Contacts of the helix formed by residues 82 - 104 (chain A) in PDB entry 1IL6
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 82 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80A ASN* 5.2 0.4 + - - -
81A GLU* 1.3 78.4 - - + +
83A THR* 1.3 63.4 + - - +
85A LEU* 4.7 0.4 - - - -
86A VAL* 2.7 48.9 + - + +
133A ASN 4.0 12.0 - - - +
134A LEU* 3.6 38.8 - - + +
135A ASP* 5.2 5.5 - - - +
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Residues in contact with THR 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71A LYS 5.4 0.9 - - - +
72A ASP* 3.3 25.6 - - - +
80A ASN* 3.2 30.1 + - - +
81A GLU 3.3 0.6 - - - +
82A GLU* 1.3 85.2 + - - +
84A CYS* 1.3 62.8 + - - +
86A VAL* 3.6 6.1 + - + +
87A LYS* 3.2 24.7 + - + +
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Residues in contact with CYS 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68A MET* 4.8 1.8 - - - -
72A ASP 4.5 2.6 + - - -
73A GLY 3.7 14.1 - - - +
74A CYS* 2.0 55.0 - - - -
79A PHE* 5.3 0.4 - - + -
80A ASN* 4.6 4.2 - - - +
81A GLU 3.7 9.8 + - - +
82A GLU 3.4 0.4 - - - -
83A THR* 1.3 76.7 - - - +
85A LEU* 1.3 66.9 + - - +
86A VAL 3.1 0.9 - - - -
87A LYS* 3.0 15.1 + - - +
88A ILE* 3.1 19.1 + - - +
181A ALA* 3.5 27.1 - - + -
185A MET* 4.6 2.0 - - + -
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Residues in contact with LEU 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A GLU 3.2 17.6 + - - +
82A GLU* 4.5 2.7 - - - +
84A CYS* 1.3 78.9 - - - +
86A VAL* 1.3 64.6 + - - +
88A ILE* 2.9 27.9 + - + +
89A ILE* 3.1 7.6 + - + +
127A LEU* 4.2 20.9 - - + -
130A LYS* 4.2 20.4 - - - +
131A ALA* 5.7 0.2 - - - -
134A LEU* 3.8 33.9 - - + -
182A LEU* 3.5 36.6 - - + -
185A MET* 3.6 15.3 - - + +
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Residues in contact with VAL 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A GLU* 2.7 42.5 + - + +
83A THR* 3.7 7.6 - - + +
84A CYS 3.1 0.4 - - - -
85A LEU* 1.3 77.9 - - - +
87A LYS* 1.3 69.4 + - + +
88A ILE 2.8 1.6 + - - -
89A ILE 2.8 11.4 + - - -
90A THR* 4.9 2.7 - - + -
134A LEU* 4.3 4.9 - - + -
135A ASP* 5.4 3.1 - - + +
137A ILE* 3.2 56.8 - - + +
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Residues in contact with LYS 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A LYS* 3.9 44.1 - - + +
68A MET* 5.8 1.3 - - + -
72A ASP* 3.0 37.9 - - + +
74A CYS* 5.1 4.0 - - - -
83A THR* 3.2 14.3 + - + +
84A CYS* 3.0 11.1 + - - +
86A VAL* 1.3 82.0 - - + +
88A ILE* 1.3 59.1 + - + +
90A THR* 3.8 11.5 - - + +
91A GLY* 2.8 27.2 + - - -
174A PHE* 4.4 5.5 - - + -
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Residues in contact with ILE 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A ILE* 6.1 1.1 - - + -
30A ILE* 5.3 1.6 - - + -
68A MET* 3.5 24.9 - - + -
74A CYS* 5.4 0.2 - - - -
84A CYS* 3.2 18.4 - - - +
85A LEU* 2.9 23.7 + - + +
86A VAL 2.8 1.6 + - - -
87A LYS* 1.3 78.2 - - + +
89A ILE* 1.3 57.3 + - - +
91A GLY* 4.6 0.9 - - - -
92A LEU* 2.9 48.6 + - + +
127A LEU* 4.2 10.5 - - + -
174A PHE* 4.0 10.8 - - + -
175A LEU* 6.3 0.4 - - + -
178A SER* 3.2 43.1 - - - +
181A ALA* 5.7 0.4 - - + -
182A LEU* 5.3 2.2 - - + -
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Residues in contact with ILE 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85A LEU* 3.5 11.0 - - + +
86A VAL 2.8 2.8 + - - -
88A ILE* 1.3 76.5 - - - +
90A THR* 1.3 61.8 + - - +
92A LEU* 3.2 6.6 + - - +
93A LEU* 3.2 31.2 + - + +
