Query psy8070
Match_columns 173
No_of_seqs 125 out of 357
Neff 5.4
Searched_HMMs 46136
Date Fri Aug 16 17:37:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8070.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8070hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02681 proline dehydrogenase 100.0 4E-31 8.7E-36 240.3 14.7 135 36-171 20-154 (455)
2 KOG0186|consensus 99.0 1.2E-10 2.6E-15 106.5 3.2 119 37-155 57-185 (506)
3 PRK11905 bifunctional proline 98.6 2E-07 4.4E-12 94.0 9.0 121 46-171 122-250 (1208)
4 PRK11904 bifunctional proline 98.6 2.5E-07 5.4E-12 92.1 9.2 83 88-171 161-251 (1038)
5 PRK11809 putA trifunctional tr 98.4 9E-07 1.9E-11 90.0 8.0 122 45-171 201-330 (1318)
6 KOG0186|consensus 98.2 2.6E-07 5.5E-12 84.9 -0.6 92 54-149 2-95 (506)
7 PF01619 Pro_dh: Proline dehyd 95.8 0.014 3E-07 50.9 4.8 50 105-155 1-50 (313)
8 COG4792 EscU Type III secretor 63.6 12 0.00025 33.7 4.4 102 42-165 125-233 (349)
9 COG0320 LipA Lipoate synthase 61.3 7.5 0.00016 34.5 2.7 25 107-131 224-250 (306)
10 smart00642 Aamy Alpha-amylase 50.1 16 0.00034 29.1 2.7 25 109-133 68-92 (166)
11 PF00128 Alpha-amylase: Alpha 49.9 13 0.00027 30.4 2.2 26 109-134 50-75 (316)
12 COG1523 PulA Type II secretory 40.0 22 0.00047 35.0 2.4 23 109-131 263-285 (697)
13 PF08029 HisG_C: HisG, C-termi 39.5 22 0.00048 25.0 1.8 25 110-134 49-73 (75)
14 PTZ00413 lipoate synthase; Pro 38.1 29 0.00062 32.0 2.8 21 107-127 306-326 (398)
15 TIGR02100 glgX_debranch glycog 37.8 30 0.00065 33.8 3.0 31 103-133 237-267 (688)
16 PF05036 SPOR: Sporulation rel 36.4 21 0.00044 23.3 1.2 31 98-128 41-73 (76)
17 TIGR03455 HisG_C-term ATP phos 35.7 36 0.00079 25.1 2.5 26 109-134 72-97 (100)
18 PF10742 DUF2555: Protein of u 35.3 18 0.0004 24.6 0.8 26 40-65 21-46 (57)
19 PRK09004 FMN-binding protein M 34.4 30 0.00064 26.8 2.0 27 99-130 93-119 (146)
20 KOG0879|consensus 34.1 14 0.0003 29.8 0.1 13 100-112 42-54 (177)
21 COG0296 GlgB 1,4-alpha-glucan 34.0 34 0.00074 33.3 2.7 23 109-131 212-234 (628)
22 TIGR00510 lipA lipoate synthas 33.2 42 0.0009 29.5 2.9 26 107-132 218-245 (302)
23 PF03352 Adenine_glyco: Methyl 32.9 1.1E+02 0.0023 25.1 5.1 67 63-132 71-159 (179)
24 TIGR02104 pulA_typeI pullulana 32.7 35 0.00076 32.5 2.6 25 109-133 227-251 (605)
25 PRK05926 hypothetical protein; 32.5 61 0.0013 29.2 3.9 70 96-172 191-264 (370)
26 PRK08105 flavodoxin; Provision 32.2 34 0.00074 26.5 2.0 34 99-138 95-128 (149)
27 TIGR00756 PPR pentatricopeptid 32.0 51 0.0011 17.6 2.3 27 100-126 6-32 (35)
28 TIGR02366 DHAK_reg probable di 31.4 19 0.00041 27.6 0.5 21 93-116 33-53 (176)
29 COG2344 AT-rich DNA-binding pr 31.1 44 0.00096 28.2 2.6 23 111-133 157-179 (211)
30 PRK10785 maltodextrin glucosid 30.5 44 0.00096 31.8 2.8 26 102-128 171-196 (598)
31 PRK12313 glycogen branching en 29.8 44 0.00095 32.0 2.7 25 109-133 218-242 (633)
32 KOG2672|consensus 28.9 52 0.0011 29.6 2.7 23 105-127 265-287 (360)
33 PLN00196 alpha-amylase; Provis 28.5 50 0.0011 30.4 2.7 26 109-134 90-115 (428)
34 PRK05481 lipoyl synthase; Prov 28.4 58 0.0013 28.1 3.0 27 107-133 207-235 (289)
35 PRK12928 lipoyl synthase; Prov 28.2 54 0.0012 28.5 2.8 27 107-133 215-243 (290)
36 TIGR02491 NrdG anaerobic ribon 26.9 48 0.001 25.8 2.0 31 103-133 68-104 (154)
37 PLN02428 lipoic acid synthase 26.9 61 0.0013 29.3 2.9 19 107-125 258-276 (349)
38 TIGR01515 branching_enzym alph 26.8 54 0.0012 31.4 2.7 26 109-134 204-229 (613)
39 PF00106 adh_short: short chai 26.6 2E+02 0.0043 21.2 5.3 61 88-151 13-75 (167)
40 PRK09505 malS alpha-amylase; R 26.1 59 0.0013 31.9 2.9 25 104-129 224-248 (683)
41 KOG0033|consensus 26.1 49 0.0011 29.5 2.1 78 48-125 48-131 (355)
42 PRK05402 glycogen branching en 25.6 58 0.0012 31.9 2.7 25 109-133 313-337 (726)
43 TIGR02402 trehalose_TreZ malto 25.6 59 0.0013 30.7 2.7 25 109-133 158-182 (542)
44 PF02629 CoA_binding: CoA bind 25.5 72 0.0016 22.6 2.6 23 110-132 72-94 (96)
45 TIGR03551 F420_cofH 7,8-dideme 25.3 2.2E+02 0.0047 24.9 6.1 29 97-125 164-193 (343)
46 PRK09441 cytoplasmic alpha-amy 25.3 61 0.0013 29.8 2.7 26 109-134 79-104 (479)
47 PLN02361 alpha-amylase 24.8 63 0.0014 29.6 2.7 26 109-134 74-99 (401)
48 PF02885 Glycos_trans_3N: Glyc 24.8 64 0.0014 21.5 2.1 20 105-124 46-65 (66)
49 PRK05723 flavodoxin; Provision 23.8 63 0.0014 25.3 2.2 34 99-138 95-129 (151)
50 PF13812 PPR_3: Pentatricopept 23.5 83 0.0018 17.0 2.1 24 103-126 10-33 (34)
51 PLN03244 alpha-amylase; Provis 23.4 67 0.0014 32.5 2.7 24 109-132 439-462 (872)
52 PRK14706 glycogen branching en 23.4 68 0.0015 31.1 2.7 26 109-134 215-240 (639)
53 cd06533 Glyco_transf_WecG_TagA 23.2 2.6E+02 0.0057 22.0 5.7 37 87-123 30-69 (171)
54 cd04450 DEP_RGS7-like DEP (Dis 23.2 1.5E+02 0.0032 21.0 3.9 38 87-130 30-68 (88)
55 COG1060 ThiH Thiamine biosynth 22.8 49 0.0011 30.0 1.5 34 103-136 150-183 (370)
56 PRK12568 glycogen branching en 21.8 76 0.0016 31.5 2.7 25 109-133 317-341 (730)
57 TIGR02826 RNR_activ_nrdG3 anae 21.7 76 0.0017 24.8 2.3 28 102-129 65-93 (147)
58 PF15182 OTOS: Otospiralin 21.7 51 0.0011 23.1 1.1 18 92-110 43-60 (69)
59 cd04371 DEP DEP domain, named 21.6 1.6E+02 0.0034 19.7 3.6 38 87-130 30-68 (81)
60 PF12404 DUF3663: Peptidase ; 21.3 1E+02 0.0022 22.1 2.6 27 102-128 29-55 (77)
61 TIGR02456 treS_nterm trehalose 21.0 82 0.0018 29.5 2.7 27 109-135 74-100 (539)
62 PRK06256 biotin synthase; Vali 20.9 1.3E+02 0.0029 25.9 3.8 34 98-131 174-211 (336)
63 PLN02447 1,4-alpha-glucan-bran 20.9 81 0.0018 31.5 2.7 25 109-133 298-322 (758)
64 cd00860 ThrRS_anticodon ThrRS 20.8 1E+02 0.0022 20.6 2.5 25 108-132 12-36 (91)
65 COG0502 BioB Biotin synthase a 20.7 1.2E+02 0.0025 27.5 3.4 35 97-131 165-203 (335)
66 PF01535 PPR: PPR repeat; Int 20.6 1E+02 0.0022 16.1 2.1 24 102-125 8-31 (31)
67 PF07566 DUF1543: Domain of Un 20.5 37 0.0008 22.2 0.2 19 103-121 9-27 (52)
68 cd01335 Radical_SAM Radical SA 20.2 2.5E+02 0.0054 20.6 4.8 33 101-133 114-147 (204)
69 PF03732 Retrotrans_gag: Retro 20.2 30 0.00065 23.3 -0.3 39 96-135 32-70 (96)
No 1
>PLN02681 proline dehydrogenase
Probab=99.97 E-value=4e-31 Score=240.32 Aligned_cols=135 Identities=31% Similarity=0.456 Sum_probs=121.9
Q ss_pred CCCCCCCCChHHHhccCCHHHHHHHHHHHHhhCchHhhhhhHHHHHHHHHhhhhHHHHHHHHHHhhcccccCCChhhHHH
Q psy8070 36 DPLDLSFANPEAAFKSKTTWEVLRAYIVYQLCSSSFLVDNNMKLMKVGKAILGQKMFAQVMKLTFYGHFVAGEDQYKIVP 115 (173)
Q Consensus 36 ~~~~l~F~d~~~af~~kst~eLlRs~lv~~l~s~p~LV~~~~~ll~~~~~~~g~~l~~~lvk~TfY~qFcaGEt~~Ev~~ 115 (173)
.+..++|+|++.+|+.+|+++|+|++++|++|++|+||++|.++|+.+.++.|..+++++||+|||+|||||||.+|+++
T Consensus 20 ~~~~~~f~d~~~~f~~~s~~~Llr~~~v~~~~s~~~lv~~~~~~~~~~~~~~~~~~~~~~~k~t~y~~F~aGEt~~e~~~ 99 (455)
T PLN02681 20 SDDVLDFSDHAALFAGLSTSELLRSLLVLQLCAIGPLVDLGEWLLTSPLMVLGRAIVLALVKATFYSHFCAGEDAEEAAR 99 (455)
T ss_pred CCCCCCcCchHHHHhcCCHHHHHHHHHHHHHhcchHHhhhhHHHHHHHHhhcccHHHHHHHHHHHHhheecCCCHHHHHH
Confidence 45689999999999999999999999999999999999999999999988878788999999999999999999999999
Q ss_pred HHHHHHhCCCceeecccccccCChhHHHHHHHHhhhhHHhhhhhcccccceeeccc
Q psy8070 116 VLKRLHSFGVKPILDYSVEEDISQEEAEKRELEASTSELEQTKEAAAITEDVALKC 171 (173)
Q Consensus 116 ti~~L~~~Gvg~ILdYavE~d~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 (173)
++++|++.|+++||||++|++.+ ++.++++++.+++.+......+....||++|.
