Contacts of the helix formed by residues 95 - 133 (chain A) in PDB entry 3MIW
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 95 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94A MET* 1.3 74.9 - - + +
96A GLU* 1.3 91.8 + - - +
98A GLN* 3.7 7.8 + - - -
99A MET* 3.2 19.8 + - - +
95D ILE* 3.7 34.1 - - + -
96D GLU* 5.3 12.8 - - + +
99D MET* 3.6 27.3 - - + +
95J ILE* 3.9 20.6 - - + -
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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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94A MET* 3.6 10.4 - - + +
95A ILE* 1.3 101.1 + - - +
97A GLN* 1.3 64.3 + - + +
98A GLN 3.2 4.5 - - - -
99A MET* 3.5 4.7 - - - +
100A ASP* 3.5 7.1 - - - +
94J MET 5.6 0.9 - - - -
95J ILE* 3.5 22.8 - - + +
98J GLN* 2.8 47.1 + - - +
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Residues in contact with GLN 97 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A MET* 2.6 40.5 + - + +
96A GLU* 1.3 82.2 - - + +
98A GLN* 1.3 65.3 + - - +
99A MET 3.3 0.4 - - - -
100A ASP* 4.2 12.3 - - - +
101A ARG* 3.4 17.7 + - - +
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Residues in contact with GLN 98 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A MET 3.4 25.2 + - - +
95A ILE* 3.8 11.0 - - - +
97A GLN* 1.3 82.5 + - - +
99A MET* 1.3 55.4 + - - +
100A ASP 3.4 0.7 - - - -
101A ARG* 2.9 42.0 + - - +
102A ILE* 2.8 34.9 + - - +
96D GLU* 5.2 5.4 + - + +
99D MET* 3.8 32.4 - - + +
100D ASP* 3.2 15.9 + - - +
103D VAL* 4.5 7.2 - - + +
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Residues in contact with MET 99 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95A ILE 3.2 17.5 - - - +
96A GLU* 3.5 1.6 - - - +
98A GLN* 1.3 76.3 - - - +
100A ASP* 1.3 56.6 + - - +
101A ARG 3.1 1.3 - - - -
102A ILE* 3.5 7.7 - - - +
103A VAL* 2.9 35.5 + - - +
99D MET* 4.2 16.4 - - - -
95J ILE* 3.1 37.9 - - + +
98J GLN* 3.1 61.5 - - + +
99J MET* 3.7 18.4 - - - +
102J ILE* 4.4 12.1 - - + -
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Residues in contact with ASP 100 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96A GLU 3.5 12.8 + - - +
97A GLN* 4.2 11.1 - - - +
98A GLN 3.4 0.2 - - - -
99A MET* 1.3 75.9 - - - +
101A ARG* 1.3 59.9 + - - +
103A VAL* 4.0 7.9 - - - +
104A LYS* 3.2 30.6 + - - +
98J GLN* 3.4 18.5 + - - +
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Residues in contact with ARG 101 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A GLN 3.4 13.8 + - - +
98A GLN* 2.9 44.3 + - - +
100A ASP* 1.3 81.5 - - - +
102A ILE* 1.3 54.1 + - - +
104A LYS* 3.2 22.1 + - - +
105A GLU* 3.0 25.3 + - - +
100D ASP* 3.0 18.9 + - - +
103D VAL* 3.5 31.1 - - + +
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Residues in contact with ILE 102 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98A GLN 2.8 12.8 + - - +
99A MET* 3.5 13.2 - - - +
100A ASP 3.2 0.2 - - - -
101A ARG* 1.3 76.5 - - - +
103A VAL* 1.3 70.8 + - - +
104A LYS 3.1 2.9 + - - -
105A GLU* 3.2 11.6 + - - +
106A MET* 3.1 25.0 + - - +
99D MET* 5.7 9.6 - - + -
102D ILE* 3.5 36.1 - - + -
103D VAL* 4.4 11.9 - - + -
106D MET* 3.8 19.0 - - + +
102J ILE* 3.5 33.0 - - + -
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Residues in contact with VAL 103 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99A MET 2.9 23.2 + - - +
