Contacts of the helix formed by residues 182 - 196 (chain A) in PDB entry 5LEZ
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 GLU 182 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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39A ALA* 3.6 1.6 - - - -
40A ALA* 5.5 1.9 - - - +
41A ASN* 3.0 35.7 + - - +
180A ASP 3.6 4.6 + - - +
181A LEU* 1.3 82.1 - - - +
183A LEU* 1.3 59.4 + - - +
184A GLU* 3.5 20.2 - - - +
185A ASP* 3.5 19.5 + - - +
186A ALA* 3.0 27.5 + - - +
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Residues in contact with LEU 183 (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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39A ALA* 3.7 7.9 - - + -
41A ASN* 2.9 28.6 + - - +
42A GLY* 4.0 4.5 - - - -
43A VAL* 3.7 37.9 - - - +
44A VAL* 4.3 3.8 - - + +
182A GLU* 1.3 71.8 + - - +
184A GLU* 1.3 69.5 + - + +
186A ALA* 3.1 4.5 + - + +
187A ILE* 2.9 39.9 + - + +
211A ILE* 4.4 22.4 - - + -
212A CYS 4.7 0.4 - - - +
213A ASN* 4.1 30.3 - - + +
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Residues in contact with GLU 184 (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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41A ASN* 4.8 10.2 + - - -
182A GLU* 3.5 18.9 - - - +
183A LEU* 1.3 78.7 - - + +
185A ASP* 1.3 63.7 + - - +
187A ILE* 3.6 3.8 + - + -
188A HIS* 3.4 17.0 + - - +
228A TYR* 3.6 33.9 - - + +
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Residues in contact with ASP 185 (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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181A LEU* 3.8 25.5 - - + +
182A GLU* 3.5 27.5 + - - +
183A LEU 3.2 0.2 - - - -
184A GLU* 1.3 79.0 - - - +
186A ALA* 1.3 59.0 + - - +
188A HIS* 3.2 9.9 + - - +
189A THR* 3.0 33.5 + - + +
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Residues in contact with ALA 186 (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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37A ILE* 3.6 26.6 - - + +
39A ALA* 4.1 13.2 - - + +
44A VAL* 3.5 12.4 - - + +
181A LEU* 4.0 7.1 - - + +
182A GLU 3.0 18.8 + - - +
183A LEU* 3.4 7.6 - - + +
185A ASP* 1.3 73.4 - - - +
187A ILE* 1.3 57.9 + - - +
189A THR* 4.1 8.1 - - - -
190A ALA* 2.9 30.5 + - - +
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Residues in contact with ILE 187 (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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44A VAL* 4.1 15.5 - - + -
183A LEU* 2.9 27.9 + - + +
184A GLU* 3.7 8.7 - - + +
185A ASP 3.3 0.2 - - - -
186A ALA* 1.3 71.7 - - - +
188A HIS* 1.3 66.5 + - - +
190A ALA* 3.4 2.4 + - - +
191A ILE* 3.1 34.7 + - + +
209A VAL* 4.6 6.1 - - + -
211A ILE* 3.8 32.5 - - + -
220A LEU* 4.4 13.2 - - + -
228A TYR* 3.5 51.8 - - + +
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Residues in contact with HIS 188 (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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184A GLU 3.4 9.2 + - - +
185A ASP* 3.2 13.2 + - - +
187A ILE* 1.3 79.6 - - - +
189A THR* 1.3 62.0 + - + +
191A ILE* 3.3 5.9 + - - +
192A LEU* 3.0 53.5 + - + +
228A TYR* 4.5 13.7 + - + -
231A ALA* 4.2 20.9 - - + +
232A ILE* 3.5 36.3 - - + +
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Residues in contact with THR 189 (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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37A ILE* 3.2 17.2 - - - +
172A PHE* 4.4 0.7 - - - -
173A LEU* 4.1 6.9 - - - +
176A ARG* 4.2 31.9 + - + +
177A TYR* 5.7 1.2 + - - -
181A LEU* 4.0 20.3 - - + +
185A ASP* 3.0 22.1 + - + +
186A ALA* 3.4 2.4 + - - -
187A ILE 3.3 0.2 - - - -
188A HIS* 1.3 76.5 - - + +
