Contacts of the helix formed by residues 38 - 66 (chain A) in PDB entry 1IW1
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 GLY 38 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LEU* 4.0 2.9 - - - +
37A LEU* 1.3 79.3 - - - +
39A VAL* 1.3 66.7 + - - -
40A ALA 3.2 2.9 - - - -
41A GLU* 3.0 11.4 + - - +
42A PHE* 3.1 19.4 + - - +
151A TYR* 3.5 24.3 - - - -
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Residues in contact with VAL 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A GLY* 1.3 68.9 - - - -
40A ALA* 1.3 65.9 + - + +
42A PHE* 3.2 7.9 + - + +
43A THR* 2.7 36.1 + - - +
90A LEU* 3.9 24.7 - - + +
151A TYR* 4.2 11.1 - - + +
153A VAL* 3.8 28.5 - - + -
909A SO4 4.5 15.7 - - - +
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Residues in contact with ALA 40 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A GLY* 3.2 1.0 - - - -
39A VAL* 1.3 84.9 - - + +
41A GLU* 1.3 71.7 + - + +
43A THR* 3.2 4.4 + - - -
44A ARG* 3.0 45.3 + - - +
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Residues in contact with GLU 41 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A PHE* 3.7 28.3 - - + -
32A LEU* 4.5 1.1 - - + -
37A LEU* 3.7 38.6 - - + +
38A GLY* 3.0 25.0 + - - +
40A ALA* 1.3 84.1 - - - +
42A PHE* 1.3 64.1 + - - +
44A ARG* 3.2 10.9 + - + +
45A LEU 3.0 17.5 + - - -
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Residues in contact with PHE 42 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A LEU* 4.1 16.2 - - + +
38A GLY 3.1 12.4 + - - +
39A VAL* 3.2 14.6 + - + +
41A GLU* 1.3 77.0 - - - +
43A THR* 1.3 57.8 + - - +
45A LEU* 3.2 10.4 + - + +
46A GLN* 3.0 57.0 + - + +
90A LEU* 4.0 28.5 - - + -
143A ILE* 4.4 2.2 - - + -
147A MET* 3.6 36.6 - - + -
153A VAL* 4.7 4.3 - - + -
157A ALA 4.6 1.8 - - - -
158A LEU* 3.6 31.9 - - + -
161A TYR* 3.6 23.8 - + - -
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Residues in contact with THR 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A VAL* 2.7 31.2 + - - +
40A ALA* 3.5 7.3 - - - -
42A PHE* 1.3 69.7 - - - +
44A ARG* 1.3 88.5 + - - +
46A GLN* 3.1 7.0 + - - +
47A GLU* 2.9 36.7 + - - +
87A LEU* 4.2 4.5 - - + -
90A LEU* 3.7 30.9 + - + +
91A ASN* 3.6 18.8 - - - +
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Residues in contact with ARG 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A PHE* 6.1 0.2 - - + -
40A ALA* 3.0 44.0 + - - +
41A GLU* 3.2 10.7 + - + +
43A THR* 1.3 84.9 - - - +
45A LEU* 1.3 62.7 + - - +
47A GLU* 2.8 43.9 + - - +
48A GLN* 3.2 27.5 + - - +
91A ASN* 3.3 16.4 + - - -
99A ARG* 3.7 11.1 - - - +
211A LEU* 3.9 17.9 - - + -
905A SO4 4.7 14.1 - - - -
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Residues in contact with LEU 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A PHE* 4.2 4.9 - - + -
29A MET* 3.9 25.8 - - + -
32A LEU* 4.3 13.2 - - + -
41A GLU 3.0 12.7 + - - +
42A PHE* 3.5 15.7 - - + +
43A THR 3.2 0.2 - - - -
44A ARG* 1.3 78.0 - - - +
46A GLN* 1.3 71.7 + - - +
48A GLN* 3.2 3.5 + - - +
49A ALA* 2.8 29.6 + - + +
52A PHE* 5.6 4.0 - - + -
132A ARG* 6.3 0.2 - - - +
