Contacts of the helix formed by residues 92 - 116 (chain F) in PDB entry 3ECS
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ILE 92 (chain F).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90F LYS* 4.1 22.4 - - + +
91F LYS* 1.3 72.4 - - - +
93F MSE 1.3 68.5 + - + +
94F ILE 3.1 3.4 - - - -
95F GLU* 2.9 47.1 + - + +
96F ARG* 3.5 25.6 + - + +
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Residues in contact with MSE 93 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34F LEU* 4.2 23.8 - - + -
43F GLN* 4.7 17.3 - - - +
46F ARG* 3.8 27.1 - - + -
47F ALA* 4.9 9.6 - - - +
50F THR* 6.6 0.4 - - - -
76F ILE* 3.4 39.4 - - + +
77F SER 4.0 13.9 - - - +
91F LYS* 3.2 30.6 - - + -
92F ILE* 1.3 85.0 - - + +
94F ILE* 1.3 57.4 + - - +
96F ARG* 2.8 24.6 + - - +
97F GLY* 2.9 11.1 + - - -
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Residues in contact with ILE 94 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31F LEU* 3.9 16.8 - - + -
34F LEU* 3.4 40.2 - - + -
35F LYS* 3.8 30.7 - - + +
91F LYS* 4.1 21.3 - - - +
92F ILE* 3.1 0.6 - - - +
93F MSE 1.3 76.7 - - - +
95F GLU* 1.3 61.2 + - - +
97F GLY* 3.7 3.0 - - - +
98F GLU* 3.1 38.5 + - - +
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Residues in contact with GLU 95 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92F ILE* 2.9 39.5 + - + +
94F ILE* 1.3 78.7 - - - +
96F ARG* 1.3 60.0 + - + +
98F GLU* 3.5 8.3 + - - +
99F LEU* 3.1 26.4 + - - +
102F ARG* 4.8 2.9 + - - -
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Residues in contact with ARG 96 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75F PHE* 3.3 63.8 + - + +
76F ILE* 4.2 9.4 - - + +
77F SER* 3.9 21.2 + - - +
92F ILE* 3.7 31.4 - - + +
93F MSE 2.8 8.6 + - - +
95F GLU* 1.3 76.8 - - + +
97F GLY* 1.3 55.6 + - - +
98F GLU 3.1 0.4 - - - -
99F LEU* 3.1 8.3 + - + +
100F PHE* 2.7 36.0 + - - +
307F ALA* 4.6 15.1 - - - +
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Residues in contact with GLY 97 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31F LEU* 3.6 14.0 - - - +
34F LEU* 5.8 0.2 - - - -
72F PHE* 3.6 32.4 - - - -
76F ILE* 4.3 5.3 - - - +
93F MSE 2.9 12.1 + - - -
94F ILE* 3.3 6.0 + - - -
96F ARG* 1.3 77.2 - - - +
98F GLU* 1.3 57.5 + - - +
100F PHE* 3.7 1.5 + - - -
101F LEU* 3.1 23.7 + - - +
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Residues in contact with GLU 98 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31F LEU* 3.5 23.3 - - + +
35F LYS* 3.7 20.0 + - - -
94F ILE* 3.1 31.1 + - - +
95F GLU* 4.0 7.7 - - - +
97F GLY* 1.3 75.8 - - - +
99F LEU* 1.3 61.6 + - - +
100F PHE 3.2 0.4 - - - -
101F LEU* 3.8 4.1 - - + +
102F ARG* 2.8 46.3 + - - +
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Residues in contact with LEU 99 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75F PHE* 4.0 24.7 - - + -
95F GLU 3.1 18.6 + - - +
96F ARG* 3.4 8.3 - - - +
98F GLU* 1.3 78.0 - - - +
100F PHE* 1.3 62.0 + - - +
102F ARG* 3.4 28.4 + - + +
103F ARG* 3.2 45.3 + - - +
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Residues in contact with PHE 100 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27F ILE* 3.6 33.2 - - + -
68F GLY 4.4 2.5 - - - -
71F LEU* 3.7 28.3 - - + -
72F PHE* 3.7 33.2 - + + -
75F PHE* 3.6 33.0 - + + -
96F ARG 2.7 16.6 + - - +
97F GLY* 3.7 8.7 - - - +
99F LEU* 1.3 77.3 - - - +
101F LEU* 1.3 62.0 + - - +
103F ARG* 3.1 15.5 + - - +
104F ILE* 3.2 33.6 + - + +
233F PHE* 5.3 3.8 - - + -
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Residues in contact with LEU 101 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24F VAL* 4.3 8.1 - - + +
27F ILE* 4.8 7.0 - - + -
