Contacts of the helix formed by residues 206 - 216 (chain C) in PDB entry 5FLZ
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 ASN 206 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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13C CYS* 5.4 3.2 - - - -
172C VAL* 3.6 28.2 - - - +
173C PHE 3.1 23.4 + - - +
174C PRO* 4.4 1.6 - - - +
175C ALA* 3.7 20.6 - - + +
205C ASP* 1.3 75.4 + - - +
207C ALA* 1.4 54.9 + - - +
209C LEU* 3.1 23.2 + - + +
210C LEU* 2.7 36.5 + - + +
224C LEU* 4.0 21.9 - - + +
227C THR* 4.6 12.6 + - + +
228C ASN* 5.6 1.0 - - - +
231C ILE* 6.0 0.2 - - - +
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Residues in contact with ALA 207 (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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173C PHE* 6.0 0.2 - - + -
174C PRO 3.7 2.4 + - - +
175C ALA* 4.0 0.9 - - - +
176C ARG* 3.3 59.6 + - - +
205C ASP* 3.0 13.6 + - - +
206C ASN* 1.4 73.3 - - - +
208C SER* 1.3 65.3 + - - +
210C LEU* 3.5 1.6 - - - +
211C ASN* 3.1 17.2 + - - +
300C ASP* 4.5 0.2 - - - -
305C LEU* 4.2 16.8 - - + -
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Residues in contact with SER 208 (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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205C ASP* 3.6 2.4 + - - -
206C ASN 3.2 0.2 - - - -
207C ALA* 1.3 79.4 - - - +
209C LEU* 1.4 62.3 + - - +
211C ASN* 3.3 9.5 + - - +
212C ILE* 3.4 6.3 + - - +
299C LEU 3.3 7.3 + - - -
300C ASP* 3.2 25.0 - - - +
302C SER 3.2 20.6 - - - -
303C ASN 3.3 16.2 - - - -
304C SER 2.9 25.2 + - - -
305C LEU* 3.0 18.2 + - - +
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Residues in contact with LEU 209 (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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204C PHE* 4.1 5.6 - - + -
205C ASP 3.1 21.2 + - - +
206C ASN* 3.1 32.6 + - - +
208C SER* 1.4 76.9 - - - +
210C LEU* 1.3 54.2 + - - +
212C ILE* 3.5 10.4 + - - +
213C SER* 2.9 33.5 + - - -
227C THR* 4.7 13.2 - - - +
230C LEU* 4.0 14.7 - - + +
231C ILE* 3.6 35.0 - - + -
234C ILE* 3.8 15.0 - - + -
303C ASN* 3.5 32.8 - - + +
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Residues in contact with LEU 210 (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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175C ALA* 4.2 16.6 - - + -
176C ARG* 3.6 35.9 - - + +
206C ASN 2.7 19.4 + - - +
207C ALA 3.5 5.2 - - - +
209C LEU* 1.3 70.6 - - - +
211C ASN* 1.3 56.5 + - - +
213C SER 3.1 0.3 + - - -
214C GLY* 2.8 32.1 + - - -
222C ILE* 2.9 42.4 - - + +
223C ASP* 4.8 4.3 - - - +
224C LEU* 5.3 3.4 - - + -
227C THR* 3.4 20.6 - - + -
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Residues in contact with ASN 211 (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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176C ARG* 3.0 28.4 + - - +
207C ALA 3.1 4.4 + - - +
208C SER 3.3 9.1 + - - +
210C LEU* 1.3 77.5 - - - +
212C ILE* 1.4 59.3 + - - +
214C GLY* 5.4 0.2 - - - -
215C LYS* 2.9 61.3 + - - +
300C ASP* 3.5 38.6 + - + +
301C PRO* 5.4 2.0 - - - +
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Residues in contact with ILE 212 (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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208C SER 3.4 9.2 + - - +
209C LEU* 3.5 6.3 - - - +
210C LEU 3.2 0.2 - - - -
211C ASN* 1.4 75.5 - - - +
213C SER* 1.3 57.1 + - - +
216C VAL* 2.7 56.8 + - + +
217C PHE* 3.5 4.2 + - + -
230C LEU* 3.8 11.9 - - + -
275C PHE* 3.3 41.5 - - + -
300C ASP 3.3 17.9 - - - +
301C PRO* 3.2 30.1 - - + +
302C SER 4.2 2.5 - - - +
303C ASN* 3.7 16.2 - - - +
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Residues in contact with SER 213 (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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209C LEU 2.9 21.7 + - - -
210C LEU 3.7 3.8 - - - -
212C ILE* 1.3 72.5 - - - +
214C GLY* 1.3 66.7 + - - +
217C PHE* 3.4 13.7 - - - +
218C ARG 3.3 11.6 + - - -
219C ASN* 3.0 23.7 - - - +
222C ILE* 3.7 5.8 - - - -
226C HIS 4.6 3.1 + - - -
227C THR* 3.4 38.4 - - - +
230C LEU* 4.4 10.0 - - - +
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Residues in contact with GLY 214 (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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210C LEU 2.8 19.0 + - - -
211C ASN 4.1 0.2 - - - -
213C SER* 1.3 74.0 - - - +
215C LYS* 1.3 63.8 + - - +
218C ARG* 3.2 18.9 - - - -
219C ASN 3.5 14.9 + - - +
222C ILE* 3.4 13.6 - - - +
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Residues in contact with LYS 215 (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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176C ARG* 5.6 0.8 - - - +
211C ASN* 2.9 48.3 + - - +
214C GLY* 1.3 79.4 - - - +
216C VAL* 1.4 69.6 + - + +
218C ARG* 3.8 7.8 + - - +
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Residues in contact with VAL 216 (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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212C ILE* 2.7 44.3 + - + +
215C LYS* 1.4 77.1 - - + +
217C PHE* 1.4 62.5 - - + +
218C ARG* 4.6 2.1 - - - +
275C PHE* 3.8 34.8 - - + +
276C THR* 4.8 11.2 - - + +
278C ASP* 4.6 3.3 - - - +
301C PRO* 6.5 0.2 - - + -
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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