Model Ensemble 1: Linear Regression
Variety name | Total protein content /% | Glutelin content /% | Prolamine content /% | Globulin content /% | Lysine content /% |
---|---|---|---|---|---|
WT-2x(1) | 7.57 | 2.18 | 0.44 | 1.92 | 0.31 |
WT-2x(2) | 8.3 | 1.94 | 0.46 | 2.09 | 0.3 |
WT-2x(3) | 8.4 | 2.15 | 0.47 | 2.01 | 0.32 |
WT-2x(4) | 8.97 | 2.04 | 0.4 | 1.78 | 0.29 |
WT-2x(5) | 9.13 | 2.37 | 0.37 | 2.19 | 0.31 |
WT-2x(6) | 9.17 | 1.85 | 0.49 | 2.13 | 0.3 |
WT-4x(1) | 10.61 | 3.54 | 0.49 | 2.49 | 0.29 |
WT-4x(2) | 10.55 | 2.64 | 0.52 | 2.51 | 0.33 |
WT-4x(3) | 11.61 | 2.77 | 0.48 | 2.18 | 0.36 |
WT-4x(4) | 12.22 | 2.81 | 0.45 | 2.11 | 0.37 |
WT-4x(5) | 12.45 | 2.61 | 0.42 | 2.68 | 0.40 |
WT-4x(6) | 14.08 | 2.21 | 0.59 | 2.24 | 0.35 |
osglub1-4x(1) | 10.65 | 3.53 | 0.53 | 2.4 | 0.34 |
osglub1-4x(2) | 10.58 | 2.64 | 0.57 | 2.37 | 0.32 |
osglub1-4x(3) | 11.59 | 2.76 | 0.52 | 2.23 | 0.33 |
osglub1-4x(4) | 12.23 | 2.81 | 0.49 | 2.13 | 0.32 |
osglub1-4x(5) | 12.46 | 2.61 | 0.46 | 2.56 | 0.31 |
osglub1-4x(6) | 14.07 | 2.22 | 0.64 | 2.33 | 0.34 |
osglub1/osglb-4x(1) | 13.05 | 2.50 | 0.62 | 0.05 | 0.39 |
osglub1/osglb-4x(2) | 13.23 | 1.87 | 0.66 | 0.04 | 0.41 |
osglub1/osglb-4x(3) | 14.15 | 1.96 | 0.61 | 0.03 | 0.40 |
osglub1/osglb-4x(4) | 14.36 | 1.99 | 0.57 | 0.06 | 0.42 |
osglub1/osglb-4x(5) | 14.89 | 1.85 | 0.53 | 0.07 | 0.38 |
osglub1/osglb-4x(6) | 15.08 | 1.56 | 0.75 | 0.03 | 0.40 |
1.1 Linear Regression of Changes in Total Protein, Gluten, Alcohol-Soluble Protein, Globulin, and Lysine Content Before and After Doubling
1.2 OsGluB1 Linear Regression of Changes in Total Protein, Gluten, Alcohol-Soluble Protein, Globulin, and Lysine Content Before and After Mutation
1.3 OsGluB1/OsGlb Linear Regression of Changes in Total Protein, Gluten, Alcohol-Soluble Protein, Globulin, and Lysine Content Before and After Mutation
1.4 Predictive Comparison of Changes in Total Protein Content Before and After Doubling and Gene Editing
1.5 Predictive Comparison of Changes in Gluten Content Before and After Doubling and Gene Editing
1.6 Predictive Comparison of Changes in Alcohol-Soluble Protein Content Before and After Doubling and Gene Editing
1.7 Predictive Comparison of Changes in Globulin Content Before and After Doubling and Gene Editing
1.8 Predictive Comparison of Changes in Lysine Content Before and After Doubling and Gene Editing
Model accuracy (considering the concentration, significance and goodness of fit of the original data) and improved significance test (α =0.05) | ||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Variety - Total Protein | Variety - Glutelin | Variety - Prolamine | Variety - Globulin | Variety - Lysine | ||||||||||||
