Contacts of the helix formed by residues 10 - 36 (chain C) in PDB entry 1IES
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 THR 10 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C ARG* 4.1 14.4 - - - +
9C SER* 1.3 70.1 - - - +
11C GLU* 1.3 75.8 + - - +
13C GLU* 3.6 8.0 - - - +
14C ALA* 2.8 29.2 + - - +
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Residues in contact with GLU 11 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C SER* 3.5 16.6 - - - +
10C THR* 1.3 87.0 + - - +
12C VAL* 1.3 57.4 + - - +
14C ALA* 3.5 4.8 + - - +
15C ALA* 3.0 28.6 + - - +
116C LEU* 3.6 26.3 - - + +
120C GLN* 3.0 26.6 + - - +
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Residues in contact with VAL 12 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C TYR* 3.6 24.2 - - + -
9C SER* 3.4 22.2 + - - +
10C THR 3.2 0.4 - - - -
11C GLU* 1.3 74.6 - - - +
13C GLU* 1.3 66.0 + - - +
15C ALA* 3.2 1.0 + - - +
16C VAL* 2.8 26.0 + - + +
113C LEU* 4.3 2.0 - - + -
116C LEU* 3.7 20.0 - - + -
117C GLY* 4.3 7.0 - - - -
120C GLN* 4.2 12.3 - - + -
122C ASP* 4.3 5.6 - - - +
125C LEU* 3.6 39.3 - - + -
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Residues in contact with GLU 13 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C ARG* 2.7 39.7 + - - -
8C TYR* 3.9 17.2 - - + -
9C SER 2.9 17.1 + - - +
10C THR* 3.1 12.2 + - - +
12C VAL* 1.3 73.8 - - - +
14C ALA* 1.3 62.4 + - - +
16C VAL 3.4 0.2 + - - -
17C ASN* 3.2 22.1 + - - +
69C GLN* 3.2 29.1 + - - +
74C GLY* 3.6 3.7 - - - -
75C ARG* 3.0 34.2 + - - +
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Residues in contact with ALA 14 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C THR 2.8 17.2 + - - +
11C GLU* 3.6 5.2 - - - +
13C GLU* 1.3 79.7 - - - +
15C ALA* 1.3 60.1 + - - +
17C ASN* 3.5 10.1 + - - +
18C ARG* 3.3 21.5 + - - +
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Residues in contact with ALA 15 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C GLU 3.0 19.7 + - - +
12C VAL 3.2 1.3 + - - +
14C ALA* 1.3 74.4 - - - +
16C VAL* 1.3 64.3 + - - +
18C ARG* 3.3 12.7 + - - +
19C LEU* 3.0 22.7 + - - +
113C LEU* 3.5 29.0 - - + +
116C LEU* 3.8 9.9 - - + -
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Residues in contact with VAL 16 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8C TYR* 3.6 13.5 - - - +
12C VAL* 2.8 32.4 + - + +
13C GLU 3.8 4.3 - - - +
15C ALA* 1.3 69.5 - - - +
17C ASN* 1.3 58.2 + - - +
19C LEU* 3.0 8.7 + - - +
20C VAL* 2.8 34.7 + - + +
65C LEU* 4.0 29.6 - - + +
68C MET* 3.9 22.9 - - + -
69C GLN* 3.8 21.1 - - + +
113C LEU* 4.3 14.4 - - + -
125C LEU* 4.3 0.4 - - + -
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Residues in contact with ASN 17 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C GLU* 3.2 16.0 + - - +
14C ALA* 3.6 12.5 - - - +
15C ALA 3.3 0.2 - - - -
16C VAL* 1.3 77.5 - - - +
18C ARG* 1.3 58.2 + - - +
20C VAL* 3.5 12.3 - - - +
21C ASN* 3.4 14.0 + - - +
66C LEU* 5.0 1.2 - - - +
69C GLN* 3.0 19.8 + - - +
75C ARG 2.9 23.8 + - - -
76C ALA* 3.2 7.1 - - - +
77C LEU* 3.1 45.4 + - + +
79C GLN* 3.8 13.5 + - - +
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Residues in contact with ARG 18 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ALA 3.3 13.0 + - - +
15C ALA* 3.8 10.9 + - - +
16C VAL 3.2 0.6 - - - -
17C ASN* 1.3 76.8 - - - +
19C LEU* 1.3 62.8 + - - +
21C ASN* 3.1 7.0 + - + +
22C LEU* 3.0 61.7 + - + +
79C GLN* 4.2 16.8 - - - +
109C ALA* 4.7 17.1 + - - +
112C ASP* 5.4 6.9 + - - +
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Residues in contact with LEU 19 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C ALA 3.0 12.7 + - - +
