Contacts of the helix formed by residues 96 - 120 (chain A) in PDB entry 2I59
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 HIS 96 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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50A PHE* 4.7 3.8 - - - -
56A LYS* 6.3 1.7 - - - -
59A MET* 4.6 3.4 - - - +
94A GLU* 3.3 31.8 + - - +
95A PRO* 1.3 78.0 + - - +
97A PRO* 1.3 78.0 - - + +
98A LEU* 3.5 3.1 - - + +
99A MET* 3.0 34.4 - - + +
100A PHE* 3.7 4.7 - - - -
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Residues in contact with PRO 97 (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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50A PHE* 3.5 28.7 - - + +
51A LYS* 4.8 6.5 - - - +
59A MET* 3.2 32.3 - - + -
96A HIS* 1.3 89.4 - - + +
98A LEU* 1.3 67.1 + - + +
99A MET 2.9 5.7 + - - -
100A PHE* 3.0 18.4 + - - +
101A GLN* 2.7 22.5 + - - +
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Residues in contact with LEU 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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51A LYS* 4.7 11.2 - - + +
96A HIS* 3.5 2.1 - - + +
97A PRO* 1.3 88.4 - - + +
99A MET* 1.3 60.9 + - - +
100A PHE 3.1 0.4 - - - -
101A GLN* 3.1 39.7 + - + +
102A LYS* 3.5 6.6 + - - +
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Residues in contact with MET 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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87A LEU* 3.7 21.8 - - + -
91A ILE* 4.1 35.4 - - + -
92A LEU* 4.5 5.2 - - + -
95A PRO* 5.1 3.8 - - + -
96A HIS* 3.0 35.9 + - + +
97A PRO 2.9 0.8 + - - -
98A LEU* 1.3 78.5 - - - +
100A PHE* 1.3 93.8 + - + +
102A LYS* 3.4 12.0 - - - +
103A LEU* 3.4 22.3 - - - +
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Residues in contact with PHE 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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43A PHE* 4.7 14.4 - + + -
47A CYS* 4.4 11.6 - - + +
50A PHE* 3.5 21.5 - + + -
63A ALA* 3.2 53.2 - - + -
66A ILE* 3.6 18.8 - - + -
67A TYR* 4.5 5.2 - - + -
71A LEU* 5.8 0.7 - - + -
87A LEU* 4.1 13.0 - - + -
92A LEU* 3.9 4.3 - - + -
95A PRO* 4.8 1.6 - - + -
96A HIS 3.7 8.3 - - - -
97A PRO 3.0 7.5 + - - +
99A MET* 1.3 110.0 - - + +
101A GLN* 1.3 58.0 + - - +
102A LYS 3.0 5.4 - - - -
103A LEU* 2.9 11.5 + - + +
104A GLN* 2.7 32.9 + - - +
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Residues in contact with GLN 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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47A CYS 3.1 26.3 + - - -
50A PHE* 4.9 0.6 - - - -
51A LYS* 3.5 34.8 - - + +
97A PRO 2.7 30.4 + - - +
98A LEU* 3.1 24.9 + - + +
100A PHE* 1.3 83.5 - - - +
102A LYS* 1.3 56.7 + - - +
104A GLN* 3.4 26.0 + - + +
105A ASP* 2.9 28.6 + - - +
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Residues in contact with LYS 102 (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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82A GLU* 4.6 14.6 + - - -
86A ARG* 4.8 12.0 - - - +
98A LEU 3.5 6.0 + - - +
99A MET* 3.4 16.6 - - - +
101A GLN* 1.3 80.1 - - - +
103A LEU* 1.3 70.4 + - + +
105A ASP* 3.6 4.7 + - - +
106A GLN* 3.2 20.8 + - - +
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Residues in contact with LEU 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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43A PHE* 4.2 19.0 - - + -
71A LEU* 5.0 8.5 - - + -
82A GLU* 4.1 39.7 - - - +
87A LEU* 4.4 25.1 - - + -
99A MET* 3.4 25.8 - - - +
100A PHE* 2.9 11.5 + - + +
102A LYS* 1.3 86.5 - - + +
104A GLN* 1.3 55.0 + - - +
105A ASP 3.4 0.2 - - - -
106A GLN* 3.3 18.5 + - + +
107A ILE* 2.8 35.6 + - - +
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Residues in contact with GLN 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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43A PHE* 4.9 1.1 - - - -