T Consensus 100 ~i~~L~~~G~~~iLdy~~E~~~~-e~~~d~~~~~~l~~Id~~~~~~~~~~~vsiK~ 154 (455)
T PLN02681 100 TVRRLWELGLGGILDYAAEDAGD-NAACDRNLEKFLAAIRAAATLPPSSSSAAVKI 154 (455)
T ss_pred HHHHHHHCCCeEEeeccccCcCC-HHHHHHHHHHHHHHHHHHhhcCCCCCceEEee
Confidence 99999999999999999998765 55588899999887777654433348999995
No 2
>KOG0186|consensus
Probab=99.03 E-value=1.2e-10 Score=106.46 Aligned_cols=119 Identities=21% Similarity=0.305 Sum_probs=92.8
Q ss_pred CCCCCCCChHHHhccCCHHHHHHHHHHHHhhCchHhhhhhHHHHHH--------HHHhhhhHH-HHHHHHHHhhcccccC
Q psy8070 37 PLDLSFANPEAAFKSKTTWEVLRAYIVYQLCSSSFLVDNNMKLMKV--------GKAILGQKM-FAQVMKLTFYGHFVAG 107 (173)
Q Consensus 37 ~~~l~F~d~~~af~~kst~eLlRs~lv~~l~s~p~LV~~~~~ll~~--------~~~~~g~~l-~~~lvk~TfY~qFcaG 107 (173)
+-.+.-.+..++|..+|..+.+++-.++...+...+++.+.+++.. .+.++|.+. -..+.|-|||+|||||
T Consensus 57 ~~~l~~~~~~r~f~~~~i~d~~~~~~~~~~~~~~~~~elg~~~~~~kl~~~~~t~~~lf~~r~~gv~~~r~tFY~~fC~g 136 (506)
T KOG0186|consen 57 EANLRLSDKARAFGGKPILDYLVSTDLLSALAIKKTVELGSWLAAVKLSAGTNTIRRLFGDRRNGVPFARTTFYEHFCAG 136 (506)
T ss_pred hhhhhhhHHHHhccCCCccchhhhhhhhhhhcccceeehhhHHHHHhhcccchHHHHHhcccccCCchheeeeHhhhcCC
Confidence 3456678889999999999999999999999999999988777652 233333333 3459999999999999
Q ss_pred CChhhHHHHH-HHHHhCCCceeecccccccCChhHHHHHHHHhhhhHHh
Q psy8070 108 EDQYKIVPVL-KRLHSFGVKPILDYSVEEDISQEEAEKRELEASTSELE 155 (173)
Q Consensus 108 Et~~Ev~~ti-~~L~~~Gvg~ILdYavE~d~~~~e~~~~~~~~~~~~~~ 155 (173)
|+..|+...+ ..+++.|+.+||.|++|.+++.....+.-+++++.+.+
T Consensus 137 e~f~~aie~v~~~~q~~G~~~ml~lg~e~~~~~~S~~~~~~~qfv~~~~ 185 (506)
T KOG0186|consen 137 EDFKEAIEAVMSRLQATGIKSMLALGREQALDGDSEVSNPVQQFVKTTE 185 (506)
T ss_pred ccHHHHHHHHHHHHHhcchhhhhhccCccccccchhhhhHHHHhhcccc
Confidence 9998888888 88999999779999999876655534443666665443
No 3
>PRK11905 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed
Probab=98.57 E-value=2e-07 Score=93.97 Aligned_cols=121 Identities=13% Similarity=0.180 Sum_probs=80.2
Q ss_pred HHHhccCCHHHHHHHHHHHHhhCchHhhhhhHHHHHHHHHhhhhHHHHHHHH---HHhhcccccCCChhhHHHHHHHHHh
Q psy8070 46 EAAFKSKTTWEVLRAYIVYQLCSSSFLVDNNMKLMKVGKAILGQKMFAQVMK---LTFYGHFVAGEDQYKIVPVLKRLHS 122 (173)
Q Consensus 46 ~~af~~kst~eLlRs~lv~~l~s~p~LV~~~~~ll~~~~~~~g~~l~~~lvk---~TfY~qFcaGEt~~Ev~~ti~~L~~ 122 (173)
...|-.-+||-|.=+-.+.+...- -+.+..+.++..+ +|..+++..+| +++|+|||+|||++|+.+++++|++
T Consensus 122 ~~~~vna~~w~l~~~~~~~~~~~~---~~~~~~~~~~~~~-~~~p~i~~~~~~am~~~~~qFv~Geti~eal~~~~~l~~ 197 (1208)
T PRK11905 122 KSLFVNAATWGLMLTGKLLSTVND---RGLSAALTRLIAR-LGEPVIRKAVDMAMRMMGEQFVTGETIEEALKRARELEA 197 (1208)
T ss_pred CcceeeHHHHHHHHhceecCcccc---CCHHHHHHHHHHh-ccHHHHHHHHHHHHHHHhCeeccCCCHHHHHHHHHHHHh
Confidence 345555567777655444444322 1122222222222 35567888888 8999999999999999999999999
Q ss_pred CCCceeecccccccCChhHHHHHHHHhhhhHHhh---h--hhcccccceeeccc
Q psy8070 123 FGVKPILDYSVEEDISQEEAEKRELEASTSELEQ---T--KEAAAITEDVALKC 171 (173)
Q Consensus 123 ~Gvg~ILdYavE~d~~~~e~~~~~~~~~~~~~~~---~--~~~~~~~~~~~~~~ 171 (173)
.|++..+||--|...++++ .++.++.+...+.. . ........||.||.
T Consensus 198 ~G~~~s~D~LGE~~~t~~~-A~~~~~~y~~~i~~i~~~~~~~~~~~~~~iSvKl 250 (1208)
T PRK11905 198 RGYRYSYDMLGEAARTAAD-AERYYRDYERAIHAIGKAATGRGVYDGPGISVKL 250 (1208)
T ss_pred CCCEEEEEeccCCcCCHHH-HHHHHHHHHHHHHHHHhhcccCCCCCCCeEEEEc
Confidence 9999999999998766665 44444444443332 2 12223478999985
No 4
>PRK11904 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed
Probab=98.56 E-value=2.5e-07 Score=92.11 Aligned_cols=83 Identities=16% Similarity=0.240 Sum_probs=63.7
Q ss_pred hhHHHHHHHHH---HhhcccccCCChhhHHHHHHHHHhCCCceeecccccccCChhHHHHHHHHhhhhHHhhh---hhcc
Q psy8070 88 GQKMFAQVMKL---TFYGHFVAGEDQYKIVPVLKRLHSFGVKPILDYSVEEDISQEEAEKRELEASTSELEQT---KEAA 161 (173)
Q Consensus 88 g~~l~~~lvk~---TfY~qFcaGEt~~Ev~~ti~~L~~~Gvg~ILdYavE~d~~~~e~~~~~~~~~~~~~~~~---~~~~ 161 (173)
|..+++.++++ ++++|||+|||++|+.+++++|++.|+...+||-.|...++++ .++.++.+...+..- ....
T Consensus 161 ~~~~i~~~~~~~~~~~~~qFv~Geti~ea~~~~~~l~~~G~~~s~D~LGE~~~t~~~-a~~~~~~y~~~i~~i~~~~~~~ 239 (1038)
T PRK11904 161 GEPVIRKAMRQAMKIMGKQFVLGRTIEEALKRARSARNKGYRYSFDMLGEAALTAAD-AERYFKAYARAIEAIGRAAGGA 239 (1038)
T ss_pred ccHHHHHHHHHHHHHhcCEecCCCCHHHHHHHHHHHHhCCCEEEEEccCCCCCCHHH-HHHHHHHHHHHHHHHHhhcccC
Confidence 44557777777 9999999999999999999999999999999999998655544 677777775544432 1111
Q ss_pred c--ccceeeccc
Q psy8070 162 A--ITEDVALKC 171 (173)
Q Consensus 162 ~--~~~~~~~~~ 171 (173)
+ ...+|.||.
T Consensus 240 ~~~~~~~iSvKl 251 (1038)
T PRK11904 240 DLPARPGISIKL 251 (1038)
T ss_pred CCCCCCeEEEeh
Confidence 1 368898885
No 5
>PRK11809 putA trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed
Probab=98.37 E-value=9e-07 Score=89.96 Aligned_cols=122 Identities=13% Similarity=0.192 Sum_probs=78.8
Q ss_pred hHHHhccCCHHHHHHHHHHHHhhCchHhhhhhHHHHHHHHHhhhhHHHHHHHHH---HhhcccccCCChhhHHHHHHHHH
Q psy8070 45 PEAAFKSKTTWEVLRAYIVYQLCSSSFLVDNNMKLMKVGKAILGQKMFAQVMKL---TFYGHFVAGEDQYKIVPVLKRLH 121 (173)
Q Consensus 45 ~~~af~~kst~eLlRs~lv~~l~s~p~LV~~~~~ll~~~~~~~g~~l~~~lvk~---TfY~qFcaGEt~~Ev~~ti~~L~ 121 (173)
....|-.-+||-|+=+-.+....+-+.+ +.. ++......|..+++..+++ ++|+|||+|||++|+.+++++|+
T Consensus 201 s~s~~vna~~w~l~~t~~~~~~~~~~~~---~~~-l~~~~~~~g~p~ir~~~~~a~~~m~~qFV~Geti~eal~~~~~l~ 276 (1318)
T PRK11809 201 SPSLFVNAATWGLLFTGKLVSTHNEASL---SSS-LNRIIGKSGEPLIRKGVDMAMRLMGEQFVTGETIAEALANARKLE 276 (1318)
T ss_pred CccceeeHHHHHHHHhceecCCCCCcCH---HHH-HHHHHHhccCHHHHHHHHHHHHHhcCeeecCCCHHHHHHHHHHHH
Confidence 3345555667777655444443332212 222 2222233344567777777 99999999999999999999999
Q ss_pred hCCCceeecccccccCChhHHHHHHHHhhhh---HHhhhhh--cccccceeeccc
Q psy8070 122 SFGVKPILDYSVEEDISQEEAEKRELEASTS---ELEQTKE--AAAITEDVALKC 171 (173)
Q Consensus 122 ~~Gvg~ILdYavE~d~~~~e~~~~~~~~~~~---~~~~~~~--~~~~~~~~~~~~ 171 (173)
+.|+...+||--|...++++ .++.++.+.. ....... ......||.||.
T Consensus 277 ~~G~~~s~D~LGEaa~t~~d-A~~y~~~y~~~I~~i~~~~~~~~~~~~~~ISvKl 330 (1318)
T PRK11809 277 EKGFRYSYDMLGEAALTEAD-AQAYLASYEQAIHAIGKASNGRGIYEGPGISIKL 330 (1318)
T ss_pred hCCCEEEEEcccCCcCCHHH-HHHHHHHHHHHHHHHHHhcccCCCCCCCeEEEec
Confidence 99999999999998766555 4454554444 3332222 222368898885
No 6
>KOG0186|consensus
Probab=98.19 E-value=2.6e-07 Score=84.93 Aligned_cols=92 Identities=29% Similarity=0.463 Sum_probs=79.3
Q ss_pred HHHHHHHHHHHHhhCchHhhhh--hHHHHHHHHHhhhhHHHHHHHHHHhhcccccCCChhhHHHHHHHHHhCCCceeecc
Q psy8070 54 TWEVLRAYIVYQLCSSSFLVDN--NMKLMKVGKAILGQKMFAQVMKLTFYGHFVAGEDQYKIVPVLKRLHSFGVKPILDY 131 (173)
Q Consensus 54 t~eLlRs~lv~~l~s~p~LV~~--~~~ll~~~~~~~g~~l~~~lvk~TfY~qFcaGEt~~Ev~~ti~~L~~~Gvg~ILdY 131 (173)
+++|+|+.++++ ++.++.. ...+++....++|++.+..++..|||. |||||+.++...+..+++..|..+|+||
T Consensus 2 ~~~~~r~~~~~r---~~s~~s~~~~~~~l~~~~~~Lgk~sf~~~~p~~~~~-~~~ge~~~~~l~~~~~~r~f~~~~i~d~ 77 (506)
T KOG0186|consen 2 ATRLVRTNFILR---IASAFSFLGPSSVLKSTRVILGKRSFVKLTPETFLG-FVAGEQTEANLRLSDKARAFGGKPILDY 77 (506)
T ss_pred chhhHHHHHHHh---hhhhhcccCCccccccccccccchhhcccCCCCCCC-CCCcccchhhhhhhHHHHhccCCCccch
Confidence 578999999999 5555555 556666667788999999999999999 9999999999999999999999999999
Q ss_pred cccccCChhHHHHHHHHh
Q psy8070 132 SVEEDISQEEAEKRELEA 149 (173)
Q Consensus 132 avE~d~~~~e~~~~~~~~ 149 (173)
.+|.++.+.++....++-
T Consensus 78 ~~~~~~~~~~~~~~~~el 95 (506)
T KOG0186|consen 78 LVSTDLLSALAIKKTVEL 95 (506)
T ss_pred hhhhhhhhhhcccceeeh
Confidence 999988887777666555
No 7
>PF01619 Pro_dh: Proline dehydrogenase; InterPro: IPR002872 The proline oxidase/dehydrogenase 1.5.99.8 from EC is responsible for the first step in the conversion of proline to glutamate for use as a carbon and nitrogen source. The enzyme requires FAD as a cofactor, and is induced by proline.; GO: 0004657 proline dehydrogenase activity, 0006537 glutamate biosynthetic process, 0006562 proline catabolic process, 0055114 oxidation-reduction process; PDB: 2G37_A 2EKG_B 4F9I_B 3HAZ_A 2FZM_A 3E2Q_A 3E2S_A 2FZN_A 1K87_A 1TJ2_A ....
