Contacts of the helix formed by residues 98 - 141 (chain A) in PDB entry 3UEC
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 LEU 98 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A TRP* 6.3 2.5 - - + -
96A LEU 3.9 0.8 + - - -
97A THR* 1.3 74.5 - - - +
99A GLY* 1.3 57.3 + - - +
101A PHE* 3.2 14.5 + - + +
102A LEU* 2.8 47.2 + - + +
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Residues in contact with GLY 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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97A THR* 3.3 3.4 + - - -
98A LEU* 1.3 78.4 - - - +
100A GLU* 1.3 55.6 + - - +
102A LEU* 3.7 8.8 - - - +
103A LYS* 3.0 29.8 + - - +
106A ARG* 5.0 1.2 + - - -
145A PG4 3.6 27.6 - - - +
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Residues in contact with GLU 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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91A LYS* 2.8 36.1 + - - +
96A LEU* 3.6 15.6 - - + +
97A THR* 2.9 38.6 + - - +
99A GLY* 1.3 73.1 - - - +
101A PHE* 1.3 60.6 + - - +
103A LYS* 3.3 3.1 + - - +
104A LEU* 2.9 36.7 + - + +
145A PG4 3.8 23.9 - - - +
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Residues in contact with PHE 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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10A TRP* 3.5 63.7 - + + -
13A PHE* 3.6 36.8 - + - -
93A PHE* 3.8 28.0 - + - -
96A LEU* 4.3 20.5 - - + +
97A THR 2.7 20.4 + - - +
98A LEU* 3.7 14.6 - - + +
100A GLU* 1.3 75.1 - - - +
102A LEU* 1.3 66.0 + - + +
104A LEU* 3.2 2.8 + - - +
105A ASP* 2.9 30.5 + - + +
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Residues in contact with LEU 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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10A TRP* 4.8 18.2 - - + -
98A LEU* 2.8 36.5 + - + +
99A GLY* 3.7 7.4 - - - +
101A PHE* 1.3 84.8 - - + +
103A LYS* 1.3 59.2 + - - +
105A ASP* 3.2 6.6 + - + +
106A ARG* 2.9 49.6 + - + +
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Residues in contact with LYS 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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99A GLY 3.0 17.4 + - - +
100A GLU* 3.8 5.8 - - - +
102A LEU* 1.3 76.2 - - - +
104A LEU* 1.3 66.6 + - + +
106A ARG* 3.3 28.7 + - - +
107A GLU* 3.0 24.2 + - + +
145A PG4 3.8 26.9 - - - +
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Residues in contact with LEU 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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13A PHE* 4.2 13.7 - - + -
59A PHE* 3.3 37.4 - - + -
85A ALA* 4.5 11.7 - - + -
86A PHE* 6.4 0.4 - - + -
89A VAL* 3.9 28.5 - - + -
96A LEU* 3.8 37.0 - - + -
100A GLU* 2.9 22.2 + - + +
101A PHE 3.6 3.6 - - - +
103A LYS* 1.3 77.5 - - + +
105A ASP* 1.3 59.7 + - - +
107A GLU* 3.2 3.4 + - + -
108A ARG* 2.8 25.8 + - - +
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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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10A TRP* 3.1 34.0 + - - -
13A PHE* 3.6 21.2 - - + -
101A PHE* 2.9 24.8 + - + +
102A LEU* 3.7 10.4 - - + +
103A LYS 3.2 0.2 - - - -
104A LEU* 1.3 74.5 - - - +
106A ARG* 1.3 64.8 + - + +
108A ARG* 3.4 13.6 + - - +
109A ALA* 3.0 22.5 + - - +
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Residues in contact with ARG 106 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99A GLY 5.0 1.2 + - - -
102A LEU* 2.9 35.4 + - - +
103A LYS* 3.6 39.7 - - - +
105A ASP* 1.3 75.1 - - + +
107A GLU* 1.3 58.0 + - - +
109A ALA* 3.4 8.1 + - - +
110A LYS* 3.1 33.5 + - + +
145A PG4 4.7 5.5 + - - -
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Residues in contact with GLU 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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59A PHE* 3.7 21.1 - - + -
83A GLY 5.0 4.0 - - - +
85A ALA* 4.1 18.5 + - + +