16C VAL* 3.0 10.2 + - - +
18C ARG* 1.3 75.8 - - - +
20C VAL* 1.3 65.1 + - - +
22C LEU* 3.3 10.1 + - + +
23C TYR* 2.9 44.6 + - + -
65C LEU* 3.9 24.5 - - + -
106C LEU* 4.8 1.3 - - + +
109C ALA* 3.5 34.1 - - + +
110C LEU* 3.7 25.8 - - + +
113C LEU* 3.5 28.5 - - + -
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Residues in contact with VAL 20 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C VAL* 2.8 23.8 + - + +
17C ASN* 3.5 13.0 - - - +
19C LEU* 1.3 76.5 - - - +
21C ASN* 1.3 62.0 + - - +
23C TYR* 3.4 4.2 + - - +
24C LEU* 3.0 41.7 + - + +
62C ALA* 4.1 5.8 - - + +
65C LEU* 3.8 28.0 - - + +
66C LEU* 3.6 41.1 - - + +
77C LEU 5.8 1.3 - - - +
78C PHE* 4.3 8.3 - - + -
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Residues in contact with ASN 21 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C ASN 3.4 7.8 + - - +
18C ARG* 3.1 11.5 + - + +
20C VAL* 1.3 79.8 - - - +
22C LEU* 1.3 62.2 + - + +
24C LEU* 3.2 7.8 + - - +
25C ARG* 2.8 34.7 + - - +
79C GLN* 3.4 43.0 + - - +
80C ASP 3.1 26.7 + - - +
81C LEU* 3.8 10.8 - - - +
82C GLN 5.6 0.5 + - - -
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Residues in contact with LEU 22 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ARG* 3.0 47.0 + - + +
19C LEU* 3.3 13.7 + - + +
21C ASN* 1.3 79.2 - - - +
23C TYR* 1.3 56.2 + - - +
25C ARG* 3.3 5.9 + - - +
26C ALA* 2.8 30.5 + - - +
105C SER* 4.8 6.5 - - - +
106C LEU* 3.9 20.1 - - + +
109C ALA* 3.7 30.5 - - + -
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Residues in contact with TYR 23 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 2.9 44.4 + - + +
20C VAL 3.9 0.2 - - - +
22C LEU* 1.3 76.2 - - - +
24C LEU* 1.3 58.7 + - - +
26C ALA* 3.1 7.5 + - - +
27C SER* 2.9 28.8 + - - -
57C GLU 5.4 0.2 - - - -
58C LYS* 3.5 47.9 - - + +
61C GLY* 3.9 5.6 - - - -
62C ALA* 3.8 28.5 - - + -
65C LEU* 4.2 6.3 - - + -
106C LEU* 4.0 19.6 - - + +
110C LEU* 3.7 13.7 - - + +
133C PHE* 3.3 33.2 - + - -
136C GLU* 5.5 4.3 + - - -
137C GLU* 3.7 16.3 + - - -
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Residues in contact with LEU 24 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C VAL* 3.0 36.0 + - + +
21C ASN* 3.5 4.5 - - - +
23C TYR* 1.3 75.7 - - - +
25C ARG* 1.3 57.6 + - - +
27C SER* 3.0 8.8 - - - -
28C TYR* 2.9 26.5 + - - +
59C ARG* 4.6 17.3 - - + +
62C ALA* 3.4 22.7 - - + -
63C GLU* 6.2 0.9 - - + -
66C LEU* 5.2 2.7 - - + -
78C PHE* 4.6 16.4 - - + -
81C LEU* 3.9 29.4 - - + +
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Residues in contact with ARG 25 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ASN* 2.8 25.1 + - - +
22C LEU* 3.7 6.1 - - - +
24C LEU* 1.3 77.3 - - - +
26C ALA* 1.3 55.5 + - - +
28C TYR* 3.2 6.1 + - + +
29C THR* 2.9 41.2 + - - +
81C LEU* 4.4 8.0 - - + +
82C GLN* 3.5 57.3 + - - +
83C LYS 3.1 21.3 + - - -
85C SER* 3.6 23.8 - - - +
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Residues in contact with ALA 26 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C LEU 2.8 18.3 + - - +
23C TYR 3.5 7.4 - - - +
25C ARG* 1.3 69.4 - - - +
27C SER* 1.3 58.6 + - - +
29C THR* 3.1 4.5 + - - -
30C TYR* 2.9 36.6 + - + -
58C LYS* 4.0 9.4 - - + -
102C LEU* 4.1 24.4 - - + +
106C LEU* 3.9 28.7 - - + -
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Residues in contact with SER 27 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C TYR 2.9 12.6 + - - -
24C LEU* 3.0 19.1 - - - -
26C ALA* 1.3 76.8 - - - +
28C TYR* 1.3 54.5 + - - +
30C TYR 3.3 0.5 + - - -
31C LEU* 3.0 25.0 + - - +
55C ALA* 3.0 33.2 + - - +
58C LYS* 3.8 14.9 - - - +
59C ARG* 3.5 16.6 + - - +
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Residues in contact with TYR 28 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C LEU 2.9 12.6 + - - +
