Contacts of the helix formed by residues 113 - 144 (chain A) in PDB entry 3E1J
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
----------------------------------------------------------
1A MET* 6.4 0.2 - - - -
3A GLY* 5.8 0.3 - - - -
4A ASP* 5.5 3.6 + - + -
7A VAL* 3.4 29.3 - - + +
61A ARG* 2.8 25.0 + - - -
65A LEU* 3.7 11.2 - - - +
108A ALA* 2.8 20.8 + - + +
111A VAL* 3.3 6.0 + - + +
112A HIS* 1.3 68.3 - - - +
114A TYR* 1.3 55.8 + - - +
115A VAL 3.8 1.6 + - - -
116A SER* 2.6 28.3 + - - -
117A ARG* 3.0 26.5 + - - +
102J ARG* 4.7 7.6 + - - +
128J GLU* 4.2 1.9 - - - +
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Residues in contact with TYR 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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109A ASP* 3.4 38.6 + - - -
112A HIS* 2.9 52.8 + + + -
113A ASP* 1.3 73.3 + - - +
115A VAL* 1.3 58.1 + - - +
117A ARG* 3.4 8.9 + - - +
118A ASP* 2.9 28.1 + - - +
102J ARG* 3.5 25.7 - - - +
105J ILE* 3.5 28.5 - - + -
106J GLY* 3.4 15.4 - - - -
117J ARG* 3.6 21.7 + - - -
121J ILE* 4.1 20.4 - - + +
124J LEU* 4.1 13.9 - - + +
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Residues in contact with VAL 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A ARG* 3.2 29.8 - - - +
113A ASP* 3.3 1.0 + - - -
114A TYR* 1.3 73.6 - - + +
116A SER* 1.3 65.5 + - - +
118A ASP* 3.2 7.2 + - + +
119A MET* 2.9 25.2 + - + +
102J ARG* 4.7 0.4 - - - +
121J ILE* 4.9 3.8 - - + +
124J LEU* 3.8 22.9 - - + -
125J ARG* 4.1 34.1 - - + +
128J GLU* 3.2 29.8 - - + +
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Residues in contact with SER 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 4.1 11.1 - - - +
11A LEU* 4.2 7.1 - - - +
61A ARG* 2.9 29.5 + - - +
65A LEU* 3.8 6.1 - - - +
108A ALA* 4.7 0.7 - - - -
113A ASP* 2.6 36.3 + - - -
115A VAL* 1.3 75.4 - - - +
117A ARG* 1.3 63.0 + - - +
119A MET* 3.3 6.7 + - - +
120A MET* 2.9 35.9 + - - +
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Residues in contact with ARG 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ILE* 3.3 42.0 + - + +
106A GLY* 4.3 4.4 - - - -
108A ALA* 4.1 6.1 - - + -
109A ASP* 3.2 41.3 + - - +
113A ASP 3.0 14.0 + - - +
114A TYR* 3.5 12.1 - - - +
115A VAL 3.2 0.2 - - - -
116A SER* 1.3 75.1 - - - +
118A ASP* 1.3 53.2 + - - +
120A MET* 3.0 15.4 + - - +
121A ILE* 2.8 42.1 + - + +
251A SO4 2.8 40.7 + - - +
109J ASP* 5.6 1.6 + - - -
117J ARG* 4.1 4.5 - - - +
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Residues in contact with ASP 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A TYR 2.9 18.2 + - - +
115A VAL* 3.5 7.6 - - + +
117A ARG* 1.3 77.1 - - - +
119A MET* 1.3 63.0 + - - +
121A ILE* 3.3 11.5 + - - +
122A GLU* 3.2 32.6 + - - +
251A SO4 4.9 8.6 + - - +
118J ASP* 5.5 2.1 - - - +
121J ILE* 4.0 16.1 - - + +
122J GLU* 3.2 24.4 - - - +
125J ARG* 4.2 21.2 + - - -
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Residues in contact with MET 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A LEU* 5.6 1.6 - - - -
57A ARG* 3.5 62.5 + - + +
58A TYR* 4.4 16.4 - - - -
61A ARG* 3.6 34.1 - - + -
115A VAL* 2.9 14.2 + - + +
116A SER* 3.6 8.5 - - - +
118A ASP* 1.3 78.8 + - - +
120A MET* 1.3 63.1 + - - +
122A GLU* 3.4 3.3 + - - +
123A ILE* 3.2 31.2 + - + +
