Query 040317
Match_columns 125
No_of_seqs 127 out of 1028
Neff 7.1
Searched_HMMs 46136
Date Fri Mar 29 07:16:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040317.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040317hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02155 polygalacturonase 100.0 1.7E-34 3.6E-39 234.3 16.1 124 1-124 171-318 (394)
2 PLN02218 polygalacturonase ADP 100.0 2.4E-34 5.3E-39 235.5 15.7 122 1-124 218-363 (431)
3 PLN02793 Probable polygalactur 100.0 5.3E-34 1.1E-38 234.3 16.4 123 1-124 203-349 (443)
4 PLN03010 polygalacturonase 100.0 1.1E-33 2.4E-38 230.3 16.4 122 1-123 183-328 (409)
5 PLN03003 Probable polygalactur 100.0 1.3E-33 2.7E-38 232.1 16.0 117 1-118 164-304 (456)
6 PLN02188 polygalacturonase/gly 100.0 8.2E-33 1.8E-37 225.1 16.2 120 1-120 181-325 (404)
7 PF00295 Glyco_hydro_28: Glyco 100.0 4.3E-31 9.3E-36 209.6 12.8 116 1-117 118-257 (326)
8 COG5434 PGU1 Endopygalactoruna 99.9 5.7E-22 1.2E-26 165.7 10.8 109 1-112 264-405 (542)
9 PF00295 Glyco_hydro_28: Glyco 99.0 2.6E-09 5.6E-14 85.1 10.5 109 1-114 95-225 (326)
10 PLN03010 polygalacturonase 99.0 1.2E-08 2.5E-13 83.9 12.8 110 1-116 160-292 (409)
11 PLN02218 polygalacturonase ADP 99.0 1E-08 2.2E-13 84.7 11.9 110 1-115 195-326 (431)
12 PLN02188 polygalacturonase/gly 98.9 2.1E-08 4.6E-13 82.2 12.8 109 1-114 158-288 (404)
13 PLN02793 Probable polygalactur 98.9 3.1E-08 6.6E-13 82.2 12.9 110 1-115 180-311 (443)
14 PLN03003 Probable polygalactur 98.9 3E-08 6.5E-13 82.4 12.0 110 1-115 141-272 (456)
15 PLN02155 polygalacturonase 98.8 9.2E-08 2E-12 78.3 13.1 109 1-114 148-278 (394)
16 COG5434 PGU1 Endopygalactoruna 98.5 2.4E-06 5.2E-11 72.4 11.4 108 1-115 241-379 (542)
17 smart00656 Amb_all Amb_all dom 98.2 1.9E-05 4E-10 58.7 10.5 100 1-105 34-144 (190)
18 PF03718 Glyco_hydro_49: Glyco 98.2 1.8E-05 3.8E-10 66.9 10.1 100 9-113 358-498 (582)
19 PF12541 DUF3737: Protein of u 97.9 4E-05 8.7E-10 59.7 6.7 92 5-109 116-229 (277)
20 TIGR03805 beta_helix_1 paralle 97.8 0.00026 5.6E-09 56.4 10.5 36 5-44 61-96 (314)
21 TIGR03805 beta_helix_1 paralle 97.8 0.00022 4.7E-09 56.8 9.4 75 2-82 81-158 (314)
22 PF00544 Pec_lyase_C: Pectate 97.4 0.00038 8.2E-09 52.1 5.2 99 5-105 44-158 (200)
23 PF12541 DUF3737: Protein of u 97.2 0.0016 3.5E-08 50.9 7.4 94 4-106 95-207 (277)
24 PF13229 Beta_helix: Right han 97.0 0.0034 7.3E-08 43.1 6.8 103 1-114 3-122 (158)
25 PF12708 Pectate_lyase_3: Pect 97.0 0.016 3.5E-07 42.3 10.3 37 9-45 94-132 (225)
26 PF13229 Beta_helix: Right han 96.9 0.0033 7.2E-08 43.1 5.9 44 62-111 99-144 (158)
27 COG3866 PelB Pectate lyase [Ca 96.6 0.053 1.1E-06 43.5 11.0 104 2-105 120-229 (345)
28 PF05048 NosD: Periplasmic cop 96.4 0.073 1.6E-06 39.9 10.4 40 3-47 40-79 (236)
29 PF05048 NosD: Periplasmic cop 95.8 0.14 3E-06 38.4 9.7 43 2-49 17-59 (236)
30 PF12708 Pectate_lyase_3: Pect 95.4 0.56 1.2E-05 34.1 11.5 96 2-109 116-224 (225)
31 TIGR03808 RR_plus_rpt_1 twin-a 94.9 0.27 5.8E-06 41.3 9.1 40 6-45 114-155 (455)
32 PF09251 PhageP22-tail: Salmon 93.9 0.28 6.1E-06 41.1 7.1 81 5-105 262-367 (549)
33 PF07602 DUF1565: Protein of u 92.7 2.1 4.6E-05 33.2 10.0 102 3-112 93-195 (246)
34 smart00656 Amb_all Amb_all dom 90.1 1.3 2.9E-05 32.7 6.4 80 26-112 32-121 (190)
35 PF00544 Pec_lyase_C: Pectate 89.3 0.83 1.8E-05 34.0 4.7 74 1-75 78-158 (200)
36 TIGR03808 RR_plus_rpt_1 twin-a 89.2 4.3 9.2E-05 34.3 9.2 82 23-104 237-337 (455)
37 TIGR03804 para_beta_helix para 89.0 0.89 1.9E-05 25.3 3.7 40 1-45 2-41 (44)
38 COG3866 PelB Pectate lyase [Ca 79.0 33 0.00072 27.8 10.2 79 4-82 151-237 (345)
39 PF03718 Glyco_hydro_49: Glyco 78.4 19 0.00041 31.3 8.6 97 3-105 325-441 (582)
40 smart00710 PbH1 Parallel beta- 75.6 3.2 6.9E-05 19.3 2.1 21 63-83 2-23 (26)
41 COG3420 NosD Nitrous oxidase a 61.6 19 0.0004 29.7 4.8 49 2-50 124-175 (408)
42 PRK10123 wcaM putative colanic 61.0 42 0.00091 27.3 6.6 98 1-105 262-374 (464)
43 PF03211 Pectate_lyase: Pectat 37.4 1.9E+02 0.004 22.1 9.6 104 7-118 61-184 (215)
44 PRK10123 wcaM putative colanic 35.7 44 0.00096 27.2 3.1 13 93-105 301-313 (464)
45 PLN02634 probable pectinestera 33.7 2.7E+02 0.0059 22.9 8.5 67 34-105 223-291 (359)
46 PLN02468 putative pectinestera 33.0 3.3E+02 0.0072 23.7 10.3 44 5-49 343-388 (565)
47 PF01095 Pectinesterase: Pecti 32.5 1E+02 0.0023 24.4 4.8 44 5-49 85-130 (298)
48 PF06594 HCBP_related: Haemoly 29.8 1E+02 0.0022 16.8 3.8 29 71-99 5-34 (43)
49 PF01696 Adeno_E1B_55K: Adenov 29.0 3.4E+02 0.0074 22.6 7.3 48 33-86 120-167 (386)
50 PLN02773 pectinesterase 29.0 3.1E+02 0.0067 22.1 9.8 45 4-49 99-145 (317)
51 KOG3448 Predicted snRNP core p 26.3 1.3E+02 0.0028 19.9 3.6 13 8-20 37-49 (96)
52 PF04026 SpoVG: SpoVG; InterP 20.5 1.8E+02 0.004 18.7 3.5 32 65-97 29-62 (84)
No 1
>PLN02155 polygalacturonase
Probab=100.00 E-value=1.7e-34 Score=234.28 Aligned_cols=124 Identities=53% Similarity=1.016 Sum_probs=111.8
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc------------------------eeeccCC
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF------------------------VNRLGDH 56 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~------------------------igs~G~~ 56 (125)
|++.+|++|+|++++|.+|.++|||||||+.+|+||+|+||+|.+|||| +||+|++
T Consensus 171 i~~~~~~nv~i~~v~I~~p~~~~NtDGidi~~s~nV~I~~~~I~~gDDcIaik~gs~nI~I~n~~c~~GhGisIGS~g~~ 250 (394)
T PLN02155 171 MTLNGCTNVVVRNVKLVAPGNSPNTDGFHVQFSTGVTFTGSTVQTGDDCVAIGPGTRNFLITKLACGPGHGVSIGSLAKE 250 (394)
T ss_pred EEEECeeeEEEEEEEEECCCCCCCCCccccccceeEEEEeeEEecCCceEEcCCCCceEEEEEEEEECCceEEecccccc
Confidence 5788999999999999999889999999999999999999999999999 2345545
Q ss_pred CCcCCeEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEeccCccEEEEeeeCCCCCCCCC
Q 040317 57 LNEEGVQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPIIIDRNYCSYNRGCPH 124 (125)
Q Consensus 57 ~~~~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i~i~~~y~~~~~~c~~ 124 (125)
+..++|+||+|+||+|.++.+|+|||||+++++|+|+||+|+||+|+++++||+|+|+|++....|++
T Consensus 251 ~~~~~V~nV~v~n~~~~~t~~GirIKT~~~~~gG~v~nI~f~ni~m~~v~~pI~i~q~Y~~~~~~~~~ 318 (394)
T PLN02155 251 LNEDGVENVTVSSSVFTGSQNGVRIKSWARPSTGFVRNVFFQDLVMKNVENPIIIDQNYCPTHEGCPN 318 (394)
T ss_pred CCCCcEEEEEEEeeEEeCCCcEEEEEEecCCCCEEEEEEEEEeEEEcCccccEEEEecccCCCCCCcC
Confidence 44688999999999999999999999998667899999999999999999999999999886555753
No 2
>PLN02218 polygalacturonase ADPG
Probab=100.00 E-value=2.4e-34 Score=235.52 Aligned_cols=122 Identities=37% Similarity=0.710 Sum_probs=109.5
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCce--------------------e-eccCCC--
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPFV--------------------N-RLGDHL-- 57 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~i--------------------g-s~G~~~-- 57 (125)
+++.+|+||+|++++|.+|.++|||||||+.+|+||+|+||+|.+||||+ | |+|+++
T Consensus 218 i~~~~~~nV~i~~v~I~a~~~spNTDGIdi~ss~nV~I~n~~I~tGDDcIaIksgs~nI~I~n~~c~~GHGisIGS~g~~ 297 (431)
T PLN02218 218 ISIEKCSNVQVSNVVVTAPADSPNTDGIHITNTQNIRVSNSIIGTGDDCISIESGSQNVQINDITCGPGHGISIGSLGDD 297 (431)
T ss_pred EEEEceeeEEEEEEEEeCCCCCCCCCcEeecccceEEEEccEEecCCceEEecCCCceEEEEeEEEECCCCEEECcCCCC
Confidence 57899999999999999998899999999999999999999999999992 1 455544
Q ss_pred -CcCCeEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEeccCccEEEEeeeCCCCCCCCC
Q 040317 58 -NEEGVQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPIIIDRNYCSYNRGCPH 124 (125)
Q Consensus 58 -~~~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i~i~~~y~~~~~~c~~ 124 (125)
..+.|+||+|+||+|.++.+|+|||||+| ++|.|+||+|+||+|+++++||+|+|+|+++.. |++
T Consensus 298 ~~~~~V~nV~v~n~~~~~t~nGvRIKT~~G-g~G~v~nI~f~ni~m~~V~~pI~Idq~Y~~~~~-~~~ 363 (431)
T PLN02218 298 NSKAFVSGVTVDGAKLSGTDNGVRIKTYQG-GSGTASNIIFQNIQMENVKNPIIIDQDYCDKSK-CTS 363 (431)
T ss_pred CCCceEEEEEEEccEEecCCcceEEeecCC-CCeEEEEEEEEeEEEEcccccEEEEeeccCCCC-CCC
Confidence 24579999999999999999999999997 679999999999999999999999999988653 754
No 3
>PLN02793 Probable polygalacturonase
Probab=100.00 E-value=5.3e-34 Score=234.27 Aligned_cols=123 Identities=40% Similarity=0.754 Sum_probs=110.7
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc------------------------eeeccCC
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF------------------------VNRLGDH 56 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~------------------------igs~G~~ 56 (125)
+++.+|++|+|++++|.+|.++|||||||+.+|+||+|+||+|++|||| +||+|..
