Contacts of the helix formed by residues 118 - 148 (chain D) in PDB entry 7CR3
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 TYR 118 (chain D).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
288A TRP* 3.6 38.6 + + + +
112D PHE* 4.0 37.7 - + + +
115D ILE* 3.5 34.6 + - + -
116D LYS 3.6 0.2 - - - -
117D GLU* 1.3 94.5 + - + +
119D GLU* 1.3 62.3 + - - +
120D LYS 3.2 2.4 + - - -
121D SER* 3.6 7.9 + - - +
122D SER* 3.0 23.3 + - - -
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Residues in contact with GLU 119 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113D SER* 3.5 18.4 - - - +
114D THR* 5.0 2.2 - - - +
115D ILE 3.4 12.1 + - - +
116D LYS* 3.4 42.5 + - - +
117D GLU 3.0 3.0 + - - +
118D TYR* 1.3 77.4 - - - +
120D LYS* 1.3 77.4 + - - +
122D SER* 2.5 23.4 + - - +
123D GLU* 3.0 17.2 + - + +
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Residues in contact with LYS 120 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116D LYS 5.8 0.4 - - - -
117D GLU 4.6 8.7 - - - +
118D TYR 3.2 1.0 - - - -
119D GLU* 1.3 92.4 - - + +
121D SER* 1.3 63.4 + - - +
123D GLU* 2.9 33.9 + - - +
124D GLY* 3.0 10.4 + - - -
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Residues in contact with SER 121 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118D TYR* 3.6 9.8 + - - -
120D LYS* 1.3 78.6 - - - +
122D SER* 1.3 65.8 + - - +
124D GLY* 3.3 2.5 + - - +
125D ALA* 3.1 22.2 + - - +
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Residues in contact with SER 122 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109D LEU* 4.3 16.1 - - - +
112D PHE* 3.9 9.2 - - - -
113D SER* 3.2 38.5 + - - -
118D TYR* 3.0 17.7 + - - -
119D GLU* 2.5 22.3 + - - +
121D SER* 1.3 78.0 - - - +
123D GLU* 1.3 62.9 + - - +
125D ALA* 3.2 2.6 + - - +
126D LEU* 2.8 30.0 + - - +
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Residues in contact with GLU 123 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113D SER* 6.1 0.9 - - - -
119D GLU* 3.1 20.6 - - + +
120D LYS* 2.9 30.0 + - - +
122D SER* 1.3 83.2 + - - +
124D GLY* 1.3 75.9 + - - +
126D LEU* 3.0 21.1 + - + -
127D TYR* 3.1 44.6 + - + +
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Residues in contact with GLY 124 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120D LYS 3.0 15.9 + - - -
121D SER* 3.3 6.0 + - - -
122D SER 3.2 0.4 - - - -
123D GLU* 1.3 86.3 - - - +
125D ALA* 1.3 55.4 + - - +
127D TYR* 5.2 1.9 - - - +
128D ILE* 3.9 22.5 + - - +
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Residues in contact with ALA 125 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109D LEU* 4.2 21.8 - - + -
121D SER* 3.1 15.6 + - - +
122D SER 4.0 2.0 - - - +
124D GLY* 1.3 75.4 - - - +
126D LEU* 1.3 59.7 + - - +
127D TYR 3.5 0.2 - - - -
128D ILE* 3.6 5.9 + - - +
129D LEU* 3.0 33.1 + - + +
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Residues in contact with LEU 126 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106D CYS* 4.3 32.5 - - - +
109D LEU* 4.5 11.2 - - + +
110D SER* 4.1 26.5 - - - +
113D SER* 4.3 15.9 - - - +
122D SER 2.8 17.3 + - - +
123D GLU* 3.0 10.5 + - + +
125D ALA* 1.3 73.9 - - - +
127D TYR* 1.3 72.7 + - + +
129D LEU* 4.9 2.0 - - + -
130D GLU* 2.8 34.6 + - + +
197D LEU* 5.5 6.1 - - + -
200D LEU* 4.7 17.7 - - + -
204D GLN* 4.5 4.5 - - - +
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Residues in contact with TYR 127 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123D GLU* 3.1 41.7 + - + +
124D GLY* 5.2 2.0 - - - +
126D LEU* 1.3 81.4 - - + +
128D ILE* 1.3 66.5 + - + +
130D GLU* 3.7 5.3 - - + +
131D ILE* 3.1 30.1 + - + +
183D LEU* 5.3 17.7 - - + -
197D LEU* 6.4 1.6 - - + -
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Residues in contact with ILE 128 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124D GLY 3.9 17.0 + - - +
125D ALA* 3.6 7.7 + - - +
126D LEU 3.3 0.8 - - - -
127D TYR* 1.3 78.9 - - + +
129D LEU* 1.3 64.4 + - - +
131D ILE* 3.0 11.3 + - - +
132D VAL* 3.0 32.9 + - + +
