Contacts of the helix formed by residues 37 - 65 (chain L) in PDB entry 3E1J
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 LEU 37 (chain L).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140F LEU* 3.8 17.5 - - + -
143F LYS* 5.9 3.6 - - + +
32L PHE* 2.8 27.1 + - + +
35L TRP* 3.7 34.8 - - + +
36L GLY* 1.3 76.2 - - - +
38L LYS* 1.3 64.2 + - - +
39L ARG 2.8 5.6 + - - -
40L LEU* 3.0 16.2 + - + +
41L ASN* 3.2 8.3 + - - +
83L VAL* 3.9 26.7 - - + -
150L LEU* 4.0 32.3 - - + +
153L GLN* 3.2 21.3 - - + -
154L ILE* 5.1 1.8 - - + -
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Residues in contact with LYS 38 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39F ARG* 5.5 2.6 - - - +
157F GLU* 2.9 39.8 + - - -
33L LYS* 5.4 4.0 - - + +
36L GLY* 2.9 14.6 + - - +
37L LEU* 1.3 73.8 - - - +
39L ARG* 1.3 56.7 + - - +
41L ASN* 3.3 10.9 + - - +
42L ASP* 3.0 35.0 + - - +
153L GLN 3.0 2.2 + - - +
154L ILE* 3.3 28.2 + - - +
155L ARG* 4.5 0.6 - - - +
156L GLU* 3.9 27.4 + - - +
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Residues in contact with ARG 39 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37L LEU 2.8 2.2 + - - -
38L LYS* 1.3 74.3 - - - +
40L LEU* 1.3 63.1 + - - +
42L ASP* 3.4 8.6 + - + +
43L VAL* 3.1 34.5 + - - +
133L TRP* 4.2 14.5 - - - +
137L GLU* 3.3 34.1 + - - -
140L LEU* 5.6 5.3 - - - +
152L ALA* 4.5 10.4 + - - +
153L GLN* 3.0 42.0 + - - +
155L ARG 3.6 18.6 - - - +
156L GLU* 4.6 0.7 - - - +
157L GLU* 4.1 33.7 + - + +
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Residues in contact with LEU 40 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32L PHE* 3.6 40.5 - - + -
37L LEU* 3.0 15.5 + - + +
39L ARG* 1.3 80.6 - - - +
41L ASN* 1.3 60.9 + - - +
43L VAL* 4.5 2.7 - - - +
44L GLU* 3.0 36.1 + - - +
83L VAL* 4.2 16.8 - - + -
87L LEU* 5.1 2.9 - - + -
133L TRP* 4.2 20.9 - - + -
137L GLU* 4.3 2.5 - - - +
149L TYR* 3.5 18.6 - - + +
150L LEU* 5.6 0.2 - - + -
153L GLN* 3.3 40.8 + - + +
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Residues in contact with ASN 41 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29L ALA* 3.0 36.4 - - - +
30L ARG* 3.4 28.0 + - - +
32L PHE* 3.8 1.0 - - - +
33L LYS* 3.5 36.0 - - + +
37L LEU 3.2 7.3 + - - +
38L LYS* 3.4 11.0 + - - +
40L LEU* 1.3 74.8 - - - +
42L ASP* 1.3 80.2 + - - +
45L TYR* 2.9 28.7 + - - +
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Residues in contact with ASP 42 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38L LYS* 3.0 19.4 + - - +
39L ARG* 3.7 8.0 - - + +
40L LEU 3.3 0.2 - - - -
41L ASN* 1.3 87.7 + - - +
43L VAL* 1.3 64.1 + - + +
45L TYR* 3.7 3.1 - - - +
46L HIS* 2.8 40.9 + - + +
156L GLU* 3.0 42.6 - - - +
157L GLU 4.7 3.3 + - - +
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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
----------------------------------------------------------
39L ARG* 3.1 26.8 + - - +
40L LEU 4.3 0.7 - - - +
42L ASP* 1.3 77.1 - - + +
44L GLU* 1.3 59.1 + - - +
46L HIS* 3.0 10.6 + - + +
47L GLU* 2.9 36.3 + - + +
133L TRP* 3.5 55.0 - - + +
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Residues in contact with GLU 44 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25L TYR* 3.4 25.2 - - + +