103A LYS* 3.0 19.6 + - + +
104A LEU* 3.7 6.3 - - + +
106A ARG* 1.3 73.4 - - - +
108A ARG* 1.3 60.9 + - - +
110A LYS* 3.3 19.7 + - - +
111A ASN* 2.9 47.8 + - - +
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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
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9A ALA* 3.3 25.9 + - - +
12A PRO* 4.1 18.9 - - - +
13A PHE* 3.8 27.5 - - - -
58A PHE* 2.9 39.4 + - - +
59A PHE* 3.8 27.2 - - + +
61A PHE* 3.6 22.0 - - + -
104A LEU 2.8 13.1 + - - +
105A ASP* 3.5 17.8 + - - +
107A GLU* 1.3 77.7 - - - +
109A ALA* 1.3 56.9 + - - +
111A ASN* 3.1 4.3 + - - +
112A LYS* 2.9 25.9 + - + +
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Residues in contact with ALA 109 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105A ASP 3.0 14.0 + - - +
106A ARG* 3.6 11.4 - - - +
107A GLU 3.3 0.2 - - - -
108A ARG* 1.3 72.5 - - - +
110A LYS* 1.3 65.7 + - + +
112A LYS* 3.2 9.9 + - - +
113A ILE* 3.1 31.3 + - + +
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Residues in contact with LYS 110 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106A ARG* 3.1 20.8 + - + +
107A GLU* 3.3 22.6 + - - +
109A ALA* 1.3 75.0 - - + +
111A ASN* 1.3 60.4 + - - +
113A ILE* 3.5 14.3 + - + +
114A ALA* 3.0 27.9 + - - +
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Residues in contact with ASN 111 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59A PHE* 3.0 53.9 + - - +
60A CYS* 3.8 21.1 - - - +
61A PHE* 3.9 4.0 - - + -
84A CYS* 5.5 1.2 - - - +
85A ALA 5.2 2.2 - - - +
107A GLU* 2.9 30.2 + - - +
108A ARG 3.1 4.2 + - - +
110A LYS* 1.3 77.2 - - - +
112A LYS* 1.3 60.0 + - - +
114A ALA* 3.4 8.4 + - - +
115A LYS* 2.9 28.9 + - - +
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Residues in contact with LYS 112 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61A PHE* 3.6 39.0 - - + -
108A ARG* 2.9 11.0 + - - +
109A ALA* 3.5 12.1 - - - +
111A ASN* 1.3 74.2 - - - +
113A ILE* 1.3 61.8 + - + +
115A LYS* 3.5 4.1 + - + +
116A GLU* 3.1 50.0 + - + +
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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 ALA* 3.1 18.3 + - + +
110A LYS* 3.6 14.1 - - + +
112A LYS* 1.3 75.2 - - + +
114A ALA* 1.3 61.4 + - - +
116A GLU* 3.3 13.1 + - - +
117A THR* 2.8 40.8 + - - +
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Residues in contact with ALA 114 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110A LYS 3.0 17.7 + - - +
111A ASN* 3.5 10.5 - - - +
113A ILE* 1.3 79.1 - - - +
115A LYS* 1.3 55.3 + - - +
117A THR* 3.4 8.5 + - - +
118A ASN* 2.9 30.1 + - - +
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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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56A GLN* 4.2 6.7 - - - +
60A CYS 5.0 2.0 - - - +
61A PHE* 3.2 43.8 + - + +
62A LYS* 4.7 4.2 - - - +
63A GLU* 3.2 31.6 + - - +
111A ASN 2.9 17.7 + - - +
112A LYS* 3.8 7.2 - - + +
113A ILE 3.3 0.2 - - - -
114A ALA* 1.3 72.8 - - - +
116A GLU* 1.3 62.0 + - + +
118A ASN* 3.2 10.6 + - + +
119A ASN* 2.9 51.8 + - - +
122A LYS* 4.9 10.3 - - - +
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Residues in contact with GLU 116 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112A LYS* 3.1 53.4 + - + +
113A ILE* 3.7 11.7 - - - +
115A LYS* 1.3 76.2 - - + +
117A THR* 1.3 58.4 + - - +
119A ASN* 3.1 11.5 + - - +
120A LYS* 2.9 46.7 + - + +
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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* 2.8 31.7 + - - +
114A ALA* 3.5 8.7 - - - +
116A GLU* 1.3 73.2 - - - +
118A ASN* 1.3 59.4 + - - +
120A LYS* 3.5 9.7 + - - +
121A LYS* 3.0 30.9 + - + +
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Residues in contact with ASN 118 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A ALA 2.9 17.7 + - - +