28F ARG* 3.4 53.4 - - + +
31F LEU* 4.1 17.9 - - + -
97F GLY 3.1 16.0 + - - +
98F GLU* 3.8 6.1 - - + +
100F PHE* 1.3 79.0 - - - +
102F ARG* 1.3 62.1 + - - +
103F ARG 3.2 0.7 + - - -
104F ILE* 3.6 14.7 + - + +
105F SER* 2.6 46.6 + - - +
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Residues in contact with ARG 102 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95F GLU 4.8 2.6 + - - -
98F GLU* 2.8 44.6 + - - +
99F LEU* 3.4 35.9 - - + +
101F LEU* 1.3 78.8 - - - +
103F ARG* 1.3 59.2 + - - +
105F SER* 3.8 5.1 - - - -
106F LEU* 2.8 34.4 - - + +
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Residues in contact with ARG 103 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
509A SO4 5.1 14.6 + - - +
75F PHE* 4.5 22.4 - - - -
99F LEU* 3.2 38.9 + - - +
100F PHE* 3.1 8.0 + - - +
101F LEU 3.1 1.0 - - - -
102F ARG* 1.3 77.3 - - - +
104F ILE* 1.3 63.0 + - + +
105F SER 3.0 6.1 + - - -
106F LEU* 3.2 29.6 + - + +
107F SER* 3.6 6.2 + - - -
110F LYS* 4.2 7.2 + - - +
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Residues in contact with ILE 104 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24F VAL* 3.8 26.3 - - + +
27F ILE* 3.4 38.8 - - + -
100F PHE* 3.2 35.8 + - + +
101F LEU* 3.6 18.8 - - + +
103F ARG* 1.3 77.5 - - + +
105F SER* 1.3 58.0 + - - +
106F LEU 3.2 1.3 - - - -
107F SER* 3.3 26.2 - - - +
108F ARG 4.7 1.2 + - - -
232F SER* 5.6 4.3 - - - +
233F PHE* 3.9 30.8 - - + -
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Residues in contact with SER 105 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24F VAL* 4.7 8.7 - - - +
101F LEU* 2.6 36.8 + - - +
102F ARG* 3.8 8.5 - - - -
103F ARG 3.0 0.8 - - - -
104F ILE* 1.3 78.6 - - - +
106F LEU* 1.3 63.6 + - - +
107F SER 3.5 0.2 - - - -
108F ARG* 5.1 4.1 + - - +
109F ASN* 4.9 8.8 + - - -
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Residues in contact with LEU 106 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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509A SO4 5.3 5.4 - - - +
102F ARG* 2.8 33.2 - - + +
103F ARG* 3.2 15.6 + - + +
105F SER* 1.3 83.3 - - - +
107F SER* 1.3 66.5 + - - +
108F ARG 3.5 0.9 - - - -
109F ASN* 3.2 10.9 + - - +
110F LYS* 2.9 51.9 + - + +
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Residues in contact with SER 107 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103F ARG 3.6 3.6 + - - -
104F ILE* 3.3 28.9 + - - +
105F SER 3.5 0.6 - - - -
106F LEU* 1.3 76.0 - - - +
108F ARG* 1.3 65.2 + - - +
110F LYS* 3.0 4.6 + - - +
111F ILE* 2.9 28.3 + - - +
231F GLU* 3.7 23.1 - - - +
232F SER* 4.2 3.6 + - - -
233F PHE* 4.8 0.9 - - - -
287F ASP* 3.5 34.9 + - - +
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Residues in contact with ARG 108 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19F ASP* 2.8 38.6 + - - -
20F MSE 4.2 1.4 - - - +
21F ALA* 3.7 24.5 - - - +
104F ILE 4.7 1.4 + - - -
105F SER 5.1 3.3 + - - +
106F LEU 3.5 0.4 - - - -
107F SER* 1.3 78.1 - - - +
109F ASN* 1.3 58.3 + - - +
111F ILE* 3.4 12.1 + - - +
112F ALA* 3.0 25.0 + - - +
132F ARG* 3.7 27.2 - - - +
133F VAL* 4.4 16.4 - - + +
136F ARG* 2.8 55.3 - - + +
231F GLU* 4.2 16.0 + - + +
506F SO4 5.6 0.4 + - - -
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Residues in contact with ASN 109 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105F SER 4.9 8.5 + - - -
106F LEU* 3.2 9.7 + - - +
107F SER 3.2 0.6 - - - -
108F ARG* 1.3 76.9 - - - +
110F LYS* 1.3 67.2 + - - +
111F ILE 3.1 1.1 - - - -
112F ALA* 3.1 16.0 + - - +
113F ASP* 3.1 16.9 + - - +
136F ARG* 4.2 25.1 - - - +
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Residues in contact with LYS 110 (chain F).