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Residues in contact with MET 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 5.8 1.3 - - + -
10A TYR* 6.2 0.2 - - + -
11A LEU* 4.0 15.0 - - + -
14A LEU* 3.6 30.1 - - + -
58A TYR* 4.4 11.0 - - + -
101A LEU* 3.7 11.0 - - + +
104A ALA* 3.6 36.6 - - + +
105A ILE* 3.6 15.3 - - + -
108A ALA* 3.6 20.9 - - + -
116A SER* 2.9 25.9 + - - +
117A ARG* 3.0 8.9 + - - +
119A MET* 1.3 78.0 - - + +
121A ILE* 1.3 57.7 + - - +
123A ILE* 3.2 6.3 + - - +
124A LEU* 2.9 28.6 + - - +
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Residues in contact with ILE 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A ILE* 4.0 23.8 - - + -
117A ARG* 2.8 50.3 + - + +
118A ASP* 3.3 8.9 + - - +
120A MET* 1.3 72.1 - - - +
122A GLU* 1.3 75.2 + - - +
124A LEU* 3.3 7.5 + - + +
125A ARG* 3.0 23.6 + - + +
251A SO4 4.0 22.0 - - - +
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Residues in contact with GLU 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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57A ARG* 4.2 19.1 - - - +
118A ASP* 3.2 21.2 + - - +
119A MET* 3.9 7.0 - - - +
120A MET 3.3 0.2 - - - -
121A ILE* 1.3 89.6 - - - +
123A ILE* 1.3 61.9 + - - +
125A ARG* 3.2 34.9 + - - +
126A ASP* 3.1 26.7 + - - +
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Residues in contact with ILE 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A GLU* 3.7 18.8 - - - +
54A HIS* 3.7 39.9 - - + +
57A ARG* 3.9 13.2 - - + +
58A TYR* 3.6 44.6 - - + +
101A LEU* 4.1 9.0 - - + -
119A MET* 3.2 29.7 + - + +
120A MET* 3.2 6.9 + - - +
122A GLU* 1.3 74.8 - - - +
124A LEU* 1.3 59.2 + - - +
126A ASP* 2.9 20.3 + - - +
127A GLU* 2.9 20.2 + - - +
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Residues in contact with LEU 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A ALA* 3.9 31.9 - - + +
101A LEU* 3.9 20.4 - - + +
102A ARG* 4.1 26.2 - - + +
105A ILE* 3.9 21.8 - - + -
120A MET 2.9 16.7 + - - +
121A ILE* 3.6 9.6 - - + +
123A ILE* 1.3 74.6 - - - +
125A ARG* 1.3 57.3 + - - +
127A GLU* 3.1 4.6 + - + +
128A GLU* 2.8 51.4 + - - +
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Residues in contact with ARG 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A ILE* 3.0 15.2 + - + +
122A GLU* 3.3 37.5 + - - +
123A ILE 3.2 0.2 - - - -
124A LEU* 1.3 77.1 - - - +
126A ASP* 1.3 64.4 + - - +
128A GLU* 3.6 8.5 + - + +
129A GLY* 3.2 17.5 + - - -
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Residues in contact with ASP 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A ASP* 3.8 12.4 - - - +
54A HIS* 2.9 33.9 + - + -
57A ARG* 5.0 5.0 + - - -
122A GLU* 3.1 15.5 + - - +
123A ILE* 2.9 8.7 + - - +
125A ARG* 1.3 80.9 - - - +
127A GLU* 1.3 63.5 + - - +
129A GLY* 3.2 4.7 + - - -
130A HIS* 3.1 26.2 + - - +
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Residues in contact with GLU 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A GLU* 2.7 29.5 - - - +
51A GLU* 2.8 23.1 - - - +
54A HIS* 3.4 7.9 + - - -
94A GLU* 2.6 31.8 - - - +
97A GLY 6.1 0.7 - - - -
98A ALA* 5.4 2.7 - - + +
101A LEU* 3.9 21.5 - - + -
123A ILE* 2.9 19.6 + - - +
124A LEU* 3.1 10.1 + - + +
126A ASP* 1.3 73.6 - - - +
128A GLU* 1.3 57.2 + - - +
130A HIS* 2.9 12.5 + - - +
131A ILE* 2.8 42.9 + - + +
