Contacts of the helix formed by residues 184 - 201 (chain C) in PDB entry 1OJ7
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 184 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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182C THR 3.5 6.0 - - - +
183C LEU* 1.3 85.0 - - + +
185C PRO* 1.3 75.4 - - + +
186C ARG* 4.4 9.6 - - + +
187C GLN* 2.9 43.9 + - + +
188C VAL* 3.1 9.5 + - - +
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Residues in contact with PRO 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183C LEU 3.6 3.8 - - - +
184C PRO* 1.3 84.2 - - + +
186C ARG* 1.3 55.6 + - - +
188C VAL* 3.3 4.2 + - + -
189C ALA* 2.9 32.6 + - - +
232C LEU* 3.5 25.7 - - + +
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Residues in contact with ARG 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184C PRO* 3.1 8.3 + - + +
185C PRO* 1.3 79.2 - - - +
187C GLN* 1.3 77.2 + - - +
189C ALA* 3.8 4.9 - - - +
190C ASN* 3.0 46.2 + - - +
280C ASP* 2.9 36.5 + - - +
283C GLN* 4.9 7.6 - - - +
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Residues in contact with GLN 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C LEU* 3.7 20.4 - - - +
140C PRO* 3.7 16.5 - - + +
183C LEU* 3.1 30.3 - - + +
184C PRO* 2.9 29.3 + - + +
186C ARG* 1.3 100.6 - - - +
188C VAL* 1.3 59.7 + - - +
190C ASN* 3.7 6.6 - - - +
191C GLY 3.0 22.5 + - - -
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Residues in contact with VAL 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C PRO* 4.9 5.3 - - - +
183C LEU* 3.6 22.9 - - + +
184C PRO 3.1 14.5 + - - +
185C PRO* 3.7 7.4 - - + +
187C GLN* 1.3 72.1 - - - +
189C ALA* 1.3 66.2 + - - +
191C GLY* 3.2 2.8 + - - -
192C VAL* 3.1 27.4 + - + +
231C ALA* 4.0 24.0 - - + +
232C LEU* 3.8 18.4 - - + -
235C PRO* 6.5 0.4 - - + -
241C ARG* 3.4 33.0 - - - +
244C VAL* 5.8 2.7 - - + -
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Residues in contact with ALA 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185C PRO 2.9 17.5 + - - +
186C ARG* 3.8 6.3 - - - +
188C VAL* 1.3 76.6 - - - +
190C ASN* 1.3 63.1 + - - +
192C VAL* 3.2 9.3 + - - +
193C VAL* 3.1 27.9 + - - +
232C LEU* 4.0 7.6 - - + +
337C LEU* 3.2 33.4 - - + +
338C GLY 5.3 0.4 - - - -
339C VAL* 4.0 12.8 - - + -
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Residues in contact with ASN 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C ARG* 3.0 34.3 + - - +
187C GLN* 3.7 8.1 - - - +
189C ALA* 1.3 76.1 - - - +
191C GLY* 1.3 58.3 + - - +
193C VAL* 4.6 0.4 - - - -
194C ASP* 2.9 28.5 + - - +
280C ASP* 2.9 37.6 + - - +
282C ALA* 3.3 30.1 - - + +
283C GLN* 4.4 8.7 + - - +
339C VAL* 4.1 14.4 - - - +
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Residues in contact with GLY 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140C PRO* 4.0 22.2 - - - -
141C ALA 5.4 4.6 - - - +
187C GLN 3.0 15.6 + - - -
188C VAL 3.2 4.0 + - - -
190C ASN* 1.3 75.4 - - - +
192C VAL* 1.3 59.6 + - - +
194C ASP* 3.5 4.7 + - - +
195C ALA* 3.0 29.6 + - - +
244C VAL* 6.0 1.3 - - - -
248C ALA* 5.2 2.3 - - - +
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Residues in contact with VAL 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188C VAL* 3.1 20.3 + - + +
189C ALA* 3.2 8.7 + - - +
191C GLY* 1.3 73.9 - - - +
193C VAL* 1.3 62.9 + - - +
195C ALA* 3.4 5.2 + - - +
196C PHE* 2.9 27.5 + - - +
224C LEU* 4.0 14.4 - - + +
228C GLY* 4.0 26.2 - - - +
231C ALA* 5.5 0.2 - - + -
244C VAL* 4.0 25.8 - - + -
333C PHE* 3.9 18.6 - - + -
337C LEU* 3.7 23.1 - - + -
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Residues in contact with VAL 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189C ALA 3.1 15.9 + - - +
190C ASN 3.9 3.8 - - - +
192C VAL* 1.3 76.8 - - - +
194C ASP* 1.3 58.2 + - - +
196C PHE* 3.2 7.4 + - - +
197C VAL* 2.9 41.9 + - + +
282C ALA* 3.6 28.3 - - + +
285C LEU* 4.6 0.7 - - + -
286C ALA* 4.4 9.6 - - + +
334C PHE* 3.9 21.5 - - + -
337C LEU* 3.7 20.4 - - + -
