Contacts of the helix formed by residues 96 - 134 (chain J) 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 GLU 96 (chain J).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95H ILE* 3.7 33.1 - - + +
98H GLN* 5.7 0.2 - - - +
94J MET* 3.2 23.7 - - + +
95J ILE* 1.3 93.8 - - - +
97J GLN* 1.3 58.4 + - + +
99J MET* 3.0 29.5 + - + +
100J ASP* 3.2 14.2 - - - +
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Residues in contact with GLN 97 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94J MET* 2.6 45.7 + - + +
95J ILE 3.2 0.2 - - - -
96J GLU* 1.3 74.4 - - + +
98J GLN* 1.3 58.1 + - + +
99J MET 3.1 5.4 - - - -
100J ASP* 3.6 12.3 + - - +
101J ARG* 3.3 22.9 + - - +
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Residues in contact with GLN 98 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A GLU* 2.8 41.1 + - - +
99A MET* 3.1 40.5 - - + +
100A ASP* 3.4 20.1 + - - +
103A VAL* 4.0 4.4 - - + +
94J MET 3.4 10.8 - - - +
95J ILE* 3.3 20.8 + - - +
96J GLU 3.2 0.4 - - - -
97J GLN* 1.3 74.8 - - + +
99J MET* 1.3 60.4 + - - +
101J ARG* 3.7 11.1 + - - +
102J ILE* 2.9 30.1 + - - +
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Residues in contact with MET 99 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A MET* 3.8 17.0 - - - +
95H ILE* 3.8 14.4 - - + +
98H GLN* 3.0 55.4 - - + +
99H MET* 3.6 26.9 - - + +
102H ILE* 4.1 10.9 - - + +
95J ILE* 3.2 16.4 - - - +
96J GLU* 3.0 22.0 - - - +
97J GLN 3.1 0.2 - - - -
98J GLN* 1.3 77.7 - - - +
100J ASP* 1.3 58.4 + - - +
101J ARG 3.2 0.2 - - - -
102J ILE* 2.9 23.6 + - - +
103J VAL* 2.9 18.9 + - + +
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Residues in contact with ASP 100 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98H GLN* 5.5 4.7 - - - +
96J GLU 3.2 15.1 - - - +
97J GLN* 3.6 13.1 + - - +
99J MET* 1.3 74.3 - - - +
101J ARG* 1.3 57.6 + - - +
102J ILE 2.8 5.6 - - - -
103J VAL* 4.1 10.1 - - - +
104J LYS* 2.9 32.2 + - - +
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Residues in contact with ARG 101 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A VAL* 4.1 20.6 - - + +
97J GLN 3.3 14.9 + - - +
98J GLN* 3.9 10.1 - - - +
99J MET 3.2 0.4 - - - -
100J ASP* 1.3 78.6 - - - +
102J ILE* 1.3 54.4 + - - +
104J LYS* 4.4 4.5 - - - -
105J GLU* 2.6 37.2 - - - +
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Residues in contact with ILE 102 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99A MET* 4.4 17.5 - - + -
102A ILE* 3.5 37.5 - - + -
103A VAL* 4.0 4.7 - - + -
106A MET* 3.8 21.8 - - + -
102H ILE* 3.7 23.8 - - + -
98J GLN 2.9 24.0 - - - +
99J MET* 2.9 14.3 + - - +
100J ASP 2.8 0.4 - - - -
101J ARG* 1.3 80.7 - - - +
103J VAL* 1.3 58.7 + - - +
104J LYS 3.0 1.6 - - - -
105J GLU* 3.0 6.0 + - - +
106J MET* 2.8 35.4 + - - +
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Residues in contact with VAL 103 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98H GLN* 5.3 3.4 - - + +
101H ARG* 4.0 48.5 - - + +
102H ILE* 3.7 28.3 - - + -
105H GLU* 5.0 7.5 - - + +
99J MET* 2.9 15.8 + - + +
100J ASP* 4.1 9.9 - - - +
102J ILE* 1.3 76.0 - - - +
