Contacts of the strand formed by residues 236 - 258 (chain C) in PDB entry 3ZJX
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 ILE 236 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17C TYR* 3.4 33.9 - - + -
23C LEU* 4.1 19.3 - - + -
197C GLN* 3.2 3.9 - - - -
198C VAL* 2.7 44.8 + - + +
221C LEU* 3.4 34.1 - - + +
222C SER* 3.9 4.0 - - - +
225C VAL* 3.7 21.3 - - + -
229C ASP 4.7 5.8 - - - +
230C LEU* 3.6 15.5 - - + -
231C ASN* 4.5 0.7 - - - -
235C THR* 1.3 78.5 - - - +
237C ASN* 1.3 70.3 + - - +
238C ILE* 3.6 4.6 + - + -
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Residues in contact with ASN 237 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C MET* 4.0 14.3 - - - +
15C ALA 3.2 25.6 + - - +
16C SER* 3.3 10.5 - - - +
17C TYR 2.9 21.8 + - - -
196C GLY 3.6 4.5 - - - +
197C GLN* 3.7 16.1 + - - +
229C ASP 5.0 3.0 + - - -
231C ASN* 3.2 36.1 + - - +
236C ILE* 1.3 79.0 - - - +
238C ILE* 1.3 62.9 + - - +
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Residues in contact with ILE 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C SER* 3.5 3.5 + - - -
17C TYR* 3.1 17.9 - - + +
20C VAL* 4.0 15.3 - - + +
23C LEU* 5.7 1.8 - - + -
64C ILE* 3.7 21.5 - - + -
121C VAL* 3.4 35.4 - - + -
148C PHE* 4.7 4.0 - - + -
194C LEU 4.3 0.2 - - - -
195C VAL* 3.4 7.4 - - - +
196C GLY 2.9 44.3 + - - +
198C VAL* 3.3 35.0 - - + -
236C ILE* 4.3 6.1 - - + +
237C ASN* 1.3 79.5 - - - +
239C ASN* 1.3 63.1 + - - +
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Residues in contact with ASN 239 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C SER* 2.9 29.9 + - - +
17C TYR 3.0 19.2 + - - +
18C ASP* 3.5 29.2 + - - +
120C THR 4.6 0.2 - - - +
121C VAL* 3.7 7.5 - - - +
193C LYS* 5.6 3.8 - - + +
194C LEU 3.1 7.6 - - - +
195C VAL* 4.4 10.5 - - + -
238C ILE* 1.3 77.8 - - - +
240C GLY* 1.3 64.3 + - - +
241C LYS* 5.0 13.5 - - - +
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Residues in contact with GLY 240 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C HIS* 3.2 15.3 - - - -
120C THR 4.3 8.5 - - - -
121C VAL* 4.3 4.2 - - - +
193C LYS* 3.3 8.7 - - - +
194C LEU* 2.7 39.0 + - - +
239C ASN* 1.3 76.8 + - - +
241C LYS* 1.3 67.4 + - - +
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Residues in contact with LYS 241 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C ASP* 5.0 13.2 - - - +
117C THR* 3.7 7.4 - - - +
118C THR* 3.0 28.8 + - - +
119C HIS* 2.9 37.5 + - + +
192C VAL 3.5 9.9 - - - +
193C LYS* 4.5 2.7 - - + +
194C LEU* 4.0 6.9 - - - +
239C ASN* 5.0 12.1 - - - +
240C GLY* 1.3 79.7 - - - +
242C GLY* 1.3 61.0 + - - +
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Residues in contact with GLY 242 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116C THR 3.1 13.7 - - - -
118C THR* 3.3 10.0 + - - -
146C TYR* 4.0 4.3 - - - -
191C ASN* 3.4 7.3 - - - +
192C VAL* 2.9 41.1 + - - +
241C LYS* 1.3 77.6 - - - +
243C ASN* 1.3 63.5 + - - +
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Residues in contact with ASN 243 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C ALA* 3.4 0.2 - - - -
116C THR* 3.0 43.3 + - - +
118C THR* 3.8 19.5 - - + +
146C TYR* 2.6 21.7 + - - -
190C GLY 3.3 14.8 - - - +
191C ASN* 3.4 13.1 + - - +
242C GLY* 1.3 76.1 - - - +
244C TYR* 1.3 61.3 + - - +
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Residues in contact with TYR 244 (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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71C LEU* 4.0 6.5 - - + +
74C GLU 5.1 0.2 - - - -