First paragraph (polyploidization) | The second segment (osglub1 mutation) | The third segment (both osglub1 and osglb are mutated) | First paragraph (polyploidization) | The second segment (osglub1 mutation) | The third segment (both osglub1 and osglb are mutated) | First paragraph (polyploidization) | The second segment (osglub1 mutation) | The third segment (both osglub1 and osglb are mutated) | First paragraph (polyploidization) | The second segment (osglub1 mutation) | The third segment (both osglub1 and osglb are mutated) | First paragraph (polyploidization) | The second segment (osglub1 mutation) | The third segment (both osglub1 and osglb are mutated) | ||
T-test: paired two sample (content of improvement sequence in this step) mean analysis | Poisson correlation coefficient | 0.862274114 | 0.999916807 | 0.923103475 | 0.873683966 | -0.199857209 | -0.5986107 | 0.881759617 | 0.999274682 | 0.998956606 | 0.958076122 | -0.143809917 | -0.947687765 | 0.920244098 | -0.542139318 | 0.990721002 |
P (t<=t) one tailed | 0.000690231024756173 (<0.01) | 0.335089986659378 (>0.05) | 0.000989151779754957 (<0.01) | 0.00030753051043595 (<0.01) | 0.5 (>0.05) | 0.0000051485873642671 (<0.01) | 0.0098672689997965 (<0.01) | 0.0000282288311043399 (<0.01) | 0.0000932871661442039 (<0.01) | 0.0157779537244738 (<0.05) | 0.344228544888002 (>0.05) | 2.63004343672171e-06 (<0.01) | 0.00371768700696175 (<0.01) | 0.0320250740270976 (<0.05) | 0.0035822936958629 (<0.01) | |
F-test two sample ANOVA (to prepare for the next t-test) | P (f<=f) one tailed | 0.061840102311957 (>0.05) | 0.490229545293888 (>0.05) | 0.176102716725459 (>0.05) | 0.042323872868052 (<0.05) | 0.488022077700087 (>0.05) | 0.239757368280236 (>0.05) | 0.287220640942428 (>0.05) | 0.440003756859274 (>0.05) | 0.347834034250312 (>0.05) | 0.19530882719514 (>0.05) | 0.19130366703838 (>0.05) | 0.0000858277908973245 (<0.01) | 0.00718242019246973 (<0.01) | 0.0194917704950284 (<0.05) | 0.0260907002285288 (<0.05) |
T-test: two sample equal / heteroscedasticity hypothesis (to evaluate the significance of the difference in the content of improvement sequence in this step) | P (t<=t) two tailed | 0.000827401482597938 (<0.01) | 0.989738281660783 (>0.05) | 0.00604198967350708 (<0.01) | 0.0101455895746064 (<0.05) | 0.994810846434833 (>0.05) | 0.00583507750656658 (<0.01) | 0.010133803616988 (<0.05) | 0.249195635126652 (>0.05) | 0.00543013350300424 (<0.01) | 0.0101401106876729 (<0.05) | 0.77837278673196 (>0.05) | 2.46115913592971e-07 (<0.01) | 0.0296988118180533 (<0.05) | 0.04636248597522 (<0.05) | 0.0091720143500425 (<0.05) |
Regression statistics - goodness of fit analysis (to evaluate the causal relationship between the improvement and content change in this step) | Multiple R | 0.961984213 | 0.99991555 | 0.931414707 | 0.935282517 | 0.999948408 | 0.935282517 | 0.973746336 | 0.918466367 | 0.960978441 | 0.670697327 | 0.910572177 | 0.996507557 | 0.667736145 | 0.940790155 | 0.940790155 |