T Consensus 203 i~~~~~~nv~i~~l~I~~p~~spNTDGIdi~~s~nV~I~n~~I~~gDDcIaik~~s~nI~I~n~~c~~GhGisIGSlg~~ 282 (443)
T PLN02793 203 IAFTNCRRVTISGLKVIAPATSPNTDGIHISASRGVVIKDSIVRTGDDCISIVGNSSRIKIRNIACGPGHGISIGSLGKS 282 (443)
T ss_pred EEEEccCcEEEEEEEEECCCCCCCCCcEeeeccceEEEEeCEEeCCCCeEEecCCcCCEEEEEeEEeCCccEEEecccCc
Confidence 4788999999999999999889999999999999999999999999999 2344443
Q ss_pred CCcCCeEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEeccCccEEEEeeeCCCCCCCCC
Q 040317 57 LNEEGVQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPIIIDRNYCSYNRGCPH 124 (125)
Q Consensus 57 ~~~~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i~i~~~y~~~~~~c~~ 124 (125)
...+.|+||+|+||+|.++.+|+|||||+| ++|.|+||+|+||+|+++++||+|+|+|++...+|.+
T Consensus 283 ~~~~~V~nV~v~n~~~~~t~~GirIKt~~g-~~G~v~nItf~ni~m~nv~~pI~I~q~Y~~~~~~~~~ 349 (443)
T PLN02793 283 NSWSEVRDITVDGAFLSNTDNGVRIKTWQG-GSGNASKITFQNIFMENVSNPIIIDQYYCDSRKPCAN 349 (443)
T ss_pred CCCCcEEEEEEEccEEeCCCceEEEEEeCC-CCEEEEEEEEEeEEEecCCceEEEEeeecCCCCCCCC
Confidence 335779999999999999999999999997 6799999999999999999999999999887667864
No 4
>PLN03010 polygalacturonase
Probab=100.00 E-value=1.1e-33 Score=230.29 Aligned_cols=122 Identities=39% Similarity=0.672 Sum_probs=108.8
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCce--------------------e-eccCCC--
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPFV--------------------N-RLGDHL-- 57 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~i--------------------g-s~G~~~-- 57 (125)
+++.+|++|+|++++|.++..+|||||||+.+|+||+|+||+|.+||||+ | |+|+++
T Consensus 183 i~i~~~~nv~i~~i~I~a~~~s~NTDGiDi~~s~nV~I~n~~I~~gDDcIaiksgs~ni~I~~~~C~~gHGisIGS~g~~ 262 (409)
T PLN03010 183 ISIKTCNYVAISKINILAPETSPNTDGIDISYSTNINIFDSTIQTGDDCIAINSGSSNINITQINCGPGHGISVGSLGAD 262 (409)
T ss_pred EEEeccccEEEEEEEEeCCCCCCCCCceeeeccceEEEEeeEEecCCCeEEecCCCCcEEEEEEEeECcCCEEEccCCCC
Confidence 47889999999999999998889999999999999999999999999992 1 345543
Q ss_pred -CcCCeEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEeccCccEEEEeeeCCCCCCCC
Q 040317 58 -NEEGVQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPIIIDRNYCSYNRGCP 123 (125)
Q Consensus 58 -~~~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i~i~~~y~~~~~~c~ 123 (125)
..+.|+||+|+||+|.++.+|+|||||+| ++|.|+||+|+||+|+++++||+|+|+|++.+.+|.
T Consensus 263 ~~~~~V~nV~v~n~~i~~t~~GirIKt~~G-~~G~v~nItf~nI~m~~v~~pI~I~q~Y~~~~~~~~ 328 (409)
T PLN03010 263 GANAKVSDVHVTHCTFNQTTNGARIKTWQG-GQGYARNISFENITLINTKNPIIIDQQYIDKGKLDA 328 (409)
T ss_pred CCCCeeEEEEEEeeEEeCCCcceEEEEecC-CCEEEEEeEEEeEEEecCCccEEEEeeccCCCCCCC
Confidence 23459999999999999999999999997 679999999999999999999999999998666564
No 5
>PLN03003 Probable polygalacturonase At3g15720
Probab=100.00 E-value=1.3e-33 Score=232.07 Aligned_cols=117 Identities=38% Similarity=0.676 Sum_probs=106.5
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc------------------------eeeccCC
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF------------------------VNRLGDH 56 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~------------------------igs~G~~ 56 (125)
+++..|++|+|++++|.+|.++|||||||+.+|+||+|+||+|.+|||| +||+|+.
T Consensus 164 i~i~~c~nV~i~~l~I~ap~~spNTDGIDi~~S~nV~I~n~~I~tGDDCIaiksgs~NI~I~n~~c~~GHGISIGSlg~~ 243 (456)
T PLN03003 164 IHISECNYVTISSLRINAPESSPNTDGIDVGASSNVVIQDCIIATGDDCIAINSGTSNIHISGIDCGPGHGISIGSLGKD 243 (456)
T ss_pred EEEeccccEEEEEEEEeCCCCCCCCCcEeecCcceEEEEecEEecCCCeEEeCCCCccEEEEeeEEECCCCeEEeeccCC
Confidence 5789999999999999999889999999999999999999999999999 2345544
Q ss_pred CCcCCeEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEeccCccEEEEeeeCCC
Q 040317 57 LNEEGVQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPIIIDRNYCSY 118 (125)
Q Consensus 57 ~~~~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i~i~~~y~~~ 118 (125)
.+.+.|+||+|+||+|.++.+|+|||||+| ++|+|+||+|+||+|+++++||+|+|+|++.
T Consensus 244 g~~~~V~NV~v~n~~~~~T~nGvRIKT~~G-g~G~v~nItf~nI~m~nV~~pI~Idq~Y~~~ 304 (456)
T PLN03003 244 GETATVENVCVQNCNFRGTMNGARIKTWQG-GSGYARMITFNGITLDNVENPIIIDQFYNGG 304 (456)
T ss_pred CCcceEEEEEEEeeEEECCCcEEEEEEeCC-CCeEEEEEEEEeEEecCccceEEEEcccCCC
Confidence 334569999999999999999999999997 5799999999999999999999999999864
No 6
>PLN02188 polygalacturonase/glycoside hydrolase family protein
Probab=100.00 E-value=8.2e-33 Score=225.05 Aligned_cols=120 Identities=43% Similarity=0.748 Sum_probs=108.0
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc------------------------eeeccCC
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF------------------------VNRLGDH 56 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~------------------------igs~G~~ 56 (125)
+++.+|++|+|++++|.++.++|||||||+++|+||+|+||+|.+|||| +||+|++
T Consensus 181 i~~~~~~~v~i~~v~I~~~~~spNtDGidi~~s~nV~I~n~~I~~GDDcIaiksg~~nI~I~n~~c~~ghGisiGSlG~~ 260 (404)
T PLN02188 181 IALVECRNFKGSGLKISAPSDSPNTDGIHIERSSGVYISDSRIGTGDDCISIGQGNSQVTITRIRCGPGHGISVGSLGRY 260 (404)
T ss_pred EEEEccccEEEEEEEEeCCCCCCCCCcEeeeCcccEEEEeeEEeCCCcEEEEccCCccEEEEEEEEcCCCcEEeCCCCCC
Confidence 4788999999999999999889999999999999999999999999999 2455553
Q ss_pred CCcCCeEEEEEEeeEecCCCceEEEEeecCC-CCceEEeEEEEcEEEeccCccEEEEeeeCCCCC
Q 040317 57 LNEEGVQNVTVTSSSFTNTQNGVRIKLWARP-RNGYARNIAFRNIIMNDIQNPIIIDRNYCSYNR 120 (125)
Q Consensus 57 ~~~~~i~nV~v~n~~~~~t~~gi~Ikt~~g~-~~G~v~nI~~~ni~~~~v~~~i~i~~~y~~~~~ 120 (125)
...++|+||+|+||+|.++.+|+|||||++. ++|.|+||+|+||+|+++++||+|+|+|++++.
T Consensus 261 ~~~~~V~nV~v~n~~~~~t~~GiriKt~~g~~~~G~v~nI~f~ni~m~~v~~pI~i~~~Y~~~~~ 325 (404)
T PLN02188 261 PNEGDVTGLVVRDCTFTGTTNGIRIKTWANSPGKSAATNMTFENIVMNNVTNPIIIDQKYCPFYS 325 (404)
T ss_pred CcCCcEEEEEEEeeEEECCCcEEEEEEecCCCCceEEEEEEEEeEEecCccceEEEEccccCCCC
Confidence 3367899999999999999999999999863 358999999999999999999999999998654
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=99.97 E-value=4.3e-31 Score=209.63 Aligned_cols=116 Identities=40% Similarity=0.740 Sum_probs=102.7
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCce--------------------e-eccCCCCc
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPFV--------------------N-RLGDHLNE 59 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~i--------------------g-s~G~~~~~ 59 (125)
+++.+|++|+|++++|.++...+|+||||+.+|+||+|+||+|++||||+ | ++|+++..
T Consensus 118 ~~~~~~~nv~i~~i~I~~~~~~~NtDGid~~~s~nv~I~n~~i~~gDD~Iaiks~~~ni~v~n~~~~~ghGisiGS~~~~ 197 (326)
T PF00295_consen 118 IHINDCDNVTISNITINNPANSPNTDGIDIDSSKNVTIENCFIDNGDDCIAIKSGSGNILVENCTCSGGHGISIGSEGSG 197 (326)
T ss_dssp EEEESEEEEEEESEEEEEGGGCTS--SEEEESEEEEEEESEEEESSSESEEESSEECEEEEESEEEESSSEEEEEEESSS
T ss_pred EEEEccCCeEEcceEEEecCCCCCcceEEEEeeeEEEEEEeecccccCcccccccccceEEEeEEEeccccceeeeccCC
Confidence 46889999999999999988789999999999999999999999999992 1 45555522
Q ss_pred ---CCeEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEeccCccEEEEeeeCC
Q 040317 60 ---EGVQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPIIIDRNYCS 117 (125)
Q Consensus 60 ---~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i~i~~~y~~ 117 (125)
..|+||+|+||+|.++.+|++||||++ ++|.|+||+|+||+|+++++||+|+|.|.+
T Consensus 198 ~~~~~i~nV~~~n~~i~~t~~gi~iKt~~~-~~G~v~nI~f~ni~~~~v~~pi~i~~~y~~ 257 (326)
T PF00295_consen 198 GSQNDIRNVTFENCTIINTDNGIRIKTWPG-GGGYVSNITFENITMENVKYPIFIDQDYRD 257 (326)
T ss_dssp SE--EEEEEEEEEEEEESESEEEEEEEETT-TSEEEEEEEEEEEEEEEESEEEEEEEEECT
T ss_pred ccccEEEeEEEEEEEeeccceEEEEEEecc-cceEEeceEEEEEEecCCceEEEEEecccc
Confidence 359999999999999999999999996 679999999999999999999999999987
No 8
>COG5434 PGU1 Endopygalactorunase [Cell envelope biogenesis, outer membrane]
Probab=99.87 E-value=5.7e-22 Score=165.74 Aligned_cols=109 Identities=31% Similarity=0.482 Sum_probs=97.1
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCce------------------------------
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPFV------------------------------ 50 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~i------------------------------ 50 (125)
+|+..|++++++|++|.++... |+||||+.+|+||+|++|+|++|||||
T Consensus 264 ~h~~~~~nl~~~nl~I~~~~~~-NtDG~d~~sc~NvlI~~~~fdtgDD~I~iksg~~~~~~~~~~~~~~i~i~~c~~~~g 342 (542)
T COG5434 264 VHPVDCDNLTFRNLTIDANRFD-NTDGFDPGSCSNVLIEGCRFDTGDDCIAIKSGAGLDGKKGYGPSRNIVIRNCYFSSG 342 (542)
T ss_pred EeeecccCceecceEEECCCCC-CCCccccccceeEEEeccEEecCCceEEeecccCCcccccccccccEEEecceeccc
Confidence 5778899999999999987544 999999999999999999999999992
Q ss_pred -e--eccCCCCcCCeEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEeccCccEEEE
Q 040317 51 -N--RLGDHLNEEGVQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPIIID 112 (125)
Q Consensus 51 -g--s~G~~~~~~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i~i~ 112 (125)
| .+|+|+ .++|+||+++||.|.++.+|+||||..+ ++|.|+||+|++++|.++..+..|.
T Consensus 343 hG~~v~Gse~-~ggv~ni~ved~~~~~~d~GLRikt~~~-~gG~v~nI~~~~~~~~nv~t~~~i~ 405 (542)
T COG5434 343 HGGLVLGSEM-GGGVQNITVEDCVMDNTDRGLRIKTNDG-RGGGVRNIVFEDNKMRNVKTKLSIN 405 (542)
T ss_pred ccceEeeeec-CCceeEEEEEeeeeccCcceeeeeeecc-cceeEEEEEEecccccCcccceeee
Confidence 1 478888 8899999999999999999999999997 7899999999999999997655555
No 9
>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=99.03 E-value=2.6e-09 Score=85.08 Aligned_cols=109 Identities=22% Similarity=0.338 Sum_probs=76.9
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCC-----cee--------------eccCCCC--c
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEP-----FVN--------------RLGDHLN--E 59 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD-----~ig--------------s~G~~~~--~ 59 (125)
|.|..|++++|+++++.++ |.+ .+.+..|+||+|++..|.+..+ ++- .-|.... .
T Consensus 95 i~~~~~~~~~i~~i~~~ns---p~w-~~~~~~~~nv~i~~i~I~~~~~~~NtDGid~~~s~nv~I~n~~i~~gDD~Iaik 170 (326)
T PF00295_consen 95 IRFNNCKNVTIEGITIRNS---PFW-HIHINDCDNVTISNITINNPANSPNTDGIDIDSSKNVTIENCFIDNGDDCIAIK 170 (326)
T ss_dssp EEEEEEEEEEEESEEEES----SSE-SEEEESEEEEEEESEEEEEGGGCTS--SEEEESEEEEEEESEEEESSSESEEES
T ss_pred eeeeeecceEEEeeEecCC---Cee-EEEEEccCCeEEcceEEEecCCCCCcceEEEEeeeEEEEEEeecccccCccccc
Confidence 4688999999999999985 444 5789999999999999987532 210 0111110 1
Q ss_pred CCeEEEEEEeeEecCCCceEEEEeecCCC-CceEEeEEEEcEEEeccCccEEEEee
Q 040317 60 EGVQNVTVTSSSFTNTQNGVRIKLWARPR-NGYARNIAFRNIIMNDIQNPIIIDRN 114 (125)
Q Consensus 60 ~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~-~G~v~nI~~~ni~~~~v~~~i~i~~~ 114 (125)
.+-.||+|+||++.+ .+|+.|.+...+. ...|+||+|+|+++.+..+++.|...
