Contacts of the helix formed by residues 100 - 124 (chain C) in PDB entry 2QW4
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 SER 100 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C LEU* 1.3 76.2 - - - +
101C PRO* 1.3 70.5 - - - +
102C ALA 4.3 2.2 - - - -
103C ASP* 3.1 24.8 + - - +
104C GLN* 2.9 24.8 + - - +
188C GLN* 3.1 30.5 + - - +
189C GLU* 4.4 15.4 + - - -
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Residues in contact with PRO 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C LEU 3.6 2.2 - - - +
100C SER* 1.3 87.8 - - - +
102C ALA* 1.3 56.3 + - - +
104C GLN* 3.5 14.0 + - + +
105C ASP* 3.0 35.9 + - - +
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Residues in contact with ALA 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C SER* 3.2 1.2 - - - -
101C PRO* 1.3 75.6 - - - +
103C ASP* 1.3 59.1 + - - +
105C ASP* 3.2 7.9 + - - +
106C LEU* 2.7 35.7 + - - +
188C GLN* 3.6 28.3 - - + +
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Residues in contact with ASP 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C LEU* 4.5 8.3 - - + +
100C SER* 3.1 27.4 + - - +
102C ALA* 1.3 82.1 - - - +
104C GLN* 1.3 55.5 + - - +
106C LEU* 3.6 3.5 - - - +
107C LEU* 2.9 37.8 + - + +
186C GLY 4.1 1.7 - - - +
187C LEU* 3.4 24.0 - - + +
188C GLN* 2.8 28.4 + - - +
189C GLU* 2.9 34.1 + - - +
193C VAL* 4.7 5.1 - - + +
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Residues in contact with GLN 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C GLU* 3.4 22.0 - - - +
96C PHE* 3.3 41.0 + - + +
97C ALA* 3.2 20.9 + - - -
99C LEU* 2.7 29.7 + - + +
100C SER 2.9 13.3 + - - +
101C PRO* 3.6 15.2 - - + +
102C ALA 3.2 0.2 - - - -
103C ASP* 1.3 76.6 - - - +
105C ASP* 1.3 65.7 + - - +
108C LEU* 2.9 32.1 + - + +
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Residues in contact with ASP 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C ARG* 5.2 10.0 + - - +
101C PRO* 3.0 18.0 + - - +
102C ALA* 3.6 9.4 - - - +
104C GLN* 1.3 79.7 - - - +
106C LEU* 1.3 56.6 + - - +
108C LEU* 4.6 6.4 - - - +
109C GLU* 2.8 57.3 + - - +
259C LYS* 6.0 0.7 - - - +
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Residues in contact with LEU 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C ALA 2.7 19.8 + - - +
103C ASP* 3.6 8.1 - - - +
105C ASP* 1.3 72.6 - - - +
107C LEU* 1.3 63.3 + - - +
109C GLU* 3.9 5.5 - - + +
110C SER* 2.7 40.0 + - - +
184C ARG* 4.6 7.2 - - + -
185C HIS 3.4 27.4 - - - +
186C GLY 3.6 24.2 - - - +
187C LEU* 3.8 17.0 - - + +
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Residues in contact with LEU 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C PHE* 3.8 21.1 - - + -
99C LEU* 3.9 19.1 - - + -
103C ASP 2.9 18.9 + - - +
104C GLN 4.0 2.2 - - - +
106C LEU* 1.3 75.9 - - - +
108C LEU* 1.3 64.4 + - - +
110C SER* 3.3 4.2 + - - -
111C ALA* 3.2 24.8 + - - +
180C LEU* 3.6 27.8 - - + +
181C ILE* 4.6 5.6 - - + -
182C THR 3.4 25.4 - - - +
184C ARG* 4.2 9.7 + - + -
187C LEU* 3.6 22.0 - - + -
193C VAL* 4.1 18.2 - - + -
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Residues in contact with LEU 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C LEU* 4.9 13.4 - - + +
86C ILE* 3.8 29.2 - - + -
87C ARG* 3.9 44.6 - - + +
90C ALA* 4.3 6.3 - - + -
91C GLU* 4.4 1.3 - - - +
96C PHE* 3.5 28.7 - - + -
104C GLN* 2.9 26.3 + - + +
105C ASP* 3.9 7.2 - - - +
107C LEU* 1.3 76.8 - - - +
109C GLU* 1.3 66.0 + - + +
111C ALA* 3.2 1.7 + - - +
112C PHE* 3.1 27.5 + - + +
115C LEU* 5.3 0.4 - - + +
180C LEU* 3.9 9.4 - - + -
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Residues in contact with GLU 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C LEU* 5.9 4.0 - - + -