R Square | 0.925413626 | 0.999831107 | 0.867533356 | 0.918947087 | 0.999896818 | 0.918947087 | 0.924435591 | 0.9751141 | 0.937183703 | 0.649811202 | 0.900829142 | 0.993027312 | 0.64587156 | 0.916638367 | 0.916638367 | |
Adjusted R Square | 0.906767032 | 0.999788883 | 0.834416695 | 0.901316141 | 0.999871023 | 0.901316141 | 0.94687915 | 0.909262551 | 0.930902073 | 0.629792322 | 0.909087944 | 0.992330043 | 0.639045872 | 0.904202041 | 0.904202041 | |
General comments | Extremely excellent | Excellent accuracy but poor significance | Extremely excellent | excellent | Excellent accuracy but poor significance | Extremely excellent | excellent | Excellent accuracy but poor significance | Extremely excellent | excellent | Excellent accuracy but poor significance | Extremely excellent | excellent | Excellent accuracy but poor significance | Extremely excellent |
Model Ensemble 2 Prediction of Protein Primary Structure (Highlighted in Yellow are Target Locus Genes)
2.1 Prediction of Primary Structure for Wild-Type Glutenin B1
Nucleotide Sequence of the Glutenin B1-Encoding Gene OsGluB1
1 aactagcttg gtctgtcttt gaactcacat caattagctt aagtttccat aagcaagtac
61 aaatagctat ggcgagttcc gttttctctc ggttttctat atacttttgt gttcttctat
121 tatgccatgg ttctatggcc cagctattta atcccagcac aaacccatgg catagtcctc
181 ggcaaggaag ttttagggag tgtagatttg atagactaca agcatttgaa ccacttcgga
241 aagtgaggtc agaagctggg gtgactgagt acttcgatga gaagaatgaa ttattccagt
301 gcacgggtac ttttgtgatc cgacgtgtca ttcagcctca aggccttttg gtacctcgat
361 acacaaatat tcctggcgtg gtctacatca tccaaggttt gtatcctaat aaatataatc
421 gagaactcta tcgatgcaac tagtagttat gatctccatg gtcaaattaa tgttgtatgt
481 accttatgtg aacattataa tttttaggga gaggttctat gggtttaacc ttccccggtt
541 gccctgcgac ttaccagcaa caattccaac aattttcatc tcaaggccaa agtcagagcc
601 aaaagtttag agatgagcac caaaagattc atcaatttag gcaaggagac attgttgcac
661 tcccagctgg tgttgcacat tggttctaca atgatggtga tgcacctatt gttgccgtat
721 atgtttatga cgtaaacaac aacgccaatc agcttgaacc taggcaaaag gtaatttttt
781 gaacaaatat ttccatcaaa gttgtaattt tctatgtttt tcatatgttc ttacaatgca
841 attcatagcg taaaacatta aatttttcat tgataaaaat ttcaggagtt cctattagcc
901 ggcaacaaca atcgggctca acaacaacaa gtatatggta gctcaattga gcaacactct
961 gggcaaaaca tattcagcgg atttggtgtt gagatgctaa gtgaggcttt aggcatcaac
1021 gcagtagcag caaagaggct acagagccaa aatgatcaaa gaggagagat catacatgtg
1081 aagaatggcc ttcaattgtt gaaaccgact ttgacacaac agcaagaaca agcacaagca
1141 caagatcaat atcaacaagt tcaatacagt gaacgacagc aaacatcttc tcgatggaac
1201 ggattggagg agaacttttg cacgatcaag gtgagagtaa acattgaaaa tcctagtcgt
1261 gctgattcat acaacccacg tgccggaagg ataacaagtg tcaatagtca gaagttcccc
1321 atccttaacc tcatccaaat gagcgctacc agagtaaacc tataccaggt atttattata
1381 gcaccgtttt gttctcttca ttttttttgg aagatctttg atttgttgct tatataacat
1441 tattctctac tgatttctac agaatgctat tctctcgccg ttctggaacg tcaatgctca
1501 tagtttggtc tatatgattc aagggcgatc tcgagttcaa gtcgttagta actttggaaa
1561 gactgtgttt gatggtgtcc ttcgcccagg acaattattg atcattccgc aacattatgc