124A ILE* 5.2 7.0 - - + +
127A LEU* 3.7 35.2 - - + -
128A GLN* 4.4 14.4 - - + +
131A ALA* 4.5 3.8 - - + -
134A LEU* 3.0 22.2 - - + -
136A ALA* 3.4 12.1 - - - +
137A ILE* 2.9 50.5 - - + -
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Residues in contact with THR 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A LYS* 5.4 7.0 - - + +
86A VAL* 3.4 11.9 - - + +
87A LYS* 3.8 21.1 - - + +
89A ILE* 1.3 74.8 - - - +
91A GLY* 1.3 65.4 + - - +
93A LEU* 3.4 13.1 + - - +
94A GLU* 3.3 25.1 + - - +
137A ILE* 2.9 33.0 - - + +
138A THR 5.4 0.2 - - - -
139A THR* 5.2 0.9 - - - -
140A PRO* 4.6 9.5 - - - +
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Residues in contact with GLY 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67A LYS* 5.0 9.6 - - - -
87A LYS 2.8 23.4 + - - -
88A ILE* 3.7 1.6 - - - -
89A ILE 3.1 0.2 - - - -
90A THR* 1.3 81.3 - - - +
92A LEU* 1.3 57.2 + - - +
94A GLU* 4.3 3.0 - - - +
95A PHE* 3.0 38.0 + - - +
174A PHE* 4.5 15.5 - - - -
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Residues in contact with LEU 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30A ILE* 4.6 4.5 - - + -
33A ILE* 4.6 8.1 - - + -
88A ILE* 2.9 39.9 + - + +
89A ILE* 3.6 4.7 - - - +
90A THR 3.1 0.2 - - - -
91A GLY* 1.3 80.7 - - - +
93A LEU* 1.3 59.4 + - - +
95A PHE* 3.4 13.5 - - + +
96A GLU* 2.8 27.5 + - - +
99A LEU* 4.9 0.9 - - - +
120A THR* 4.2 19.1 - - - +
123A LEU* 3.9 26.0 - - + -
124A ILE* 3.7 16.6 - - + +
127A LEU* 4.1 10.8 - - + -
174A PHE* 6.5 0.7 - - + -
175A LEU* 4.2 24.2 - - + -
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Residues in contact with LEU 93 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89A ILE* 3.2 25.0 + - + +
90A THR* 3.4 12.3 + - - +
92A LEU* 1.3 74.6 - - - +
94A GLU* 1.3 66.1 + - - +
96A GLU* 2.8 24.8 + - + +
97A VAL* 3.3 4.3 + - - +
124A ILE* 3.7 27.1 - - + -
128A GLN* 4.6 7.6 - - - +
138A THR 3.1 22.0 - - - +
139A THR* 2.8 29.8 - - - +
140A PRO* 3.3 18.0 - - + +
145A ASN* 4.9 0.9 - - - +
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Residues in contact with GLU 94 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A ASN 4.0 5.7 - - - +
65A LEU* 3.9 25.2 - - + +
67A LYS* 5.2 12.1 + - + +
90A THR* 3.3 14.2 + - - +
91A GLY* 4.3 4.9 - - - +
93A LEU* 1.3 78.1 - - - +
95A PHE* 1.3 67.6 + - + +
96A GLU 2.9 1.0 + - - -
97A VAL* 2.9 28.6 + - - +
98A TYR* 3.0 14.4 - - + -
140A PRO* 3.7 26.1 - - + +
145A ASN* 4.2 7.3 + - - +
148A LEU* 4.1 14.4 - - - +
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Residues in contact with PHE 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65A LEU* 3.3 34.3 - - + -
67A LYS* 6.1 0.2 - - + -
91A GLY* 3.0 26.4 + - - +
92A LEU* 3.4 19.1 - - + +
94A GLU* 1.3 83.2 - - + +
96A GLU* 1.3 57.5 + - - +
98A TYR* 3.2 8.5 + + - +
99A LEU* 2.8 34.9 + - + +
170A SER* 3.4 22.9 - - - -
171A PHE* 2.9 48.1 - + + -
174A PHE* 3.4 39.9 - + + -
175A LEU* 4.6 4.9 - - + -
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Residues in contact with GLU 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92A LEU 2.8 12.7 + - - +
93A LEU* 2.8 19.2 + - + +
95A PHE* 1.3 78.4 - - - +
97A VAL* 1.3 64.5 + - - +
99A LEU* 2.8 21.5 + - + +
100A GLU* 2.9 16.2 + - - +
103A GLN* 5.5 0.5 - - - +
117A GLN* 3.4 30.5 + - - +
121A LYS* 3.9 21.1 + - + +
124A ILE* 3.9 19.7 - - + -
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Residues in contact with VAL 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93A LEU 3.3 2.5 + - - +
