Contacts of the helix formed by residues 232 - 246 (chain C) in PDB entry 5FLX
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 THR 232 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131 C 3.0 50.1 + - - +
13551 C 5.1 3.5 + - - -
191C VAL* 3.7 20.4 - - + -
229C CYS* 3.2 21.0 + - + +
230C THR 3.2 4.8 - - - +
231C ALA* 1.3 77.6 - - - +
233C LEU* 1.3 59.9 + - - +
234C GLY* 3.8 2.3 + - - -
235C ASN* 3.7 25.8 + - + +
236C PHE* 3.0 19.8 - - - +
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Residues in contact with LEU 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51 U 5.3 4.0 - - - +
61 G 6.2 0.2 - - - +
131 C 4.4 1.8 + - - -
107C LEU* 4.7 9.2 - - + +
108C LYS* 3.6 44.4 - - + +
110C MET* 4.9 3.4 - - + -
127C PHE* 3.5 21.3 - - + -
209C VAL* 4.0 32.5 - - + -
230C THR 4.8 5.2 - - - +
231C ALA 3.4 9.8 + - - +
232C THR* 1.3 75.8 + - - +
234C GLY* 1.3 59.7 + - - +
235C ASN 3.5 0.2 - - - -
236C PHE* 4.5 6.5 - - + -
237C ALA* 2.9 35.4 + - + +
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Residues in contact with GLY 234 (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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131 C 5.4 0.2 + - - -
13551 C 5.5 4.3 - - - -
125C LYS* 5.9 0.7 - - - -
127C PHE* 3.5 25.4 - - - -
232C THR* 3.5 3.8 + - - -
233C LEU* 1.3 79.6 - - - +
235C ASN* 1.3 64.0 + - - +
237C ALA* 4.1 1.5 - - - +
238C LYS* 3.2 34.5 + - - +
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Residues in contact with ASN 235 (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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131 C 4.5 14.5 + - - -
13551 C 3.3 45.7 + - - +
188C CYS* 3.2 42.4 - - - +
189C GLY* 4.1 12.2 - - - -
190C SER 5.1 1.0 - - - +
191C VAL* 4.1 10.5 - - + +
232C THR* 3.7 15.9 + - - +
233C LEU 3.5 0.2 - - - -
234C GLY* 1.3 76.5 - - - +
236C PHE* 1.3 58.1 + - - +
238C LYS* 5.0 1.9 + - - +
239C ALA* 2.9 31.5 + - - +
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Residues in contact with PHE 236 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41 C 5.0 2.9 - - - -
191C VAL* 3.5 28.4 - - + +
193C VAL* 3.6 19.3 - - + -
206C SER* 5.2 0.7 - - - -
209C VAL* 5.1 8.7 - - + -
210C PRO* 3.5 51.4 - - + -
224C THR* 6.4 1.6 - - + -
226C ALA* 4.4 14.8 - - + -
230C THR* 3.6 33.0 - - + +
232C THR 3.0 23.3 + - - +
233C LEU* 3.6 6.3 + - + +
234C GLY 3.3 1.0 - - - -
235C ASN* 1.3 77.2 - - - +
237C ALA* 1.3 63.9 + - - +
239C ALA* 3.3 1.4 + - - +
240C THR* 2.9 43.2 + - - -
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Residues in contact with ALA 237 (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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107C LEU* 4.5 16.2 - - + -
127C PHE* 5.6 3.1 - - + -
139C LEU* 3.7 28.7 - - + +
209C VAL* 5.5 4.7 - - + -
213C LEU* 4.5 3.8 - - + +
233C LEU 2.9 20.7 + - - +
234C GLY* 4.1 2.9 - - - +
236C PHE* 1.3 82.7 - - + +
238C LYS* 1.3 57.3 + - + +
240C THR* 3.4 4.9 + - - -
241C PHE* 2.9 30.3 + - - +
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Residues in contact with LYS 238 (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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13531 A 5.7 2.8 + - - -
13541 G 5.6 4.2 + - - -
13551 C 5.5 9.1 + - - -
139C LEU* 4.7 14.4 - - + -
141C VAL* 5.0 15.9 - - + -
188C CYS* 3.7 28.4 - - - -
234C GLY* 3.2 23.5 + - - +
235C ASN* 5.0 2.9 + - - +
237C ALA* 1.3 76.6 - - + +
239C ALA* 1.3 58.1 + - - +
241C PHE* 3.5 8.0 + - - +
242C ASP* 2.9 31.0 + - - +
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Residues in contact with ALA 239 (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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186C GLY* 3.8 10.3 - - - +
187C ARG 4.5 3.6 - - - -
188C CYS* 3.6 25.5 - - - +
191C VAL* 3.8 12.3 - - + +
