IGDRPT (Indian Genetic Disease Risk Prediction Tool)

Disease Name: Distal renal tubular acidosis

1 .Inheritance

Autosomal Dominant

2. Gene Name

SLC4A

3. Protein Name

Band 3 anion transport protein1

4. Chromosomal Location

17q21-q22

5. Protein Sequence

>sp|P02730|B3AT_HUMAN Band 3 anion transport protein OS=Homo sapiens OX=9606 GN=SLC4A1 PE=1 SV=3

MEELQDDYEDMMEENLEQEEYEDPDIPESQMEEPAAHDTEATATDYHTTSHPGTHKVYVE

LQELVMDEKNQELRWMEAARWVQLEENLGENGAWGRPHLSHLTFWSLLELRRVFTKGTVL

LDLQETSLAGVANQLLDRFIFEDQIRPQDREELLRALLLKHSHAGELEALGGVKPAVLTR

SGDPSQPLLPQHSSLETQLFCEQGDGGTEGHSPSGILEKIPPDSEATLVLVGRADFLEQP

VLGFVRLQEAAELEAVELPVPIRFLFVLLGPEAPHIDYTQLGRAAATLMSERVFRIDAYM

AQSRGELLHSLEGFLDCSLVLPPTDAPSEQALLSLVPVQRELLRRRYQSSPAKPDSSFYK

GLDLNGGPDDPLQQTGQLFGGLVRDIRRRYPYYLSDITDAFSPQVLAAVIFIYFAALSPA

ITFGGLLGEKTRNQMGVSELLISTAVQGILFALLGAQPLLVVGFSGPLLVFEEAFFSFCE

TNGLEYIVGRVWIGFWLILLVVLVVAFEGSFLVRFISRYTQEIFSFLISLIFIYETFSKL

IKIFQDHPLQKTYNYNVLMVPKPQGPLPNTALLSLVLMAGTFFFAMMLRKFKNSSYFPGK

LRRVIGDFGVPISILIMVLVDFFIQDTYTQKLSVPDGFKVSNSSARGWVIHPLGLRSEFP

IWMMFASALPALLVFILIFLESQITTLIVSKPERKMVKGSGFHLDLLLVVGMGGVAALFG

MPWLSATTVRSVTHANALTVMGKASTPGAAAQIQEVKEQRISGLLVAVLVGLSILMEPIL

SRIPLAVLFGIFLYMGVTSLSGIQLFDRILLLFKPPKYHPDVPYVKRVKTWRMHLFTGIQ

IICLAVLWVVKSTPASLALPFVLILTVPLRRVLLPLIFRNVELQCLDADDAKATFDEEEG

RDEYDEVAMPV

6. Gene Sequence

>NC_000017.11:c44268135-44248390 Homo sapiens chromosome 17, GRCh38.p14 Primary Assembly