115A LYS* 3.5 14.0 + - + +
116A GLU 3.2 0.2 - - - -
117A THR* 1.3 76.2 - - - +
119A ASN* 1.3 69.1 + - - +
121A LYS* 3.4 10.9 + - - +
122A LYS* 3.0 58.6 + - - +
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Residues in contact with ASN 119 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A GLU* 5.2 2.4 + - - +
115A LYS* 2.9 48.6 + - - +
116A GLU* 3.7 10.6 - - - +
118A ASN* 1.3 82.3 - - - +
120A LYS* 1.3 59.2 + - + +
122A LYS* 3.4 14.9 + - - +
123A GLU* 3.1 40.7 + - - +
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Residues in contact with LYS 120 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116A GLU* 2.9 32.2 + - + +
117A THR* 3.7 7.9 - - - +
119A ASN* 1.3 74.9 - - + +
121A LYS* 1.3 60.0 + - - +
123A GLU* 3.3 13.1 + - - +
124A PHE* 3.0 30.5 + - - +
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Residues in contact with LYS 121 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117A THR* 3.0 21.0 + - + +
118A ASN* 3.7 11.7 - - - +
120A LYS* 1.3 74.3 - - - +
122A LYS* 1.3 59.5 + - + +
124A PHE* 3.4 7.9 + - + +
125A GLU* 2.9 61.4 + - + +
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Residues in contact with LYS 122 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115A LYS* 4.9 8.3 - - - +
118A ASN* 3.0 43.2 + - - +
119A ASN* 3.6 19.5 + - - +
120A LYS 3.3 0.2 - - - -
121A LYS* 1.3 78.5 - - + +
123A GLU* 1.3 64.2 + - + +
125A GLU* 3.4 5.5 + - - +
126A GLU* 3.0 23.7 + - - +
129A LYS* 5.6 0.3 + - - -
3B TPO 5.5 8.1 - - - +
4B LYS* 5.1 8.5 + - - -
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Residues in contact with GLU 123 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119A ASN* 3.1 27.2 + - - +
120A LYS* 3.7 11.8 - - - +
122A LYS* 1.3 75.8 - - + +
124A PHE* 1.3 65.4 + - - +
126A GLU* 3.3 9.1 + - - +
127A THR* 3.3 22.2 + - - -
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Residues in contact with PHE 124 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120A LYS 3.0 17.5 + - - +
121A LYS* 3.7 9.0 - - + +
123A GLU* 1.3 75.9 - - - +
125A GLU* 1.3 74.6 + - - +
127A THR* 3.1 12.2 + - + -
128A ALA* 2.8 40.9 + - + +
144A EDO 6.2 2.2 - - - -
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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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121A LYS* 2.9 53.7 + - + +
122A LYS* 3.9 5.8 - - - +
123A GLU 3.3 0.2 - - - -
124A PHE* 1.3 89.8 - - - +
126A GLU* 1.3 66.0 + - - +
128A ALA* 3.8 12.2 - - - +
129A LYS* 2.9 51.1 + - - +
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Residues in contact with GLU 126 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A LYS 3.0 13.1 + - - +
123A GLU* 3.5 12.1 - - - +
125A GLU* 1.3 77.8 - - - +
127A THR* 1.3 62.1 + - - +
129A LYS* 3.5 11.6 + - - +
130A LYS* 3.4 40.6 + - - +
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Residues in contact with THR 127 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123A GLU 3.3 9.2 + - - -
124A PHE* 3.1 14.6 + - + +
126A GLU* 1.3 75.3 - - - +
128A ALA* 1.3 66.2 + - - +
130A LYS* 3.1 11.7 + - + +
131A VAL* 2.9 36.5 + - + +
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Residues in contact with ALA 128 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124A PHE* 2.8 34.5 + - + +
125A GLU* 3.2 19.3 + - - +
127A THR* 1.3 75.1 - - - +
129A LYS* 1.3 57.7 + - - +
131A VAL* 3.3 3.8 + - - -
132A ARG* 2.8 33.1 + - - +
144A EDO 3.4 24.9 + - - +
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Residues in contact with LYS 129 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A LYS 5.6 0.2 + - - -
125A GLU* 2.9 47.7 + - - +
126A GLU* 3.8 9.2 - - - +
127A THR 3.2 0.2 - - - -
128A ALA* 1.3 76.8 - - - +
130A LYS* 1.3 57.2 + - + +
132A ARG* 3.7 8.8 - - - +
133A ARG* 2.8 51.6 + - - +