94A GLU 2.9 20.5 + - - +
96A GLU* 1.3 84.3 + - - +
98A TYR* 1.3 74.3 + - + +
100A GLU* 3.0 22.7 + - + +
101A TYR* 3.3 4.3 + - - +
145A ASN* 3.2 55.6 - - + +
148A LEU* 3.8 9.9 - - + -
149A LEU* 4.0 25.0 - - + +
152A LEU* 5.7 0.7 - - + -
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Residues in contact with TYR 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A LEU* 4.1 4.5 - - + -
64A ASN 3.4 20.4 + - - -
65A LEU* 3.3 38.1 - - + +
94A GLU* 3.0 34.3 + - - -
95A PHE* 3.2 11.1 + - - +
96A GLU 3.1 0.6 - - - -
97A VAL* 1.3 78.8 - - + +
99A LEU* 1.3 58.7 + - - +
101A TYR* 2.8 27.7 + - - +
102A LEU* 3.2 11.7 + - - +
148A LEU* 2.8 38.1 - - + +
152A LEU* 3.4 36.1 - - + -
167A ILE* 3.8 33.9 - - + -
171A PHE* 4.9 1.3 - - + -
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Residues in contact with LEU 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92A LEU 4.9 0.9 - - - +
95A PHE* 2.8 28.1 + - + +
96A GLU* 2.8 24.2 + - + +
98A TYR* 1.3 73.4 - - - +
100A GLU* 1.3 53.9 + - - +
101A TYR 3.0 1.3 - - - -
102A LEU* 3.0 13.3 + - + +
103A GLN* 2.5 38.4 + - - +
116A VAL* 4.0 17.5 - - + -
117A GLN* 3.8 27.5 - - + +
120A THR* 2.9 38.6 - - + +
124A ILE* 5.8 0.2 - - + -
171A PHE* 3.5 26.5 - - + -
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Residues in contact with GLU 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96A GLU* 2.9 14.3 + - - +
97A VAL* 3.0 20.2 - - + +
99A LEU* 1.3 76.6 - - - +
101A TYR* 1.3 64.1 + - - +
103A GLN* 2.7 41.0 + - - +
104A ASN* 3.7 13.7 + - - +
117A GLN* 5.9 0.2 - - - -
149A LEU* 4.1 24.7 - - + +
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Residues in contact with TYR 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A VAL 3.3 2.2 + - - -
98A TYR* 2.8 20.8 + - - +
100A GLU* 1.3 84.5 - - - +
102A LEU* 1.3 55.7 + - + +
105A ARG* 3.0 45.9 + - + +
149A LEU* 3.1 27.4 - - + -
152A LEU* 2.5 49.5 + - + -
153A GLN* 3.0 23.9 + - + +
160A GLN* 3.8 12.1 - - + +
163A THR* 3.4 23.2 - - + +
164A THR* 4.0 16.8 - - - -
167A ILE* 3.7 22.9 - - + -
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Residues in contact with LEU 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37A ILE* 5.6 3.1 - - + -
40A LEU* 5.6 0.9 - - + -
98A TYR 3.2 14.1 + - - +
99A LEU* 3.0 17.0 + - + +
101A TYR* 1.3 78.8 - - + +
103A GLN* 1.3 54.5 + - - +
104A ASN 3.4 1.1 - - - -
105A ARG* 4.3 4.9 - - + -
106A PHE* 3.8 26.9 - - + +
113A ALA* 2.7 38.9 - - + +
116A VAL* 5.4 8.5 - - + -
164A THR* 3.1 44.0 - - + +
167A ILE* 3.3 31.9 - - + -
168A LEU* 4.4 15.0 - - + -
171A PHE* 5.7 0.2 - - + -
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Residues in contact with GLN 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96A GLU* 5.5 0.3 - - - +
99A LEU 2.5 20.5 + - - +
100A GLU* 2.7 38.0 + - - +
102A LEU* 1.3 77.2 - - - +
104A ASN* 1.3 62.1 + - - +
110A GLU* 4.2 16.5 - - - +
113A ALA* 4.5 10.0 - - - +
114A ARG* 5.5 16.1 + - + +
117A GLN* 3.2 37.2 + - - +
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Residues in contact with ASN 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100A GLU* 3.7 15.1 + - - +
103A GLN* 1.3 81.9 - - + +
105A ARG* 1.3 67.1 + - - +
106A PHE* 3.0 11.4 + - - +
107A GLU* 4.0 5.4 + - - +
110A GLU* 3.3 19.3 - - - +
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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