104J LYS* 1.3 61.8 + - - +
106J MET* 3.3 10.3 + - - +
107J ARG* 3.1 23.3 + - + +
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Residues in contact with LYS 104 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100J ASP 2.9 19.3 + - - +
101J ARG* 4.4 4.3 - - - -
103J VAL* 1.3 79.7 - - - +
105J GLU* 1.3 73.1 + - - +
106J MET 3.2 1.2 + - - -
107J ARG* 3.3 4.7 + - - +
108J ARG* 3.1 30.0 + - + +
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Residues in contact with GLU 105 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103A VAL* 4.5 18.6 - - + +
106A MET* 4.0 30.2 - - + +
107A ARG* 4.8 10.2 - - - +
110A LEU* 4.1 13.2 - - - +
101J ARG* 2.6 28.5 - - - +
102J ILE 3.0 5.3 + - - +
104J LYS* 1.3 83.1 - - - +
106J MET* 1.3 59.0 + - - +
108J ARG* 3.2 39.0 + - - +
109J GLN* 3.8 14.7 + - - +
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Residues in contact with MET 106 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A MET* 3.6 21.1 - - + -
102H ILE* 3.6 26.0 - - - +
105H GLU* 3.3 22.4 - - + +
106H MET* 3.2 60.1 - - + +
109H GLN* 3.7 9.8 + - - +
102J ILE* 2.8 23.0 + - - +
103J VAL* 3.6 11.7 - - - +
104J LYS 3.1 0.2 - - - -
105J GLU* 1.3 78.0 - - - +
107J ARG* 1.3 61.3 + - - +
108J ARG 3.2 1.3 - - - -
109J GLN* 3.1 9.7 + - - +
110J LEU* 3.1 25.2 + - - +
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Residues in contact with ARG 107 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101H ARG* 6.2 0.7 - - - +
105H GLU* 4.4 14.3 + - - +
103J VAL* 3.1 14.4 + - + +
104J LYS* 3.9 4.9 - - - +
106J MET* 1.3 74.2 - - - +
108J ARG* 1.3 58.8 + - + +
109J GLN 2.9 5.2 - - - -
110J LEU* 3.1 10.1 + - + +
111J GLU* 2.9 31.0 + - - +
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Residues in contact with ARG 108 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU* 2.9 51.3 - - + +
3J EDO 5.1 11.8 + - - -
36J EDO 5.8 1.3 - - - +
104J LYS* 3.1 18.0 + - - +
105J GLU* 3.2 37.9 + - - +
106J MET 3.2 0.4 - - - -
107J ARG* 1.3 76.9 - - + +
109J GLN* 1.3 56.0 + - - +
111J GLU* 4.2 8.4 - - - +
112J MET* 3.5 13.8 + - - +
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Residues in contact with GLN 109 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU* 4.4 6.5 - - + -
109H GLN* 3.2 20.0 - - - +
105J GLU 3.8 12.5 + - - +
106J MET* 3.1 13.6 - - - +
108J ARG* 1.3 78.8 - - - +
110J LEU* 1.3 58.1 + - - +
111J GLU 3.3 1.1 - - - -
112J MET* 3.8 5.6 - - - +
113J ILE* 2.9 37.3 + - + +
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Residues in contact with LEU 110 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105H GLU* 3.7 23.3 - - + +
108H ARG* 3.2 53.8 - - + +
109H GLN* 3.4 26.9 - - + -
112H MET* 3.8 17.0 - - + +
106J MET 3.1 11.2 + - - +
107J ARG* 3.6 8.7 - - + +
109J GLN* 1.3 76.7 - - - +
111J GLU* 1.3 60.0 + - - +
113J ILE* 3.5 4.1 + - + +
114J ASP* 2.9 30.0 + - - +
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Residues in contact with GLU 111 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36J EDO 3.5 28.7 - - - +
107J ARG 2.9 16.2 + - - +
108J ARG* 4.6 5.6 - - - +
110J LEU* 1.3 78.6 - - - +
