Contacts of the helix formed by residues 191 - 210 (chain C) in PDB entry 4GQS
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 ASP 191 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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187C PHE* 3.5 21.0 - - - -
188C ASP* 2.6 35.8 + - + +
190C LYS* 1.3 69.4 - - - +
192C GLN* 1.3 66.1 + - - +
193C GLN* 2.8 28.1 + - - +
194C PHE* 2.9 18.2 + - + +
195C LEU* 3.0 12.7 + - - +
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Residues in contact with GLN 192 (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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190C LYS 3.0 8.1 + - - +
191C ASP* 1.3 73.8 + - - +
193C GLN* 1.3 64.2 + - - +
195C LEU* 3.0 31.8 + - - +
196C ASN* 2.9 37.7 + - - +
199C GLU* 5.7 1.4 - - - +
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Residues in contact with GLN 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187C PHE* 3.2 25.6 - - + -
191C ASP* 2.8 22.2 + - - +
192C GLN* 1.3 74.2 - - - +
194C PHE* 1.3 61.6 + - - +
196C ASN* 3.3 24.3 - - - +
197C LEU* 3.9 7.4 + - - +
247C LYS* 3.5 29.2 + - - +
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Residues in contact with PHE 194 (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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172C CYS* 3.6 51.4 - - + -
175C CYS* 3.9 24.9 - - + -
176C ASN* 3.9 24.9 - - - -
179C CYS* 4.2 4.3 - - - -
187C PHE* 3.6 35.8 - + + -
188C ASP 4.1 12.8 - - - +
189C TYR* 4.3 13.7 - + - -
191C ASP* 2.9 11.3 + - + +
193C GLN* 1.3 74.9 - - - +
195C LEU* 1.3 56.7 + - + +
196C ASN 2.9 4.5 - - - -
197C LEU* 2.8 40.1 + - + +
198C MET* 3.3 17.4 + - + -
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Residues in contact with LEU 195 (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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168C PHE* 4.5 20.9 - - + -
189C TYR 3.4 22.7 - - - +
190C LYS* 3.6 14.8 - - - +
191C ASP 3.0 13.8 + - - +
192C GLN* 3.0 41.9 + - - +
194C PHE* 1.3 80.2 - - + +
196C ASN* 1.3 62.1 + - - +
198C MET* 3.3 9.5 + - + +
199C GLU* 3.0 34.1 + - + +
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Residues in contact with ASN 196 (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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192C GLN* 2.9 28.1 + - - +
193C GLN* 3.3 18.2 - - - +
194C PHE 2.9 0.2 + - - -
195C LEU* 1.3 78.8 - - - +
197C LEU* 1.3 61.3 + - + +
199C GLU* 2.9 22.7 + - - +
200C LYS* 3.0 44.0 + - - +
243C ASP* 5.8 1.1 - - - +
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Residues in contact with LEU 197 (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 CYS* 4.3 9.6 - - - -
179C CYS* 3.8 28.5 - - - -
183C PHE* 5.5 6.1 - - + -
187C PHE* 6.1 4.5 - - + -
193C GLN 4.6 7.6 - - - +
194C PHE* 2.8 23.6 + - + +
196C ASN* 1.3 70.4 - - + +
198C MET* 1.3 57.6 + - - +
199C GLU 3.0 1.8 - - - -
200C LYS* 4.6 5.2 - - - +
201C LEU* 2.6 52.5 + - + +
240C MET* 4.2 23.6 - - + -
295C LEU* 4.0 26.5 - - + -
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Residues in contact with MET 198 (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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168C PHE* 3.9 26.9 - - + +
171C GLY* 3.3 39.5 - - - +
172C CYS* 3.5 14.8 - - - -
175C CYS* 4.3 11.9 - - - -
194C PHE* 3.3 33.6 + - + +
195C LEU* 3.3 14.1 + - + +
197C LEU* 1.3 76.9 - - - +
199C GLU* 1.3 58.5 + - + +
201C LEU* 4.6 4.9 - - - -
202C ASN* 3.0 35.1 + - + +
299C THR* 5.3 3.8 - - + -
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Residues in contact with GLU 199 (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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192C GLN* 5.7 1.4 - - - +
195C LEU* 3.0 24.0 + - + +
196C ASN* 2.9 37.8 + - - +
198C MET* 1.3 76.9 - - + +
200C LYS* 1.3 63.1 + - + +
202C ASN* 4.2 0.7 - - - +
203C GLU* 2.9 33.8 + - - +
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Residues in contact with LYS 200 (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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196C ASN* 3.0 29.7 + - + +
197C LEU* 5.4 2.2 - - - +
199C GLU* 1.3 81.4 - - + +
201C LEU* 1.3 55.7 + - - +
203C GLU* 3.7 4.6 - - - +
204C ASN* 2.7 42.5 + - - +
236C ASN* 3.4 39.7 - - + +
239C PHE* 4.2 11.5 - - + +
240C MET* 3.4 47.3 - - + +
243C ASP* 3.9 18.2 + - - -
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Residues in contact with LEU 201 (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 CYS* 3.5 32.3 - - - -
197C LEU* 2.6 40.0 + - + +
198C MET* 4.5 4.0 - - - +
