Contacts of the helix formed by residues 10 - 36 (chain B) 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 B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ARG* 3.7 17.5 - - - +
9B SER* 1.3 75.4 - - - +
11B GLU* 1.3 64.9 + - - +
13B GLU* 3.6 8.9 - - - +
14B ALA* 3.1 24.8 + - - +
205B CD 2.5 28.8 - - - -
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Residues in contact with GLU 11 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9B SER* 3.2 20.0 - - - +
10B THR* 1.3 84.0 + - - +
12B VAL* 1.3 57.6 + - - +
14B ALA* 3.6 4.8 + - - +
15B ALA* 3.1 26.7 + - - +
116B LEU* 3.6 22.8 - - + +
120B GLN* 3.5 17.5 - - - +
205B CD 2.2 31.1 - - - -
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Residues in contact with VAL 12 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B TYR* 3.5 25.8 - - + -
9B SER* 3.3 22.3 + - - +
11B GLU* 1.3 73.1 - - - +
13B GLU* 1.3 66.7 + - - +
15B ALA* 3.0 1.4 + - - -
16B VAL* 2.8 27.0 + - + +
113B LEU* 4.4 1.3 - - + -
116B LEU* 3.9 21.8 - - + -
117B GLY* 4.5 5.6 - - - -
120B GLN* 4.2 11.9 - - + -
122B ASP* 4.4 8.5 - - - +
125B LEU* 3.7 37.7 - - + -
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Residues in contact with GLU 13 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5B ARG* 2.8 35.5 + - - +
8B TYR* 3.8 16.8 - - + -
9B SER 3.0 16.0 + - - +
10B THR* 3.6 13.1 - - - +
12B VAL* 1.3 76.3 - - - +
14B ALA* 1.3 62.4 + - - +
16B VAL 3.4 0.2 + - - -
17B ASN* 3.1 21.2 + - - +
69B GLN* 3.2 27.0 + - - +
74B GLY* 4.0 0.4 - - - -
75B ARG* 2.9 36.4 + - - +
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Residues in contact with ALA 14 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10B THR 3.1 15.1 + - - +
11B GLU* 3.8 5.6 - - - +
13B GLU* 1.3 80.9 - - - +
15B ALA* 1.3 61.4 + - - +
17B ASN* 3.2 11.8 + - - +
18B ARG* 3.1 21.1 + - - +
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Residues in contact with ALA 15 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11B GLU 3.1 17.6 + - - +
12B VAL 3.0 2.5 + - - +
14B ALA* 1.3 73.2 - - - +
16B VAL* 1.3 60.8 + - - +
18B ARG* 3.3 18.9 + - - +
19B LEU* 2.9 27.7 + - - +
113B LEU* 3.5 28.0 - - + +
116B LEU* 3.9 10.1 - - + -
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Residues in contact with VAL 16 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B TYR* 3.6 14.4 - - - +
12B VAL* 2.8 29.3 + - + +
13B GLU 3.7 4.5 - - - +
15B ALA* 1.3 72.4 - - - +
17B ASN* 1.3 67.7 + - - +
19B LEU* 2.9 8.1 + - - +
20B VAL* 2.9 25.3 + - + +
65B LEU* 4.1 29.6 - - + +
68B MET* 3.9 21.8 - - + -
69B GLN* 3.8 19.7 - - + +
113B LEU* 4.3 14.8 - - + -
125B LEU* 4.3 0.7 - - + -
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Residues in contact with ASN 17 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13B GLU* 3.1 14.6 + - - +
14B ALA* 3.4 12.9 - - - +
16B VAL* 1.3 80.2 - - - +
18B ARG* 1.3 58.4 + - - +
20B VAL* 3.5 8.4 + - - +
21B ASN* 3.5 17.0 + - - +
