Contacts of the helix formed by residues 134 - 157 (chain Q) in PDB entry 1H2I
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 134 (chain Q).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103Q PHE* 3.8 1.3 - - - -
132Q LEU* 3.3 2.7 - - - +
133Q LYS* 1.3 78.2 - - - +
135Q LYS* 1.3 63.5 + - - +
136Q ALA 3.7 0.2 + - - -
137Q LEU* 3.2 38.7 + - - +
138Q SER* 3.0 26.2 + - - -
130R GLU* 3.0 25.9 + - - -
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Residues in contact with LYS 135 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96Q VAL* 4.3 15.0 - - + -
103Q PHE* 3.5 48.4 - - + -
105Q VAL* 6.4 0.2 - - + -
133Q LYS 3.7 0.2 + - - -
134Q SER* 1.3 72.0 + - - +
136Q ALA* 1.3 65.5 + - - +
138Q SER* 3.0 4.1 + - - -
139Q LEU* 2.9 33.3 + - + +
95R PHE* 3.7 37.8 - - + +
97R ASP* 2.9 34.6 + - - +
130R GLU* 5.0 1.2 + - - -
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Residues in contact with ALA 136 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134Q SER* 3.7 0.4 + - - +
135Q LYS* 1.3 79.8 - - - +
137Q LEU* 1.3 58.5 + - + +
139Q LEU* 3.8 2.0 - - - +
140Q GLU* 2.9 31.3 + - - +
95R PHE* 3.5 24.9 - - + -
105R VAL 4.6 2.2 - - - +
126R TYR* 3.8 8.6 - - + -
128R VAL* 3.7 37.0 - - + -
130R GLU* 3.9 13.9 + - + +
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Residues in contact with LEU 137 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132Q LEU* 4.1 17.2 - - + +
134Q SER* 3.2 29.6 + - - +
135Q LYS 3.3 0.2 - - - -
136Q ALA* 1.3 84.3 - - + +
138Q SER* 1.3 57.7 + - - +
140Q GLU* 3.6 22.0 - - - +
141Q LYS* 3.1 28.2 + - - +
128R VAL* 4.9 7.6 - - + -
130R GLU* 4.1 13.7 - - - +
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Residues in contact with SER 138 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103Q PHE* 3.8 16.3 + - - +
105Q VAL* 3.8 22.0 - - - -
129Q SER* 3.2 30.5 + - - -
132Q LEU* 3.4 15.6 - - - +
134Q SER 3.0 21.5 + - - -
135Q LYS* 3.0 5.5 + - - -
137Q LEU* 1.3 75.2 - - - +
139Q LEU* 1.3 64.5 + - - +
141Q LYS 3.3 0.9 + - - -
142Q ALA* 3.0 21.1 + - - +
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Residues in contact with LEU 139 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93Q VAL* 4.5 17.7 - - + -
96Q VAL* 4.0 21.5 - - + -
105Q VAL* 3.6 26.5 - - + -
107Q VAL* 4.7 2.5 - - + -
135Q LYS* 2.9 27.4 + - + +
136Q ALA 3.8 1.1 - - - +
138Q SER* 1.3 76.0 - - - +
140Q GLU* 1.3 58.9 + - - +
142Q ALA* 3.3 1.4 + - - +
143Q ARG* 2.8 38.1 + - + +
94R ASP* 3.5 24.0 - - + +
95R PHE* 4.0 24.9 - - + -
126R TYR* 3.5 15.0 - - + +
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Residues in contact with GLU 140 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136Q ALA 2.9 16.1 + - - +
137Q LEU* 3.6 27.3 - - - +
139Q LEU* 1.3 77.3 - - - +
141Q LYS* 1.3 65.0 + - - +
143Q ARG* 4.1 0.8 - - - -
144Q LYS* 3.0 60.9 + - + +
126R TYR* 3.7 34.1 - - + +
128R VAL* 4.8 7.0 - - - +
149R ASP* 4.5 1.0 - - - +
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Residues in contact with LYS 141 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128Q VAL 2.6 27.5 + - - +
129Q SER* 4.0 13.7 - - - +
132Q LEU* 5.0 7.9 - - + -
137Q LEU 3.1 19.1 + - - +
138Q SER 3.8 3.8 - - - +
139Q LEU 3.3 0.2 - - - -
140Q GLU* 1.3 79.4 - - - +
142Q ALA* 1.3 63.6 + - - +
144Q LYS* 4.1 2.5 - - - +
145Q GLU* 2.9 59.3 + - + +
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Residues in contact with ALA 142 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105Q VAL* 3.9 15.3 - - + +
107Q VAL* 3.8 17.6 - - + +
127Q GLY* 3.3 34.5 - - - +
128Q VAL 4.1 5.8 - - - +
129Q SER 4.4 0.2 - - - +
