Contacts of the helix formed by residues 173 - 192 (chain A) in PDB entry 2JG0
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 HIS 173 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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120A ASP* 5.2 6.9 + - - +
123A TRP* 4.0 25.0 - + + -
168A LEU* 2.8 33.4 + - + +
171A SER* 3.3 37.8 + - - -
172A GLY* 1.3 68.9 - - - +
174A TRP* 1.3 61.7 + - - +
175A ASP* 3.1 14.9 + - - +
176A LYS* 3.1 24.9 + - + +
177A VAL* 3.2 13.6 + - - +
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Residues in contact with TRP 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169A ALA* 3.5 39.2 + - + -
172A GLY* 2.9 22.7 + - - +
173A HIS* 1.3 73.6 - - - +
175A ASP* 1.3 60.6 + - - +
176A LYS 3.2 0.2 - - - -
177A VAL* 3.5 18.9 - - + +
178A ALA* 2.9 29.8 + - - +
217A LEU* 3.5 39.7 - - + -
218A LEU* 4.2 9.7 - - + +
220A GLN* 4.4 7.9 - - + -
221A HIS* 3.5 67.5 - + + +
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Residues in contact with ASP 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172A GLY 4.8 0.3 - - - +
173A HIS* 3.4 18.9 + - - +
174A TRP* 1.3 72.8 - - - +
176A LYS* 1.3 70.3 + - - +
178A ALA* 3.4 6.8 + - - +
179A ASP* 2.9 36.8 + - - +
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Residues in contact with LYS 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A TRP* 4.6 8.9 - - + -
124A PRO* 5.6 0.8 - - - +
127A THR* 2.8 41.3 + - - +
145A PRO* 5.3 4.9 - - - +
146A TYR* 5.4 1.4 - - - +
147A VAL* 3.9 12.4 - - - +
168A LEU* 3.8 34.8 - - + -
173A HIS* 3.1 22.8 + - + +
175A ASP* 1.3 90.9 + - - +
177A VAL* 1.3 65.3 + - - +
179A ASP* 3.3 13.0 + - - +
180A MET* 3.0 30.3 + - + +
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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
----------------------------------------------------------
165A MET* 3.8 29.8 - - + +
168A LEU* 3.9 5.8 - - + +
169A ALA* 3.8 27.8 - - + +
173A HIS 3.2 14.2 + - - +
174A TRP* 3.3 27.3 + - + +
176A LYS* 1.3 76.6 - - - +
178A ALA* 1.3 62.2 + - - +
180A MET* 3.1 8.4 + - - +
181A VAL* 3.0 24.9 + - + +
214A MET 5.2 0.2 - - - +
217A LEU* 4.2 16.2 - - + -
218A LEU* 4.2 11.4 - - + +
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Residues in contact with ALA 178 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174A TRP 2.9 17.0 + - - +
175A ASP* 3.6 7.0 - - - +
177A VAL* 1.3 77.1 - - - +
179A ASP* 1.3 63.4 + - - +
181A VAL* 3.3 2.5 + - - +
182A ALA* 3.0 24.7 + - - +
218A LEU* 3.9 25.3 - - + +
222A GLU* 4.2 9.6 - - - +
230A TYR* 4.6 2.4 + - - -
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Residues in contact with ASP 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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144A GLU* 3.7 32.9 - - + +
145A PRO* 3.8 25.9 - - - +
175A ASP* 2.9 21.7 + - - +
176A LYS* 3.4 17.4 - - - +
178A ALA* 1.3 76.3 - - - +
180A MET* 1.3 58.8 + - - +
182A ALA* 3.4 5.1 + - - +
183A ASN* 2.9 33.1 + - - -
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Residues in contact with MET 180 (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 PRO 4.2 2.5 - - - +
146A TYR* 3.5 30.5 - - - -
147A VAL* 3.6 32.3 - - + +
156A VAL* 3.8 7.2 - - + -
161A SER* 3.5 32.5 - - - +
164A THR* 5.5 2.0 - - + -
165A MET* 3.6 29.2 - - + -
168A LEU* 4.9 6.1 - - + -
176A LYS* 3.0 20.5 + - + +
177A VAL 3.1 6.9 + - - +
179A ASP* 1.3 73.1 - - - +
181A VAL* 1.3 66.5 + - - +
183A ASN* 3.1 6.7 + - - +
184A PHE* 3.0 33.6 + - + -
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Residues in contact with VAL 181 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165A MET* 3.5 18.2 - - + -
177A VAL* 3.0 18.9 + - + +
178A ALA 3.8 5.4 - - - +
180A MET* 1.3 75.4 - - - +
182A ALA* 1.3 57.1 + - - +
184A PHE* 3.2 4.3 + - - -
185A ALA* 2.8 27.7 + - - +
211A PHE* 3.8 21.1 - - + -
214A MET* 3.9 21.1 - - + +
215A VAL* 4.1 7.0 - - + -
218A LEU* 4.1 18.8 - - + -
230A TYR* 3.6 33.2 - - + -
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Residues in contact with ALA 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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143A PRO* 4.6 3.4 - - + +
144A GLU* 4.4 15.0 - - + +
178A ALA 3.0 17.3 + - - +
179A ASP* 3.5 6.5 - - - +
181A VAL* 1.3 77.5 - - - +
183A ASN* 1.3 56.8 + - - +
185A ALA* 3.4 5.0 + - - +
186A HIS* 2.9 29.8 + - - +
230A TYR* 3.7 17.2 + - - +
