Contacts of the helix formed by residues 28 - 59 (chain L) in PDB entry 2FJC
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASP 28 (chain L).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27L PRO* 1.3 72.3 - - - +
29L ALA* 1.3 67.3 + - - +
30L ARG* 2.8 7.5 - - - +
31L ALA* 2.9 17.4 + - - +
32L ILE* 3.0 24.4 + - - +
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Residues in contact with ALA 29 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28L ASP* 1.3 86.1 - - - +
30L ARG* 1.3 60.4 + - + +
32L ILE* 3.3 24.8 - - + +
33L ALA* 3.3 22.9 - - - +
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Residues in contact with ARG 30 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27L PRO* 3.5 23.8 - - + -
28L ASP 4.4 5.2 - - - +
29L ALA* 1.3 83.9 - - + +
31L ALA* 1.3 58.0 + - - +
33L ALA* 3.8 5.4 + - - +
34L ALA* 3.2 26.1 + - - +
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Residues in contact with ALA 31 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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27L PRO* 3.2 30.0 - - + +
28L ASP* 2.9 5.8 + - - +
30L ARG* 1.3 79.1 - - - +
32L ILE* 1.3 61.2 + - + +
33L ALA 3.2 0.2 - - - -
34L ALA* 3.2 5.7 + - - +
35L ILE* 2.9 36.1 + - + +
148L SER* 3.6 27.6 - - - +
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Residues in contact with ILE 32 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28L ASP* 3.0 16.2 + - - +
29L ALA* 3.3 28.0 - - + +
31L ALA* 1.3 77.6 - - + +
33L ALA* 1.3 62.8 + - + +
35L ILE* 3.4 10.5 + - + +
36L CYS* 2.9 38.9 + - - -
93L LEU* 5.1 22.6 - - + +
150L ASP* 5.9 2.2 - - - +
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Residues in contact with ALA 33 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29L ALA 3.3 17.2 + - - +
30L ARG* 4.0 8.7 - - - +
31L ALA 3.2 0.6 - - - -
32L ILE* 1.3 84.1 - - + +
34L ALA* 1.3 61.2 + - - +
36L CYS* 3.4 7.4 + - - +
37L GLU* 3.0 25.3 + - - +
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Residues in contact with ALA 34 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30L ARG* 3.2 17.4 + - - +
31L ALA* 3.2 7.5 + - - +
33L ALA* 1.3 79.1 - - - +
35L ILE* 1.3 62.8 + - - +
37L GLU* 3.3 7.9 + - - +
38L GLN* 3.1 25.1 + - - +
144L LEU* 4.2 19.7 - - + +
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Residues in contact with ILE 35 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31L ALA* 2.9 23.1 + - + +
32L ILE* 3.7 8.1 - - + +
34L ALA* 1.3 73.4 - - - +
36L CYS* 1.3 58.0 + - - +
38L GLN* 3.1 8.8 + - - +
39L LEU* 2.8 47.7 + - + +
93L LEU* 4.1 10.1 - - + -
141L THR* 4.5 4.0 - - + +
144L LEU* 4.0 22.0 - - + -
145L ALA* 3.8 18.8 - - + +
148L SER* 3.5 24.5 - - - +
150L ASP* 3.9 14.4 - - + +
153L THR* 4.0 17.3 - - + -
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Residues in contact with CYS 36 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32L ILE* 2.9 26.6 + - - +
33L ALA* 3.7 7.6 - - - +
34L ALA 3.3 0.2 - - - -
35L ILE* 1.3 76.3 - - - +
37L GLU* 1.3 57.9 + - - +
39L LEU* 3.3 1.5 + - - -
40L ARG* 2.8 37.5 + - + +
90L LEU* 3.5 22.8 - - + +
93L LEU* 3.8 35.9 - - - -
95L ALA* 4.0 15.5 - - + -
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Residues in contact with GLU 37 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33L ALA 3.0 14.4 + - - +
34L ALA* 3.5 11.4 - - - +
35L ILE 3.2 0.2 - - - -
36L CYS* 1.3 76.3 - - - +
38L GLN* 1.3 64.3 + - + +
40L ARG* 3.4 28.5 + - - +
41L GLN* 3.2 20.4 + - - +