75C PRO* 3.3 33.4 - - - +
113C VAL* 4.9 2.5 - - + -
114C THR* 3.2 12.8 - - - +
115C ALA* 4.6 1.1 - - + -
131C PHE* 3.5 40.8 - + + -
133C VAL* 5.3 4.0 - - + -
134C PRO* 3.9 17.0 - - + +
146C TYR* 3.4 8.7 - - - +
188C VAL* 3.8 16.8 - - + -
189C LYS* 3.4 8.6 - - - +
190C GLY* 3.0 64.8 + - - +
191C ASN 3.8 3.8 + - - -
192C VAL* 3.7 21.1 - - + -
243C ASN* 1.3 79.2 + - - +
245C SER* 1.3 66.4 + - - +
246C ALA* 4.8 2.2 - - + -
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Residues in contact with SER 245 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C THR* 4.7 1.2 + - - -
113C VAL* 3.6 1.5 - - - -
114C THR* 3.0 42.0 + - - +
187C ASN* 3.2 19.1 + - - -
188C VAL 3.3 7.6 - - - -
189C LYS* 3.8 15.0 - - - +
244C TYR* 1.3 78.7 - - - +
246C ALA* 1.3 59.4 + - - +
247C VAL* 5.2 3.3 - - - +
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Residues in contact with ALA 246 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112C THR 3.1 13.5 - - - +
113C VAL* 4.1 3.8 - - + -
133C VAL* 4.0 28.0 - - + -
186C VAL 3.6 0.2 - - - +
187C ASN* 2.9 7.7 + - - -
188C VAL* 2.8 52.7 + - + +
244C TYR* 5.4 1.3 - - + -
245C SER* 1.3 74.1 + - - +
247C VAL* 1.3 62.7 + - - +
248C MET* 4.4 5.2 - - + -
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Residues in contact with VAL 247 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C LEU* 3.7 24.7 - - + -
110C THR 4.8 4.5 - - - +
111C ASP* 3.2 6.9 - - - -
112C THR* 2.9 43.5 + - - +
185C LYS* 3.4 35.7 - - + +
186C VAL 3.4 3.4 - - - +
187C ASN* 4.1 7.9 - - - +
245C SER* 5.2 2.7 - - - +
246C ALA* 1.3 77.0 - - - +
248C MET* 1.3 64.9 + - - +
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Residues in contact with MET 248 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C ASP* 3.5 15.9 - - + +
112C THR 4.3 1.8 - - - +
133C VAL* 3.9 22.7 - - - -
135C PHE 5.1 4.9 - - - +
136C ASN* 4.0 23.8 - - - +
137C GLU 6.2 0.9 - - - +
138C THR* 4.4 5.2 - - - +
140C VAL 5.5 1.1 - - - +
142C LEU* 3.3 38.1 - - + -
185C LYS* 3.3 6.3 - - - -
186C VAL* 2.9 45.1 + - + +
188C VAL* 4.3 13.9 - - + -
246C ALA* 4.4 3.4 - - + -
247C VAL* 1.3 88.8 - - - +
249C GLY* 1.3 69.3 + - - +
250C ASP* 3.6 0.5 + - - +
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Residues in contact with GLY 249 (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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109C ASN* 3.6 20.8 - - - +
111C ASP* 2.9 14.1 + - - -
137C GLU* 6.0 0.7 - - - +
138C THR* 3.1 29.8 + - - +
183C LEU* 4.5 7.0 - - - -
184C LYS 3.7 7.0 - - - -
185C LYS* 4.1 6.1 - - - -
248C MET* 1.3 75.6 - - - +
250C ASP* 1.3 61.4 + - - +
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Residues in contact with ASP 250 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C TYR* 4.1 16.2 + - - -
137C GLU* 3.2 32.6 - - - +
138C THR* 4.4 10.2 - - - +
183C LEU* 4.1 7.8 - - - +
184C LYS* 2.8 24.0 + - + +
186C VAL* 4.0 26.3 - - + +
248C MET* 4.3 0.9 - - + +
249C GLY* 1.3 75.9 - - - +
251C GLU* 1.3 89.3 + - - +
252C LEU 3.7 1.7 + - - -
285C TYR* 4.4 6.4 + - - -
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Residues in contact with GLU 251 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C TYR* 5.5 3.0 + - - -
137C GLU* 5.4 3.3 - - - +
183C LEU* 3.7 1.8 - - - -
184C LYS* 2.9 37.4 + - + +
250C ASP* 1.3 93.4 - - - +
252C LEU* 1.3 61.2 + - - +
253C ILE* 3.6 16.6 + - + +
268C VAL* 3.7 38.8 - - + +
42D TYR* 5.8 3.1 - - + +
