Contacts of the helix formed by residues 82 - 111 (chain A) in PDB entry 3ISE
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 ASN 82 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A TRP* 4.2 6.7 - - - -
81A GLU* 1.3 85.0 - - + +
83A THR* 1.3 64.6 + - - +
84A GLN* 2.9 24.4 + - - +
85A GLU* 3.0 34.4 + - - +
86A MET* 2.9 26.6 + - - +
146A LEU* 6.1 0.7 - - - +
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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
----------------------------------------------------------
32A TRP* 3.0 34.6 + - + +
35A TRP* 4.5 4.8 - - - -
37A LEU* 4.0 4.3 - - - +
40A LEU* 4.1 10.3 - - + -
82A ASN* 1.3 72.6 - - - +
84A GLN* 1.3 64.3 + - - +
86A MET* 3.3 4.0 + - - +
87A LEU* 3.0 41.0 + - + +
141A ILE* 4.9 4.3 - - + -
146A LEU* 5.0 4.3 - - + -
149A TYR* 4.5 4.7 - - + -
150A LEU* 3.5 35.0 - - + +
143L LYS* 6.1 0.3 - - - +
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Residues in contact with GLN 84 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A ASN* 2.9 16.1 + - - +
83A THR* 1.3 76.8 - - - +
85A GLU* 1.3 57.4 + - + +
87A LEU* 3.8 7.8 - - - +
88A GLN* 3.0 28.8 + - + +
138A LEU* 4.3 15.5 + - + +
141A ILE* 4.2 22.7 - - + +
142A GLN* 3.8 23.0 - - - +
146A LEU* 4.5 20.7 - - + +
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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
----------------------------------------------------------
79A ILE 4.8 0.9 - - - +
80A GLY* 3.7 11.5 - - - -
81A GLU* 3.4 38.7 + - - +
82A ASN* 3.0 33.2 + - - +
84A GLN* 1.3 74.5 - - + +
86A MET* 1.3 62.1 + - - +
88A GLN* 3.2 6.3 + - - +
89A CYS* 2.8 37.8 + - - -
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Residues in contact with MET 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A HIS* 3.7 54.3 - - + +
31A MET* 3.4 29.6 - - + -
32A TRP* 3.6 36.3 - - + -
35A TRP* 3.6 17.0 - - + -
80A GLY* 3.8 14.6 - - - -
82A ASN 2.9 31.0 + - - +
83A THR 3.3 0.4 + - - +
85A GLU* 1.3 72.9 - - - +
87A LEU* 1.3 68.1 + - - +
89A CYS* 3.2 2.6 + - - +
90A ASP* 3.0 28.0 + - - +
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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
----------------------------------------------------------
32A TRP* 4.3 19.5 - - + -
40A LEU* 4.7 6.1 - - + -
44A GLU* 5.7 1.1 - - - +
83A THR* 3.0 34.9 + - + +
84A GLN 3.8 0.4 - - - +
86A MET* 1.3 78.2 - - - +
88A GLN* 1.3 62.8 + - - +
90A ASP* 3.3 7.9 + - - +
91A LEU* 3.0 23.3 + - - +
133A TYR* 4.7 8.3 - - + -
134A LEU* 3.8 27.1 - - + +
137A GLN* 4.1 24.0 - - + -
138A LEU* 3.5 30.9 - - + +
141A ILE* 4.3 10.8 - - + -
149A TYR* 4.4 4.9 - - - +
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Residues in contact with GLN 88 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A GLN* 3.0 19.9 + - + +
85A GLU* 3.7 7.0 - - - +
86A MET 3.2 0.4 - - - -
87A LEU* 1.3 78.2 - - - +
89A CYS* 1.3 56.9 + - - +
91A LEU* 3.2 16.2 + - - +
92A ASN* 2.9 67.0 + - - +
95A LEU* 5.9 0.4 - - - +
138A LEU* 3.8 22.0 - - + +
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Residues in contact with CYS 89 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A GLN* 3.4 8.7 + - - +