107L LEU* 4.9 9.5 - - - +
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Residues in contact with GLN 38 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34L ALA 3.1 15.1 + - - +
35L ILE 3.1 9.1 + - - +
37L GLU* 1.3 75.9 - - + +
39L LEU* 1.3 60.5 + - - +
41L GLN* 3.1 24.5 + - - +
42L HIS* 2.9 36.0 + - - -
137L ARG* 3.5 18.0 - - - +
140L GLN* 3.7 20.2 + - - +
141L THR* 3.1 33.4 + - + +
144L LEU* 3.9 19.3 - - + -
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Residues in contact with LEU 39 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35L ILE* 2.8 25.5 + - + +
36L CYS 3.6 4.3 - - - +
38L GLN* 1.3 76.8 - - - +
40L ARG* 1.3 62.8 + - - +
42L HIS* 3.0 16.1 + - + +
43L VAL* 2.9 26.9 + - - +
86L ILE* 3.8 17.4 - - + +
89L ARG* 4.2 16.8 - - + -
90L LEU* 3.7 23.1 - - + +
93L LEU* 3.7 29.2 - - + -
141L THR* 3.7 25.4 - - + -
153L THR* 4.3 1.1 - - + -
157L ILE* 4.2 13.9 - - + -
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Residues in contact with ARG 40 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116I LYS* 6.3 0.8 - - - +
36L CYS* 2.8 23.2 + - - +
37L GLU* 3.6 30.5 + - - +
38L GLN 3.2 0.2 - - - -
39L LEU* 1.3 76.0 - - - +
41L GLN* 1.3 61.7 + - - +
43L VAL* 3.5 0.6 + - - -
44L ALA* 3.2 21.0 + - - +
90L LEU* 3.6 22.9 - - + +
95L ALA* 5.9 2.7 - - - -
96L GLN* 3.5 19.7 + - - +
97L ALA 4.7 0.2 - - - -
98L PRO* 3.7 26.2 - - + +
103L GLU* 4.4 12.7 + - - +
107L LEU* 3.7 33.5 - - + +
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Residues in contact with GLN 41 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37L GLU 3.2 9.4 + - - +
38L GLN* 3.1 22.9 + - - +
40L ARG* 1.3 77.5 - - - +
42L HIS* 1.3 67.0 + - - +
44L ALA* 3.1 8.2 + - - +
45L ASP* 2.8 50.1 + - - +
107L LEU* 4.1 22.8 - - + +
109L GLY 5.3 0.2 - - - +
133L TYR* 3.5 6.5 + - - +
137L ARG* 3.3 51.1 + - - +
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Residues in contact with HIS 42 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38L GLN* 2.9 30.7 + - - -
39L LEU* 3.0 21.1 + - + +
41L GLN* 1.3 86.0 + - - +
43L VAL* 1.3 52.5 + - - +
45L ASP* 3.2 6.0 + - - +
46L LEU* 2.8 40.8 + - - +
86L ILE* 3.9 12.1 - - + -
134L LEU* 5.3 2.0 - - - +
137L ARG* 3.5 26.7 - - + +
138L PHE* 3.3 45.3 - + + -
141L THR* 2.6 30.4 + - + -
157L ILE* 5.0 0.9 - - + -
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Residues in contact with VAL 43 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58I TRP* 4.5 6.1 - - + -
39L LEU 2.9 19.3 + - - +
40L ARG 3.7 7.4 - - - +
41L GLN 3.3 0.2 - - - -
42L HIS* 1.3 74.8 - - - +
44L ALA* 1.3 58.3 + - - +
46L LEU* 4.5 3.1 - - - -
47L GLY* 2.8 25.8 + - - -
83L PHE* 3.4 34.6 - - + +
86L ILE* 3.8 10.5 - - + -
87L ALA* 3.8 29.6 - - + +
90L LEU* 4.6 8.3 - - + -
98L PRO* 3.8 12.6 - - + +
104L TYR* 3.7 18.6 - - + +
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Residues in contact with ALA 44 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40L ARG 3.2 7.4 + - - +
41L GLN 3.1 9.1 + - - +
43L VAL* 1.3 80.0 - - - +
45L ASP* 1.3 62.4 + - - +
47L GLY* 3.3 1.7 + - - -
48L VAL* 3.0 28.1 + - - +
104L TYR* 3.5 27.8 - - + +
107L LEU* 3.6 30.3 - - + -
108L SER* 3.8 11.4 - - - +
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Residues in contact with ASP 45 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41L GLN* 2.8 48.5 + - - +
42L HIS* 3.8 3.3 - - - +
44L ALA* 1.3 70.0 - - - +
46L LEU* 1.3 60.9 + - - +
48L VAL* 3.2 2.6 + - - +
49L LEU* 2.8 30.5 + - - +
