Contacts of the helix formed by residues 45 - 72 (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 GLU 45 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B PHE 5.0 0.7 - - - -
43B ALA 3.8 4.3 + - - +
44B LEU* 1.3 69.9 - - - +
46B GLY* 1.3 61.7 + - - +
48B CYS* 3.2 9.0 + - + +
49B HIS* 2.8 44.9 + - + +
167B GLU* 3.4 7.4 + - - +
168B ARG* 3.8 9.4 + - - +
172B LYS* 3.1 32.8 + - + +
174F ASP* 3.6 13.5 - - - +
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Residues in contact with GLY 46 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B GLU* 1.3 72.9 - - - +
47B VAL* 1.3 56.2 + - - +
49B HIS* 3.3 7.6 + - - +
50B PHE* 2.9 28.4 + - - +
167B GLU* 2.6 25.5 + - - -
171B LEU* 3.9 27.8 - - - +
172B LYS* 4.9 4.4 - - - +
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Residues in contact with VAL 47 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B PHE* 3.7 30.1 - - + -
44B LEU* 3.1 23.5 + - + +
46B GLY* 1.3 74.5 - - - +
48B CYS* 1.3 66.3 + - - +
50B PHE* 3.2 6.0 + - + +
51B PHE* 3.1 41.0 + - + -
92B THR* 3.8 29.4 - - + +
96B MET* 5.6 0.9 - - + -
166B PHE* 5.3 0.2 - - + -
167B GLU* 4.0 6.7 - - + +
171B LEU* 3.7 23.6 - - + -
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Residues in contact with CYS 48 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B GLY* 3.4 30.2 - - - +
35B PHE* 5.2 0.9 - - - -
37B PHE* 3.7 13.1 - - + +
38B ASP* 4.3 14.1 - - + +
44B LEU 2.9 13.0 + - - +
45B GLU* 3.4 11.9 - - + +
47B VAL* 1.3 76.6 - - - +
49B HIS* 1.3 69.1 + - - +
51B PHE* 3.2 0.9 + - - -
52B ARG* 2.9 44.8 + - - +
67E LYS* 4.5 11.4 - - - -
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Residues in contact with HIS 49 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B GLU* 2.8 34.7 + - + +
46B GLY* 3.7 9.6 - - - +
48B CYS* 1.3 76.3 - - - +
50B PHE* 1.3 63.6 + - - +
52B ARG* 3.2 8.7 + - + +
53B GLU* 2.9 44.5 + - + +
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Residues in contact with PHE 50 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46B GLY 2.9 13.5 + - - +
47B VAL* 3.2 12.1 + - + +
49B HIS* 1.3 77.8 - - - +
51B PHE* 1.3 93.4 + + - +
53B GLU* 3.4 10.6 + - - +
54B LEU* 3.4 37.9 + - + +
96B MET* 3.5 29.2 - - + -
140B LEU* 4.9 1.3 - - + -
143B LYS* 4.1 23.1 - - + -
144B MET* 4.1 16.6 - - + -
147B HIS* 3.9 29.8 - + - -
171B LEU* 4.4 13.5 - - + -
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Residues in contact with PHE 51 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B TYR* 3.4 35.6 - + + +
33B LEU* 4.0 17.5 - - + -
34B GLY* 3.6 21.3 - - - +
37B PHE* 4.2 5.8 - + - -
47B VAL* 3.1 40.8 + - + +
50B PHE* 1.3 102.3 - + - +
52B ARG* 1.3 65.5 + - - +
54B LEU* 3.3 4.8 + - + +
55B ALA* 3.0 18.2 + - - +
92B THR* 6.1 0.2 - - + -
95B ALA* 3.9 35.9 - - + -
96B MET* 4.4 7.6 - - + -
99B ALA* 3.7 21.3 - - + -
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Residues in contact with ARG 52 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B TYR 4.9 0.7 - - - -
