Contacts of the helix formed by residues 113 - 145 (chain A) in PDB entry 3BVI
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 ASP 113 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2A LEU* 3.7 17.0 - - - +
3A SER* 5.1 2.9 + - - +
6A ILE* 3.8 15.6 - - + +
108A ALA* 2.8 25.5 + - - +
111A SER* 3.1 13.9 - - - +
112A LYS* 1.3 74.0 - - - +
114A HIS* 1.3 58.4 + - - +
115A ALA* 3.7 8.7 + - - +
116A THR* 2.7 34.0 + - - -
117A PHE* 3.1 19.8 + - - +
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Residues in contact with HIS 114 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108A ALA 5.2 0.4 - - - -
109A ILE* 4.7 29.7 + - + -
112A LYS* 3.2 33.3 + - + +
113A ASP* 1.3 70.9 + - - +
115A ALA* 1.3 60.8 + - - +
116A THR 3.3 0.4 - - - -
117A PHE* 3.7 21.9 - + + +
118A ASN* 2.9 30.0 + - - +
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Residues in contact with ALA 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2A LEU* 5.8 3.4 - - + -
60A PHE* 4.4 9.5 - - + -
64A ASN* 6.0 1.6 - - - +
113A ASP* 3.4 8.2 + - - +
114A HIS* 1.3 77.3 - - - +
116A THR* 1.3 57.4 + - - +
118A ASN* 3.7 4.7 - - - +
119A PHE* 2.9 28.5 + - - +
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Residues in contact with THR 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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2A LEU* 3.5 16.1 - - - +
6A ILE* 4.1 9.8 - - + +
10A LEU* 4.3 21.5 - - + -
60A PHE* 3.8 15.1 - - + -
104A ILE* 5.0 0.4 - - + -
108A ALA* 4.5 8.1 - - + -
113A ASP* 2.7 33.8 + - - -
115A ALA* 1.3 74.4 - - - +
117A PHE* 1.3 65.4 + - - +
119A PHE* 3.2 1.0 + - - +
120A LEU* 2.9 44.6 + - + +
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Residues in contact with PHE 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105A VAL* 3.4 33.9 - - + -
108A ALA* 4.1 8.7 - - + +
109A ILE* 3.6 31.6 - - + -
113A ASP 3.1 14.0 + - - +
114A HIS* 3.8 26.9 - + + +
115A ALA 3.4 0.2 - - - -
116A THR* 1.3 79.0 - - - +
118A ASN* 1.3 67.4 + - + +
120A LEU* 3.3 9.8 + - - +
121A GLN* 2.9 46.5 + - + +
114C HIS* 4.2 1.8 - + - -
117C PHE* 3.5 36.8 - + - -
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Residues in contact with ASN 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114A HIS 2.9 19.7 + - - +
115A ALA* 3.7 5.5 - - - +
117A PHE* 1.3 81.6 - - + +
119A PHE* 1.3 67.4 + - - +
121A GLN* 3.3 22.5 + - - +
122A TRP 4.9 0.3 + - - -
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Residues in contact with PHE 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A LEU* 5.5 1.1 - - + -
56A LYS* 3.6 17.3 - - + -
57A LEU* 4.1 20.0 - - + -
60A PHE* 3.5 63.5 - + + -
115A ALA 2.9 18.8 + - - +
116A THR 3.2 3.8 + - - +
118A ASN* 1.3 81.4 + - - +
120A LEU* 1.3 70.7 + - + +
121A GLN 3.2 0.6 + - - -
122A TRP* 2.8 65.3 + + - -
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Residues in contact with LEU 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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10A LEU* 4.3 15.5 - - + -
57A LEU* 4.5 2.5 - - + -
101A ILE* 5.4 2.5 - - + -
104A ILE* 3.7 31.2 - - + +
105A VAL* 3.8 31.0 - - + +
108A ALA* 5.1 0.2 - - + -
116A THR* 2.9 32.8 + - + +
117A PHE* 3.8 6.5 - - - +
118A ASN 3.3 0.6 - - - -
119A PHE* 1.3 90.0 - - + +
121A GLN* 1.3 60.5 + - - +
122A TRP 3.5 0.4 - - - -
123A TYR* 2.9 34.6 + - + +
124A VAL* 2.9 27.9 + - + +
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Residues in contact with GLN 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105A VAL* 4.5 8.1 - - - +
117A PHE* 2.9 60.1 + - + +
118A ASN* 3.5 17.7 - - - +
119A PHE 3.2 2.2 - - - -
120A LEU* 1.3 78.8 - - - +
122A TRP* 1.3 62.1 + - - +
124A VAL* 3.3 9.4 + - - +
125A ALA* 3.0 19.9 + - - +
114C HIS* 5.0 2.0 + - - +
117C PHE* 4.4 6.3 - - - -
118C ASN* 3.3 42.6 + - - +
121C GLN* 5.6 1.4 - - - +