193C VAL* 3.8 17.9 - - + +
235C ASN 2.9 20.1 + - - +
236C PHE 3.7 3.8 - - - +
238C LYS* 1.3 78.6 - - - +
240C THR* 1.3 56.0 + - - +
242C ASP* 3.5 2.3 + - - -
243C ALA* 2.9 28.1 + - - +
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Residues in contact with THR 240 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
193C VAL* 3.3 31.3 - - + +
195C LEU* 5.5 1.6 - - + -
210C PRO* 4.9 8.7 - - + -
213C LEU* 3.7 22.7 - - + -
214C LEU* 4.6 22.9 - - + -
236C PHE* 2.9 31.2 + - - -
237C ALA* 3.8 4.5 - - - -
239C ALA* 1.3 75.3 - - - +
241C PHE* 1.3 60.3 + - - +
243C ALA* 3.1 3.2 + - + +
244C ILE* 2.9 30.8 + - + +
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Residues in contact with PHE 241 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C VAL* 4.0 3.1 - - + -
138C GLY* 3.8 17.7 - - - -
139C LEU* 3.9 27.1 - - + -
161C SER* 3.1 40.2 - - - -
163C VAL* 3.6 27.8 - - + -
213C LEU* 4.4 6.0 - - + +
237C ALA 2.9 17.8 + - - +
238C LYS* 3.8 7.9 - - - +
240C THR* 1.3 76.5 - - - +
242C ASP* 1.3 55.8 + - + +
244C ILE* 3.2 20.5 - - + +
245C SER* 2.4 44.7 + - - -
27V LYS* 5.8 6.1 - - + -
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Residues in contact with ASP 242 (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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186C GLY* 4.0 7.5 - - - -
187C ARG 4.2 9.1 + - - +
238C LYS 2.9 18.1 + - - +
239C ALA* 3.8 5.6 - - - +
241C PHE* 1.3 77.3 - - + +
243C ALA* 1.3 60.9 + - - +
245C SER* 3.0 6.1 + - - -
246C LYS* 2.9 59.2 + - - +
27V LYS* 2.6 29.9 + - - +
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Residues in contact with ALA 243 (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 VAL* 3.6 19.1 - - - +
185C THR* 3.8 15.5 - - - +
186C GLY 3.8 15.3 - - - +
193C VAL* 3.8 13.0 - - + +
195C LEU* 4.4 13.0 - - + -
239C ALA 2.9 18.9 + - - +
240C THR* 3.1 9.4 + - - +
242C ASP* 1.3 77.6 + - - +
244C ILE* 1.3 61.0 + - - +
246C LYS* 3.4 12.5 + - - +
247C THR* 3.9 2.4 - - - +
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Residues in contact with ILE 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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137C VAL* 3.8 28.7 - - + -
163C VAL* 5.6 2.0 - - + -
164C PRO 4.2 9.5 - - - +
165C VAL* 4.1 23.3 - - + +
180C VAL* 6.0 1.1 - - + -
195C LEU* 3.7 23.1 - - + -
213C LEU* 4.8 12.1 - - + -
214C LEU* 3.7 20.0 - - + -
217C ALA* 4.7 5.8 - - + -
219C ILE* 6.0 0.4 - - + -
240C THR* 2.9 16.9 + - + +
241C PHE* 3.2 31.6 - - + +
243C ALA* 1.3 74.2 - - - +
245C SER* 1.3 58.6 + - - +
246C LYS 3.3 0.2 - - - -
247C THR* 3.0 30.4 + - + +
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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
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163C VAL* 3.9 17.7 - - - +
164C PRO 5.3 1.3 - - - -
241C PHE* 2.4 45.5 + - - -
242C ASP* 3.0 8.2 + - - -
244C ILE* 1.3 76.4 - - - +
246C LYS* 1.3 59.6 + - - +
247C THR* 3.1 7.2 + - - -
248C TYR* 4.2 8.3 + - - +
249C SER* 4.8 3.1 + - - -
27V LYS* 3.4 32.0 - - - +
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Residues in contact with LYS 246 (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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11551 U 5.7 4.5 - - - +
184C VAL* 5.0 8.7 - - + +
185C THR* 3.3 32.8 + - + +
186C GLY* 4.2 5.9 - - - -
187C ARG* 4.9 2.8 - - - +
242C ASP* 2.9 42.7 + - - +
243C ALA 3.9 5.8 - - - +
244C ILE 3.3 0.8 - - - -
245C SER* 1.3 76.4 - - - +
247C THR* 1.3 65.1 + - - +
248C TYR 3.4 0.9 - - - -
249C SER* 3.1 23.7 + - - -
250C TYR* 3.6 7.8 + - - +
27V LYS* 5.3 3.1 - - - +
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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
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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