1. Search human MutL protein homolog 1, Mlh1, in SWISS-PROT database. Give its (a) accession number, (b) entry name and (b) release date of last modification.

(a)P40692

(b)MLH1_HUMAN

(c)Release 40, October 2001

SWISS-PROT database > search Mlh1


2. Give its number of amino acids, molecular weight and theoretical pI.

Number of amino acids: 756

Molecular weight: 84600.9

Theoretical pI: 5.51

SWISS-PROT database > search Mlh1 > Tools


3. Calculate the total number of negatively charged residues and positively charged residues.

Total number of negatively charged residues (Asp + Glu): 104
Total number of positively charged residues (Arg + Lys): 83

SWISS-PROT database > search Mlh1 > Tools : Protparam


4. Calculate its hydrophobicity (Kyte & Doolittle scale, window size 11, Relative weight 60%).

   Ala: 1.800  Arg: -4.500 Asn: -3.500 Asp: -3.500 Cys: 2.500  Gln: -3.500 
   Glu: -3.500 Gly: -0.400 His: -3.200 Ile: 4.500  Leu: 3.800  Lys: -3.900 
   Met: 1.900  Phe: 2.800  Pro: -1.600 Ser: -0.800 Thr: -0.700 Trp: -0.900 
   Tyr: -1.300 Val: 4.200  Asx: -3.500 Glx: -3.500 Xaa: -0.490 

Weights for window positions 1,..,11, using linear weight variation model:
1 2 3 4 5 6 7 8 9 10 11
0.60 0.68 0.76 0.84 0.92 1.00 0.92 0.84 0.76 0.68 0.60
edge center edge

 

SWISS-PROT database > search Mlh1 > Tools : ProtScale


5. Performe the trypsin (higher specificity) cleavage of the protein. (a) How many peptides will you get after cleavage? (b) Give the list of peptides with a mass bigger than 1000 dalton.

(a) 80 peptides

(b)

mass position #MC peptide sequence
4615.429
619-659
0
AEMLADYFSLEIDEEGNLIG LPLLIDNYVPPLEGLPIFIL R
3115.482
576-604
0
LSEPAPLFDLAMLALDSPES GWTEEDGPK
2862.478
287-311
0
NTHPFLYLSLEISPQNVDVN VHPTK
2804.404
137-162
0
APPKPCAGNQGTQITVEDLF YNIATR
2775.324
523-546
0
EMLHNHSFVGCVNPQWALAQ HQTK
2751.311
689-713
0
QYISEESTLSGQQSEVPGSI PNSWK
2634.410
500-522
0
IINLTSVLSLQEEINEQGHE VLR
2625.413
393-416
0
LDAFLQPLSKPLSSQPQAIV TEDK
2550.328
555-575
0
LSEELFYQILIYDFANFGVL R
2201.124
733-751
0
HFTEDGNILQLANLPDLYK
2140.082
342-361
0
MYFTQTLLPGLAGPSGEMVK
1968.958
426-443
0
QQDEEMLELPAPAEVAAK
1835.002
101-118
0
GEALASISHVAHVTITTK
1833.902
85-100
0
LQSFEDLASISTYGFR
1774.887
312-325
0
HEVHFLHEESILER
1550.901
19-33
0
IAAGEVIQRPANAIK
1532.692
362-377
0
STTSLTSSSTSGSSDK
1525.596
475-487
0
EDSDVEMVEDDSR
1460.684
242-254
0
MNGYISNANYSVK
1410.751
605-616
0
EGLAEYIVEFLK
1408.722
183-195
0
YSVHNAGISFSVK
1338.730
275-286
0
AIETVYAAYLPK
1333.627
660-670
0
LATEVNWDEEK
1327.733
58-69
0
LIQIQDNGTGIR
1300.686
206-217
0
TLPNASTVDNIR
1275.703
256-265
0
CIFLLFINHR
1174.625
714-722
0
WTVEHIVYK
1165.523
34-43
0
EMIENCLDAK
1148.550
227-236
0
ELIEIGCEDK
1119.496
679-687
0
ECAMFYSIR
1092.517
444-453
0
NQSLEGDTTK
1091.504
71-79
0
EDLDIVCER
1003.514
378-385
0
VYAHQMVR

 

SWISS-PROT database > search Mlh1 > Tools : PeptideMass