143A ILE* 5.7 2.5 - - + -
161A TYR* 5.1 4.0 - - - +
207A VAL* 4.7 8.3 - - + -
208A PHE* 3.9 17.0 - - + -
211A LEU* 3.6 29.8 - - + +
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Residues in contact with GLN 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A PHE* 3.0 51.0 + - + +
43A THR* 3.1 5.6 + - - +
45A LEU* 1.3 88.5 - - - +
47A GLU* 1.3 56.9 + - - +
49A ALA* 3.4 17.4 + - - +
50A TRP* 2.9 27.9 + - - +
83A LEU* 3.6 26.7 - - + +
86A ASP* 5.0 1.7 - - + +
87A LEU* 3.8 18.7 - - + +
90A LEU* 4.8 4.0 - - + -
160A PHE* 3.8 14.0 - - - +
161A TYR* 3.6 25.3 + - - -
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Residues in contact with GLU 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A THR* 2.9 19.4 + - - +
44A ARG* 2.8 35.9 + - - +
46A GLN* 1.3 73.2 - - - +
48A GLN* 1.3 70.4 + - - +
50A TRP* 3.2 12.1 + - - +
51A LEU* 3.3 16.1 + - - +
87A LEU* 3.7 23.3 - - + -
91A ASN* 3.0 15.3 + - - +
96A TRP* 4.1 1.3 - - + +
99A ARG* 2.8 31.1 + - - -
100A ILE* 3.5 34.4 - - + +
905A SO4 4.5 3.1 + - - -
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Residues in contact with GLN 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A ARG 3.2 13.7 + - - +
45A LEU* 3.6 7.6 - - - +
47A GLU* 1.3 82.5 - - - +
49A ALA* 1.3 63.0 + - - +
51A LEU* 3.1 19.8 + - - +
52A PHE* 3.2 17.6 + - - -
100A ILE* 5.2 0.8 - - - +
101A THR 2.9 25.5 + - - +
102A ALA* 3.6 2.4 - - - -
103A SER* 3.0 30.7 + - - +
106A VAL* 3.1 27.2 - - + +
207A VAL* 4.6 10.5 - - + -
211A LEU* 4.3 17.5 - - + -
905A SO4 4.2 9.1 + - - -
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Residues in contact with ALA 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LEU* 2.8 19.5 + - + +
46A GLN* 3.6 22.0 - - - +
47A GLU 3.3 0.2 - - - -
48A GLN* 1.3 77.0 - - - +
50A TRP* 1.3 56.8 + - - +
52A PHE* 3.5 25.0 - - + -
53A TYR* 2.7 44.2 + - + -
83A LEU* 3.8 9.4 - - + -
132A ARG* 5.6 1.8 - - - +
160A PHE* 5.4 1.3 - - + -
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Residues in contact with TRP 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A GLN 2.9 14.1 + - - +
47A GLU 3.5 7.4 - - - +
48A GLN 3.2 0.4 - - - -
49A ALA* 1.3 75.6 - - - +
51A LEU* 1.3 80.6 + - + +
53A TYR* 4.2 1.3 - - - +
54A THR* 2.8 51.6 + - + -
80A ALA* 3.4 30.8 + - - +
81A GLU* 5.6 1.2 + - - -
83A LEU* 3.5 14.1 - - + +
84A ALA* 3.7 22.2 - - + +
87A LEU* 3.9 11.0 - - + -
96A TRP* 3.8 21.3 - + - -
97A ARG* 3.8 32.3 - - + -
100A ILE* 3.9 13.5 - - + -
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Residues in contact with LEU 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A GLU 3.3 13.7 + - - +
48A GLN* 3.1 18.5 + - - +
50A TRP* 1.3 102.2 - - + +
52A PHE* 1.3 61.0 + - - +
54A THR* 3.6 5.0 + - - -
55A ALA* 3.4 14.2 + - - +
100A ILE* 4.1 15.3 - - + +
101A THR* 4.1 5.6 - - - -
102A ALA* 3.7 39.0 - - + +
106A VAL* 3.9 9.9 - - + -
110A VAL* 3.8 11.9 - - + +
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Residues in contact with PHE 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LEU* 5.4 4.5 - - + -
48A GLN 3.2 18.4 + - - -
49A ALA* 3.5 24.7 - - + -
