Contacts of the helix formed by residues 98 - 119 (chain C) in PDB entry 2OVL
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 GLY 98 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97C GLY* 1.3 69.2 - - - -
99C HIS* 1.3 64.1 + - - -
100C ALA 3.2 3.1 - - - -
101C THR* 2.8 29.5 + - - +
252C HIS* 4.2 6.5 + - - -
94D ALA 2.8 14.2 - - - +
95D GLY* 3.5 18.4 + - - -
96D ARG 5.1 0.6 + - - -
97D GLY* 3.5 15.8 - - - -
98D GLY* 3.9 3.9 - - - +
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Residues in contact with HIS 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52C THR* 4.6 1.1 - - + -
55C HIS 4.8 1.0 + - - -
56C GLY* 3.9 34.8 - - - -
59C ALA* 5.1 3.6 - - + -
60C VAL* 4.0 6.8 - - + +
63C MSE 3.2 27.1 - - + +
98C GLY* 1.3 68.3 - - - -
100C ALA* 1.3 66.1 + - - +
102C SER* 2.8 20.0 + - - +
103C ALA 3.1 8.3 + - - -
63D MSE 4.8 6.7 - - - -
91D LEU* 3.3 36.1 + - + +
93D TYR 3.6 11.1 + - - -
94D ALA* 2.8 21.0 + - + -
95D GLY* 3.4 11.6 - - - -
97D GLY 4.9 0.2 + - - -
98D GLY* 5.2 1.2 - - - -
99D HIS* 5.4 4.2 - - + +
100D ALA* 4.1 20.6 + - + +
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Residues in contact with ALA 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C MSE 3.4 18.0 - - - -
91C LEU* 3.7 35.0 - - + +
95C GLY* 5.1 0.7 - - - -
96C ARG 5.6 0.9 - - - +
97C GLY 4.1 10.8 - - - +
98C GLY 3.1 1.0 + - - -
99C HIS* 1.3 76.0 - - - +
101C THR* 1.3 59.3 + - + +
103C ALA* 3.1 3.9 + - - +
104C ILE* 2.9 36.4 + - + +
99D HIS* 4.3 13.2 + - + +
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Residues in contact with THR 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C TRP* 4.6 12.1 - - + -
97C GLY* 3.5 28.9 - - - +
98C GLY 2.8 19.1 + - - +
100C ALA* 1.3 77.2 - - + +
102C SER* 1.3 53.8 + - - +
104C ILE* 3.5 11.5 + - + +
105C SER* 2.7 36.9 + - - -
252C HIS* 3.4 28.8 - - + +
275C ASN 2.8 23.1 + - - -
276C ILE 5.1 2.2 - - - -
277C GLY* 4.2 2.6 - - - -
94D ALA 4.9 0.2 + - - -
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Residues in contact with SER 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C THR* 3.6 29.1 + - - +
51C TYR 5.1 2.3 + - - -
52C THR* 5.7 0.4 - - - -
60C VAL* 4.4 11.2 - - - -
99C HIS* 2.8 12.2 + - - -
101C THR* 1.3 77.5 + - - +
103C ALA* 1.3 67.2 + - - +
105C SER* 3.1 3.2 + - - -
106C ALA 3.1 18.7 + - - -
274C SER 3.6 7.9 + - - -
275C ASN* 3.4 21.6 - - - +
94D ALA* 3.7 19.0 + - - +
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Residues in contact with ALA 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C VAL* 3.9 18.1 - - + +
63C MSE 4.0 12.6 - - + -
64C VAL* 3.6 26.4 - - + +
68C LEU* 3.7 14.1 - - + -
91C LEU* 5.0 0.2 - - + -
99C HIS 3.1 8.7 + - - +
100C ALA* 3.1 9.8 + - - +
102C SER* 1.3 77.2 - - - +
104C ILE* 1.3 63.1 + - - +
106C ALA* 3.5 4.5 + - - +
107C VAL* 3.4 25.6 + - - +
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Residues in contact with ILE 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C LEU* 4.6 3.6 - - + -
84C TRP* 3.5 40.4 - - + +
87C MSE 3.2 32.9 - - + +
88C TRP* 3.7 47.6 - - + +
91C LEU* 5.2 2.2 - - + -
100C ALA* 2.9 27.1 + - + +
101C THR* 3.6 9.6 - - + +
103C ALA* 1.3 74.7 - - - +
105C SER* 1.3 59.5 + - - +
107C VAL* 3.3 3.3 + - - +
108C ASP* 2.8 27.4 + - - +
277C GLY* 4.2 2.5 - - - +
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Residues in contact with SER 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C TYR 5.3 0.4 - - - -