AGAACGAGTGGGAACGTAGCTGGTCGCAGAGGGCACCAGCGGCTGCAGGACTTCACCAAGGGACCCTGAG

GCTCGTGAGCAGGTGGGCAGGGCAGGGAGGGGCTGGGGATGGTCCTTCGGTGCCTGCCCTGAGGGCTTCT

ACAGGTGCCCAGCCTGAATCTATGCCCAGGTGGGCCAGGCTCCTGACCTCCAAGGGGGTGCAGGTGGGTG

GGGTGAGAATGTTACCATGCATATGTTGCCCCTAAGGGAACAGGCCCATTGGCACCTGAAAAGAGGAGGG

TGGCAGGTGGTCAATGGCAGCAGAGGTATGTGTGGCTCCGGTGCGTGTGTTGCGGGGGGTATCTGATCCC

CTCCAGGTATGGGCCCTTGTCAGCTTGTTGGATCCCACAGGGTCAGGTCTTGTCCACCCCAGACTCCTTC

CTTCCTAATGGGGTCCTCAGACCACCCCCTCTCCCACCTAGGAGGCAGGATGTCAGCTGACACAGTATCC

CCTTTGGGACACTTCCAGGGGTCTACCTGGGGCACCTGGCTCCACGCCCAGCGTGGTCAGTATTGGAGGG

AACTGCAGAGCCTCCTACCACATGAGAATCTCAAAACACTTAGCTCAGGCTAATTCCATGGGAACTGAGG

GCAAATCAGAGGGGAAATGAAGATGGCAAGTCTGACTGTAACCCCAGCAGCAAGGGATAATGACAGCAAA

CATTTTCATAGCGCTCCTTATATGCTAGGCACTGTTCTAAGCCCCTTACAAATGTAAATTTCCTTAATGC

TTACAACAGGTCTATGAGATGGGCATCATTATCATCACCCCCATTTTACAGATGAGAAAACTGAGGCACA

GAGAGTTGAAGTCACACGCCGTTAGTAAATGGCAGGGCTGGGCTTTGAATCCAGGCAGTCCGACTGCAGA

GTCCGTGATCTTAACAACTAACTCTAAACCAGCTAACAGTTGTTTTGTTGGAGGCAACTTAGCATAGTGC

TTAGGGATGTGGCTGGAGTCAGGTAGTCCAGGCTGTAACCTGGCTCTGATACCTACCTGCTGGGTGGCTG

AAGCAGGTAAATGTCTCTGAACCTCAGCTTTCGCATCTGTAGAATGGATTAATGACATTACTCTTCTTCC

TCTTAGAATCCCCAAACCACTTCACAGAATGCTTTGGGGATTCTAAGAGTTAAGGCAGTACAGTTCTTTG

TGCAGTTCGGGCTGATTACACAAAGGTGGTGCCATACCACTAGGAAGTTGTCCCTGTCATCTGGTCAATC

CCCTCTCCCGCCGTGTCTTCCCAGCTGTGCTATACCTTCTAGGCTCAGATGTCCCGCTCACCCTTATCTG

GCCTGGCCCTGGCCAGCTGGCTAGCTGGCCAGGTGTTTGGTGCACTTCCAAAACTTGGGGCAGCGATCTG

GGTCCAGGCCCTTATCAGTGCTAGGCAGCACAAGGCCTGCAGCTGGGGGGCGGCCTGGCTGGCGGGTGGC

AATCTGGGTCATGGGTGCGCCCTGTAAGTCTCCAACTGAGCTCAAGGCACCTCTGTTTTCCCCTCTTCTC

TCTCACTGATGTCTCAGAACCCTGGCAGGAAGGCACTCCCATTGTACAGATGGGGTGACTGAGGCCTACA

GGCTGGAAGCTGCCCAAGGCCCTTCAGCCAGTCAGTGGCAGAGAGGCAGCCTGGACCTCTGGATTCTGCA

GCTCTGAGGGCCCCTCTGACCATTCCACTCCTCAGATAGGCAACCAAGGCCACAGTCCCAGCCCCATGGG

TGGGACTTTTAGTACCTAAGGCTTAGACACCCTGGAGGCCTTAGCATCTGAGGCCTAAGAAAGTGCATGG

GCAAGTCCAGAGAAGGAAGAAAGTGAATAAAGATGGAAGAGAAAGAGGAACTTTGGGAGAAGCAGAGAGG

GAGGAGGAAAAAGAGAGAGAAGAGGTGGGTCATCAGGGTCCTCAGGAGCAAAGCCAAGCCCTGCAGTAGG

GACTACCTCGTCCTCAGGTCCAGGACCCCTCCCCCGCACCCCATCACTTGCCCCACCTGCCAAGGCAGGG

GTCTCTCCCATTCTCCAGTCTGGTGAGATCCAGTAATCCCCTCCCTACCCCCAGGACTGCAGGGTCACCC

ATTCCTCAGAAAGAAGGCTGTTTGCACATCCCTTTCTTTCTTTTTTTTTTTTTTTTGAGACGGAGTCTCG

CTCTGTTGCCCAGGCTGGAGTGCAGTGGCGCAATCTCGGTTCACTGCAACCTCTGCCCCCTGGTTCAAGG

GATTCTCCTGCCTCAGCTTCCTGAGTAGCTGGGATTACAGGCATGCGCCACCACGCCTGGCTAATTTTTG

TATTTTCAGTAGAGATGGGGTTTCACCATGTTGGCCAGGCTCCCTGCCCCATGCCCTCACGTGGCATTTT

CCCACCTTGCTCAGCCCACCTGTTCAGCTCCACCCAGGCATGCCTCACATCTGGACTCCCAGCCCTTCAC

ATCTCACCAGTGCTTGGCTGGGCACGGTGGCTCACACCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGG

GTGGATCACGAGGTCAGGAGATTGAGACCATCCTGGCTAACACAGTGAAACCCCGTCTCTACTAAAAAAA

TACAAAAAATTAGCTGGGCGTGGTGGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGA

ATGGCGTGAACCCAGGAGGCGGAGCTTGCAGTGAGCCAAGATCGCGCCACTGCACTCCAGACTGGGAGAG

AGAGCAAGACTGTGTCTCAAAAACAAGAAAAACTCACCTGTGTTTTTAGGCTAGCGCCAGTGACCCCTCC

TCCGGTGACTCCACCCCCGAGTGCTGCAAACGCGTCCTGCTCTTCTTCCTGCCATACAGATCCTTGGCAC

TCAGCACTTTCGGCCCCTGGGGTCCATGTCACCTCGGAAGCACTGAGGCTGCCCTGTGTTCCCAGTTTGC

CTCCCTGTCGCGGCTAGGAGCTTCCCCAGAGTAGAGACGGGCCTTGTTCAGCTCAGCACCCCCTCCCACC

AGCCCCCAGTGCTCAGCACCCCCTCCCACCAGCCCCCAGTGATCAGCAGCCCCTCCCCACAGCCCCCAGT

GCTCGGCACCCCCTCCCACAGCCCCCAGTGCTCAGCACCCCCTCCCCACAGCCCCCAGTGCTCGGCACCC

CCTCCCCACAGCCTCCAGTGCTCAACACAATGCCAGGCACAGAGTGGGAACCTTTGTTGAACCGACCCAA

TTGCCTGTCACCTCAATGCCCTGTGCTGTAGTGGGCGAGGAGGGAAAAGAGGCACCTCCACACCCAGTCT

GGGGCCACCTTAGGTGACCCCTGTCCTCCCCTTGGACCTGCCCTCACATTCCTGGGGAAGGCACACCTTC

CTCTCTGCTAGGGACACAACTGAGAAAACTGAGACCCCGAGCTCAGAGGCCTCTTGGCTGGGGCCTAGTC

ATCCTGGCTCCCCAGTCTCAGAGCCCCAACCCCGCAATAGGGAGCCATTCTTACAATCATTCAGTAAATG

TTTATTGAGCACCTACTACGTGACAGCCACTCTGCTAGGAGTAGTGAATTTCGTGGGGATGGGACATACA

GGGTCTTCGCACTCAGGTAGTTTCCCTTCCAAAAGCATTGTCAGATAATATGAACACAAATCAATCAAGA

AACCACGTATTGGTTTTTTTGTTTTGTTTTGTTTTCCTTCTAAAGAGTCTCACTCTGTCACCCAGGCTGG

AGTGCAGTGGTGCCATCTTGGCTCACTGCAACCTCTGCCTCCCAGGCTTAGGCAATCCTCCCACCTCAGC

CTCTCAAGTAGCTGGGACTACAGGTATACGTCACCACACCCAGCTAATTTTTGTATTTTTGTAGACATGT

GGTTTCACTATGTTGCCCAGTTGGTCTCGGACTCCTGAGCTCAAGCAATCTGCCTGCCTCAGCCTCCCAA

AATGTTAGGATTACAGGTGTGAGCCACCACGCCCAACCAAGAAACCATTTAAAAATTAGTCAGGCATGGT

GGTGTGTGCTAGCTACTCTGGAGGCTGAGGTGGGAGGTTCACTTAAGTCTAGGAGTTTGAGACTGATGTG

AGCTGTAATCATGCCACTGCATTCTAGCCTGGATAACAGAGGGAGACCCGCTCTCAAAAAAATAAAAAAG

AAGAAAGAAATCAGCAGCCCACACTGAGATAGTGAGACCCTGTTTCTACACACAGATTTTTTTTTTTTTA

ATTACCTGGGCACTGTGGCATGCCTATAATTCCAGTTACTCAGGAGGCTGGGCCAGGAGGATCCCTGGGG

7. Motif

Pfam (2 motifs)

