Contacts of the helix formed by residues 184 - 205 (chain C) in PDB entry 3OX4
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
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
274B ASN* 5.3 11.4 - - + +
41C PHE* 6.0 0.2 - - + -
182C GLY 3.3 8.3 - - - +
183C MET* 1.3 88.1 - - + +
185C LYS* 1.3 67.0 + - - +
186C GLY* 2.8 4.8 + - - +
187C LEU* 2.9 32.0 + - + +
188C THR* 3.1 6.8 + - - +
1385C NAD 3.6 16.6 - - + +
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Residues in contact with LYS 185 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
273B TYR 5.7 7.4 - - - +
275B LEU* 6.1 4.3 - - + -
343B LEU 5.5 7.4 - - - +
344B GLY* 5.6 6.1 - - - -
183C MET 3.7 1.0 + - - -
184C PRO* 1.3 70.6 - - - +
186C GLY* 1.3 59.3 + - - +
188C THR* 2.7 23.8 + - - -
189C ALA* 3.4 11.4 + - - +
230C ALA 5.8 0.2 - - - -
231C CYS* 3.1 33.0 - - + +
232C ASP* 3.7 18.1 + - - +
333C SER 4.7 2.4 + - - -
334C ILE* 3.1 35.3 + - - +
335C GLY* 5.0 1.0 - - - -
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Residues in contact with GLY 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C PRO* 2.8 9.8 + - - +
185C LYS* 1.3 77.5 - - - +
187C LEU* 1.3 55.0 + - - +
189C ALA* 3.8 3.7 - - - +
190C ALA* 3.1 27.6 + - - +
279C VAL* 5.5 0.5 - - - +
334C ILE 5.8 1.3 - - - -
336C ILE* 5.5 0.5 - - - +
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Residues in contact with LEU 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C THR* 4.2 1.8 - - + -
183C MET* 3.8 16.8 - - + -
184C PRO* 2.9 21.8 + - + +
186C GLY* 1.3 72.2 - - - +
188C THR* 1.3 64.1 + - - +
190C ALA* 4.4 6.5 - - + -
191C THR* 2.9 52.0 + - + +
1385C NAD 3.2 74.7 - - + +
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Residues in contact with THR 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C ALA* 4.8 1.6 - - - +
183C MET* 3.2 24.9 - - + +
184C PRO 3.1 15.0 + - - +
185C LYS* 2.7 17.9 + - - -
187C LEU* 1.3 76.9 - - - +
189C ALA* 1.3 65.9 + - - +
191C THR* 3.2 6.8 + - - -
192C GLY* 2.8 27.7 + - - -
227C LEU* 3.8 4.9 - - - +
230C ALA* 4.4 9.2 - - - +
231C CYS* 3.2 17.8 - - - -
234C GLY* 5.6 0.2 - - - -
240C ARG* 2.9 35.2 - - - +
243C MET* 5.3 0.5 - - - +
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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
----------------------------------------------------------
185C LYS 3.4 10.7 + - - +
186C GLY* 3.8 3.8 - - - +
187C LEU 3.3 0.2 - - - -
188C THR* 1.3 80.1 + - - +
190C ALA* 1.3 59.7 - - - +
192C GLY 3.8 0.2 - - - -
193C MET* 2.9 35.9 + - - +
227C LEU* 4.2 2.2 - - - -
231C CYS* 3.5 18.6 - - - -
334C ILE* 3.5 37.0 - - + +
336C ILE* 4.1 8.3 - - + -
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Residues in contact with ALA 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
186C GLY 3.1 15.5 + - - +
187C LEU* 3.4 8.7 + - + +
189C ALA* 1.3 80.2 - - - +
191C THR* 1.3 60.6 + - + +
193C MET* 3.3 2.5 + - - +
194C ASP* 3.0 26.3 + - - +
278C GLY* 3.7 12.4 - - - +
279C VAL* 3.5 35.9 - - + +
336C ILE* 4.3 10.0 - - + +
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Residues in contact with THR 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C THR* 3.7 22.2 - - - +
140C ALA* 3.2 23.7 + - - +
141C GLY* 2.9 28.4 - - - -
142C THR* 5.5 1.8 - - + -
183C MET* 3.9 1.4 - - - -
187C LEU* 2.9 40.7 + - + +
188C THR* 3.2 8.0 + - - -
190C ALA* 1.3 73.1 - - + +
192C GLY* 1.3 61.9 + - - +
194C ASP* 3.3 6.0 + - - +
195C ALA 3.0 16.3 + - - -
278C GLY* 5.2 2.5 - - - -
1385C NAD 4.0 14.8 - - - +
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Residues in contact with GLY 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C ALA 3.5 9.0 - - - -