101C THR 2.7 20.0 + - - -
102C SER 3.1 2.9 + - - -
104C ILE* 1.3 76.5 - - - +
106C ALA* 1.3 57.7 + - - +
108C ASP* 3.2 1.9 + - - +
109C ILE* 2.8 36.8 + - - +
273C VAL 3.5 8.7 - - - -
274C SER* 3.1 33.6 + - - -
275C ASN* 3.3 3.5 - - - -
277C GLY 2.9 21.3 + - - -
278C GLY 3.5 11.0 - - - +
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Residues in contact with ALA 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C ILE* 4.7 0.7 - - + +
36C VAL* 3.5 26.2 - - + -
48C GLY* 3.4 11.5 - - - -
49C TYR* 4.0 31.2 - - - +
50C THR* 4.1 9.1 - - + -
64C VAL* 5.2 1.1 - - + -
102C SER 3.1 9.4 + - - +
103C ALA* 3.7 9.0 - - - +
104C ILE 3.3 0.2 - - - -
105C SER* 1.3 77.4 - - - +
107C VAL* 1.3 62.3 + - - +
109C ILE* 3.3 2.0 + - - -
110C ALA* 3.1 18.7 + - - +
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Residues in contact with VAL 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C VAL* 4.4 7.4 - - + -
38C ILE* 5.2 3.1 - - + -
64C VAL* 4.2 23.3 - - + -
68C LEU* 4.3 2.7 - - + -
72C LEU* 3.7 33.4 - - + -
87C MSE 3.5 33.2 - - + -
103C ALA 3.4 14.1 + - - +
104C ILE 3.3 6.2 + - - +
106C ALA* 1.3 74.9 - - - +
108C ASP* 1.3 64.3 + - - +
110C ALA* 3.1 8.4 + - - +
111C LEU* 3.0 32.5 + - + +
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Residues in contact with ASP 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C ILE* 3.3 13.2 - - - +
84C TRP* 3.4 11.2 - - + +
87C MSE 5.5 0.2 - - - -
104C ILE 2.8 17.6 + - - +
105C SER 3.5 3.1 - - - +
107C VAL* 1.3 75.9 - - - +
109C ILE* 1.3 61.8 + - - +
111C LEU* 3.3 11.4 + - - +
112C TRP* 3.1 36.4 + - - -
277C GLY 3.5 18.4 - - - +
278C GLY* 4.0 0.2 - - - -
279C TYR 2.8 29.5 + - - -
280C THR* 2.5 31.6 + - - -
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Residues in contact with ILE 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C LEU 3.9 11.9 - - - +
48C GLY* 3.9 7.4 - - - -
49C TYR 4.5 7.6 - - - +
105C SER* 2.8 29.4 + - - +
106C ALA* 3.6 6.1 - - - +
108C ASP* 1.3 77.0 - - - +
110C ALA* 1.3 61.3 + - - +
112C TRP* 3.4 2.4 + - - +
113C ASP* 3.0 22.2 + - - +
273C VAL* 3.4 33.4 - - + +
274C SER* 5.6 0.7 - - - -
278C GLY* 3.6 2.2 - - - -
279C TYR* 3.3 46.4 - - + +
304C LEU* 4.1 27.1 - - + -
348C HIS* 4.2 2.0 - - - +
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Residues in contact with ALA 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C VAL 3.9 1.1 - - - +
38C ILE* 3.7 24.9 - - + -
46C GLY* 3.6 21.7 - - - +
47C LEU 3.4 11.2 - - - -
48C GLY* 3.6 11.6 - - - +
106C ALA 3.1 9.8 + - - +
107C VAL 3.1 8.6 + - - +
109C ILE* 1.3 76.0 - - - +
111C LEU* 1.3 57.4 + - - +
113C ASP* 3.1 3.6 + - - +
114C LEU* 2.8 30.6 + - - +
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Residues in contact with LEU 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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4C ILE* 4.0 26.5 - - + -
38C ILE* 4.6 12.6 - - + -
72C LEU* 4.7 2.5 - - + -
77C ALA* 4.0 20.9 - - + +
80C ILE* 3.7 29.4 - - + +
83C ILE* 3.8 34.3 - - + -
84C TRP 5.7 0.2 - - - +
107C VAL* 3.0 29.3 + - + +
108C ASP* 3.6 10.8 - - - +
110C ALA* 1.3 77.0 - - + +
112C TRP* 1.3 57.1 + - - +
114C LEU* 3.3 6.4 + - + +
115C LYS* 2.9 28.9 + - - +
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Residues in contact with TRP 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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80C ILE* 3.6 18.3 - - + +