112J MET* 1.3 62.2 + - - +
114J ASP* 3.1 9.4 + - - +
115J LYS* 3.0 24.9 + - - +
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Residues in contact with MET 112 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A LEU* 4.7 7.2 - - + +
113A ILE* 4.6 26.0 - - + +
117A THR* 4.1 5.9 + - - -
108J ARG 3.5 17.9 + - - +
109J GLN* 3.6 7.3 + - - +
110J LEU 3.4 0.4 - - - -
111J GLU* 1.3 80.8 - - - +
113J ILE* 1.3 55.3 + - - +
115J LYS* 3.6 8.2 + - - +
116J LEU* 3.1 25.5 + - - +
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Residues in contact with ILE 113 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109H GLN* 4.5 18.2 - - + +
112H MET* 3.6 32.1 - - + +
113H ILE* 3.3 35.7 - - + -
116H LEU* 4.7 8.5 - - + -
109J GLN* 2.9 28.1 + - + +
110J LEU* 3.7 5.4 - - - +
112J MET* 1.3 74.7 - - + +
114J ASP* 1.3 61.2 + - - +
116J LEU* 3.1 15.2 - - + +
117J THR* 2.9 31.5 + - - +
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Residues in contact with ASP 114 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112H MET* 3.1 23.1 - - + +
110J LEU 2.9 19.2 + - - +
111J GLU* 3.3 9.7 - - - +
113J ILE* 1.3 73.5 - - - +
115J LYS* 1.3 63.0 + - - +
116J LEU 3.0 1.1 - - - -
117J THR* 2.8 24.9 + - - -
118J THR* 3.1 19.6 + - - +
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Residues in contact with LYS 115 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A ASP* 5.3 4.8 + - - -
117A THR* 4.1 24.8 - - - +
121A ILE* 5.0 7.7 - - - +
111J GLU 3.0 14.7 + - - +
112J MET* 3.9 7.6 - - - +
114J ASP* 1.3 76.3 - - - +
116J LEU* 1.3 66.1 + - - +
118J THR* 2.4 34.5 + - + +
119J ARG* 3.0 26.7 + - - +
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Residues in contact with LEU 116 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113A ILE* 5.4 3.6 - - + +
116A LEU* 4.1 27.8 - - + -
117A THR* 3.3 24.4 + - - +
120A GLU* 2.7 53.7 - - - +
116F LEU* 6.0 2.0 - - + -
116H LEU* 3.4 29.6 - - + -
112J MET 3.1 16.6 + - - +
113J ILE* 3.1 18.2 - - + +
115J LYS* 1.3 76.2 - - - +
117J THR* 1.3 55.7 + - - +
119J ARG* 3.0 4.1 + - - -
120J GLU* 3.0 13.5 + - - +
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Residues in contact with THR 117 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112H MET* 3.7 19.5 + - + +
115H LYS* 4.9 6.7 - - + +
116H LEU* 3.2 37.9 - - + +
119H ARG* 4.7 12.7 - - + +
113J ILE 2.9 18.3 + - - -
114J ASP* 2.8 13.5 + - - -
116J LEU* 1.3 73.6 - - - +
118J THR* 1.3 62.2 + - - +
120J GLU* 3.4 2.2 + - - +
121J ILE* 3.2 21.0 + - - +
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Residues in contact with THR 118 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114J ASP* 3.6 20.2 - - - +
115J LYS* 2.4 33.4 + - + +
117J THR* 1.3 75.7 - - - +
119J ARG* 1.3 91.3 + - - +
120J GLU 3.1 0.6 + - - -
121J ILE* 3.4 6.8 + - - +
122J GLU* 3.2 27.0 + - - +
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Residues in contact with ARG 119 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117A THR* 4.5 10.3 - - + -
120A GLU* 2.6 38.1 - - + +
121A ILE* 4.1 41.5 - - + +
124A ILE* 3.1 26.5 - - + +
115J LYS* 3.1 30.0 + - - +
116J LEU* 3.0 4.4 + - - +