28A HIS* 4.2 1.8 - - + -
78A LEU* 3.1 47.1 - - + +
79A ILE 4.1 2.2 - - - -
80A GLY* 4.0 13.2 - - - -
85A GLU* 2.8 31.0 + - - +
86A MET 3.2 5.1 + - - +
88A GLN* 1.3 71.6 - - - +
90A ASP* 1.3 65.9 + - - +
92A ASN* 3.5 9.3 + - - +
93A LEU* 3.1 18.7 + - - +
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Residues in contact with ASP 90 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A GLN* 2.9 21.2 + - - +
25A TYR* 3.4 20.3 - - + -
28A HIS* 3.0 17.7 + - - -
32A TRP* 4.9 2.6 - - - -
44A GLU* 2.6 30.9 - - - +
86A MET 3.0 11.9 + - - -
87A LEU* 3.6 8.5 - - - +
89A CYS* 1.3 78.6 - - - +
91A LEU* 1.3 62.7 + - - +
93A LEU* 3.3 2.9 + - - +
94A GLU* 3.0 28.1 + - - +
130A HIS* 4.6 3.7 + - + -
134A LEU* 3.9 20.3 - - + +
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Residues in contact with LEU 91 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A LEU 3.0 13.7 + - - +
88A GLN* 3.5 21.3 - - - +
89A CYS 3.1 0.4 - - - -
90A ASP* 1.3 77.4 - - - +
92A ASN* 1.3 56.6 + - - +
94A GLU* 3.0 3.2 + - - -
95A LEU* 2.9 45.1 + - + +
131A ILE* 3.8 33.0 - - + -
134A LEU* 4.0 16.8 - - + +
135A GLU* 4.2 23.8 - - + +
138A LEU* 3.9 24.7 - - + -
1W MET* 6.0 5.2 - - + -
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Residues in contact with ASN 92 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A LEU* 4.4 12.6 - - + +
88A GLN* 2.9 49.2 + - - +
89A CYS* 3.8 8.7 - - - +
91A LEU* 1.3 75.0 - - - +
93A LEU* 1.3 63.3 + - - +
95A LEU* 3.3 14.4 + - - +
96A LYS* 3.1 23.7 + - - +
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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
----------------------------------------------------------
17A ASN* 4.7 8.5 - - + +
20A ILE* 4.1 20.4 - - + -
21A ALA* 3.7 40.4 - - + +
24A GLN* 3.6 26.9 - - - +
25A TYR* 4.0 8.1 - - + +
76A LYS 5.0 1.3 - - - +
78A LEU* 4.3 13.2 - - + +
89A CYS 3.1 16.0 + - - +
90A ASP 3.5 6.1 - - - +
92A ASN* 1.3 79.4 - - - +
94A GLU* 1.3 58.6 + - - +
96A LYS* 3.7 10.5 + - + +
97A ALA* 2.9 28.1 + - + +
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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
----------------------------------------------------------
21A ALA* 4.9 0.3 - - - +
25A TYR* 2.6 29.6 + - - +
51A GLU* 3.2 10.4 - - - +
90A ASP 3.0 14.2 + - - +
91A LEU* 3.0 6.0 + - - +
93A LEU* 1.3 76.9 - - - +
95A LEU* 1.3 60.0 + - - +
97A ALA* 3.6 5.9 - - - +
98A THR* 2.9 31.9 + - - -
127A GLU* 2.5 51.4 - - - +
130A HIS* 3.1 25.7 + - + +
131A ILE* 3.8 19.5 - - + +
134A LEU* 4.4 2.7 - - + -
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Residues in contact with LEU 95 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A GLN* 5.9 0.2 - - - +
91A LEU* 2.9 41.6 + - + +
92A ASN* 3.3 14.5 + - - +
94A GLU* 1.3 75.6 - - - +
96A LYS* 1.3 63.8 + - - +
98A THR* 3.4 11.2 + - + +
99A LYS* 3.1 27.4 + - - +
131A ILE* 4.2 19.1 - - + -
135A GLU* 5.8 2.0 - - - +
1W MET* 6.2 6.3 - - + -
2W LYS* 5.8 9.2 - - + -
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Residues in contact with LYS 96 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A LYS* 4.8 10.1 - - - +