108C ASP* 3.1 38.8 + - - +
109C ILE 3.8 0.4 - - - +
111C LEU* 1.3 73.3 - - - +
113C ASP* 1.3 66.7 + - - +
115C LYS* 3.1 35.0 + - + +
116C GLY 2.9 19.4 + - - -
123C LEU* 3.4 13.5 - - + +
126C LEU* 4.0 16.4 - - + -
127C PHE* 3.4 33.4 - + - -
279C TYR* 3.5 30.7 - + + -
280C THR* 3.1 32.2 + - + +
283C ARG* 4.2 15.5 - - - -
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Residues in contact with ASP 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C THR 4.1 0.5 - - - +
46C GLY* 3.3 5.2 - - - -
47C LEU* 2.7 26.5 + - - +
109C ILE 3.0 14.8 + - - +
110C ALA 3.3 8.7 - - - +
112C TRP* 1.3 74.9 - - - +
114C LEU* 1.3 57.0 + - - +
116C GLY 3.2 1.6 + - - -
117C ILE* 2.9 44.7 + - - +
123C LEU* 4.4 3.7 - - - +
346C PRO 4.4 1.0 - - - +
347C GLY* 3.3 14.3 - - - -
348C HIS* 3.0 50.9 + - + +
349C GLY 4.5 0.2 + - - -
350C VAL 5.5 0.3 - - - +
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Residues in contact with LEU 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ILE* 3.8 37.7 - - + +
40C ASP* 3.2 32.3 - - + +
44C ALA* 4.4 8.3 - - + +
45C THR 4.7 0.9 - - - -
46C GLY* 4.0 15.9 - - - +
77C ALA* 3.9 22.2 - - + -
78C GLU* 4.7 4.0 - - - +
110C ALA 2.8 17.2 + - - +
111C LEU* 3.4 7.6 - - + +
113C ASP* 1.3 76.9 - - - +
115C LYS* 1.3 57.1 + - - +
117C ILE* 3.1 7.1 + - - +
118C ARG* 2.9 43.2 + - + +
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Residues in contact with LYS 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77C ALA 5.5 0.2 - - - +
78C GLU* 2.8 65.1 + - - +
80C ILE* 3.2 26.7 - - + +
111C LEU 2.9 13.6 + - - +
112C TRP* 3.1 38.1 + - + +
114C LEU* 1.3 76.5 - - - +
116C GLY* 1.3 61.4 + - - +
118C ARG* 3.6 2.8 + - - +
119C ALA* 3.1 23.5 + - + +
126C LEU* 4.2 15.5 - - + -
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Residues in contact with GLY 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112C TRP 2.9 13.2 + - - -
113C ASP 3.7 3.1 - - - -
114C LEU 3.2 0.2 - - - -
115C LYS* 1.3 74.9 - - - +
117C ILE* 1.3 60.5 + - - +
119C ALA* 3.5 2.8 - - - -
120C ARG* 2.9 21.3 + - - -
121C THR 2.9 24.8 + - - +
123C LEU* 4.3 0.7 - - - -
126C LEU* 3.8 15.7 - - - +
347C GLY* 3.5 12.5 + - - -
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Residues in contact with ILE 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ALA* 4.5 17.7 - - + -
45C THR 3.5 26.9 - - - +
113C ASP* 2.9 35.5 + - - +
114C LEU* 3.5 7.2 - - - +
116C GLY* 1.3 74.4 - - - +
118C ARG* 1.3 60.9 + - + +
119C ALA 3.0 4.5 - - - -
120C ARG* 2.9 26.2 + - - +
346C PRO* 3.8 28.9 - - + +
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Residues in contact with ARG 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40C ASP* 3.0 25.8 + - - +
42C ASP* 2.7 40.2 + - - +
44C ALA* 3.9 14.4 - - + +
77C ALA* 6.4 0.2 - - - -
78C GLU* 3.9 20.2 + - - +
114C LEU* 2.9 33.4 + - + +
115C LYS 4.1 3.8 - - - +
117C ILE* 1.3 74.8 - - - +
119C ALA* 1.3 58.0 + - - +
120C ARG* 3.4 3.4 - - - +
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Residues in contact with ALA 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115C LYS* 3.1 19.3 + - + +
116C GLY* 3.9 3.8 - - - +
117C ILE 3.0 1.0 - - - -
118C ARG* 1.3 76.7 - - - +
120C ARG* 1.3 72.4 + - - +
121C THR* 3.4 18.8 + - + +
126C LEU* 5.0 8.1 - - + -
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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