118J THR* 1.3 109.9 + - - +
120J GLU* 1.3 61.0 + - - +
122J GLU* 3.4 29.7 + - - +
123J GLN* 3.3 6.4 + - - +
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Residues in contact with GLU 120 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A GLU* 2.9 31.0 + - - +
120D GLU* 4.9 6.1 - - - +
120F GLU* 5.1 0.2 - - - +
116H LEU* 3.3 29.6 - - + +
119H ARG* 3.9 19.2 - - + +
120H GLU* 2.8 28.4 - - - +
123H GLN* 3.3 10.4 + - - +
116J LEU* 3.0 8.5 + - + +
117J THR 3.4 9.9 - - - +
118J THR 3.1 0.4 - - - -
119J ARG* 1.3 75.1 - - - +
121J ILE* 1.3 64.6 + - - +
123J GLN* 3.1 21.9 + - - +
124J ILE* 3.2 26.0 + - - +
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Residues in contact with ILE 121 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119H ARG* 5.1 15.7 - - - +
117J THR 3.2 12.2 + - - +
118J THR* 3.4 6.9 + - - +
120J GLU* 1.3 77.0 - - - +
122J GLU* 1.3 61.1 + - + +
124J ILE* 3.6 10.2 - - + +
125J GLU* 2.9 30.3 + - - +
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Residues in contact with GLU 122 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ILE* 5.8 1.2 - - - +
124A ILE* 3.2 41.8 - - + +
118J THR* 3.2 16.6 + - - +
119J ARG* 3.5 29.2 + - - +
120J GLU 3.2 0.4 - - - -
121J ILE* 1.3 76.8 - - - +
123J GLN* 1.3 59.3 + - - +
125J GLU* 3.4 3.7 + - - +
126J LEU* 2.9 37.7 + - + +
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Residues in contact with GLN 123 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120A GLU* 4.2 9.2 + - - +
123A GLN* 2.4 54.3 + - - +
124A ILE* 3.1 25.5 - - + +
127A LEU* 5.7 5.1 - - + +
120D GLU* 5.3 1.2 - - - +
127D LEU* 5.4 0.6 - - - +
123H GLN* 2.6 37.3 + - - +
119J ARG 3.5 4.9 - - - +
120J GLU* 3.1 23.8 + - - +
122J GLU* 1.3 76.2 - - - +
124J ILE* 1.3 53.1 + - - +
126J LEU* 3.8 5.0 - - - +
127J LEU* 2.8 41.7 + - + +
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Residues in contact with ILE 124 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119H ARG* 3.7 10.8 - - + +
122H GLU* 3.1 50.5 - - + +
123H GLN* 3.1 32.8 - - + +
126H LEU* 3.4 14.6 - - + +
120J GLU 3.2 12.7 + - - +
121J ILE* 3.6 11.4 - - - +
123J GLN* 1.3 75.8 - - - +
125J GLU* 1.3 70.2 + - + +
128J LYS* 2.9 27.2 + - + +
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Residues in contact with GLU 125 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121J ILE 2.9 18.4 + - - +
122J GLU* 3.9 4.3 - - - +
124J ILE* 1.3 77.3 - - + +
126J LEU* 1.3 68.7 + - + +
128J LYS* 2.5 49.1 - - + +
129J ARG* 3.0 14.4 + - - +
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Residues in contact with LEU 126 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A ILE* 3.8 18.6 - - + +
127A LEU* 4.1 11.9 - - + +
128A LYS* 3.7 42.0 - - + +
131A HIS* 5.6 7.0 - - + -
122J GLU* 2.9 30.3 + - + +
123J GLN* 3.8 4.0 - - - +
125J GLU* 1.3 77.6 - - + +
127J LEU* 1.3 50.7 + - - +
128J LYS 2.6 4.7 + - - -
129J ARG* 2.3 46.3 + - + +
130J ILE* 2.6 22.6 + - + +
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Residues in contact with LEU 127 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127A LEU* 6.1 3.8 - - + -
