Contacts of the helix formed by residues 173 - 192 (chain A) in PDB entry 2P02
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 173 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163A TYR* 4.0 14.8 - - + -
165A THR* 3.5 4.0 - - + -
167A GLU* 3.4 11.9 - - - +
172A MET* 1.3 95.0 - - + +
174A LEU* 1.3 66.0 + - - +
175A THR* 3.3 4.7 + - - +
176A ILE* 3.3 12.9 + - + +
177A VAL* 3.1 22.5 + - - +
293A TYR* 3.7 12.1 - - + +
296A TRP* 3.2 53.6 - - + +
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Residues in contact with LEU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167A GLU* 2.8 17.4 + - - +
168A THR* 4.1 23.8 - - + -
172A MET 3.4 2.2 + - - -
173A PRO* 1.3 72.7 - - - +
175A THR* 1.3 63.6 + - - +
177A VAL* 4.4 8.1 - - + -
178A LEU* 2.9 53.1 + - + +
208A VAL* 4.5 10.8 - - + -
210A TYR* 4.0 4.0 - - - +
219A PRO* 3.6 33.0 - - + -
222A VAL* 5.7 0.2 - - + -
257A TYR* 3.9 31.9 - - + +
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Residues in contact with THR 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A PHE 3.4 27.4 - - - +
44A SER* 2.7 31.1 + - - -
173A PRO* 3.8 0.7 - - - +
174A LEU* 1.3 75.8 - - - +
176A ILE* 1.3 57.4 + - - +
179A ALA* 3.1 26.3 + - - +
206A VAL* 3.7 18.4 - - - +
208A VAL* 3.6 26.7 - - + +
210A TYR* 3.6 16.1 + - + +
296A TRP* 3.1 18.3 + - - +
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Residues in contact with ILE 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44A SER* 3.9 12.6 - - - +
45A GLU 3.8 20.0 - - - +
172A MET* 4.2 14.4 - - + -
173A PRO* 3.5 31.0 - - + +
174A LEU 3.3 0.2 - - - -
175A THR* 1.3 79.6 + - - +
177A VAL* 1.3 70.1 + - + +
179A ALA* 3.2 2.0 + - + -
180A HIS* 2.9 40.2 + - + +
289A ILE 3.8 2.9 - - - +
290A VAL 3.5 24.2 - - - +
292A THR 4.1 4.9 - - - +
293A TYR 4.5 3.1 - - - +
294A GLY* 3.5 28.0 - - - +
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Residues in contact with VAL 177 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
168A THR* 4.8 2.9 - - + +
170A GLU* 3.6 26.2 - - + +
172A MET* 3.6 27.8 - - + +
173A PRO 3.1 20.1 + - - +
174A LEU* 3.3 14.3 + - + +
176A ILE* 1.3 78.2 - - + +
178A LEU* 1.3 63.8 + - + +
180A HIS* 3.3 9.5 + - + +
181A LYS* 3.0 48.8 + - + +
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Residues in contact with LEU 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A LEU* 2.9 49.5 + - + +
175A THR 4.0 2.7 - - - +
177A VAL* 1.3 78.9 - - + +
179A ALA* 1.3 63.3 + - - +
181A LYS* 3.2 11.9 + - + +
182A LEU* 3.0 27.4 + - - +
206A VAL* 4.2 18.2 - - + -
208A VAL* 4.8 0.7 - - + -
222A VAL* 4.1 26.0 - - + -
252A VAL* 4.2 23.5 - - + +
253A VAL* 4.3 23.6 - - + -
254A PRO* 4.5 6.3 - - + -
257A TYR* 4.9 2.7 - - + -
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Residues in contact with ALA 179 (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 SER 4.1 6.3 - - - +
45A GLU* 3.9 6.1 - - - -
46A SER* 3.5 20.2 - - - +
175A THR 3.1 18.3 + - - +
176A ILE* 3.2 6.3 + - - +
178A LEU* 1.3 78.5 - - - +
180A HIS* 1.3 61.6 + - - +
182A LEU* 3.4 2.2 + - - +
183A ASN* 3.3 13.3 + - - -
204A THR* 2.8 30.8 + - - +
206A VAL* 3.8 15.4 - - + +
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Residues in contact with HIS 180 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A SER* 2.7 27.8 + - - -
172A MET* 5.5 4.4 - - + +
176A ILE* 2.9 47.2 + - + +
177A VAL* 3.7 8.3 - - + +
179A ALA* 1.3 75.0 - - - +
181A LYS* 1.3 66.1 + - + +
183A ASN* 3.1 5.9 + - - +
184A ALA* 2.9 22.1 + - - +
290A VAL* 3.3 30.3 + - + -
292A THR 5.3 1.6 + - - -
399A TYR* 3.3 49.7 + - + +
400A GLY* 3.6 4.6 - - - -
402A PHE 5.6 2.9 + - - -
404A ARG* 6.2 0.7 - - + -
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Residues in contact with LYS 181 (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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170A GLU* 4.7 6.6 + - - -
177A VAL* 3.0 43.6 + - + +
178A LEU* 3.2 8.3 + - + +
180A HIS* 1.3 77.6 - - + +
182A LEU* 1.3 56.5 + - - +
184A ALA* 3.3 8.2 + - + +
185A LYS* 2.9 30.1 + - - +
252A VAL* 3.6 28.1 - - + +
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Residues in contact with LEU 182 (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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178A LEU 3.0 19.1 + - - +
179A ALA 3.6 6.3 - - - +
181A LYS* 1.3 76.4 - - - +
183A ASN* 1.3 61.5 + - - +
185A LYS* 3.3 4.3 + - - +
186A LEU* 3.1 25.6 + - - +
204A THR* 3.7 21.8 - - + -
206A VAL* 3.9 24.7 - - + -
225A ILE* 4.0 19.5 - - + -
227A ILE* 4.5 3.8 - - + -
248A VAL* 4.0 13.0 - - + +