28L HIS* 3.1 19.2 - - - +
29L ALA* 3.9 17.7 - - + -
32L PHE* 3.9 17.3 - - + -
40L LEU* 3.0 19.5 + - - +
43L VAL* 1.3 71.7 - - - +
45L TYR* 1.3 67.5 + - - +
47L GLU* 3.1 9.8 + - - +
48L SER* 2.9 21.5 + - - -
87L LEU* 3.8 6.3 - - - +
90L ASP* 2.9 27.5 - - - +
133L TRP* 3.7 26.3 - - + -
134L LEU* 4.0 1.6 - - - +
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Residues in contact with TYR 45 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26L PHE* 3.6 32.1 - + - -
29L ALA* 3.6 10.4 - - + +
30L ARG* 3.3 29.4 - - - +
41L ASN* 2.9 21.5 + - - +
42L ASP* 3.7 4.3 - - - +
44L GLU* 1.3 77.1 - - - +
46L HIS* 1.3 84.9 + + - +
48L SER* 3.0 17.4 + - - -
49L ILE* 3.1 32.2 + - + +
200L HEM 3.2 38.5 + - + +
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Residues in contact with HIS 46 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42L ASP* 2.8 35.3 + - + +
43L VAL* 3.0 10.3 + - - +
45L TYR* 1.3 97.8 - + - +
47L GLU* 1.3 56.9 + - + +
49L ILE* 3.6 10.6 + - - +
50L ASP* 3.1 25.6 + - - +
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Residues in contact with GLU 47 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25L TYR* 3.6 32.6 + - + -
43L VAL* 2.9 28.0 + - - +
44L GLU* 3.6 16.0 - - - +
45L TYR 3.1 0.4 - - - -
46L HIS* 1.3 76.6 - - + +
48L SER* 1.3 65.2 + - - +
50L ASP* 3.1 6.1 + - + +
51L GLU* 3.0 26.5 + - - +
130L HIS* 3.2 47.8 - - + +
133L TRP* 4.1 19.9 - - - +
134L LEU* 5.0 0.6 - - - +
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Residues in contact with SER 48 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22L ILE* 2.8 28.9 + - - +
25L TYR* 3.9 13.5 - - - +
26L PHE* 3.6 22.7 - - - +
44L GLU 2.9 12.2 + - - -
45L TYR 3.3 9.2 - - - -
47L GLU* 1.3 71.3 - - - +
49L ILE* 1.3 65.4 + - - +
51L GLU* 3.2 3.9 + - - +
52L MET* 3.0 39.8 + - - +
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Residues in contact with ILE 49 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45L TYR* 3.1 42.2 + - + +
46L HIS* 3.8 13.2 - - - +
48L SER* 1.3 75.1 - - - +
50L ASP* 1.3 63.2 + - - +
52L MET* 3.2 26.2 + - + +
53L LYS* 3.1 38.2 + - - +
200L HEM 3.7 57.9 - - + +
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Residues in contact with ASP 50 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46L HIS 3.1 15.4 + - - +
47L GLU* 3.2 11.2 - - + +
49L ILE* 1.3 78.6 - - - +
51L GLU* 1.3 63.9 + - - +
53L LYS* 3.1 30.0 + - - +
54L HIS* 3.1 35.0 + - - -
126L ASP* 3.8 10.4 - - - +
130L HIS* 3.3 30.6 + - + +
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Residues in contact with GLU 51 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18L GLU* 2.9 24.0 - - - +
21L ALA* 3.8 20.3 - - + +
22L ILE* 3.6 22.1 - - + +
25L TYR* 3.9 10.5 - - + -
47L GLU 3.0 18.8 + - - +
48L SER 3.2 1.3 + - - +
50L ASP* 1.3 76.5 - - - +
52L MET* 1.3 56.0 + - - +
54L HIS* 2.8 34.7 + - - +
55L ALA* 2.9 27.5 + - - +
94L GLU* 3.6 9.0 - - - +
127L GLU* 2.8 26.5 - - - +
130L HIS* 3.6 11.7 - - - -
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Residues in contact with MET 52 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22L ILE* 3.6 15.0 - - + -