Probab=95.82 E-value=0.014 Score=50.90 Aligned_cols=50 Identities=28% Similarity=0.408 Sum_probs=38.5
Q ss_pred ccCCChhhHHHHHHHHHhCCCceeecccccccCChhHHHHHHHHhhhhHHh
Q psy8070 105 VAGEDQYKIVPVLKRLHSFGVKPILDYSVEEDISQEEAEKRELEASTSELE 155 (173)
Q Consensus 105 caGEt~~Ev~~ti~~L~~~Gvg~ILdYavE~d~~~~e~~~~~~~~~~~~~~ 155 (173)
+||||++++.+++++|++.|+...+||--|...+.++ .++.++.+.....
T Consensus 1 vaGet~~~a~~~~~~l~~~g~~~sld~LGE~~~~~~~-a~~~~~~~~~~i~ 50 (313)
T PF01619_consen 1 VAGETIEDALKTIRRLNRQGIRVSLDYLGEAVLTEEE-ADAYVEEYLQLID 50 (313)
T ss_dssp SCESSHHHHHHHHHHHHHTTEEEEEEEC-SS--SHHH-HHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHCCCEEEEEeeccccCCHHH-HHHHHHHHHHHHH
Confidence 6999999999999999999999999999997655555 5565666555443
No 8
>COG4792 EscU Type III secretory pathway, component EscU [Intracellular trafficking and secretion]
Probab=63.57 E-value=12 Score=33.68 Aligned_cols=102 Identities=20% Similarity=0.177 Sum_probs=54.6
Q ss_pred CCChHHHhccCCHHHHHHHHHHHHhhCchHhhhhhHHHHHHHHHhhhhHHHHHHHHHHhhcccccCCChhhHHHHHHHHH
Q psy8070 42 FANPEAAFKSKTTWEVLRAYIVYQLCSSSFLVDNNMKLMKVGKAILGQKMFAQVMKLTFYGHFVAGEDQYKIVPVLKRLH 121 (173)
Q Consensus 42 F~d~~~af~~kst~eLlRs~lv~~l~s~p~LV~~~~~ll~~~~~~~g~~l~~~lvk~TfY~qFcaGEt~~Ev~~ti~~L~ 121 (173)
+.|.+++|+-+|.-||++|.+-.-+.+. ...+.+....+.++.-++ ||=+..-=+...+-++-
T Consensus 125 ~~~~K~ifS~rS~vEl~KS~lKV~vLsl-------------if~f~l~~~~~t~~~lp~----CG~~C~~~Vv~~~~~~L 187 (349)
T COG4792 125 VQNAKRIFSLRSVVELLKSLLKVVVLSL-------------IFWFMLHGYANTFLYLPG----CGLYCALPVVSFLLRLL 187 (349)
T ss_pred hhhHHHHHhHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHhhccc----cccchHHHHHHHHHHHH
Confidence 7899999999999999998764433221 111111222333444444 55544444444443322
Q ss_pred hCC------CceeecccccccCChhHHHHHHHHhhhhHHhhh-hhcccccc
Q psy8070 122 SFG------VKPILDYSVEEDISQEEAEKRELEASTSELEQT-KEAAAITE 165 (173)
Q Consensus 122 ~~G------vg~ILdYavE~d~~~~e~~~~~~~~~~~~~~~~-~~~~~~~~ 165 (173)
--| +-+++||+.|-- -.-+.|+.+-++..+. |++.+-|+
T Consensus 188 ~~g~~~~ylv~sv~Dy~fqr~-----~~~K~lkMSKdEVkRE~Kd~eG~Pe 233 (349)
T COG4792 188 WVGVAVGYLVFSVADYAFQRY-----QILKELKMSKDEVKREYKDMEGDPE 233 (349)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-----HHHHHhccCHHHHHHHHhcccCCch
Confidence 222 246889998742 1334455555555544 55555544
No 9
>COG0320 LipA Lipoate synthase [Coenzyme metabolism]
Probab=61.27 E-value=7.5 Score=34.46 Aligned_cols=25 Identities=36% Similarity=0.567 Sum_probs=21.5
Q ss_pred CCChhhHHHHHHHHHhCCC--ceeecc
Q psy8070 107 GEDQYKIVPVLKRLHSFGV--KPILDY 131 (173)
Q Consensus 107 GEt~~Ev~~ti~~L~~~Gv--g~ILdY 131 (173)
|||.+||.++|+.|++.|+ -+|--|
T Consensus 224 GEt~~Ev~e~m~DLr~~gvdilTiGQY 250 (306)
T COG0320 224 GETDEEVIEVMDDLRSAGVDILTIGQY 250 (306)
T ss_pred CCcHHHHHHHHHHHHHcCCCEEEeccc
Confidence 9999999999999999997 345555
No 10
>smart00642 Aamy Alpha-amylase domain.
Probab=50.09 E-value=16 Score=29.06 Aligned_cols=25 Identities=24% Similarity=0.356 Sum_probs=22.9
Q ss_pred ChhhHHHHHHHHHhCCCceeecccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
|.+|.+..++++++.||++|+|.-.
T Consensus 68 t~~d~~~lv~~~h~~Gi~vilD~V~ 92 (166)
T smart00642 68 TMEDFKELVDAAHARGIKVILDVVI 92 (166)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEECC
Confidence 6799999999999999999999765
No 11
>PF00128 Alpha-amylase: Alpha amylase, catalytic domain; InterPro: IPR006047 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. Enzymes containing this domain, such as alpha-amylase, belong to family 13 (GH13 from CAZY) of the glycosyl hydrolases. The maltogenic alpha-amylase is an enzyme which catalyses hydrolysis of (1-4)-alpha-D-glucosidic linkages in polysaccharides so as to remove successive alpha-maltose residues from the non-reducing ends of the chains in the conversion of starch to maltose. Other enzymes include neopullulanase, which hydrolyses pullulan to panose, and cyclomaltodextrinase, which hydrolyses cyclodextrins. This entry represents the catalytic domain found in several protein members of this family. It has a structure consisting of an 8 stranded alpha/beta barrel that contains the active site, interrupted by a ~70 amino acid calcium-binding domain protruding between beta strand 3 and alpha helix 3, and a carboxyl-terminal Greek key beta-barrel domain []. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; GO: 0003824 catalytic activity, 0043169 cation binding, 0005975 carbohydrate metabolic process; PDB: 3FAX_A 3FAW_A 2DH3_B 2DH2_A 1CIU_A 1A47_A 3BMW_A 3BMV_A 2FH8_A 2FH6_A ....
Probab=49.88 E-value=13 Score=30.36 Aligned_cols=26 Identities=23% Similarity=0.278 Sum_probs=23.8
Q ss_pred ChhhHHHHHHHHHhCCCceeeccccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSVE 134 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYavE 134 (173)
|.+|.+..++++++.||++|||...=
T Consensus 50 t~~d~~~Lv~~~h~~gi~VilD~V~N 75 (316)
T PF00128_consen 50 TMEDFKELVDAAHKRGIKVILDVVPN 75 (316)
T ss_dssp HHHHHHHHHHHHHHTTCEEEEEEETS
T ss_pred hhhhhhhhhhccccccceEEEeeecc
Confidence 57899999999999999999998874
No 12
>COG1523 PulA Type II secretory pathway, pullulanase PulA and related glycosidases [Carbohydrate transport and metabolism]
Probab=40.03 E-value=22 Score=35.04 Aligned_cols=23 Identities=30% Similarity=0.436 Sum_probs=21.0
Q ss_pred ChhhHHHHHHHHHhCCCceeecc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDY 131 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdY 131 (173)
-+.|.+..|+.|.++||++|||-
T Consensus 263 ~i~EfK~mV~~lHkaGI~VILDV 285 (697)
T COG1523 263 RIKEFKDMVKALHKAGIEVILDV 285 (697)
T ss_pred HHHHHHHHHHHHHHcCCEEEEEE
Confidence 57899999999999999999984
No 13
>PF08029 HisG_C: HisG, C-terminal domain; InterPro: IPR013115 ATP phosphoribosyltransferase (2.4.2.17 from EC) is the enzyme that catalyzes the first step in the biosynthesis of histidine in bacteria, fungi and plants as shown below. It is a member of the larger phosphoribosyltransferase superfamily of enzymes which catalyse the condensation of 5-phospho-alpha-D-ribose 1-diphosphate with nitrogenous bases in the presence of divalent metal ions []. ATP + 5-phospho-alpha-D-ribose 1-diphosphate = 1-(5-phospho-D-ribosyl)-ATP + diphosphate Histidine biosynthesis is an energetically expensive process and ATP phosphoribosyltransferase activity is subject to control at several levels. Transcriptional regulation is based primarily on nutrient conditions and determines the amount of enzyme present in the cell, while feedback inihibition rapidly modulates activity in response to cellular conditions. The enzyme has been shown to be inhibited by 1-(5-phospho-D-ribosyl)-ATP, histidine, ppGpp (a signal associated with adverse environmental conditions) and ADP and AMP (which reflect the overall energy status of the cell). As this pathway of histidine biosynthesis is present only in prokayrotes, plants and fungi, this enzyme is a promising target for the development of novel antimicrobial compounds and herbicides. This entry represents the C-terminal portion of ATP phosphoribosyltransferase. The enzyme itself exists in equilibrium between an active dimeric form, an inactive hexameric form and higher aggregates [, ]. Interconversion between the various forms is largely reversible and is influenced by the binding of the natural substrates and inhibitors of the enzyme. This domain is not directly involved in catalysis but appears to be responsible for the formation of hexamers induced by the binding of inhibitors to the enzyme, thus regulating activity.; GO: 0000287 magnesium ion binding, 0003879 ATP phosphoribosyltransferase activity, 0000105 histidine biosynthetic process, 0005737 cytoplasm; PDB: 1Q1K_A 1H3D_A 2VD3_B 1NH7_A 1NH8_A.
Probab=39.48 E-value=22 Score=25.05 Aligned_cols=25 Identities=20% Similarity=0.406 Sum_probs=20.6
Q ss_pred hhhHHHHHHHHHhCCCceeeccccc
Q psy8070 110 QYKIVPVLKRLHSFGVKPILDYSVE 134 (173)
Q Consensus 110 ~~Ev~~ti~~L~~~Gvg~ILdYavE 134 (173)
.+++...|.+|++.|-..||-|.+|
T Consensus 49 ~~~~~~~~~~Lk~~GA~~Ilv~pi~ 73 (75)
T PF08029_consen 49 EKQVWDLMDKLKAAGASDILVLPIE 73 (75)
T ss_dssp CCCHHHHHHHHHCTT-EEEEEEE-S
T ss_pred HHHHHHHHHHHHHcCCCEEEEEecc
Confidence 3678999999999999999999886
No 14
>PTZ00413 lipoate synthase; Provisional
Probab=38.06 E-value=29 Score=32.04 Aligned_cols=21 Identities=29% Similarity=0.507 Sum_probs=19.5
Q ss_pred CCChhhHHHHHHHHHhCCCce
Q psy8070 107 GEDQYKIVPVLKRLHSFGVKP 127 (173)
Q Consensus 107 GEt~~Ev~~ti~~L~~~Gvg~ 127 (173)
|||.+|+..+++.|++.|+..