17A ASN* 3.8 14.7 + - - +
92A ASN 3.1 16.3 + - - +
93A LEU* 3.9 11.4 - - + +
95A LEU* 1.3 76.6 - - - +
97A ALA* 1.3 65.3 + - - +
99A LYS* 3.1 26.0 + - + +
100A ASP* 2.8 43.0 + - - +
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Residues in contact with ALA 97 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A ILE* 5.3 0.5 - - - +
17A ASN* 4.1 27.5 + - + +
18A GLU* 6.6 0.2 - - - -
51A GLU* 5.8 1.6 - - - +
93A LEU* 2.9 21.9 + - + +
94A GLU* 3.6 17.9 - - - +
96A LYS* 1.3 77.1 - - - +
98A THR* 1.3 61.9 + - - +
100A ASP* 3.5 2.9 + - - +
101A LEU* 3.2 34.0 + - + +
127A GLU* 5.2 6.1 - - + -
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Residues in contact with THR 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A GLU 2.9 18.7 + - - -
95A LEU* 3.5 14.1 - - + +
97A ALA* 1.3 76.0 - - - +
99A LYS* 1.3 64.7 + - + +
101A LEU* 3.6 9.5 - - - +
102A ARG* 3.3 50.4 + - - +
124A LEU* 3.8 14.3 - - - +
127A GLU* 4.2 10.2 - - - +
128A GLU* 4.8 3.2 - - + +
131A ILE* 4.0 15.4 - - + +
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Residues in contact with LYS 99 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A LEU* 3.1 17.0 + - - +
96A LYS* 3.1 18.8 + - + +
98A THR* 1.3 79.1 - - + +
100A ASP* 1.3 70.5 + - - +
102A ARG* 3.3 9.9 + - - +
103A GLU* 3.0 38.6 + - + +
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Residues in contact with ASP 100 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A HIS* 4.9 1.7 + - - -
13A LYS* 3.8 27.6 + - + -
14A ILE* 3.8 13.0 - - + +
17A ASN* 2.9 25.1 + - - +
96A LYS* 2.8 46.9 + - - +
97A ALA 3.5 1.8 + - - +
99A LYS* 1.3 80.8 - - - +
101A LEU* 1.3 51.9 + - - +
103A GLU* 3.3 13.3 + - - +
104A ALA* 2.8 35.3 + - - +
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Residues in contact with LEU 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A ILE* 3.6 35.4 - - + -
18A GLU* 5.6 0.7 - - - +
97A ALA* 3.2 23.5 + - + +
98A THR* 3.6 6.3 - - - +
100A ASP* 1.3 76.8 - - - +
102A ARG* 1.3 62.7 + - - +
104A ALA* 3.1 4.2 + - - +
105A ILE* 3.0 28.3 + - - +
120A LEU* 3.9 34.1 - - + +
123A ILE* 4.2 9.2 - - + -
124A LEU* 4.1 23.6 - - + -
127A GLU* 4.0 27.6 - - + -
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Residues in contact with ARG 102 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A THR* 3.3 37.1 + - - +
99A LYS* 3.3 10.7 + - - +
101A LEU* 1.3 78.6 - - - +
103A GLU* 1.3 61.9 + - - +
105A ILE* 3.1 14.1 + - - +
106A VAL* 3.1 18.1 + - - +
124A LEU* 4.0 17.4 - - + +
128A GLU* 2.9 31.7 + - - +
111W VAL 5.4 0.7 - - - -
112W HIS* 2.7 49.6 + - + +
113W ASP* 4.2 8.1 + - - +
114W TYR* 4.1 16.9 + - + +
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Residues in contact with GLU 103 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A HIS* 4.1 17.4 - - + -
13A LYS* 4.9 7.8 + - - -
99A LYS* 3.0 30.8 + - + +
100A ASP* 3.7 14.6 - - - +
102A ARG* 1.3 77.3 - - + +
104A ALA* 1.3 62.2 + - - +
106A VAL* 3.6 9.9 - - - +
107A HIS* 3.4 19.2 + - - +
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Residues in contact with ALA 104 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A HIS* 3.8 32.3 + - + +