51A LEU* 1.3 77.4 - - - +
53A TYR* 1.3 91.1 + + - +
55A ALA* 3.3 0.6 + - - -
56A LEU* 2.8 30.8 + - + +
106A VAL* 4.3 11.0 - - + -
109A TYR* 3.5 45.3 - + + -
110A VAL* 4.0 15.9 - - + -
113A LEU* 3.5 7.6 - - + +
132A ARG* 3.8 27.1 - - + -
204A ASN* 3.9 5.6 - - - -
207A VAL* 4.3 20.2 - - + -
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Residues in contact with TYR 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A ALA* 2.7 37.4 + - + +
50A TRP* 4.2 4.5 - - - +
52A PHE* 1.3 82.6 - + - +
54A THR* 1.3 60.4 + - - +
56A LEU* 4.1 13.9 - - + -
57A GLU* 2.8 59.6 + - - +
79A ARG* 3.8 12.1 - - + -
80A ALA* 4.8 7.9 - - - +
83A LEU* 4.6 4.5 - - + -
132A ARG* 2.8 38.3 + - + +
133A TYR* 3.7 26.9 - + - -
136A ASP* 2.4 28.6 + - - -
160A PHE* 3.6 20.4 - + - -
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Residues in contact with THR 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A TRP* 2.8 49.7 + - + -
51A LEU* 3.7 7.0 - - - -
52A PHE 3.3 0.2 - - - -
53A TYR* 1.3 77.4 - - - +
55A ALA* 1.3 61.9 + - - +
57A GLU* 3.4 2.6 + - - +
58A GLN* 3.2 46.3 + - + +
80A ALA* 4.1 14.7 - - + +
907A SO4 5.3 1.3 - - - +
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Residues in contact with ALA 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A LEU 3.4 8.9 + - - +
52A PHE 3.3 7.7 + - - +
53A TYR 3.3 0.2 - - - -
54A THR* 1.3 77.2 - - - +
56A LEU* 1.3 66.4 + - - +
58A GLN* 3.3 14.8 + - - +
59A ALA* 3.1 20.4 + - - +
110A VAL* 4.0 24.2 - - + +
113A LEU* 3.9 25.5 - - + +
114A GLU* 4.5 8.8 - - + +
117A ARG* 5.4 0.7 - - - +
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Residues in contact with LEU 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A PHE* 2.8 21.9 + - + +
53A TYR* 3.6 13.7 - - + +
55A ALA* 1.3 73.6 - - - +
57A GLU* 1.3 56.1 + - - +
59A ALA* 3.1 5.8 + - - +
60A VAL* 2.9 35.7 + - + +
109A TYR* 5.7 0.7 - - + +
113A LEU* 3.7 18.3 - - + +
125A LEU* 4.0 19.5 - - + -
128A HIS* 4.0 27.4 - - + +
129A HIS* 4.4 2.2 - - - +
132A ARG* 4.0 29.8 - - + -
133A TYR* 3.9 31.4 - - + +
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Residues in contact with GLU 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A TYR* 2.8 33.6 + - + +
54A THR* 4.1 2.9 - - - +
56A LEU* 1.3 70.5 - - + +
58A GLN* 1.3 60.9 + - + +
60A VAL* 3.6 6.6 - - + +
61A ASP* 3.0 35.3 + - - +
78A ASN* 3.4 23.1 - - - +
79A ARG* 2.7 24.9 + - - +
80A ALA* 3.0 30.8 + - + +
133A TYR* 2.7 30.0 + - - +
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Residues in contact with GLN 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A THR* 3.2 33.7 + - + +
55A ALA* 3.6 15.0 - - - +
56A LEU 3.3 0.2 - - - -
57A GLU* 1.3 78.1 - - + +
59A ALA* 1.3 61.4 + - - +
61A ASP* 3.3 10.2 + - - +
62A ALA* 3.1 21.7 + - - +
114A GLU* 4.7 5.0 - - - +
117A ARG* 3.1 37.6 + - - +
907A SO4 3.0 27.0 + - - -
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Residues in contact with ALA 59 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A ALA 3.1 8.4 + - - +
56A LEU* 3.1 12.2 + - + +
58A GLN* 1.3 74.9 - - - +
60A VAL* 1.3 65.8 + - - +
62A ALA* 3.3 2.3 + - - +