Pfam

Position(Independent E-value)

Description

HCO3_cotransp

378..555(1.1e-78)

564..889(2.5e-135)

PF00955, HCO3- transporter integral membrane domain

Band_3_cyto

55..328(5.4e-114)

PF07565, Band 3 cytoplasmic domain

8. Evolutionary Relationship

Evolutionary analysis by Maximum Likelihood method

The evolutionary history was inferred by using the Maximum Likelihood method and JTT matrix-based model [1]. The tree with the highest log likelihood (-16423.82) is shown. Initial tree(s) for the heuristic search were obtained automatically by applying Neighbor-Join and BioNJ algorithms to a matrix of pairwise distances estimated using a JTT model, and then selecting the topology with superior log likelihood value. The proportion of sites where at least 1 unambiguous base is present in at least 1 sequence for each descendent clade is shown next to each internal node in the tree. This analysis involved 100 amino acid sequences. There were a total of 1074 positions in the final dataset.

9. SNP

SNP	COORDINATE	AMINO ACID CHANGE	GENE ID	TRANSCRIPT ID	PROTEIN ID	SIFT SCORE	SIFT MEDIAN	SIFT PREDICTION
rs5036	42338945	K56E	ENSG00000004939	ENST00000262418	ENSP00000262418	1	2.98	TOLERATED
rs2285644	42328621	P854L	ENSG00000004939	ENST00000262418	ENSP00000262418	0.073	2.87	TOLERATED
rs13306787	42338150	E68K	ENSG00000004939	ENST00000262418	ENSP00000262418	0.182	2.96	TOLERATED
rs28929480	42338084	E90K	ENSG00000004939	ENST00000262418	ENSP00000262418	0.158	2.98	TOLERATED
rs28931583	42335888	P327R	ENSG00000004939	ENST00000262418	ENSP00000262418	0.055	2.91	TOLERATED
rs28931584	42334882	V488M	ENSG00000004939	ENST00000262418	ENSP00000262418	0.019	2.92	DELETERIOUS
rs28931585	42328574	R870W	ENSG00000004939	ENST00000262418	ENSP00000262418	0	2.86	DELETERIOUS
rs121912741	42328956	G771D	ENSG00000004939	ENST00000262418	ENSP00000262418	0.003	2.9	DELETERIOUS
rs121912742	42335880	Q330*	ENSG00000004939	ENST00000262418	ENSP00000262418
rs121912744	42333075	R589H	ENSG00000004939	ENST00000262418	ENSP00000262418	0.001	2.86	DELETERIOUS
rs121912745	42333076	R589C	ENSG00000004939	ENST00000262418	ENSP00000262418	0	2.86	DELETERIOUS
rs121912745	42333076	R589S	ENSG00000004939	ENST00000262418	ENSP00000262418	0.001	2.86	DELETERIOUS
rs121912746	42332627	S613F	ENSG00000004939	ENST00000262418	ENSP00000262418	0.001	2.86	DELETERIOUS
rs121912748	42330695	G701D	ENSG00000004939	ENST00000262418	ENSP00000262418	0.003	2.87	DELETERIOUS
rs121912751	42328609	A858D	ENSG00000004939	ENST00000262418	ENSP00000262418	0.001	2.87	DELETERIOUS
rs121912753	42328951	S773P	ENSG00000004939	ENST00000262418	ENSP00000262418	0.002	2.9	DELETERIOUS
rs121912754	42332660	R602P	ENSG00000004939	ENST00000262418	ENSP00000262418	0	2.86	DELETERIOUS
rs121912755	42330518	R760Q	ENSG00000004939	ENST00000262418	ENSP00000262418	0	2.93	DELETERIOUS
rs121912757	42331984	R646Q	ENSG00000004939	ENST00000262418	ENSP00000262418	0.002	2.86	DELETERIOUS
rs121912758	42331985	R646W	ENSG00000004939	ENST00000262418	ENSP00000262418	0	2.86	DELETERIOUS
rs121912759	42328579	P868L	ENSG00000004939	ENST00000262418	ENSP00000262418	0.002	2.86	DELETERIOUS
rs373916826	42330519	R760W	ENSG00000004939	ENST00000262418	ENSP00000262418	0	2.93	DELETERIOUS
rs387906565	42340296		ENSG00000004939	ENST00000262418	ENSP00000262418