87C ARG* 5.4 6.8 + - - +
105C ASP* 2.8 43.8 + - - +
106C LEU* 4.1 7.4 - - + +
108C LEU* 1.3 75.8 - - + +
110C SER* 1.3 59.9 + - - +
111C ALA 3.7 0.2 + - - -
112C PHE 4.2 1.9 + - - -
256C ILE* 5.9 2.6 - - - +
259C LYS* 3.0 42.1 + - - +
260C ILE* 3.2 53.6 - - + +
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Residues in contact with SER 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C LEU* 2.7 32.5 + - - +
107C LEU 4.0 1.1 - - - -
108C LEU 3.2 0.2 - - - -
109C GLU* 1.3 76.6 - - - +
111C ALA* 1.3 55.1 + - - +
112C PHE 3.6 0.4 - - - -
113C LEU 5.5 0.2 - - - -
114C GLU* 2.9 9.5 - - - +
184C ARG* 2.7 55.6 + - - +
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Residues in contact with ALA 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C LEU 3.2 15.2 + - - +
108C LEU 3.2 2.7 + - - +
110C SER* 1.3 78.5 - - - +
112C PHE* 1.3 57.1 + - - +
113C LEU 3.4 1.6 - - - -
114C GLU* 3.2 9.4 + - - +
115C LEU* 2.7 53.2 + - + +
179C VAL* 3.8 21.5 - - + +
180C LEU* 4.0 7.9 - - + +
184C ARG* 3.6 5.8 - - - +
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Residues in contact with PHE 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C LEU* 3.2 42.8 - - + -
82C SER* 4.2 2.9 - - - -
83C LEU* 3.4 38.1 - - + -
86C ILE* 3.9 21.1 - - + -
108C LEU* 3.1 15.5 + - + +
109C GLU 4.2 4.0 + - - +
110C SER 3.6 1.2 - - - -
111C ALA* 1.3 76.4 - - - +
113C LEU* 1.3 70.5 + - + +
115C LEU* 3.0 7.5 + - - +
116C PHE* 2.6 44.1 + - + +
257C ILE* 3.6 22.0 - - + -
260C ILE* 3.8 29.6 - - + -
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Residues in contact with LEU 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C LEU* 5.0 8.1 - - + -
110C SER 5.5 0.2 - - - -
111C ALA 3.4 0.6 - - - -
112C PHE* 1.3 96.3 - - + +
114C GLU* 1.3 65.0 + - + +
116C PHE* 3.3 6.0 + - + +
117C ILE* 2.9 27.0 + - - +
151C TRP* 4.8 14.8 - - + -
235C CYS* 3.7 37.0 - - + +
238C GLY* 4.3 5.6 - - - -
239C LEU* 4.0 30.3 - - + +
242C ILE* 4.2 20.2 - - + -
257C ILE* 6.2 0.7 - - + -
260C ILE* 5.3 10.8 - - + +
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Residues in contact with GLU 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C SER 2.9 23.2 - - - +
111C ALA* 3.2 5.6 + - - +
113C LEU* 1.3 78.3 - - + +
115C LEU* 1.3 57.8 + - - +
117C ILE* 3.3 2.3 + - - +
118C LEU* 2.9 30.9 + - - +
179C VAL* 3.6 20.0 - - + +
184C ARG* 3.1 5.8 + - - -
231C LEU* 3.7 22.6 - - + +
232C ARG* 2.9 50.5 + - + -
235C CYS* 3.4 25.3 - - + -
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Residues in contact with LEU 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ILE* 3.5 34.8 - - + -
89C TRP* 3.7 21.3 - - + -
108C LEU* 5.3 0.9 - - + +
111C ALA* 2.7 41.7 + - + +
112C PHE* 3.5 4.9 - - - +
114C GLU* 1.3 70.3 - - - +
116C PHE* 1.3 59.4 + - - +
118C LEU* 4.5 4.5 - - + -
119C ARG* 2.8 44.2 + - + +
176C SER* 3.5 33.9 - - - +
179C VAL* 3.7 13.9 - - + -
180C LEU* 4.3 9.2 - - + +
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Residues in contact with PHE 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C LEU* 4.5 4.7 - - + -
79C LEU* 3.6 35.4 - - + -
82C SER* 3.3 31.6 - - - -
86C ILE* 4.0 8.2 - - - +
112C PHE* 2.6 33.5 + + + +
113C LEU* 3.5 9.4 - - + +
115C LEU* 1.3 70.1 - - - +
117C ILE* 1.3 65.7 + - + +
119C ARG* 4.1 1.7 - - - +
120C LEU* 2.8 42.6 + - + +
133C PHE* 3.8 35.4 - + - -
134C CYS* 5.9 2.0 - - - -
148C PHE* 4.0 20.6 - + - -
151C TRP* 4.8 7.0 - + - -
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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
----------------------------------------------------------
