Contacts of the helix formed by residues 110 - 135 (chain C) in PDB entry 1EZV
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 ARG 110 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C SER* 3.3 23.6 + - - +
106C TYR 4.1 2.2 - - - -
107C ARG 2.7 16.1 + - - +
109C PRO* 1.3 86.9 - - - +
111C VAL* 1.3 63.8 + - - +
112C THR* 3.4 1.8 - - - -
113C LEU* 3.2 30.6 + - + +
114C TRP* 3.0 21.5 + - - +
200C ALA 5.6 1.8 - - - +
201C LEU* 6.3 0.2 - - - -
204C HIS* 3.6 24.8 + - + +
205C GLY 2.7 35.2 + - - -
206C SER 3.6 10.7 + - - -
207C SER* 4.0 18.0 + - - +
314C ARG* 3.8 36.2 - - - +
402C HEM 4.8 10.1 - - - -
52F GLU* 5.0 4.9 + - - +
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Residues in contact with VAL 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C TYR 3.5 19.7 - - - +
108C SER* 3.8 21.5 - - - +
109C PRO 3.4 3.2 + - - -
110C ARG* 1.3 76.3 - - - +
112C THR* 1.3 60.0 + - - +
114C TRP* 3.1 6.1 + - - +
115C ASN* 2.9 46.9 + - - +
306C PRO* 3.8 24.0 - - + -
307C PHE* 5.3 11.9 - - + -
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Residues in contact with THR 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C PRO 5.1 0.8 + - - -
110C ARG* 3.4 0.4 - - - -
111C VAL* 1.3 78.1 - - - +
113C LEU* 1.3 63.6 + - - +
115C ASN* 3.1 9.4 + - + +
116C VAL* 3.0 35.2 + - + +
200C ALA* 4.2 16.6 - - + -
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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
----------------------------------------------------------
110C ARG* 3.2 34.8 + - + +
112C THR* 1.3 78.9 - - - +
114C TRP* 1.3 61.2 + - - +
116C VAL* 3.5 1.8 + - - +
117C GLY 3.1 17.2 + - - -
197C HIS* 3.2 64.8 + - + +
200C ALA* 4.1 14.3 - - + +
201C LEU* 3.9 29.2 - - + +
402C HEM 3.5 39.5 - - + -
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Residues in contact with TRP 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C MET* 4.1 18.4 - - + -
100C GLY* 4.2 16.4 - - - -
101C LEU* 3.5 32.8 - - + -
106C TYR* 3.4 34.6 - + + +
110C ARG 3.0 11.9 + - - +
111C VAL* 3.1 8.5 + - - +
113C LEU* 1.3 74.0 - - - +
115C ASN* 1.3 75.2 + - - +
117C GLY* 3.1 3.5 + - - -
118C VAL* 3.0 30.9 + - + +
302C LEU* 2.8 46.3 + - + -
303C LEU* 4.8 0.4 - - - -
305C LEU* 5.0 2.4 - - + +
306C PRO* 4.6 9.6 - - + +
402C HEM 3.7 51.4 - - + +
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Residues in contact with ASN 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C VAL* 2.9 39.5 + - - +
112C THR* 3.1 7.7 + - - +
114C TRP* 1.3 81.1 - - - +
116C VAL* 1.3 63.9 + - + +
118C VAL* 3.1 13.0 + - - +
119C ILE* 3.2 20.6 + - + +
303C LEU* 3.3 35.8 - - + +
306C PRO* 5.4 0.5 - - - +
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Residues in contact with VAL 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C THR* 3.0 30.5 + - + +
113C LEU* 3.8 4.7 - - - +
115C ASN* 1.3 73.8 - - + +
117C GLY* 1.3 65.8 + - - +
119C ILE* 3.1 15.8 + - + +
120C ILE* 3.0 23.9 + - + +
193C MET* 3.6 33.2 - - + +
196C MET* 4.4 19.1 - - + +
197C HIS* 3.9 19.3 - - + +
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Residues in contact with GLY 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C LEU 3.1 13.8 + - - -
114C TRP 3.1 5.8 + - - -
116C VAL* 1.3 79.3 - - - +
118C VAL* 1.3 59.5 + - - +
120C ILE* 3.3 4.9 + - - +
121C PHE 3.1 18.9 + - - -
197C HIS* 4.1 4.0 - - - -
402C HEM 3.1 44.0 - - - +
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Residues in contact with VAL 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C TRP* 3.0 24.1 + - - +
115C ASN 3.1 7.6 + - - +
117C GLY* 1.3 75.1 - - - +
119C ILE* 1.3 65.1 + - + +
121C PHE* 3.3 8.1 + - + +
122C THR* 3.1 23.3 + - - +
299C ILE* 4.5 24.2 - - + +
300C LEU* 5.4 4.5 - - + -
302C LEU* 4.0 25.4 - - + -
303C LEU* 4.2 29.4 - - + -