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Residues in contact with LYS 130 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126A GLU* 3.4 31.8 + - - +
127A THR* 3.1 10.3 + - + +
129A LYS* 1.3 76.3 - - + +
131A VAL* 1.3 65.0 + - + +
133A ARG* 3.4 23.7 + - - +
134A ALA* 3.0 22.0 + - - +
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Residues in contact with VAL 131 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127A THR* 2.9 36.0 + - + +
128A ALA* 3.7 5.2 - - - +
130A LYS* 1.3 79.3 - - + +
132A ARG* 1.3 62.3 + - - +
134A ALA* 3.2 7.7 + - + +
135A ILE* 3.1 37.5 + - + +
144A EDO 3.6 16.6 - - - +
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Residues in contact with ARG 132 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128A ALA 2.8 21.3 + - - +
129A LYS* 3.7 8.3 - - - +
131A VAL* 1.3 73.0 - - - +
133A ARG* 1.3 58.4 + - - +
135A ILE* 3.1 7.8 + - - +
136A GLU* 2.9 44.3 + - + +
144A EDO 3.1 32.7 + - - +
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Residues in contact with ARG 133 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129A LYS* 2.8 43.7 + - - +
130A LYS* 3.6 29.3 - - - +
132A ARG* 1.3 74.7 - - - +
134A ALA* 1.3 62.9 + - - +
136A GLU* 3.4 12.9 + - + +
137A GLN* 3.1 39.0 + - + +
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Residues in contact with ALA 134 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130A LYS 3.0 13.5 + - - +
131A VAL* 3.2 10.7 + - + +
133A ARG* 1.3 77.4 - - - +
135A ILE* 1.3 64.5 + - + +
137A GLN* 3.3 17.8 + - - +
138A LEU* 3.2 18.7 + - - +
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Residues in contact with ILE 135 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A VAL* 3.1 35.8 + - + +
132A ARG* 3.9 6.5 - - - +
134A ALA* 1.3 76.6 - - + +
136A GLU* 1.3 60.4 + - - +
138A LEU* 3.2 14.7 + - + +
139A ALA* 2.8 32.8 + - + +
144A EDO 4.8 7.6 - - - +
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Residues in contact with GLU 136 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132A ARG* 2.9 32.6 + - + +
133A ARG* 3.5 12.3 - - + +
135A ILE* 1.3 76.5 - - - +
137A GLN* 1.3 62.2 + - + +
139A ALA* 3.4 6.9 + - - +
140A ALA* 3.0 24.8 + - - +
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Residues in contact with GLN 137 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A ARG* 3.1 34.2 + - - +
134A ALA* 3.6 18.4 - - - +
135A ILE 3.1 0.8 - - - -
136A GLU* 1.3 75.2 - - + +
138A LEU* 1.3 65.3 + - - +
140A ALA* 3.2 19.3 + - - +
141A MET* 3.4 15.9 + - - +
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Residues in contact with LEU 138 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ALA 3.2 9.1 + - - +
135A ILE* 3.2 18.1 + - + +
137A GLN* 1.3 78.9 - - - +
139A ALA* 1.3 57.0 + - - +
141A MET* 2.9 40.4 + - + +
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Residues in contact with ALA 139 (chain A).
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----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A ILE* 2.8 24.3 + - + +
136A GLU* 3.8 7.6 - - - +
138A LEU* 1.3 73.3 - - - +
140A ALA* 1.3 59.3 + - - +
141A MET 3.3 7.6 + - - +
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Residues in contact with ALA 140 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A GLU* 3.0 17.1 + - + +
137A GLN* 3.4 11.4 - - - +
138A LEU 3.1 0.6 - - - -
139A ALA* 1.3 78.6 - - - +
141A MET* 1.3 62.5 + - - +
142A ASP 3.9 0.7 + - - -
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Residues in contact with MET 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A GLN* 3.4 16.6 - - - +
138A LEU* 2.9 26.4 + - + +
139A ALA 3.5 10.4 - - - +
140A ALA* 1.3 81.0 - - - +
142A ASP* 1.3 78.0 + - - +
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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) + - + + + + + -
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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