113C LEU* 2.9 16.1 + - + +
114C GLU 3.5 5.4 - - - +
116C PHE* 1.3 77.5 - - + +
118C LEU* 1.3 54.1 + - - +
120C LEU* 3.4 6.4 - - - +
121C ALA* 2.6 44.1 + - + +
151C TRP* 3.7 34.5 - - + -
155C ILE* 4.5 12.9 - - + +
158C PHE* 4.8 0.4 - - + -
231C LEU* 3.5 16.6 - - + -
234C LEU* 3.7 25.4 - - + +
235C CYS* 2.8 40.6 - - - +
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Residues in contact with LEU 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C GLU 2.9 20.0 + - - +
115C LEU* 3.9 4.9 - - + +
117C ILE* 1.3 73.4 - - - +
119C ARG* 1.3 64.9 + - + +
121C ALA* 3.0 5.7 + - - +
122C TYR* 2.8 25.1 + - - +
158C PHE* 4.1 15.9 - - + -
162C LEU* 4.0 17.5 - - + -
172C PHE* 3.5 25.6 - - + -
175C LEU* 3.9 28.7 - - + -
176C SER* 4.0 18.4 - - - -
179C VAL* 3.9 23.6 - - + -
227C LYS* 6.0 1.1 - - + -
231C LEU* 4.0 11.0 - - + +
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Residues in contact with ARG 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C HIS* 4.6 13.0 + - + +
44C SER* 3.1 34.1 + - - -
45C GLY* 4.7 1.9 - - - +
85C VAL* 3.6 25.7 - - - +
86C ILE* 3.7 26.2 - - - +
89C TRP* 4.2 23.0 - - - +
115C LEU* 2.8 35.5 + - - +
116C PHE* 4.1 2.0 - - - +
118C LEU* 1.3 74.2 - - + +
120C LEU* 1.3 64.1 + - - +
122C TYR* 3.0 13.2 + - - +
123C ARG* 3.2 44.0 + - - +
134C CYS* 4.2 2.2 - - - +
172C PHE* 4.0 23.8 - - + -
176C SER* 5.1 6.3 - - - -
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Residues in contact with LEU 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C PHE* 2.8 42.4 + - + +
117C ILE* 3.4 4.9 - - - +
119C ARG* 1.3 74.7 - - - +
121C ALA* 1.3 63.3 + - - +
122C TYR 3.2 0.2 + - - -
123C ARG* 3.4 11.0 + - - +
124C SER* 3.0 37.1 + - - +
131C LEU* 4.6 11.4 - - + -
132C ILE 3.1 31.4 - - - +
133C PHE* 3.6 35.7 - - + -
148C PHE* 4.4 10.1 - - + -
152C ILE* 4.7 0.2 - - + -
155C ILE* 4.5 17.3 - - + -
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Residues in contact with ALA 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117C ILE* 2.6 21.6 + - + +
118C LEU* 3.0 5.6 + - - +
120C LEU* 1.3 76.4 - - - +
122C TYR* 1.3 60.5 + - - +
124C SER* 3.7 4.3 + - - -
155C ILE* 4.6 11.7 - - + +
158C PHE* 3.9 28.3 - - + -
159C SER* 2.3 43.1 + - - +
162C LEU* 4.3 5.8 - - + -
163C HIS* 3.7 5.4 + - - -
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Residues in contact with TYR 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C HIS* 4.1 17.7 - + - -
118C LEU 2.8 15.8 + - - +
119C ARG 3.0 5.6 + - - +
121C ALA* 1.3 78.9 - - - +
123C ARG* 1.3 60.2 + - + +
162C LEU* 4.0 15.0 - - + +
163C HIS* 3.1 29.5 - + - -
167C VAL* 2.8 34.4 + - + -
168C ASP 3.1 17.3 + - - -
169C VAL* 3.6 11.6 + - + +
172C PHE* 3.4 53.6 - + + -
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Residues in contact with ARG 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C GLY* 4.3 6.7 - - - -
46C PRO* 4.1 21.9 - - - +
119C ARG* 3.2 47.0 + - - +
120C LEU* 4.1 10.2 - - - +
122C TYR* 1.3 80.9 - - + +
124C SER* 1.3 63.0 + - - +
125C LYS* 3.8 5.4 + - - +
132C ILE* 2.8 65.3 + - + +
133C PHE* 3.2 2.0 - - - +
134C CYS* 3.0 44.0 - - - +
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Residues in contact with SER 124 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C LEU* 3.0 23.0 + - - +
121C ALA* 3.7 6.5 + - - -
122C TYR 3.4 1.4 - - - -
123C ARG* 1.3 80.4 - - - +
125C LYS* 1.3 60.0 + - - +
126C PRO* 2.7 15.3 - - - +
130C LYS 3.4 9.9 - - - -
131C LEU* 3.2 13.2 - - - +
132C ILE* 2.9 28.1 + - - -
156C LEU* 4.8 4.7 - - - -
159C SER* 3.8 5.7 + - - -
163C HIS* 3.0 15.9 + - - -
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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