Contacts of the helix formed by residues 197 - 211 (chain C) in PDB entry 6R7H
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 197 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192C TYR* 2.9 49.2 + - + +
195C LEU* 2.7 38.5 + - - +
196C LYS* 1.3 78.5 + - - +
198C PHE* 1.3 63.1 + - - +
199C GLU* 3.2 8.2 + - - +
200C ARG* 3.5 9.2 + - + +
201C ALA* 3.2 17.0 + - - +
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Residues in contact with PHE 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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193C THR* 4.5 22.7 - - + -
196C LYS* 3.8 25.1 + - + -
197C ASN* 1.3 71.3 - - - +
199C GLU* 1.3 68.1 + - - +
200C ARG 3.3 0.2 - - - -
201C ALA* 3.9 7.9 - - + -
202C LEU* 3.5 17.3 + - - +
230C VAL* 4.6 20.2 - - + +
233C ILE* 3.6 46.4 - - + -
234C LEU* 3.5 41.2 - - + +
297C GLN* 4.8 14.1 - - + -
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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
----------------------------------------------------------
441A LEU* 4.8 18.8 - - + -
445A GLU* 5.2 0.9 - - - +
448A ARG* 2.6 33.7 + - - +
196C LYS 5.3 1.6 - - - +
197C ASN* 3.2 5.3 - - + -
198C PHE* 1.3 86.0 + - - +
200C ARG* 1.3 58.7 + - + +
202C LEU* 4.3 3.0 + - - +
203C TYR 4.2 6.4 + - - -
234C LEU* 3.7 25.8 - - + +
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Residues in contact with ARG 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444A LYS* 4.7 11.1 - - - +
448A ARG* 3.7 29.0 - - - +
162C LEU 4.1 10.3 + - - -
163C ASP* 3.9 17.8 + - - +
165C ASP* 3.0 42.0 + - - +
166C MET* 5.6 1.8 - - - +
192C TYR* 3.7 39.9 + - + -
197C ASN* 3.5 11.3 + - + +
199C GLU* 1.3 79.8 - - + +
201C ALA* 1.3 64.1 + - - +
202C LEU 3.3 0.4 - - - -
203C TYR* 3.6 8.8 + - - +
204C PHE* 3.2 51.7 + - - +
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Residues in contact with ALA 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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189C GLY 4.1 5.6 - - - +
192C TYR* 3.8 17.4 - - + +
193C THR* 4.0 20.2 - - - +
197C ASN 3.2 17.3 + - - +
198C PHE* 3.7 9.1 + - + -
199C GLU 3.5 0.2 - - - -
200C ARG* 1.3 75.7 - - - +
202C LEU* 1.3 61.8 + - - +
204C PHE* 4.0 4.0 - - - +
205C TYR* 3.2 35.3 + - + -
230C VAL* 4.5 9.9 - - + -
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Residues in contact with LEU 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A GLU* 5.3 8.1 - - - +
198C PHE 3.5 15.3 + - - +
199C GLU* 4.6 4.0 - - - +
200C ARG 3.3 0.6 - - - -
201C ALA* 1.3 79.8 - - - +
203C TYR* 1.3 61.4 + - - +
205C TYR* 3.8 1.2 + - + -
206C GLU* 3.3 36.4 + - - +
227C TYR* 3.6 35.2 - - + +
230C VAL* 4.0 21.5 - - + +
231C SER* 4.4 16.8 - - - +
234C LEU* 4.9 9.2 - - + -
239C GLN* 5.4 11.7 - - + +
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Residues in contact with TYR 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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445A GLU* 4.0 15.4 + - - +
448A ARG* 3.4 63.7 + - + +
449A ARG* 4.6 2.7 - - + -
451A LYS* 5.0 1.6 - - - +
452A ALA* 3.3 28.9 + - + +
455A LEU* 5.1 1.9 - - - +
165C ASP* 4.0 19.4 + - - +
166C MET* 5.4 5.0 + - - -
185C TYR* 3.5 13.5 + + - -
199C GLU 4.2 1.4 + - - +
200C ARG* 3.6 10.5 + - - +
201C ALA 3.3 0.2 - - - -
202C LEU* 1.3 80.7 - - - +
204C PHE* 1.3 96.1 + + - +
206C GLU* 3.4 12.6 + - + +
207C GLN* 3.5 26.7 + - + +
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Residues in contact with PHE 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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162C LEU* 4.0 25.6 - - + -
166C MET* 4.8 8.1 - - + -
184C TYR* 4.1 18.6 - + - -
185C TYR* 3.2 58.9 - + - +
188C GLY* 3.7 35.0 - - - -
189C GLY* 3.9 12.3 - - - -
192C TYR* 4.0 11.4 - + - -
200C ARG* 3.2 34.4 + - - +
201C ALA* 3.5 4.0 + - - +
