Contacts of the helix formed by residues 66 - 95 (chain A) in PDB entry 2B9B
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 ILE 66 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A ILE* 5.4 2.9 - - + -
61A ILE* 4.4 15.2 - - + +
64A CYS* 4.4 11.7 - - - -
65A ASN* 1.3 80.5 + - - +
67A THR* 1.3 64.0 + - - +
68A SER* 3.5 8.3 - - - +
69A ILE* 3.1 38.7 + - + +
70A SER* 3.8 3.5 + - - -
180A ILE* 3.3 36.6 - - + -
188A GLN* 4.8 2.5 - - + -
189A ASP* 3.5 28.0 - - + +
192A ILE* 3.8 21.5 - - + -
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Residues in contact with THR 67 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A ASN* 3.5 13.7 - - + +
66A ILE* 1.3 71.2 - - - +
68A SER* 1.3 65.8 + - - +
70A SER* 3.1 16.5 + - - -
71A SER* 3.1 17.6 + - - -
189A ASP* 2.7 24.4 + - - +
1065A NAG 2.9 32.9 + - - +
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Residues in contact with SER 68 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A ILE* 3.5 8.8 - - - +
67A THR* 1.3 77.8 + - - +
69A ILE* 1.3 64.6 + - - +
71A SER* 3.3 7.7 + - - -
72A TYR* 2.9 25.5 + - - +
189A ASP* 2.7 29.9 + - - -
192A ILE* 4.1 3.8 - - - +
193A GLY* 3.4 31.5 + - - -
196A LEU* 4.2 7.1 - - - +
197A ASN* 5.4 7.0 - - - +
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Residues in contact with ILE 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A MET* 3.6 27.8 - - + +
55A PRO* 5.7 1.8 - - + +
57A ILE* 3.6 32.1 - - + -
66A ILE* 3.1 30.7 + - + +
68A SER* 1.3 77.2 + - - +
70A SER* 1.3 66.9 + - - +
72A TYR* 3.4 1.1 + - - +
73A ASN* 3.1 22.5 + - + +
192A ILE* 4.2 2.5 - - + -
196A LEU* 4.1 20.2 - - + +
1073A NAG 5.4 1.1 - - - +
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Residues in contact with SER 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A ASN* 4.6 0.5 + - - -
66A ILE 4.1 5.9 + - - -
67A THR* 3.1 9.7 + - - -
69A ILE* 1.3 80.4 - - - +
71A SER* 1.3 57.2 + - - +
73A ASN* 3.3 8.0 + - - +
74A ALA* 3.0 29.6 + - - +
1065A NAG 4.1 33.2 - - - +
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Residues in contact with SER 71 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A THR* 3.1 13.2 + - - -
68A SER* 3.7 9.8 - - - -
70A SER* 1.3 75.8 - - - +
72A TYR* 1.3 62.0 + - - +
74A ALA* 3.1 6.1 + - - +
75A THR* 2.8 39.2 + - - -
197A ASN* 5.6 4.3 - - - -
200A LEU* 5.9 0.7 - - - -
1065A NAG 5.7 0.2 + - - -
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Residues in contact with TYR 72 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A LEU* 2.7 38.9 + - - +
54A MET* 3.9 22.0 - - + -
68A SER 2.9 18.1 + - - +
69A ILE 3.7 3.1 - - - +
71A SER* 1.3 75.7 - - - +
73A ASN* 1.3 58.8 + - - +
75A THR* 4.9 3.1 - - - -
76A VAL* 2.8 60.7 + - + +
196A LEU* 3.6 53.4 - - + -
197A ASN* 5.2 4.4 + - - +
199A TYR* 3.1 30.3 - + - -
200A LEU* 4.1 15.7 - - + -
203A LEU* 4.0 3.3 - - - +
267A MET* 4.4 5.6 - - + -
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Residues in contact with ASN 73 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A MET* 3.7 7.8 - - + +
