGMEGVTFVNIRFEGRDTF 136 (386)
T ss_pred EEeCCC------CEEEEeeeEEecceEEEEC--CCEEEEEeCCCCce-EEEEcCCCCCeE-eeeeeeEEEEEEEecCCcc
Q ss_pred ccEEEEecCCCCCCCCCCCCCCCeEEeEEEEEEEEE
Q 036161 130 IPIKISRGSNGHPDEGRDPKAIPKIRGISFVNVFSV 165 (247)
Q Consensus 130 ~pi~I~~~y~~~~~~~~~~~~~~~I~nItf~nI~~t 165 (247)
.++.+...+. ..+.+..|.|+.++
T Consensus 137 ~g~~f~~~t~------------~~~hgC~F~gf~g~ 160 (386)
T PF01696_consen 137 SGVVFHANTN------------TLFHGCSFFGFHGT 160 (386)
T ss_pred ceeEEEecce------------EEEEeeEEecCcce
No 44
>PF07602 DUF1565: Protein of unknown function (DUF1565); InterPro: IPR011459 These proteins share a region of homology in their N termini, and are found in several phylogenetically diverse bacteria and in the archaeon Methanosarcina acetivorans. Some of these proteins also contain characterised domains such as IPR001119 from INTERPRO (e.g. Q8YWJ6 from SWISSPROT) and IPR005084 from INTERPRO (e.g. Q9FBS2 from SWISSPROT).
Probab=33.95 E-value=3.4e+02 Score=24.14 Aligned_cols=17 Identities=29% Similarity=0.444 Sum_probs=11.2
Q ss_pred EeeecCcEEeeceEEeCC
Q 036161 3 LMNSNNILIISNLAFCNS 20 (247)
Q Consensus 3 ~~~~~nv~~I~giti~ns 20 (247)
+....+.. |+|+++.|+
T Consensus 93 I~~~~~~~-i~GvtItN~ 109 (246)
T PF07602_consen 93 IILANNAT-ISGVTITNP 109 (246)
T ss_pred EEecCCCE-EEEEEEEcC
Confidence 44556666 777777776
No 45
>PLN02480 Probable pectinesterase
Probab=26.61 E-value=4e+02 Score=24.89 Aligned_cols=51 Identities=8% Similarity=0.053 Sum_probs=27.2
Q ss_pred eeecCcEEeeceEEeCCCCceEEEecCCC-----CCCCcccce-eeEEeeCCceEEEcC
Q 036161 4 MNSNNILIISNLAFCNSPFRTIHPVYCSI-----APNTDGIDP-DCYIESGNGLVAVKS 56 (247)
Q Consensus 4 ~~~~nv~~I~giti~nsp~w~i~~~~c~n-----~~NtDGIdi-nc~i~~gDD~Iaiks 56 (247)
...+++. ++||||+|+.--.. ...... ..+.|-.-+ ||.+...-|-+-...
T Consensus 129 V~a~~f~-a~nLTf~Nta~~g~-~~~~~~QAVAl~v~gDra~f~~c~f~G~QDTLy~~~ 185 (343)
T PLN02480 129 VEAPHFV-AFGISIRNDAPTGM-AFTSENQSVAAFVGADKVAFYHCAFYSTHNTLFDYK 185 (343)
T ss_pred EECCCEE-EEeeEEEecCCCCC-CCCCCCceEEEEecCCcEEEEeeEEecccceeEeCC
Confidence 4567888 99999999831000 000000 234555555 777766556555443
No 46
>PRK10123 wcaM putative colanic acid biosynthesis protein; Provisional
Probab=25.40 E-value=1.5e+02 Score=27.51 Aligned_cols=14 Identities=7% Similarity=0.195 Sum_probs=9.1
Q ss_pred CeeeEEEEeEEEeC
Q 036161 68 PSSNIAVRRVSGTT 81 (247)
Q Consensus 68 ps~nI~I~n~~~~~ 81 (247)
-.+|.+|.+.++..
T Consensus 149 vmrnl~id~itv~~ 162 (464)
T PRK10123 149 VMRNLTIDNLTVSH 162 (464)
T ss_pred hhhccEEccEEEee
Confidence 35677777777653
No 47
>PF05342 Peptidase_M26_N: M26 IgA1-specific Metallo-endopeptidase N-terminal region; InterPro: IPR008006 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. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases corresponds to MEROPS peptidase family M26 (clan MA(E)). The active site residues for members of this family and family M4 occur in the motif HEXXH. The type example is IgA1-specific metalloendopeptidase from Streptococcus sanguis (Q59986 from SWISSPROT).; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0016021 integral to membrane
Probab=23.73 E-value=1e+02 Score=27.54 Aligned_cols=30 Identities=17% Similarity=0.212 Sum_probs=20.9
Q ss_pred CCeEEeEEEEEEEEEecCCCC---------EEEEeeEEE
Q 036161 151 IPKIRGISFVNVFSVNTTKAP---------ICMKNVSLL 180 (247)
Q Consensus 151 ~~~I~nItf~nI~~t~~~~~~---------I~l~nV~i~ 180 (247)
.+.|+||.|+|+.+.+....+ =+++||++.
T Consensus 211 gatI~nL~l~nv~I~~~d~va~LA~~ak~~t~IenV~v~ 249 (250)
T PF05342_consen 211 GATIKNLNLKNVNINGPDDVAALANEAKNNTTIENVKVT 249 (250)
T ss_pred CCEEEcceeEEeeeeccccHHHHHHhhccCCEEEEEEec
Confidence 357999999999888753221 457777764
Done!