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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
----------------------------------------------------------
142A LEU* 3.9 18.1 - - + +
143A PRO* 3.1 14.0 - - - +
144A GLU* 2.9 45.6 + - - +
145A PRO 3.3 14.6 + - - -
146A TYR* 3.8 15.6 - - - +
156A VAL* 6.4 0.9 - - + -
179A ASP 2.9 16.0 + - - -
180A MET* 3.1 11.8 + - - +
182A ALA* 1.3 75.4 - - - +
184A PHE* 1.3 64.4 + - + +
186A HIS* 3.3 8.3 + - - +
187A GLU* 3.0 30.7 + - - +
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Residues in contact with PHE 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A LEU* 6.3 0.2 - - + -
156A VAL* 4.1 19.3 - - + -
157A TYR 3.8 6.3 - - - -
158A TYR* 4.2 10.3 - + - -
161A SER* 3.5 37.2 - - - -
165A MET* 4.5 3.8 - - - -
180A MET* 3.0 31.8 + - + +
181A VAL 3.2 1.5 + - - +
183A ASN* 1.3 77.2 - - + +
185A ALA* 1.3 60.1 + - - +
187A GLU* 3.2 25.0 + - - +
188A ILE* 2.9 32.4 + - - +
194A ILE* 3.6 28.8 - - + +
195A PRO 5.6 0.2 - - - -
211A PHE* 3.7 21.8 - - + -
214A MET* 3.5 22.9 - - + -
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Residues in contact with ALA 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 VAL 2.8 17.2 + - - +
182A ALA* 3.6 4.3 - - - +
184A PHE* 1.3 75.0 - - - +
186A HIS* 1.3 63.1 + - - +
188A ILE* 3.3 4.0 + - - +
189A ASP* 3.0 22.2 + - - +
211A PHE* 3.8 8.6 - - + -
230A TYR* 3.5 32.3 - - + -
233A GLN* 3.7 25.3 - - + +
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Residues in contact with HIS 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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141A PRO* 4.1 12.4 + - - +
142A LEU* 4.1 13.9 - - + -
143A PRO* 3.6 34.4 - - + +
182A ALA 2.9 13.4 + - - +
183A ASN 3.3 7.4 - - - +
185A ALA* 1.3 77.0 - - - +
187A GLU* 1.3 61.8 + - + +
189A ASP* 3.2 6.1 + - - +
190A THR* 2.7 59.9 + - + +
191A TYR* 5.4 3.4 + + - -
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Residues in contact with GLU 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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140A LEU* 5.3 0.3 - - - +
142A LEU* 3.6 21.4 - - + +
156A VAL* 4.7 2.4 - - - +
183A ASN 3.0 17.3 + - - +
184A PHE* 3.2 31.5 + - - +
186A HIS* 1.3 76.0 - - + +
188A ILE* 1.3 58.6 + - - +
191A TYR* 2.9 47.3 + - + -
193A HIS 3.2 10.1 - - - +
194A ILE* 3.7 5.7 - - - +
195A PRO* 3.6 37.5 - - + +
197A GLY 5.5 0.2 - - - -
198A ASN* 3.5 28.4 + - - +
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Residues in contact with ILE 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 PHE 2.9 19.6 + - - +
185A ALA 3.6 6.1 - - - +
187A GLU* 1.3 75.9 - - - +
189A ASP* 1.3 58.3 + - - +
192A GLY* 2.8 32.7 + - - +
193A HIS 3.9 6.7 - - - +
194A ILE* 3.6 28.7 - - + +
211A PHE* 3.5 39.5 - - + -
233A GLN* 3.5 28.7 - - + +
236A LYS* 3.6 27.2 - - + +
237A GLU* 4.0 14.1 - - + +
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Residues in contact with ASP 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 ALA 3.0 14.7 + - - +
186A HIS* 3.9 5.7 - - - +
188A ILE* 1.3 77.1 - - - +
190A THR* 1.3 63.5 + - - +
192A GLY* 4.5 1.4 + - - -
232A PRO* 5.6 0.7 - - - +
233A GLN* 2.9 35.5 + - - +
236A LYS* 2.8 37.9 + - - +
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Residues in contact with THR 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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186A HIS* 2.7 49.9 + - + +
187A GLU 4.0 1.8 - - - -
189A ASP* 1.3 80.6 - - - +
191A TYR* 1.3 91.7 + - + +
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Residues in contact with TYR 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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37A PRO* 4.5 19.0 - - + +
140A LEU* 3.6 38.0 - - + +
141A PRO* 4.6 11.4 + - - +
186A HIS* 5.4 3.9 + + - -
187A GLU* 2.9 44.3 + - + +
190A THR* 1.3 101.8 - - + +
192A GLY* 1.3 59.1 + - - +
193A HIS* 3.3 26.8 + - + +
195A PRO* 4.2 5.4 - - + -
203A LEU* 3.7 29.4 - - + -
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Residues in contact with GLY 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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188A ILE* 2.8 22.3 + - - +
189A ASP 4.4 1.4 + - - -
190A THR 3.7 0.8 - - - -
191A TYR* 1.3 78.2 - - - +
193A HIS* 1.3 62.6 + - - +
236A LYS* 4.0 19.3 - - - +
240A TYR* 3.5 19.0 - - - +
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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