T Consensus 171 s~~~ni~v~n~~~~~-ghGisiGS~~~~~~~~~i~nV~~~n~~i~~t~~gi~iKt~ 225 (326)
T PF00295_consen 171 SGSGNILVENCTCSG-GHGISIGSEGSGGSQNDIRNVTFENCTIINTDNGIRIKTW 225 (326)
T ss_dssp SEECEEEEESEEEES-SSEEEEEEESSSSE--EEEEEEEEEEEEESESEEEEEEEE
T ss_pred ccccceEEEeEEEec-cccceeeeccCCccccEEEeEEEEEEEeeccceEEEEEEe
Confidence 222378888888755 4667777654311 13599999999999999999999774
No 10
>PLN03010 polygalacturonase
Probab=98.98 E-value=1.2e-08 Score=83.87 Aligned_cols=110 Identities=17% Similarity=0.243 Sum_probs=81.3
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCceeeccCCCCcCCeEEEEEEeeEecCCCceEE
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPFVNRLGDHLNEEGVQNVTVTSSSFTNTQNGVR 80 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~igs~G~~~~~~~i~nV~v~n~~~~~t~~gi~ 80 (125)
|.|.+|++++|+++++.++ |.+ -+.+..|++|+|++..|.+-.+....=|-. -...+||+|+||++...+.+|.
T Consensus 160 l~~~~~~nv~v~gitl~ns---p~~-~i~i~~~~nv~i~~i~I~a~~~s~NTDGiD--i~~s~nV~I~n~~I~~gDDcIa 233 (409)
T PLN03010 160 LHISKCDNLTINGITSIDS---PKN-HISIKTCNYVAISKINILAPETSPNTDGID--ISYSTNINIFDSTIQTGDDCIA 233 (409)
T ss_pred EEEEeecCeEEeeeEEEcC---Cce-EEEEeccccEEEEEEEEeCCCCCCCCCcee--eeccceEEEEeeEEecCCCeEE
Confidence 4689999999999999985 444 588999999999999999743221111111 2345788888888888877888
Q ss_pred EEeec------------C--------CCC---ceEEeEEEEcEEEeccCccEEEEeeeC
Q 040317 81 IKLWA------------R--------PRN---GYARNIAFRNIIMNDIQNPIIIDRNYC 116 (125)
Q Consensus 81 Ikt~~------------g--------~~~---G~v~nI~~~ni~~~~v~~~i~i~~~y~ 116 (125)
||+-. + +.+ ..|+||+|+|++|.+..+++.|....+
T Consensus 234 iksgs~ni~I~~~~C~~gHGisIGS~g~~~~~~~V~nV~v~n~~i~~t~~GirIKt~~G 292 (409)
T PLN03010 234 INSGSSNINITQINCGPGHGISVGSLGADGANAKVSDVHVTHCTFNQTTNGARIKTWQG 292 (409)
T ss_pred ecCCCCcEEEEEEEeECcCCEEEccCCCCCCCCeeEEEEEEeeEEeCCCcceEEEEecC
Confidence 87431 0 111 349999999999999999999987643
No 11
>PLN02218 polygalacturonase ADPG
Probab=98.97 E-value=1e-08 Score=84.69 Aligned_cols=110 Identities=13% Similarity=0.291 Sum_probs=79.3
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc-----e--e------------eccCCCC--c
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF-----V--N------------RLGDHLN--E 59 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~-----i--g------------s~G~~~~--~ 59 (125)
|.|.+|+|++|+++++.++ |.+ -+++..|+||+|++..|.+..|. + . .-|...- .
T Consensus 195 i~f~~~~nv~I~gitl~nS---p~w-~i~~~~~~nV~i~~v~I~a~~~spNTDGIdi~ss~nV~I~n~~I~tGDDcIaIk 270 (431)
T PLN02218 195 LTFYNSKSLIVKNLRVRNA---QQI-QISIEKCSNVQVSNVVVTAPADSPNTDGIHITNTQNIRVSNSIIGTGDDCISIE 270 (431)
T ss_pred EEEEccccEEEeCeEEEcC---CCE-EEEEEceeeEEEEEEEEeCCCCCCCCCcEeecccceEEEEccEEecCCceEEec
Confidence 4688999999999999984 545 68999999999999999874332 1 0 1121110 2
Q ss_pred CCeEEEEEEeeEecCCCceEEEEeecCC-CCceEEeEEEEcEEEeccCccEEEEeee
Q 040317 60 EGVQNVTVTSSSFTNTQNGVRIKLWARP-RNGYARNIAFRNIIMNDIQNPIIIDRNY 115 (125)
Q Consensus 60 ~~i~nV~v~n~~~~~t~~gi~Ikt~~g~-~~G~v~nI~~~ni~~~~v~~~i~i~~~y 115 (125)
.+-+||+|+||++.. .+|+.|.|...+ ..+.|+||+++|+++.+..+++.|...-
T Consensus 271 sgs~nI~I~n~~c~~-GHGisIGS~g~~~~~~~V~nV~v~n~~~~~t~nGvRIKT~~ 326 (431)
T PLN02218 271 SGSQNVQINDITCGP-GHGISIGSLGDDNSKAFVSGVTVDGAKLSGTDNGVRIKTYQ 326 (431)
T ss_pred CCCceEEEEeEEEEC-CCCEEECcCCCCCCCceEEEEEEEccEEecCCcceEEeecC
Confidence 345677777777754 467777664321 1367999999999999999999998753
No 12
>PLN02188 polygalacturonase/glycoside hydrolase family protein
Probab=98.94 E-value=2.1e-08 Score=82.22 Aligned_cols=109 Identities=16% Similarity=0.235 Sum_probs=73.7
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc-----ee--------------eccCCCC--c
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF-----VN--------------RLGDHLN--E 59 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~-----ig--------------s~G~~~~--~ 59 (125)
|.|..|++++|+++++.++ |.+ .+++..|+||+|++..|.+--+. +- .-|...- .
T Consensus 158 i~f~~~~nv~i~gitl~nS---p~w-~i~~~~~~~v~i~~v~I~~~~~spNtDGidi~~s~nV~I~n~~I~~GDDcIaik 233 (404)
T PLN02188 158 VKFVNMNNTVVRGITSVNS---KFF-HIALVECRNFKGSGLKISAPSDSPNTDGIHIERSSGVYISDSRIGTGDDCISIG 233 (404)
T ss_pred EEEEeeeeEEEeCeEEEcC---CCe-EEEEEccccEEEEEEEEeCCCCCCCCCcEeeeCcccEEEEeeEEeCCCcEEEEc
Confidence 4688999999999999984 545 68999999999999999874322 10 0010000 1
Q ss_pred CCeEEEEEEeeEecCCCceEEEEeecC-CCCceEEeEEEEcEEEeccCccEEEEee
Q 040317 60 EGVQNVTVTSSSFTNTQNGVRIKLWAR-PRNGYARNIAFRNIIMNDIQNPIIIDRN 114 (125)
Q Consensus 60 ~~i~nV~v~n~~~~~t~~gi~Ikt~~g-~~~G~v~nI~~~ni~~~~v~~~i~i~~~ 114 (125)
.+-+||+|+|++... .+|+.|.|-.. ...+.|+||+|+|+++.+..+++.|...
T Consensus 234 sg~~nI~I~n~~c~~-ghGisiGSlG~~~~~~~V~nV~v~n~~~~~t~~GiriKt~ 288 (404)
T PLN02188 234 QGNSQVTITRIRCGP-GHGISVGSLGRYPNEGDVTGLVVRDCTFTGTTNGIRIKTW 288 (404)
T ss_pred cCCccEEEEEEEEcC-CCcEEeCCCCCCCcCCcEEEEEEEeeEEECCCcEEEEEEe
Confidence 223466666665533 24555544210 0125599999999999999999999764
No 13
>PLN02793 Probable polygalacturonase
Probab=98.91 E-value=3.1e-08 Score=82.15 Aligned_cols=110 Identities=16% Similarity=0.313 Sum_probs=77.0
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc-----ee--------------eccCCCC--c
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF-----VN--------------RLGDHLN--E 59 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~-----ig--------------s~G~~~~--~ 59 (125)
|.|..|++++|+++++.++ |.+ -+.+..|+||+|++..|.+..+. +- .-|.... .
T Consensus 180 i~f~~~~nv~v~gitl~nS---p~~-~i~~~~~~nv~i~~l~I~~p~~spNTDGIdi~~s~nV~I~n~~I~~gDDcIaik 255 (443)
T PLN02793 180 ITFHKCKDLRVENLNVIDS---QQM-HIAFTNCRRVTISGLKVIAPATSPNTDGIHISASRGVVIKDSIVRTGDDCISIV 255 (443)
T ss_pred EEEEeeccEEEECeEEEcC---CCe-EEEEEccCcEEEEEEEEECCCCCCCCCcEeeeccceEEEEeCEEeCCCCeEEec
Confidence 4688999999999999985 444 58899999999999999874422 10 0111100 2
Q ss_pred CCeEEEEEEeeEecCCCceEEEEeecCC-CCceEEeEEEEcEEEeccCccEEEEeee
Q 040317 60 EGVQNVTVTSSSFTNTQNGVRIKLWARP-RNGYARNIAFRNIIMNDIQNPIIIDRNY 115 (125)
Q Consensus 60 ~~i~nV~v~n~~~~~t~~gi~Ikt~~g~-~~G~v~nI~~~ni~~~~v~~~i~i~~~y 115 (125)
++-+||+|+||++... +|+.|.|.... ..+.|+||+++|+++.+..+++.|...-
T Consensus 256 ~~s~nI~I~n~~c~~G-hGisIGSlg~~~~~~~V~nV~v~n~~~~~t~~GirIKt~~ 311 (443)
T PLN02793 256 GNSSRIKIRNIACGPG-HGISIGSLGKSNSWSEVRDITVDGAFLSNTDNGVRIKTWQ 311 (443)
T ss_pred CCcCCEEEEEeEEeCC-ccEEEecccCcCCCCcEEEEEEEccEEeCCCceEEEEEeC
Confidence 3356677777766443 56666653211 1256999999999999999999998754
No 14
>PLN03003 Probable polygalacturonase At3g15720
Probab=98.89 E-value=3e-08 Score=82.39 Aligned_cols=110 Identities=19% Similarity=0.302 Sum_probs=80.4
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc-----e--e------------eccCCCC--c
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF-----V--N------------RLGDHLN--E 59 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~-----i--g------------s~G~~~~--~ 59 (125)
|.|..|+|++|+++++.+ +|.+ -+++..|++|+|++..|.+..+. + . +-|.... .
T Consensus 141 l~f~~~~nv~I~gitl~N---Sp~w-~i~i~~c~nV~i~~l~I~ap~~spNTDGIDi~~S~nV~I~n~~I~tGDDCIaik 216 (456)
T PLN03003 141 LKFRSCNNLRLSGLTHLD---SPMA-HIHISECNYVTISSLRINAPESSPNTDGIDVGASSNVVIQDCIIATGDDCIAIN 216 (456)
T ss_pred EEEEecCCcEEeCeEEec---CCcE-EEEEeccccEEEEEEEEeCCCCCCCCCcEeecCcceEEEEecEEecCCCeEEeC
Confidence 578999999999999998 4555 68999999999999999975432 1 0 1111110 2
Q ss_pred CCeEEEEEEeeEecCCCceEEEEeecCC-CCceEEeEEEEcEEEeccCccEEEEeee
Q 040317 60 EGVQNVTVTSSSFTNTQNGVRIKLWARP-RNGYARNIAFRNIIMNDIQNPIIIDRNY 115 (125)
Q Consensus 60 ~~i~nV~v~n~~~~~t~~gi~Ikt~~g~-~~G~v~nI~~~ni~~~~v~~~i~i~~~y 115 (125)
.+-+||+|+||++.. .+||.|.|-..+ ..+.|+||+++|+++.+..+++.|...-
T Consensus 217 sgs~NI~I~n~~c~~-GHGISIGSlg~~g~~~~V~NV~v~n~~~~~T~nGvRIKT~~ 272 (456)
T PLN03003 217 SGTSNIHISGIDCGP-GHGISIGSLGKDGETATVENVCVQNCNFRGTMNGARIKTWQ 272 (456)
T ss_pred CCCccEEEEeeEEEC-CCCeEEeeccCCCCcceEEEEEEEeeEEECCCcEEEEEEeC
Confidence 345788888888755 467877765321 1256999999999999999999998653
No 15
>PLN02155 polygalacturonase
Probab=98.84 E-value=9.2e-08 Score=78.28 Aligned_cols=109 Identities=18% Similarity=0.293 Sum_probs=79.7
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCC-----Ccee--------------eccCCCC--c
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGE-----PFVN--------------RLGDHLN--E 59 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gD-----D~ig--------------s~G~~~~--~ 59 (125)
|.|.+|++++|+++++.++ |.+ -+++..|+||+|++..|.+.- |++- .-|.... .