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Residues in contact with TRP 122 (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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53A HIS* 4.0 24.2 - + - -
56A LYS* 3.7 46.4 - - + -
57A LEU* 5.0 2.7 - - + -
118A ASN 4.9 0.6 + - - -
119A PHE* 2.8 59.3 + + - -
121A GLN* 1.3 76.2 - - - +
123A TYR* 1.3 86.7 + + + +
125A ALA* 3.6 5.5 - - - +
126A GLU* 2.8 65.4 + - + +
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Residues in contact with TYR 123 (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 GLN* 2.8 31.1 + - + +
17A GLU* 2.3 38.4 + - - +
53A HIS* 3.8 17.7 - + + -
57A LEU* 4.3 16.2 - - + -
101A ILE* 3.4 32.8 - - + +
104A ILE* 5.6 1.1 - - + -
120A LEU* 2.9 31.8 + - + +
122A TRP* 1.3 113.0 - + + +
124A VAL* 1.3 59.3 + - - +
126A GLU* 4.5 1.1 - - + +
127A GLN* 2.9 33.7 + - + +
1006A FE 3.7 11.4 - - - -
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Residues in contact with VAL 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101A ILE* 3.8 15.9 - - + +
102A ASN* 5.0 2.7 - - - +
105A VAL* 3.8 27.4 - - + -
120A LEU 2.9 20.3 + - - +
121A GLN* 3.3 14.6 + - - +
123A TYR* 1.3 76.1 - - - +
125A ALA* 1.3 61.9 + - - +
127A GLN* 3.9 3.3 - - - +
128A HIS* 3.1 22.7 + - - +
114C HIS* 3.3 42.0 - - + +
115C ALA* 3.7 9.8 - - + +
118C ASN* 4.1 6.7 - - + -
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Residues in contact with ALA 125 (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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121A GLN 3.0 17.0 + - - +
122A TRP* 3.6 7.4 - - - +
124A VAL* 1.3 76.9 - - - +
126A GLU* 1.3 65.7 + - + +
128A HIS* 3.2 7.7 + - - +
129A GLU* 3.1 21.9 + - - +
115C ALA* 6.4 0.2 - - - +
118C ASN* 3.8 20.8 - - - +
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Residues in contact with GLU 126 (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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49A GLU* 4.4 5.6 - - - +
53A HIS* 3.5 28.0 + - + +
56A LYS* 4.7 11.0 + - - -
122A TRP* 2.8 46.4 + - + +
123A TYR* 4.2 2.2 - - - +
125A ALA* 1.3 75.5 - - + +
127A GLN* 1.3 61.2 + - - +
129A GLU* 3.5 12.7 + - - +
130A GLU* 3.1 30.2 + - - +
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Residues in contact with GLN 127 (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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53A HIS* 5.4 1.0 - - - -
94A GLU* 2.8 48.2 + - - +
97A ILE* 3.7 10.4 - - - +
98A SER* 3.2 18.7 + - - +
101A ILE* 3.7 22.0 - - + -
123A TYR* 2.9 20.6 + - + +
124A VAL* 3.9 4.0 - - - +
126A GLU* 1.3 75.6 - - - +
128A HIS* 1.3 59.2 + - - +
130A GLU* 3.1 3.2 + - - +
131A GLU* 2.9 25.9 + - - +
1006A FE 2.5 16.3 - - - -
1007A FE 2.4 24.1 - - - -
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Residues in contact with HIS 128 (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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98A SER* 5.3 0.7 - - - -
124A VAL 3.1 17.6 + - - +
125A ALA* 3.2 6.3 + - - +
127A GLN* 1.3 77.2 - - - +
129A GLU* 1.3 64.5 + - - +
131A GLU* 3.2 11.0 + - - +
132A VAL* 3.0 41.9 + - + +
1C MET* 4.6 7.1 - - + +
2C LEU* 5.4 1.8 - - + -
60C PHE* 3.8 11.5 - + - -
63C GLU* 3.4 25.0 + - - -
64C ASN* 3.0 33.0 + - - -
115C ALA* 3.6 31.5 - - + +
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Residues in contact with GLU 129 (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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125A ALA 3.1 11.4 + - - +
126A GLU* 3.6 14.8 - - - +
128A HIS* 1.3 78.3 - - - +
130A GLU* 1.3 58.0 + - + +
132A VAL* 3.5 7.9 + - - +
133A LEU* 3.0 27.7 + - + +
165A ARG* 2.6 33.6 + - - +
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Residues in contact with GLU 130 (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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46A HIS* 3.3 22.5 - - + +
49A GLU* 4.4 8.7 - - - +