44A TRP* 3.5 24.7 - - + +
47A CYS* 3.0 39.1 - - - -
48A GLU* 2.9 42.6 + - - -
51A LYS* 4.7 1.8 - - - +
100A PHE 2.7 19.1 + - - +
101A GLN* 3.4 26.1 + - - +
103A LEU* 1.3 70.8 - - - +
105A ASP* 1.3 56.2 + - - +
107A ILE* 3.1 11.4 - - - +
108A PHE* 2.8 35.4 + - - +
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Residues in contact with ASP 105 (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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101A GLN 2.9 18.0 + - - +
102A LYS* 3.9 4.9 - - - +
104A GLN* 1.3 76.0 - - - +
106A GLN* 1.3 64.0 + - - +
108A PHE* 3.4 15.0 - - - +
109A ASN* 3.1 21.8 + - - +
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Residues in contact with GLN 106 (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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81A VAL* 3.5 34.2 - - - +
82A GLU* 4.1 16.1 - - + +
102A LYS 3.2 15.3 + - - +
103A LEU* 3.3 23.4 + - + +
104A GLN 3.1 0.2 - - - -
105A ASP* 1.3 78.5 + - - +
107A ILE* 1.3 65.7 + - - +
109A ASN* 3.0 11.4 + - - +
110A LEU* 3.0 31.4 + - - +
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Residues in contact with ILE 107 (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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40A ASN* 3.3 26.9 - - - +
43A PHE* 4.1 25.8 - - + -
44A TRP* 3.9 16.2 - - + -
79A VAL* 4.1 19.1 - - + -
81A VAL* 3.9 30.7 - - + -
103A LEU 2.8 18.8 + - - +
104A GLN* 3.1 23.6 - - + +
106A GLN* 1.3 79.0 + - - +
108A PHE* 1.3 53.0 + - - +
110A LEU* 4.1 9.6 - - + -
111A MET* 2.6 39.6 + - + +
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Residues in contact with PHE 108 (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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15A LEU* 3.5 35.0 - - + +
16A GLU* 4.7 13.7 - - + -
19A LEU* 3.8 15.3 - - + -
44A TRP* 3.7 25.1 - + - +
104A GLN 2.8 18.2 + - - +
105A ASP* 3.4 17.7 - - - +
106A GLN 3.1 0.2 - - - -
107A ILE* 1.3 80.8 - - - +
109A ASN* 1.3 64.2 + - - +
111A MET* 3.4 7.8 - - - +
112A LYS* 3.1 24.5 + - + +
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Residues in contact with ASN 109 (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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105A ASP* 3.1 11.3 + - - +
106A GLN* 3.0 12.2 + - - +
108A PHE* 1.3 76.6 - - + +
110A LEU* 1.3 71.0 + - - +
111A MET 3.3 0.2 + - - -
112A LYS* 3.3 7.4 + - - +
113A TYR* 3.3 22.9 + - - +
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Residues in contact with LEU 110 (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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40A ASN* 5.6 2.5 - - - +
79A VAL* 4.4 9.4 - - + -
80A ASN* 5.0 10.3 - - - +
81A VAL* 3.7 20.0 - - + -
106A GLN* 3.0 24.9 + - - +
107A ILE* 3.8 19.7 - - + +
109A ASN* 1.3 83.5 - - - +
111A MET* 1.3 55.2 + - - +
113A TYR* 4.4 15.9 - - + -
114A ASP* 2.7 63.1 + - + +
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Residues in contact with MET 111 (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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15A LEU* 3.8 27.4 - - + -
19A LEU* 4.0 15.7 - - - -
28A PHE* 4.6 9.0 - - + -
40A ASN* 4.1 22.7 - - - +
41A VAL* 5.4 2.5 - - - -
44A TRP* 3.5 44.2 - - + -
107A ILE* 2.6 31.7 + - + +
108A PHE* 3.4 8.3 - - - +
109A ASN 3.1 0.2 - - - -
110A LEU* 1.3 73.3 - - - +
112A LYS* 1.3 61.8 + - - +
115A SER* 2.7 57.1 + - - +
116A TYR* 3.5 0.7 + - - -
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Residues in contact with LYS 112 (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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15A LEU* 3.8 13.4 - - + +
108A PHE* 3.1 14.4 + - + +
109A ASN* 3.3 9.2 + - - +
111A MET* 1.3 78.9 - - - +
113A TYR* 1.3 63.2 + - - +
116A TYR* 2.9 56.6 - - + +
