Contacts of the helix formed by residues 64 - 87 (chain D) in PDB entry 1EN5
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 PRO 64 (chain D).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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45D LEU* 4.4 18.6 - - + -
48D PHE* 5.0 4.3 - - + -
62D GLN 4.4 2.7 - - - +
63D LEU* 1.3 91.7 - - + +
65D ALA* 1.3 65.8 + - - +
66D ASP* 3.2 13.0 - - - +
67D LYS* 2.8 37.7 + - + -
68D LYS 3.2 8.8 + - - -
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Residues in contact with ALA 65 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63D LEU 3.5 3.3 + - - -
64D PRO* 1.3 71.0 - - - +
66D ASP* 1.3 58.2 + - - +
67D LYS 3.2 4.0 + - - -
68D LYS* 3.5 22.1 + - - +
69D THR* 4.7 2.6 + - - -
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Residues in contact with ASP 66 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64D PRO* 3.5 20.6 - - - +
65D ALA* 1.3 74.1 + - - +
67D LYS* 1.3 77.1 + - - +
68D LYS 3.7 0.2 - - - -
69D THR 5.4 0.7 - - - -
70D VAL* 4.4 5.7 - - - +
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Residues in contact with LYS 67 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40D ALA 4.8 2.0 + - - -
41D ALA* 3.3 41.7 + - + +
44D SER* 3.3 22.7 + - - -
45D LEU* 4.4 9.0 - - + -
63D LEU* 4.9 1.8 - - + -
64D PRO* 2.8 32.7 + - + +
66D ASP* 1.3 95.2 - - - +
68D LYS* 1.3 65.8 + - - +
69D THR 3.5 2.0 - - - -
70D VAL* 3.1 21.9 - - + +
71D LEU* 3.2 24.5 + - + +
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Residues in contact with LYS 68 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136A ASP* 2.6 43.6 + - - +
60D LEU* 3.2 40.1 - - + +
61D ASP* 3.1 30.8 + - - +
63D LEU* 4.5 16.5 + - + +
64D PRO 3.2 6.7 + - - +
65D ALA* 3.5 18.1 + - - +
67D LYS* 1.3 78.0 - - - +
69D THR* 1.3 60.2 + - - +
71D LEU* 4.1 1.6 - - - +
72D ARG* 3.0 30.4 + - + +
155D ILE* 5.4 3.1 - - - -
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Residues in contact with THR 69 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65D ALA 4.7 2.2 + - - -
66D ASP 5.4 0.6 - - - -
67D LYS 3.5 0.2 - - - -
68D LYS* 1.3 76.9 - - - +
70D VAL* 1.3 67.2 + - - +
72D ARG* 3.2 12.9 + - + +
73D ASN* 3.0 42.7 + - - +
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Residues in contact with VAL 70 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37D ASN* 4.5 7.9 - - + +
41D ALA* 4.2 28.5 - - + -
66D ASP 4.4 5.6 - - - +
67D LYS* 3.1 32.3 - - + +
69D THR* 1.3 76.4 - - - +
71D LEU* 1.3 57.1 + - + +
73D ASN* 4.0 2.6 - - - +
74D ASN* 2.8 50.5 + - + +
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Residues in contact with LEU 71 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38D ALA* 4.0 30.5 - - + +
41D ALA* 4.2 14.1 - - + -
42D LEU* 4.1 27.6 - - + -
45D LEU* 4.2 15.7 - - + -
56D LEU* 4.4 5.6 - - + -
60D LEU* 4.7 4.0 - - + +
63D LEU* 3.8 26.7 - - + -
67D LYS* 3.2 21.0 + - + +
68D LYS 4.1 2.2 - - - +
69D THR 3.2 0.4 - - - -
70D VAL* 1.3 76.7 - - - +
72D ARG* 1.3 63.9 + - - +
73D ASN 3.2 0.4 - - - -
75D ALA* 2.7 48.8 + - + +
76D GLY 3.4 0.2 + - - -
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Residues in contact with ARG 72 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60D LEU* 4.1 18.1 - - + +
68D LYS 3.0 19.9 + - - +
69D THR* 3.6 13.8 + - - +
71D LEU* 1.3 76.1 - - - +
73D ASN* 1.3 69.1 + - - +
76D GLY* 3.2 20.1 + - - -
146D GLN 4.1 2.9 - - - +
147D ASP* 2.8 41.8 + - - +