1621 tgtcttgaag aaagcagagc gtgaaggatg ccaatatatc gcaatcaaga caaacgctaa
1681 cgccttcgtc agccaccttg cagggaaaaa ctcagtattc cgtgccttgc cagttgatgt
1741 agtcgctaat gcgtatcgca tctcaaggga gcaagcccga agcctcaaga acaacagggg
1801 agaagagcac ggtgccttca ctcctagatt tcaacaacaa tactacccag gattatcgaa
1861 tgagtccgaa agcgagacct cagagtaatg taattgagaa ctagtatcgg cgtagagtaa
1921 aataaaacac cacaagtatg acacttggtg gtgattctgt tcgatatcag tactaaataa
1981 aggttacaaa cttcttaatt ttccta
Amino Acid Sequence of Wild-Type Glutenin B1
MASSVFSRFSIYFCVLLLCHGSMAQLFNPSTNPWHSPRQGSFRECRFDRLQAFEPLRKVRSEAGVTEYFDEKNELFQCTGTFVIRRVIQPQGLLVPRYTNIPGVVYIIQGRGSMGLTFPGCPATYQQQFQQFSSQGQSQSQKFRDEHQKIHQFRQGDIVALPAGVAHWFYNDGDAPIVAVYVYDVNNNANQLEPRQKEFLLAGNNNRAQQQQVYGSSIEQHSGQNIFSGFGVEMLSEALGINAVAAKRLQSQNDQRGEIIHVKNGLQLLKPTLTQQQEQAQAQDQYQQVQYSERQQTSSRWNGLEENFCTIKVRVNIENPSRADSYNPRAGRITSVNSQKFPILNLIQMSATRVNLYQNAILSPFWNVNAHSLVYMIQGRSRVQVVSNFGKTVFDGVLRPGQLLIIPQHYAVLKKAEREGCQYIAIKTNANAFVSHLAGKNSVFRALPVDVVANAYRISREQARSLKNNRGEEHGAFTPRFQQQYYPGLSNESESETSE
2.2 Prediction of Primary Structure for Mutant Glutenin B1
OsGluB1 Nucleotide Sequence of Gene Mutation
(Case 1 - Mutant 1: Deletion of One G, Frameshift Mutation)
1 aactagcttg gtctgtcttt gaactcacat caattagctt aagtttccat aagcaagtac
61 aaatagctat ggcgagttcc gttttctctc ggttttctat atacttttgt gttcttctat
121 tatgccatgg ttctatggcc cagctattta atcccagcac aaacccatgg catagtcctc
181 ggcaaggaag ttttagggag tgtagatttg atagactaca agcatttgaa ccacttcgga
241 aagtgaggtc agaagctggg gtgactgagt acttcgatga gaagaatgaa ttattccagt
301 gcacgggtac ttttgtgatc cgacgtgtca ttcagcctca aggccttttg gtacctcgat
361 acacaaatat tcctggcgtg gtctacatca tccaaggttt gtatcctaat aaatataatc
421 gagaactcta tcgatgcaac tagtagttat gatctccatg gtcaaattaa tgttgtatgt
481 accttatgtg aacattataa tttttaggga gaggttctat gggtttaacc ttccccgtt
541 gccctgcgac ttaccagcaa caattccaac aattttcatc tcaaggccaa agtcagagcc
601 aaaagtttag agatgagcac caaaagattc atcaatttag gcaaggagac attgttgcac
661 tcccagctgg tgttgcacat tggttctaca atgatggtga tgcacctatt gttgccgtat
721 atgtttatga cgtaaacaac aacgccaatc agcttgaacc taggcaaaag gtaatttttt
781 gaacaaatat ttccatcaaa gttgtaattt tctatgtttt tcatatgttc ttacaatgca
841 attcatagcg taaaacatta aatttttcat tgataaaaat ttcaggagtt cctattagcc
901 ggcaacaaca atcgggctca acaacaacaa gtatatggta gctcaattga gcaacactct
961 gggcaaaaca tattcagcgg atttggtgtt gagatgctaa gtgaggcttt aggcatcaac
1021 gcagtagcag caaagaggct acagagccaa aatgatcaaa gaggagagat catacatgtg
1081 aagaatggcc ttcaattgtt gaaaccgact ttgacacaac agcaagaaca agcacaagca
1141 caagatcaat atcaacaagt tcaatacagt gaacgacagc aaacatcttc tcgatggaac
1201 ggattggagg agaacttttg cacgatcaag gtgagagtaa acattgaaaa tcctagtcgt
1261 gctgattcat acaacccacg tgccggaagg ataacaagtg tcaatagtca gaagttcccc
1321 atccttaacc tcatccaaat gagcgctacc agagtaaacc tataccaggt atttattata
1381 gcaccgtttt gttctcttca ttttttttgg aagatctttg atttgttgct tatataacat
