Contacts of the helix formed by residues 100 - 125 (chain C) in PDB entry 1HWT
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 TRP 100 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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59C ARG 5.1 1.2 + - - -
68C ARG* 6.3 0.9 - - - -
96C MET* 4.2 21.8 - - + +
98C GLN 3.8 0.2 + - - -
99C THR* 1.3 73.8 - - - +
101C ALA* 1.3 76.6 + - + +
103C GLU* 3.9 4.7 - - + +
104C ALA* 2.9 43.9 + - + +
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Residues in contact with ALA 101 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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99C THR* 3.2 7.2 + - - +
100C TRP* 1.3 99.8 - - + +
102C GLU* 1.3 63.4 + - + +
104C ALA* 3.4 1.7 + - - +
105C GLU* 3.0 25.3 + - - +
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Residues in contact with GLU 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60C ILE* 5.5 0.3 - - - +
98C GLN* 3.7 31.3 - - + +
99C THR* 2.8 51.9 + - - +
101C ALA* 1.3 77.7 - - + +
103C GLU* 1.3 62.1 + - - +
105C GLU* 3.5 6.3 + - - +
106C LYS* 3.1 21.7 + - - +
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Residues in contact with GLU 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94C HIS* 5.5 7.4 - - - -
95C TYR 5.3 0.2 - - - +
96C MET* 3.0 36.5 - - - +
97C GLU* 3.8 19.2 + - - +
98C GLN* 3.5 25.7 + - - +
99C THR 3.0 12.6 + - - +
100C TRP* 3.9 6.3 - - + +
102C GLU* 1.3 75.6 - - - +
104C ALA* 1.3 66.4 + - - +
106C LYS* 2.9 31.8 + - - +
107C GLU* 3.0 23.3 + - + +
107D GLU* 5.8 3.4 - - - +
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Residues in contact with ALA 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100C TRP* 2.9 48.7 + - + +
101C ALA 3.8 3.1 - - - +
103C GLU* 1.3 76.7 - - - +
105C GLU* 1.3 62.4 + - - +
107C GLU* 3.4 7.0 + - - +
108C LEU* 3.1 28.1 + - + +
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Residues in contact with GLU 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101C ALA 3.0 18.8 + - - +
102C GLU* 3.8 5.8 - - - +
104C ALA* 1.3 76.5 - - - +
106C LYS* 1.3 63.9 + - - +
108C LEU* 3.2 21.3 + - - +
109C LEU* 3.2 47.2 + - + +
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Residues in contact with LYS 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98C GLN* 3.2 30.6 - - - +
102C GLU 3.1 14.4 + - - +
103C GLU* 2.9 30.1 + - - +
105C GLU* 1.3 78.1 - - - +
107C GLU* 1.3 77.7 + - - +
109C LEU* 3.2 13.5 + - + +
110C LYS* 3.1 46.4 + - + +
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Residues in contact with GLU 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103C GLU* 3.0 21.4 + - + +
104C ALA* 3.9 5.8 - - - +
106C LYS* 1.3 90.3 + - - +
108C LEU* 1.3 60.3 + - - +
109C LEU 3.3 0.2 - - - -
110C LYS* 2.8 39.3 + - - +
111C ASP* 2.9 34.5 + - - +
107D GLU* 3.7 30.8 - - - +
110D LYS* 2.9 34.2 + - - +
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Residues in contact with LEU 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104C ALA* 3.1 17.3 + - + +
105C GLU* 3.4 28.9 - - - +
106C LYS 3.1 0.2 - - - -
107C GLU* 1.3 77.6 - - - +
109C LEU* 1.3 64.7 + - + +
111C ASP* 3.3 18.4 - - + +
112C ASN* 3.2 20.4 + - - +
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Residues in contact with LEU 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105C GLU* 3.2 36.5 + - + +