T Consensus 148 i~~~~~~nv~i~gitl~nS---p~w-~i~~~~~~nv~i~~v~I~~p~~~~NtDGidi~~s~nV~I~~~~I~~gDDcIaik 223 (394)
T PLN02155 148 ISFNSAKDVIISGVKSMNS---QVS-HMTLNGCTNVVVRNVKLVAPGNSPNTDGFHVQFSTGVTFTGSTVQTGDDCVAIG 223 (394)
T ss_pred eeEEEeeeEEEECeEEEcC---CCe-EEEEECeeeEEEEEEEEECCCCCCCCCccccccceeEEEEeeEEecCCceEEcC
Confidence 5789999999999999984 545 689999999999999998743 2210 0111100 2
Q ss_pred CCeEEEEEEeeEecCCCceEEEEeecCC-CCceEEeEEEEcEEEeccCccEEEEee
Q 040317 60 EGVQNVTVTSSSFTNTQNGVRIKLWARP-RNGYARNIAFRNIIMNDIQNPIIIDRN 114 (125)
Q Consensus 60 ~~i~nV~v~n~~~~~t~~gi~Ikt~~g~-~~G~v~nI~~~ni~~~~v~~~i~i~~~ 114 (125)
.+.+||+|+||++.. .+|+.|.|.... ..|.|+||+++|+++.+..+++.|...
T Consensus 224 ~gs~nI~I~n~~c~~-GhGisIGS~g~~~~~~~V~nV~v~n~~~~~t~~GirIKT~ 278 (394)
T PLN02155 224 PGTRNFLITKLACGP-GHGVSIGSLAKELNEDGVENVTVSSSVFTGSQNGVRIKSW 278 (394)
T ss_pred CCCceEEEEEEEEEC-CceEEeccccccCCCCcEEEEEEEeeEEeCCCcEEEEEEe
Confidence 345788888888765 367888774211 146799999999999999999999763
No 16
>COG5434 PGU1 Endopygalactorunase [Cell envelope biogenesis, outer membrane]
Probab=98.46 E-value=2.4e-06 Score=72.36 Aligned_cols=108 Identities=15% Similarity=0.256 Sum_probs=80.6
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc----e-----------e---eccCC-----C
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF----V-----------N---RLGDH-----L 57 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~----i-----------g---s~G~~-----~ 57 (125)
+.+..|+||++++++|.+++ . =++++..|+|++++|..|.+.++- + + +-|.. +
T Consensus 241 ~~l~~c~NV~~~g~~i~ns~---~-~~~h~~~~~nl~~~nl~I~~~~~~NtDG~d~~sc~NvlI~~~~fdtgDD~I~iks 316 (542)
T COG5434 241 VVLKGCRNVLLEGLNIKNSP---L-WTVHPVDCDNLTFRNLTIDANRFDNTDGFDPGSCSNVLIEGCRFDTGDDCIAIKS 316 (542)
T ss_pred EEEeccceEEEeeeEecCCC---c-EEEeeecccCceecceEEECCCCCCCCccccccceeEEEeccEEecCCceEEeec
Confidence 46889999999999999964 2 388999999999999999987662 1 0 11221 1
Q ss_pred CcCC--------eEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEeccCccEEEEeee
Q 040317 58 NEEG--------VQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPIIIDRNY 115 (125)
Q Consensus 58 ~~~~--------i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i~i~~~y 115 (125)
..+. -++|.|+||.|...+.++.+.+|.+ |-|+||+++|..|.+...++.|...-
T Consensus 317 g~~~~~~~~~~~~~~i~i~~c~~~~ghG~~v~Gse~~---ggv~ni~ved~~~~~~d~GLRikt~~ 379 (542)
T COG5434 317 GAGLDGKKGYGPSRNIVIRNCYFSSGHGGLVLGSEMG---GGVQNITVEDCVMDNTDRGLRIKTND 379 (542)
T ss_pred ccCCcccccccccccEEEecceecccccceEeeeecC---CceeEEEEEeeeeccCcceeeeeeec
Confidence 1111 2677777777777666777777665 67999999999999988888887764
No 17
>smart00656 Amb_all Amb_all domain.
Probab=98.24 E-value=1.9e-05 Score=58.72 Aligned_cols=100 Identities=19% Similarity=0.266 Sum_probs=72.0
Q ss_pred CeEEeeecEEEEeEEEECCCCC--CCCCeEEecCcccEEEEeeEEeeC---------CCceeeccCCCCcCCeEEEEEEe
Q 040317 1 MAINHCSDILIRNVKIIDPTNS--PTTDGIQMQSSTGVTITSSSIMTG---------EPFVNRLGDHLNEEGVQNVTVTS 69 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~--~ntDGid~~~s~nV~I~n~~i~~g---------DD~igs~G~~~~~~~i~nV~v~n 69 (125)
|.+..++||.|+||++...... +..|+|.+..+++|.|+.|.+..+ +|..-.+ .....+|++++
T Consensus 34 l~i~~~~NVIirnl~i~~~~~~~~~~~D~i~~~~~~~VwIDHct~s~~~~~~~~~~~~D~~~di-----~~~s~~vTvs~ 108 (190)
T smart00656 34 LTIKSVSNVIIRNLTIHDPKPVYGSDGDAISIDGSSNVWIDHVSLSGCTVTGFGDDTYDGLIDI-----KNGSTYVTISN 108 (190)
T ss_pred EEEEecceEEEeCCEEECCccCCCCCCCEEEEeCCCeEEEEccEeEcceeccCCCCCCCccEEE-----CcccccEEEEC
Confidence 3566689999999999986432 478999999999999999999986 3332111 23468899999
Q ss_pred eEecCCCceEEEEeecCCCCceEEeEEEEcEEEecc
Q 040317 70 SSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDI 105 (125)
Q Consensus 70 ~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v 105 (125)
|.|.+...+.-|..-+........+|||.+..+.++
T Consensus 109 ~~f~~h~~~~liG~~d~~~~~~~~~vT~h~N~~~~~ 144 (190)
T smart00656 109 NYFHNHWKVMLLGHSDSDTDDGKMRVTIAHNYFGNL 144 (190)
T ss_pred ceEecCCEEEEEccCCCccccccceEEEECcEEcCc
Confidence 999887777777543211112245788888888776
No 18
>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=98.18 E-value=1.8e-05 Score=66.88 Aligned_cols=100 Identities=19% Similarity=0.228 Sum_probs=54.3
Q ss_pred EEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCce-------------------ee---ccCCCCcCCeEEEE
Q 040317 9 ILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPFV-------------------NR---LGDHLNEEGVQNVT 66 (125)
Q Consensus 9 V~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~i-------------------gs---~G~~~~~~~i~nV~ 66 (125)
..|++.++.... ..++|||.+.. +=+|+|||+++.||++ |+ +|-. ...++||+
T Consensus 358 ~~i~nyKqVGaW-~~qtDGi~ly~--nS~i~dcF~h~nDD~iKlYhS~v~v~~~ViWk~~Ngpiiq~GW~--pr~isnv~ 432 (582)
T PF03718_consen 358 MNISNYKQVGAW-YFQTDGIELYP--NSTIRDCFIHVNDDAIKLYHSNVSVSNTVIWKNENGPIIQWGWT--PRNISNVS 432 (582)
T ss_dssp EEEEEEEEE----CTT----B--T--T-EEEEEEEEESS-SEE--STTEEEEEEEEEE-SSS-SEE--CS-----EEEEE
T ss_pred ceeeceeeeeeE-EeccCCccccC--CCeeeeeEEEecCchhheeecCcceeeeEEEecCCCCeEEeecc--ccccCceE
Confidence 455666666432 46999999984 5677999999999994 22 3322 46699999
Q ss_pred EEeeEecCC---------CceEEEE--eecC---C----CCceEEeEEEEcEEEeccCc-cEEEEe
Q 040317 67 VTSSSFTNT---------QNGVRIK--LWAR---P----RNGYARNIAFRNIIMNDIQN-PIIIDR 113 (125)
Q Consensus 67 v~n~~~~~t---------~~gi~Ik--t~~g---~----~~G~v~nI~~~ni~~~~v~~-~i~i~~ 113 (125)
|+|+.+..+ ..+|.-- .|++ + ..-.||+++|+|++.++.-. .+.|.+
T Consensus 433 veni~IIh~r~~~~~~~~n~~I~~ss~~y~~~~s~~~adp~~ti~~~~~~nv~~EG~~~~l~ri~p 498 (582)
T PF03718_consen 433 VENIDIIHNRWIWHNNYVNTAILGSSPFYDDMASTKTADPSTTIRNMTFSNVRCEGMCPCLFRIYP 498 (582)
T ss_dssp EEEEEEEE---SSGGCTTT-ECEEE--BTTS-SSS--BEEEEEEEEEEEEEEEEECCE-ECEEE--
T ss_pred EeeeEEEeeeeecccCCCCceeEecccccccccCCCCCCcccceeeEEEEeEEEecccceeEEEee
Confidence 999999876 2344222 2211 0 12458999999999998744 555543
No 19
>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=97.90 E-value=4e-05 Score=59.69 Aligned_cols=92 Identities=23% Similarity=0.311 Sum_probs=48.5
Q ss_pred eeecEEEEeEEEECCCCC-----CCCCeEEe------cCcccEEEEeeEEeeCCCc-----e---ee--ccCCCCcCC-e
Q 040317 5 HCSDILIRNVKIIDPTNS-----PTTDGIQM------QSSTGVTITSSSIMTGEPF-----V---NR--LGDHLNEEG-V 62 (125)
Q Consensus 5 ~c~nV~i~~i~I~~~~~~-----~ntDGid~------~~s~nV~I~n~~i~~gDD~-----i---gs--~G~~~~~~~-i 62 (125)
.|++|+++|+.+.+.--. .--||+.+ ++++||.|+|+.+.+-|-- + -| -|.+. +. -
T Consensus 116 ~c~~i~l~nv~~~gdYf~m~s~ni~id~l~~~GnY~Fq~~kNvei~ns~l~sKDAFWn~eNVtVyDS~i~GEYL--gW~S 193 (277)
T PF12541_consen 116 NCRGIKLKNVQANGDYFFMNSENIYIDNLVLDGNYSFQYCKNVEIHNSKLDSKDAFWNCENVTVYDSVINGEYL--GWNS 193 (277)
T ss_pred EeCCeEEEeEEEeceEeeeeccceEEeceEEeCCEEeeceeeEEEEccEEecccccccCCceEEEcceEeeeEE--EEEc
Confidence 577777777777442111 11233333 3478888888888776422 0 01 02111 11 3
Q ss_pred EEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEeccCccE
Q 040317 63 QNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPI 109 (125)
Q Consensus 63 ~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i 109 (125)
+|+++-||++.++ ++ --+++|++.+|.+|.+...++
T Consensus 194 kNltliNC~I~g~---------Qp--LCY~~~L~l~nC~~~~tdlaF 229 (277)
T PF12541_consen 194 KNLTLINCTIEGT---------QP--LCYCDNLVLENCTMIDTDLAF 229 (277)
T ss_pred CCeEEEEeEEecc---------Cc--cEeecceEEeCcEeecceeee
Confidence 5555555555443 21 256777777777777655443
No 20
>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=97.83 E-value=0.00026 Score=56.36 Aligned_cols=36 Identities=17% Similarity=0.444 Sum_probs=17.8
Q ss_pred eeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEe
Q 040317 5 HCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIM 44 (125)
Q Consensus 5 ~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~ 44 (125)
.+++|+|++++|.... .+||-+..+++++|+++.+.