1441 tattctctac tgatttctac agaatgctat tctctcgccg ttctggaacg tcaatgctca
1501 tagtttggtc tatatgattc aagggcgatc tcgagttcaa gtcgttagta actttggaaa
1561 gactgtgttt gatggtgtcc ttcgcccagg acaattattg atcattccgc aacattatgc
1621 tgtcttgaag aaagcagagc gtgaaggatg ccaatatatc gcaatcaaga caaacgctaa
1681 cgccttcgtc agccaccttg cagggaaaaa ctcagtattc cgtgccttgc cagttgatgt
1741 agtcgctaat gcgtatcgca tctcaaggga gcaagcccga agcctcaaga acaacagggg
1801 agaagagcac ggtgccttca ctcctagatt tcaacaacaa tactacccag gattatcgaa
1861 tgagtccgaa agcgagacct cagagtaatg taattgagaa ctagtatcgg cgtagagtaa
1921 aataaaacac cacaagtatg acacttggtg gtgattctgt tcgatatcag tactaaataa
1981 aggttacaaa cttcttaatt ttccta
(Case 2 - Mutant 2: Deletion of One T, Frameshift Mutation)
1 aactagcttg gtctgtcttt gaactcacat caattagctt aagtttccat aagcaagtac
61 aaatagctat ggcgagttcc gttttctctc ggttttctat atacttttgt gttcttctat
121 tatgccatgg ttctatggcc cagctattta atcccagcac aaacccatgg catagtcctc
181 ggcaaggaag ttttagggag tgtagatttg atagactaca agcatttgaa ccacttcgga
241 aagtgaggtc agaagctggg gtgactgagt acttcgatga gaagaatgaa ttattccagt
301 gcacgggtac ttttgtgatc cgacgtgtca ttcagcctca aggccttttg gtacctcgat
361 acacaaatat tcctggcgtg gtctacatca tccaaggttt gtatcctaat aaatataatc
421 gagaactcta tcgatgcaac tagtagttat gatctccatg gtcaaattaa tgttgtatgt
481 accttatgtg aacattataa tttttaggga gaggttctat gggtttaacc ttccccggt
541 gccctgcgac ttaccagcaa caattccaac aattttcatc tcaaggccaa agtcagagcc
601 aaaagtttag agatgagcac caaaagattc atcaatttag gcaaggagac attgttgcac
661 tcccagctgg tgttgcacat tggttctaca atgatggtga tgcacctatt gttgccgtat
721 atgtttatga cgtaaacaac aacgccaatc agcttgaacc taggcaaaag gtaatttttt
781 gaacaaatat ttccatcaaa gttgtaattt tctatgtttt tcatatgttc ttacaatgca
841 attcatagcg taaaacatta aatttttcat tgataaaaat ttcaggagtt cctattagcc
901 ggcaacaaca atcgggctca acaacaacaa gtatatggta gctcaattga gcaacactct
961 gggcaaaaca tattcagcgg atttggtgtt gagatgctaa gtgaggcttt aggcatcaac
1021 gcagtagcag caaagaggct acagagccaa aatgatcaaa gaggagagat catacatgtg
1081 aagaatggcc ttcaattgtt gaaaccgact ttgacacaac agcaagaaca agcacaagca
1141 caagatcaat atcaacaagt tcaatacagt gaacgacagc aaacatcttc tcgatggaac
1201 ggattggagg agaacttttg cacgatcaag gtgagagtaa acattgaaaa tcctagtcgt
1261 gctgattcat acaacccacg tgccggaagg ataacaagtg tcaatagtca gaagttcccc
1321 atccttaacc tcatccaaat gagcgctacc agagtaaacc tataccaggt atttattata
1381 gcaccgtttt gttctcttca ttttttttgg aagatctttg atttgttgct tatataacat
1441 tattctctac tgatttctac agaatgctat tctctcgccg ttctggaacg tcaatgctca
1501 tagtttggtc tatatgattc aagggcgatc tcgagttcaa gtcgttagta actttggaaa
1561 gactgtgttt gatggtgtcc ttcgcccagg acaattattg atcattccgc aacattatgc
1621 tgtcttgaag aaagcagagc gtgaaggatg ccaatatatc gcaatcaaga caaacgctaa
1681 cgccttcgtc agccaccttg cagggaaaaa ctcagtattc cgtgccttgc cagttgatgt
1741 agtcgctaat gcgtatcgca tctcaaggga gcaagcccga agcctcaaga acaacagggg