T Consensus 306 GET~eEvie~m~dLrelGVDi 326 (398)
T PTZ00413 306 GETEEEVRQTLRDLRTAGVSA 326 (398)
T ss_pred CCCHHHHHHHHHHHHHcCCcE
Confidence 999999999999999999843
No 15
>TIGR02100 glgX_debranch glycogen debranching enzyme GlgX. This family consists of the GlgX protein from the E. coli glycogen operon and probable equivalogs from other prokaryotic species. GlgX is not required for glycogen biosynthesis, but instead acts as a debranching enzyme for glycogen catabolism. This model distinguishes GlgX from pullanases and other related proteins that also operate on alpha-1,6-glycosidic linkages. In the wide band between the trusted and noise cutoffs are functionally similar enzymes, mostly from plants, that act similarly but usually are termed isoamylase.
Probab=37.79 E-value=30 Score=33.79 Aligned_cols=31 Identities=23% Similarity=0.427 Sum_probs=25.5
Q ss_pred ccccCCChhhHHHHHHHHHhCCCceeecccc
Q psy8070 103 HFVAGEDQYKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 103 qFcaGEt~~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
+|+.+-+.+|.+..|+++.+.||++|||...
T Consensus 237 ~y~~~g~~~efk~LV~~~H~~GI~VIlDvV~ 267 (688)
T TIGR02100 237 RYLASGQVAEFKTMVRALHDAGIEVILDVVY 267 (688)
T ss_pred hhcCCCCHHHHHHHHHHHHHCCCEEEEEECc
Confidence 3444348999999999999999999999654
No 16
>PF05036 SPOR: Sporulation related domain; InterPro: IPR007730 This 70 residue domain is composed of two 35 residue repeats that are found in bacterial proteins involved in sporulation and cell division, such as FtsN, CwlM and RlpA. This repeat might be involved in binding peptidoglycan. FtsN is an essential cell division protein with a simple bitopic topology: a short N-terminal cytoplasmic segment fused to a large carboxy periplasmic domain through a single transmembrane domain. The repeats lie at the periplasmic C terminus, which has an RNP-like fold []. FtsN localises to the septum ring complex. The CwlM protein is a cell wall hydrolase, where the C-terminal region, including the repeats, determines substrate specificity []. RlpA is a rare lipoprotein A protein that may be important for cell division. Its N-terminal cysteine may be attached to thioglyceride and N-fatty acyl residues [].; PDB: 1X60_A 1UTA_A.
Probab=36.44 E-value=21 Score=23.32 Aligned_cols=31 Identities=16% Similarity=0.228 Sum_probs=23.1
Q ss_pred HHhhcccccC-CChhhHHHHHHHHH-hCCCcee
Q psy8070 98 LTFYGHFVAG-EDQYKIVPVLKRLH-SFGVKPI 128 (173)
Q Consensus 98 ~TfY~qFcaG-Et~~Ev~~ti~~L~-~~Gvg~I 128 (173)
..+|.-++|+ .+.+|.....++|+ ..|+.++
T Consensus 41 ~~~yrV~~G~f~~~~~A~~~~~~l~~~~~~~~~ 73 (76)
T PF05036_consen 41 GPWYRVRVGPFSSREEAEAALRKLKKAAGPDAF 73 (76)
T ss_dssp TTCEEEEECCECTCCHHHHHHHHHHHHHTS--E
T ss_pred CceEEEEECCCCCHHHHHHHHHHHhHhhCCCCE
Confidence 3677888887 88888888888888 6777654
No 17
>TIGR03455 HisG_C-term ATP phosphoribosyltransferase, C-terminal domain. This domain corresponds to the C-terminal third of the HisG protein. It is absent in many lineages.
Probab=35.67 E-value=36 Score=25.13 Aligned_cols=26 Identities=23% Similarity=0.451 Sum_probs=23.9
Q ss_pred ChhhHHHHHHHHHhCCCceeeccccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSVE 134 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYavE 134 (173)
...++...|.+|++.|-..||-+.+|
T Consensus 72 ~~~~v~~~~~~Lk~~GA~~Ilv~~i~ 97 (100)
T TIGR03455 72 DEKVVNELIDKLKAAGARDILVLPIE 97 (100)
T ss_pred cHHHHHHHHHHHHHcCCCeEEEechH
Confidence 66889999999999999999998887
No 18
>PF10742 DUF2555: Protein of unknown function (DUF2555); InterPro: IPR019678 This entry represents conserved proteins found in Cyanobacteria. The function is not known.
Probab=35.32 E-value=18 Score=24.56 Aligned_cols=26 Identities=23% Similarity=0.400 Sum_probs=21.7
Q ss_pred CCCCChHHHhccCCHHHHHHHHHHHH
Q psy8070 40 LSFANPEAAFKSKTTWEVLRAYIVYQ 65 (173)
Q Consensus 40 l~F~d~~~af~~kst~eLlRs~lv~~ 65 (173)
+.-+|...+|..+.+|.|+|++...+
T Consensus 21 LE~DdY~~pF~~L~DWhlLRalA~~R 46 (57)
T PF10742_consen 21 LEEDDYPNPFDGLKDWHLLRALAFQR 46 (57)
T ss_pred hhhccCCchhhhhhHHHHHHHHHhcC
Confidence 44578888999999999999987654
No 19
>PRK09004 FMN-binding protein MioC; Provisional
Probab=34.38 E-value=30 Score=26.78 Aligned_cols=27 Identities=26% Similarity=0.327 Sum_probs=19.5
Q ss_pred HhhcccccCCChhhHHHHHHHHHhCCCceeec
Q psy8070 99 TFYGHFVAGEDQYKIVPVLKRLHSFGVKPILD 130 (173)
Q Consensus 99 TfY~qFcaGEt~~Ev~~ti~~L~~~Gvg~ILd 130 (173)
+.|.|||+. .+..-+.|++.|-..|..
T Consensus 93 s~Y~~fc~~-----~~~ld~~l~~lGa~~v~~ 119 (146)
T PRK09004 93 SEYDTFCGA-----IDKLEQLLKAKGAKQIGE 119 (146)
T ss_pred CCHHHHhHH-----HHHHHHHHHHcCCeEeec
Confidence 347899987 666677788888765554
No 20
>KOG0879|consensus
Probab=34.08 E-value=14 Score=29.76 Aligned_cols=13 Identities=23% Similarity=0.440 Sum_probs=10.6
Q ss_pred hhcccccCCChhh
Q psy8070 100 FYGHFVAGEDQYK 112 (173)
Q Consensus 100 fY~qFcaGEt~~E 112 (173)
=|+|||-||...+
T Consensus 42 NFRQFCTGE~r~~ 54 (177)
T KOG0879|consen 42 NFRQFCTGEYRKD 54 (177)
T ss_pred HHHhhcccccccC
Confidence 4899999998654
No 21
>COG0296 GlgB 1,4-alpha-glucan branching enzyme [Carbohydrate transport and metabolism]
Probab=33.98 E-value=34 Score=33.34 Aligned_cols=23 Identities=22% Similarity=0.392 Sum_probs=21.9
Q ss_pred ChhhHHHHHHHHHhCCCceeecc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDY 131 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdY 131 (173)
|+++.+..|+.+.++||++|||-
T Consensus 212 tPedfk~fVD~aH~~GIgViLD~ 234 (628)
T COG0296 212 TPEDFKALVDAAHQAGIGVILDW 234 (628)
T ss_pred CHHHHHHHHHHHHHcCCEEEEEe
Confidence 79999999999999999999984
No 22
>TIGR00510 lipA lipoate synthase. The family shows strong sequence conservation.
Probab=33.20 E-value=42 Score=29.52 Aligned_cols=26 Identities=35% Similarity=0.473 Sum_probs=20.9
Q ss_pred CCChhhHHHHHHHHHhCCC--ceeeccc
Q psy8070 107 GEDQYKIVPVLKRLHSFGV--KPILDYS 132 (173)
Q Consensus 107 GEt~~Ev~~ti~~L~~~Gv--g~ILdYa 132 (173)
|||.+|+..+++.|++.|+ -.|.-|=
T Consensus 218 GETeee~~etl~~Lrelg~d~v~igqYl 245 (302)
T TIGR00510 218 GETNEEIKQTLKDLRDHGVTMVTLGQYL 245 (302)
T ss_pred CCCHHHHHHHHHHHHhcCCCEEEeeccc
Confidence 9999999999999999986 3355553
No 23
>PF03352 Adenine_glyco: Methyladenine glycosylase; InterPro: IPR005019 This family of methyladenine glycosylases includes DNA-3-methyladenine glycosylase I (3.2.2.20 from EC) which acts as a base excision repair enzyme by severing the glycosylic bond of numerous damaged bases. The enzyme is constitutively expressed and is specific for the alkylated 3-methyladenine DNA.; GO: 0008725 DNA-3-methyladenine glycosylase I activity, 0006284 base-excision repair; PDB: 2OFI_A 2OFK_A 2JG6_A 4AIA_E 4AI5_C 4AI4_A 1LMZ_A 1P7M_A 1NKU_A.
Probab=32.90 E-value=1.1e+02 Score=25.15 Aligned_cols=67 Identities=19% Similarity=0.246 Sum_probs=39.9
Q ss_pred HHHhhCchHhhhhhHHHHHHHHHhhhhHHHHHHHH-----HHhhcccccCCC--------------hhhHHHHHHHHHhC
Q psy8070 63 VYQLCSSSFLVDNNMKLMKVGKAILGQKMFAQVMK-----LTFYGHFVAGED--------------QYKIVPVLKRLHSF 123 (173)
Q Consensus 63 v~~l~s~p~LV~~~~~ll~~~~~~~g~~l~~~lvk-----~TfY~qFcaGEt--------------~~Ev~~ti~~L~~~ 123 (173)
+-++++.|-++++-.++..+..+- +.+..+.+ ..|..+|+.|+. -+......+.|++.
T Consensus 71 ie~l~~d~~iIRnr~KI~Avi~NA---~~~l~i~~e~gsF~~ylw~f~~~~~i~~~~~~~~~~p~~t~~s~~isk~lkk~ 147 (179)
T PF03352_consen 71 IERLMQDPGIIRNRRKIRAVINNA---RAILKIQEEFGSFSDYLWSFVNGKPIVNHWRSPEDVPASTPLSEAISKDLKKR 147 (179)
T ss_dssp HHHHTTSTTSS--HHHHHHHHHHH---HHHHHHHHTTS-HHHHHHHCTTTS-EE---SSGGGS-S--HHHHHHHHHHHHT
T ss_pred HHHHhcCcchhhhHHHHHHHHHHH---HHHHHHHHhcCCHHHHHHhcCCCcCccccccccccCcCccHHHHHHHHHHHhC
Confidence 357788888888888887654322 23333333 367788999975 24466667779998
Q ss_pred CC---ceeeccc
Q psy8070 124 GV---KPILDYS 132 (173)
Q Consensus 124 Gv---g~ILdYa 132 (173)
|+ |+..-||
T Consensus 148 GF~FvGpt~vys 159 (179)
T PF03352_consen 148 GFKFVGPTTVYS 159 (179)
T ss_dssp T--S--HHHHHH
T ss_pred cceeECHHHHHH
Confidence 84 6654444
No 24
>TIGR02104 pulA_typeI pullulanase, type I. Pullulan is an unusual, industrially important polysaccharide in which short alpha-1,4 chains (maltotriose) are connected in alpha-1,6 linkages. Enzymes that cleave alpha-1,6 linkages in pullulan and release maltotriose are called pullulanases although pullulan itself may not be the natural substrate. This family consists of pullulanases related to the subfamilies described in TIGR02102 and TIGR02103 but having a different domain architecture with shorter sequences. Members are called type I pullulanases.
Probab=32.69 E-value=35 Score=32.49 Aligned_cols=25 Identities=20% Similarity=0.393 Sum_probs=22.3
Q ss_pred ChhhHHHHHHHHHhCCCceeecccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
..+|.+..|+++.+.||++|||...