31B LEU* 4.7 9.5 - - - +
34B GLY* 4.1 9.0 - - - -
35B PHE* 3.4 45.7 - - - -
48B CYS* 2.9 36.4 + - - +
49B HIS* 3.7 11.4 - - + +
51B PHE* 1.3 76.5 - - - +
53B GLU* 1.3 62.1 + - + +
55B ALA* 3.2 16.4 + - - +
56B GLU* 3.2 12.8 + - - +
63E GLU* 2.8 36.6 + - - +
67E LYS* 4.5 13.3 - - - +
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Residues in contact with GLU 53 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B HIS* 2.9 40.4 + - + +
50B PHE* 3.8 8.4 + - - +
52B ARG* 1.3 76.0 - - - +
54B LEU* 1.3 57.6 + - + +
56B GLU* 3.2 9.1 + - - +
57B GLU* 2.9 32.5 + - - +
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Residues in contact with LEU 54 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B TYR* 3.7 28.7 - - + -
50B PHE* 3.4 20.8 + - + +
51B PHE* 3.3 20.1 + - + +
52B ARG 3.3 0.6 - - - -
53B GLU* 1.3 73.9 - - + +
55B ALA* 1.3 67.3 + - - +
57B GLU* 3.1 18.4 + - + +
58B LYS* 2.9 31.9 + - - +
140B LEU* 3.7 35.2 - - + -
143B LYS* 5.8 1.1 - - - +
144B MET* 3.5 26.9 - - + -
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Residues in contact with ALA 55 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27B SER* 2.9 36.7 + - - +
30B TYR* 3.6 22.1 - - + +
31B LEU* 3.8 18.8 - - + +
51B PHE 3.0 9.0 + - - +
52B ARG* 3.3 12.6 - - - +
54B LEU* 1.3 75.1 - - - +
56B GLU* 1.3 64.0 + - - +
58B LYS* 3.2 0.9 + - - +
59B ARG* 3.1 10.7 + - - +
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Residues in contact with GLU 56 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52B ARG 3.2 8.1 + - - +
53B GLU* 3.4 11.2 - - - +
54B LEU 3.2 0.2 - - - -
55B ALA* 1.3 80.9 - - - +
57B GLU* 1.3 61.8 + - - +
59B ARG* 3.1 36.3 + - - +
60B GLU* 3.1 42.0 + - - +
59E ARG* 5.5 6.9 + - - +
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Residues in contact with GLU 57 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B TYR* 5.4 0.2 - - - -
53B GLU* 2.9 18.1 + - - +
54B LEU* 3.1 26.5 + - + +
56B GLU* 1.3 75.7 + - - +
58B LYS* 1.3 63.3 + - + +
60B GLU* 3.3 14.7 + - - +
61B GLY* 2.9 23.6 + - - -
136B GLU* 4.0 29.8 - - - +
140B LEU* 5.0 6.8 - - - +
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Residues in contact with LYS 58 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B TYR* 3.5 34.4 - - + +
26B ALA* 4.1 4.5 - - + -
27B SER* 3.7 21.1 - - - +
30B TYR* 4.0 17.3 - - + -
54B LEU* 2.9 26.9 + - - +
55B ALA 3.7 2.0 - - - +
57B GLU* 1.3 73.1 + - - +
59B ARG* 1.3 66.7 + - - +
61B GLY 3.1 1.2 + - - -
62B ALA* 3.0 21.3 + - - +
103B GLU* 2.8 41.5 + - - -
106B LEU* 3.8 13.0 - - + +
136B GLU* 4.6 10.1 + - - -
137B GLU* 3.3 15.6 + - - -
140B LEU* 4.1 10.6 - - - +
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Residues in contact with ARG 59 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B LEU* 4.7 10.5 - - + -
27B SER* 3.5 19.1 + - - +
55B ALA 3.1 10.5 + - - +
56B GLU* 3.1 37.3 + - - +
58B LYS* 1.3 74.3 - - - +
60B GLU* 1.3 88.3 + - - +