1801 agaagagcac ggtgccttca ctcctagatt tcaacaacaa tactacccag gattatcgaa
1861 tgagtccgaa agcgagacct cagagtaatg taattgagaa ctagtatcgg cgtagagtaa
1921 aataaaacac cacaagtatg acacttggtg gtgattctgt tcgatatcag tactaaataa
1981 aggttacaaa cttcttaatt ttccta
Amino Acid Sequence of Mutant Glutenin B1
(Frameshift Mutation: Case 1 - Mutant 1)
MASSVFSRFSIYFCVLLLCHGSMAQLFNPSTNPWHSPRQGSFRECRFDRLQAFEPLRKVR SEAGVTEYFDEKNELFQCTGTFVIRRVIQPQGLLVPRYTNIPGVVYIIQGLYPNKYNREL YRCNLSPWSNCCMYLMTLFLGRGSMGLTFPVALRLTSNNSNNFHLKAKVRAKSLEMSTKR FINLGKETLLHSQLVLHIGSTMMMHLLLPYMFMTTTTPTSLNLGKRFFEQIFPSKLFSW FFICSYNAIHSVKHIFHKFQEFLLAGNNNRAQQQQVYGSSIEQHSGQNIFSGFGVEMLSE ALGINAVAARRLQSQNDQRGEIIHVKNGLQLLKPTLTQQQEQAQAQDQYQQVQYSERQQT SSRWNGLEENFCTIKVRVNIENPSRADSYNPRAGRITSVNSQKFPILNLIQMSATRVNLY QVFIIAPFCSLHFFWKIFDLLLIHYSLLISTECYSLAVLERQCSFGLYDS RAISSSSRLW KDCVWCPSPRTIIDHSATLCCLEESRARMPIYRNQDKRRLRQPPCREKLSIPCLASCSRC VSHLKGASPKPQEQQGRRARCLHSISTTILPRIIEVRKRDLRV
(Frameshift Mutation: Case 2 - Mutant 2)
MASSVFSRFSIYFCVLLLCHGSMAQLFNPSTNPWHSPRQGSFRECRFDRLQAFEPLRKVR SEAGVTEYFDEKNELFQCTGTFVIRRVIQPQGLLVPRYTNIPGVVYIIQGLYPNKYNREL YRCNLSPWSNCCMYLMTLFLGRGSMGLTFPGALRLTSNNSNNFHLKAKVRAKSLEMSTKR FINLGKETLLHSQLVLHIGSTMMMHLLLPYMFMTTTTPTSLNLGKRFFEQIFPSKLFSW FFICSYNAIHSVKHIFHKFQEFLLAGNNNRAQQQQVYGSSIEQHSGQNIFSGFGVEMLSE ALGINAVAARRLQSQNDQRGEIIHVKNGLQLLKPTLTQQQEQAQAQDQYQQVQYSERQQT SSRWNGLEENFCTIKVRVNIENPSRADSYNPRAGRITSVNSQKFPILNLIQMSATRVNLY QVFIIAPFCSLHFFWKIFDLLLIHYSLLISTECYSLAVLERQCSFGLYDSRAISSSSRLW KDCVWCPSPRTIIDHSATLCCLEESRARMPIYRNQDKRRLRQPPCREKLSIPCLASCSRC VSHLKGASPKPQEQQGRRARCLHSISTTILPRIIEVRKRDLRV
2.3 Prediction of Primary Structure for Wild-Type Globulin
Nucleotide Sequence of the Globulin-Encoding Gene OsGlb
1 cgatcgccat catctcatca tcagttcatc accaacaaac aaaagaggaa aaaaaacata
61 tacacttcta gtgattgtct gattgatcat caatggctag caaggtcgtc ttcttcgcgg
121 cggcgctcat ggcggccatg gtggccatct ccggcgcgca gctgagcgag tcggagatga
181 ggttcaggga caggcagtgc cagcgggagg tgcaggacag cccgctggac gcgtgccggc
241 aggtgctcga ccggcagctc accggccggg agaggttcca gccgatgttc cgccgcccgg
301 gcgcgctcgg cctgcggatg cagtgctgcc agcagctgca ggacgtgagc cgcgagtgcc
361 gctgcgccgc catccgccgg atggtgagga gctacgagga gagcatgccg atgcccctgg
421 agcaaggctg gtcgtcgtcg tcgtcggagt actacggcgg cgaggggtcg tcgtcggagc
481 aggggtacta cggcgagggg tcgtcggagg agggctacta cggcgagcag cagcagcagc
541 cggggatgac ccgcgtgagg ctgaccaggg cgaggcagta cgcggcgcag ctgccgtcga
601 tgtgccgggt tgagccccag cagtgcagca tcttcgccgc cggccagtac taggcttagc
661 tggcttgcct catagctagt aggatcacac cgttgctgtg ttgcatgcaa cgagatagtg
721 atcaaaacaa ataatgaata atgaaatgtt ttgaaaacaa aatagctggt gataaagtac
781 tatatatgat tttgtgcgtt ctg
MASKVVFFAAALMAAMVAISGAQLSESEMRFRDRQCQREVQDSPLDACRQVLDRQLTGRERFQPMFRRPGALGLRMQCCQQLQDVSRECRCAAIRRMVRSYEESMPMPLEQGWSSSSSEYYGGEGSSSEQGYYGEGSSEEGYYGEQQQQPGMTRVRLTRARQYAAQLPSMCRVEPQQCSIFAAGQY
2.4 Prediction of Primary Structure for Mutant Globulin
OsGlb Nucleotide Sequence of Gene Mutation