T Consensus 227 ~~~efk~lV~~~H~~Gi~VilDvV~ 251 (605)
T TIGR02104 227 RIRELKQMIQALHENGIRVIMDVVY 251 (605)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEEEc
Confidence 4689999999999999999999554
No 25
>PRK05926 hypothetical protein; Provisional
Probab=32.52 E-value=61 Score=29.20 Aligned_cols=70 Identities=13% Similarity=0.143 Sum_probs=46.2
Q ss_pred HHHHhhccccc-CCChhhHHHHHHHHHhCCCce---eecccccccCChhHHHHHHHHhhhhHHhhhhhcccccceeeccc
Q psy8070 96 MKLTFYGHFVA-GEDQYKIVPVLKRLHSFGVKP---ILDYSVEEDISQEEAEKRELEASTSELEQTKEAAAITEDVALKC 171 (173)
Q Consensus 96 vk~TfY~qFca-GEt~~Ev~~ti~~L~~~Gvg~---ILdYavE~d~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 171 (173)
+-.+.+++||. +.+.+|-..+++.+++.|+.+ |+---.|. .+.-++....--+..+.++++.+||-+.|
T Consensus 191 ~~e~~r~~~~p~~~t~~e~l~~i~~a~~~Gi~~~sgmi~G~gEt-------~edrv~~l~~Lr~Lq~~t~gf~~fIp~~f 263 (370)
T PRK05926 191 LVDEIRETLAPGRLSSQGFLEIHKTAHSLGIPSNATMLCYHRET-------PEDIVTHMSKLRALQDKTSGFKNFILLKF 263 (370)
T ss_pred cCHHHHHhhCCCCCCHHHHHHHHHHHHHcCCcccCceEEeCCCC-------HHHHHHHHHHHHhcCCccCCeeeeEeccc
Confidence 34566777885 456788889999999999732 55334442 22234444444444577899999998877
Q ss_pred c
Q psy8070 172 L 172 (173)
Q Consensus 172 ~ 172 (173)
.
T Consensus 264 ~ 264 (370)
T PRK05926 264 A 264 (370)
T ss_pred C
Confidence 4
No 26
>PRK08105 flavodoxin; Provisional
Probab=32.16 E-value=34 Score=26.54 Aligned_cols=34 Identities=21% Similarity=0.208 Sum_probs=23.1
Q ss_pred HhhcccccCCChhhHHHHHHHHHhCCCceeecccccccCC
Q psy8070 99 TFYGHFVAGEDQYKIVPVLKRLHSFGVKPILDYSVEEDIS 138 (173)
Q Consensus 99 TfY~qFcaGEt~~Ev~~ti~~L~~~Gvg~ILdYavE~d~~ 138 (173)
+-|.+||+. .+..-++|++.|-..|.+- .|+|..
T Consensus 95 s~Y~~fc~~-----~~~ld~~l~~lGa~~v~~~-~~~D~~ 128 (149)
T PRK08105 95 SSYDNFCGA-----GKQFDALLQEQGAKRVGER-LEIDAC 128 (149)
T ss_pred CCHHHHHHH-----HHHHHHHHHHCCCeEeecc-EeeeCC
Confidence 346788877 6777777888887666643 455543
No 27
>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif). This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.
Probab=32.00 E-value=51 Score=17.59 Aligned_cols=27 Identities=7% Similarity=0.183 Sum_probs=20.9
Q ss_pred hhcccccCCChhhHHHHHHHHHhCCCc
Q psy8070 100 FYGHFVAGEDQYKIVPVLKRLHSFGVK 126 (173)
Q Consensus 100 fY~qFcaGEt~~Ev~~ti~~L~~~Gvg 126 (173)
+-.-||-....+++....++|++.|+.
T Consensus 6 li~~~~~~~~~~~a~~~~~~M~~~g~~ 32 (35)
T TIGR00756 6 LIDGLCKAGRVEEALELFKEMLERGIE 32 (35)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence 334457777889999999999998864
No 28
>TIGR02366 DHAK_reg probable dihydroxyacetone kinase regulator. The seed alignment for this family was built from a set of closely related uncharacterized proteins associated with operons for the type of bacterial dihydroxyacetone kinase that transfers PEP-derived phosphate from a phosphoprotein, as in phosphotransferase system transport, rather than from ATP. Members have a TetR transcriptional regulator domain (pfam00440) at the N-terminus and sequence homology throughout.
Probab=31.43 E-value=19 Score=27.61 Aligned_cols=21 Identities=43% Similarity=0.858 Sum_probs=13.9
Q ss_pred HHHHHHHhhcccccCCChhhHHHH
Q psy8070 93 AQVMKLTFYGHFVAGEDQYKIVPV 116 (173)
Q Consensus 93 ~~lvk~TfY~qFcaGEt~~Ev~~t 116 (173)
..+=|.|||.||= +.+|+...
T Consensus 33 AgvsR~TFY~hF~---dK~dLl~~ 53 (176)
T TIGR02366 33 AQIRRQTFYNHFQ---DKYELLTW 53 (176)
T ss_pred hCCCHHHHHHHCC---CHHHHHHH
Confidence 3456789999994 45555444
No 29
>COG2344 AT-rich DNA-binding protein [General function prediction only]
Probab=31.14 E-value=44 Score=28.24 Aligned_cols=23 Identities=35% Similarity=0.420 Sum_probs=18.8
Q ss_pred hhHHHHHHHHHhCCCceeecccc
Q psy8070 111 YKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 111 ~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
+..|++.++|-+.||++||+++=
T Consensus 157 ~~AQ~vad~Lv~aGVkGIlNFtP 179 (211)
T COG2344 157 EHAQEVADRLVKAGVKGILNFTP 179 (211)
T ss_pred HHHHHHHHHHHHcCCceEEeccc
Confidence 56777888888899999998874
No 30
>PRK10785 maltodextrin glucosidase; Provisional
Probab=30.49 E-value=44 Score=31.84 Aligned_cols=26 Identities=31% Similarity=0.445 Sum_probs=0.0
Q ss_pred cccccCCChhhHHHHHHHHHhCCCcee
Q psy8070 102 GHFVAGEDQYKIVPVLKRLHSFGVKPI 128 (173)
Q Consensus 102 ~qFcaGEt~~Ev~~ti~~L~~~Gvg~I 128 (173)
..|||| +.+.+...+..|+++||.+|
T Consensus 171 ~~f~GG-Dl~GI~~kLdYL~~LGv~~I 196 (598)
T PRK10785 171 STFYGG-DLDGISEKLPYLKKLGVTAL 196 (598)
T ss_pred ccccCc-CHHHHHHHHHHHHHcCCCEE
No 31
>PRK12313 glycogen branching enzyme; Provisional
Probab=29.81 E-value=44 Score=31.99 Aligned_cols=25 Identities=24% Similarity=0.381 Sum_probs=22.6
Q ss_pred ChhhHHHHHHHHHhCCCceeecccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
|.+|.+..|+++.+.||++|||...
T Consensus 218 t~~d~k~lv~~~H~~Gi~VilD~V~ 242 (633)
T PRK12313 218 TPEDFMYLVDALHQNGIGVILDWVP 242 (633)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEECC
Confidence 4789999999999999999999654
No 32
>KOG2672|consensus
Probab=28.88 E-value=52 Score=29.58 Aligned_cols=23 Identities=30% Similarity=0.287 Sum_probs=20.4
Q ss_pred ccCCChhhHHHHHHHHHhCCCce
Q psy8070 105 VAGEDQYKIVPVLKRLHSFGVKP 127 (173)
Q Consensus 105 caGEt~~Ev~~ti~~L~~~Gvg~ 127 (173)
-.|||.+|+..+++.|+..++-+
T Consensus 265 glgetdeei~~tl~dLr~~~vdv 287 (360)
T KOG2672|consen 265 GLGETDEEIKQTLKDLRAADVDV 287 (360)
T ss_pred ccCCCHHHHHHHHHHHHHcCCcE
Confidence 35999999999999999999754
No 33
>PLN00196 alpha-amylase; Provisional
Probab=28.48 E-value=50 Score=30.41 Aligned_cols=26 Identities=19% Similarity=0.443 Sum_probs=23.3
Q ss_pred ChhhHHHHHHHHHhCCCceeeccccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSVE 134 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYavE 134 (173)
|.+|.+..|+++++.||++|+|...-
T Consensus 90 t~~elk~Lv~~aH~~GIkVilDvV~N 115 (428)
T PLN00196 90 NEAQLKSLIEAFHGKGVQVIADIVIN 115 (428)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEECcc
Confidence 67999999999999999999997553
No 34
>PRK05481 lipoyl synthase; Provisional
Probab=28.44 E-value=58 Score=28.15 Aligned_cols=27 Identities=30% Similarity=0.452 Sum_probs=20.8
Q ss_pred CCChhhHHHHHHHHHhCCC--ceeecccc
Q psy8070 107 GEDQYKIVPVLKRLHSFGV--KPILDYSV 133 (173)
Q Consensus 107 GEt~~Ev~~ti~~L~~~Gv--g~ILdYav 133 (173)
|||.+|...+++.|++.|+ -.|.-|+.
T Consensus 207 GET~ed~~~tl~~lrel~~d~v~if~Ys~ 235 (289)
T PRK05481 207 GETDEEVLEVMDDLRAAGVDILTIGQYLQ 235 (289)
T ss_pred CCCHHHHHHHHHHHHhcCCCEEEEEccCC
Confidence 8888888888888888886 34777776
No 35
>PRK12928 lipoyl synthase; Provisional
Probab=28.25 E-value=54 Score=28.48 Aligned_cols=27 Identities=26% Similarity=0.458 Sum_probs=23.4
Q ss_pred CCChhhHHHHHHHHHhCCC--ceeecccc
Q psy8070 107 GEDQYKIVPVLKRLHSFGV--KPILDYSV 133 (173)
Q Consensus 107 GEt~~Ev~~ti~~L~~~Gv--g~ILdYav 133 (173)
|||.+|+..+++.|++.|+ -.|..|..
T Consensus 215 GET~ed~~etl~~Lrel~~d~v~i~~Yl~ 243 (290)
T PRK12928 215 GETEDEVIETLRDLRAVGCDRLTIGQYLR 243 (290)
T ss_pred CCCHHHHHHHHHHHHhcCCCEEEEEcCCC
Confidence 9999999999999999997 33667765
No 36
>TIGR02491 NrdG anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055) and utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin ) to produce a glycine-centered radical in the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487). The two components form an alpha-2/beta-2 heterodimer.
Probab=26.92 E-value=48 Score=25.75 Aligned_cols=31 Identities=13% Similarity=0.247 Sum_probs=23.8
Q ss_pred ccccCCCh-----hhHHHHHHHHHhC-CCceeecccc
Q psy8070 103 HFVAGEDQ-----YKIVPVLKRLHSF-GVKPILDYSV 133 (173)
Q Consensus 103 qFcaGEt~-----~Ev~~ti~~L~~~-Gvg~ILdYav 133 (173)
-|.|||=. +++.+.++.+++. |+.++++|+=
T Consensus 68 t~sGGEPllq~~~~~l~~ll~~~k~~~~~~~~~~~tG 104 (154)
T TIGR02491 68 TLSGGDPLYPRNVEELIELVKKIKAEFPEKDIWLWTG 104 (154)
T ss_pred EEeChhhCCCCCHHHHHHHHHHHHHhCCCCCEEEeeC
Confidence 47999954 6889999999976 6877776643
No 37
>PLN02428 lipoic acid synthase
Probab=26.86 E-value=61 Score=29.27 Aligned_cols=19 Identities=32% Similarity=0.580 Sum_probs=18.4
Q ss_pred CCChhhHHHHHHHHHhCCC
Q psy8070 107 GEDQYKIVPVLKRLHSFGV 125 (173)
Q Consensus 107 GEt~~Ev~~ti~~L~~~Gv 125 (173)
|||.+|+..+++.|++.|+
T Consensus 258 GET~Edv~e~l~~Lrelgv 276 (349)
T PLN02428 258 GETDEEVVQTMEDLRAAGV 276 (349)
T ss_pred CCCHHHHHHHHHHHHHcCC
Confidence 8999999999999999996
No 38
>TIGR01515 branching_enzym alpha-1,4-glucan:alpha-1,4-glucan 6-glycosyltransferase. A sequence from Arabidopsis thaliana, GP|9294564, scores just above trusted, but appears either to contain corrupt sequence or, more likely, to be a pseudogene as some of the conserved catalytic residues common to the alpha amylase family are not conserved here.