127D LEU* 5.9 6.7 - - + -
123F GLN* 5.0 2.0 - - - +
123H GLN* 3.9 44.2 - - + +
126H LEU* 3.7 16.1 - - + +
127H LEU* 3.6 30.3 - - + -
130H ILE* 3.1 19.6 - - + +
123J GLN* 2.8 25.7 + - + +
124J ILE* 4.9 0.2 - - - -
126J LEU* 1.3 71.6 - - - +
128J LYS* 1.3 57.7 + - - +
130J ILE* 3.7 19.5 - - + +
131J HIS* 2.9 28.8 + - - +
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Residues in contact with LYS 128 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126H LEU* 3.4 20.2 - - + +
38J EDO 5.2 11.2 + - - +
124J ILE* 2.9 14.5 + - + +
125J GLU* 2.5 41.1 - - + +
126J LEU 2.6 4.2 + - - -
127J LEU* 1.3 76.2 - - - +
129J ARG* 1.3 85.0 + - + +
131J HIS* 3.5 1.0 - - - +
132J ASP* 2.5 45.5 + - - +
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Residues in contact with ARG 129 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A HIS* 3.8 26.9 + - + +
38J EDO 4.7 13.3 + - - +
125J GLU* 3.0 25.2 + - - +
126J LEU* 2.3 35.9 + - - +
128J LYS* 1.3 88.9 - - + +
130J ILE* 1.3 67.3 + - - +
131J HIS 3.0 1.1 - - - -
132J ASP* 3.5 4.6 - - + +
133J ASN* 2.9 29.1 + - + +
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Residues in contact with ILE 130 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A LEU* 4.0 28.0 - - + +
130A ILE* 4.1 20.2 - - + -
131A HIS* 4.4 21.8 - - + -
134A LEU* 4.1 15.7 - - + +
127D LEU* 6.0 2.9 - - + -
130H ILE* 3.8 12.1 - - + -
126J LEU* 2.6 20.1 + - + +
127J LEU* 3.8 25.4 - - + +
129J ARG* 1.3 75.5 - - - +
131J HIS* 1.3 55.8 + - - +
133J ASN* 3.6 4.5 - - - +
134J LEU* 2.4 47.2 + - + +
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Residues in contact with HIS 131 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126H LEU* 4.2 11.4 - - + +
129H ARG* 3.6 60.2 + - + +
130H ILE* 3.1 19.2 - - + +
133H ASN* 5.5 1.4 + - + -
127J LEU 2.9 21.9 + - - +
128J LYS* 3.5 5.6 - - - +
130J ILE* 1.3 78.3 - - - +
132J ASP* 1.3 78.8 + - - +
133J ASN 3.1 4.2 + - - -
134J LEU* 3.2 22.9 + - - +
135J ILE* 3.6 16.1 + - + +
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Residues in contact with ASP 132 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126H LEU* 5.7 0.9 - - - +
38J EDO 3.5 37.7 + - - +
128J LYS* 2.5 38.1 + - - +
129J ARG* 3.2 5.1 + - - +
131J HIS* 1.3 91.1 + - - +
133J ASN* 1.3 56.2 + - - +
135J ILE* 3.9 16.8 - - - +
----------------------------------------------------------
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Residues in contact with ASN 133 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A HIS* 5.9 4.5 - - + +
134A LEU* 4.4 28.6 - - + +
129J ARG* 2.9 17.0 + - + +
130J ILE* 3.6 4.0 - - - +
132J ASP* 1.3 76.6 - - - +
134J LEU* 1.3 59.9 + - - +
135J ILE 2.8 16.8 + - - +
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Residues in contact with LEU 134 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A LEU* 3.7 20.9 - - + -
130H ILE* 3.7 23.6 - - + +
133H ASN* 2.8 41.3 + - + +
130J ILE* 2.4 53.5 + - + +
131J HIS* 3.2 13.4 + - - +
133J ASN* 1.3 75.2 - - - +
135J ILE* 1.3 57.2 + - - +
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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