Contacts of the helix formed by residues 219 - 234 (chain C) in PDB entry 6IWQ
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 GLY 219 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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173C PHE* 3.6 29.0 - - - +
177C MET* 4.1 11.2 - - - -
217C ASN 3.5 2.8 + - - -
218C GLU* 1.3 82.0 + - - +
220C TRP* 1.3 67.2 + - - -
221C SER 3.4 2.0 - - - -
222C THR* 2.9 19.9 + - - -
223C LEU* 3.0 9.2 + - - +
253C HIS* 3.9 2.0 - - - -
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Residues in contact with TRP 220 (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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177C MET* 4.3 2.8 - - + +
181C ASP* 6.0 0.2 - - - +
185C LEU* 4.8 9.1 - - + +
218C GLU 4.4 0.2 - - - -
219C GLY* 1.3 70.7 - - - -
221C SER* 1.3 69.7 + - - +
223C LEU* 3.0 8.7 + - + +
224C MET* 2.9 46.4 + - + +
253C HIS* 3.2 44.5 - - + +
254C LEU* 5.2 3.8 - - + -
257C LYS* 3.3 51.2 - - + +
258C LEU* 3.9 21.1 - - + -
261C TYR* 3.6 47.9 - + + -
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Residues in contact with SER 221 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
177C MET* 3.1 7.6 - - - +
180C SER* 2.7 33.9 + - - -
181C ASP* 2.8 28.9 + - - -
183C ILE 5.8 0.2 - - - -
185C LEU* 3.6 15.9 - - - +
219C GLY 3.4 0.2 - - - -
220C TRP* 1.3 90.2 - - - +
222C THR* 1.3 57.7 + - - +
224C MET* 4.9 0.2 - - - -
225C ARG* 3.0 31.7 + - - +
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Residues in contact with THR 222 (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 PHE* 4.5 5.3 - - + -
177C MET* 3.9 14.6 - - - -
180C SER* 3.6 22.0 - - - +
218C GLU* 2.9 25.8 + - - -
219C GLY* 2.9 18.3 + - - -
221C SER* 1.3 78.3 + - - +
223C LEU* 1.3 59.5 + - - +
225C ARG* 4.1 7.8 - - - +
226C THR* 2.9 26.7 + - - -
302C ALA 3.4 3.0 - - - +
303C HIS* 4.3 3.6 - - - -
304C CYS 4.9 0.2 - - - +
338C TYR* 4.3 2.7 - - - +
441C ILE* 3.7 30.0 - - + +
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Residues in contact with LEU 223 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213C ILE* 4.2 24.5 - - + -
215C PHE* 4.2 27.1 - - + -
218C GLU* 3.8 10.7 - - + +
219C GLY 3.0 15.7 + - - +
220C TRP* 3.7 5.2 - - + +
222C THR* 1.3 78.7 + - - +
224C MET* 1.3 75.7 + - - +
226C THR* 3.2 18.2 - - - -
227C VAL* 3.3 9.4 + - + +
244C LEU* 4.6 13.0 - - + -
254C LEU* 3.9 24.9 - - + -
258C LEU* 4.5 12.3 - - + -
302C ALA* 3.4 16.5 + - + +
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Residues in contact with MET 224 (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 LEU* 3.9 20.2 - - + -
220C TRP* 2.9 41.8 + - + +
223C LEU* 1.3 83.9 - - - +
225C ARG* 1.3 60.8 + - - +
226C THR 3.1 1.3 - - - -
227C VAL* 3.1 15.9 + - + +
228C HIS* 2.7 37.4 + - + -
244C LEU* 5.4 1.1 - - + -
258C LEU* 3.9 25.4 - - - -
261C TYR* 3.7 13.5 - - + -
262C ILE* 3.8 9.0 - - + -
265C TRP* 3.3 42.0 - - + -
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Residues in contact with ARG 225 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180C SER* 2.5 44.3 + - - +
183C ILE* 3.0 34.9 + - - +
184C SER 3.1 18.0 + - - -
185C LEU* 3.7 28.5 - - + +
187C ARG* 4.3 8.7 - - - +
221C SER 3.0 22.1 + - - +
222C THR* 4.1 8.3 - - - +
224C MET* 1.3 76.6 - - - +
226C THR* 1.3 52.9 + - - +
228C HIS* 3.6 0.7 - - - +
229C SER* 2.7 33.1 + - - -
304C CYS 5.3 0.2 - - - +
305C GLU* 3.5 40.6 + - + +
338C TYR* 4.4 11.1 - - - -
441C ILE* 5.9 1.2 - - - +
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Residues in contact with THR 226 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213C ILE* 3.9 24.2 - - + -
222C THR 2.9 18.0 + - - -
223C LEU* 3.2 11.1 + - - -
224C MET 3.1 0.4 - - - -
225C ARG* 1.3 78.9 - - - +
227C VAL* 1.3 63.4 + - - +
229C SER* 3.1 5.5 + - - -
230C VAL* 3.0 32.0 + - + +