T Consensus 61 ~a~~VtI~~ltI~~~~----~~GI~v~~s~~i~I~n~~i~ 96 (314)
T TIGR03805 61 TSDDVTLSDLAVENTK----GDGVKVKGSDGIIIRRLRVE 96 (314)
T ss_pred EeCCeEEEeeEEEcCC----CCeEEEeCCCCEEEEeeEEE
Confidence 4555666666655432 23444444445555554443
No 21
>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=97.79 E-value=0.00022 Score=56.83 Aligned_cols=75 Identities=21% Similarity=0.232 Sum_probs=55.1
Q ss_pred eEEeeecEEEEeEEEECCCC---CCCCCeEEecCcccEEEEeeEEeeCCCceeeccCCCCcCCeEEEEEEeeEecCCCce
Q 040317 2 AINHCSDILIRNVKIIDPTN---SPTTDGIQMQSSTGVTITSSSIMTGEPFVNRLGDHLNEEGVQNVTVTSSSFTNTQNG 78 (125)
Q Consensus 2 ~i~~c~nV~i~~i~I~~~~~---~~ntDGid~~~s~nV~I~n~~i~~gDD~igs~G~~~~~~~i~nV~v~n~~~~~t~~g 78 (125)
.+..|++++|+++++.-..+ .-..+||.+..|++++|++|+++...|. |-+ .+.-++++|+++++.....|
T Consensus 81 ~v~~s~~i~I~n~~i~~~~~~~~~~~~~GI~~~~s~~v~I~~n~i~g~~d~----GIy--v~~s~~~~v~nN~~~~n~~G 154 (314)
T TIGR03805 81 KVKGSDGIIIRRLRVEWTGGPKSSNGAYGIYPVESTNVLVEDSYVRGASDA----GIY--VGQSQNIVVRNNVAEENVAG 154 (314)
T ss_pred EEeCCCCEEEEeeEEEeccCccccCCcceEEEeccCCEEEECCEEECCCcc----cEE--ECCCCCeEEECCEEccCcce
Confidence 45789999999999974321 1246799999999999999999876553 211 12236788888888877778
Q ss_pred EEEE
Q 040317 79 VRIK 82 (125)
Q Consensus 79 i~Ik 82 (125)
|.+-
T Consensus 155 I~i~ 158 (314)
T TIGR03805 155 IEIE 158 (314)
T ss_pred EEEE
Confidence 7775
No 22
>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=97.37 E-value=0.00038 Score=52.07 Aligned_cols=99 Identities=23% Similarity=0.330 Sum_probs=61.4
Q ss_pred eeecEEEEeEEEECC-----------CCCCCCCeEEecCcccEEEEeeEEeeC-CCceeeccCCC--CcCCeEEEEEEee
Q 040317 5 HCSDILIRNVKIIDP-----------TNSPTTDGIQMQSSTGVTITSSSIMTG-EPFVNRLGDHL--NEEGVQNVTVTSS 70 (125)
Q Consensus 5 ~c~nV~i~~i~I~~~-----------~~~~ntDGid~~~s~nV~I~n~~i~~g-DD~igs~G~~~--~~~~i~nV~v~n~ 70 (125)
.++||.|+|+++... ......|+|.+..++||.|..|.+..+ ..|-...+.+. ...+-.+|+|++|
T Consensus 44 ~~~NVIirNl~~~~~~~~~~~~~~~~~~~~~~Dai~i~~~~nVWIDH~sfs~~~~~~~~~~~Dg~idi~~~s~~vTiS~n 123 (200)
T PF00544_consen 44 GASNVIIRNLRFRNVPVDPGPDWSGDGDSSDGDAISIDNSSNVWIDHCSFSWGNFECNSDSSDGLIDIKKGSDNVTISNN 123 (200)
T ss_dssp SCEEEEEES-EEECEEEECSTEEETTEEECS--SEEEESTEEEEEES-EEEETTS-GGGSSSSSSEEEESSTEEEEEES-
T ss_pred CCCeEEEECCEEEeccccCCcccCCCccccCCCeEEEEecccEEEeccEEeccccccccccCCceEEEEeCCceEEEEch
Confidence 789999999999982 113568999999999999999999987 22211001110 0244689999999
Q ss_pred EecCCCceEEEEeecC--CCCceEEeEEEEcEEEecc
Q 040317 71 SFTNTQNGVRIKLWAR--PRNGYARNIAFRNIIMNDI 105 (125)
Q Consensus 71 ~~~~t~~gi~Ikt~~g--~~~G~v~nI~~~ni~~~~v 105 (125)
.|.+...+.-+...+. ...| .+|||-+-...++
T Consensus 124 ~f~~~~k~~l~G~~d~~~~~~~--~~vT~hhN~f~~~ 158 (200)
T PF00544_consen 124 IFDNHNKTMLIGSSDSNSTDRG--LRVTFHHNYFANT 158 (200)
T ss_dssp EEEEEEETCEESSCTTCGGGTT--EEEEEES-EEEEE
T ss_pred hccccccccccCCCCCccccCC--ceEEEEeEEECch
Confidence 9988655554543211 1123 7888887777776
No 23
>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=97.23 E-value=0.0016 Score=50.88 Aligned_cols=94 Identities=18% Similarity=0.259 Sum_probs=54.6
Q ss_pred EeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCC-----------CceeeccCCCCcCCeEEEEEEeeEe
Q 040317 4 NHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGE-----------PFVNRLGDHLNEEGVQNVTVTSSSF 72 (125)
Q Consensus 4 ~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gD-----------D~igs~G~~~~~~~i~nV~v~n~~~ 72 (125)
..|++++++|+.+..+.. -++.|++|+++|+.+ .|| |.+-+.|.+. ..+++||.|+|+++
T Consensus 95 R~~~~i~L~nv~~~~A~E-------t~W~c~~i~l~nv~~-~gdYf~m~s~ni~id~l~~~GnY~-Fq~~kNvei~ns~l 165 (277)
T PF12541_consen 95 RECSNITLENVDIPDADE-------TLWNCRGIKLKNVQA-NGDYFFMNSENIYIDNLVLDGNYS-FQYCKNVEIHNSKL 165 (277)
T ss_pred hcccCcEEEeeEeCCCcc-------cCEEeCCeEEEeEEE-eceEeeeeccceEEeceEEeCCEE-eeceeeEEEEccEE
Confidence 345555555555522111 244578888888888 554 1123457666 78899999999987
Q ss_pred cCC------CceEEEEeecCCC--CceEEeEEEEcEEEeccC
Q 040317 73 TNT------QNGVRIKLWARPR--NGYARNIAFRNIIMNDIQ 106 (125)
Q Consensus 73 ~~t------~~gi~Ikt~~g~~--~G~v~nI~~~ni~~~~v~ 106 (125)
..- .+..---|.-.|- |=.-+||+|-|.++++.+
T Consensus 166 ~sKDAFWn~eNVtVyDS~i~GEYLgW~SkNltliNC~I~g~Q 207 (277)
T PF12541_consen 166 DSKDAFWNCENVTVYDSVINGEYLGWNSKNLTLINCTIEGTQ 207 (277)
T ss_pred ecccccccCCceEEEcceEeeeEEEEEcCCeEEEEeEEeccC
Confidence 642 2211111111110 133579999999999864
No 24
>PF13229 Beta_helix: Right handed beta helix region; PDB: 2INV_C 2INU_C 1RU4_A.
Probab=97.02 E-value=0.0034 Score=43.10 Aligned_cols=103 Identities=24% Similarity=0.399 Sum_probs=56.4
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCceeeccCC---------------CCcCCeEEE
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPFVNRLGDH---------------LNEEGVQNV 65 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~igs~G~~---------------~~~~~i~nV 65 (125)
|.+..+.+++|++++|... ..+||.+..+..++|++|.|..+...+-..+.. .....-.++
T Consensus 3 i~i~~~~~~~i~~~~i~~~----~~~gi~~~~~~~~~i~n~~i~~~~~gi~~~~~~~~~i~~~~~~~~~~~i~~~~~~~~ 78 (158)
T PF13229_consen 3 ISINNGSNVTIRNCTISNN----GGDGIHVSGSSNITIENCTISNGGYGIYVSGGSNVTISNNTISDNGSGIYVSGSSNI 78 (158)
T ss_dssp EEETTCEC-EEESEEEESS----SSECEEE-SSCESEEES-EEESSTTSEEEECCES-EEES-EEES-SEEEECCS-CS-
T ss_pred EEEECCcCeEEeeeEEEeC----CCeEEEEEcCCCeEEECeEEECCCcEEEEecCCCeEEECeEEEEccceEEEEecCCc
Confidence 3566788899999999985 367999999888999999999733332111100 000123334
Q ss_pred EEEeeEecCCCc-eEEEEeecCCCCceEEeEEEEcEEEeccC-ccEEEEee
Q 040317 66 TVTSSSFTNTQN-GVRIKLWARPRNGYARNIAFRNIIMNDIQ-NPIIIDRN 114 (125)
Q Consensus 66 ~v~n~~~~~t~~-gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~-~~i~i~~~ 114 (125)
++++|.+.+... |+.++. .-+++++++.++.+.. .++++...
T Consensus 79 ~i~~~~i~~~~~~gi~~~~-------~~~~~~i~~n~~~~~~~~gi~~~~~ 122 (158)
T PF13229_consen 79 TIENNRIENNGDYGIYISN-------SSSNVTIENNTIHNNGGSGIYLEGG 122 (158)
T ss_dssp EEES-EEECSSS-SCE-TC-------EECS-EEES-EEECCTTSSCEEEEC
T ss_pred eecCcEEEcCCCccEEEec-------cCCCEEEEeEEEEeCcceeEEEECC
Confidence 444444444332 443321 2456788888888776 56666654
No 25
>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=96.96 E-value=0.016 Score=42.34 Aligned_cols=37 Identities=35% Similarity=0.500 Sum_probs=26.3
Q ss_pred EEEEeEEEECCCCCCC--CCeEEecCcccEEEEeeEEee
Q 040317 9 ILIRNVKIIDPTNSPT--TDGIQMQSSTGVTITSSSIMT 45 (125)
Q Consensus 9 V~i~~i~I~~~~~~~n--tDGid~~~s~nV~I~n~~i~~ 45 (125)
+.++|+++..+...+. ..|+.+..+++++|+|+.+..
T Consensus 94 ~~i~nl~i~~~~~~~~~~~~~i~~~~~~~~~i~nv~~~~ 132 (225)
T PF12708_consen 94 IQIRNLTIDGNGIDPNNNNNGIRFNSSQNVSISNVRIEN 132 (225)
T ss_dssp EEEEEEEEEETCGCE-SCEEEEEETTEEEEEEEEEEEES
T ss_pred EEEEeeEEEcccccCCCCceEEEEEeCCeEEEEeEEEEc
Confidence 4488888887654432 367888888888888887764
No 26
>PF13229 Beta_helix: Right handed beta helix region; PDB: 2INV_C 2INU_C 1RU4_A.
Probab=96.90 E-value=0.0033 Score=43.13 Aligned_cols=44 Identities=20% Similarity=0.337 Sum_probs=26.4
Q ss_pred eEEEEEEeeEecCCC-ceEEEEeecCCCCceEEeEEEEcEEEeccC-ccEEE
Q 040317 62 VQNVTVTSSSFTNTQ-NGVRIKLWARPRNGYARNIAFRNIIMNDIQ-NPIII 111 (125)
Q Consensus 62 i~nV~v~n~~~~~t~-~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~-~~i~i 111 (125)
-++++|++++|.+.. .|+.+.... -.++++++.++.+.. .+|.+
T Consensus 99 ~~~~~i~~n~~~~~~~~gi~~~~~~------~~~~~i~~n~i~~~~~~gi~~ 144 (158)
T PF13229_consen 99 SSNVTIENNTIHNNGGSGIYLEGGS------SPNVTIENNTISNNGGNGIYL 144 (158)
T ss_dssp ECS-EEES-EEECCTTSSCEEEECC--------S-EEECEEEECESSEEEE-
T ss_pred CCCEEEEeEEEEeCcceeEEEECCC------CCeEEEEEEEEEeCcceeEEE
Confidence 568999999999876 788886433 235666666666654 45544
No 27
>COG3866 PelB Pectate lyase [Carbohydrate transport and metabolism]
Probab=96.57 E-value=0.053 Score=43.46 Aligned_cols=104 Identities=13% Similarity=0.245 Sum_probs=69.7
Q ss_pred eEEeeecEEEEeEEEECCCC-CCCCCeEEe-cCcccEEEEeeEEeeCCCc-eeeccCCCC--cCCeEEEEEEeeEecCCC
Q 040317 2 AINHCSDILIRNVKIIDPTN-SPTTDGIQM-QSSTGVTITSSSIMTGEPF-VNRLGDHLN--EEGVQNVTVTSSSFTNTQ 76 (125)
Q Consensus 2 ~i~~c~nV~i~~i~I~~~~~-~~ntDGid~-~~s~nV~I~n~~i~~gDD~-igs~G~~~~--~~~i~nV~v~n~~~~~t~ 76 (125)
.+....||.|+||.+..... .|+-|+|.| ..++||+|++|++..+--. .++.+.... ..+-..|+|+++.|.+..
T Consensus 120 ~i~~a~NVIirNltf~~~~~~d~~~D~Isi~~~~~nIWIDH~tf~~~s~~~~~~h~DGl~Dik~~AnyITiS~n~fhdh~ 199 (345)
T COG3866 120 KIRDAGNVIIRNLTFEGFYQGDPNYDAISIYDDGHNIWIDHNTFSGGSYNASGSHGDGLVDIKKDANYITISYNKFHDHD 199 (345)
T ss_pred EEEeCCcEEEEeeEEEeeccCCCCCCcEEeccCCeEEEEEeeEeccccccccccCCCccEEeccCCcEEEEEeeeeecCC
Confidence 35567899999999987542 345599999 7899999999999973211 111111110 234567888888888888
Q ss_pred ceEEEEeecCC-CCceEEeEEEEcEEEecc
Q 040317 77 NGVRIKLWARP-RNGYARNIAFRNIIMNDI 105 (125)
Q Consensus 77 ~gi~Ikt~~g~-~~G~v~nI~~~ni~~~~v 105 (125)
.++-+...+.. .-+--.+|||.+..+++.
T Consensus 200 Kssl~G~sD~~~~~~~~~kvT~hhNyFkn~ 229 (345)
T COG3866 200 KSSLLGSSDSSNYDDGKYKVTIHHNYFKNL 229 (345)
T ss_pred eeeeeccCCcccccCCceeEEEeccccccc
Confidence 77777643321 113356788888888876
No 28
>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=96.36 E-value=0.073 Score=39.95 Aligned_cols=40 Identities=23% Similarity=0.320 Sum_probs=24.2
Q ss_pred EEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCC
Q 040317 3 INHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGE 47 (125)
Q Consensus 3 i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gD 47 (125)
+..+.+++|++.++... ..||.+..+++++|+++.+....