25C ARG* 3.2 9.2 + - + +
27C SER* 1.3 72.3 - - - +
29C THR* 1.3 65.7 + - - +
31C LEU* 3.3 24.0 + - + +
32C SER* 3.1 18.4 + - - -
81C LEU* 4.3 22.4 - - + -
82C GLN 3.5 19.1 - - - -
83C LYS* 3.7 24.5 - - + +
84C PRO* 3.7 18.8 - - + +
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Residues in contact with THR 29 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C ARG* 2.9 22.1 + - - -
26C ALA* 3.3 10.4 - - - -
28C TYR* 1.3 75.3 - - - +
30C TYR* 1.3 63.5 + - - +
32C SER* 3.1 6.4 + - - -
33C LEU* 3.0 28.9 + - + +
84C PRO* 3.7 23.5 - - + +
85C SER* 5.0 2.5 + - - +
89C TRP* 4.1 24.5 - - + -
102C LEU* 3.8 25.8 - - + +
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Residues in contact with TYR 30 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C ALA* 2.9 28.3 + - + +
27C SER 3.7 2.0 - - - +
29C THR* 1.3 71.2 - - - +
31C LEU* 1.3 62.5 + - - +
33C LEU* 3.6 16.7 - - + +
34C GLY* 2.8 22.3 + - - -
51C PHE* 3.5 53.5 - + - +
52C ARG 4.7 0.3 + - - -
54C LEU* 3.8 26.5 - - + -
55C ALA* 3.7 10.1 - - - +
58C LYS* 4.1 15.9 - - + -
99C ALA* 3.6 14.9 + - + -
102C LEU* 3.7 18.3 - - + +
103C GLU* 2.6 40.3 + - - +
144C MET* 3.7 5.2 - - - +
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Residues in contact with LEU 31 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C SER 3.0 13.2 + - - +
28C TYR* 3.3 31.4 + - + +
30C TYR* 1.3 74.1 - - - +
32C SER* 1.3 64.1 + - - +
34C GLY* 3.9 0.8 - - - -
35C PHE* 3.0 56.5 + - + +
52C ARG* 4.8 11.4 - - - +
55C ALA* 3.9 13.6 - - + +
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Residues in contact with SER 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C TYR* 3.1 9.1 + - - -
29C THR 3.1 10.6 + - - -
31C LEU* 1.3 82.4 - - - +
33C LEU* 1.3 59.0 + - - +
35C PHE* 3.6 4.0 + - - +
36C TYR* 3.1 24.1 + - - +
84C PRO* 3.8 16.1 - - - +
86C GLN 3.9 6.4 + - - -
87C ASP* 4.9 4.2 + - - -
89C TRP* 3.1 21.3 + - - -
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Residues in contact with LEU 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C THR* 3.0 23.9 + - + +
30C TYR* 3.6 37.0 - - + +
32C SER* 1.3 70.8 + - - +
34C GLY* 1.3 65.5 + - - +
36C TYR* 3.1 7.6 + - - +
37C PHE* 3.1 26.6 + - + -
51C PHE* 3.8 20.6 - - + -
89C TRP* 3.5 49.1 - - + -
95C ALA* 3.8 25.6 - - + +
98C ALA* 5.4 1.3 - - + -
99C ALA* 4.9 8.3 - - + +
102C LEU* 5.6 0.4 - - + -
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Residues in contact with GLY 34 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TYR 2.8 20.2 + - - -
31C LEU 3.9 0.7 - - - -
33C LEU* 1.3 74.2 - - - +
35C PHE* 1.3 60.7 + - - +
36C TYR 3.2 0.7 + - - -
37C PHE 3.4 4.2 + - - -
38C ASP 3.5 1.2 + - - -
48C CYS* 3.3 43.0 - - - +
51C PHE* 3.6 15.6 - - - +
52C ARG* 4.0 7.9 - - - -
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Residues in contact with PHE 35 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C LEU* 3.0 45.4 + - + +
32C SER* 4.2 3.6 - - - +
34C GLY* 1.3 75.3 - - - +
36C TYR* 1.3 62.1 + - - +
38C ASP* 3.5 33.8 + - + +
39C ARG* 3.8 8.8 + - - +
48C CYS* 5.6 1.1 - - - -
52C ARG* 3.4 46.9 - - - -
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Residues in contact with TYR 36 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C SER 3.1 14.9 + - - +
33C LEU 3.1 8.7 + - - +
35C PHE* 1.3 74.6 - - - +
37C PHE* 1.3 82.8 + + - +
38C ASP 3.1 0.7 - - - -
39C ARG* 3.0 62.4 + - - +
42C VAL* 3.6 26.0 - - + +
87C ASP 4.5 4.9 - - - +
88C GLU* 3.9 18.7 + - + +
89C TRP* 3.6 33.2 - + + -
90C GLY* 2.9 40.7 + - - -
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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