138Q SER 3.0 17.0 + - - +
139Q LEU 3.9 0.9 - - - +
141Q LYS* 1.3 76.0 - - - +
143Q ARG* 1.3 67.1 + - - +
146Q ALA* 3.0 21.5 + - - +
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Residues in contact with ARG 143 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91Q GLN* 2.8 61.6 + - - +
93Q VAL* 3.5 27.6 - - - +
107Q VAL* 4.1 13.0 - - + -
139Q LEU* 2.8 26.5 + - + +
140Q GLU* 4.2 2.9 - - - +
142Q ALA* 1.3 73.7 - - - +
144Q LYS* 1.3 64.7 + - + +
146Q ALA 3.3 0.2 + - - -
147Q VAL* 3.3 11.4 + - - +
92R ASN* 4.9 3.8 + - - +
94R ASP* 2.6 45.1 + - - -
108R CYS* 3.3 26.4 - - - -
110R PHE* 4.5 5.9 - - - -
124R VAL* 4.1 10.8 - - + -
126R TYR* 3.8 22.7 - - + -
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Residues in contact with LYS 144 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140Q GLU* 3.0 49.0 + - + +
141Q LYS* 4.1 3.1 - - - +
143Q ARG* 1.3 78.4 - - + +
145Q GLU* 1.3 63.1 + - + +
147Q VAL* 3.3 4.9 + - - +
148Q THR* 3.2 23.7 + - - -
124R VAL* 4.1 14.6 - - + +
126R TYR* 4.0 11.7 - - + +
149R ASP* 2.7 34.8 + - - -
153R ARG* 3.5 41.3 + - - +
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Residues in contact with GLU 145 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126Q TYR 4.0 4.0 - - - +
127Q GLY* 4.1 8.3 - - - -
128Q VAL* 3.6 11.4 + - - +
141Q LYS* 2.9 63.7 + - + +
144Q LYS* 1.3 74.2 - - + +
146Q ALA* 1.3 61.7 + - - +
148Q THR* 4.0 5.1 - - - +
149Q ASP* 2.7 34.8 + - + +
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Residues in contact with ALA 146 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91Q GLN* 3.9 4.9 - - - +
107Q VAL* 3.5 13.7 - - + +
109Q ALA* 3.7 21.6 - - + +
125Q GLY* 3.5 8.1 - - - -
126Q TYR 3.6 13.9 - - - -
127Q GLY* 3.5 12.7 - - - +
142Q ALA 3.0 18.0 + - - +
143Q ARG 3.6 5.2 - - - +
144Q LYS 3.2 0.2 - - - -
145Q GLU* 1.3 77.5 - - - +
147Q VAL* 1.3 56.8 + - - +
150Q GLY* 2.9 25.5 + - - -
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Residues in contact with VAL 147 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86Q HIS* 5.1 6.5 - - + +
88Q ILE* 3.9 29.2 - - + -
91Q GLN* 3.6 11.4 - - - +
109Q ALA* 4.0 11.4 - - + -
111Q VAL* 3.7 6.3 - - + +
143Q ARG 3.3 4.7 + - - +
144Q LYS 3.3 6.7 + - - +
145Q GLU 3.2 0.8 - - - -
146Q ALA* 1.3 76.9 - - - +
148Q THR* 1.3 59.3 + - - +
150Q GLY* 3.0 2.4 + - - -
151Q LEU* 2.8 28.7 + - + +
122R GLU 4.6 3.8 - - - +
123R ASP* 3.6 26.0 - - - +
124R VAL* 3.3 28.3 - - + -
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Residues in contact with THR 148 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68Q GLY* 4.0 27.4 - - - +
72Q ILE* 6.5 1.1 - - + -
144Q LYS 3.2 14.2 + - - -
145Q GLU* 4.0 5.4 - - - -
147Q VAL* 1.3 78.9 - - - +
149Q ASP* 1.3 58.7 + - - +
151Q LEU* 3.4 10.4 + - + +
152Q LYS* 2.9 37.2 + - + +
123R ASP* 5.1 3.3 + - - -
153R ARG* 3.8 16.6 + - - -
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Residues in contact with ASP 149 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140P GLU* 5.3 0.2 - - - -
144P LYS* 2.6 34.9 + - - -
125Q GLY* 3.4 2.3 - - - -
126Q TYR 2.9 24.6 + - - +
145Q GLU* 2.7 23.6 + - + +
146Q ALA 3.7 3.6 - - - +
148Q THR* 1.3 74.3 - - - +
150Q GLY* 1.3 57.1 + - - +
152Q LYS* 3.3 21.1 + - - +
153Q ARG* 2.8 40.3 + - - +
156Q ARG* 5.0 4.2 + - - -
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Residues in contact with GLY 150 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111Q VAL* 3.8 16.2 - - - +
123Q ASP* 4.5 2.5 - - - +
124Q VAL 4.0 4.3 - - - -
125Q GLY* 3.4 22.6 - - - -
146Q ALA 2.9 12.0 + - - -
147Q VAL 3.5 3.1 - - - -
149Q ASP* 1.3 74.7 - - - +