14A ILE* 4.1 13.0 - - + -
100A ASP 2.8 17.7 + - - +
101A LEU 3.1 5.4 + - - +
103A GLU* 1.3 75.4 - - - +
105A ILE* 1.3 63.0 + - - +
107A HIS* 3.5 2.6 + - - +
108A CYS* 3.2 27.0 + - - -
120A LEU* 3.8 18.2 - - + -
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Residues in contact with ILE 105 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101A LEU 3.0 19.3 + - - +
102A ARG 3.1 6.0 + - - +
104A ALA* 1.3 74.5 - - - +
106A VAL* 1.3 68.3 + - - +
108A CYS* 3.2 7.8 + - - +
109A GLU* 3.0 22.3 + - - +
117A ARG* 3.8 27.3 + - + +
120A LEU* 3.8 22.4 - - + +
121A LYS* 3.9 25.8 - - + +
124A LEU* 3.9 25.4 - - + -
114W TYR* 3.6 35.2 - - + -
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Residues in contact with VAL 106 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ARG 3.1 11.1 + - - +
103A GLU* 3.6 12.6 - - - +
105A ILE* 1.3 77.7 - - - +
107A HIS* 1.3 66.4 + - + +
109A GLU* 3.4 6.0 + - - +
110A GLN* 3.0 25.5 + - + +
109W GLU* 6.2 0.2 - - - -
112W HIS* 3.4 30.5 - - + +
114W TYR* 3.4 19.1 - - - +
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Residues in contact with HIS 107 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A ASP* 3.9 4.8 + - - -
6A LYS* 3.3 33.8 - - + +
7A VAL* 3.7 31.8 + - + -
10A HIS* 3.7 31.2 + + + +
103A GLU 3.4 6.1 + - - +
104A ALA 3.9 3.6 - - - +
105A ILE 3.2 0.8 - - - -
106A VAL* 1.3 82.6 - - + +
108A CYS* 1.3 62.4 + - - +
110A GLN* 3.0 33.9 + - - +
111A VAL* 3.0 37.0 + - + +
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Residues in contact with CYS 108 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 4.3 17.0 - - - -
10A HIS* 6.2 1.3 - - - -
11A LEU* 5.7 0.7 - - - -
104A ALA* 3.2 15.6 + - - -
105A ILE 3.2 7.8 + - - +
107A HIS* 1.3 78.2 - - - +
109A GLU* 1.3 55.8 + - - +
111A VAL* 3.4 8.1 + - - -
112A HIS 3.0 7.8 + - - -
113A ASP* 2.7 42.8 + - - +
116A SER* 3.8 26.0 - - - -
117A ARG* 3.9 11.9 - - + -
120A LEU* 3.9 15.0 - - - -
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Residues in contact with GLU 109 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ILE 3.0 15.5 + - - +
106A VAL* 3.7 6.1 - - - +
108A CYS* 1.3 73.8 - - - +
110A GLN* 1.3 68.4 + - - +
112A HIS* 3.1 19.8 + - - +
114A TYR* 3.3 21.1 + - - -
117A ARG* 3.0 37.2 + - - +
106H VAL* 5.7 0.7 - - - +
109H GLU* 4.8 9.0 - - - +
117H ARG* 2.6 35.8 + - - -
109W GLU* 4.5 7.2 - - - +
----------------------------------------------------------
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Residues in contact with GLN 110 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A VAL* 3.0 18.0 + - + +
107A HIS* 3.0 34.9 + - - +
109A GLU* 1.3 81.2 - - - +
111A VAL* 1.3 63.8 + - + +
112A HIS* 3.5 12.0 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A ASP* 3.3 28.7 - - + +
7A VAL* 3.8 25.1 - - + -
107A HIS* 3.0 37.6 + - + +
108A CYS 3.6 7.4 - - - +
110A GLN* 1.3 85.2 - - + +
112A HIS* 1.3 68.5 + - - +
113A ASP* 4.0 7.5 - - + +
102H ARG* 5.6 0.3 - - - -
----------------------------------------------------------
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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