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Residues in contact with LEU 129 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102D LEU* 4.0 31.4 - - + +
105D SER* 4.8 11.0 - - - -
106D CYS* 3.8 32.5 - - + -
109D LEU* 4.1 21.3 - - + -
125D ALA* 3.0 19.5 + - + +
126D LEU* 4.3 2.5 - - + +
128D ILE* 1.3 78.3 - - - +
130D GLU* 1.3 57.3 + - - +
132D VAL* 3.2 11.0 + - + +
133D THR* 2.9 26.0 + - + +
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Residues in contact with GLU 130 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106D CYS* 5.3 6.7 - - - -
126D LEU* 2.8 29.2 + - + +
127D TYR* 3.7 4.8 - - + +
129D LEU* 1.3 75.2 - - - +
131D ILE* 1.3 86.8 + - - +
133D THR* 3.1 13.7 - - + +
134D ILE* 3.0 31.8 + - + +
179D SER* 4.0 21.1 - - - +
183D LEU* 3.4 27.4 - - - +
200D LEU* 5.3 13.9 - - + +
204D GLN* 5.9 0.9 - - - +
207D ARG* 5.2 8.7 + - - +
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Residues in contact with ILE 131 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127D TYR* 3.1 16.5 + - + +
128D ILE* 3.0 10.4 + - - +
130D GLU* 1.3 89.3 + - - +
132D VAL* 1.3 65.3 + - + +
134D ILE* 3.2 11.4 - - + +
135D VAL* 3.0 33.6 + - + +
183D LEU* 4.5 18.6 - - + -
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Residues in contact with VAL 132 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102D LEU* 4.8 13.9 - - + -
128D ILE* 3.0 26.8 + - + +
129D LEU* 3.2 16.8 + - + +
131D ILE* 1.3 77.3 - - + +
133D THR* 1.3 58.0 + - - +
135D VAL* 3.3 7.9 + - + +
136D VAL* 3.0 38.8 + - + +
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Residues in contact with THR 133 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102D LEU* 3.7 30.0 - - - +
103D VAL* 4.8 5.6 - - + +
106D CYS* 4.9 10.1 - - - -
129D LEU* 2.9 19.3 + - + +
130D GLU* 3.1 25.4 - - + +
132D VAL* 1.3 76.7 - - - +
134D ILE* 1.3 58.3 + - + +
136D VAL* 3.5 0.7 + - - +
137D PHE* 2.9 54.0 + - - -
207D ARG* 4.8 12.1 - - - +
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Residues in contact with ILE 134 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130D GLU* 3.0 28.9 + - - +
131D ILE* 3.2 28.0 - - + +
133D THR* 1.3 76.6 - - + +
135D VAL* 1.3 64.5 + - + +
137D PHE* 4.4 7.2 - - + -
138D GLY* 2.8 25.6 + - - -
175D VAL* 4.7 0.9 - - + +
176D LEU* 3.7 35.9 - - + +
179D SER* 3.1 28.3 - - - +
180D ILE* 4.3 19.7 - - + -
207D ARG* 5.7 5.4 - - - +
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Residues in contact with VAL 135 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131D ILE* 3.0 32.6 + - + +
132D VAL* 3.6 6.1 - - + +
134D ILE* 1.3 79.8 - - + +
136D VAL* 1.3 66.0 + - + +
138D GLY* 3.2 1.9 + - - -
139D VAL* 3.0 37.2 + - + +
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Residues in contact with VAL 136 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95D TYR* 5.7 7.0 - - + +
99D VAL* 4.3 25.4 - - + -
102D LEU* 4.4 13.7 - - + -
132D VAL* 3.0 26.9 + - + +
133D THR* 3.8 6.3 - - - +
134D ILE 3.3 0.2 - - - -
135D VAL* 1.3 79.9 - - + +
137D PHE* 1.3 60.7 + - + +
139D VAL* 3.2 11.3 - - + +
140D GLU* 2.9 31.8 + - + +
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Residues in contact with PHE 137 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99D VAL* 3.6 27.4 - - + -
103D VAL* 4.2 21.3 - - + -
133D THR* 2.9 39.3 + - - +
134D ILE* 3.9 8.3 - - + +
136D VAL* 1.3 79.2 - - + +
138D GLY* 1.3 57.7 - - - +
140D GLU* 3.5 20.4 - - - +
141D TYR* 2.9 31.2 + - - +
175D VAL* 6.0 6.1 - - + -
176D LEU* 3.5 20.6 - - + +
207D ARG* 4.2 35.4 - - + -
210D ARG* 5.4 10.8 - - - -
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Residues in contact with GLY 138 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134D ILE 2.8 18.6 + - - -
135D VAL* 3.2 2.0 + - - -
137D PHE* 1.3 77.6 - - - +
139D VAL* 1.3 62.1 + - - +
141D TYR* 3.4 2.8 + - - +
142D PHE* 3.0 24.3 + - - +
176D LEU* 4.0 14.1 - - - +
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Residues in contact with VAL 139 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135D VAL* 3.0 30.1 + - + +