151Q LEU* 1.3 58.9 + - - +
153Q ARG* 3.2 2.0 + - - +
154Q ALA* 2.8 32.1 + - - +
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Residues in contact with LEU 151 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71Q VAL* 5.6 0.9 - - + -
72Q ILE* 4.4 20.0 - - + -
84Q TRP* 3.8 17.3 - - + -
86Q HIS* 3.8 49.1 - - + +
111Q VAL* 3.8 14.1 - - + +
113Q VAL* 4.7 5.2 - - + -
147Q VAL* 2.8 20.1 + - + +
148Q THR* 3.7 9.2 - - + +
150Q GLY* 1.3 71.8 - - - +
152Q LYS* 1.3 64.9 + - + +
154Q ALA* 3.8 1.0 - - - +
155Q LEU* 3.0 48.6 + - + +
123R ASP* 6.2 0.2 - - - +
157R SER* 5.2 0.4 - - - +
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Residues in contact with LYS 152 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65Q TYR* 4.2 16.4 - - - +
66Q ILE* 2.9 33.1 + - + +
67Q GLU* 4.9 0.2 - - - +
68Q GLY* 4.1 13.5 - - - +
71Q VAL* 3.8 35.2 - - + -
148Q THR* 2.9 31.0 + - + +
149Q ASP* 3.6 20.6 + - - +
151Q LEU* 1.3 79.0 - - + +
153Q ARG* 1.3 64.5 + - - +
155Q LEU* 3.3 2.3 + - - +
156Q ARG* 3.1 44.3 + - - +
162Q LEU 4.8 1.4 - - - +
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Residues in contact with ARG 153 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144P LYS* 3.4 56.6 + - - +
148P THR* 3.8 18.0 + - - -
123Q ASP* 2.4 57.9 + - + +
124Q VAL* 2.9 22.0 + - - +
149Q ASP* 2.8 29.0 + - - +
150Q GLY 3.9 2.7 - - - +
152Q LYS* 1.3 71.6 - - - +
154Q ALA* 1.3 65.2 + - - +
156Q ARG* 3.2 44.5 + - - +
157Q SER* 3.9 4.9 + - - -
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Residues in contact with ALA 154 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111Q VAL* 3.7 14.4 - - + +
113Q VAL* 3.2 27.0 - - + +
121Q HIS* 3.7 15.6 - - - +
122Q GLU 4.8 1.3 - - - -
123Q ASP* 3.8 11.8 - - - +
150Q GLY 2.8 21.1 + - - +
151Q LEU* 3.8 5.2 - - - +
153Q ARG* 1.3 72.2 - - - +
155Q LEU* 1.3 64.8 + - - +
157Q SER* 3.1 25.1 + - - -
158Q PHE* 4.5 1.2 + - - -
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Residues in contact with LEU 155 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71Q VAL* 3.8 20.2 - - + -
72Q ILE* 5.9 0.2 - - - -
75Q ALA* 4.5 9.6 - - + -
79Q PHE* 4.9 5.2 - - + -
84Q TRP* 4.2 15.3 - - + -
113Q VAL* 3.5 28.9 - - + -
151Q LEU* 3.0 45.8 + - + +
152Q LYS 3.7 4.0 - - - +
154Q ALA* 1.3 75.0 - - - +
156Q ARG* 1.3 65.2 + - - +
157Q SER 2.9 1.4 + - - -
158Q PHE* 2.9 34.9 + - + +
162Q LEU* 3.6 32.9 - - + +
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Residues in contact with ARG 156 (chain Q).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72P ILE* 5.0 3.8 - - + -
65Q TYR* 6.2 2.6 - - - +
66Q ILE* 4.9 9.1 - - - +
71Q VAL* 6.1 1.0 - - - +
149Q ASP* 5.0 4.8 + - - -
152Q LYS* 3.1 38.5 + - - +
153Q ARG* 3.4 37.9 - - - +
154Q ALA 3.2 0.6 - - - -
155Q LEU* 1.3 75.6 - - - +
157Q SER* 1.3 63.0 + - - +
158Q PHE 3.0 1.9 + - - -
159Q GLY 3.0 11.8 + - - +
162Q LEU 3.8 12.2 + - - +
163Q GLY* 3.7 23.8 + - - +
164Q ASN* 3.4 30.3 - - - +
166Q ILE* 3.9 25.6 - - - +
167Q LEU* 4.2 15.3 - - - +
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Residues in contact with SER 157 (chain Q).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72P ILE* 3.4 22.9 - - - +
76P ASN* 2.9 24.9 + - - +
84P TRP* 3.8 9.2 - - - -
86P HIS* 3.5 18.3 - - - -
151P LEU* 5.2 0.9 - - - +
121Q HIS* 3.3 29.1 - - - -
123Q ASP* 5.2 2.4 + - - -
153Q ARG 4.0 5.4 + - - -
154Q ALA* 3.1 16.4 + - - -
155Q LEU 2.9 1.2 + - - -
156Q ARG* 1.3 78.7 - - - +
158Q PHE* 1.3 58.0 + - - +
159Q GLY 3.3 0.2 - - - -
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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