Contacts of the helix formed by residues 134 - 155 (chain A) in PDB entry 2WQN
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 PRO 134 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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126A PHE* 4.0 8.1 - - + -
131A ARG* 3.6 21.3 - - - +
132A LEU 3.4 7.6 - - - +
133A ILE* 1.3 90.5 - - + +
135A GLU* 1.3 67.1 + - - +
136A ARG* 4.4 21.1 - - - +
137A THR* 2.9 31.5 + - - +
138A VAL* 3.0 10.4 + - - +
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Residues in contact with GLU 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A ILE 3.5 1.6 + - - -
134A PRO* 1.3 70.9 - - - +
136A ARG* 1.3 63.1 + - - +
138A VAL* 3.1 6.2 + - - +
139A TRP* 2.9 51.5 + - + +
262A HIS 3.5 14.0 + - - +
263A TYR* 3.1 20.8 - - + -
264A SER* 2.6 52.8 + - - -
267A LEU* 4.0 10.7 - - + +
295A MET* 5.1 1.7 - - - +
299A THR* 4.8 9.9 - - + +
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Residues in contact with ARG 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A PRO* 4.5 20.8 - - + +
135A GLU* 1.3 79.8 - - - +
137A THR* 1.3 56.6 + - - +
139A TRP* 3.6 2.9 + - - +
140A LYS* 3.1 24.8 + - - +
296A HIS* 4.9 2.3 + - - -
299A THR* 3.2 47.1 + - - +
300A ALA* 4.7 7.0 - - + +
1304A SO4 3.1 37.9 + - - +
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Residues in contact with THR 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122A MET* 5.2 2.2 - - - -
126A PHE* 5.0 8.2 - - + -
133A ILE* 3.7 18.2 - - + -
134A PRO* 2.9 26.4 + - + +
136A ARG* 1.3 75.6 + - - +
138A VAL* 1.3 66.3 + - - +
140A LYS* 3.3 11.5 + - - +
141A TYR* 3.2 41.6 - - + -
1304A SO4 2.7 24.9 + - - +
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Residues in contact with VAL 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133A ILE* 3.6 25.3 - - + +
134A PRO 3.0 18.6 + - - +
135A GLU* 3.3 13.2 - - - +
137A THR* 1.3 78.2 - - - +
139A TRP* 1.3 58.3 + - + +
141A TYR 3.4 0.2 + - - -
142A PHE* 2.9 26.5 + - - +
226A LEU* 3.6 31.4 - - + +
229A MET* 3.7 37.7 - - + +
230A ALA* 4.9 0.7 - - - +
263A TYR* 4.2 9.4 - - + -
267A LEU* 4.0 10.1 - - + -
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Residues in contact with TRP 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135A GLU* 2.9 54.0 + - + +
136A ARG 4.0 4.0 - - - +
138A VAL* 1.3 75.5 - - + +
140A LYS* 1.3 66.7 + - - +
142A PHE* 3.8 28.0 - + + -
143A VAL* 2.9 29.3 + - - +
226A LEU* 4.7 4.9 - - + -
267A LEU* 3.7 41.3 - - + -
270A LEU* 3.8 21.3 - - + -
291A VAL* 4.4 4.0 - - + -
292A ALA* 3.8 27.4 - - + -
295A MET* 3.3 35.8 - - + +
296A HIS* 4.0 19.3 - - + -
299A THR* 4.0 13.2 - - + +
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Residues in contact with LYS 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136A ARG 3.1 14.5 + - - +
137A THR* 3.3 10.1 + - - +
139A TRP* 1.3 77.9 - - - +
141A TYR* 1.3 96.8 + - - +
143A VAL* 3.5 11.1 - - - +
144A GLN* 3.1 25.4 + - - +
296A HIS* 3.6 25.6 + - + -
1304A SO4 2.8 39.4 + - - +
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Residues in contact with TYR 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119A LEU* 5.3 4.7 - - + -
122A MET* 3.5 38.0 - - + +
137A THR* 3.2 35.4 + - + -
139A TRP 3.1 0.4 - - - -