100A ASP* 4.0 9.6 - - - +
102A ILE* 1.3 84.0 - - - +
104A LYS* 1.3 60.1 - - - +
106A MET* 3.5 10.7 - - - +
107A ARG* 3.2 19.0 + - + +
98J GLN* 4.0 11.0 - - + +
101J ARG* 4.1 27.8 - - + +
102J ILE* 4.0 22.0 - - + -
105J GLU* 4.5 9.1 - - + +
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Residues in contact with LYS 104 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100A ASP 3.2 11.5 + - - +
101A ARG* 3.2 32.5 + - - +
102A ILE 3.1 0.4 - - - -
103A VAL* 1.3 77.5 - - - +
105A GLU* 1.3 86.5 + - - +
106A MET 3.1 1.6 - - - -
107A ARG* 2.8 25.7 + - + +
108A ARG* 2.8 44.1 + - + +
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Residues in contact with GLU 105 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101A ARG 3.0 21.3 - - - +
102A ILE* 3.2 2.4 + - - +
104A LYS* 1.3 100.9 + - - +
106A MET* 1.3 57.2 + - - +
108A ARG* 3.5 27.3 + - - -
109A GLN* 3.0 29.7 + - - +
103D VAL* 4.4 16.1 - - + +
106D MET* 3.3 32.3 - - + +
107D ARG* 3.5 30.2 - - - +
110D LEU* 3.5 9.9 - - - +
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Residues in contact with MET 106 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ILE* 3.1 20.4 - - + +
103A VAL* 3.5 8.3 - - - +
104A LYS 3.1 0.4 - - - -
105A GLU* 1.3 77.2 - - - +
107A ARG* 1.3 51.4 + - - +
109A GLN* 3.3 11.6 + - - +
110A LEU* 2.6 37.1 + - - +
106D MET* 3.8 26.9 - - + -
106H MET* 4.7 9.4 - - + -
109H GLN* 6.2 0.9 - - - +
102J ILE* 3.8 29.2 - - + -
105J GLU* 4.0 32.7 - - + +
106J MET* 3.6 28.3 - - + -
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Residues in contact with ARG 107 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103A VAL* 3.2 12.4 + - + +
104A LYS* 2.8 16.7 + - + +
106A MET* 1.3 76.1 - - - +
108A ARG* 1.3 66.0 + - + +
110A LEU* 3.2 14.7 - - + +
111A GLU* 3.1 19.9 + - - +
105J GLU* 4.8 7.4 + - - +
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Residues in contact with ARG 108 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A EDO 3.1 37.0 + - - -
104A LYS* 2.8 56.1 + - + +
105A GLU* 3.6 22.9 + - - +
107A ARG* 1.3 71.5 - - + +
109A GLN* 1.3 53.7 + - - +
111A GLU* 2.9 6.0 + - - +
112A MET* 2.7 29.1 + - - +
107D ARG* 6.2 0.2 - - - +
110D LEU* 3.4 22.7 - - + +
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Residues in contact with GLN 109 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105A GLU 3.0 16.4 + - - +
106A MET* 3.4 10.9 - - - +
108A ARG* 1.3 79.0 - - - +
110A LEU* 1.3 53.0 + - - +
112A MET* 2.7 24.2 + - - +
113A ILE* 2.7 20.6 + - + +
106D MET* 4.1 27.7 + - - +
109D GLN* 2.8 36.1 + - - +
110D LEU* 3.0 18.8 + - + +
113D ILE* 3.0 26.2 - - + +
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Residues in contact with LEU 110 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A MET 2.6 21.0 + - - +
107A ARG* 3.2 11.0 - - - +
109A GLN* 1.3 73.6 - - - +
111A GLU* 1.3 62.0 + - - +
113A ILE* 3.2 14.8 + - + +
114A ASP* 3.5 10.4 + - - +
105J GLU* 4.1 13.9 - - - +
108J ARG* 2.9 73.4 - - + +
109J GLN* 4.3 8.1 - - + +
112J MET* 4.7 8.1 - - + +
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Residues in contact with GLU 111 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16A EDO 3.6 11.7 - - - +
107A ARG 3.1 7.6 + - - +