62B ALA* 3.3 8.5 + - - +
63B GLU* 3.0 50.2 + - + +
31E LEU* 6.2 0.9 - - + -
56E GLU* 4.8 10.4 + - - +
59E ARG* 3.5 47.0 - - - +
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Residues in contact with GLU 60 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56B GLU* 3.1 29.5 + - - +
57B GLU* 3.5 17.7 + - - +
59B ARG* 1.3 101.6 + - - +
61B GLY* 1.3 61.2 + - - +
63B GLU* 3.1 10.0 + - - +
64B ARG* 2.9 24.0 + - - +
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Residues in contact with GLY 61 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B TYR* 4.1 10.1 - - - -
57B GLU 2.9 14.8 + - - -
58B LYS 3.1 3.7 + - - -
60B GLU* 1.3 73.9 - - - +
62B ALA* 1.3 61.5 + - - +
64B ARG* 3.2 9.5 + - - +
65B LEU* 3.0 21.5 + - - +
133B PHE* 3.6 26.4 - - - -
136B GLU* 6.0 1.3 - - - -
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Residues in contact with ALA 62 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20B VAL* 4.2 13.4 - - + +
23B TYR* 3.8 18.4 - - + +
24B LEU* 3.5 29.8 - - + -
58B LYS 3.0 9.9 + - - +
59B ARG 3.4 8.5 - - - +
61B GLY* 1.3 75.5 - - - +
63B GLU* 1.3 57.7 + - + +
65B LEU* 3.3 8.9 + - - +
66B LEU* 3.0 32.5 + - + +
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Residues in contact with GLU 63 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24B LEU* 6.3 0.2 - - + -
59B ARG* 3.0 49.2 + - + +
60B GLU* 3.1 10.8 + - - +
62B ALA* 1.3 73.8 - - + +
64B ARG* 1.3 63.6 + - - +
66B LEU* 3.4 8.3 + - + +
67B LYS* 2.9 25.8 + - - +
31E LEU* 3.9 27.9 - - + +
35E PHE* 3.9 9.1 - - + -
52E ARG* 2.9 30.1 + - - +
56E GLU* 4.4 7.7 - - - +
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Residues in contact with ARG 64 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60B GLU 2.9 11.9 + - - +
61B GLY* 3.3 12.3 - - - +
63B GLU* 1.3 75.7 - - - +
65B LEU* 1.3 63.6 + - - +
67B LYS* 3.3 6.1 + - - +
68B MET* 3.0 22.5 + - - +
128B PHE* 3.8 17.2 - - + -
132B HIS* 3.6 56.2 + - - +
133B PHE* 3.8 9.9 - - + -
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Residues in contact with LEU 65 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16B VAL* 4.1 13.0 - - + +
19B LEU* 3.8 47.3 - - + -
20B VAL* 3.7 15.0 - - + +
23B TYR* 4.1 15.7 - - + -
61B GLY 3.0 18.3 + - - +
62B ALA* 3.3 6.9 + - - +
64B ARG* 1.3 76.8 - - - +
66B LEU* 1.3 56.0 + - - +
68B MET* 3.2 17.3 + - + +
69B GLN* 2.9 30.1 + - - +
128B PHE* 3.7 22.9 - - + -
129B LEU* 4.7 4.5 - - + -
133B PHE* 3.8 13.9 - - + -
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Residues in contact with LEU 66 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17B ASN* 5.1 3.1 - - - +
20B VAL* 3.6 37.0 - - + -
62B ALA* 3.0 24.4 + - + +
63B GLU* 3.6 6.1 - - - +
65B LEU* 1.3 75.1 - - - +
67B LYS* 1.3 61.6 + - - +
69B GLN* 3.2 8.0 + - + +
70B ASN* 3.1 24.4 + - - +
76B ALA* 4.0 25.4 - - + -
78B PHE* 4.0 22.0 - - + -
31E LEU* 4.1 11.7 - - + -
35E PHE* 4.0 37.1 - - + +