1 cgatcgccat catctcatca tcagttcatc accaacaaac aaaagaggaa aaaaaacata
61 tacacttcta gtgattgtct gattgatcat caatggctag caaggtcgtc ttcttcgcgg
121 cggcgctcat ggcggccatg gtggccatct ccggcgcgca gctgagcgag tcggagatga
181 ggttcaggga caggcagtgc cagcgggagg tgcaggacag cccgctggac gcgtgccggc
241 aggtgctcga ccggcagctc accggccggg agaggttcca gccgatgttc cgccgcccgg
301 gcgcgctcgg cctgcggatg cagtgctgcc agcagctgca ggacgtgagc cgcgagtgcc
361 gctgcgccgc catccgccgg atggtgagga gctacgagga gagcatgccg atgcccctgg
421 agcaaggctg gtcgtcgtcg tcgtcggagt actaacggcgg cgaggggtcg tcgtcggagc
481 aggggtacta cggcgagggg tcgtcggagg agggctacta cggcgagcag cagcagcagc
541 cggggatgac ccgcgtgagg ctgaccaggg cgaggcagta cgcggcgcag ctgccgtcga
601 tgtgccgggt tgagccccag cagtgcagca tcttcgccgc cggccagtac taggcttagc
661 tggcttgcct catagctagt aggatcacac cgttgctgtg ttgcatgcaa cgagatagtg
721 atcaaaacaa ataatgaata atgaaatgtt ttgaaaacaa aatagctggt gataaagtac
781 tatatatgat tttgtgcgtt ctg
Amino Acid Sequence of Mutant Globulin
MASKVVFFAA ALMAAMVAIS GAQLSESEMR FRDRQCQREV QDSPLDACRQ VLDRQLTGRE RFQPMFRRPG ALGLRMQCCQ QLQDVSRECR CAAIRRMVRS YEESMPMPLE QGWSSSSSEY RRRGVVVGAG VLRRGVVGGG LLRRAAAAAG DDPREADQGE AVRGAAAVDV PGAPAVQHLR
Model Summary: Prediction Results of Primary Structures for Wild-Type and Mutant Glutenin B1, and Globulin
GlutelinB1 | Globulin | ||||||
---|---|---|---|---|---|---|---|
WT | WT | Mutant-1(50%) | Mutant-2(50%) | Mutant-2(50%) | WT | Mutant | |
Number of amino acids | 499 | 499 | 583 | 583 | 583 | 186 | 185 |
Molecular weight | 56550.58 | 56550.58 | 67178.78 | 67136.70 | 67136.70 | 21054.74 | 20346.4 |
PI | 9.26 | 9.26 | 9.66 | 9.66 | 9.66 | 7.48 | 10.22 |
Total number of negatively charged residues | 39 | 39 | 38 | 38 | 38 | 21 | 20 |
Total number of positively charged residues | 50 | 50 | 70 | 70 | 70 | 22 | 29 |
Instability index | 52.11 | 52.11 | 58.90 | 58.42 | 58.42 | 69.24 | 72.62 |
Aliphatic index | 76.19 | 76.19 | 85.95 | 85.45 | 85.45 | 52.53 | 75.46 |
Grand average of hydropathicity | -0.495 | -0.495 | -0.226 | -0.234 | -0.234 | -0.629 | -0.317 |
Amino acids composition | |||||||
Glutelin-WT | Glutelin-Mutant1 | Glutelin-Mutant2 | Globulin-WT | Globulin-Mutant | |||
Rice | GlutelinB1 - Mutation | Globulin - Mutation |
---|---|---|
Biological Value(BV) | ↑ | ↓ |
taste | Unable to determine | Unable to determine |
digestibility | Unable to determine | Unable to determine |
allergenicity | Unable to determine | Unable to determine |
Model Ensemble 3
3.1 Tertiary Structure of Wild-Type Glutenin B1
3.2 Prediction of Tertiary Structure for Mutant Glutenin B1 and Confidence Level
Case 1-Glutelin M1
Case 2-Glutelin M2
3.3 Prediction of Tertiary Structure for Wild-Type Globulin and Confidence Level
(Obtained Directly from Protein Database)
3.4 Prediction of Tertiary Structure for Mutant Globulin and Confidence Level
Model Ensemble 4: Molecular Docking