108A ARG* 2.9 12.2 + - - +
110A LEU* 1.3 78.3 - - - +
112A MET* 1.3 63.0 + - - +
114A ASP* 3.6 10.2 - - - +
115A LYS* 3.3 27.2 + - - +
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Residues in contact with MET 112 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16A EDO 3.6 22.4 - - - +
108A ARG 2.7 5.1 + - - +
109A GLN* 2.7 24.0 + - - +
111A GLU* 1.3 74.8 - - - +
113A ILE* 1.3 55.1 + - - +
114A ASP 3.0 8.9 + - - -
115A LYS* 3.5 15.4 + - - +
116A LEU* 3.3 21.1 + - - +
110D LEU* 3.2 43.5 - - + +
113D ILE* 3.1 30.3 - - + +
114D ASP* 4.0 27.6 - - + +
117D THR* 5.4 6.0 - - - -
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Residues in contact with ILE 113 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109A GLN* 2.7 12.7 + - + +
110A LEU* 3.2 12.3 + - - +
112A MET* 1.3 75.7 - - - +
114A ASP* 1.3 57.4 + - - +
116A LEU* 4.1 14.7 - - + +
117A THR* 3.3 22.3 + - - -
113D ILE* 5.1 7.4 - - + -
109J GLN* 6.5 0.4 - - - -
112J MET* 4.6 24.1 - - + +
113J ILE* 5.8 6.1 - - + -
116J LEU* 5.4 2.9 - - + +
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Residues in contact with ASP 114 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A LEU 3.5 9.3 + - - +
111A GLU* 3.6 12.6 - - - +
112A MET 3.0 0.4 - - - -
113A ILE* 1.3 79.9 - - - +
115A LYS* 1.3 68.8 + - - +
116A LEU 2.9 2.0 + - - -
117A THR* 3.0 7.3 + - - +
118A THR* 2.9 37.5 + - - -
115E LYS* 5.3 9.0 - - - -
115J LYS* 5.3 4.5 + - - -
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Residues in contact with LYS 115 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16A EDO 4.6 10.7 + - - -
111A GLU* 3.3 15.3 + - - +
112A MET* 3.9 15.1 - - - +
114A ASP* 1.3 82.1 + - - +
116A LEU* 1.3 56.4 + - - +
118A THR* 4.7 3.6 - - - +
119A ARG* 3.2 46.9 + - - +
117D THR* 5.6 10.3 - - - -
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Residues in contact with LEU 116 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112A MET 3.3 14.6 + - - +
113A ILE* 4.3 11.2 - - + +
114A ASP 2.9 0.2 - - - -
115A LYS* 1.3 78.8 - - - +
117A THR* 1.3 58.7 + - - +
119A ARG* 3.2 6.4 - - - +
120A GLU* 2.8 25.7 + - - +
113D ILE* 4.8 8.7 - - + +
116D LEU* 3.9 22.2 - - + +
117D THR* 3.5 26.6 - - - +
120D GLU* 3.1 40.1 - - + +
116J LEU* 4.1 32.3 - - + -
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Residues in contact with THR 117 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113A ILE 3.3 17.1 + - - -
114A ASP* 3.0 9.2 + - - +
116A LEU* 1.3 76.1 - - - +
118A THR* 1.3 64.6 + - - +
119A ARG 2.9 1.1 - - - -
120A GLU* 2.6 30.8 + - - +
121A ILE* 2.9 18.8 + - + +
112J MET 4.1 4.7 + - - -
115J LYS* 4.1 31.0 - - - +
116J LEU* 3.3 29.9 - - - +
119J ARG* 4.5 10.5 - - + -
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Residues in contact with THR 118 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A ASP* 2.9 27.6 + - - -
115A LYS* 4.7 3.4 - - - +
117A THR* 1.3 75.5 - - - +
119A ARG* 1.3 66.9 + - - +
121A ILE* 3.0 35.0 + - + +
122A GLU* 3.3 16.1 + - + +
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Residues in contact with ARG 119 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115A LYS* 3.2 40.6 + - - +
116A LEU* 3.2 8.1 - - - +
117A THR 2.9 0.2 - - - -
118A THR* 1.3 81.2 - - - +
120A GLU* 1.3 66.9 + - - +
122A GLU* 3.0 43.4 + - - +