190A ALA* 1.3 55.7 + - - +
192A LEU* 3.6 10.1 - - - +
193A THR* 2.7 37.5 + - - -
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Residues in contact with ALA 190 (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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35A VAL* 4.1 16.3 - - + +
37A ILE* 3.5 11.0 - - + +
44A VAL* 3.8 25.6 - - + +
46A ALA* 4.4 11.2 - - + +
186A ALA 2.9 19.0 + - - +
187A ILE 3.6 4.9 - - - +
189A THR* 1.3 78.2 + - - +
191A ILE* 1.3 62.9 + - + +
193A THR* 3.3 4.9 + - - -
194A LEU* 3.2 24.2 + - - +
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Residues in contact with ILE 191 (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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46A ALA* 5.3 3.8 - - + -
187A ILE* 3.1 24.0 + - + +
188A HIS* 3.7 7.2 - - - +
190A ALA* 1.3 76.4 - - + +
192A LEU* 1.3 62.9 + - - +
194A LEU* 3.2 11.1 + - - +
195A LYS* 3.0 19.1 + - - +
202A MET* 3.9 12.2 - - - +
207A ILE* 4.0 22.2 - - + -
209A VAL* 4.6 12.8 - - + -
220A LEU* 6.2 0.2 - - + -
225A VAL* 5.0 4.0 - - + -
228A TYR* 3.9 28.9 - - + -
229A LEU* 3.9 20.9 - - + -
232A ILE* 3.6 24.5 - - + -
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Residues in contact with LEU 192 (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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172A PHE* 4.1 13.7 - - + -
176A ARG* 4.4 21.3 - - - +
188A HIS* 3.0 45.2 + - + +
189A THR* 3.6 13.2 - - - +
191A ILE* 1.3 76.1 - - - +
193A THR* 1.3 60.8 + - - +
195A LYS* 3.1 18.6 + - + +
196A GLU* 3.1 16.6 + - - +
232A ILE* 3.8 28.5 - - + -
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Residues in contact with THR 193 (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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35A VAL* 4.0 19.7 - - + -
161A ALA* 5.0 1.8 - - + -
169A GLY* 3.9 34.2 - - - +
172A PHE* 3.5 17.5 - - + -
173A LEU* 3.3 26.3 - - + +
189A THR 2.7 21.2 + - - -
190A ALA* 3.5 9.0 - - - -
191A ILE 3.3 0.2 - - - -
192A LEU* 1.3 74.2 - - - +
194A LEU* 1.3 63.1 + - - +
196A GLU* 3.3 17.1 - - + +
197A SER* 4.0 5.7 + - - -
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Residues in contact with LEU 194 (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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33A PRO* 3.9 35.8 - - + +
35A VAL* 3.8 21.5 - - + -
46A ALA* 4.0 11.4 - - + -
47A THR* 3.7 34.1 - - - +
48A GLU* 4.1 6.9 - - + +
190A ALA 3.2 10.7 + - - +
191A ILE* 3.2 12.6 + - - +
193A THR* 1.3 78.5 - - - +
195A LYS* 1.3 63.1 + - - +
197A SER* 3.1 17.0 + - - -
198A PHE* 3.2 16.0 + - + +
202A MET* 3.5 10.3 - - + -
207A ILE* 4.1 18.2 - - + -
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Residues in contact with LYS 195 (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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191A ILE 3.0 12.4 + - - +
192A LEU* 3.1 16.5 + - + +
194A LEU* 1.3 76.0 - - - +
196A GLU* 1.3 62.2 + - - +
197A SER 3.1 1.2 + - - -
198A PHE* 3.3 14.7 + - - +
199A GLU 4.9 0.9 + - - -
202A MET* 3.4 17.7 - - + +
232A ILE* 5.0 12.6 - - + -
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Residues in contact with GLU 196 (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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165A ASN* 4.5 5.7 + - - -
168A ASN* 6.2 1.7 - - + +
169A GLY* 6.0 3.1 - - - -
172A PHE* 3.7 42.8 - - + +
192A LEU 3.1 16.9 + - - +
193A THR* 3.3 14.8 - - + +
195A LYS* 1.3 77.0 - - - +
197A SER* 1.3 57.1 + - - -
198A PHE 3.8 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
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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