108L SER* 2.8 15.2 + - - -
109L GLY 2.7 28.9 + - - -
110L ILE* 3.7 10.1 + - + +
133L TYR* 3.2 19.0 + - - -
134L LEU* 3.7 20.9 - - + +
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Residues in contact with LEU 46 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42L HIS 2.8 25.5 + - - +
43L VAL* 3.7 4.3 - - - +
45L ASP* 1.3 73.2 - - - +
47L GLY* 1.3 59.0 + - - +
49L LEU* 3.2 2.1 + - + -
50L TYR* 2.8 31.9 + - - +
79L VAL* 3.4 32.8 - - + +
82L ALA* 4.0 7.4 - - + -
83L PHE* 3.9 31.4 - - + +
86L ILE* 3.9 15.3 - - + -
134L LEU* 3.6 28.9 - - + -
138L PHE* 3.9 26.7 - - + -
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Residues in contact with GLY 47 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51I ILE* 5.7 1.3 - - - -
101I MET* 3.2 23.1 - - - +
43L VAL 2.8 18.2 + - - -
44L ALA 3.7 1.6 - - - -
45L ASP 3.2 0.2 - - - -
46L LEU* 1.3 78.8 - - - +
48L VAL* 1.3 61.4 + - - +
50L TYR* 3.3 18.6 - - - +
51L ILE* 3.5 4.5 + - - +
83L PHE* 3.7 17.8 - - - -
104L TYR* 4.7 4.3 - - - -
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Residues in contact with VAL 48 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101I MET* 3.6 22.0 - - - +
44L ALA 3.0 17.4 + - - +
45L ASP 3.6 6.1 - - - +
47L GLY* 1.3 75.2 - - - +
49L LEU* 1.3 62.9 + - - +
51L ILE* 3.3 4.7 + - - +
52L LYS* 3.0 20.2 + - + +
104L TYR* 4.3 7.6 - - + +
105L LEU* 4.6 8.3 - - + -
108L SER* 3.5 22.7 - - - +
110L ILE* 3.6 32.1 - - + +
111L ALA 4.7 0.2 - - - +
112L GLU* 3.9 25.0 - - + +
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Residues in contact with LEU 49 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45L ASP 2.8 16.7 + - - +
46L LEU* 3.6 6.5 - - - +
48L VAL* 1.3 74.2 - - - +
50L TYR* 1.3 56.9 + - - +
52L LYS* 3.1 13.6 + - + -
53L LEU* 2.7 57.0 + - + +
56L TYR* 6.0 0.7 - - + -
79L VAL* 3.9 14.6 - - + -
110L ILE* 4.2 13.6 - - + +
127L VAL* 5.7 3.1 - - + -
130L ASP* 4.3 19.1 - - + +
131L PHE* 3.7 24.7 - - + -
134L LEU* 3.5 29.2 - - + -
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Residues in contact with TYR 50 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50I TYR* 3.4 38.6 + + - -
51I ILE* 6.5 1.1 - - + -
80I THR* 2.8 28.5 + - - +
83I PHE* 5.6 3.6 - + - -
46L LEU 2.8 13.4 + - - +
47L GLY* 3.3 13.7 - - - +
48L VAL 3.2 0.2 - - - -
49L LEU* 1.3 78.3 - - - +
51L ILE* 1.3 72.6 + - + +
53L LEU* 3.6 3.6 + - - +
54L HIS* 2.8 52.8 + + - -
76L TYR* 3.3 41.4 - + + -
77L VAL* 5.3 0.2 - - - -
79L VAL* 4.0 9.3 - - + +
80L THR* 3.7 21.6 - - + +
83L PHE* 6.2 1.8 - - + -
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Residues in contact with ILE 51 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47I GLY* 5.7 1.8 - - - -
50I TYR* 6.5 0.7 - - + -
51I ILE* 4.9 3.4 - - + -
83I PHE* 5.2 7.2 - - + -
99I ALA* 3.8 6.3 - - - +
100I SER* 3.8 31.0 - - - +
101I MET* 3.5 35.7 - - + +
104I TYR* 3.6 25.8 - - + +
47L GLY 3.5 5.3 + - - +
48L VAL 3.3 6.6 + - - +
49L LEU 3.2 0.2 - - - -
50L TYR* 1.3 88.2 - - + +
52L LYS* 1.3 67.1 + - - +
54L HIS* 3.0 17.7 + - + +
55L ASN* 3.0 12.0 + - - +
101L MET* 3.9 12.1 - - + -
112L GLU* 4.9 1.6 - - - +
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Residues in contact with LYS 52 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99I ALA 5.1 2.7 - - - -
48L VAL* 3.0 17.5 + - + +
49L LEU* 3.1 10.7 + - + +
51L ILE* 1.3 78.1 - - - +
53L LEU* 1.3 63.2 + - - +
55L ASN* 3.0 23.3 + - - +
56L TYR* 3.2 40.6 + - + -
110L ILE* 3.8 9.4 - - + +
111L ALA* 2.6 33.2 + - - +