106C LYS* 3.2 11.9 + - + +
108C LEU* 1.3 76.4 - - + +
110C LYS* 1.3 61.6 + - - +
112C ASN* 3.3 5.6 + - + +
113C GLU* 2.8 46.0 + - + +
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Residues in contact with LYS 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106C LYS* 3.1 44.4 + - + +
107C GLU* 2.8 41.0 + - - +
109C LEU* 1.3 75.1 - - + +
111C ASP* 1.3 66.6 + - - +
113C GLU* 3.2 7.0 + - + +
114C LEU* 2.8 27.0 + - - +
107D GLU* 5.5 0.8 - - - +
110D LYS* 3.8 19.2 - - + +
111D ASP* 2.9 29.8 + - - -
114D LEU* 4.7 13.2 - - + +
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Residues in contact with ASP 111 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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107C GLU 2.9 10.2 + - - +
108C LEU* 3.3 23.6 - - + +
110C LYS* 1.3 75.9 - - - +
112C ASN* 1.3 56.2 + - - +
114C LEU* 3.3 3.8 - - - +
115C LYS* 3.1 25.3 + - - +
106D LYS* 4.5 5.5 + - - -
110D LYS* 2.7 34.5 + - - -
1E G 3.2 40.9 + - - +
2E C 4.6 4.6 + - - +
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Residues in contact with ASN 112 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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108C LEU 3.2 8.9 + - - +
109C LEU* 3.7 9.6 - - + +
110C LYS 3.2 0.2 - - - -
111C ASP* 1.3 78.6 - - - +
113C GLU* 1.3 70.5 + - - +
115C LYS* 3.3 18.1 + - - +
116C LYS* 2.9 64.7 + - - +
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Residues in contact with GLU 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109C LEU* 2.8 39.5 + - + +
110C LYS* 3.7 6.7 - - - +
112C ASN* 1.3 83.3 + - - +
114C LEU* 1.3 57.5 + - - +
116C LYS* 3.4 29.5 + - - +
117C LEU* 2.9 38.4 + - + +
114D LEU* 5.7 3.1 - - + -
118D ARG* 5.6 9.2 - - - +
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Residues in contact with LEU 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110C LYS 2.8 13.4 + - - +
111C ASP 3.3 6.1 - - - +
113C GLU* 1.3 75.4 - - - +
115C LYS* 1.3 66.0 + - - +
117C LEU* 3.0 11.2 + - - +
118C ARG* 3.0 21.2 + - - +
110D LYS* 3.4 29.6 - - + +
113D GLU* 3.5 34.5 - - + +
114D LEU* 3.9 13.9 - - + +
117D LEU* 3.6 12.8 - - + -
1E G 3.3 46.2 - - + +
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Residues in contact with LYS 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111C ASP 3.1 10.1 + - - +
112C ASN* 3.3 24.2 + - - +
114C LEU* 1.3 79.8 - - - +
116C LYS* 1.3 66.7 + - + +
118C ARG* 3.3 3.1 + - - +
119C GLU* 3.1 48.2 + - - +
1E G 3.8 45.5 - - + +
20F C 3.6 25.2 + - - -
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Residues in contact with LYS 116 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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112C ASN* 2.9 42.9 + - - +
113C GLU* 3.6 26.4 + - - +
115C LYS* 1.3 82.2 - - + +
117C LEU* 1.3 57.8 + - - +
119C GLU* 3.5 16.4 + - - +
120C ARG* 3.0 27.0 + - - +
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Residues in contact with LEU 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113C GLU* 2.9 24.0 + - + +
114C LEU* 3.0 11.2 + - - +
116C LYS* 1.3 74.5 - - - +
118C ARG* 1.3 61.1 + - - +
119C GLU 3.0 1.3 - - - -
120C ARG* 2.8 7.5 + - + +
121C VAL* 2.8 34.2 + - - +
114D LEU* 4.1 15.7 - - + +
117D LEU* 4.0 22.2 - - + +
118D ARG* 3.8 36.6 - - + +