402C HEM 3.8 15.0 - - + -
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Residues in contact with ILE 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C ASN* 3.2 15.1 + - + +
116C VAL* 3.1 18.3 + - + +
118C VAL* 1.3 79.4 - - + +
120C ILE* 1.3 62.0 + - - +
122C THR* 3.2 9.0 + - - -
123C LEU* 3.0 40.4 + - + +
193C MET* 4.4 18.4 - - - -
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Residues in contact with ILE 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C MET* 4.2 3.4 - - + -
116C VAL* 3.0 19.2 + - + +
117C GLY* 3.6 9.2 - - - +
119C ILE* 1.3 74.1 - - - +
121C PHE* 1.3 50.4 - - - +
123C LEU* 3.1 10.2 + - - +
124C THR* 2.7 47.4 + - - +
190C ILE* 4.4 9.2 - - + +
193C MET* 3.7 44.9 - - + +
194C VAL* 4.0 10.3 - - + +
197C HIS* 4.0 21.1 - - + +
402C HEM 3.5 38.1 - - + -
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Residues in contact with PHE 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C PHE* 4.8 6.7 - + - -
93C MET* 3.7 27.6 - - + -
94C PHE* 4.1 20.0 - + - -
97C MET* 3.8 32.1 - - + -
117C GLY 3.1 12.8 + - - +
118C VAL* 3.4 10.8 - - - +
120C ILE* 1.3 72.7 - - - +
122C THR* 1.3 66.4 + - - +
124C THR* 3.3 0.9 + - - -
125C ILE* 3.0 52.6 + - + +
278C PHE* 3.9 27.6 - + - -
299C ILE* 4.3 24.2 - - + -
302C LEU* 4.7 6.7 - - + -
402C HEM 4.0 8.3 - - + -
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Residues in contact with THR 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C VAL* 3.1 15.9 + - - +
119C ILE* 3.6 10.9 - - - -
121C PHE* 1.3 75.6 - - - +
123C LEU* 1.3 60.9 + - + +
125C ILE* 3.3 10.5 + - - +
126C ALA* 3.0 27.6 + - + +
296C PHE* 6.5 0.4 - - + -
299C ILE* 4.0 23.0 - - + +
300C LEU* 5.9 2.1 - - - +
505C SMA 3.8 15.7 - - - +
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Residues in contact with LEU 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C ILE* 3.0 29.6 + - + +
120C ILE* 3.1 9.2 + - - +
122C THR* 1.3 79.6 - - + +
124C THR* 1.3 58.2 + - - +
126C ALA* 3.3 8.0 + - + +
127C THR* 2.8 33.1 + - - -
186C VAL* 4.1 15.8 - - + +
189C ILE* 4.1 17.3 - - + -
190C ILE* 3.7 20.0 - - + -
193C MET* 3.9 28.5 - - + -
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Residues in contact with THR 124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C PHE* 4.2 24.3 - - + -
90C PHE* 3.8 20.9 - - + -
93C MET* 3.6 30.0 - - + +
120C ILE* 2.7 27.9 + - - +
121C PHE 3.7 4.0 - - - -
122C THR 3.2 0.2 - - - -
123C LEU* 1.3 74.5 - - - +
125C ILE* 1.3 66.1 + - - +
127C THR* 3.2 2.5 + - - -
128C ALA* 3.0 24.6 + - - +
190C ILE* 3.9 17.8 - - + +
401C HEM 4.8 4.6 - - + +
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Residues in contact with ILE 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90C PHE* 3.9 23.8 - - + -
121C PHE* 3.0 55.3 + - + +
122C THR* 3.6 5.6 - - - +
124C THR* 1.3 76.6 - - - +
126C ALA* 1.3 62.0 + - - +
128C ALA* 3.4 2.4 + - - +
129C PHE* 3.2 20.8 + - - +
275C LEU* 4.0 22.9 - - + +
278C PHE* 4.7 9.6 - - + -
299C ILE* 4.4 14.8 - - + -
505C SMA 3.7 38.4 - - + +
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Residues in contact with ALA 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C THR* 3.0 17.8 + - + +
123C LEU* 3.7 9.9 - - + +
125C ILE* 1.3 76.7 - - - +
127C THR* 1.3 62.1 + - - +
129C PHE* 3.4 7.4 + - - +
130C LEU* 3.1 34.1 + - + +
186C VAL* 5.7 3.6 - - + -
505C SMA 3.8 34.1 - - + -
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Residues in contact with THR 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C LEU 2.8 23.5 + - - -
124C THR* 3.2 5.8 + - - -
126C ALA* 1.3 76.3 - - - +
128C ALA* 1.3 61.8 + - - +
130C LEU* 3.3 8.9 + - - +
131C GLY 3.1 6.1 + - - -
183C HIS* 2.9 35.2 + - + +
186C VAL* 3.1 22.8 - - + +
187C PRO* 3.8 16.6 - - + -
190C ILE* 3.3 10.3 - - - +
401C HEM 3.7 33.9 - - + -