188C THR 2.8 20.1 + - - -
189C ALA 3.8 0.2 - - - -
190C ALA 3.3 0.2 - - - -
191C THR* 1.3 78.7 + - - +
193C MET* 1.3 55.9 + - - +
195C ALA* 3.5 4.3 + - - +
196C LEU* 3.2 23.4 + - - +
223C ILE* 3.9 6.2 - - - +
227C LEU* 3.8 13.5 - - - +
243C MET* 3.7 17.9 - - - -
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Residues in contact with MET 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
189C ALA 2.9 20.8 + - - +
190C ALA 3.7 0.7 - - - +
192C GLY* 1.3 74.1 - - - +
194C ASP* 1.3 60.9 + - - +
196C LEU* 3.2 10.8 + - + +
197C THR* 2.8 32.1 + - - -
227C LEU* 4.0 16.2 - - + -
282C ALA* 3.4 38.8 - - + +
285C LEU* 4.4 10.5 - - + +
286C PRO* 5.7 0.2 - - + -
327C VAL* 4.3 21.5 - - + +
330C LEU* 4.2 14.6 - - + -
331C ALA* 3.6 24.9 - - + -
334C ILE* 3.6 20.0 - - + -
336C ILE* 4.1 4.0 - - + -
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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
----------------------------------------------------------
141C GLY 3.5 7.8 - - - +
142C THR* 4.0 5.7 - - - +
190C ALA 3.0 13.7 + - - +
191C THR* 3.3 11.4 + - - +
193C MET* 1.3 78.8 - - - +
195C ALA* 1.3 56.5 + - - +
197C THR* 3.2 6.8 + - - -
198C HIS* 2.9 39.5 + - - -
263C HIS* 3.3 6.4 + - - -
277C HIS* 4.7 1.9 + - - -
278C GLY* 4.1 21.9 + - - +
281C ASN* 3.3 10.5 - - - +
501C FE2 2.1 31.4 - - - -
1385C NAD 3.7 8.8 - - - -
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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
----------------------------------------------------------
140C ALA 4.3 1.8 - - - +
141C GLY* 3.6 20.8 + - - +
191C THR 3.0 12.4 + - - +
192C GLY* 3.6 10.1 - - - +
193C MET 3.2 0.2 - - - -
194C ASP* 1.3 78.0 - - - +
196C LEU* 1.3 60.9 + - - +
198C HIS* 3.0 11.1 + - - +
199C ALA* 3.0 18.9 + - - +
223C ILE* 3.9 13.7 - - + -
243C MET* 5.4 1.1 - - + -
247C GLN* 4.1 21.1 - - + -
250C ALA* 3.4 9.7 - - + +
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Residues in contact with LEU 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192C GLY 3.2 11.3 + - - +
193C MET* 3.2 25.8 + - + +
195C ALA* 1.3 79.4 - - - +
197C THR* 1.3 57.9 + - - +
199C ALA* 3.1 4.0 + - - +
200C PHE* 2.9 46.5 + - + -
220C ALA* 4.0 29.8 - - + -
223C ILE* 3.5 16.1 - - + +
285C LEU* 4.6 5.2 - - + -
307C MET* 3.9 33.0 - - + -
327C VAL* 4.8 4.9 - - + -
330C LEU* 4.0 19.1 - - + -
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Residues in contact with THR 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193C MET 2.8 21.7 + - - -
194C ASP* 3.3 11.7 - - - -
196C LEU* 1.3 76.2 - - - +
198C HIS* 1.3 56.4 + - - +
200C PHE* 3.3 0.9 + - - +
201C GLU* 2.9 34.0 + - + +
262C VAL* 3.5 27.8 - - + -
263C HIS* 3.2 27.6 - - + +
281C ASN* 4.0 9.0 + - - +
282C ALA 4.5 0.3 + - - -
285C LEU* 3.6 31.2 - - + +
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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
----------------------------------------------------------
141C GLY 3.1 27.6 + - - -
142C THR* 3.6 11.8 + - - -
143C ALA* 5.1 0.4 - - - +
194C ASP* 2.9 26.1 + - - -
195C ALA* 3.1 9.8 - - - +
197C THR* 1.3 76.5 - - - +
199C ALA* 1.3 58.0 + - - +
201C GLU* 3.9 0.5 - - - +
202C ALA* 2.9 35.0 + - - +
247C GLN 5.4 0.2 + - - -
250C ALA* 3.9 9.8 - - + +
254C PHE* 3.1 41.3 - + + +
259C LEU* 4.0 14.8 - - + -
263C HIS* 3.3 13.0 + + - -
501C FE2 2.3 29.4 - - - -
1385C NAD 3.6 6.3 - + - -
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Residues in contact with ALA 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195C ALA 3.0 11.3 + - - +
196C LEU* 3.1 10.7 + - + +