Probab=26.80 E-value=54 Score=31.38 Aligned_cols=26 Identities=19% Similarity=0.273 Sum_probs=23.1
Q ss_pred ChhhHHHHHHHHHhCCCceeeccccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSVE 134 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYavE 134 (173)
|++|.+..|+++.+.||++|||...-
T Consensus 204 t~~dlk~lV~~~H~~Gi~VilD~V~N 229 (613)
T TIGR01515 204 TPDDFMYFVDACHQAGIGVILDWVPG 229 (613)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEeccc
Confidence 47899999999999999999996653
No 39
>PF00106 adh_short: short chain dehydrogenase alcohol dehydrogenase superfamily signature glucose/ribitol dehydrogenase family signature; InterPro: IPR002198 The short-chain dehydrogenases/reductases family (SDR) [] is a very large family of enzymes, most of which are known to be NAD- or NADP-dependent oxidoreductases. As the first member of this family to be characterised was Drosophila alcohol dehydrogenase, this family used to be called [, , ] 'insect-type', or 'short-chain' alcohol dehydrogenases. Most member of this family are proteins of about 250 to 300 amino acid residues. Most dehydrogenases possess at least 2 domains [], the first binding the coenzyme, often NAD, and the second binding the substrate. This latter domain determines the substrate specificity and contains amino acids involved in catalysis. Little sequence similarity has been found in the coenzyme binding domain although there is a large degree of structural similarity, and it has therefore been suggested that the structure of dehydrogenases has arisen through gene fusion of a common ancestral coenzyme nucleotide sequence with various substrate specific domains [].; GO: 0016491 oxidoreductase activity, 0008152 metabolic process; PDB: 3QWI_D 3QWF_G 3IS3_A 3QWH_C 3ITD_A 3L77_A 1HDC_C 2HSD_C 3KVO_A 3KZV_A ....
Probab=26.56 E-value=2e+02 Score=21.16 Aligned_cols=61 Identities=15% Similarity=0.169 Sum_probs=37.8
Q ss_pred hhHHHHHHHHHHhhcccccCCC--hhhHHHHHHHHHhCCCceeecccccccCChhHHHHHHHHhhh
Q psy8070 88 GQKMFAQVMKLTFYGHFVAGED--QYKIVPVLKRLHSFGVKPILDYSVEEDISQEEAEKRELEAST 151 (173)
Q Consensus 88 g~~l~~~lvk~TfY~qFcaGEt--~~Ev~~ti~~L~~~Gvg~ILdYavE~d~~~~e~~~~~~~~~~ 151 (173)
|..+.+.++++--+.-...+.+ .+.....+++|+..| ..+. ..+.|..+.+..+...+...
T Consensus 13 G~~~a~~l~~~g~~~v~~~~r~~~~~~~~~l~~~l~~~~-~~~~--~~~~D~~~~~~~~~~~~~~~ 75 (167)
T PF00106_consen 13 GRALARALARRGARVVILTSRSEDSEGAQELIQELKAPG-AKIT--FIECDLSDPESIRALIEEVI 75 (167)
T ss_dssp HHHHHHHHHHTTTEEEEEEESSCHHHHHHHHHHHHHHTT-SEEE--EEESETTSHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCceEEEEeeecccccccccccccccccc-cccc--cccccccccccccccccccc
Confidence 4555666777645555555666 777777788888777 3333 23356677776666665554
No 40
>PRK09505 malS alpha-amylase; Reviewed
Probab=26.14 E-value=59 Score=31.87 Aligned_cols=25 Identities=28% Similarity=0.484 Sum_probs=21.6
Q ss_pred cccCCChhhHHHHHHHHHhCCCceee
Q psy8070 104 FVAGEDQYKIVPVLKRLHSFGVKPIL 129 (173)
Q Consensus 104 FcaGEt~~Ev~~ti~~L~~~Gvg~IL 129 (173)
|||| +...+.+.+..|+++||.+|.
T Consensus 224 f~GG-dl~Gi~~kLdyl~~LGv~aIw 248 (683)
T PRK09505 224 FHGG-DLRGLTEKLDYLQQLGVNALW 248 (683)
T ss_pred ccCC-CHHHHHHhhHHHHHcCCCEEE
Confidence 6777 889999999999999997763
No 41
>KOG0033|consensus
Probab=26.11 E-value=49 Score=29.53 Aligned_cols=78 Identities=15% Similarity=0.203 Sum_probs=63.9
Q ss_pred HhccCCHHHHHHHHHHHHhhCchHhhhhhHHHHHHHH------HhhhhHHHHHHHHHHhhcccccCCChhhHHHHHHHHH
Q psy8070 48 AFKSKTTWEVLRAYIVYQLCSSSFLVDNNMKLMKVGK------AILGQKMFAQVMKLTFYGHFVAGEDQYKIVPVLKRLH 121 (173)
Q Consensus 48 af~~kst~eLlRs~lv~~l~s~p~LV~~~~~ll~~~~------~~~g~~l~~~lvk~TfY~qFcaGEt~~Ev~~ti~~L~ 121 (173)
-|+...+.+|-|-..+-++...|-+|..-..+-.-.. .+-|..++.-||++-||.-..+-.-..++...++-..
T Consensus 48 k~~~~~~e~l~rEarIC~~LqHP~IvrL~~ti~~~~~~ylvFe~m~G~dl~~eIV~R~~ySEa~aSH~~rQiLeal~yCH 127 (355)
T KOG0033|consen 48 KLSARDFQKLEREARICRKLQHPNIVRLHDSIQEESFHYLVFDLVTGGELFEDIVAREFYSEADASHCIQQILEALAYCH 127 (355)
T ss_pred hhccccHHHHHHHHHHHHhcCCCcEeehhhhhcccceeEEEEecccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5777799999999999999999999988776654221 1236678888999999999999888889999988888
Q ss_pred hCCC
Q psy8070 122 SFGV 125 (173)
Q Consensus 122 ~~Gv 125 (173)
..||
T Consensus 128 ~n~I 131 (355)
T KOG0033|consen 128 SNGI 131 (355)
T ss_pred hcCc
Confidence 8775
No 42
>PRK05402 glycogen branching enzyme; Provisional
Probab=25.58 E-value=58 Score=31.86 Aligned_cols=25 Identities=20% Similarity=0.247 Sum_probs=22.6
Q ss_pred ChhhHHHHHHHHHhCCCceeecccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
|++|.+..|+++.+.||++|||...
T Consensus 313 t~~dfk~lV~~~H~~Gi~VilD~V~ 337 (726)
T PRK05402 313 TPDDFRYFVDACHQAGIGVILDWVP 337 (726)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEECC
Confidence 5899999999999999999999544
No 43
>TIGR02402 trehalose_TreZ malto-oligosyltrehalose trehalohydrolase. Members of this family are the trehalose biosynthetic enzyme malto-oligosyltrehalose trehalohydrolase, formally known as 4-alpha-D-{(1-4)-alpha-D-glucano}trehalose trehalohydrolase (EC 3.2.1.141). It is the TreZ protein of the TreYZ pathway for trehalose biosynthesis, and alternative to the OtsAB system.
Probab=25.55 E-value=59 Score=30.70 Aligned_cols=25 Identities=20% Similarity=0.331 Sum_probs=22.2
Q ss_pred ChhhHHHHHHHHHhCCCceeecccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
|++|.+..|+.+.+.||++|||...
T Consensus 158 ~~~e~k~lV~~aH~~Gi~VilD~V~ 182 (542)
T TIGR02402 158 GPDDLKALVDAAHGLGLGVILDVVY 182 (542)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEEcc
Confidence 5789999999999999999999543
No 44
>PF02629 CoA_binding: CoA binding domain; InterPro: IPR003781 This domain has a Rossmann fold and is found in a number of proteins including succinyl CoA synthetases, malate and ATP-citrate ligases.; GO: 0005488 binding; PDB: 3IL2_B 3IKT_A 3IKV_B 2SCU_D 1JKJ_D 2NU7_A 1CQI_A 1JLL_A 2NU8_D 1SCU_D ....
Probab=25.51 E-value=72 Score=22.59 Aligned_cols=23 Identities=22% Similarity=0.332 Sum_probs=19.3
Q ss_pred hhhHHHHHHHHHhCCCceeeccc
Q psy8070 110 QYKIVPVLKRLHSFGVKPILDYS 132 (173)
Q Consensus 110 ~~Ev~~ti~~L~~~Gvg~ILdYa 132 (173)
.+.+++.+.+|-+.||+.|++|+
T Consensus 72 ~~~a~~~~~~~~~~gIk~i~nft 94 (96)
T PF02629_consen 72 AEAAQEVADELVEAGIKGIVNFT 94 (96)
T ss_dssp HHHHHHHHHHHHHTT-SEEEEES
T ss_pred HHHHHHHHHHHHHcCCCEEEEeC
Confidence 47788999999999999999886
No 45
>TIGR03551 F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit. This enzyme, together with CofG, complete the biosynthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, the chromophore of coenzyme F420. The chromophore is also used in cyanobacteria DNA photolyases.
Probab=25.32 E-value=2.2e+02 Score=24.93 Aligned_cols=29 Identities=10% Similarity=0.232 Sum_probs=24.3
Q ss_pred HHHhhcccccCC-ChhhHHHHHHHHHhCCC
Q psy8070 97 KLTFYGHFVAGE-DQYKIVPVLKRLHSFGV 125 (173)
Q Consensus 97 k~TfY~qFcaGE-t~~Ev~~ti~~L~~~Gv 125 (173)
....+++.|.|. +.++...+++.+++.|+
T Consensus 164 ~~~v~~~i~~~~~~~~~~~~~i~~a~~~Gi 193 (343)
T TIGR03551 164 DDEVRKVICPDKLSTAEWIEIIKTAHKLGI 193 (343)
T ss_pred CHHHHHhcCCCCCCHHHHHHHHHHHHHcCC
Confidence 345666789876 89999999999999997
No 46
>PRK09441 cytoplasmic alpha-amylase; Reviewed
Probab=25.25 E-value=61 Score=29.77 Aligned_cols=26 Identities=19% Similarity=0.362 Sum_probs=23.5
Q ss_pred ChhhHHHHHHHHHhCCCceeeccccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSVE 134 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYavE 134 (173)
|.+|.+..|+++.+.||++|||-..=
T Consensus 79 t~~dl~~Li~~~H~~Gi~vi~D~V~N 104 (479)
T PRK09441 79 TKEELLNAIDALHENGIKVYADVVLN 104 (479)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEECcc
Confidence 78899999999999999999997654
No 47
>PLN02361 alpha-amylase
Probab=24.84 E-value=63 Score=29.55 Aligned_cols=26 Identities=12% Similarity=0.442 Sum_probs=23.2
Q ss_pred ChhhHHHHHHHHHhCCCceeeccccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSVE 134 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYavE 134 (173)
|.+|.+..|+++++.||++|+|.-+-
T Consensus 74 t~~el~~li~~~h~~gi~vi~D~V~N 99 (401)
T PLN02361 74 SEHLLKSLLRKMKQYNVRAMADIVIN 99 (401)
T ss_pred CHHHHHHHHHHHHHcCCEEEEEEccc
Confidence 67899999999999999999987653
No 48
>PF02885 Glycos_trans_3N: Glycosyl transferase family, helical bundle domain Prosite entry for Thymidine and pyrimidine-nucleoside phosphorylases; InterPro: IPR017459 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. The glycosyl transferase family includes anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase (2.4.2.2 from EC) catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism. This N-terminal domain is found in various family 3 glycosyl transferases, including anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism.; PDB: 2DSJ_B 2ELC_B 2BPQ_A 1ZVW_B 3QR9_B 1V8G_B 2WK5_C 2J0F_C 2WK6_B 1UOU_A ....