202C LEU 3.4 0.2 - - - -
203C TYR* 1.3 109.4 - + - +
205C TYR* 1.3 60.7 + - - +
206C GLU 3.4 0.3 + - - -
207C GLN 3.6 4.2 + - - -
208C ALA 4.0 0.3 + - - -
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Residues in contact with TYR 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185C TYR 4.4 6.5 - - - -
186C TYR* 3.9 27.6 - + - -
189C GLY* 3.2 23.1 + - - -
190C MET* 3.2 27.5 + - - +
193C THR* 3.9 10.6 + - - -
201C ALA* 3.2 26.0 + - + +
202C LEU* 4.4 1.6 - - + +
204C PHE* 1.3 75.2 - - - +
206C GLU* 1.3 62.0 + - - +
208C ALA* 3.8 7.9 + - + +
209C ILE* 3.4 23.4 - - - +
223C SER* 4.6 15.3 - - - +
226C LYS* 3.3 41.2 - - + +
227C TYR* 4.3 17.5 - - + -
230C VAL* 4.2 20.2 - - + -
294C LEU* 6.2 0.6 - - + +
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Residues in contact with GLU 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445A GLU* 6.1 1.4 - - - -
449A ARG* 5.0 13.0 - - - +
202C LEU* 3.3 27.7 + - - +
203C TYR* 3.8 8.9 - - - +
204C PHE 3.2 0.8 - - - -
205C TYR* 1.3 77.4 - - - +
207C GLN* 1.3 74.8 + - - +
208C ALA 3.3 0.2 - - - -
209C ILE* 3.5 4.6 + - - +
210C THR* 3.1 32.9 + - + +
227C TYR* 3.5 30.2 + - + +
239C GLN* 5.6 2.1 - - - +
240C GLN 5.4 1.9 - - - +
241C LEU* 5.2 4.5 - - + -
242C PRO* 4.1 21.3 - - + +
244C TYR* 5.6 0.7 + - - -
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Residues in contact with GLN 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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449A ARG* 5.1 7.9 - - - +
452A ALA* 3.5 24.2 - - - +
181C PHE* 4.9 7.1 - - + -
185C TYR* 3.6 46.7 - - + +
203C TYR* 3.5 33.8 + - + +
204C PHE 3.6 0.4 + - - -
205C TYR 3.4 0.4 - - - -
206C GLU* 1.3 96.6 + - - +
208C ALA* 1.3 59.2 + - - +
209C ILE 3.2 0.2 - - - -
210C THR* 3.2 12.4 + - - +
211C THR* 2.9 20.3 + - - -
244C TYR* 4.1 15.6 + - - -
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Residues in contact with ALA 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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182C LEU* 3.8 32.7 - - + +
185C TYR* 4.1 21.4 - - + +
186C TYR* 4.8 3.4 - - - +
204C PHE 4.0 3.1 + - - +
205C TYR* 3.8 7.9 + - + +
206C GLU 3.3 0.4 - - - -
207C GLN* 1.3 78.9 - - - +
209C ILE* 1.3 59.3 + - - +
211C THR* 4.2 4.8 + - - +
219C ILE* 5.5 1.1 - - + +
220C MET* 4.4 14.2 - - - +
223C SER* 3.6 26.5 + - - +
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Residues in contact with ILE 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 TYR 3.4 19.3 - - - +
206C GLU* 3.5 5.7 + - - +
207C GLN 3.2 0.4 - - - -
208C ALA* 1.3 79.8 - - - +
210C THR* 1.3 62.1 + - - +
211C THR 3.1 13.4 + - - +
220C MET* 5.4 3.1 - - - +
223C SER* 3.6 30.7 - - - +
224C TYR* 3.8 16.2 - - + +
227C TYR* 3.8 25.8 - - + -
241C LEU* 3.9 24.5 - - + -
245C THR* 3.5 7.7 + - - +
246C SER 4.1 1.6 + - - -
249C VAL* 4.0 37.4 - - + +
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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 GLU* 3.1 23.4 + - + +
207C GLN* 3.2 15.5 + - - +
209C ILE* 1.3 72.6 - - - +
211C THR* 1.3 63.1 + - - +
212C PRO* 3.3 7.8 - - - +
241C LEU* 5.0 2.0 - - + -
242C PRO* 3.7 33.2 - - + -
244C TYR* 3.4 53.7 + - + +
245C THR* 3.8 15.9 - - - +
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Residues in contact with THR 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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456A ARG* 4.4 22.4 - - - +
466A VAL* 5.1 3.6 - - + -
181C PHE* 4.3 14.6 - - + -
182C LEU* 3.5 34.4 - - + +
207C GLN 2.9 18.2 + - - -
208C ALA 4.3 3.5 - - - +
209C ILE 3.1 9.2 - - - +
210C THR* 1.3 77.1 + - - +
212C PRO* 1.3 80.3 - - + +
213C ALA* 3.9 3.3 + - - +
220C MET* 4.8 6.6 - - - +
246C SER* 3.7 6.3 - - - -
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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