140A LYS* 1.3 111.6 + - - +
142A PHE* 1.3 65.1 + - - +
143A VAL 3.3 0.4 - - - -
144A GLN* 3.2 14.7 + - - +
145A LEU* 3.1 17.2 + - - +
169A ILE* 4.6 7.2 - - + +
173A GLY* 3.2 39.7 - - - -
175A VAL* 3.6 20.2 - - + +
229A MET* 3.9 18.4 - - + -
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Residues in contact with PHE 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138A VAL* 2.9 20.6 + - + +
139A TRP* 3.8 23.3 - + - +
141A TYR* 1.3 78.1 - - - +
143A VAL* 1.3 56.0 + - - +
145A LEU* 3.0 17.5 + - + +
146A CYS* 2.9 49.8 + - - -
222A LEU* 3.7 44.4 - - + -
223A GLY* 5.7 0.4 - - - -
225A LEU* 4.5 7.2 - - + -
226A LEU* 3.8 35.9 - - + -
229A MET* 4.7 5.5 - - - +
270A LEU* 3.9 22.7 - - + -
274A CYS* 5.9 1.3 - - - -
288A VAL* 4.0 6.3 - - + -
292A ALA* 4.1 3.1 - - + -
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Residues in contact with VAL 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139A TRP 2.9 21.9 + - - +
140A LYS 3.5 13.0 - - - +
142A PHE* 1.3 76.8 - - - +
144A GLN* 1.3 64.7 + - + +
146A CYS* 3.4 0.9 + - - +
147A SER* 3.0 22.7 + - - -
289A TYR* 3.4 10.1 - - + -
292A ALA* 3.8 22.0 - - + +
293A LYS* 3.7 41.7 - - + +
296A HIS* 4.0 21.5 - - + +
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Residues in contact with GLN 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93A ASN* 3.3 26.5 + - - +
140A LYS* 3.1 27.0 + - - +
141A TYR* 3.5 15.9 - - - +
142A PHE 3.2 0.6 - - - -
143A VAL* 1.3 83.4 - - + +
145A LEU* 1.3 67.3 + - - +
147A SER* 3.2 8.8 + - - -
148A ALA 3.0 18.7 + - - -
173A GLY 3.4 17.2 + - - -
174A VAL* 3.4 8.9 - - - +
175A VAL* 2.8 38.9 + - + -
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Residues in contact with LEU 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119A LEU* 5.4 0.4 - - + -
141A TYR 3.1 11.1 + - - +
142A PHE* 3.0 15.8 + - + +
144A GLN* 1.3 77.4 - - - +
146A CYS* 1.3 56.2 + - - +
148A ALA* 3.4 4.8 - - - +
149A LEU* 3.0 25.6 + - + +
162A ILE* 5.0 4.7 - - + -
167A VAL* 4.3 14.1 - - + -
175A VAL* 4.1 13.7 - - + +
177A LEU* 3.8 37.2 - - + -
222A LEU* 3.7 24.2 - - + -
225A LEU* 3.6 42.8 - - + -
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Residues in contact with CYS 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A PHE* 2.9 52.4 + - - +
143A VAL* 3.6 4.9 - - - +
145A LEU* 1.3 72.9 - - - +
147A SER* 1.3 61.3 + - - +
149A LEU* 3.2 5.1 + - - +
150A GLU* 2.8 32.4 + - - +
222A LEU* 4.2 6.7 - - - -
285A VAL* 4.2 5.0 - - + +
288A VAL* 3.8 17.7 - - - -
289A TYR* 3.3 28.7 - - + -
292A ALA* 4.0 7.2 - - - -
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Residues in contact with SER 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91A HIS* 3.2 22.0 + - - -
93A ASN* 3.8 10.9 + - - -
143A VAL 3.0 11.9 + - - -
144A GLN* 3.3 12.1 - - - -
146A CYS* 1.3 77.8 - - - +
148A ALA* 1.3 64.4 + - - +
150A GLU* 3.8 2.6 - - - +
151A HIS* 3.1 22.9 + - - +
289A TYR* 2.9 33.9 + - - -
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Residues in contact with ALA 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91A HIS* 3.9 7.0 - - - -
93A ASN* 3.3 27.8 - - + +
94A VAL* 3.6 16.0 - - + +
144A GLN 3.0 11.9 + - - +
145A LEU* 3.4 11.9 - - - +
147A SER* 1.3 77.0 - - - +