200C LYS* 1.3 72.5 - - - +
202C ASN* 1.3 61.3 + - - +
204C ASN* 3.9 5.8 - - + +
205C ILE* 3.2 24.7 + - - +
240C MET* 3.6 28.9 - - + -
295C LEU* 4.5 16.4 - - + +
296C GLY* 4.5 14.1 - - - +
299C THR* 3.9 23.6 - - + +
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Residues in contact with ASN 202 (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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167C THR* 5.0 13.5 - - - +
198C MET* 3.0 23.7 + - + +
199C GLU* 4.2 1.1 - - - +
201C LEU* 1.3 79.1 - - - +
203C GLU* 1.3 56.9 + - - +
205C ILE* 3.0 13.4 - - - +
206C ARG* 2.7 62.8 + - - +
300C GLU* 4.6 11.8 + - - -
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Residues in contact with GLU 203 (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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199C GLU 2.9 21.9 + - - +
200C LYS* 3.7 3.8 - - - +
202C ASN* 1.3 75.1 - - - +
204C ASN* 1.3 64.8 + - - +
205C ILE 3.1 1.8 - - - -
206C ARG* 3.2 9.9 + - + +
207C ILE* 3.2 34.8 + - + +
232C LYS* 3.2 34.7 + - - +
236C ASN* 2.6 28.7 + - - -
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Residues in contact with ASN 204 (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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200C LYS* 2.7 33.5 + - - +
201C LEU* 3.9 5.7 - - + +
203C GLU* 1.3 76.5 - - - +
205C ILE* 1.3 59.2 + - - +
207C ILE* 3.6 2.5 + - - +
208C VAL* 3.1 31.2 + - - +
233C LEU* 3.3 36.7 - - + +
236C ASN* 3.3 32.2 + - - +
237C LEU* 4.0 12.8 - - + +
240C MET* 4.1 9.3 - - - +
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Residues in contact with ILE 205 (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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201C LEU 3.2 15.1 + - - +
202C ASN* 3.0 27.8 - - - +
204C ASN* 1.3 76.0 - - - +
206C ARG* 1.3 58.4 + - + +
207C ILE 3.1 1.6 - - - -
208C VAL* 3.2 10.0 + - + +
209C SER* 2.7 48.5 + - - +
300C GLU* 3.7 34.1 - - + +
476C PHE* 5.0 8.1 - - + -
502C 0XV 3.6 34.8 - - + -
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Residues in contact with ARG 206 (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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167C THR* 5.9 4.2 - - - +
202C ASN* 2.7 44.4 + - - +
203C GLU* 3.2 10.2 + - + +
205C ILE* 1.3 80.9 - - + +
207C ILE* 1.3 61.6 + - + +
209C SER* 4.1 6.7 - - - -
210C THR* 3.2 24.1 + - - -
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Residues in contact with ILE 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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102C LEU* 6.2 0.2 - - + -
203C GLU* 3.2 35.2 - - + +
204C ASN* 3.7 7.4 - - - +
205C ILE 3.1 0.6 - - - -
206C ARG* 1.3 81.7 - - + +
208C VAL* 1.3 57.3 + - - +
210C THR* 2.9 23.6 - - - +
213C ILE* 3.0 29.5 - - + +
229C THR* 3.8 48.7 - - + +
230C HIS* 4.7 0.9 - - - +
232C LYS* 4.3 6.5 - - + -
233C LEU* 3.9 32.5 - - + +
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Residues in contact with VAL 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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100C PHE* 5.3 9.0 - - + -
102C LEU* 4.8 14.6 - - + -
204C ASN 3.1 17.9 + - - +
205C ILE* 3.2 9.7 + - + +
207C ILE* 1.3 75.9 - - + +
209C SER* 1.3 62.1 + - - +
210C THR 3.4 1.6 - - - -
213C ILE* 4.1 8.8 - - + +
214C GLN* 3.6 19.4 + - - +
233C LEU* 3.5 20.0 - - + -
476C PHE* 4.4 16.9 - - + +
502C 0XV 3.8 30.3 - - + -
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Residues in contact with SER 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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205C ILE* 2.7 33.6 + - - +
206C ARG* 4.1 6.7 - - - -
207C ILE 3.4 0.4 - - - -
208C VAL* 1.3 74.6 - - - +
210C THR* 1.3 60.4 + - - +
211C PRO 3.6 0.3 - - - -
214C GLN* 3.1 19.4 + - - +
474C ASN* 3.3 17.8 + - - +
476C PHE* 5.3 4.9 - - - -
477C ALA* 5.1 14.0 + - - +
479C VAL* 5.2 10.0 - - - +
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Residues in contact with THR 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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206C ARG 3.2 15.2 + - - +
207C ILE* 2.9 31.2 - - + +
208C VAL 4.0 0.9 - - - +
209C SER* 1.3 77.6 - - - +
211C PRO* 1.3 73.4 - - - +
212C TRP* 3.2 13.0 + - + +
213C ILE* 3.9 15.8 - - + +
214C GLN* 3.0 21.1 + - - +
229C THR* 5.5 4.5 - - + +
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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
------------------------------------------------------------
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