198C HIS* 1.3 76.2 - - - +
200C PHE* 1.3 62.8 + - - +
202C ALA* 4.6 0.4 - - - -
203C TYR* 3.0 26.7 + - - +
216C ALA* 3.4 35.7 - - - +
219C ALA* 4.1 14.4 - - + -
220C ALA* 4.2 14.4 - - + +
250C ALA* 4.1 4.2 - - - +
303C VAL* 5.9 1.1 - - - -
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Residues in contact with PHE 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196C LEU* 2.9 38.5 + - + +
197C THR 3.3 4.5 + - - +
199C ALA* 1.3 77.4 - - - +
201C GLU* 1.3 57.9 - - + +
203C TYR* 3.4 4.8 + - - +
204C SER* 3.0 32.7 + - - -
285C LEU* 4.4 10.5 - - + -
289C LEU* 3.4 38.8 - - + -
300C LEU* 4.2 14.1 - - + -
303C VAL* 3.3 42.3 - - + +
307C MET* 3.9 11.0 - - - -
323C THR* 3.6 24.7 - - + -
327C VAL* 3.8 24.0 - - + -
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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
----------------------------------------------------------
197C THR* 2.9 28.5 + - + +
200C PHE* 1.3 72.3 - - + +
202C ALA* 1.3 61.3 + - - +
204C SER* 3.7 5.0 - - - +
205C SER* 2.8 30.7 + - - -
258C SER 4.1 2.7 - - - +
259C LEU* 3.4 13.7 - - + +
260C GLY* 2.8 34.8 + - - +
261C TYR 3.1 1.0 + - - -
262C VAL* 2.8 42.5 + - + +
263C HIS* 2.7 32.3 + - - -
285C LEU* 5.4 0.4 - - + -
288C VAL* 4.9 0.9 - - - +
289C LEU* 6.3 0.9 - - + -
292C ASN* 5.6 0.9 + - - -
366C ASN* 4.6 1.0 - - - +
367C PRO* 5.9 0.2 - - - +
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Residues in contact with ALA 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
198C HIS 2.9 19.7 + - - +
199C ALA 3.8 2.9 - - - +
201C GLU* 1.3 76.4 - - - +
203C TYR* 1.3 62.2 + - - +
205C SER* 3.4 14.4 + - - -
208C ALA* 3.7 7.6 - - - +
212C THR* 4.7 2.5 + - - -
213C ASP* 4.9 0.2 - - - +
216C ALA* 4.4 1.6 - - + -
253C ALA* 3.5 35.2 - - + +
254C PHE* 3.7 14.1 - - - +
257C ALA* 3.7 11.8 - - + +
258C SER 3.7 10.0 + - - -
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Residues in contact with TYR 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199C ALA 3.0 17.3 + - - +
200C PHE 3.7 4.3 - - - +
202C ALA* 1.3 79.2 - - - +
204C SER* 1.3 58.9 + - - +
208C ALA* 4.2 2.3 - - - +
213C ASP* 3.6 40.1 + - + +
216C ALA* 4.2 5.6 - - + +
217C LEU* 3.2 41.6 - - + +
299C ARG* 2.8 87.0 + - + -
302C ASP* 3.3 25.8 + - + +
303C VAL* 3.5 14.1 - - + -
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Residues in contact with SER 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200C PHE 3.0 17.6 + - - -
201C GLU* 4.0 6.1 - - - -
202C ALA 3.3 0.2 - - - -
203C TYR* 1.3 76.9 - - - +
205C SER* 1.3 67.1 + - - +
206C THR* 3.5 0.9 + - - +
289C LEU* 5.2 2.4 - - - +
292C ASN* 5.1 4.3 + - - -
296C VAL* 4.1 10.6 - - - +
299C ARG* 4.5 11.2 + - - +
300C LEU* 3.8 23.4 - - - +
303C VAL* 6.1 0.2 - - - +
367C PRO* 3.5 40.7 - - - +
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Residues in contact with SER 205 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201C GLU 2.8 18.1 + - - -
202C ALA 3.5 10.3 - - - -
203C TYR 3.4 1.5 - - - +
204C SER* 1.3 81.3 - - - +
206C THR* 1.3 60.0 + - - +
207C ALA 3.0 15.3 + - - -
208C ALA* 3.3 16.3 + - - +
257C ALA* 2.5 33.1 + - - -
258C SER 4.2 0.4 - - - -
259C LEU 4.1 7.2 - - - -
299C ARG* 5.2 1.6 + - - -
365C THR* 3.2 19.3 - - - -
367C PRO* 4.9 0.7 - - - -
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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
------------------------------------------------------------
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) + - + + + + + -
------------------------------------------------------------
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