151D MET* 3.4 18.9 - - + +
155D ILE* 3.0 39.1 + - - +
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Residues in contact with ASN 73 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124C PHE* 3.4 56.0 - - + +
34D PHE* 4.1 0.9 - - - -
69D THR* 3.0 37.1 + - - +
70D VAL* 4.0 4.1 - - - +
72D ARG* 1.3 88.4 + - - +
74D ASN* 1.3 64.1 + - - +
77D GLY* 3.0 18.9 + - - -
145D ASN* 5.2 3.1 + - - +
146D GLN* 3.4 16.9 + - - +
147D ASP* 5.0 2.4 - - - +
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Residues in contact with ASN 74 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124C PHE* 5.0 4.0 - - - -
34D PHE* 3.4 41.7 - - - +
37D ASN* 3.3 33.1 + - - +
38D ALA* 3.8 12.3 - - + +
70D VAL* 2.8 43.8 + - - +
73D ASN* 1.3 80.2 - - - +
75D ALA* 1.3 61.6 + - - +
76D GLY 3.1 0.9 - - - -
77D GLY* 3.2 1.0 + - - -
78D HIS* 2.9 27.7 + - - +
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Residues in contact with ALA 75 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2D TYR* 4.5 3.6 - - + +
38D ALA* 4.2 6.3 - - - +
53D VAL* 3.4 22.3 - - + +
56D LEU* 3.9 28.0 - - + -
57D ILE* 4.1 9.6 - - + -
60D LEU* 6.0 0.7 - - + -
71D LEU* 2.7 30.4 + - + +
74D ASN* 1.3 73.7 - - - +
76D GLY* 1.3 56.5 + - - +
78D HIS* 3.3 3.8 + - - -
79D ALA* 2.9 26.3 + - - +
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Residues in contact with GLY 76 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57D ILE* 4.2 6.0 - - - +
71D LEU 3.4 0.2 + - - -
72D ARG 3.2 21.1 + - - -
74D ASN 3.1 0.4 - - - -
75D ALA* 1.3 80.8 - - - +
77D GLY* 1.3 55.2 + - - +
79D ALA* 3.3 2.4 + - - +
80D ASN* 2.9 36.8 + - - +
146D GLN 3.6 15.5 - - - -
148D SER* 5.8 0.2 - - - -
151D MET* 3.9 11.4 - - - -
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Residues in contact with GLY 77 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34D PHE* 3.9 14.9 - - - -
73D ASN 3.0 20.2 + - - -
74D ASN 3.2 2.6 + - - -
76D GLY* 1.3 76.6 - - - +
78D HIS* 1.3 60.0 + - - +
81D HIS* 2.7 32.5 + - - +
146D GLN* 3.5 23.9 - - - +
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Residues in contact with HIS 78 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2D TYR* 3.7 41.3 - + + +
3D THR 3.7 21.1 + - - -
5D PRO* 3.9 3.8 - - + -
31D HIS* 2.9 32.5 + - - -
34D PHE* 4.0 4.4 - - + +
35D VAL* 3.5 18.9 - - + +
38D ALA* 5.5 0.4 - - + -
53D VAL* 3.8 23.1 - - + +
74D ASN 2.9 15.7 + - - +
75D ALA* 3.6 6.7 - - - +
77D GLY* 1.3 74.6 - - - +
79D ALA* 1.3 62.9 + - - +
82D SER* 2.8 47.1 + - - -
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Residues in contact with ALA 79 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53D VAL* 4.1 24.2 - - + +
54D GLU* 5.0 10.2 - - + +
57D ILE* 4.1 25.4 - - + -
75D ALA 2.9 17.4 + - - +
76D GLY 3.7 3.1 - - - +
78D HIS* 1.3 77.6 - - - +
80D ASN* 1.3 65.7 + - - +
82D SER* 3.7 4.0 - - - -
83D LEU* 3.2 24.4 + - - +
150D LEU* 6.0 0.7 - - + -
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Residues in contact with ASN 80 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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76D GLY 2.9 15.5 + - - +
77D GLY 4.2 0.2 - - - +
79D ALA* 1.3 78.3 - - - +
81D HIS* 1.3 57.3 - - - +
83D LEU* 3.4 7.8 + - - +
84D PHE* 2.9 25.6 + - - +
128D TRP* 3.5 31.5 - - + +
130D TRP* 3.3 24.9 - - + -
146D GLN* 3.0 44.3 + - - +
147D ASP 3.5 8.1 + - - -
148D SER* 3.4 17.3 + - - -