136D VAL* 3.2 18.8 - - + +
138D GLY* 1.3 75.7 - - - +
140D GLU* 1.3 56.9 + - - +
142D PHE* 4.6 4.3 - - - -
143D VAL* 2.9 44.2 + - + +
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Residues in contact with GLU 140 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85D LEU* 3.8 6.9 - - + +
95D TYR* 3.7 25.0 + - - +
99D VAL* 5.0 4.7 - - - +
136D VAL* 2.9 19.0 + - + +
137D PHE* 3.5 30.8 - - - +
139D VAL* 1.3 78.2 - - + +
141D TYR* 1.3 58.7 + - - +
143D VAL* 3.4 8.6 - - - +
144D ARG* 2.5 62.1 + - - +
210D ARG* 2.7 27.3 + - - -
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Residues in contact with TYR 141 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137D PHE 2.9 18.9 + - - +
138D GLY 3.7 3.8 - - - +
140D GLU* 1.3 78.6 - - - +
142D PHE* 1.3 70.4 + + + +
144D ARG* 3.2 17.3 + - - +
145D ILE* 3.0 47.3 + - + +
164D ALA* 4.6 13.3 + - - +
169D CYS* 3.5 44.9 + - + +
172D ASP* 4.1 20.6 - - + +
173D ILE* 3.5 40.1 - - + +
176D LEU* 4.1 11.2 - - + -
210D ARG* 5.9 1.1 - - - +
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Residues in contact with PHE 142 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138D GLY 3.0 17.0 + - - +
139D VAL* 4.0 5.4 - - - +
141D TYR* 1.3 85.3 - + + +
143D VAL* 1.3 64.4 + - + +
145D ILE* 3.2 14.6 + - + +
146D TRP* 2.9 36.1 + + + +
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Residues in contact with VAL 143 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81D LEU* 4.6 18.6 - - + -
85D LEU* 4.5 15.5 - - + -
139D VAL* 2.9 31.9 + - + +
140D GLU* 3.4 11.2 - - - +
142D PHE* 1.3 77.4 - - + +
144D ARG* 1.3 63.0 + - - +
145D ILE 3.3 0.2 - - - -
146D TRP* 3.6 13.2 - - + +
147D ALA* 2.7 31.7 + - - +
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Residues in contact with ARG 144 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85D LEU* 4.1 26.0 + - + +
86D GLU* 2.9 35.5 + - + +
140D GLU* 2.5 58.4 + - - +
141D TYR* 3.2 15.1 + - - +
143D VAL* 1.3 75.6 - - - +
145D ILE* 1.3 66.6 + - - +
147D ALA* 3.3 5.5 + - - +
148D ALA* 3.0 23.6 + - - +
163D PHE* 4.0 16.8 - - + -
169D CYS* 4.5 15.0 - - - -
172D ASP* 5.1 0.8 + - - -
210D ARG* 3.0 14.6 - - - +
213D ARG* 3.3 30.1 - - - +
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Residues in contact with ILE 145 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141D TYR* 3.0 46.0 + - + +
142D PHE* 3.4 16.2 - - + +
144D ARG* 1.3 77.0 - - + +
146D TRP* 1.3 63.6 + - - +
148D ALA* 3.4 11.1 + - - +
160D ARG* 3.2 45.2 + - + +
163D PHE* 3.5 29.4 - - + -
164D ALA* 5.0 11.2 - - + +
169D CYS* 4.9 4.5 - - - -
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Residues in contact with TRP 146 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74D TYR* 3.1 51.6 + + - -
77D LEU* 4.7 8.1 - - + -
78D GLN* 2.3 81.2 + - + -
81D LEU* 5.3 8.1 - - + -
142D PHE* 2.9 25.1 + + + +
143D VAL* 3.6 15.3 - - + +
144D ARG 3.2 0.2 - - - -
145D ILE* 1.3 78.1 - - - +
147D ALA* 1.3 57.2 + - + +
160D ARG* 2.4 27.6 + - - +
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Residues in contact with ALA 147 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78D GLN* 3.8 13.1 - - + +
81D LEU* 3.7 16.6 - - + -
82D TYR* 3.2 47.3 - - - +
85D LEU* 5.7 2.0 - - + -
143D VAL 2.7 20.7 + - - +
144D ARG* 3.3 5.8 + - - +
146D TRP* 1.3 71.8 - - + +
148D ALA* 1.3 57.2 + - - +
149D GLY 3.0 11.1 + - - -
150D CYS 3.5 5.7 + - - -
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Residues in contact with ALA 148 (chain D).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82D TYR* 4.7 9.0 - - - -
144D ARG 3.0 11.5 + - - +
145D ILE 3.6 14.1 - - - +
146D TRP 3.3 1.4 - - - -
147D ALA* 1.3 76.5 - - - +
149D GLY* 1.3 57.3 + - - +
150D CYS 3.3 1.1 - - - -
151D CYS* 3.1 19.8 + - - +
154D TYR* 2.9 28.9 - - + +
160D ARG* 5.1 3.4 - - + +
163D PHE* 3.7 30.7 - - + -
----------------------------------------------------------
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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