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Residues in contact with ALA 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ALA* 5.3 0.2 - - + -
90C PHE* 3.8 25.6 - - + -
124C THR 3.0 15.4 + - - +
125C ILE 3.9 3.8 - - - +
127C THR* 1.3 74.4 - - - +
129C PHE* 1.3 60.4 + - - +
131C GLY 3.3 0.5 + - - -
132C TYR* 2.9 30.4 + - - +
272C GLU* 5.5 0.7 - - - -
274C TYR* 3.9 18.3 + - + +
401C HEM 3.6 29.0 - - + +
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Residues in contact with PHE 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C ILE 3.2 14.5 + - - +
126C ALA 3.7 10.5 - - - +
128C ALA* 1.3 76.3 - - - +
130C LEU* 1.3 77.4 + - + +
132C TYR* 3.3 8.9 + + + +
133C CYS* 3.1 54.0 + - - -
143C GLY* 3.9 2.2 - - - -
144C ALA* 3.8 18.2 - - - -
147C ILE* 3.5 38.6 - - + -
148C THR* 4.8 1.8 - - + -
179C PHE* 3.9 15.7 - + - -
272C GLU* 4.9 7.6 - - - +
275C LEU* 5.5 3.8 - - + -
505C SMA 3.6 50.5 - - + -
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Residues in contact with LEU 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ALA* 3.1 22.1 + - + +
127C THR* 3.5 7.4 - - - +
129C PHE* 1.3 88.9 - - + +
131C GLY* 1.3 63.3 + - - +
133C CYS* 3.4 14.7 + - - +
134C CYS* 3.4 16.5 + - - -
179C PHE* 3.7 41.3 - - + +
182C LEU* 3.9 30.1 - - + +
183C HIS* 3.8 15.7 - - + -
186C VAL* 4.3 13.7 - - + -
505C SMA 4.1 18.8 - - + -
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Residues in contact with GLY 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C THR 3.1 10.7 + - - -
128C ALA 3.3 1.8 + - - -
129C PHE 3.2 0.2 - - - -
130C LEU* 1.3 73.1 - - - +
132C TYR* 1.3 67.7 + - - +
134C CYS* 2.9 20.4 + - - +
135C VAL 3.8 1.7 + - - -
183C HIS* 3.3 28.9 + - - -
401C HEM 3.5 25.2 - - - +
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Residues in contact with TYR 132 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C ALA 2.9 17.0 + - - +
129C PHE* 3.6 7.4 - + + +
131C GLY* 1.3 75.7 - - - +
133C CYS* 1.3 55.2 + - - +
134C CYS 3.3 0.7 + - - -
135C VAL* 3.6 9.2 + - - +
139C MET* 3.4 46.0 - - + +
140C SER* 2.6 28.6 + - - -
143C GLY* 5.9 2.0 - - - -
252C GLY* 5.8 0.2 - - - -
253C HIS* 4.0 16.4 + - - +
256C ASN* 3.4 23.2 + - + +
270C VAL 5.5 1.4 + - - -
272C GLU* 3.4 49.5 + - + +
274C TYR* 5.2 0.9 - - - +
401C HEM 3.7 33.5 - - + -
505C SMA 5.0 0.9 - - - -
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Residues in contact with CYS 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C PHE* 3.1 58.0 + - - -
130C LEU 3.6 8.1 - - - +
131C GLY 3.2 0.2 - - - -
132C TYR* 1.3 77.0 - - - +
134C CYS* 1.3 62.8 + - - +
135C VAL 3.3 0.4 - - - -
136C TYR* 3.2 15.9 + - - +
140C SER* 3.8 12.9 - - - +
143C GLY* 4.9 0.4 - - - -
144C ALA* 3.7 23.1 - - + -
176C ILE* 3.7 19.5 - - + +
179C PHE* 3.9 18.6 - - + -
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Residues in contact with CYS 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C TYR* 2.7 40.2 + - + +
61C ALA* 3.7 7.3 - - - +
130C LEU 3.4 17.5 - - - -
131C GLY* 2.9 15.6 + - - +
133C CYS* 1.3 75.0 - - - +
135C VAL* 1.3 62.1 + - - +
136C TYR* 3.1 2.4 + - - -
176C ILE* 4.7 6.3 - - - -
179C PHE* 4.3 2.0 - - - -
180C PHE* 3.6 46.9 - - - -
183C HIS* 4.5 4.0 - - - -
401C HEM 4.3 12.8 - - + -
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Residues in contact with VAL 135 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C PHE* 3.3 28.5 + - + -
65C VAL* 4.4 14.1 - - + +
79C ARG* 4.3 12.8 - - - +
131C GLY 4.2 0.4 - - - +
132C TYR 3.6 10.3 - - - +
134C CYS* 1.3 77.7 - - - +
136C TYR* 1.3 65.7 + - - +
137C GLY 3.9 6.1 - - - +
140C SER* 3.6 8.5 - - - +
256C ASN* 3.9 28.9 - - + +
401C HEM 3.3 48.9 + - + +
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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