63A VAL* 3.0 28.1 + - - +
113A LEU* 3.7 25.4 - - + +
116A ILE* 4.4 4.5 - - + -
117A ARG* 3.7 20.1 - - + +
125A LEU* 3.7 16.8 - - + -
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Residues in contact with VAL 60 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A LEU* 2.9 30.3 + - + +
57A GLU* 3.6 11.9 - - + +
58A GLN 3.3 0.2 - - - -
59A ALA* 1.3 77.0 - - - +
61A ASP* 1.3 55.7 + - - +
63A VAL* 3.3 0.9 + - - +
64A ARG* 2.8 57.9 + - - +
73A LEU* 4.0 19.7 - - + +
78A ASN* 5.2 3.4 - - - +
125A LEU* 3.8 21.1 - - + -
129A HIS* 3.8 23.6 - - + +
133A TYR* 4.7 4.9 - - + +
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Residues in contact with ASP 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A GLU* 3.0 19.0 + - - +
58A GLN* 3.4 12.8 - - - +
60A VAL* 1.3 74.9 - - - +
62A ALA* 1.3 58.2 + - - +
64A ARG* 2.9 27.2 + - - +
65A ALA* 3.0 31.2 + - - +
78A ASN* 5.0 8.5 + - - +
----------------------------------------------------------
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Residues in contact with ALA 62 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A GLN 3.1 10.6 + - - +
59A ALA 3.6 7.2 - - - +
60A VAL 3.2 0.2 - - - -
61A ASP* 1.3 78.8 - - - +
63A VAL* 1.3 64.6 + - + +
65A ALA* 3.3 7.2 + - - +
66A SER* 3.1 20.3 + - - -
117A ARG* 3.9 30.3 - - + +
120A VAL* 3.8 14.3 - - + +
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Residues in contact with VAL 63 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ALA 3.0 16.1 + - - +
60A VAL 4.1 0.9 - - - +
62A ALA* 1.3 73.5 - - + +
64A ARG* 1.3 68.5 + - - +
66A SER* 2.6 25.9 + - - +
67A GLY 3.4 2.8 + - - -
68A PHE* 3.4 26.3 + - + +
73A LEU* 3.8 9.0 - - + -
116A ILE* 4.9 3.6 - - + +
120A VAL* 4.0 17.7 - - + -
121A ASP 4.1 6.3 - - - +
122A GLY* 3.8 27.8 - - - +
125A LEU* 3.7 28.3 - - + -
----------------------------------------------------------
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Residues in contact with ARG 64 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A VAL* 2.8 41.8 + - - +
61A ASP* 2.9 38.2 + - - +
63A VAL* 1.3 71.7 - - - +
65A ALA* 1.3 63.4 + - - +
67A GLY* 3.0 15.6 + - - -
68A PHE 4.3 3.1 - - - -
70A GLU* 4.1 28.9 - - + +
73A LEU* 2.8 46.4 + - + +
74A ASP 4.2 1.2 + - - -
75A PRO* 3.8 30.1 - - - +
78A ASN* 4.6 7.1 + - - +
----------------------------------------------------------
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Residues in contact with ALA 65 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A ASP 3.0 19.6 + - - +
62A ALA* 3.5 7.2 - - - +
64A ARG* 1.3 77.4 - - - +
66A SER* 1.3 62.4 + - - +
67A GLY* 3.2 1.4 + - - -
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Residues in contact with SER 66 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ALA 3.1 4.4 + - - -
63A VAL* 2.6 23.6 + - - +
65A ALA* 1.3 76.6 - - - +
67A GLY* 1.3 56.4 + - - +
68A PHE* 3.4 15.4 + - - +
120A VAL* 3.7 26.4 - - - +
----------------------------------------------------------
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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