26L PHE* 4.7 0.4 - - + -
48L SER* 3.0 36.5 + - - +
49L ILE* 3.4 20.9 - - + +
51L GLU* 1.3 74.3 - - - +
53L LYS* 1.3 64.9 + - - +
55L ALA* 3.2 3.0 + - - +
56L ASP* 2.9 25.2 + - - +
200L HEM 2.1 113.9 - - + +
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Residues in contact with LYS 53 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49L ILE* 3.1 32.8 + - + +
50L ASP* 3.3 20.4 - - - +
52L MET* 1.3 75.8 - - + +
54L HIS* 1.3 67.9 + - + +
56L ASP* 3.4 9.2 - - - +
57L ARG* 3.1 30.1 + - - +
200L HEM 5.0 17.6 + - + +
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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
----------------------------------------------------------
18L GLU* 3.3 19.8 + - + +
50L ASP* 3.1 25.4 + - - -
51L GLU* 2.8 33.1 + - - +
52L MET 3.2 0.4 - - - -
53L LYS* 1.3 79.3 - - + +
55L ALA* 1.3 65.5 + - - +
57L ARG* 3.0 12.1 + - - +
58L TYR* 3.0 27.9 + - - -
123L ILE* 3.7 34.4 - - + +
126L ASP* 2.9 35.8 + - + -
127L GLU* 3.4 13.8 + - - -
130L HIS* 4.7 0.4 - + - -
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Residues in contact with ALA 55 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15L LEU* 3.6 24.2 - - + +
18L GLU* 4.3 7.1 - - + +
19L LEU* 4.7 3.1 - - + -
22L ILE* 4.1 16.4 - - + -
51L GLU 2.9 13.4 + - - +
52L MET 3.2 7.4 + - - +
54L HIS* 1.3 74.1 - - - +
56L ASP* 1.3 58.5 + - - +
58L TYR* 3.2 6.9 + - - +
59L ILE* 2.8 36.9 + - + +
200L HEM 4.2 11.4 - - + -
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Residues in contact with ASP 56 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26K PHE* 3.3 23.9 - - + -
30K ARG* 2.7 47.7 + - - -
52L MET 2.9 12.6 + - - +
53L LYS* 3.4 12.9 - - - +
55L ALA* 1.3 75.6 - - - +
57L ARG* 1.3 63.8 + - + +
59L ILE* 3.2 2.5 + - - +
60L GLU* 2.9 30.6 + - - +
200L HEM 4.3 10.4 - - + +
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Residues in contact with ARG 57 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125G ARG* 5.2 13.5 - - - +
53L LYS* 3.1 21.8 + - - +
54L HIS* 3.0 18.5 + - - +
56L ASP* 1.3 78.3 - - + +
58L TYR* 1.3 60.9 + - - +
60L GLU* 3.4 9.5 + - - +
61L ARG* 3.0 24.9 + - - +
119L MET* 3.6 57.5 + - + +
122L GLU* 4.2 19.2 - - - +
123L ILE* 3.8 21.3 - - + +
126L ASP* 5.0 4.8 + - - -
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Residues in contact with TYR 58 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11L LEU* 4.1 28.7 - - + +
14L LEU* 3.6 28.3 - - + +
15L LEU* 3.8 28.5 - - + -
18L GLU* 3.7 27.7 + - + -
54L HIS 3.0 24.6 + - - -
55L ALA* 3.5 5.4 - - - +
57L ARG* 1.3 74.0 - - - +
59L ILE* 1.3 57.9 + - - +
61L ARG* 3.1 4.3 + - - +
62L ILE* 2.7 43.7 + - + +
101L LEU* 3.5 26.7 - - - +
119L MET* 4.4 7.6 - - - -
120L MET* 4.4 7.1 - - + +
123L ILE* 3.6 28.9 - - + +
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Residues in contact with ILE 59 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26K PHE* 3.9 23.3 - - + -
27K LEU* 4.4 9.4 - - + +
30K ARG* 4.1 16.4 - - + -
15L LEU* 3.9 24.7 - - + -
55L ALA* 2.8 30.4 + - + +
56L ASP* 3.6 4.3 - - - +
58L TYR* 1.3 72.2 - - - +
60L GLU* 1.3 63.5 + - - +
62L ILE* 3.4 2.8 + - - +
63L LEU* 3.0 41.9 + - + +