69A ILE* 3.1 13.8 + - + +
70A SER* 3.4 11.0 - - - +
72A TYR* 1.3 77.7 - - - +
74A ALA* 1.3 58.8 + - - +
77A THR* 2.6 43.7 + - - -
267A MET* 3.6 16.1 - - - +
1073A NAG 1.5 73.4 + - - +
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Residues in contact with ALA 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A SER 3.0 16.1 + - - +
71A SER* 3.6 7.0 - - - +
73A ASN* 1.3 79.8 + - - +
75A THR* 1.3 66.0 + - - +
77A THR* 3.8 4.1 - - - -
78A LYS* 3.1 23.6 + - - +
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Residues in contact with THR 75 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A SER* 2.8 24.1 + - - -
72A TYR 4.2 0.7 - - - -
74A ALA* 1.3 73.9 - - - +
76A VAL* 1.3 63.6 + - - +
78A LYS* 3.4 6.6 + - - +
79A LEU* 3.0 20.6 + - + +
200A LEU* 3.6 37.6 - - + +
204A THR* 5.6 0.7 - - - +
233C PRO* 5.8 1.2 - - - +
237C GLU* 5.1 5.4 + - - +
246C ALA* 4.5 11.4 - - + +
247C ALA* 3.8 26.4 - - + +
250C LEU* 4.5 8.7 - - + -
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Residues in contact with VAL 76 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A LEU* 3.8 26.2 - - + -
72A TYR* 2.8 57.8 + - + +
75A THR* 1.3 71.9 - - - +
77A THR* 1.3 64.8 + - - +
79A LEU* 3.0 13.1 + - + +
80A LEU* 2.9 27.4 + - + +
200A LEU* 3.8 16.2 - - + -
203A LEU* 4.6 11.7 - - + -
207A PHE* 6.5 0.4 - - + -
267A MET* 3.4 17.9 - - + -
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Residues in contact with THR 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A ASN* 2.6 33.7 + - - -
74A ALA* 3.8 4.7 - - - -
76A VAL* 1.3 77.6 - - - +
78A LYS* 1.3 61.4 + - - +
80A LEU* 3.2 4.7 + - - +
81A GLN* 3.1 24.7 + - - +
264A LEU* 3.9 44.2 + - + +
267A MET* 3.9 7.9 - - - +
1073A NAG 5.2 0.2 - - - -
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Residues in contact with LYS 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A ALA 3.1 17.3 + - - +
75A THR* 3.7 5.2 - - - +
77A THR* 1.3 76.5 - - - +
79A LEU* 1.3 64.2 + - - +
81A GLN* 3.0 55.4 + - - +
82A PRO* 3.6 4.2 - - - +
245C SER* 3.5 35.0 - - - +
247C ALA* 4.0 7.2 - - + -
248C GLU* 4.6 10.1 - - + -
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Residues in contact with LEU 79 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A THR* 3.0 14.0 + - + +
76A VAL* 3.1 17.0 - - + +
78A LYS* 1.3 78.8 - - - +
80A LEU* 1.3 57.8 + - + +
82A PRO* 3.4 13.9 - - - +
83A ILE* 5.4 1.9 - - - +
200A LEU* 4.7 10.8 - - + -
203A LEU* 4.0 38.6 - - + +
204A THR* 4.1 11.2 - - - +
207A PHE* 3.5 41.9 - - + +
247C ALA* 3.9 15.9 - - + +
251C SER* 4.0 22.0 - - - +
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Residues in contact with LEU 80 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A LEU* 3.4 31.9 - - + -
76A VAL* 2.9 22.4 + - + +
77A THR* 3.2 1.5 + - - +
78A LYS 3.2 0.2 - - - -
79A LEU* 1.3 74.1 - - + +
81A GLN* 1.3 65.7 + - - +
82A PRO* 3.3 3.8 - - - -
83A ILE* 3.2 15.4 + - + +
84A GLY* 2.9 21.0 + - - -
207A PHE* 3.8 44.0 - - + -
262A LEU* 4.0 25.7 - - + +
264A LEU* 3.7 20.0 - - + -
267A MET* 5.8 2.5 - - - -