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Residues in contact with HIS 81 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26D HIS* 3.0 20.9 + + - -
30D HIS* 5.3 0.6 - - - +
31D HIS* 3.6 28.7 - + + +
34D PHE* 3.5 25.3 - + - -
77D GLY 2.7 27.1 + - - +
80D ASN* 1.3 72.8 - - - +
82D SER* 1.3 67.7 + - - +
84D PHE* 3.1 7.3 + + - +
85D TRP* 3.0 41.4 + + - +
128D TRP* 3.7 13.2 - + - -
146D GLN* 3.6 15.2 + - - -
167D ASP* 3.4 1.7 + - - -
171D HIS* 4.1 0.2 + - - -
504D MN 2.2 35.8 + - - -
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Residues in contact with SER 82 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5D PRO* 3.8 10.5 - - - +
31D HIS* 3.5 6.4 - - - -
53D VAL* 5.9 0.9 - - - -
54D GLU* 5.1 8.7 - - - -
78D HIS* 2.8 42.8 + - - -
79D ALA* 3.7 5.6 - - - -
81D HIS* 1.3 77.1 - - - +
83D LEU* 1.3 61.8 + - - +
85D TRP* 3.6 11.9 + - - +
86D LYS* 3.6 26.2 + - - +
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Residues in contact with LEU 83 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79D ALA 3.2 14.7 + - - +
80D ASN* 3.6 5.4 - - - +
82D SER* 1.3 78.6 - - - +
84D PHE* 1.3 67.4 + - - +
86D LYS* 3.4 7.3 + - - +
87D GLY* 3.1 20.6 + - - +
128D TRP* 6.2 0.7 - - + -
130D TRP* 4.2 15.5 - - + -
150D LEU* 6.4 1.3 - - + -
162D PRO* 3.8 22.2 - - + +
163D ILE 5.2 0.9 - - - +
164D MET* 4.6 7.9 - - - -
165D GLY* 4.3 21.3 - - - +
200D ARG* 3.8 39.7 - - - +
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Residues in contact with PHE 84 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18D PHE* 4.3 11.0 - + - -
23D MET* 6.0 0.9 - - - -
26D HIS* 4.1 24.2 - + - -
80D ASN 2.9 14.8 + - - +
81D HIS* 3.1 10.5 + + - +
83D LEU* 1.3 78.8 - - - +
85D TRP* 1.3 85.8 + + - +
87D GLY* 3.0 12.2 + - - +
88D LEU* 3.3 47.1 + - + +
128D TRP* 3.8 19.7 - + + -
165D GLY 3.5 25.1 - - - -
166D LEU* 4.1 6.5 - - + -
167D ASP* 3.9 14.6 - - + -
172D ALA* 5.6 0.2 - - + -
184D TYR* 4.0 19.7 - - - -
188D PHE* 4.5 0.7 - + - -
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Residues in contact with TRP 85 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5D PRO* 4.5 8.7 - - + -
6D SER 5.9 0.4 - - - -
7D LEU* 3.4 32.5 - - + -
8D PRO* 4.2 8.7 - - + +
9D TYR* 2.8 30.6 + - - +
23D MET* 4.0 28.3 - - + -
26D HIS* 3.6 42.0 - + + -
27D HIS* 3.7 29.1 - + + -
31D HIS* 2.8 33.9 + + - -
81D HIS* 3.0 29.1 + + - +
82D SER* 4.0 7.0 - - - +
84D PHE* 1.3 94.4 - + - +
86D LYS* 1.3 64.2 + - + +
87D GLY 3.4 0.7 + - - -
88D LEU* 3.4 6.0 + - + -
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Residues in contact with LYS 86 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8D PRO* 4.4 18.2 - - + -
82D SER* 3.6 12.5 + - - +
83D LEU* 3.4 10.2 + - - +
84D PHE 3.2 0.8 - - - -
85D TRP* 1.3 80.9 - - + +
87D GLY* 1.3 58.2 + - - +
88D LEU 3.2 3.5 + - - +
193D ASN* 3.6 10.2 + - - -
196D GLU* 3.4 39.2 - - + +
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Residues in contact with GLY 87 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83D LEU* 3.1 13.6 + - - -
84D PHE* 3.0 9.6 + - - -
86D LYS* 1.3 76.4 - - - +
88D LEU* 1.3 59.4 + - - +
164D MET* 5.5 7.6 - - - +
188D PHE* 5.2 1.6 - - - -
192D VAL* 3.7 8.5 - - - +
193D ASN* 2.7 34.2 + - - +
196D GLU* 4.6 7.2 - - - -
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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
------------------------------------------------------------
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