Probab=24.79 E-value=64 Score=21.54 Aligned_cols=20 Identities=20% Similarity=0.297 Sum_probs=14.3
Q ss_pred ccCCChhhHHHHHHHHHhCC
Q psy8070 105 VAGEDQYKIVPVLKRLHSFG 124 (173)
Q Consensus 105 caGEt~~Ev~~ti~~L~~~G 124 (173)
.=|||.+|+....+.|++.+
T Consensus 46 ~kget~~Eiag~~~am~~~a 65 (66)
T PF02885_consen 46 MKGETPEEIAGFAKAMREHA 65 (66)
T ss_dssp HH---HHHHHHHHHHHHHTS
T ss_pred HhCcCHHHHHHHHHHHHHhc
Confidence 34899999999999998865
No 49
>PRK05723 flavodoxin; Provisional
Probab=23.83 E-value=63 Score=25.25 Aligned_cols=34 Identities=21% Similarity=0.334 Sum_probs=24.0
Q ss_pred Hhh-cccccCCChhhHHHHHHHHHhCCCceeecccccccCC
Q psy8070 99 TFY-GHFVAGEDQYKIVPVLKRLHSFGVKPILDYSVEEDIS 138 (173)
Q Consensus 99 TfY-~qFcaGEt~~Ev~~ti~~L~~~Gvg~ILdYavE~d~~ 138 (173)
+-| .+||+. .+..-++|.+.|-..|.+- .|+|.+
T Consensus 95 s~Y~~~Fc~a-----~~~ld~~L~~lGA~rv~~~-~~~D~~ 129 (151)
T PRK05723 95 SSYGDTFCGG-----GEQMRELFAELGVREVQPM-LRLDAS 129 (151)
T ss_pred CcchHHHhHH-----HHHHHHHHHHCCCcEeecc-EEeecC
Confidence 456 789987 7777788999998777664 344433
No 50
>PF13812 PPR_3: Pentatricopeptide repeat domain
Probab=23.49 E-value=83 Score=16.97 Aligned_cols=24 Identities=17% Similarity=0.263 Sum_probs=18.2
Q ss_pred ccccCCChhhHHHHHHHHHhCCCc
Q psy8070 103 HFVAGEDQYKIVPVLKRLHSFGVK 126 (173)
Q Consensus 103 qFcaGEt~~Ev~~ti~~L~~~Gvg 126 (173)
.|+...+.+++....+.|++.||.
T Consensus 10 a~~~~g~~~~a~~~~~~M~~~gv~ 33 (34)
T PF13812_consen 10 ACAKAGDPDAALQLFDEMKEQGVK 33 (34)
T ss_pred HHHHCCCHHHHHHHHHHHHHhCCC
Confidence 345556778889999999988874
No 51
>PLN03244 alpha-amylase; Provisional
Probab=23.44 E-value=67 Score=32.53 Aligned_cols=24 Identities=17% Similarity=0.281 Sum_probs=22.0
Q ss_pred ChhhHHHHHHHHHhCCCceeeccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYS 132 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYa 132 (173)
+++|.+..|+++.++||++|||--
T Consensus 439 TPeDLK~LVD~aH~~GI~VILDvV 462 (872)
T PLN03244 439 TPDDFKRLVDEAHGLGLLVFLDIV 462 (872)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEec
Confidence 599999999999999999999943
No 52
>PRK14706 glycogen branching enzyme; Provisional
Probab=23.43 E-value=68 Score=31.13 Aligned_cols=26 Identities=23% Similarity=0.401 Sum_probs=23.3
Q ss_pred ChhhHHHHHHHHHhCCCceeeccccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSVE 134 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYavE 134 (173)
+++|.+..|+++.+.||++|||...-
T Consensus 215 ~~~~~~~lv~~~H~~gi~VilD~v~n 240 (639)
T PRK14706 215 TPEDFKYLVNHLHGLGIGVILDWVPG 240 (639)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEeccc
Confidence 58999999999999999999996553
No 53
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=23.21 E-value=2.6e+02 Score=21.95 Aligned_cols=37 Identities=16% Similarity=0.275 Sum_probs=28.5
Q ss_pred hhhHHHHHHHHHH---hhcccccCCChhhHHHHHHHHHhC
Q psy8070 87 LGQKMFAQVMKLT---FYGHFVAGEDQYKIVPVLKRLHSF 123 (173)
Q Consensus 87 ~g~~l~~~lvk~T---fY~qFcaGEt~~Ev~~ti~~L~~~ 123 (173)
.|..++..+++.. =+++|.-|.+++.+.+..++|++.
T Consensus 30 ~g~dl~~~ll~~~~~~~~~v~llG~~~~~~~~~~~~l~~~ 69 (171)
T cd06533 30 TGSDLMPALLELAAQKGLRVFLLGAKPEVLEKAAERLRAR 69 (171)
T ss_pred CcHHHHHHHHHHHHHcCCeEEEECCCHHHHHHHHHHHHHH
Confidence 3445555555543 488999999999999999999986
No 54
>cd04450 DEP_RGS7-like DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in RGS (regulator of G-protein signaling) proteins of the subfamily R7. This subgroup contains RGS7, RGS6, RGS9 and RGS11. They share a common domain architecture, containing, beside the RGS domain, a DEP domain and a GGL (G-protein gamma subunit-like ) domain. RGS proteins are GTPase-activating (GAP) proteins of heterotrimeric G proteins by increasing the rate of GTP hydrolysis of the alpha subunit. The fungal homologs, like yeast Sst2, share a related common domain architecture, containing RGS and DEP domains. Sst2 has been identified as the principal regulator of mating pheromone signaling and recently the DEP domain of Sst2 has been shown to be necessary and sufficient to mediate receptor interaction.
Probab=23.21 E-value=1.5e+02 Score=20.97 Aligned_cols=38 Identities=18% Similarity=0.342 Sum_probs=30.9
Q ss_pred hhhHHHHHHHHHHhhcccccCCChhhHHHHHHHHHhCCC-ceeec
Q psy8070 87 LGQKMFAQVMKLTFYGHFVAGEDQYKIVPVLKRLHSFGV-KPILD 130 (173)
Q Consensus 87 ~g~~l~~~lvk~TfY~qFcaGEt~~Ev~~ti~~L~~~Gv-g~ILd 130 (173)
.|..++.|+|.++ -..+.+|+....+.|-+.|+ ..+.+
T Consensus 30 ~G~~~v~WL~~~~------~~~~~~EA~~~~~~ll~~gli~~V~~ 68 (88)
T cd04450 30 TGKAIVQWLMDCT------DVVDPSEALEIAALFVKYGLITPVSD 68 (88)
T ss_pred EhHHHHHHHHHCC------CCCCHHHHHHHHHHHHHCCCEEEecC
Confidence 4778899999853 24899999999999999995 66664
No 55
>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]
Probab=22.83 E-value=49 Score=30.01 Aligned_cols=34 Identities=29% Similarity=0.284 Sum_probs=26.6
Q ss_pred ccccCCChhhHHHHHHHHHhCCCceeeccccccc
Q psy8070 103 HFVAGEDQYKIVPVLKRLHSFGVKPILDYSVEED 136 (173)
Q Consensus 103 qFcaGEt~~Ev~~ti~~L~~~Gvg~ILdYavE~d 136 (173)
+|.+-+........+++|++.|+++|+.++.|..
T Consensus 150 ~~~~~~~~~s~~E~l~~Lk~aGldsmpg~~aeil 183 (370)
T COG1060 150 LFLAREGGLSYEEVLKRLKEAGLDSMPGGGAEIL 183 (370)
T ss_pred HHHHhccCCCHHHHHHHHHHcCCCcCcCcceeec
Confidence 3455555566677788899999999999999974
No 56
>PRK12568 glycogen branching enzyme; Provisional
Probab=21.81 E-value=76 Score=31.50 Aligned_cols=25 Identities=20% Similarity=0.304 Sum_probs=22.6
Q ss_pred ChhhHHHHHHHHHhCCCceeecccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
+++|.+..|+++.+.||++|||.-.
T Consensus 317 ~~~dfk~lV~~~H~~Gi~VIlD~V~ 341 (730)
T PRK12568 317 SPDGFAQFVDACHRAGIGVILDWVS 341 (730)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEecc
Confidence 5899999999999999999999654
No 57
>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein. Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.
Probab=21.73 E-value=76 Score=24.78 Aligned_cols=28 Identities=29% Similarity=0.387 Sum_probs=21.3
Q ss_pred cccccCCCh-hhHHHHHHHHHhCCCceee
Q psy8070 102 GHFVAGEDQ-YKIVPVLKRLHSFGVKPIL 129 (173)
Q Consensus 102 ~qFcaGEt~-~Ev~~ti~~L~~~Gvg~IL 129 (173)
=-|.|||-. +++.+.++.+++.|+...+
T Consensus 65 Vt~SGGEl~~~~l~~ll~~lk~~Gl~i~l 93 (147)
T TIGR02826 65 VLFLGGEWNREALLSLLKIFKEKGLKTCL 93 (147)
T ss_pred EEEechhcCHHHHHHHHHHHHHCCCCEEE
Confidence 357999933 4588999999999986644
No 58
>PF15182 OTOS: Otospiralin
Probab=21.72 E-value=51 Score=23.06 Aligned_cols=18 Identities=28% Similarity=0.704 Sum_probs=13.6
Q ss_pred HHHHHHHHhhcccccCCCh
Q psy8070 92 FAQVMKLTFYGHFVAGEDQ 110 (173)
Q Consensus 92 ~~~lvk~TfY~qFcaGEt~ 110 (173)
++-+-| |||.||--|.|.
T Consensus 43 indmAR-tfFAh~plG~tL 60 (69)
T PF15182_consen 43 INDMAR-TFFAHFPLGDTL 60 (69)
T ss_pred HHHHHH-HHHhhCcccccc
Confidence 455444 999999999874
No 59
>cd04371 DEP DEP domain, named after Dishevelled, Egl-10, and Pleckstrin, where this domain was first discovered. The function of this domain is still not clear, but it is believed to be important for the membrane association of the signaling proteins in which it is present. New studies show that the DEP domain of Sst2, a yeast RGS protein is necessary and sufficient for receptor interaction.
Probab=21.57 E-value=1.6e+02 Score=19.69 Aligned_cols=38 Identities=13% Similarity=0.155 Sum_probs=30.1
Q ss_pred hhhHHHHHHHHHHhhcccccCCChhhHHHHHHHHHhCCC-ceeec
Q psy8070 87 LGQKMFAQVMKLTFYGHFVAGEDQYKIVPVLKRLHSFGV-KPILD 130 (173)
Q Consensus 87 ~g~~l~~~lvk~TfY~qFcaGEt~~Ev~~ti~~L~~~Gv-g~ILd 130 (173)
.|..++.|++...- ..+.+|+....+.|-+.|+ ..+.+
T Consensus 30 ~G~e~v~WL~~~~~------~~~r~ea~~~~~~ll~~g~i~~v~~ 68 (81)
T cd04371 30 TGSELVDWLLDNLE------AITREEAVELGQALLKHGLIHHVSD 68 (81)
T ss_pred EcHHHHHHHHHhCC------CCCHHHHHHHHHHHHHCCCEEEeCC
Confidence 47788999998653 2899999999999999995 55543
No 60
>PF12404 DUF3663: Peptidase ; InterPro: IPR008330 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 family represents the peptidase B group of leucyl aminopeptidases, which are restricted to the gammaproteobacteria. They contain a C-terminal aminopeptidase catalytic domain and an N-terminal domain of unknown function. They are zinc-dependent exopeptidases (3.4.11.1 from EC) and belong to MEROPS peptidase family M17 (leucyl aminopeptidase family, clan MF). They selectively release N-terminal amino acid residues from polypeptides and proteins and are involved in the processing, catabolism and degradation of intracellular proteins [, , ]. Leucyl aminopeptidase forms a homohexamer containing two trimers stacked on top of one another []. Each monomer binds two zinc ions. The zinc-binding and catalytic sites are located within the C-terminal catalytic domain []. The same catalytic aminopeptidase domain is found in the other M17 peptidases IPR011356 from INTERPRO. These two groups of aminopeptidases differ by their N-terminal domains. The N-terminal domain in members of IPR011356 from INTERPRO has been implicated in DNA binding [, ] and it is not associated with members of this family which have a different N-terminal domain and therefore are not expected to bind DNA or be involved in transcriptional regulation. In addition, there are related proteins with the same catalytic domain and unique N-terminal sequences unrelated to any of the two N-terminal domains discussed above. For additional information please see [, , , ]. ; GO: 0004177 aminopeptidase activity, 0008235 metalloexopeptidase activity, 0030145 manganese ion binding, 0005737 cytoplasm
Probab=21.28 E-value=1e+02 Score=22.11 Aligned_cols=27 Identities=26% Similarity=0.444 Sum_probs=23.2
Q ss_pred cccccCCChhhHHHHHHHHHhCCCcee
Q psy8070 102 GHFVAGEDQYKIVPVLKRLHSFGVKPI 128 (173)
Q Consensus 102 ~qFcaGEt~~Ev~~ti~~L~~~Gvg~I 128 (173)
-|.-+++....|++..++|...||..+
T Consensus 29 IHl~~~~~l~~IQrAaRkLd~qGI~~V 55 (77)
T PF12404_consen 29 IHLSEGDDLRAIQRAARKLDGQGIKNV 55 (77)
T ss_pred EEECCCcchHHHHHHHHHHhhCCCceE
Confidence 366788999999999999999999654
No 61
>TIGR02456 treS_nterm trehalose synthase. Trehalose synthase interconverts maltose and alpha, alpha-trehalose by transglucosylation. This is one of at least three mechanisms for biosynthesis of trehalose, an important and widespread compatible solute. However, it is not driven by phosphate activation of sugars and its physiological role may tend toward trehalose degradation. This view is accentuated by numerous examples of fusion to a probable maltokinase domain. The sequence region described by this model is found both as the whole of a trehalose synthase and as the N-terminal region of a larger fusion protein that includes trehalose synthase activity. Several of these fused trehalose synthases have a domain homologous to proteins with maltokinase activity from Actinoplanes missouriensis and Streptomyces coelicolor (PubMed:15378530).