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Residues in contact with GLU 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A ALA* 5.2 1.6 - - - +
102A ARG* 2.7 34.5 + - - -
124A LEU* 2.8 31.3 + - - +
125A ARG* 3.7 9.4 - - - +
127A GLU* 1.3 76.0 - - - +
129A GLY* 1.3 54.8 + - - +
131A ILE* 3.3 16.3 + - + +
132A ASP* 2.9 28.3 + - - +
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Residues in contact with GLY 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 ARG 3.2 13.7 + - - -
126A ASP* 3.5 6.1 - - - -
127A GLU 3.1 1.0 - - - -
128A GLU* 1.3 74.5 - - - +
130A HIS* 1.3 64.6 + - - +
132A ASP* 3.2 9.3 + - - +
133A TRP* 3.1 21.3 + - - +
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Residues in contact with HIS 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A TYR* 4.0 4.5 + - - +
47A GLU* 3.2 41.1 - - + +
50A ASP* 3.3 34.2 + - + -
51A GLU* 3.5 20.8 + - - -
54A HIS* 4.7 0.4 - + - -
94A GLU* 3.0 30.1 + - - +
126A ASP* 3.1 14.5 + - - +
127A GLU* 2.9 18.8 + - - +
129A GLY* 1.3 68.4 - - - +
131A ILE* 1.3 67.2 + - - +
133A TRP* 3.1 4.4 + - - +
134A LEU* 2.9 29.2 + - - +
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Residues in contact with ILE 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A LEU* 4.0 15.0 - - + -
94A GLU* 3.6 32.8 - - + +
95A LEU* 3.6 26.2 - - + -
98A ALA* 4.2 14.1 - - + -
102A ARG* 5.9 0.4 - - - +
127A GLU* 2.8 23.0 + - + +
128A GLU* 3.5 21.1 - - + +
130A HIS* 1.3 71.6 - - - +
132A ASP* 1.3 63.0 + - - +
134A LEU* 3.9 2.7 - - - +
135A GLU* 2.9 48.3 + - - +
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Residues in contact with ASP 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A GLU 2.9 13.5 + - - +
129A GLY* 3.2 12.8 + - - +
131A ILE* 1.3 77.3 - - - +
133A TRP* 1.3 59.1 + - - +
135A GLU* 3.8 10.5 - - - +
136A THR* 2.7 42.0 + - - -
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Residues in contact with TRP 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ARG* 4.1 11.5 - - - +
40A LEU* 4.2 15.7 - - + -
43A VAL* 3.5 45.0 - - + +
44A GLU* 3.7 19.5 - - + -
47A GLU* 4.1 14.1 - - - +
87A LEU* 4.7 5.4 - - + -
129A GLY 3.1 11.3 + - - +
130A HIS 3.1 8.4 + - - +
132A ASP* 1.3 77.4 - - - +
134A LEU* 1.3 99.2 + - + +
136A THR* 3.2 7.1 + - - -
137A GLU* 3.0 61.3 + - + +
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Residues in contact with LEU 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A TYR* 3.6 23.8 - - + +
44A GLU* 4.0 11.4 - - - +
47A GLU* 5.3 0.4 - - - +
87A LEU* 4.1 20.1 - - + +
90A ASP* 4.2 4.7 - - + -
91A LEU* 4.0 36.6 - - + +
94A GLU* 4.1 8.1 - - + -
130A HIS* 2.9 28.8 + - + +
131A ILE* 3.9 3.8 - - - +
133A TRP* 1.3 105.5 - - + +
135A GLU* 1.3 62.8 + - - +
137A GLU* 3.3 3.5 + - - +
138A LEU* 3.0 31.0 + - + +
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Residues in contact with GLU 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A LEU* 4.1 20.7 - - + +
95A LEU* 5.3 4.0 - - - +
131A ILE* 2.9 39.1 + - - +
132A ASP* 3.8 9.3 - - - +
134A LEU* 1.3 75.4 - - - +
136A THR* 1.3 63.8 + - - +
138A LEU* 3.3 8.8 + - - +
139A ASP* 3.0 33.1 + - - +
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Residues in contact with THR 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A ASP* 2.7 33.2 + - - -