269A MET* 4.9 5.8 - - - -
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Residues in contact with GLN 81 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A THR* 3.1 14.3 + - + +
78A LYS* 3.0 54.2 + - - +
80A LEU* 1.3 76.3 - - - +
82A PRO* 1.3 61.2 - - + +
85A GLU* 2.8 59.5 + - + +
264A LEU* 4.8 13.9 - - + +
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Residues in contact with PRO 82 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A LYS 3.6 4.7 - - - +
79A LEU 3.4 14.1 - - - +
80A LEU 3.4 4.0 - - - -
81A GLN* 1.3 91.8 - - + +
83A ILE* 1.3 65.0 + - + +
85A GLU* 3.8 7.1 - - + +
86A ASN* 2.9 26.3 + - - +
209A ASN* 3.7 44.4 - - + +
214A PRO* 4.0 12.0 - - + +
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Residues in contact with ILE 83 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A LEU 5.4 2.0 - - - +
80A LEU* 3.2 25.4 + - + +
82A PRO* 1.3 77.8 - - + +
84A GLY* 1.3 58.4 + - - +
86A ASN* 3.5 3.0 - - - +
87A LEU* 2.9 36.4 + - + +
207A PHE* 4.7 12.8 - - + -
214A PRO* 3.5 44.0 - - + +
215A ALA* 3.7 6.4 - - - +
259A ILE* 3.9 40.6 - - + -
262A LEU* 4.3 9.9 - - + -
269A MET* 5.4 1.8 - - - -
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Residues in contact with GLY 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A LEU 2.9 11.9 + - - -
81A GLN* 3.7 3.6 - - - -
83A ILE* 1.3 78.3 - - - +
85A GLU* 1.3 60.4 + - - +
87A LEU* 3.1 7.8 + - - +
88A GLU* 3.0 24.3 + - - +
262A LEU* 3.7 20.4 - - - +
264A LEU* 5.0 8.5 - - - -
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Residues in contact with GLU 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A GLN* 2.8 50.6 + - + +
82A PRO* 3.9 6.1 - - + +
84A GLY* 1.3 73.3 - - - +
86A ASN* 1.3 62.6 + - - +
88A GLU* 3.4 11.4 + - - +
89A THR* 3.0 30.3 + - - +
264A LEU* 5.9 0.2 - - - +
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Residues in contact with ASN 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A PRO 2.9 18.6 + - - +
83A ILE 3.5 4.3 - - - +
85A GLU* 1.3 75.3 - - - +
87A LEU* 1.3 65.8 + - - +
89A THR* 3.2 9.4 + - - +
90A ILE* 2.9 39.5 + - - +
212A THR 3.7 5.3 + - - -
213A ASN* 3.0 43.5 + - - +
214A PRO* 3.8 8.3 - - + -
215A ALA* 2.9 31.8 + - + +
216A LEU 4.0 0.2 + - - -
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Residues in contact with LEU 87 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A ILE* 2.9 15.2 + - + +
84A GLY* 3.3 9.2 - - - +
86A ASN* 1.3 77.7 - - - +
88A GLU* 1.3 56.7 + - - +
90A ILE* 4.8 1.6 - - + -
91A ARG* 2.8 49.0 + - - +
92A ASN* 5.3 0.2 - - - -
127A LEU* 4.3 25.6 - - + -
215A ALA* 3.2 29.2 - - + +
259A ILE* 4.1 19.1 - - + +
261A GLY* 4.2 5.2 - - - -
262A LEU* 3.7 39.5 - - + +
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Residues in contact with GLU 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A GLY 3.0 13.1 + - - +
85A GLU* 3.7 14.2 - - - +
86A ASN 3.2 0.2 - - - -
87A LEU* 1.3 75.5 - - - +
89A THR* 1.3 67.3 + - - +
90A ILE 3.1 0.9 + - - -
92A ASN* 3.4 29.9 + - + +
93A GLN* 3.1 50.2 + - - +