Evolutionary analysis of coding SNPs

SNP	Substitution	Probability of deleterious effect	Prediction Score
rs5036	K56E	probably benign	0.02
rs2285644	P854L	probably damaging	0.57
rs13306787	E68K	probably benign	0.27
rs28929480	E90K	possibly damaging	0.5
rs28931583	P327R	possibly damaging	0.5
rs28931584	V488M	probably damaging	0.57
rs28931585	R870W	probably damaging	0.89
rs121912741	G771D	probably damaging	0.86
rs121912742	R589H	probably damaging	0.86
rs121912744	R589C	probably damaging	0.86
rs121912745	R589S	probably damaging	0.86
rs121912745	S613F	possibly damaging	0.5
rs121912746	G701D	probably damaging	0.86
rs121912748	A858D	probably damaging	0.86
rs121912751	S773P	probably damaging	0.86
rs121912753	R602P	probably damaging	0.89
rs121912754	R760Q	probably damaging	0.89
rs121912755	R646Q	probably damaging	0.86
rs121912757	R646W	probably damaging	0.86
rs121912758	P868L	probably damaging	0.89
rs121912759	R760W	probably damaging	0.89

Provean

SNP Id’s	Amino Acid Change	Probability	Prediction	Score
rs5036	K56E	Neutral	Tolerated	2.13
rs2285644	P854L	Deleterious	Damaging	-2.86
rs13306787	E68K	Neutral	Tolerated	-0.99
rs28929480	E90K	Deleterious	Damaging	-2.71
rs28931583	P327R	Neutral	Damaging	-2.27
rs28931584	V488M	Neutral	Damaging	-2.17
rs28931585	R870W	Deleterious	Damaging	-6.38
rs121912741	G771D	Deleterious	Damaging	-6.02
rs121912744	R589H	Deleterious	Damaging	-4.71
rs121912745	R589C	Deleterious	Damaging	-7.51
rs121912745	R589S	Deleterious	Damaging	-5.64
rs121912746	S613F	Deleterious	Damaging	-3.95
rs121912748	G701D	Deleterious	Damaging	-6.14
rs121912751	A858D	Deleterious	Damaging	-4.96
rs121912753	S773P	Deleterious	Damaging	-4.3
rs121912754	R602P	Deleterious	Damaging	-6.3
rs121912755	R760Q	Deleterious	Damaging	-3.44
rs121912757	R646Q	Deleterious	Damaging	-3.59
rs121912758	R646W	Deleterious	Damaging	-7.18
rs121912759	P868L	Deleterious	Damaging	-8.42
rs373916826	R760W	Deleterious	Damaging	-6.88

SNAP2

Wildetype Amino Acid	Position	Variant Amino Acid	Predicted Effect	Score	Expected Accurancy
T	56	K	Effect	26	90%
T	854	K	Effect	98	80%
T	68	K	Effect	67	75%
T	90	K	Effect	34	26%
T	327	K	Effect	26	98%
E	488	V	Effect	59	78%
E	870	V	Effect	96	85%
N	771	V	Effect	36	55%
N	589	D	Effect	78	55%
N	589	D	Neutral	26	45%
N	589	D	Neutral	68	65%
N	613	D	Effect	26	98%
N	701	D	Neutral	-29	65%
L	858	V	Neutral	57	32%
L	773	V	Neutral	56	65%
L	602	V	Effect	78	65%
L	760	V	Effect	69	23%
L	646	V	Effect	98	36%
M	646	T	Neutral	56	36%
M	868	T	Neutral	56	56%
M	760	T	Neutral	65	78%