249A ILE* 3.9 26.5 - - + -
252A VAL* 3.8 27.1 - - + -
253A VAL* 4.3 9.2 - - + -
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Residues in contact with ASN 183 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A SER* 3.2 32.9 + - - -
47A VAL 3.3 17.5 - - - +
48A GLY* 3.5 9.7 + - - -
179A ALA 3.3 3.8 + - - -
180A HIS 3.1 7.1 + - - +
182A LEU* 1.3 76.0 - - - +
184A ALA* 1.3 63.0 + - - +
186A LEU* 3.3 8.2 + - - +
187A ALA* 3.1 21.7 + - - +
202A SER* 2.7 29.2 + - - -
204A THR* 3.0 35.7 + - - +
399A TYR* 3.9 8.1 + - + -
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Residues in contact with ALA 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A HIS 2.9 11.5 + - - +
181A LYS* 3.7 11.2 - - - +
182A LEU 3.3 0.2 - - - -
183A ASN* 1.3 76.2 - - - +
185A LYS* 1.3 57.8 + - - +
187A ALA* 3.3 3.8 + - - +
188A GLU* 2.9 28.2 + - - +
399A TYR* 3.5 29.7 - - + -
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Residues in contact with LYS 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 LYS 2.9 17.1 + - - +
182A LEU 3.6 5.2 - - - +
184A ALA* 1.3 74.3 - - - +
186A LEU* 1.3 65.9 + - - +
188A GLU* 2.8 34.6 + - - +
189A LEU* 3.0 44.3 + - + +
247A LYS 4.0 8.3 - - - +
248A VAL* 4.0 22.9 - - + -
251A ALA* 4.0 19.0 + - + +
252A VAL* 3.6 26.2 - - + -
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Residues in contact with LEU 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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182A LEU 3.1 19.8 + - - +
183A ASN* 3.5 11.4 - - - +
185A LYS* 1.3 76.0 - - - +
187A ALA* 1.3 56.8 + - - +
189A LEU* 3.3 1.5 + - - -
190A ARG* 2.9 30.4 + - - +
198A LEU* 3.4 29.3 - - + +
202A SER* 3.7 31.0 - - - +
204A THR* 4.5 2.5 - - + -
227A ILE* 4.0 20.2 - - + -
229A VAL* 4.2 7.0 - - + -
244A LEU* 3.6 29.2 - - + -
248A VAL* 3.8 17.7 - - + -
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Residues in contact with ALA 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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49A GLU* 3.9 3.1 - - + +
183A ASN 3.1 9.5 + - - +
184A ALA 3.7 4.3 - - - +
186A LEU* 1.3 75.7 - - - +
188A GLU* 1.3 57.3 + - - +
190A ARG* 3.4 20.3 + - - +
191A ARG* 2.9 57.2 + - - +
399A TYR* 3.6 23.8 - - - +
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Residues in contact with GLU 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 ALA 2.9 13.8 + - - +
185A LYS* 2.8 45.1 + - - +
187A ALA* 1.3 77.0 - - - +
189A LEU* 1.3 61.6 + - + +
191A ARG* 3.4 5.8 + - - +
192A ASN* 2.9 45.4 + - + +
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Residues in contact with LEU 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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185A LYS* 3.0 32.0 + - + +
186A LEU 4.0 2.9 - - - +
188A GLU* 1.3 79.1 - - + +
190A ARG* 1.3 63.7 + - - +
192A ASN* 3.2 29.1 - - - +
194A THR* 3.2 18.6 + - + +
195A LEU* 3.2 50.6 + - + -
198A LEU* 4.1 3.8 - - + -
247A LYS* 3.5 31.0 - - + +
248A VAL* 4.0 11.2 - - + -
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Residues in contact with ARG 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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49A GLU* 5.0 5.9 - - - +
112A ILE 3.1 28.7 + - - -
113A GLY* 4.0 8.7 + - - -
186A LEU 2.9 15.8 + - - +
187A ALA* 3.5 18.1 - - - +
189A LEU* 1.3 78.3 - - - +
191A ARG* 1.3 95.2 + - - +
193A GLY* 3.3 12.8 + - - -
195A LEU 4.1 6.8 - - - +
196A PRO* 5.2 4.0 - - + +
198A LEU* 3.7 28.4 - - + +
199A ARG* 3.6 26.8 + - - +
200A PRO* 3.7 28.2 + - - +
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Residues in contact with ARG 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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49A GLU* 2.8 43.8 + - - -
111A HIS* 3.0 33.1 + - - -
112A ILE 3.6 3.2 + - - -
187A ALA* 2.9 29.7 + - - +
188A GLU* 3.4 4.5 + - - +
190A ARG* 1.3 109.2 - - - +
192A ASN* 1.3 60.3 + - - +
193A GLY 3.3 0.9 + - - -
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Residues in contact with ASN 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A GLU* 2.9 29.9 + - + +
189A LEU* 3.2 18.3 - - - +
191A ARG* 1.3 75.3 - - - +
193A GLY* 1.3 58.9 + - - +
194A THR* 2.6 36.9 + - - -
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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
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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) + - + + + + + -
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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