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Residues in contact with TYR 113 (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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109A ASN* 3.3 12.5 + - - +
110A LEU* 3.7 20.0 - - + +
112A LYS* 1.3 83.3 - - - +
114A ASP* 1.3 73.9 + - + +
116A TYR* 4.1 0.9 - - - +
117A SER* 2.8 36.7 + - - -
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Residues in contact with ASP 114 (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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40A ASN* 4.7 4.5 + - - -
80A ASN* 5.4 5.0 + - - +
110A LEU* 2.7 42.5 + - + +
113A TYR* 1.3 79.8 - - + +
115A SER* 1.3 66.6 + - - +
117A SER* 2.8 24.6 + - - -
118A ARG* 2.8 55.9 + - - +
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Residues in contact with SER 115 (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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15A LEU* 5.7 1.1 - - - -
28A PHE* 3.7 27.7 - - - -
32A LEU* 4.3 2.6 - - - +
40A ASN* 3.1 28.2 + - - -
111A MET* 2.7 32.9 + - - +
114A ASP* 1.3 79.8 + - - +
116A TYR* 1.3 55.9 + - - -
118A ARG* 3.2 8.9 + - - +
119A PHE* 2.8 31.5 + - - +
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Residues in contact with TYR 116 (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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11A TRP 2.8 23.6 + - - -
12A ALA* 3.9 19.3 - - + -
13A ALA 4.3 1.2 + - - -
14A SER* 3.1 6.1 + - - -
15A LEU* 2.8 54.5 + - + -
18A LEU* 5.3 4.0 - - + -
111A MET 4.2 1.1 - - - -
112A LYS* 2.9 47.0 + - + +
113A TYR 4.1 1.1 - - - +
114A ASP 3.2 0.8 - - - -
115A SER* 1.3 73.7 - - - +
117A SER* 1.3 58.7 + - - +
118A ARG 3.0 4.7 + - - -
119A PHE* 4.7 2.7 - - - -
120A LEU* 2.8 60.7 + - + +
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Residues in contact with SER 117 (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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113A TYR* 2.8 26.4 + - - -
114A ASP* 2.8 11.9 + - - -
116A TYR* 1.3 76.4 - - - +
118A ARG* 1.3 58.1 + - - +
120A LEU* 5.1 2.0 - - - -
121A LYS* 3.0 25.2 + - - +
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Residues in contact with ARG 118 (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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31A PHE* 3.0 26.7 - - + -
32A LEU* 3.6 17.9 - - + -
35A GLU* 2.8 39.0 + - - +
37A SER* 2.7 31.4 + - - -
79A VAL* 5.9 3.2 - - - +
80A ASN* 4.5 15.2 - - - +
114A ASP* 2.8 48.3 + - - +
115A SER* 3.4 7.9 - - - +
116A TYR 3.0 0.2 - - - -
117A SER* 1.3 78.2 - - - +
119A PHE* 1.3 62.1 + - - +
120A LEU 3.2 1.3 - - - -
121A LYS* 2.9 30.8 + - - +
122A SER 3.2 0.5 + - - -
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Residues in contact with PHE 119 (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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8A THR* 5.8 0.4 - - + -
11A TRP* 4.7 27.8 - + + -
12A ALA* 6.4 0.4 - - + -
18A LEU* 5.9 3.4 - - + -
27A ARG* 4.3 3.6 - - + -
28A PHE* 3.8 44.0 - + + -
31A PHE* 3.7 21.5 - + + -
115A SER 2.8 19.3 + - - +
116A TYR* 4.2 4.0 - - - +
118A ARG* 1.3 73.2 - - - +
120A LEU* 1.3 65.4 + - + +
121A LYS 3.4 2.6 + - - -
122A SER 3.4 19.6 - - - +
123A ASP* 3.4 5.0 - - - -
124A LEU* 3.8 34.1 - - + -
125A PHE* 3.7 29.6 - + - -
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Residues in contact with LEU 120 (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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12A ALA* 4.4 18.2 - - + -
116A TYR* 2.8 48.1 + - + +
117A SER* 4.6 2.0 - - - -
119A PHE* 1.3 82.0 - - + +
121A LYS* 1.3 58.7 + - - +
123A ASP* 3.3 22.5 - - - +
125A PHE* 3.8 28.3 - - + -
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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
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Atomic class I II III IV V VI VII VIII
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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