123A GLN* 3.3 11.3 + - - +
117D THR* 5.4 1.6 - - - +
120D GLU* 4.4 27.8 - - + +
121D ILE* 4.9 12.6 - - + +
124D ILE* 4.6 4.2 - - + +
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Residues in contact with GLU 120 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116A LEU* 2.8 12.5 + - - +
117A THR* 2.6 19.7 + - - +
119A ARG* 1.3 73.6 - - - +
121A ILE* 1.3 53.2 + - - -
123A GLN* 3.4 7.7 + - - +
124A ILE* 3.1 26.4 + - - +
120D GLU* 4.0 19.3 + - - +
116J LEU* 2.7 36.7 - - - +
119J ARG* 2.6 33.0 - - + +
120J GLU* 2.9 32.7 + - - +
123J GLN* 4.2 13.5 - - - +
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Residues in contact with ILE 121 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117A THR* 3.3 20.4 - - + +
118A THR* 3.0 29.1 + - + +
120A GLU* 1.3 75.0 - - - +
122A GLU* 1.3 63.2 + - + +
124A ILE* 3.1 19.2 + - + +
125A GLU* 3.3 22.7 + - + +
107E ARG* 6.4 1.6 - - + -
111E GLU* 6.4 2.7 - - + -
115J LYS* 5.0 7.6 - - - +
119J ARG* 4.1 34.3 - - + +
122J GLU* 5.8 0.7 - - - +
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Residues in contact with GLU 122 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23A EDO 3.1 45.3 + - - -
118A THR* 3.5 17.5 - - + +
119A ARG* 3.0 44.6 + - - +
121A ILE* 1.3 74.8 - - + +
123A GLN* 1.3 68.0 + - - +
125A GLU* 2.9 18.1 + - - +
126A LEU* 3.3 7.3 + - + +
124D ILE* 4.7 11.0 - - + +
128D LYS* 5.9 1.1 - - - -
108E ARG* 4.9 9.9 + - - -
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Residues in contact with GLN 123 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119A ARG 3.3 6.4 + - - +
120A GLU* 3.4 11.4 - - - +
121A ILE 3.3 0.2 - - - -
122A GLU* 1.3 79.9 - - - +
124A ILE* 1.3 61.5 + - - +
126A LEU* 3.9 1.5 + - - -
127A LEU* 3.2 24.8 + - - +
120D GLU* 3.6 28.9 + - - +
123D GLN* 3.5 47.0 + - - +
124D ILE* 4.0 12.8 - - + +
127D LEU* 3.4 27.5 - - + +
123F GLN* 5.3 1.6 + - - -
123H GLN* 5.2 0.7 + - - -
123J GLN* 2.4 30.3 + - - +
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Residues in contact with ILE 124 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120A GLU 3.1 17.0 + - - +
121A ILE* 3.3 16.2 - - + +
122A GLU 3.0 0.8 - - - -
123A GLN* 1.3 78.1 - - - +
125A GLU* 1.3 58.8 + - + +
127A LEU* 3.5 4.6 - - - +
128A LYS* 3.0 26.8 + - + +
119J ARG* 3.1 20.0 - - + +
122J GLU* 3.2 37.9 - - + +
123J GLN* 3.1 36.8 - - + +
126J LEU* 3.8 11.1 - - + +
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Residues in contact with GLU 125 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23A EDO 3.2 28.5 + - - +
121A ILE* 3.3 23.8 - - + +
122A GLU* 2.9 6.0 + - - +
124A ILE* 1.3 74.4 - - + +
126A LEU* 1.3 50.4 + - - +
127A LEU 2.7 4.7 + - - -
128A LYS* 2.7 10.2 + - - +
129A ARG* 2.5 48.8 + - - +
103E VAL* 5.5 3.1 - - - +
104E LYS* 3.9 24.0 - - - +
107E ARG* 4.2 20.4 - - - +
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Residues in contact with LEU 126 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A EDO 3.2 20.4 - - - +
122A GLU* 3.3 7.9 + - + +
123A GLN 4.4 1.6 - - - +
125A GLU* 1.3 77.8 - - - +
127A LEU* 1.3 57.1 + - - +
129A ARG* 3.5 40.3 - - - +
130A ILE* 2.9 36.4 + - - +
124D ILE* 3.1 31.9 - - + +
127D LEU* 4.1 15.9 - - + +
128D LYS* 3.6 42.8 - - + +
131D HIS* 5.0 6.5 - - + -