50A GLU* 3.0 8.9 - - - +
53A HIS* 2.9 30.2 + - - -
94A GLU* 4.1 4.7 - - - +
126A GLU* 3.1 20.3 + - - +
127A GLN* 3.1 9.6 + - - +
129A GLU* 1.3 75.3 - - + +
131A GLU* 1.3 65.4 + - - +
133A LEU* 3.2 9.3 + - + +
134A PHE* 3.1 30.9 + - + -
165A ARG* 5.2 12.6 - - - +
1007A FE 2.2 37.4 - - - -
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Residues in contact with GLU 131 (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 TYR* 3.7 16.2 + - + -
94A GLU* 4.2 21.2 - - + +
95A GLN* 3.6 27.0 - - - +
98A SER* 2.5 35.6 + - - +
127A GLN 2.9 14.1 + - - +
128A HIS* 3.2 10.6 + - - +
130A GLU* 1.3 76.2 - - - +
132A VAL* 1.3 57.6 + - - +
134A PHE* 3.4 1.3 + - - -
135A LYS* 3.0 27.2 + - - +
1C MET* 3.5 26.4 - - + +
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Residues in contact with VAL 132 (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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128A HIS* 3.0 49.8 + - + +
129A GLU* 3.7 7.2 - - - +
131A GLU* 1.3 74.9 - - - +
133A LEU* 1.3 54.1 - - - +
135A LYS* 3.1 6.1 + - - +
136A ASP* 2.8 50.2 + - - +
1C MET* 4.0 13.5 - - + -
63C GLU* 3.6 38.8 - - + +
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Residues in contact with LEU 133 (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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42A PHE* 3.7 30.3 - - + -
46A HIS* 6.0 0.7 - - - +
129A GLU* 3.0 14.3 + - + +
130A GLU* 3.4 12.3 - - + +
132A VAL* 1.3 79.3 - - - +
134A PHE* 1.3 59.3 + - + +
136A ASP* 3.2 10.7 + - + +
137A ILE* 2.9 37.0 + - + +
161A ILE* 4.1 24.7 - - + -
165A ARG* 3.3 41.5 - - - +
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Residues in contact with PHE 134 (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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24A TYR* 3.9 5.6 - + - -
42A PHE* 3.6 20.6 - + - -
43A LEU* 4.0 7.2 - - + -
46A HIS* 3.4 47.8 - + - -
87A PHE* 3.7 29.8 - + - +
90A ALA* 3.7 30.5 - - + -
91A TYR* 4.3 19.8 - - + +
94A GLU* 3.7 17.0 - - + -
130A GLU* 3.1 27.7 + - + +
131A GLU 3.9 4.3 - - - +
132A VAL 3.3 0.2 - - - -
133A LEU* 1.3 77.6 - - + +
135A LYS* 1.3 59.6 + - - +
137A ILE* 4.0 3.0 - - - +
138A LEU* 2.9 32.2 + - - +
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Residues in contact with LYS 135 (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 TYR* 3.6 27.9 - - + +
131A GLU 3.0 14.9 + - - +
132A VAL* 3.1 8.9 + - - +
134A PHE* 1.3 75.8 - - - +
136A ASP* 1.3 80.7 + - - +
138A LEU* 3.7 3.4 - - - +
139A ASP* 3.0 40.4 + - - +
1C MET* 3.6 17.5 - - + -
62C ASN 4.3 2.4 + - - -
63C GLU* 2.8 30.9 + - - +
65C ASN* 2.8 33.6 + - - +
1002C GLN* 3.9 20.9 - - + +
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Residues in contact with ASP 136 (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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132A VAL* 2.8 31.4 + - - +
133A LEU* 3.5 15.5 - - + +
135A LYS* 1.3 101.4 + - - +
137A ILE* 1.3 60.9 + - + +
139A ASP* 3.4 7.8 + - - +
140A LYS* 3.0 31.4 + - - +
157A TYR* 5.7 4.9 - - - +
161A ILE* 6.3 1.8 - - + -
63C GLU* 6.0 0.3 - - - +
37D ASP* 5.5 11.1 - - - +
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Residues in contact with ILE 137 (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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42A PHE* 3.4 45.1 - - + -
87A PHE* 3.5 25.1 - - + -
133A LEU* 2.9 28.3 + - + +
134A PHE* 4.0 4.0 - - - +
135A LYS 3.4 0.2 - - - -
136A ASP* 1.3 72.9 - - + +
138A LEU* 1.3 61.8 + - - +
140A LYS* 3.0 7.7 + - - +
141A ILE* 2.8 40.7 + - + +
157A TYR* 5.1 3.6 - - + -
158A VAL* 3.8 21.5 - - + -
161A ILE* 4.1 23.1 - - + -
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Residues in contact with LEU 138 (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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84A THR* 4.2 8.5 - - + +
87A PHE* 3.8 22.6 - - + +