Probab=20.99 E-value=82 Score=29.49 Aligned_cols=27 Identities=15% Similarity=0.281 Sum_probs=24.2
Q ss_pred ChhhHHHHHHHHHhCCCceeecccccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSVEE 135 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYavE~ 135 (173)
|.++.+..|+++++.||+.|||...--
T Consensus 74 t~~df~~Lv~~ah~~Gi~vilD~V~NH 100 (539)
T TIGR02456 74 TIDDFKDFVDEAHARGMRVIIDLVLNH 100 (539)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEeccCc
Confidence 568999999999999999999987754
No 62
>PRK06256 biotin synthase; Validated
Probab=20.88 E-value=1.3e+02 Score=25.91 Aligned_cols=34 Identities=9% Similarity=0.213 Sum_probs=28.0
Q ss_pred HHhhcccccCCChhhHHHHHHHHHhCCC----ceeecc
Q psy8070 98 LTFYGHFVAGEDQYKIVPVLKRLHSFGV----KPILDY 131 (173)
Q Consensus 98 ~TfY~qFcaGEt~~Ev~~ti~~L~~~Gv----g~ILdY 131 (173)
..+|+..|.+.+.++...+++.+++.|+ +.|+..
T Consensus 174 ~~~~~~i~~~~t~~~~i~~i~~a~~~Gi~v~~~~I~Gl 211 (336)
T PRK06256 174 RSYFPNVVTTHTYEDRIDTCEMVKAAGIEPCSGGIIGM 211 (336)
T ss_pred HHHHhhcCCCCCHHHHHHHHHHHHHcCCeeccCeEEeC
Confidence 3578889999999999999999999996 345554
No 63
>PLN02447 1,4-alpha-glucan-branching enzyme
Probab=20.88 E-value=81 Score=31.47 Aligned_cols=25 Identities=16% Similarity=0.373 Sum_probs=22.7
Q ss_pred ChhhHHHHHHHHHhCCCceeecccc
Q psy8070 109 DQYKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 109 t~~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
|++|.+..|+++.+.||++|||.-.
T Consensus 298 tp~dlk~LVd~aH~~GI~VilDvV~ 322 (758)
T PLN02447 298 TPEDLKYLIDKAHSLGLRVLMDVVH 322 (758)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEecc
Confidence 5799999999999999999999654
No 64
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=20.78 E-value=1e+02 Score=20.64 Aligned_cols=25 Identities=24% Similarity=0.252 Sum_probs=20.7
Q ss_pred CChhhHHHHHHHHHhCCCceeeccc
Q psy8070 108 EDQYKIVPVLKRLHSFGVKPILDYS 132 (173)
Q Consensus 108 Et~~Ev~~ti~~L~~~Gvg~ILdYa 132 (173)
+..+++....+.|++.|+.+.+||.
T Consensus 12 ~~~~~a~~~~~~Lr~~g~~v~~d~~ 36 (91)
T cd00860 12 EHLDYAKEVAKKLSDAGIRVEVDLR 36 (91)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEECC
Confidence 4557888888999999999988885
No 65
>COG0502 BioB Biotin synthase and related enzymes [Coenzyme metabolism]
Probab=20.74 E-value=1.2e+02 Score=27.46 Aligned_cols=35 Identities=14% Similarity=0.289 Sum_probs=31.1
Q ss_pred HHHhhcccccCCChhhHHHHHHHHHhCCC----ceeecc
Q psy8070 97 KLTFYGHFVAGEDQYKIVPVLKRLHSFGV----KPILDY 131 (173)
Q Consensus 97 k~TfY~qFcaGEt~~Ev~~ti~~L~~~Gv----g~ILdY 131 (173)
...||+.-|-|.+-+|-..|++.+++.|+ |.|+.-
T Consensus 165 s~~~y~~I~tt~t~edR~~tl~~vk~~Gi~vcsGgI~Gl 203 (335)
T COG0502 165 SPEFYENIITTRTYEDRLNTLENVREAGIEVCSGGIVGL 203 (335)
T ss_pred CHHHHcccCCCCCHHHHHHHHHHHHHcCCccccceEecC
Confidence 45899999999999999999999999996 678743
No 66
>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat. Pentatricopeptide repeat (PPR) proteins are characterised by tandem repeats of a degenerate 35 amino acid motif []. Most of PPR proteins have roles in mitochondria or plastid []. PPR repeats were discovered while screening Arabidopsis proteins for those predicted to be targeted to mitochondria or chloroplast [, ]. Some of these proteins have been shown to play a role in post-transcriptional processes within organelles and they are thought to be sequence-specific RNA-binding proteins [, , ]. Plant genomes have between one hundred to five hundred PPR genes per genome whereas non-plant genomes encode two to six PPR proteins. Although no PPR structures are yet known, the motif is predicted to fold into a helix-turn-helix structure similar to those found in the tetratricopeptide repeat (TPR) family (see PDOC50005 from PROSITEDOC) []. The plant PPR protein family has been divided in two subfamilies on the basis of their motif content and organisation [, ]. Examples of PPR repeat-containing proteins include PET309 P32522 from SWISSPROT, which may be involved in RNA stabilisation [], and crp1, which is involved in RNA processing []. The repeat is associated with a predicted plant protein O49549 from SWISSPROT that has a domain organisation similar to the human BRCA1 protein.
Probab=20.60 E-value=1e+02 Score=16.13 Aligned_cols=24 Identities=8% Similarity=0.184 Sum_probs=17.5
Q ss_pred cccccCCChhhHHHHHHHHHhCCC
Q psy8070 102 GHFVAGEDQYKIVPVLKRLHSFGV 125 (173)
Q Consensus 102 ~qFcaGEt~~Ev~~ti~~L~~~Gv 125 (173)
+-||--...+++....++|.+.|+
T Consensus 8 ~~~~~~~~~~~a~~~~~~M~~~g~ 31 (31)
T PF01535_consen 8 SGYCKMGQFEEALEVFDEMRERGI 31 (31)
T ss_pred HHHHccchHHHHHHHHHHHhHCcC
Confidence 344666677888888888888775
No 67
>PF07566 DUF1543: Domain of Unknown Function (DUF1543); InterPro: IPR011440 This domain is found as 1-2 copies in a small family of proteins of unknown function.; PDB: 2QSD_F.
Probab=20.51 E-value=37 Score=22.19 Aligned_cols=19 Identities=26% Similarity=0.286 Sum_probs=15.5
Q ss_pred ccccCCChhhHHHHHHHHH
Q psy8070 103 HFVAGEDQYKIVPVLKRLH 121 (173)
Q Consensus 103 qFcaGEt~~Ev~~ti~~L~ 121 (173)
.|+.|++++|+.+.+++-+
T Consensus 9 ~fvVa~s~~ea~~~~k~~W 27 (52)
T PF07566_consen 9 RFVVAESIEEAKPKAKQRW 27 (52)
T ss_dssp EEEEESSCHHHHHHHHCC-
T ss_pred EEEEECCHHHHHHHHHHhh
Confidence 4899999999999888643
No 68
>cd01335 Radical_SAM Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster. Mechanistically, they share the transfer of a single electron from the iron-sulfur cluster to SAM, which leads to its reductive cleavage to methionine and a 5'-deoxyadenosyl radical, which, in turn, abstracts a hydrogen from the appropriately positioned carbon atom. Depending on the enzyme, SAM is consumed during this process or it is restored and reused. Radical SAM enzymes catalyze steps in metabolism, DNA repair, the biosynthesis of vitamins and coenzymes, and the biosynthesis of many antibiotics. Examples are biotin synthase (BioB), lipoyl synthase (LipA), pyruvate formate-lyase (PFL), coproporphyrinogen oxidase (HemN), lysine 2,3-aminomutase (LAM), anaerobic ribonucleotide reductase (ARR), and MoaA, an enzyme o
Probab=20.24 E-value=2.5e+02 Score=20.63 Aligned_cols=33 Identities=21% Similarity=0.185 Sum_probs=23.8
Q ss_pred hcccc-cCCChhhHHHHHHHHHhCCCceeecccc
Q psy8070 101 YGHFV-AGEDQYKIVPVLKRLHSFGVKPILDYSV 133 (173)
Q Consensus 101 Y~qFc-aGEt~~Ev~~ti~~L~~~Gvg~ILdYav 133 (173)
+...+ .+.+.+++.+.++++++.|+.....+-.
T Consensus 114 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~ 147 (204)
T cd01335 114 ADKIRGSGESFKERLEALKELREAGLGLSTTLLV 147 (204)
T ss_pred HHHHhcCCcCHHHHHHHHHHHHHcCCCceEEEEE
Confidence 44445 7888999999999999988654444333
No 69
>PF03732 Retrotrans_gag: Retrotransposon gag protein ; InterPro: IPR005162 Transposable elements (TEs) promote various chromosomal rearrangements more efficiently, and often more specifically, than other cellular processes. Retrotransposons are structurally similar to retroviruses and are bounded by long terminal repeats. This entry represents eukaryotic Gag or capsid-related retrotranspon-related proteins. There is a central motif QGXXEXXXXXFXXLXXH that is common to Retroviridae gag-proteins, but is poorly conserved.
Probab=20.22 E-value=30 Score=23.34 Aligned_cols=39 Identities=18% Similarity=0.256 Sum_probs=30.4
Q ss_pred HHHHhhcccccCCChhhHHHHHHHHHhCCCceeecccccc
Q psy8070 96 MKLTFYGHFVAGEDQYKIVPVLKRLHSFGVKPILDYSVEE 135 (173)
Q Consensus 96 vk~TfY~qFcaGEt~~Ev~~ti~~L~~~Gvg~ILdYavE~ 135 (173)
++.-|-+||+.=......+..+..|++ +-.++-+|..+-
T Consensus 32 ~~~~~~~~f~~~~~~~~~~~~l~~l~Q-~~esv~~y~~rf 70 (96)
T PF03732_consen 32 FKDAFRKRFFPPDRKEQARQELNSLRQ-GNESVREYVNRF 70 (96)
T ss_pred HHHHHHHHHhhhhccccchhhhhhhhc-cCCcHHHHHHHH
Confidence 445666777777788888888888999 888888888764
Done!