300C LEU* 5.1 2.7 - - + -
301C ASP 4.0 15.7 - - - +
302C ALA 3.1 7.6 + - - +
304C CYS* 2.8 42.3 + - + +
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Residues in contact with VAL 227 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213C ILE* 4.0 20.9 - - + -
223C LEU* 3.3 11.4 + - + +
224C MET* 3.1 19.6 + - + +
226C THR* 1.3 76.7 - - - +
228C HIS* 1.3 67.7 + - - +
230C VAL* 3.0 8.8 + - - +
231C ILE* 2.9 24.0 + - + +
242C ILE* 4.3 11.0 - - + -
244C LEU* 4.0 20.2 - - + -
265C TRP* 3.6 30.1 - - + -
269C VAL* 4.2 17.0 - - + -
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Residues in contact with HIS 228 (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 LEU* 3.1 42.6 - - + +
186C ASP* 2.7 30.5 + - - +
224C MET* 2.7 31.3 + - + +
225C ARG 3.7 0.4 - - - +
227C VAL* 1.3 72.6 - - - +
229C SER* 1.3 63.2 + - - +
231C ILE* 3.3 3.8 + - - +
232C LYS* 2.9 28.1 + - - +
261C TYR* 2.7 28.8 + - - -
264C LEU* 4.6 7.6 - - + -
265C TRP* 3.6 29.9 + + - -
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Residues in contact with SER 229 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C LEU 4.5 1.7 + - - -
225C ARG* 2.7 23.0 + - - -
226C THR 3.1 7.5 + - - -
228C HIS* 1.3 75.9 - - - +
230C VAL* 1.3 64.3 + - - +
232C LYS* 3.4 2.8 + - - -
233C ARG* 3.2 41.0 + - - +
304C CYS 4.6 0.2 + - - -
305C GLU* 3.8 13.0 - - - -
306C VAL* 3.0 35.7 + - - +
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Residues in contact with VAL 230 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211C VAL* 4.3 20.0 - - + -
213C ILE* 5.2 1.3 - - + -
226C THR* 3.0 21.9 + - + +
227C VAL* 3.0 7.8 + - - +
229C SER* 1.3 81.1 - - - +
231C ILE* 1.3 61.2 + - - +
234C THR* 2.7 42.5 + - - +
239C LEU* 4.6 6.7 - - + +
242C ILE* 3.8 21.3 - - + -
300C LEU* 4.0 24.7 - - + -
306C VAL* 4.4 11.0 - - + -
310C TRP* 4.2 9.9 - - + -
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Residues in contact with ILE 231 (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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227C VAL 2.9 17.5 + - - +
228C HIS* 3.9 5.2 - - - +
230C VAL* 1.3 76.4 - - - +
232C LYS* 1.3 63.9 + - - +
233C ARG 3.3 0.9 + - - -
234C THR 3.8 12.4 - - - +
236C ARG* 5.9 1.6 - - - +
239C LEU* 4.7 7.2 - - + -
242C ILE* 3.7 22.2 - - + -
265C TRP* 3.1 48.9 - - + +
268C LEU* 4.4 12.1 - - + -
269C VAL* 4.3 6.3 - - + -
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Residues in contact with LYS 232 (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 GLU* 2.5 38.0 + - + +
142C PRO* 2.9 30.6 + - - -
144C GLY* 4.6 0.6 - - - +
186C ASP* 3.0 43.0 + - + +
187C ARG 4.1 1.9 + - - +
228C HIS 2.9 17.5 + - - +
229C SER* 3.8 4.9 - - - +
231C ILE* 1.3 79.9 - - - +
233C ARG* 1.3 72.2 + - + +
234C THR 3.7 0.6 - - - +
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Residues in contact with ARG 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C GLU* 3.0 31.1 + - - +
187C ARG 3.0 26.5 + - - -
189C VAL* 3.7 31.7 - - - +
229C SER* 3.2 32.9 + - - +
232C LYS* 1.3 89.8 - - + +
234C THR* 1.3 63.9 + - - +
235C PRO* 3.9 6.1 - - - +
305C GLU* 5.0 3.4 + - - +
306C VAL* 2.8 40.5 + - + +
307C ALA* 3.7 22.2 - - - +
308C VAL* 3.8 12.7 - - + +
309C ASN* 4.5 8.7 + - - +
310C TRP* 3.5 12.6 + - - -
311C TYR* 5.2 0.2 - - - +
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Residues in contact with THR 234 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
211C VAL* 6.4 0.2 - - + -
230C VAL* 2.7 19.6 + - - +
231C ILE* 3.8 10.4 - - - +
232C LYS 3.7 0.5 - - - -
233C ARG* 1.3 80.2 - - - +
235C PRO* 1.3 84.0 - - + +
236C ARG* 3.3 6.9 + - - +
239C LEU* 4.1 27.4 - - + +
310C TRP* 2.9 28.2 + - + +
311C TYR* 3.9 28.9 - - + -
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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