Polyphen 2

Rs_Id	Mutation Probability	Score
rs5036	Probably damaging	0.999
rs2285644	Probably damaging	0.999
rs13306787	Possibly damaging	1.00
rs28929480	Probably damaging	0.98
rs28931583	Probably damaging	0.98
rs28931584	Possibly damaging	1.00
rs28931585	Possibly damaging	0.98
rs121912741	Possibly damaging	1.00
rs121912744	Probably damaging	0.999
rs121912745	Probably damaging	0.98
rs121912745	Possibly damaging	0.98
rs121912746	Possibly damaging	1.00
rs121912748	Probably damaging	0.98
rs121912751	Possibly damaging	1.00
rs121912753	Probably damaging	0.999
rs121912754	Probably damaging	0.999
rs121912755	Possibly damaging	1.00
rs121912757	Probably damaging	0.98
rs121912758	Probably damaging	0.98
rs121912759	Probably damaging	0.98
rs373916826	Possibly damaging	1.00
rs5036	Probably damaging	0.999
rs2285644	Possibly damaging	1.00
rs13306787	Probably damaging	1.00
rs28929480	Probably damaging	0.98
rs28931583	Probably damaging	0.999
rs28931584	Probably damaging	0.999
rs28931585	Possibly damaging	1.00
rs121912741	Probably damaging	0.98
rs121912744	Probably damaging	0.98
rs121912745	Possibly damaging	1.00
rs121912745	Possibly damaging	0.98
rs121912746	Possibly damaging	1.00
rs121912748	Probably damaging	0.999
rs121912751	Probably damaging	0.98
rs121912753	Possibly damaging	0.98
rs121912754	Possibly damaging	1.00
rs121912755	Probably damaging	0.98

Hope Prediction

Rs_Ids	Mutation	Mapping Issues	AA Variant	Function Impact	Score
rs5036	SLC4A __K56E		K56E	Medium	4.96
rs2285644	SLC4A __P854L	Uniprot Residue:C	P854L	High	5.94
rs13306787	SLC4A __E68K		E68K	High	10.99
rs28929480	SLC4A __E90K		E90K	Low	0.32
rs28931583	SLC4A __P327R		P327R	Low	1.5
rs28931584	SLC4A __V488M		V488M	High	5.02
rs28931585	SLC4A __R870W		R870W	High	6.73
rs121912741	SLC4A __G771D	Uniprot Residue:P	G771D	Low	0.58
rs121912744	SLC4A _R589H		R589H	Medium	4.66
rs121912745	SLC4A _ SLC4A _R589C		R589C	Medium	3.67
rs121912745	SLC4A _R589S		R589S	Medium	2.86
rs121912746	SLC4A _S613F		S613F	Low	0.22
rs121912748	SLC4A _G701D	Uniprot Residue:I	G701D	Low	1.5
rs121912751	SLC4A _A858D		A858D	High	5.02
rs121912753	SLC4A _S773P		S773P	High	6.73
rs121912754	SLC4A _R602P		R602P	High	6.09
rs121912755	SLC4A _R760Q	Uniprot Residue:A	R760Q	High	9.32
rs121912757	SLC4A _R646Q		R646Q	Medium	3.96
rs121912758	SLC4A _R646W		R646W	Low	0.12
rs121912759	SLC4A _P868L	Uniprot Residue:M	P868L	High	6.68

10. Active Site

Nil

11. Primary Sequence Analysis

Number of amino acids

911

Molecular weight

101792.33

Theoretical pI

5.08

Amino acid composition

Ala (A) 63 6.9%

Arg (R) 45 4.9%

Asn (N) 15 1.6%

Asp (D) 41 4.5%

Cys (C) 5 0.5%

Gln (Q) 41 4.5%

Glu (E) 65 7.1%

Gly (G) 62 6.8%

His (H) 18 2.0%

Ile (I) 49 5.4%

Leu (L) 136 14.9%

Lys (K) 29 3.2%

Met (M) 24 2.6%

Phe (F) 55 6.0%

Pro (P) 56 6.1%

Ser (S) 58 6.4%

Thr (T) 43 4.7%

Trp (W) 11 1.2%

Tyr (Y) 23 2.5%

Val (V) 72 7.9%

Pyl (O) 0 0.0%

Sec (U) 0 0.0%

Total number of negatively charged residues (Asp + Glu)