121D VAL* 3.8 26.9 - - + -
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Residues in contact with ARG 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114C LEU* 3.0 11.4 + - - +
115C LYS 3.8 3.4 - - - +
117C LEU* 1.3 76.2 - - - +
119C GLU* 1.3 60.3 + - - +
121C VAL* 3.6 1.6 + - - +
122C LYS* 3.2 41.5 + - + +
113D GLU* 2.6 31.7 + - - -
117D LEU* 4.2 21.2 - - + +
1E G 2.6 52.5 + - - +
2E C 3.9 1.3 - - - +
19F G 3.2 18.8 + - - -
20F C 3.6 6.7 - - - +
70H ARG* 3.2 22.9 + - - +
72H VAL* 3.2 25.6 - - - +
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Residues in contact with GLU 119 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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115C LYS* 3.1 36.2 + - - +
116C LYS* 3.5 19.7 - - - +
117C LEU 3.0 0.6 - - - -
118C ARG* 1.3 76.7 - - - +
120C ARG* 1.3 59.5 + - - +
122C LYS* 3.5 5.7 + - - +
123C SER* 3.1 26.3 + - - -
20F C 3.1 60.5 - - + +
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Residues in contact with ARG 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116C LYS 3.0 16.8 + - - +
117C LEU* 2.8 11.2 + - + +
119C GLU* 1.3 75.4 - - - +
121C VAL* 1.3 59.7 + - - +
123C SER* 3.4 14.1 + - - -
124C LEU* 2.8 55.7 + - + +
121D VAL* 4.2 14.5 - - + +
125D GLU* 2.6 37.6 + - - +
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Residues in contact with VAL 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117C LEU 2.8 18.7 + - - +
118C ARG* 3.9 5.2 - - - +
120C ARG* 1.3 72.5 - - - +
122C LYS* 1.3 74.3 + - + +
124C LEU* 3.8 1.7 - - - +
125C GLU* 2.9 50.3 + - - +
117D LEU* 3.9 27.6 - - + +
120D ARG* 4.0 17.3 - - + +
121D VAL* 3.6 23.6 - - + +
124D LEU* 3.8 14.8 - - + +
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Residues in contact with LYS 122 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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118C ARG* 3.2 29.5 + - + +
119C GLU* 3.7 7.4 - - - +
121C VAL* 1.3 85.2 - - + +
123C SER* 1.3 55.3 + - - +
125C GLU* 2.6 24.7 + - - -
126C LYS* 2.7 67.9 + - + +
19F G 5.3 16.2 - - + +
20F C 5.5 3.4 - - + +
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Residues in contact with SER 123 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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119C GLU 3.1 15.1 + - - -
120C ARG* 3.5 17.6 + - - -
122C LYS* 1.3 81.7 - - - +
124C LEU* 1.3 64.4 + - - +
126C LYS* 3.6 3.2 - - - -
127C THR* 3.1 25.8 + - - -
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Residues in contact with LEU 124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C ARG* 2.8 48.3 + - + +
121C VAL 3.8 2.9 - - - +
123C SER* 1.3 73.2 - - - +
125C GLU* 1.3 64.1 + - - +
127C THR* 3.1 12.2 + - + +
128C LEU* 3.0 20.1 + - - +
121D VAL* 3.7 45.5 - - + +
124D LEU* 3.8 15.5 - - + -
125D GLU* 3.7 23.6 - - + +
128D LEU* 3.9 26.4 - - + +
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Residues in contact with GLU 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121C VAL* 2.9 42.9 + - - +
122C LYS* 2.6 42.6 + - - +
124C LEU* 1.3 69.1 - - - +
126C LYS* 1.3 71.7 + - + +
127C THR 2.8 5.6 + - - -
128C LEU* 2.8 29.9 + - + +
120D ARG* 3.6 19.5 + - - +
124D LEU* 3.6 20.6 - - + +
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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