69L PRO* 4.0 15.3 - - + +
71L LEU* 4.1 25.8 - - + -
200L HEM 4.5 4.7 - - + -
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Residues in contact with GLU 60 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30K ARG* 2.9 50.1 + - + +
33K LYS* 3.5 20.7 - - + -
34K ASN* 5.2 1.0 + - - -
56L ASP* 2.9 26.4 + - - +
57L ARG* 3.9 8.7 - - - +
59L ILE* 1.3 77.6 - - - +
61L ARG* 1.3 56.8 + - - +
63L LEU* 3.5 7.7 + - - +
64L PHE* 3.0 27.4 + - - +
----------------------------------------------------------
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Residues in contact with ARG 61 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128G GLU* 2.8 27.9 + - - +
1L MET* 5.0 0.6 - - - +
11L LEU* 3.8 20.6 - - + -
57L ARG 3.0 18.3 + - - +
58L TYR* 3.6 3.6 - - - +
60L GLU* 1.3 76.1 - - - +
62L ILE* 1.3 59.3 + - - +
64L PHE* 3.0 24.5 + - - +
65L LEU* 2.8 52.4 + - + +
113L ASP* 2.8 27.7 + - - -
115L VAL* 3.2 24.0 - - - +
116L SER* 2.9 18.7 + - - +
119L MET* 3.5 28.7 - - + -
----------------------------------------------------------
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Residues in contact with ILE 62 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8L ILE* 3.9 13.2 - - + +
11L LEU* 3.6 26.5 - - + +
12L ASN* 3.2 42.2 - - - +
15L LEU* 4.3 9.2 - - + -
58L TYR 2.7 25.6 + - - +
59L ILE 3.8 3.6 - - - +
61L ARG* 1.3 70.0 - - - +
63L LEU* 1.3 60.8 + - - +
65L LEU* 3.3 6.9 + - - +
66L GLU 3.1 4.9 + - - -
67L GLY* 2.8 53.6 + - - +
68L LEU 3.8 2.0 - - - +
69L PRO* 3.7 18.4 - - + -
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Residues in contact with LEU 63 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27K LEU* 4.2 4.3 - - + -
30K ARG* 3.7 33.0 - - + +
31K MET* 4.0 20.0 - - + +
34K ASN* 4.1 25.1 + - + +
59L ILE* 3.0 38.6 + - + +
60L GLU* 3.7 6.3 - - - +
62L ILE* 1.3 73.1 - - - +
64L PHE* 1.3 67.9 + - - +
66L GLU* 2.9 15.9 + - - +
67L GLY 3.8 7.6 - - - +
68L LEU* 6.0 1.8 - - + -
69L PRO* 3.4 28.5 - - + -
----------------------------------------------------------
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Residues in contact with PHE 64 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128G GLU* 3.4 42.8 - - + -
131G ILE* 4.4 1.6 - - + -
132G ASP* 3.7 47.3 - - + +
135G GLU* 4.0 11.9 - - - -
34K ASN* 4.0 11.4 - - - +
1L MET* 3.2 47.1 + - + -
60L GLU 3.0 17.8 + - - +
61L ARG* 3.0 25.5 + - - +
63L LEU* 1.3 79.0 - - - +
65L LEU* 1.3 63.7 + - + +
66L GLU* 3.0 7.3 + - - +
----------------------------------------------------------
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Residues in contact with LEU 65 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1L MET* 3.3 20.6 - - + +
2L LYS* 3.8 0.5 - - - +
3L GLY* 3.0 39.4 + - - -
7L VAL* 4.2 6.1 - - + -
8L ILE* 3.7 18.6 - - + +
11L LEU* 3.9 21.8 - - + -
61L ARG* 2.8 30.7 + - - +
62L ILE 3.7 4.5 - - - +
63L LEU 3.2 0.2 - - - -
64L PHE* 1.3 89.3 - - + +
66L GLU* 1.3 66.8 + - - +
67L GLY 3.4 0.7 + - - -
113L ASP* 3.7 21.5 - - - +
116L SER* 3.8 10.1 - - - +
----------------------------------------------------------
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
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