339C VAL* 3.9 20.2 - - + -
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Residues in contact with ASP 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141C ALA 5.0 9.8 - - - +
142C THR* 5.0 11.4 - - - +
190C ASN 2.9 18.4 + - - +
191C GLY* 3.9 5.2 - - - +
193C VAL* 1.3 77.7 - - - +
195C ALA* 1.3 57.3 + - - +
197C VAL* 3.3 1.0 + - - -
198C HIS* 2.9 61.9 + - - -
252C LEU* 5.4 1.2 - - - +
281C HIS* 3.0 40.7 + - + -
282C ALA* 4.7 2.5 - - + -
285C LEU* 3.2 12.7 - - + +
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Residues in contact with ALA 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C ALA 6.0 0.9 - - - +
191C GLY 3.0 18.3 + - - +
192C VAL 3.7 3.8 - - - +
194C ASP* 1.3 76.4 - - - +
196C PHE* 1.3 61.7 + - - +
198C HIS* 4.5 2.9 - - - -
199C THR* 2.9 29.6 + - - -
224C LEU* 3.8 17.7 - - + -
248C ALA* 3.9 32.8 - - + +
251C ALA* 3.6 10.3 - - + +
252C LEU* 5.4 3.4 - - - -
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Residues in contact with PHE 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192C VAL 2.9 17.8 + - - +
193C VAL* 3.4 9.2 - - - +
195C ALA* 1.3 76.9 - - - +
197C VAL* 1.3 63.5 + - + +
199C THR* 3.3 5.0 + - - -
200C VAL* 3.1 35.4 + - + +
221C LEU* 3.6 22.1 - - + +
224C LEU* 3.5 19.2 - - + +
225C ILE* 3.9 23.8 - - + -
289C LEU* 4.8 1.8 - - + -
293C TRP* 4.9 0.2 - + - -
307C TYR* 3.3 30.5 - + - -
312C TRP* 4.9 1.3 - + - -
330C THR* 4.0 17.3 - - + -
333C PHE* 3.6 28.3 - + + -
334C PHE* 3.9 17.7 - + + -
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Residues in contact with VAL 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193C VAL* 2.9 21.7 + - + +
194C ASP 3.9 0.2 - - - +
196C PHE* 1.3 73.2 - - - +
198C HIS* 1.3 67.5 + - - +
200C VAL* 3.1 12.4 + - + +
201C GLU* 2.8 37.6 + - + +
266C THR* 4.2 11.2 - - + -
267C HIS* 3.9 21.1 - - + +
285C LEU* 3.9 33.2 - - + +
289C LEU* 4.3 10.8 - - + -
334C PHE* 4.2 21.8 - - + -
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Residues in contact with HIS 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142C THR 4.4 8.6 + - - -
194C ASP* 2.9 53.5 + - - +
195C ALA 3.8 5.6 - - - +
197C VAL* 1.3 75.6 - - - +
199C THR* 1.3 60.2 + - - +
201C GLU* 3.6 11.8 + - - +
202C GLN* 2.9 27.9 + - - +
251C ALA* 4.3 9.4 + - + +
252C LEU* 3.3 34.9 - - + +
264C TRP* 3.6 21.2 - + - -
267C HIS* 3.1 26.4 + + - -
281C HIS* 4.5 0.6 + - - -
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Residues in contact with THR 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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195C ALA 2.9 13.0 + - - -
196C PHE 3.4 9.2 - - - -
197C VAL 3.1 0.6 - - - -
198C HIS* 1.3 75.4 - - - +
200C VAL* 1.3 65.3 + - - +
202C GLN* 3.1 14.9 + - - +
203C TYR* 3.3 14.6 + - - +
217C ALA* 3.5 32.5 - - + +
220C ILE* 3.4 11.5 - - + +
221C LEU* 3.8 15.9 - - + -
251C ALA* 3.2 18.4 - - - +
256C ILE* 3.8 22.0 - - + +
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Residues in contact with VAL 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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196C PHE* 3.1 21.9 + - + +
197C VAL* 3.1 26.9 + - + +
199C THR* 1.3 77.1 - - - +
201C GLU* 1.3 60.9 + - - +
203C TYR* 4.4 2.0 - - - -
204C VAL* 2.9 40.2 + - + +
221C LEU* 3.8 26.5 - - + -
289C LEU* 3.8 19.1 - - + -
293C TRP* 3.7 34.4 + - + -
307C TYR* 4.4 1.3 - - + -
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Residues in contact with GLU 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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197C VAL* 2.8 31.7 + - + +
198C HIS 3.6 6.7 - - - +
199C THR 3.2 0.4 - - - -
200C VAL* 1.3 79.1 - - + +
202C GLN* 1.3 57.9 + - - +
205C THR* 3.5 4.4 - - - +
262C GLN* 3.6 1.4 - - - +
263C ASP* 2.9 44.0 + - - +
264C TRP* 2.8 58.6 + - + -
265C ALA 3.8 0.5 + - - -
266C THR* 3.4 15.3 + - - -
267C HIS* 2.8 38.8 + - - -
289C LEU* 5.7 0.8 - - - +
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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