66B LEU* 5.1 4.2 - - - +
69B GLN* 2.9 18.6 + - - +
75B ARG 2.9 22.8 + - - -
76B ALA* 3.4 6.2 - - - +
77B LEU* 3.2 48.3 + - + +
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Residues in contact with ARG 18 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14B ALA 3.1 12.0 + - - +
15B ALA* 3.7 24.2 + - - +
16B VAL 3.2 0.2 - - - -
17B ASN* 1.3 73.3 - - - +
19B LEU* 1.3 72.0 + - - +
20B VAL 3.3 0.2 - - - -
21B ASN* 3.3 8.9 + - + +
22B LEU* 3.1 40.4 + - + +
109B ALA* 3.8 31.3 + - - +
112B ASP* 5.3 6.3 + - - +
113B LEU* 6.1 1.8 - - - +
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Residues in contact with LEU 19 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15B ALA 2.9 15.8 + - - +
16B VAL* 2.9 6.6 + - - +
18B ARG* 1.3 80.3 - - - +
20B VAL* 1.3 63.7 + - - +
22B LEU* 3.2 8.8 + - + +
23B TYR* 2.9 42.9 + - + -
65B LEU* 3.8 25.4 - - + -
106B LEU* 4.8 1.6 - - + +
109B ALA* 3.6 35.2 - - + +
110B LEU* 3.7 24.0 - - + +
113B LEU* 3.5 29.8 - - + -
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Residues in contact with VAL 20 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16B VAL* 2.9 22.1 + - + +
17B ASN* 3.5 12.6 - - - +
19B LEU* 1.3 75.5 - - - +
21B ASN* 1.3 62.6 + - - +
23B TYR* 3.3 5.4 + - - +
24B LEU* 2.9 41.9 + - + +
62B ALA* 4.2 6.0 - - + +
65B LEU* 3.7 27.6 - - + -
66B LEU* 3.6 41.1 - - + +
77B LEU 5.6 2.5 - - - +
78B PHE* 4.2 9.2 - - + -
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Residues in contact with ASN 21 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B ASN 3.5 8.7 + - - +
18B ARG* 3.3 12.9 + - + +
19B LEU 3.2 0.4 - - - -
20B VAL* 1.3 79.2 - - - +
22B LEU* 1.3 63.5 + - + +
24B LEU* 3.2 7.6 + - - +
25B ARG* 2.8 37.9 + - - +
79B GLN* 3.6 29.1 + - + +
80B ASP 3.2 26.0 + - - +
81B LEU* 3.8 10.0 - - - +
82B GLN 5.7 0.2 + - - -
28E TYR* 4.6 0.8 + - - -
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Residues in contact with LEU 22 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18B ARG* 3.1 41.5 + - + +
19B LEU* 3.2 13.2 + - + +
21B ASN* 1.3 80.6 - - - +
23B TYR* 1.3 58.3 + - - +
25B ARG* 3.5 6.1 + - - +
26B ALA* 2.9 27.4 + - - +
102B LEU* 5.9 0.3 - - - +
105B SER* 4.8 7.0 - - - +
106B LEU* 3.9 22.7 - - + +
109B ALA* 3.7 30.7 - - + -
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Residues in contact with TYR 23 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19B LEU* 2.9 46.5 + - + +
20B VAL 3.7 3.6 - - - +
22B LEU* 1.3 72.3 - - - +
24B LEU* 1.3 60.9 + - - +
26B ALA* 3.0 6.7 + - - +
27B SER* 2.9 30.2 + - - -
57B GLU 5.4 0.2 - - - -
58B LYS* 3.5 48.8 - - + +
61B GLY* 4.1 4.7 - - - -
62B ALA* 3.8 24.2 - - + -
65B LEU* 4.1 11.0 - - + -
106B LEU* 4.2 18.0 - - + +
110B LEU* 3.7 19.1 - - + +
133B PHE* 3.4 32.4 - + - -
136B GLU* 5.5 4.1 + - - -
137B GLU* 3.9 11.1 + - - -
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Residues in contact with LEU 24 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B VAL* 2.9 34.9 + - + +