T Consensus 40 ~~~s~~~~I~~n~i~~~-----~~GI~~~~s~~~~i~~n~i~~n~ 79 (236)
T PF05048_consen 40 VENSDNNTISNNTISNN-----RYGIHLMGSSNNTIENNTISNNG 79 (236)
T ss_pred EEEcCCeEEEeeEEECC-----CeEEEEEccCCCEEEeEEEEccC
Confidence 45555666666655543 45666666666666666666543
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=95.83 E-value=0.14 Score=38.44 Aligned_cols=43 Identities=26% Similarity=0.262 Sum_probs=32.7
Q ss_pred eEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEeeCCCc
Q 040317 2 AINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMTGEPF 49 (125)
Q Consensus 2 ~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~gDD~ 49 (125)
.+..++++.|++..+... .|||-+..+.+++|+++.+......
T Consensus 17 ~l~~~~~~~i~~n~i~~~-----~~gi~~~~s~~~~I~~n~i~~~~~G 59 (236)
T PF05048_consen 17 YLWNSSNNSIENNTISNS-----RDGIYVENSDNNTISNNTISNNRYG 59 (236)
T ss_pred EEEeCCCCEEEcCEEEeC-----CCEEEEEEcCCeEEEeeEEECCCeE
Confidence 456666777777777654 6899888999999999999876433
No 30
>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=95.44 E-value=0.56 Score=34.08 Aligned_cols=96 Identities=25% Similarity=0.350 Sum_probs=54.2
Q ss_pred eEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEE------EeeEEeeCC------CceeeccCCCCcCCeEEEEEEe
Q 040317 2 AINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTI------TSSSIMTGE------PFVNRLGDHLNEEGVQNVTVTS 69 (125)
Q Consensus 2 ~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I------~n~~i~~gD------D~igs~G~~~~~~~i~nV~v~n 69 (125)
++..+++++++++++.+. +.+|+.+..+....+ .++++..+. +++-.-|......+-++++++|
T Consensus 116 ~~~~~~~~~i~nv~~~~~----~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~i~n 191 (225)
T PF12708_consen 116 RFNSSQNVSISNVRIENS----GGDGIYFNTGTDYRIIGSTHVSGIFIDNGSNNVIVNNCIFNGGDNGIILGNNNITISN 191 (225)
T ss_dssp EETTEEEEEEEEEEEES-----SS-SEEEECCEECEEECCEEEEEEEEESCEEEEEEECEEEESSSCSEECEEEEEEEEC
T ss_pred EEEeCCeEEEEeEEEEcc----CccEEEEEccccCcEeecccceeeeeccceeEEEECCccccCCCceeEeecceEEEEe
Confidence 455688999999999874 356777664333222 244454432 2211112111001117899999
Q ss_pred eEecC-CCceEEEEeecCCCCceEEeEEEEcEEEeccCccE
Q 040317 70 SSFTN-TQNGVRIKLWARPRNGYARNIAFRNIIMNDIQNPI 109 (125)
Q Consensus 70 ~~~~~-t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v~~~i 109 (125)
|++.+ ...|+.+.... . +.++|++++++..+|
T Consensus 192 ~~~~~~~~~gi~i~~~~----~----~~i~n~~i~~~~~g~ 224 (225)
T PF12708_consen 192 NTFEGNCGNGINIEGGS----N----IIISNNTIENCDDGI 224 (225)
T ss_dssp EEEESSSSESEEEEECS----E----EEEEEEEEESSSEEE
T ss_pred EEECCccceeEEEECCe----E----EEEEeEEEECCccCc
Confidence 99888 67888886422 1 666777777665544
No 31
>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=94.89 E-value=0.27 Score=41.32 Aligned_cols=40 Identities=18% Similarity=0.111 Sum_probs=20.0
Q ss_pred eecEEEEeEEEECCCCCC--CCCeEEecCcccEEEEeeEEee
Q 040317 6 CSDILIRNVKIIDPTNSP--TTDGIQMQSSTGVTITSSSIMT 45 (125)
Q Consensus 6 c~nV~i~~i~I~~~~~~~--ntDGid~~~s~nV~I~n~~i~~ 45 (125)
-++|+|++++|.+..... -.-||.+..|++++|++|.+..
T Consensus 114 A~nVTIsGLtIdGsG~dl~~rdAgI~v~~a~~v~Iedn~L~g 155 (455)
T TIGR03808 114 ADGIGLSGLTLDGGGIPLPQRRGLIHCQGGRDVRITDCEITG 155 (455)
T ss_pred CCCeEEEeeEEEeCCCcccCCCCEEEEccCCceEEEeeEEEc
Confidence 345566666555543211 1115555555666666666553
No 32
>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=93.88 E-value=0.28 Score=41.11 Aligned_cols=81 Identities=22% Similarity=0.284 Sum_probs=41.4
Q ss_pred eeecEEEEeEEEECCCCCCCCCeEEecCc------------------------ccEEEEeeEEeeCCCcee-eccCCCCc
Q 040317 5 HCSDILIRNVKIIDPTNSPTTDGIQMQSS------------------------TGVTITSSSIMTGEPFVN-RLGDHLNE 59 (125)
Q Consensus 5 ~c~nV~i~~i~I~~~~~~~ntDGid~~~s------------------------~nV~I~n~~i~~gDD~ig-s~G~~~~~ 59 (125)
+|-|..++++....+ -+||||+.+- .|=.|+|..++ +|+| .+|.....
T Consensus 262 RnYnLqF~d~~~i~~----~~DG~Dl~aDtg~~~~~dR~~D~~laqYp~~qLPtnHiidNi~~~---~~lGVG~~~DG~~ 334 (549)
T PF09251_consen 262 RNYNLQFRDSVTISP----VWDGFDLGADTGMGPETDRPGDYPLAQYPWHQLPTNHIIDNILVR---GSLGVGIGMDGKG 334 (549)
T ss_dssp -EBS-EEEEEEEES-----SSESEEE-SS-SSSTTS--TTS--TTTS-TT------EEEEEEEE---S-SSESCEEECCS
T ss_pred ceeeEEEeccceEEE----eecceeccCCCCCCCCccCCCCcchhhCchhhCchhhhhhhhhee---ccceeeeeecCCC
Confidence 577899999988865 4899999862 23345555444 2322 12222212
Q ss_pred CCeEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEecc
Q 040317 60 EGVQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDI 105 (125)
Q Consensus 60 ~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v 105 (125)
+-++||++++|. ..|+.+++... .|+||++.+.
T Consensus 335 ~yvsni~~~d~~----g~G~~~~~~~~---------~ftNitvId~ 367 (549)
T PF09251_consen 335 GYVSNITVQDCA----GAGIFIRGTNK---------VFTNITVIDT 367 (549)
T ss_dssp -EEEEEEEES-S----SESEEEECCS----------EEEEEEEES-
T ss_pred ceEeeEEeeccc----CCceEEeecCC---------ceeeeEEEec
Confidence 337777777664 46677665331 4555665554
No 33
>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=92.67 E-value=2.1 Score=33.24 Aligned_cols=102 Identities=22% Similarity=0.269 Sum_probs=65.3
Q ss_pred EEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEee-CCCceeeccCCCCcCCeEEEEEEeeEecCCCceEEE
Q 040317 3 INHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMT-GEPFVNRLGDHLNEEGVQNVTVTSSSFTNTQNGVRI 81 (125)
Q Consensus 3 i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~-gDD~igs~G~~~~~~~i~nV~v~n~~~~~t~~gi~I 81 (125)
|....+.+|++++|.++..+.. -|+-+.++ +.+|+|+.|.. .-+.+-.-|... ...+.+++|++-.+.....|+.+
T Consensus 93 I~~~~~~~i~GvtItN~n~~~g-~Gi~Iess-~~tI~Nntf~~~~~~GI~v~g~~~-~~~i~~~vI~GN~~~~~~~Gi~i 169 (246)
T PF07602_consen 93 IILANNATISGVTITNPNIARG-TGIWIESS-SPTIANNTFTNNGREGIFVTGTSA-NPGINGNVISGNSIYFNKTGISI 169 (246)
T ss_pred EEecCCCEEEEEEEEcCCCCcc-eEEEEecC-CcEEEeeEEECCccccEEEEeeec-CCcccceEeecceEEecCcCeEE
Confidence 4456778999999999832233 38888886 99999999986 233433333321 35688888888888887788888
Q ss_pred EeecCCCCceEEeEEEEcEEEeccCccEEEE
Q 040317 82 KLWARPRNGYARNIAFRNIIMNDIQNPIIID 112 (125)
Q Consensus 82 kt~~g~~~G~v~nI~~~ni~~~~v~~~i~i~ 112 (125)
--... + +++ +++|-.+++-..+|.+.
T Consensus 170 ~~~~~---~-~~n-~I~NN~I~~N~~Gi~~~ 195 (246)
T PF07602_consen 170 SDNAA---P-VEN-KIENNIIENNNIGIVAI 195 (246)
T ss_pred EcccC---C-ccc-eeeccEEEeCCcCeEee
Confidence 64432 3 222 22444555444466654
No 34
>smart00656 Amb_all Amb_all domain.
Probab=90.14 E-value=1.3 Score=32.67 Aligned_cols=80 Identities=20% Similarity=0.355 Sum_probs=50.5
Q ss_pred CeEEecCcccEEEEeeEEeeCCCceeeccCCCCcCCeEEEEEEeeEecCC---------Cce-EEEEeecCCCCceEEeE
Q 040317 26 DGIQMQSSTGVTITSSSIMTGEPFVNRLGDHLNEEGVQNVTVTSSSFTNT---------QNG-VRIKLWARPRNGYARNI 95 (125)
Q Consensus 26 DGid~~~s~nV~I~n~~i~~gDD~igs~G~~~~~~~i~nV~v~n~~~~~t---------~~g-i~Ikt~~g~~~G~v~nI 95 (125)
-||.+..++||.|+|..|+...+....-+........++|-|+.|++... ..+ +-+| ....+|
T Consensus 32 ~gl~i~~~~NVIirnl~i~~~~~~~~~~~D~i~~~~~~~VwIDHct~s~~~~~~~~~~~~D~~~di~-------~~s~~v 104 (190)
T smart00656 32 GGLTIKSVSNVIIRNLTIHDPKPVYGSDGDAISIDGSSNVWIDHVSLSGCTVTGFGDDTYDGLIDIK-------NGSTYV 104 (190)
T ss_pred eEEEEEecceEEEeCCEEECCccCCCCCCCEEEEeCCCeEEEEccEeEcceeccCCCCCCCccEEEC-------cccccE
Confidence 37888878999999999997654321000000012358999999999875 111 1111 235789
Q ss_pred EEEcEEEeccCccEEEE
Q 040317 96 AFRNIIMNDIQNPIIID 112 (125)
Q Consensus 96 ~~~ni~~~~v~~~i~i~ 112 (125)
|+++..+.+-.+...+-
T Consensus 105 Tvs~~~f~~h~~~~liG 121 (190)
T smart00656 105 TISNNYFHNHWKVMLLG 121 (190)
T ss_pred EEECceEecCCEEEEEc
Confidence 99999998766655443
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=89.32 E-value=0.83 Score=34.03 Aligned_cols=74 Identities=23% Similarity=0.340 Sum_probs=48.2
Q ss_pred CeEEeeecEEEEeEEEECCCC---CCCCCe-EEec-CcccEEEEeeEEeeCCCc--eeeccCCCCcCCeEEEEEEeeEec
Q 040317 1 MAINHCSDILIRNVKIIDPTN---SPTTDG-IQMQ-SSTGVTITSSSIMTGEPF--VNRLGDHLNEEGVQNVTVTSSSFT 73 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~---~~ntDG-id~~-~s~nV~I~n~~i~~gDD~--igs~G~~~~~~~i~nV~v~n~~~~ 73 (125)
|.+..+++|+|+++++..... ....|| +|+. .+.+|+|++|.+...+.+ +|+--......+ .+|++-++.+.
T Consensus 78 i~i~~~~nVWIDH~sfs~~~~~~~~~~~Dg~idi~~~s~~vTiS~n~f~~~~k~~l~G~~d~~~~~~~-~~vT~hhN~f~ 156 (200)
T PF00544_consen 78 ISIDNSSNVWIDHCSFSWGNFECNSDSSDGLIDIKKGSDNVTISNNIFDNHNKTMLIGSSDSNSTDRG-LRVTFHHNYFA 156 (200)
T ss_dssp EEEESTEEEEEES-EEEETTS-GGGSSSSSSEEEESSTEEEEEES-EEEEEEETCEESSCTTCGGGTT-EEEEEES-EEE
T ss_pred EEEEecccEEEeccEEeccccccccccCCceEEEEeCCceEEEEchhccccccccccCCCCCccccCC-ceEEEEeEEEC
Confidence 357789999999999998621 112555 6775 589999999999875444 333111111344 99999999997
Q ss_pred CC
Q 040317 74 NT 75 (125)
Q Consensus 74 ~t 75 (125)
++
T Consensus 157 ~~ 158 (200)
T PF00544_consen 157 NT 158 (200)
T ss_dssp EE
T ss_pred ch
Confidence 64
No 36
>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=89.24 E-value=4.3 Score=34.29 Aligned_cols=82 Identities=15% Similarity=0.214 Sum_probs=49.3
Q ss_pred CCCCeEEecCcccEEEEeeEEeeCC-Cceeecc-CCCC--cCCeEEE--------------EEEeeEecCCCceEEEEee
Q 040317 23 PTTDGIQMQSSTGVTITSSSIMTGE-PFVNRLG-DHLN--EEGVQNV--------------TVTSSSFTNTQNGVRIKLW 84 (125)
Q Consensus 23 ~ntDGid~~~s~nV~I~n~~i~~gD-D~igs~G-~~~~--~~~i~nV--------------~v~n~~~~~t~~gi~Ikt~ 84 (125)
...+||+++.+.+++|++-.|+..+ |++-.-- +... ...++++ .|++-++.+...|+.|--+
T Consensus 237 ~~GNGI~~~~a~~v~V~gN~I~~~r~dgI~~nsss~~~i~~N~~~~~R~~alhymfs~~g~~i~~N~~~g~~~G~av~nf 316 (455)
T TIGR03808 237 QYGNAINAFRAGNVIVRGNRIRNCDYSAVRGNSASNIQITGNSVSDVREVALYSEFAFEGAVIANNTVDGAAVGVSVCNF 316 (455)
T ss_pred CccccEEEEccCCeEEECCEEeccccceEEEEcccCcEEECcEeeeeeeeEEEEEEeCCCcEEeccEEecCcceEEEEee
Confidence 4577999999999999999999988 8853111 0000 1112222 3344455555667777644
Q ss_pred -cCCCCceEEeEEEEcEEEec
Q 040317 85 -ARPRNGYARNIAFRNIIMND 104 (125)
Q Consensus 85 -~g~~~G~v~nI~~~ni~~~~ 104 (125)
+|||-..+..=.++|++-+.