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Residues in contact with LEU 127 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123A GLN 3.2 19.7 + - - +
124A ILE* 3.5 7.2 - - - +
125A GLU 2.7 4.9 + - - -
126A LEU* 1.3 70.7 - - - +
128A LYS* 1.3 57.0 + - - +
129A ARG 2.9 8.9 + - - -
130A ILE* 3.1 8.5 + - - +
131A HIS* 3.0 22.9 + - - +
127D LEU* 4.7 11.6 - - + +
123J GLN* 5.7 6.7 - - + +
126J LEU* 4.1 15.3 - - + -
127J LEU* 6.0 4.0 - - + +
130J ILE* 4.0 16.3 - - + +
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Residues in contact with LYS 128 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ILE* 3.0 20.0 + - + +
125A GLU* 2.7 10.4 + - - +
127A LEU* 1.3 71.1 - - - +
129A ARG* 1.3 58.1 + - - +
131A HIS* 3.6 13.5 + - - +
132A ASP* 3.0 23.9 - - - +
101C ARG* 4.3 11.3 + - - +
126J LEU* 3.7 19.9 - - + +
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Residues in contact with ARG 129 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A EDO 4.3 18.0 + - - -
28A EDO 2.9 27.0 + - - +
125A GLU* 2.5 29.6 + - - +
126A LEU* 3.5 31.4 - - - +
128A LYS* 1.3 71.9 - - - +
130A ILE* 1.3 61.3 + - - +
131A HIS 2.9 6.0 + - - -
132A ASP* 3.2 15.4 + - - +
133A ASN 3.4 0.9 + - - -
98C GLN* 6.3 0.2 - - - +
101C ARG* 5.8 1.8 - - - +
128D LYS* 6.2 0.2 - - - +
131D HIS* 3.5 36.0 - - + +
100E ASP* 3.5 52.1 + - - +
104E LYS* 4.7 8.1 - - - +
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Residues in contact with ILE 130 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU 2.9 26.1 + - - +
127A LEU* 3.6 5.8 - - - +
129A ARG* 1.3 74.7 - - - +
131A HIS* 1.3 58.9 + - - +
133A ASN* 3.4 7.4 - - - +
134A LEU* 3.2 27.0 - - + +
127D LEU* 3.4 36.3 - - + +
130D ILE* 3.2 31.6 - - + -
131D HIS* 4.0 20.9 - - + +
134D LEU* 3.4 17.3 - - + -
130J ILE* 4.1 20.2 - - + -
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Residues in contact with HIS 131 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A LEU 3.0 14.9 + - - +
128A LYS* 3.6 13.2 + - - +
129A ARG 2.9 1.0 - - - -
130A ILE* 1.3 75.2 - - - +
132A ASP* 1.3 71.9 + - - +
133A ASN 2.8 4.5 - - - -
134A LEU* 2.6 32.8 + - + +
135A ILE* 3.1 21.1 + - + +
97C GLN* 5.5 0.2 - - - -
126J LEU* 5.3 8.3 - - + -
129J ARG* 3.8 37.7 - - + +
130J ILE* 4.4 14.8 - - + -
133J ASN* 5.9 2.9 - - + -
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Residues in contact with ASP 132 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A EDO 4.1 12.9 - - - -
128A LYS 3.0 13.9 - - - +
129A ARG* 3.2 8.7 + - - +
131A HIS* 1.3 92.3 + - - +
133A ASN* 1.3 56.1 + - - +
134A LEU 3.2 0.2 - - - -
135A ILE* 3.6 2.5 - - - -
136A THR* 3.0 34.7 + - - +
97C GLN* 3.2 36.6 + - - +
98C GLN* 5.0 1.9 + - - +
101C ARG* 2.4 39.6 + - - -
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Residues in contact with ASN 133 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A EDO 3.5 25.5 + - - +
129A ARG 3.4 2.7 + - - +
130A ILE* 3.4 12.6 - - - +
131A HIS 2.8 0.6 - - - -
132A ASP* 1.3 79.8 - - - +
134A LEU* 1.3 61.5 + - - +
135A ILE 3.3 2.0 - - - -
136A THR* 4.0 17.5 - - - +
131D HIS* 4.6 2.2 - - + -
134D LEU* 2.9 58.8 + - - +
135D ILE* 5.0 3.8 - - - +
138D PRO 4.5 9.7 + - - +
94E MET* 6.1 0.5 - - - +
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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