112L GLU* 4.4 2.5 - - - -
113L GLU* 4.0 24.0 - - + +
126L ARG* 5.4 2.7 + - - +
130L ASP* 2.7 36.4 + - - +
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Residues in contact with LEU 53 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49L LEU* 2.7 37.8 + - + +
50L TYR 3.8 4.5 - - - +
52L LYS* 1.3 73.4 - - - +
54L HIS* 1.3 56.1 + - - +
56L TYR* 3.4 6.8 + - + +
57L HIS* 2.8 29.1 + - - +
72L LEU* 4.0 16.7 - - + +
75L TYR* 3.8 16.6 - - + -
76L TYR* 3.6 41.7 - - + +
79L VAL* 3.7 22.4 - - + -
127L VAL* 3.9 30.7 - - + -
131L PHE* 4.9 3.6 - - + -
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Residues in contact with HIS 54 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80I THR* 4.7 1.8 + - - -
83I PHE* 3.6 23.6 - + + -
84I ASP* 3.0 27.9 + - - -
50L TYR* 2.8 63.3 + + - -
51L ILE* 3.0 12.2 + - + +
53L LEU* 1.3 75.1 - - - +
55L ASN* 1.3 57.2 + - - +
57L HIS* 3.0 6.8 + + - +
58L TRP* 2.8 60.7 + + + -
76L TYR* 3.4 27.2 - + - -
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Residues in contact with ASN 55 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99I ALA* 3.1 37.8 + - + +
51L ILE 3.0 8.9 + - - +
52L LYS* 3.0 17.0 + - - +
54L HIS* 1.3 77.5 - - - +
56L TYR* 1.3 56.9 + - - +
58L TRP* 4.1 1.1 - - - -
59L HIS* 2.8 54.6 + - - +
113L GLU* 3.1 42.3 + - + +
115L GLU 3.4 14.7 + - - +
116L LYS* 4.7 4.8 - - - +
118L ILE* 5.4 0.7 - - - +
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Residues in contact with TYR 56 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49L LEU* 6.0 0.4 - - + -
52L LYS* 3.2 48.1 + - + -
53L LEU* 3.8 8.1 - - + +
55L ASN* 1.3 75.6 - - - +
57L HIS* 1.3 66.7 + - - +
59L HIS 4.5 0.4 - - - +
60L ILE* 3.0 34.1 + - - +
72L LEU* 3.9 15.3 - - + -
113L GLU* 2.7 42.8 + - + -
118L ILE* 3.8 24.0 - - + -
123L ALA* 3.8 22.0 - - + -
126L ARG* 3.3 20.7 - - + +
127L VAL* 3.5 33.4 - - + -
130L ASP* 5.4 0.4 - - - -
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Residues in contact with HIS 57 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84I ASP* 4.1 0.4 - - - -
609I FE 2.2 31.7 - - - -
53L LEU 2.8 16.4 + - - +
54L HIS* 3.1 12.1 - - - +
56L TYR* 1.3 79.2 - - - +
58L TRP* 1.3 75.6 + + - +
60L ILE* 4.2 5.5 - - - +
65L PHE* 4.2 1.4 - - - -
69L HIS* 2.7 88.2 + + - -
72L LEU* 3.8 15.6 - - + +
73L GLU* 4.0 19.1 + - + -
76L TYR* 3.9 18.3 + + + -
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Residues in contact with TRP 58 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169D TRP* 3.9 12.1 + - - -
43I VAL* 4.6 0.7 - - + -
83I PHE* 3.5 33.0 - + - -
84I ASP* 3.8 18.2 + - - -
87I ALA* 3.5 28.3 - - + +
88I GLU* 4.2 10.9 - - + +
91I LEU* 3.5 36.0 - - + +
97I ALA* 4.0 13.0 - - + -
98I PRO 3.6 21.1 - - - -
99I ALA* 3.7 17.0 - - + -
104I TYR* 3.7 4.5 - - - -
54L HIS* 2.8 51.1 + + + +
55L ASN* 3.8 2.2 - - - +
57L HIS* 1.3 93.4 - + - +
59L HIS* 1.3 68.9 + + - +
60L ILE 3.7 4.1 + - - +
65L PHE* 4.8 1.0 - - - -
69L HIS* 5.0 1.3 - + - -
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Residues in contact with HIS 59 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176D LYS* 5.5 0.5 + - - -
91I LEU* 3.8 17.3 - - + +
96I GLN* 3.9 11.2 - - + -
97I ALA 3.4 34.1 + - - -
99I ALA* 4.1 10.1 - - + -
55L ASN* 2.8 41.4 + - - +
58L TRP* 1.3 87.4 - + + +
60L ILE* 1.3 66.2 + - - +
61L TYR* 4.1 2.6 - - - +
116L LYS* 3.4 25.2 - - + +
117L GLU* 3.2 25.3 - - - +
118L ILE* 3.1 23.1 + - + +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il