21B ASN* 3.6 4.7 - - - +
23B TYR* 1.3 76.5 - - - +
25B ARG* 1.3 61.2 + - - +
27B SER* 3.1 8.7 - - - -
28B TYR* 3.0 21.1 + - - +
59B ARG* 4.7 17.3 - - + +
62B ALA* 3.5 22.4 - - + -
63B GLU* 6.3 0.4 - - + -
78B PHE* 4.3 1.1 - - + -
81B LEU* 4.0 23.8 - - + +
28E TYR* 3.8 31.4 - - + +
31E LEU* 4.2 19.7 - - + -
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Residues in contact with ARG 25 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21B ASN* 2.8 29.3 + - - +
22B LEU* 3.8 6.1 - - - +
24B LEU* 1.3 74.4 - - - +
26B ALA* 1.3 55.9 + - - +
28B TYR* 3.3 7.3 + - + +
29B THR* 2.9 34.2 + - - +
81B LEU* 4.4 9.3 - - + +
82B GLN* 3.2 57.5 + - - +
83B LYS 3.2 20.4 + - - -
84B PRO* 5.1 0.7 - - - -
85B SER* 3.9 20.8 - - - +
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Residues in contact with ALA 26 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22B LEU 2.9 15.9 + - - +
23B TYR 3.0 8.3 + - - +
25B ARG* 1.3 70.7 - - - +
27B SER* 1.3 66.7 + - - +
29B THR* 3.2 3.7 + - - -
30B TYR* 2.9 31.2 + - + -
58B LYS* 4.1 9.0 - - + -
102B LEU* 4.2 23.5 - - + +
106B LEU* 3.9 27.4 - - + -
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Residues in contact with SER 27 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B TYR 2.9 11.3 + - - -
24B LEU* 3.1 16.6 - - - -
26B ALA* 1.3 75.8 - - - +
28B TYR* 1.3 61.7 + - - -
30B TYR* 3.1 4.3 + - - +
31B LEU* 3.0 23.1 + - - +
55B ALA* 2.9 31.7 + - - +
58B LYS* 3.7 12.4 - - - +
59B ARG* 3.5 17.5 + - - +
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Residues in contact with TYR 28 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B LEU 3.0 14.0 + - - +
25B ARG* 3.3 9.6 + - - +
27B SER* 1.3 75.0 - - - +
29B THR* 1.3 62.4 + - - +
31B LEU* 3.4 16.0 + - + +
32B SER* 3.2 20.6 + - - -
81B LEU* 4.5 12.1 - - + -
82B GLN 3.8 17.5 - - - -
83B LYS* 3.8 12.8 - - - -
84B PRO* 3.7 8.1 - - + +
21E ASN* 4.6 1.9 + - - -
24E LEU* 4.0 14.8 - - + +
78E PHE* 3.4 42.7 - + + +
79E GLN 2.6 31.2 + - - -
81E LEU* 3.8 33.0 - - + +
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Residues in contact with THR 29 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25B ARG* 2.9 21.5 + - - +
26B ALA* 3.2 8.4 + - - -
28B TYR* 1.3 75.8 - - - +
30B TYR* 1.3 58.2 + - - +
32B SER* 3.3 5.0 + - - -
33B LEU* 2.9 40.2 + - + +
84B PRO* 3.8 22.5 - - + +
85B SER* 5.1 2.7 + - - +
89B TRP* 4.0 20.0 - - + -
102B LEU* 3.8 25.8 - - + +
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Residues in contact with TYR 30 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26B ALA* 2.9 23.7 + - + -
27B SER 3.7 0.9 - - - +
29B THR* 1.3 73.1 - - - +
31B LEU* 1.3 55.3 + - - +
33B LEU* 3.6 12.2 - - + +
34B GLY* 2.8 33.6 + - - -
51B PHE* 3.4 56.6 - + - +
54B LEU* 3.7 26.7 - - + -
55B ALA* 3.6 11.9 - - - +
58B LYS* 4.0 15.7 - - + -
99B ALA* 3.7 17.1 + - + -
102B LEU* 3.8 17.7 - - + +
103B GLU* 2.6 39.5 + - - +