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* 5.6 0.5 + - - -
146A LYS* 5.0 4.7 - - - +
509A SO4 3.2 39.3 + - - +
103F ARG* 4.2 8.3 + - - +
106F LEU* 2.9 56.8 + - + +
107F SER* 3.5 7.8 - - - +
109F ASN* 1.3 71.6 - - - +
111F ILE* 1.3 62.7 + - - +
113F ASP* 2.8 22.0 - - - +
114F LEU* 3.0 16.3 + - - +
286F THR 5.3 1.1 - - - +
287F ASP* 3.8 33.1 - - + +
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Residues in contact with ILE 111 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107F SER 2.9 20.7 + - - +
108F ARG* 3.5 7.9 - - - +
110F LYS* 1.3 78.0 - - - +
112F ALA* 1.3 62.0 + - - +
114F LEU* 3.6 6.8 - - - +
115F CYS* 3.0 24.1 + - - +
133F VAL* 3.7 23.3 - - + -
137F VAL* 4.3 2.0 - - + -
229F VAL* 3.8 15.0 - - + -
230F ALA* 3.3 35.2 - - - +
231F GLU* 3.6 15.0 - - + +
285F PHE* 3.7 15.9 - - + +
286F THR 3.6 22.2 - - - -
287F ASP* 3.7 4.5 - - - +
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Residues in contact with ALA 112 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108F ARG 3.0 14.2 + - - +
109F ASN* 3.1 12.7 + - - +
111F ILE* 1.3 78.4 - - - +
113F ASP* 1.3 57.4 + - - +
116F HIS* 3.1 33.4 + - - +
136F ARG* 3.7 35.7 - - + +
137F VAL* 3.8 11.9 - - + +
140F ALA* 3.8 8.4 - - + +
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Residues in contact with ASP 113 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A ASP* 4.6 3.6 - - - +
116A HIS* 2.6 46.2 + - + -
117A THR* 5.7 2.1 + - - -
144A ALA* 4.6 7.3 - - - +
109F ASN 3.1 13.2 + - - +
110F LYS* 2.8 29.1 - - - +
112F ALA* 1.3 75.7 - - - +
114F LEU* 1.3 60.0 + - - +
116F HIS* 3.4 28.1 + - + +
117F THR* 3.6 5.4 + - - -
140F ALA* 5.0 2.9 - - + -
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Residues in contact with LEU 114 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A ASP 5.9 0.7 - - - -
114A LEU* 5.4 1.3 - - + +
117A THR* 3.6 36.8 - - + +
118A PHE* 6.1 0.2 - - + -
110F LYS 3.0 17.1 + - - +
111F ILE* 3.6 4.0 - - - +
112F ALA 3.1 0.2 - - - -
113F ASP* 1.3 82.7 - - - +
115F CYS* 1.3 58.7 + - - +
117F THR* 4.0 4.3 + - - -
118F PHE* 3.3 24.7 - - + -
285F PHE* 4.0 23.3 - - + -
286F THR 3.3 34.5 - - - +
289F GLY* 4.0 15.3 - - - -
290F VAL* 4.1 16.2 - - + +
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Residues in contact with CYS 115 (chain F).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111F ILE 3.0 16.8 + - - +
114F LEU* 1.3 75.4 - - - +
116F HIS* 1.3 59.7 + - - +
117F THR 3.0 3.1 - - - -
118F PHE* 2.8 30.8 + - - +
119F ILE* 4.1 3.5 + - - +
137F VAL* 4.1 20.9 - - + -
194F ILE* 4.9 12.1 - - - -
227F TYR* 5.5 3.8 - - - -
229F VAL* 3.6 25.4 - - + -
285F PHE* 3.7 32.3 - - + -
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Residues in contact with HIS 116 (chain F).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113A ASP* 3.9 19.4 + - - -
116A HIS* 6.3 0.2 - - - -
112F ALA 3.1 18.7 + - - +
113F ASP* 3.4 25.7 + - + +
115F CYS* 1.3 75.1 - - - +
117F THR* 1.3 93.1 + - - +
118F PHE 3.0 1.6 + - - -
119F ILE* 3.0 30.7 + - - +
137F VAL* 3.9 6.5 - - - +
140F ALA* 3.3 33.5 + - + -
141F ALA* 3.8 13.0 - - - +
144F ALA* 3.6 21.6 - - + +
146F LYS* 4.0 9.6 + - - +
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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).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il