133A TRP* 3.6 7.2 - - - -
135A GLU* 1.3 78.9 - - - +
137A GLU* 1.3 60.0 + - - +
139A ASP* 3.2 7.8 + - + +
140A LEU* 2.8 44.1 + - + +
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Residues in contact with GLU 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ARG* 3.3 19.8 + - - -
87A LEU* 4.1 11.0 - - + -
133A TRP* 3.0 62.8 + - + +
134A LEU* 3.7 7.4 - - - +
136A THR* 1.3 78.5 - - - +
138A LEU* 1.3 62.9 + - - +
140A LEU* 3.0 20.3 + - - +
141A ILE* 3.0 27.8 + - - +
149A TYR* 2.5 39.2 + - - +
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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
----------------------------------------------------------
84A GLU* 3.9 32.6 - - + +
87A LEU* 3.7 28.0 - - + -
88A ARG* 4.0 39.1 + - - +
91A LEU* 3.8 29.6 - - + -
134A LEU 3.0 20.5 + - - +
135A GLU* 3.7 5.2 - - - +
137A GLU* 1.3 76.2 - - - +
139A ASP* 1.3 65.6 + - - +
141A ILE* 3.4 15.1 + - + +
142A GLN* 3.5 17.2 + - - +
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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
----------------------------------------------------------
135A GLU* 3.0 23.6 + - - +
136A THR* 3.7 6.9 - - + +
138A LEU* 1.3 76.1 - - - +
140A LEU* 1.3 65.6 + - - +
142A GLN* 3.2 8.8 + - - +
143A LYS* 2.9 49.1 + - - +
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Residues in contact with LEU 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ARG* 5.5 5.4 - - - +
136A THR* 2.8 29.2 + - + +
137A GLU* 3.0 32.0 + - - +
139A ASP* 1.3 78.2 - - + +
141A ILE* 1.3 62.7 + - - +
143A LYS* 4.4 15.9 - - + +
144A MET* 2.9 57.6 + - + +
149A TYR* 4.2 9.4 - - + -
----------------------------------------------------------
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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
----------------------------------------------------------
83A VAL* 4.3 8.5 - - + -
84A GLU* 4.2 27.6 - - + +
87A LEU* 4.2 17.5 - - + -
137A GLU 3.0 17.9 + - - +
138A LEU* 3.6 11.7 - - + +
139A ASP 3.2 0.2 - - - -
140A LEU* 1.3 77.2 - - - +
142A GLN* 1.3 71.1 + - - +
145A GLY* 3.0 28.4 + - - -
146A LEU* 4.2 27.4 - - + +
149A TYR* 3.6 40.8 - - + -
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Residues in contact with GLN 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A GLU* 3.9 26.0 + - - -
88A ARG* 5.1 6.5 - - - +
138A LEU 3.5 11.3 + - - +
139A ASP* 3.2 10.3 + - - +
141A ILE* 1.3 89.7 + - - +
143A LYS* 1.3 66.7 + - + +
145A GLY* 3.8 4.7 + - - -
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Residues in contact with LYS 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A ASP* 2.9 42.5 + - + +
140A LEU* 3.1 17.2 + - + +
142A GLN* 1.3 82.5 - - + +
144A MET* 1.3 58.5 + - + +
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Residues in contact with MET 144 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A LEU* 2.9 52.7 + - + +
143A LYS* 1.3 77.3 - - + +
145A GLY* 1.4 66.5 + - - +
148A ASN* 3.4 36.2 + - + +
149A TYR* 3.8 29.4 - - + +
152A ALA* 4.9 8.3 - - + -
250A SO4 4.7 1.6 + - - -
----------------------------------------------------------
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
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).
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