144B MET* 3.8 5.0 - - - +
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Residues in contact with LEU 31 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B SER 3.0 12.5 + - - +
28B TYR* 3.5 27.1 - - + +
30B TYR* 1.3 74.4 - - - +
32B SER* 1.3 64.3 + - - +
34B GLY* 3.9 0.7 - - - -
35B PHE* 3.1 57.9 + - + -
52B ARG* 4.7 8.1 - - - +
55B ALA* 3.8 12.9 - - + +
24E LEU* 4.5 17.9 - - + -
59E ARG* 6.4 1.1 - - + -
63E GLU* 4.1 23.8 - - + +
66E LEU* 4.3 15.7 - - + -
78E PHE* 4.4 8.1 - - + -
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Residues in contact with SER 32 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28B TYR 3.2 10.2 + - - -
29B THR 3.4 7.9 - - - -
31B LEU* 1.3 82.3 - - - +
33B LEU* 1.3 59.8 + - - +
35B PHE* 3.9 1.6 - - - +
36B TYR* 3.1 23.2 + - - +
84B PRO* 3.9 15.4 - - - +
86B GLN 4.1 5.2 + - - -
87B ASP* 5.1 3.5 + - - -
89B TRP* 3.0 22.0 + - - -
78E PHE* 3.8 31.5 - - - -
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Residues in contact with LEU 33 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29B THR* 2.9 31.6 + - + +
30B TYR* 3.6 32.5 - - + +
32B SER* 1.3 71.3 + - - +
34B GLY* 1.3 61.7 + - - +
36B TYR* 3.2 8.5 + - - +
37B PHE* 3.1 26.1 - - + -
51B PHE* 4.0 18.4 - - + -
89B TRP* 3.6 41.3 - - + +
95B ALA* 3.6 37.0 - - + +
98B ALA* 5.5 1.8 - - + -
99B ALA* 5.0 5.6 - - + +
102B LEU* 5.5 0.4 - - + -
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Residues in contact with GLY 34 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B TYR 2.8 20.4 + - - -
31B LEU 3.9 1.1 - - - -
33B LEU* 1.3 72.0 - - - +
35B PHE* 1.3 60.0 + - - +
36B TYR 3.2 0.9 + - - -
37B PHE 3.3 9.0 + - - -
38B ASP 3.5 0.9 + - - -
48B CYS* 3.4 37.6 - - - +
51B PHE* 3.6 15.2 - - - +
52B ARG* 4.1 8.3 - - - -
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Residues in contact with PHE 35 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31B LEU* 3.1 46.9 + - + +
32B SER* 3.9 3.8 - - - +
34B GLY* 1.3 73.9 - - - +
36B TYR* 1.3 61.3 + - - +
38B ASP* 3.5 8.7 + - + -
39B ARG* 3.7 2.8 + - - +
48B CYS* 5.5 0.4 - - - -
52B ARG* 3.4 38.6 - - - -
63E GLU* 3.8 19.1 - - + -
66E LEU* 3.9 32.3 - - + +
67E LYS* 3.7 33.7 - - + -
70E ASN* 3.0 38.6 + - - +
76E ALA* 5.6 6.1 - - + -
78E PHE* 5.3 4.5 - + + -
----------------------------------------------------------
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Residues in contact with TYR 36 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32B SER 3.1 14.8 + - - +
33B LEU 3.4 8.5 - - - +
34B GLY 3.1 0.6 - - - -
35B PHE* 1.3 77.6 - - - +
37B PHE* 1.3 81.4 + + - +
38B ASP 3.1 0.2 - - - -
39B ARG* 3.2 58.1 + - - +
42B VAL* 3.6 23.9 - - + +
87B ASP 4.4 4.7 - - - +
88B GLU* 3.8 20.3 + - + +
89B TRP* 3.5 33.2 + + + -
90B GLY* 2.9 41.4 + - - -
----------------------------------------------------------
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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