88A GLN* 3.9 35.0 - - + +
91A TYR* 3.9 20.4 - - + -
134A PHE 2.9 18.9 + - - +
135A LYS 3.7 4.3 - - - +
137A ILE* 1.3 77.5 - - - +
139A ASP* 1.3 62.9 + - - +
141A ILE* 3.4 6.1 + - + +
142A GLU* 3.1 37.8 + - + +
1002C GLN* 3.3 33.7 - - - +
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Residues in contact with ASP 139 (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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135A LYS* 3.0 26.5 + - - +
136A ASP* 3.5 9.1 - - - +
138A LEU* 1.3 75.4 - - - +
140A LYS* 1.3 57.8 + - - +
142A GLU* 3.4 6.4 + - - +
143A LEU* 2.9 28.3 + - - +
65C ASN* 3.4 24.6 + - - +
1002C GLN* 3.0 34.1 + - - +
1003C SER* 3.5 5.5 - - - -
1004C HIS 4.0 2.0 - - - +
1005C HIS* 5.4 0.2 + - - -
32D TYR 5.2 0.5 - - - +
35D SER* 3.4 31.1 + - - +
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Residues in contact with LYS 140 (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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136A ASP 3.0 16.3 + - - +
137A ILE 3.0 4.0 + - - +
139A ASP* 1.3 76.5 - - - +
141A ILE* 1.3 66.1 + - + +
143A LEU* 3.3 11.6 + - + +
144A ILE* 2.9 34.0 + - + +
157A TYR* 3.6 50.5 - - + -
35D SER* 3.0 22.6 + - - -
37D ASP* 2.6 30.8 + - - -
152D TYR* 3.7 29.4 - - + -
155D ASP* 3.5 10.7 + - - +
156D GLN* 4.5 1.5 - - - +
159D LYS* 4.4 1.5 - - - +
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Residues in contact with ILE 141 (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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83A LEU* 3.9 31.4 - - + +
84A THR* 3.5 32.1 - - + +
87A PHE* 3.5 44.0 - - + -
137A ILE* 2.8 33.0 + - + +
138A LEU* 3.8 5.8 - - + +
140A LYS* 1.3 71.5 - - + +
142A GLU* 1.3 58.2 + - - +
144A ILE* 3.5 1.9 + - - +
145A GLY* 3.0 27.4 + - - -
154A ALA* 4.4 17.6 - - + +
158A VAL* 5.1 4.3 - - + -
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Residues in contact with GLU 142 (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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84A THR* 3.8 23.6 - - + +
88A GLN* 4.2 10.4 - - - +
138A LEU* 3.1 33.4 + - + +
139A ASP 3.7 4.3 - - - +
141A ILE* 1.3 75.6 - - - +
143A LEU* 1.3 64.4 + - - +
145A GLY* 3.7 9.7 + - - -
1002C GLN* 5.5 4.4 + - - +
1004C HIS* 3.8 41.7 + - - +
1005C HIS* 4.1 12.2 - - - +
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Residues in contact with LEU 143 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A ASP 2.9 17.6 + - - +
140A LYS* 3.3 21.1 + - + +
142A GLU* 1.3 75.2 - - - +
144A ILE* 1.3 66.2 + - - +
145A GLY* 4.5 0.2 - - - -
1005C HIS* 3.6 45.0 + - + +
35D SER* 3.7 22.7 - - - +
36D LEU* 4.3 11.0 - - + -
148D ASN 4.7 6.8 - - - +
149D HIS* 5.0 2.1 - - - -
151D LEU* 4.0 22.6 - - + +
152D TYR* 3.9 28.5 + - + +
155D ASP* 5.1 1.6 - - + -
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Residues in contact with ILE 144 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A LYS* 2.9 28.5 + - + +
141A ILE 3.9 3.1 - - - +
143A LEU* 1.3 76.8 - - - +
145A GLY* 1.3 64.4 + - - +
147A GLU* 4.5 5.4 + - - +
150A GLY* 3.2 35.2 - - - +
153A LEU* 4.1 8.5 - - + +
154A ALA* 3.5 32.5 - - + +
157A TYR* 4.8 2.0 - - + -
148D ASN 4.5 2.3 - - - +
149D HIS* 3.6 31.4 + - + +
152D TYR* 3.6 45.1 - - + -
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Residues in contact with GLY 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A ILE* 3.0 17.2 + - - +
142A GLU* 3.7 8.0 + - - -
143A LEU 3.4 1.6 - - - -
144A ILE* 1.3 93.4 - - - +
146A ASN* 1.3 63.0 + - - -
147A GLU* 3.6 5.6 - - - -
150A GLY* 3.5 12.1 - - - -
154A ALA* 5.6 1.0 - - - +
----------------------------------------------------------
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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) + - + + + + + -
------------------------------------------------------------
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