T Consensus 317 ~~ggr~~~~~gn~irn~~~~~ 337 (455)
T TIGR03808 317 NEGGRLAVVQGNIIRNLIPKR 337 (455)
T ss_pred cCCceEEEEecceeeccccCC
Confidence 44444556665666666543
No 37
>TIGR03804 para_beta_helix parallel beta-helix repeat (two copies). This model represents a tandem pair of an approximately 22-amino acid (each) repeat homologous to the beta-strand repeats that stack in a right-handed parallel beta-helix in the periplasmic C-5 mannuronan epimerase, AlgA, of Pseudomonas aeruginosa. A homology domain consisting of a longer tandem array of these repeats is described in the SMART database as CASH (SM00722), and is found in many carbohydrate-binding proteins and sugar hydrolases. A single repeat is represented by SM00710. This TIGRFAMs model represents a flavor of the parallel beta-helix-forming repeat based on prokaryotic sequences only in its seed alignment, although it also finds many eukaryotic sequences.
Probab=89.05 E-value=0.89 Score=25.27 Aligned_cols=40 Identities=15% Similarity=0.252 Sum_probs=31.1
Q ss_pred CeEEeeecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEee
Q 040317 1 MAINHCSDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMT 45 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~ 45 (125)
|.+..+.+.+|++-++... .|||.+..+.+-+|++..+..
T Consensus 2 I~l~~s~~~~i~~N~i~~~-----~~GI~~~~s~~n~i~~N~~~~ 41 (44)
T TIGR03804 2 IYLESSSNNTLENNTASNN-----SYGIYLTDSSNNTLSNNTASS 41 (44)
T ss_pred EEEEecCCCEEECcEEeCC-----CCEEEEEeCCCCEeECCEEEc
Confidence 4567777788888887763 679999988888888887764
No 38
>COG3866 PelB Pectate lyase [Carbohydrate transport and metabolism]
Probab=79.00 E-value=33 Score=27.85 Aligned_cols=79 Identities=19% Similarity=0.308 Sum_probs=51.4
Q ss_pred EeeecEEEEeEEEECCCC---CCCCCe-EEec-CcccEEEEeeEEeeCCCc--eeeccCCCCcCCeEEEEEEeeEecCC-
Q 040317 4 NHCSDILIRNVKIIDPTN---SPTTDG-IQMQ-SSTGVTITSSSIMTGEPF--VNRLGDHLNEEGVQNVTVTSSSFTNT- 75 (125)
Q Consensus 4 ~~c~nV~i~~i~I~~~~~---~~ntDG-id~~-~s~nV~I~n~~i~~gDD~--igs~G~~~~~~~i~nV~v~n~~~~~t- 75 (125)
...+|++|+++++..... ....|| +|+. .+..|+|+++.+...|=. +|+--++...++-.+|++.++.|.+.
T Consensus 151 ~~~~nIWIDH~tf~~~s~~~~~~h~DGl~Dik~~AnyITiS~n~fhdh~Kssl~G~sD~~~~~~~~~kvT~hhNyFkn~~ 230 (345)
T COG3866 151 DDGHNIWIDHNTFSGGSYNASGSHGDGLVDIKKDANYITISYNKFHDHDKSSLLGSSDSSNYDDGKYKVTIHHNYFKNLY 230 (345)
T ss_pred cCCeEEEEEeeEeccccccccccCCCccEEeccCCcEEEEEeeeeecCCeeeeeccCCcccccCCceeEEEecccccccc
Confidence 567899999999998432 113444 4555 578999999999966544 23211111135578899999999885
Q ss_pred CceEEEE
Q 040317 76 QNGVRIK 82 (125)
Q Consensus 76 ~~gi~Ik 82 (125)
.++-||+
T Consensus 231 qR~PriR 237 (345)
T COG3866 231 QRGPRIR 237 (345)
T ss_pred ccCCceE
Confidence 3443443
No 39
>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=78.45 E-value=19 Score=31.29 Aligned_cols=97 Identities=16% Similarity=0.197 Sum_probs=51.5
Q ss_pred EEeeecEEEEeEEEECCCCCCCCCeEEecCcc----cEEEEeeEEee----CCCceeecc-C-------CCCcC----Ce
Q 040317 3 INHCSDILIRNVKIIDPTNSPTTDGIQMQSST----GVTITSSSIMT----GEPFVNRLG-D-------HLNEE----GV 62 (125)
Q Consensus 3 i~~c~nV~i~~i~I~~~~~~~ntDGid~~~s~----nV~I~n~~i~~----gDD~igs~G-~-------~~~~~----~i 62 (125)
...+++..+++++|.+|+ .-.+++...+ +.+|+|...-- +-|++.-.. + ..... .-
T Consensus 325 ~~g~q~~~~~GiTI~~pP----~~Sm~l~g~~~~~~~~~i~nyKqVGaW~~qtDGi~ly~nS~i~dcF~h~nDD~iKlYh 400 (582)
T PF03718_consen 325 ANGGQTLTCEGITINDPP----FHSMDLYGNENDKFSMNISNYKQVGAWYFQTDGIELYPNSTIRDCFIHVNDDAIKLYH 400 (582)
T ss_dssp -SSSEEEEEES-EEE--S----S-SEEEESSSGGGEEEEEEEEEEE---CTT----B--TT-EEEEEEEEESS-SEE--S
T ss_pred cCCcceEEEEeeEecCCC----cceEEecCCccccccceeeceeeeeeEEeccCCccccCCCeeeeeEEEecCchhheee
Confidence 345778999999999975 2256776544 47788877652 224421000 0 00011 12
Q ss_pred EEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEecc
Q 040317 63 QNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDI 105 (125)
Q Consensus 63 ~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v 105 (125)
+++.++||+++...+|--|..-. ....+++|.|+|+.+...
T Consensus 401 S~v~v~~~ViWk~~Ngpiiq~GW--~pr~isnv~veni~IIh~ 441 (582)
T PF03718_consen 401 SNVSVSNTVIWKNENGPIIQWGW--TPRNISNVSVENIDIIHN 441 (582)
T ss_dssp TTEEEEEEEEEE-SSS-SEE--C--S---EEEEEEEEEEEEE-
T ss_pred cCcceeeeEEEecCCCCeEEeec--cccccCceEEeeeEEEee
Confidence 67899999999877655454211 246799999999998865
No 40
>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=75.63 E-value=3.2 Score=19.33 Aligned_cols=21 Identities=29% Similarity=0.431 Sum_probs=13.8
Q ss_pred EEEEEEeeEecCCCc-eEEEEe
Q 040317 63 QNVTVTSSSFTNTQN-GVRIKL 83 (125)
Q Consensus 63 ~nV~v~n~~~~~t~~-gi~Ikt 83 (125)
.+++|+++++.+... |+.++.
T Consensus 2 ~~~~i~~n~i~~~~~~Gi~i~~ 23 (26)
T smart00710 2 SNVTIENNTIRNNGGDGIYIGG 23 (26)
T ss_pred CCEEEECCEEEeCCCCcEEEec
Confidence 356777777777655 777653
No 41
>COG3420 NosD Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]
Probab=61.58 E-value=19 Score=29.74 Aligned_cols=49 Identities=16% Similarity=0.253 Sum_probs=41.7
Q ss_pred eEEeeecEEEEeEEEECCCCC---CCCCeEEecCcccEEEEeeEEeeCCCce
Q 040317 2 AINHCSDILIRNVKIIDPTNS---PTTDGIQMQSSTGVTITSSSIMTGEPFV 50 (125)
Q Consensus 2 ~i~~c~nV~i~~i~I~~~~~~---~ntDGid~~~s~nV~I~n~~i~~gDD~i 50 (125)
-+..+.++.+++.+|....+. .-..||.+..+..++|....|+-+-||+
T Consensus 124 ~l~~s~d~~i~~n~i~G~~~~r~~~rGnGI~vyNa~~a~V~~ndisy~rDgI 175 (408)
T COG3420 124 YLHGSADVRIEGNTIQGLADLRVAERGNGIYVYNAPGALVVGNDISYGRDGI 175 (408)
T ss_pred EEeccCceEEEeeEEeeccccchhhccCceEEEcCCCcEEEcCccccccceE
Confidence 467788999999999987653 3567999999999999999999999995
No 42
>PRK10123 wcaM putative colanic acid biosynthesis protein; Provisional
Probab=61.02 E-value=42 Score=27.33 Aligned_cols=98 Identities=20% Similarity=0.315 Sum_probs=58.4
Q ss_pred CeEEeeecEEEEeEEEECCC-CCCCCCeE-----EecCcccEEEEeeEEeeCCCceeec----cCCCCcCCeEEEEEEee
Q 040317 1 MAINHCSDILIRNVKIIDPT-NSPTTDGI-----QMQSSTGVTITSSSIMTGEPFVNRL----GDHLNEEGVQNVTVTSS 70 (125)
Q Consensus 1 ~~i~~c~nV~i~~i~I~~~~-~~~ntDGi-----d~~~s~nV~I~n~~i~~gDD~igs~----G~~~~~~~i~nV~v~n~ 70 (125)
+|+.+-++..|+|++-.+-. +....-|| -+.+|.|..|.|....+.--..-.. |.+. .--+|....|+
T Consensus 262 vhvengkhfvirnvkaknitpdfskkagidnatvaiygcdnfvidni~mvnsagmligygvikg~yl--sipqnfkln~i 339 (464)
T PRK10123 262 IHVENGKHFVIRNIKAKNITPDFSKKAGIDNATVAIYGCDNFVIDNIEMINSAGMLIGYGVIKGKYL--SIPQNFKLNNI 339 (464)
T ss_pred EEecCCcEEEEEeeeccccCCCchhhcCCCcceEEEEcccceEEeccccccccccEEEeeeeeccEe--cccccceeceE
Confidence 36777888999999877632 11222344 4678999999988887643332212 2221 11356666666
Q ss_pred EecCCC-----ceEEEEeecCCCCceEEeEEEEcEEEecc
Q 040317 71 SFTNTQ-----NGVRIKLWARPRNGYARNIAFRNIIMNDI 105 (125)
Q Consensus 71 ~~~~t~-----~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v 105 (125)
.+.++. +||.|.+ |...+=|.+.|+.|+..
T Consensus 340 ~ldn~~l~yklrgiqiss-----gnatsfvaitn~~mkra 374 (464)
T PRK10123 340 QLDNTHLAYKLRGIQISA-----GNAVSFVALTNIEMKRA 374 (464)
T ss_pred eecccccceeeeeeEecc-----CCcceEEEEeeeehhhh
Confidence 666654 5666643 34466677777777643
No 43
>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=37.40 E-value=1.9e+02 Score=22.12 Aligned_cols=104 Identities=20% Similarity=0.218 Sum_probs=57.8
Q ss_pred ecEEEEeEEEECCCCCCCCCeEEecCcccEEEEeeEEee-CCCceeeccCC------------CC-----cCCeEEEEEE
Q 040317 7 SDILIRNVKIIDPTNSPTTDGIQMQSSTGVTITSSSIMT-GEPFVNRLGDH------------LN-----EEGVQNVTVT 68 (125)
Q Consensus 7 ~nV~i~~i~I~~~~~~~ntDGid~~~s~nV~I~n~~i~~-gDD~igs~G~~------------~~-----~~~i~nV~v~ 68 (125)
+..+++|+.|-.+ -.||||..+ +.+|+|++... +.|++.-.|.. .. ..+--.++|+
T Consensus 61 ~GatlkNvIiG~~----~~dGIHC~G--~Ctl~NVwwedVcEDA~T~kg~~~~~~I~ggga~~A~DKV~Q~Ng~Gtv~I~ 134 (215)
T PF03211_consen 61 DGATLKNVIIGAN----QADGIHCKG--SCTLENVWWEDVCEDAATFKGDGGTVTIIGGGARNASDKVFQHNGGGTVTIK 134 (215)
T ss_dssp TTEEEEEEEETSS-----TT-EEEES--CEEEEEEEESS-SSESEEEESSEEEEEEESTEEEEEEEEEEEE-SSEEEEEE
T ss_pred CCCEEEEEEEcCC----CcCceEEcC--CEEEEEEEecccceeeeEEcCCCceEEEeCCcccCCCccEEEecCceeEEEE
Confidence 4678899888543 479999998 88999999964 77774211111 00 0111246666
Q ss_pred eeEecCCCceEEEEeecCC--CCceEEeEEEEcEEEeccCccEEEEeeeCCC
Q 040317 69 SSSFTNTQNGVRIKLWARP--RNGYARNIAFRNIIMNDIQNPIIIDRNYCSY 118 (125)
Q Consensus 69 n~~~~~t~~gi~Ikt~~g~--~~G~v~nI~~~ni~~~~v~~~i~i~~~y~~~ 118 (125)
|.+..+ .|-..+|--+- .++.-|.|.+++..+.....-.-|..+|++.