4.1 Molecular Docking of Wild-Type Glutenin B1 with Human Immunoglobulin E Heavy Chain Constant Region
Binding Sites
Glutelin | IgE |
---|---|
173Asp | 398Gln |
285Tyr | 231Arg |
323Asp | 272Gln |
377Gln | 388Arg |
421Gln | 370His |
431Ala | 273Arg |
439Lys | 215Gly, 242Asp, 241Val |
440Asn | 242Asp |
471Glu | 217Ser |
4.2 Molecular Docking of Mutant Glutenin B1 with Human Immunoglobulin E Heavy Chain Constant Region
Binding Sites
Case 1
Residue in Glutelin-M1 | Interacting Residue in IgE |
---|---|
37Arg | 41Trp, 44Thr |
97Tyr | 94Asp |
159Ser | 5Ser |
160Asn | 4Gln |
161Asn | 202Glu |
165Lys | 191Thr |
172Ser | 187Asp |
195Leu | 188Arg |
196His | 188Arg |
case 2
Glutelin-M2 | IgE |
---|---|
37Arg | 42Trp, 44Thr |
97Tyr | 94Asp |
159Ser | 5Ser |
160Asn | 4Gln, 7Ser |
161Asn | 202Glu |
165Lys | 191Thr |
172Ser | 187Asp |
195Leu | 188Arg |
196His | 188Arg |
4.3 Molecular Docking of Wild-Type Globulin with Human Immunoglobulin E Heavy Chain Constant Region
Binding Sites
Globulin | IgE |
---|---|
98Arg, 102Glu | 15Lys |
98Arg, 102Glu | 16Asn |
36Gln, 33Arg | 20Asn |
37Arg, 95Arg | 22Thr |
95Arg | 23Ser |
58Arg | 31Thr |
53Arg | 55Arg |
62Gln | 58Thr |
66Arg | 63Gly, 65Tyr |
49Gln | 68Ile |
139Glu | 253Thr |
127Ser | 268Lys |
146Gln | 295Thr |
146Gln | 312Ser |
111Gly, 112Trp | 377Lys |
114Ser | 378Thr |
112Trp | 382Gly |
4.4 Molecular Docking of Mutant Globulin with Human Immunoglobulin E Heavy Chain Constant Region
Bind Sites
Globulin-M | IgE |
---|---|
12Arg | 41Asp |
12Arg | 12Ser |
317Ser | 64Asn |
105Ser | 76Gln |
5Ser | 167Val |
95Trp | 168Asp |
193Gln | 170Pro |
98Asn | 172Ala |
46Ser | 180Arg |
Molecular docking score | Globulin-WT | IgE | Globulin-M | IgE | Glutelin-WT | IgE | Glutelin-M1/Glutelin-M2 | IgE | |
---|---|---|---|---|---|---|---|---|---|
Number of atoms | interface | 301 20.6% | 279 8.4% | 209 14.7% | 242 7.3% | 265 6.6% | 227 6.9% | 200 4.2% | 235 7.1% |
surface | 1128 77.0% | 2054 62.2% | 1211 85.5% | 2054 62.2% | 2603 65.3% | 2053 62.2% | 3753 79.6% | 2055 62.2% | |
Hydrogen bonds | 30 | 14 | 19 | 15 | |||||
Salt bridges | 1 | / | 3 | 6 | |||||
Number of residues | interface | 75 40.3% | 91 21.3% | 61 33.0% | 81 18.9% | 82 16.4% | 64 15.0% | 55 9.4% | 71 16.6% |
surface | 179 96.2% | 403 94.2% | 185 100.0% | 403 94.2% | 479 96.0% | 403 94.2% | 576 98.8% | 403 94.2% | |
Solvent-accessible area, Å | interface | 2827.0 16.7% | 2568.2 10.2% | 2111.5 10.6% | 2058.0 8.2% | 2226.3 6.7% | 2279.8 9.0% | 2374.4 4.4% | 1975.7 7.8% |
Solvation energy, kcal/mol | isolated structure | -110.7 100.0% | -379.5 100.0% | -85.1 100.0% | -379.5 100.0% | -370.4 100.0% | -379.3 100.0% | -363.6 100.0% | -379.3 100.0% |
average gain | -12.7 11.5% | -6.6 1.7% | -12.0 14.0% | -5.7 1.5% | -5.6 1.5% | -5.4 1.4% | -12.3 3.4% | -5.5 1.5% | |
P-value | 0.0205 | 0.0197 | 0.0166 | 0.0177 | 0.0492 | 0.0489 | 0.0456 | 0.0483 |