106

Total number of positively charged residues (Arg + Lys)

Formula

C₄₆₇₃H₇₃₁₄N₁₁₇₈O₁₃₀₄S₂₉

Total number of atoms

14498

Instability index(II)

48.22

Stability

unstable

Aliphatic index(AI)

109.03

GRAVY

0.213

12. Secondary structure analysis

Alpha helix (Hh) : 464 is 50.93%

310 helix (Gg) : 0 is 0.00%

Pi helix (Ii) : 0 is 0.00%

Beta bridge (Bb) : 0 is 0.00%

Extended strand (Ee) : 77 is 8.45%

Beta turn (Tt) : 0 is 0.00%

Bend region (Ss) : 0 is 0.00%

Random coil (Cc) : 370 is 40.61%

Ambiguous states (?) : 0 is 0.00%

Other states : 0 is 0.00%

Secondary Structure Prediction

Amino Acid Type

13. Enzymes

Name of enzyme	No. of cleavages
Arg-C proteinase	45
Asp-N endopeptidase	41
Asp-N endopeptidase + N-terminal Glu	106
BNPS-Skatole	11
CNBr	24
Chymotrypsin-high specificity (C-term to [FYW], not before P)	84
Chymotrypsin-low specificity (C-term to [FYWML], not before P)	248
Clostripain	45
Formic acid	41
Glutamyl endopeptidase	65
Iodosobenzoic acid	11
Hydroxylamine	3
LysC	29
LysN	29
NTCB (2-nitro-5-thiocyanobenzoic acid)	5
Pepsin (pH1.3)	280
Pepsin (pH>2)	316
Proline-endopeptidase	10
Proteinase K	517
Staphylococcal peptidase I	56
Thermolysin	340
Trypsin	65

14. Epitope

Rank	Start position	Sequence	Score	Prediction
1	273	APHIDYTQLGRAAATL	0.97	Epitope
2	2	EELQDDYEDMMEENLE	0.91	Epitope
3	213	PSGILEKIPPDSEATL	0.90	Epitope
4	722	PWLSATTVRSVTHANA	0.89	Epitope
4	46	YHTTSHPGTHKVYVEL	0.89	Epitope
5	845	AVLWVVKSTPASLALP	0.87	Epitope
5	547	HPLQKTYNYNVLMVPK	0.87	Epitope
5	285	AATLMSERVFRIDAYM	0.87	Epitope
6	732	VTHANALTVMGKASTP	0.86	Epitope
7	895	FDEEEGRDEYDEVAMP	0.85	Epitope
7	815	PPKYHPDVPYVKRVKT	0.85	Epitope
7	621	DFFIQDTYTQKLSVPD	0.85	Epitope
7	528	ISLIFIYETFSKLIKI	0.85	Epitope
7	380	GGLVRDIRRRYPYYLS	0.85	Epitope
8	880	NVELQCLDADDAKATF	0.83	Epitope
8	506	AFEGSFLVRFISRYTQ	0.83	Epitope
8	419	PAITFGGLLGEKTRNQ	0.83	Epitope
8	349	SSPAKPDSSFYKGLDL	0.83	Epitope
8	206	GGTEGHSPSGILEKIP	0.83	Epitope
9	685	TTLIVSKPERKMVKGS	0.82	Epitope
9	18	QEEYEDPDIPESQMEE	0.82	Epitope
10	602	RRVIGDFGVPISILIM	0.81	Epitope
11	89	GENGAWGRPHLSHLTF	0.80	Epitope
11	790	GIFLYMGVTSLSGIQL	0.80	Epitope
11	477	SFCETNGLEYIVGRVW	0.80	Epitope
11	304	RGELLHSLEGFLDCSL	0.80	Epitope
11	28	ESQMEEPAAHDTEATA	0.80	Epitope
11	221	PPDSEATLVLVGRADF	0.80	Epitope

15. Protein-Protein Interaction

No of Nodes	11
No of Edges	39
Avg node degree	7.09
avg. local clustering coefficient	0.818
expected number of e, dges	10
p-value	4.89e-12
Protein – Protein Interaction network

16. MRNA

RNA Base Pairing Probability Plot