T Consensus 135 nF~a~d--~GKl~RSCGnC~~~~~~~r~v~v~~~~~~~~~~~~giN~N~gD~ 184 (215)
T PF03211_consen 135 NFYAED--FGKLYRSCGNCSNNGGPRRHVVVNNVVAGPGNSLVGINRNYGDT 184 (215)
T ss_dssp EEEEEE--EEEEEEE-TTETS----EEEEEEEEEEEEEEEEEEEEEEGGTTT
T ss_pred eEEEcC--CCEEEEeCCCCCCCCCcceEEEEeeEEecCCcEEEEEECCCCCe
Confidence 654432 34333332210 1245677888877766555566777777653
No 44
>PRK10123 wcaM putative colanic acid biosynthesis protein; Provisional
Probab=35.73 E-value=44 Score=27.21 Aligned_cols=13 Identities=31% Similarity=0.317 Sum_probs=7.9
Q ss_pred EeEEEEcEEEecc
Q 040317 93 RNIAFRNIIMNDI 105 (125)
Q Consensus 93 ~nI~~~ni~~~~v 105 (125)
.|..+.||.|.+.
T Consensus 301 dnfvidni~mvns 313 (464)
T PRK10123 301 DNFVIDNIEMINS 313 (464)
T ss_pred cceEEeccccccc
Confidence 3566666666654
No 45
>PLN02634 probable pectinesterase
Probab=33.74 E-value=2.7e+02 Score=22.91 Aligned_cols=67 Identities=9% Similarity=0.086 Sum_probs=35.7
Q ss_pred ccEEEEeeEEeeCCCceeeccCCC--CcCCeEEEEEEeeEecCCCceEEEEeecCCCCceEEeEEEEcEEEecc
Q 040317 34 TGVTITSSSIMTGEPFVNRLGDHL--NEEGVQNVTVTSSSFTNTQNGVRIKLWARPRNGYARNIAFRNIIMNDI 105 (125)
Q Consensus 34 ~nV~I~n~~i~~gDD~igs~G~~~--~~~~i~nV~v~n~~~~~t~~gi~Ikt~~g~~~G~v~nI~~~ni~~~~v 105 (125)
-...+++|.|.+-....|.+.... ....-...+|.||++.++. .+ +-|...+.-..+.|.+..|.+.
T Consensus 223 g~a~Fe~C~I~s~~~~~g~ITA~~R~~~~~~~GfvF~~C~vtg~g-~~----yLGRPW~~yarvVf~~t~l~~~ 291 (359)
T PLN02634 223 GRSMYKDCELHSIASRFGSIAAHGRTCPEEKTGFAFVGCRVTGTG-PL----YVGRAMGQYSRIVYAYTYFDAV 291 (359)
T ss_pred ceEEEeccEEEEecCCCcEEEeCCCCCCCCCcEEEEEcCEEcCCc-ce----EecCCCCCcceEEEEecccCCE
Confidence 445556666655332223222111 1223356788888887643 22 2332245567788888887764
No 46
>PLN02468 putative pectinesterase/pectinesterase inhibitor
Probab=33.00 E-value=3.3e+02 Score=23.74 Aligned_cols=44 Identities=5% Similarity=-0.005 Sum_probs=26.6
Q ss_pred eeecEEEEeEEEECCCCCCC--CCeEEecCcccEEEEeeEEeeCCCc
Q 040317 5 HCSDILIRNVKIIDPTNSPT--TDGIQMQSSTGVTITSSSIMTGEPF 49 (125)
Q Consensus 5 ~c~nV~i~~i~I~~~~~~~n--tDGid~~~s~nV~I~n~~i~~gDD~ 49 (125)
..+++.++|+++.|...... .-.+-+ .+....+.+|.|...-|-
T Consensus 343 ~~~~f~a~~itf~Ntag~~~~QAVAl~v-~~D~~~fy~c~~~G~QDT 388 (565)
T PLN02468 343 FGKGFMARDMGFRNTAGPIKHQAVALMS-SADLSVFYRCTMDAFQDT 388 (565)
T ss_pred ECCCeEEEEEEEEeCCCCCCCceEEEEE-cCCcEEEEEeEEEeccch
Confidence 45788889999988643211 222322 346777777777665444
No 47
>PF01095 Pectinesterase: Pectinesterase; InterPro: IPR000070 Pectinesterase 3.1.1.11 from EC (pectin methylesterase) catalyses the de-esterification of pectin into pectate and methanol. Pectin is one of the main components of the plant cell wall. In plants, pectinesterase plays an important role in cell wall metabolism during fruit ripening. In plant bacterial pathogens such as Erwinia carotovora and in fungal pathogens such as Aspergillus niger, pectinesterase is involved in maceration and soft-rotting of plant tissue. Plant pectinesterases are regulated by pectinesterase inhibitors, which are ineffective against microbial enzymes []. Prokaryotic and eukaryotic pectinesterases share a few regions of sequence similarity. The crystal structure of pectinesterase from Erwinia chrysanthemi revealed a beta-helix structure similar to that found in pectinolytic enzymes, though it is different from most structures of esterases []. The putative catalytic residues are in a similar location to those of the active site and substrate-binding cleft of pectate lyase.; GO: 0030599 pectinesterase activity, 0042545 cell wall modification, 0005618 cell wall; PDB: 1QJV_B 1XG2_A 1GQ8_A 2NTQ_A 2NTP_A 2NT9_A 2NT6_B 2NSP_B 2NTB_A 2NST_A ....
Probab=32.49 E-value=1e+02 Score=24.36 Aligned_cols=44 Identities=5% Similarity=0.119 Sum_probs=24.1
Q ss_pred eeecEEEEeEEEECCCCC--CCCCeEEecCcccEEEEeeEEeeCCCc
Q 040317 5 HCSDILIRNVKIIDPTNS--PTTDGIQMQSSTGVTITSSSIMTGEPF 49 (125)
Q Consensus 5 ~c~nV~i~~i~I~~~~~~--~ntDGid~~~s~nV~I~n~~i~~gDD~ 49 (125)
..+++.++||+|.+.... .-.-.+.+. ..++.+.+|.|...-|-
T Consensus 85 ~a~~f~~~nit~~Nt~g~~~~qAvAl~~~-~d~~~f~~c~~~g~QDT 130 (298)
T PF01095_consen 85 NADDFTAENITFENTAGPSGGQAVALRVS-GDRAAFYNCRFLGYQDT 130 (298)
T ss_dssp -STT-EEEEEEEEEHCSGSG----SEEET--TSEEEEEEEEE-STT-
T ss_pred cccceeeeeeEEecCCCCcccceeeeeec-CCcEEEEEeEEccccce
Confidence 456788888888885321 122344444 36788888888765555
No 48
>PF06594 HCBP_related: Haemolysin-type calcium binding protein related domain; InterPro: IPR010566 This family consists of a number of bacteria specific domains, which are found in haemolysin-type calcium binding proteins. This family is found in conjunction with IPR001343 from INTERPRO and is often found in multiple copies.
Probab=29.78 E-value=1e+02 Score=16.84 Aligned_cols=29 Identities=21% Similarity=0.389 Sum_probs=18.6
Q ss_pred EecCCCceEEEEeecCCC-CceEEeEEEEc
Q 040317 71 SFTNTQNGVRIKLWARPR-NGYARNIAFRN 99 (125)
Q Consensus 71 ~~~~t~~gi~Ikt~~g~~-~G~v~nI~~~n 99 (125)
.+.++..-+.||-|-... ...|+.|.|.+
T Consensus 5 ~i~~s~d~iti~~~f~~~~~~~Ie~i~FaD 34 (43)
T PF06594_consen 5 SIKGSGDSITIKNWFSSDGSYRIEQIEFAD 34 (43)
T ss_pred EEcCCCcEEEEeeeECccCCCcEeEEEEcC
Confidence 344566778888664322 35688888876
No 49
>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=28.98 E-value=3.4e+02 Score=22.62 Aligned_cols=48 Identities=21% Similarity=0.298 Sum_probs=24.6
Q ss_pred cccEEEEeeEEeeCCCceeeccCCCCcCCeEEEEEEeeEecCCCceEEEEeecC
Q 040317 33 STGVTITSSSIMTGEPFVNRLGDHLNEEGVQNVTVTSSSFTNTQNGVRIKLWAR 86 (125)
Q Consensus 33 s~nV~I~n~~i~~gDD~igs~G~~~~~~~i~nV~v~n~~~~~t~~gi~Ikt~~g 86 (125)
-.+|++.|+.+...|.--|.+ .-.-.++++-+|.|.+- +|..++.|.+
T Consensus 120 M~~VtF~ni~F~~~~~~~g~~-----f~~~t~~~~hgC~F~gf-~g~cl~~~~~ 167 (386)
T PF01696_consen 120 MEGVTFVNIRFEGRDTFSGVV-----FHANTNTLFHGCSFFGF-HGTCLESWAG 167 (386)
T ss_pred eeeeEEEEEEEecCCccceeE-----EEecceEEEEeeEEecC-cceeEEEcCC
Confidence 457777777777543111110 12234566666666653 5555555543
No 50
>PLN02773 pectinesterase
Probab=28.97 E-value=3.1e+02 Score=22.09 Aligned_cols=45 Identities=7% Similarity=0.107 Sum_probs=29.1
Q ss_pred EeeecEEEEeEEEECCCCC--CCCCeEEecCcccEEEEeeEEeeCCCc
Q 040317 4 NHCSDILIRNVKIIDPTNS--PTTDGIQMQSSTGVTITSSSIMTGEPF 49 (125)
Q Consensus 4 ~~c~nV~i~~i~I~~~~~~--~ntDGid~~~s~nV~I~n~~i~~gDD~ 49 (125)
...+++.++||+|.|.... .-.-.+.+. ...+.+.+|.|...-|-
T Consensus 99 v~a~~f~a~nlT~~Nt~~~~~gQAvAl~v~-gDr~~f~~c~~~G~QDT 145 (317)
T PLN02773 99 VEGEDFIAENITFENSAPEGSGQAVAIRVT-ADRCAFYNCRFLGWQDT 145 (317)
T ss_pred EECCCeEEEeeEEEeCCCCCCCcEEEEEec-CccEEEEccEeecccce
Confidence 4568899999999986422 122233333 47778888877765555
No 51
>KOG3448 consensus Predicted snRNP core protein [RNA processing and modification]
Probab=26.30 E-value=1.3e+02 Score=19.92 Aligned_cols=13 Identities=15% Similarity=0.659 Sum_probs=7.3
Q ss_pred cEEEEeEEEECCC
Q 040317 8 DILIRNVKIIDPT 20 (125)
Q Consensus 8 nV~i~~i~I~~~~ 20 (125)
|+++.++++..+.
T Consensus 37 NlkL~di~v~d~~ 49 (96)
T KOG3448|consen 37 NLKLTDISVTDPD 49 (96)
T ss_pred eeEEeeeEeeCcc
Confidence 4555666665543
No 52
>PF04026 SpoVG: SpoVG; InterPro: IPR007170 This is a stage V sporulation protein G. It is essential for sporulation and specific to stage V sporulation in Bacillus megaterium and Bacillus subtilis []. In B. subtilis, expression decreases after 30-60 minutes of cold shock [].; GO: 0030435 sporulation resulting in formation of a cellular spore; PDB: 2IA9_F 2I9X_B 2I9Z_A.
Probab=20.46 E-value=1.8e+02 Score=18.69 Aligned_cols=32 Identities=9% Similarity=0.241 Sum_probs=18.5
Q ss_pred EEEEeeEecCCCceEEEE--eecCCCCceEEeEEE
Q 040317 65 VTVTSSSFTNTQNGVRIK--LWARPRNGYARNIAF 97 (125)
Q Consensus 65 V~v~n~~~~~t~~gi~Ik--t~~g~~~G~v~nI~~ 97 (125)
.+|+|+.+..+.+|+++- ++.. +.|..++|.+
T Consensus 29 f~I~~ikVieg~~GlFVaMPs~k~-~~g~y~Di~~ 62 (84)
T PF04026_consen 29 FVIHDIKVIEGEKGLFVAMPSRKS-KDGEYKDICH 62 (84)
T ss_dssp EEEEEEEEEEETTEEEEE--EEE--TTS-EEESEE
T ss_pred EEEEeEEEEECCCCcEEECCCcCC-CCCCEEEEEE
Confidence 566677777778888775 3332 2355555543
Done!