149A LEU* 1.3 59.9 + - - +
151A HIS* 3.3 4.9 + - - +
152A MET* 3.2 25.3 + - - +
175A VAL* 5.3 0.2 - - + -
177A LEU* 3.9 15.3 - - + -
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Residues in contact with LEU 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145A LEU* 3.0 17.2 + - + +
146A CYS* 3.2 4.5 + - - +
148A ALA* 1.3 75.4 - - - +
150A GLU* 1.3 60.3 + - - +
152A MET* 3.3 7.7 + - + +
153A HIS* 2.9 59.3 + - + +
159A HIS* 4.1 11.2 - - + -
162A ILE* 4.0 20.4 - - + -
177A LEU* 4.5 8.7 - - + -
218A ASP* 3.6 23.1 - - + +
219A ILE* 4.5 2.9 - - + -
222A LEU* 3.9 21.8 - - + -
285A VAL* 3.9 19.7 - - + -
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Residues in contact with GLU 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146A CYS 2.8 16.3 + - - +
147A SER 3.8 3.8 - - - +
149A LEU* 1.3 74.6 - - - +
151A HIS* 1.3 61.8 + - - +
154A SER* 2.8 38.2 + - - -
285A VAL* 3.6 26.6 - - + +
286A THR* 3.3 27.7 + - - +
289A TYR* 3.9 31.7 - - + -
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Residues in contact with HIS 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89A LEU* 4.0 14.6 - - + -
90A ASN 3.1 40.8 + - - -
91A HIS* 3.5 41.0 - - + -
94A VAL* 4.6 6.3 - - + -
147A SER 3.1 6.5 + - - +
148A ALA 3.4 9.6 - - - +
150A GLU* 1.3 80.6 + - - +
152A MET* 1.3 64.5 + - + +
154A SER* 2.8 24.8 + - - -
155A ARG* 3.1 47.1 + - - +
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Residues in contact with MET 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89A LEU* 4.1 29.6 - - + -
94A VAL* 4.3 13.7 - - + -
148A ALA 3.2 11.7 + - - +
149A LEU* 3.3 9.2 + - + +
151A HIS* 1.3 80.3 - - + +
153A HIS* 1.3 64.3 + - + +
155A ARG* 3.0 10.4 + - - +
157A VAL* 2.9 53.5 + - + +
158A MET 4.0 0.4 - - - +
159A HIS* 3.6 52.5 - - + +
177A LEU* 3.8 15.9 - - - -
180A LEU* 4.2 10.1 - - + -
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Residues in contact with HIS 153 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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149A LEU* 2.9 39.9 + - + +
152A MET* 1.3 72.1 - - - +
154A SER* 1.3 60.8 + - - +
156A ARG* 2.8 39.1 + - - +
157A VAL 3.7 11.9 - - - -
215A PHE* 3.6 53.3 - + + +
218A ASP* 2.9 29.4 + - + -
219A ILE* 4.4 4.7 - - + -
285A VAL* 3.7 30.6 + - + +
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Residues in contact with SER 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A GLU* 2.8 27.4 + - - +
151A HIS* 2.8 21.2 + - - -
153A HIS* 1.3 73.1 - - - +
155A ARG* 1.3 65.8 + - - +
156A ARG* 3.2 10.4 + - - +
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Residues in contact with ARG 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88A GLN* 3.1 38.5 + - - +
89A LEU* 4.0 22.1 - - + +
90A ASN* 4.4 9.3 + - - +
151A HIS* 3.2 41.0 + - - +
152A MET 3.0 8.9 + - - +
154A SER* 1.3 82.9 + - - +
156A ARG* 1.3 71.8 + - - +
157A VAL* 3.2 9.1 + - + +
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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
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Atomic class I II III IV V VI VII VIII
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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