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Residues in contact with THR 89 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A GLU* 3.0 19.1 + - - +
86A ASN* 3.5 11.2 - - - +
88A GLU* 1.3 77.4 - - - +
90A ILE* 1.3 63.3 - - + +
93A GLN* 3.4 27.4 + - - +
94A LEU* 3.6 13.9 + - + +
112A ALA* 4.1 22.6 - - + +
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Residues in contact with ILE 90 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A ASN* 2.9 46.1 + - - +
87A LEU* 4.0 1.6 - - - +
89A THR* 1.3 75.2 - - + +
91A ARG* 1.3 75.1 + - - +
94A LEU* 3.1 16.6 + - - +
95A ILE* 3.2 32.9 + - + +
112A ALA* 4.6 8.7 - - + +
113A LEU* 3.7 31.6 - - + -
124A ALA* 4.9 3.8 - - + -
127A LEU* 4.2 16.4 - - + -
213A ASN* 4.2 2.0 - - - +
215A ALA* 4.8 3.1 - - + -
216A LEU* 3.9 23.6 - - + -
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Residues in contact with ARG 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A LEU* 2.8 24.1 + - - +
90A ILE* 1.3 82.3 - - - +
92A ASN* 1.3 58.2 - - + +
93A GLN* 2.2 22.6 + - - -
94A LEU 3.5 1.6 + - - -
95A ILE* 3.7 3.7 + - - -
96A PRO* 3.4 27.4 - - + +
127A LEU* 4.3 22.4 + - + +
128A VAL* 5.2 3.8 - - + -
131A ASN* 2.6 60.8 + - + +
134A ALA* 3.9 8.5 - - - +
135A ALA* 4.0 10.7 - - - +
138A LEU* 4.7 8.9 - - - +
260A VAL 3.6 23.1 + - - -
261A GLY* 3.8 13.1 - - - -
262A LEU 4.7 2.6 + - - +
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Residues in contact with ASN 92 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A LEU 5.3 0.2 - - - -
88A GLU* 3.4 33.0 + - + +
91A ARG* 1.3 78.0 - - + +
93A GLN* 1.3 68.0 + - - +
96A PRO* 4.1 9.6 + - - -
100A ARG 5.7 4.2 - - - +
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Residues in contact with GLN 93 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A GLU* 3.1 47.6 + - - +
89A THR* 3.4 19.5 + - - +
91A ARG 2.2 22.1 + - - -
92A ASN 1.3 75.2 - - - +
94A LEU* 1.3 67.2 + - + +
95A ILE 3.8 0.4 - - - -
96A PRO 3.8 2.8 + - - -
97A THR* 3.1 28.0 - - - +
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Residues in contact with LEU 94 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A THR* 3.6 9.6 + - + +
90A ILE 3.1 5.0 + - - +
93A GLN* 1.3 84.5 - - + +
95A ILE* 1.3 66.9 + - - +
97A THR* 3.9 6.9 + - + +
108A ILE* 3.7 20.8 - - - +
109A GLY* 3.9 12.8 - - - +
111A ALA* 5.0 2.0 - - + -
112A ALA* 3.1 44.6 - - + +
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Residues in contact with ILE 95 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A ILE* 3.2 30.5 + - + +
94A LEU* 1.3 76.8 - - + +
96A PRO* 1.4 71.1 - - + +
97A THR* 2.8 19.2 + - - -
103A PHE* 4.6 11.7 - - + -
106A VAL 5.1 0.7 - - - +
107A VAL* 4.9 4.9 - - + -
108A ILE* 3.5 35.7 - - + +
109A GLY 4.9 3.6 - - - +
110A LEU* 4.4 19.3 - - + -
112A ALA* 5.7 1.3 - - + -
113A LEU* 5.6 0.9 - - + -
124A ALA* 4.5 9.0 - - + +
128A VAL* 3.2 39.3 - - + -
----------------------------------------------------------
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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