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Residues in contact with LEU 252 (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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85C VAL* 4.8 4.3 - - + -
105C PHE* 4.6 5.4 - - + -
107C CYS* 4.8 15.5 - - - -
162C ALA* 5.7 0.2 - - + -
164C VAL* 3.6 33.7 - - + -
181C ALA* 4.9 6.1 - - + -
182C TYR 3.7 22.0 - - - +
183C LEU* 4.0 12.6 - - + -
250C ASP 3.7 3.4 + - - -
251C GLU* 1.3 70.5 - - - +
253C ILE* 1.3 64.9 + - - +
254C VAL* 5.4 1.1 - - + -
268C VAL* 3.6 6.1 - - - +
269C ILE* 3.0 43.8 + - + +
285C TYR* 3.6 40.2 + - + +
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Residues in contact with ILE 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181C ALA* 3.3 5.0 - - - +
182C TYR* 2.8 71.2 + - + +
184C LYS* 3.5 35.9 - - + -
251C GLU* 4.2 13.5 - - + +
252C LEU* 1.3 80.3 - - - +
254C VAL* 1.3 73.3 + - - +
255C LYS* 4.4 0.9 - - + +
266C GLU* 3.3 32.1 - - + +
267C TYR 3.5 11.2 - - - +
268C VAL* 4.4 10.5 - - + -
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Residues in contact with VAL 254 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C PHE* 5.4 3.8 - - + -
167C GLN* 5.5 0.9 - - + -
179C VAL* 3.3 29.4 - - + -
180C ILE 3.3 3.4 - - - -
181C ALA* 4.1 16.4 - - + -
252C LEU* 5.4 1.3 - - + -
253C ILE* 1.3 81.6 - - - +
255C LYS* 1.3 59.2 + - - +
256C VAL* 4.1 12.7 + - + -
265C GLN 3.9 0.7 - - - +
266C GLU* 3.8 1.2 - - - -
267C TYR* 2.9 34.8 + - + +
269C ILE* 3.8 29.8 - - + +
290C ILE* 4.4 13.2 - - + -
1296C BOG 4.3 17.0 - - + -
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Residues in contact with LYS 255 (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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178C GLU 3.7 1.9 - - - +
179C VAL* 3.4 4.0 - - - +
180C ILE* 2.9 41.2 + - + +
182C TYR* 3.5 37.3 + - + -
253C ILE* 4.2 2.4 - - + +
254C VAL* 1.3 75.9 - - - +
256C VAL* 1.3 62.8 + - - +
257C ARG* 4.1 0.6 - - - +
264C VAL* 3.7 25.7 - - + +
265C GLN 3.4 6.1 - - - +
266C GLU* 4.0 26.9 + - + -
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Residues in contact with VAL 256 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169C ILE* 4.7 4.9 - - + -
177C VAL* 3.9 17.5 - - + -
178C GLU 3.6 2.5 - - - -
179C VAL* 4.3 8.3 - - + -
254C VAL* 4.2 7.4 - - + -
255C LYS* 1.3 75.0 - - - +
257C ARG* 1.3 60.7 + - - +
264C VAL* 3.3 2.6 - - - -
265C GLN 2.9 32.7 + - - +
267C TYR* 3.9 29.4 - - + -
290C ILE* 4.1 16.8 - - + -
291C LYS 4.8 0.9 - - - +
292C ALA* 3.7 19.1 - - + -
293C PRO* 3.3 26.5 - - + +
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Residues in contact with ARG 257 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C VAL* 3.2 9.6 - - - +
178C GLU* 2.8 72.8 + - + +
255C LYS 4.1 0.9 + - - +
256C VAL* 1.3 74.9 - - - +
258C ASN* 1.3 68.2 + - - +
259C LEU* 3.5 18.6 + - + +
262C ASN* 2.8 33.4 + - - +
263C ASN 3.3 11.4 - - - +
264C VAL* 4.0 20.4 - - + +
293C PRO* 4.5 0.2 - - - -
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Residues in contact with ASN 258 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C PRO* 4.2 7.3 - - - +
175C THR* 3.6 20.1 + - - +
177C VAL* 4.0 7.8 - - + +
257C ARG* 1.3 70.5 - - - +
259C LEU* 1.3 55.9 + - - +
260C ASN* 2.6 37.1 + - - +
261C THR* 3.0 30.0 + - - +
262C ASN* 2.5 36.4 + - - -
263C ASN 3.0 7.0 + - - +
293C PRO* 2.9 41.1 + - + +
294C GLY* 4.3 3.6 - - - -
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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) + - + + + + + -
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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