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Residues in contact with LYS 67 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B GLU 2.9 17.8 + - - +
64B ARG* 3.6 6.5 - - - +
66B LEU* 1.3 73.8 - - - +
68B MET* 1.3 57.5 + - - +
70B ASN* 3.4 4.5 + - - +
71B GLN* 3.0 55.6 + - + +
139C LYS* 4.8 8.5 - - - +
35E PHE* 3.8 16.6 - - + -
38E ASP* 4.3 17.9 - - - +
52E ARG* 5.8 5.2 - - - +
----------------------------------------------------------
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Residues in contact with MET 68 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B TYR* 4.2 10.5 - - - -
16B VAL* 3.9 19.5 - - + -
64B ARG 3.0 13.1 + - - +
65B LEU* 3.4 14.6 - - + +
67B LYS* 1.3 72.9 - - - +
69B GLN* 1.3 65.4 + - - +
71B GLN* 3.0 14.2 + - - +
72B ARG* 3.0 47.3 + - + +
124B HIS* 4.5 12.3 - - + -
125B LEU* 3.7 24.0 - - + -
128B PHE* 3.5 51.1 - - + -
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Residues in contact with GLN 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8B TYR* 2.8 42.4 + - - -
13B GLU* 3.2 21.1 + - - +
16B VAL* 3.8 13.3 - - + +
17B ASN* 2.9 31.5 + - - +
65B LEU 2.9 12.9 + - - +
66B LEU* 3.3 14.6 - - + +
68B MET* 1.3 76.5 - - - +
70B ASN* 1.3 63.5 + - - +
72B ARG* 3.4 1.6 + - - +
73B GLY 3.2 2.4 + - - -
74B GLY* 2.8 39.9 + - - -
75B ARG 3.7 8.4 + - - -
76B ALA* 3.9 18.4 - - + +
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Residues in contact with ASN 70 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4B ILE* 3.8 4.9 - - - +
66B LEU 3.1 6.1 + - - +
67B LYS 3.6 5.6 - - - +
69B GLN* 1.3 83.3 - - - +
71B GLN* 1.3 60.4 + - - +
73B GLY* 3.4 9.7 + - - -
74B GLY 4.0 10.8 - - - +
75B ARG* 4.3 4.3 + - - +
76B ALA* 5.3 5.4 + - - +
142C LYS* 3.5 15.4 - - + +
35E PHE* 3.0 37.4 + - - +
38E ASP* 2.9 43.0 + - - +
39E ARG* 3.6 21.8 - - - +
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Residues in contact with GLN 71 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4B ILE* 3.4 13.9 - - - +
67B LYS* 3.0 40.4 + - + +
68B MET* 3.0 15.9 + - - +
70B ASN* 1.3 75.8 - - + +
72B ARG* 1.3 62.3 + - + +
124B HIS* 4.9 4.8 - - - -
128B PHE* 6.1 2.0 - - - -
135C ASP* 4.4 5.3 + - - -
138C VAL* 3.8 35.1 - - + +
139C LYS* 3.7 39.8 + - - +
142C LYS* 3.5 21.6 - - + +
----------------------------------------------------------
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Residues in contact with ARG 72 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4B ILE* 4.3 3.4 - - - +
5B ARG* 3.4 25.6 - - - +
6B GLN* 2.7 26.9 + - - +
7B ASN* 2.9 22.0 + - - +
8B TYR* 3.6 41.6 - - + +
68B MET* 3.0 32.5 + - + +
69B GLN 3.8 4.5 - - - +
71B GLN* 1.3 76.3 - - - +
73B GLY* 1.3 59.5 + - - +
122B ASP* 2.7 32.5 + - - -
124B HIS* 3.6 31.4 + - + +
125B LEU* 5.2 1.6 - - - +
107C ASN* 5.8 1.0 + - - -
138C VAL* 4.0 21.1 - - + +
----------------------------------------------------------
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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