Contacts of the helix formed by residues 177 - 195 (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 ASP 177 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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459A VAL* 5.4 0.8 - - - +
464A ILE* 4.3 11.9 - - - +
467A LYS* 4.5 24.0 + - - +
176C TYR* 1.3 96.1 - - - +
178C ALA* 1.3 72.8 + - - +
179C LYS* 3.2 24.3 + - + +
180C HIS* 3.3 30.9 + - + +
181C PHE* 3.5 3.6 + - - +
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Residues in contact with ALA 178 (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* 6.2 2.5 - - - +
464A ILE* 4.3 5.1 - - - +
465A HIS 3.5 14.6 - - - +
466A VAL* 4.2 3.8 - - + -
467A LYS* 3.4 34.7 - - + +
468A SER* 3.6 15.1 + - - +
177C ASP* 1.3 79.2 - - - +
179C LYS* 1.3 61.3 + - - +
181C PHE* 3.5 14.7 + - - +
182C LEU* 3.6 13.3 + - - +
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Residues in contact with LYS 179 (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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467A LYS 3.7 10.4 + - - +
468A SER* 3.0 42.8 + - - +
177C ASP* 3.2 14.8 + - - +
178C ALA* 1.3 77.1 - - - +
180C HIS* 1.3 66.8 + - + +
182C LEU* 3.6 4.2 + - - +
183C CYS* 3.2 28.9 + - - +
219C ILE* 4.6 8.5 - - + +
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Residues in contact with HIS 180 (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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105C HIS* 4.5 17.2 + + - -
140C SER* 3.7 27.5 - - - -
143C ALA* 4.2 10.7 - - + +
175C ALA 5.8 0.4 - - - -
176C TYR* 3.4 22.5 + - + -
177C ASP* 3.3 32.0 + - + +
178C ALA 3.2 0.6 - - - -
179C LYS* 1.3 85.7 - - + +
181C PHE* 1.3 61.7 + - - +
182C LEU 3.3 0.2 - - - -
183C CYS* 3.6 13.4 - - - -
184C TYR* 3.3 26.2 + - - +
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Residues in contact with PHE 181 (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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452A ALA 5.0 2.2 - - - -
455A LEU* 3.8 42.6 - - + -
456A ARG* 4.3 29.2 - - + +
459A VAL* 5.5 5.8 - - + -
138C LEU* 4.8 7.2 - - + -
169C ILE* 6.2 0.7 - - + -
176C TYR* 3.7 28.0 + + + -
177C ASP 3.5 4.9 + - - +
178C ALA* 3.5 11.8 + - - +
179C LYS 3.3 0.4 - - - -
180C HIS* 1.3 80.3 - - - +
182C LEU* 1.3 64.1 + - + +
183C CYS 3.6 0.2 - - - -
184C TYR* 4.2 2.3 - + - +
185C TYR* 3.6 53.5 + + - +
207C GLN* 4.9 6.1 - - + -
211C THR* 4.3 22.0 - - + -
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Residues in contact with LEU 182 (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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468A SER* 3.7 24.7 - - - +
178C ALA 3.6 13.2 + - - +
179C LYS* 4.3 4.0 - - - +
181C PHE* 1.3 85.7 - - + +
183C CYS* 1.3 62.6 + - - +
184C TYR 3.3 0.7 - - - -
185C TYR* 3.9 1.4 + - - +
186C TYR* 3.3 16.5 + - - +
208C ALA* 3.8 23.3 - - + +
211C THR* 3.5 40.8 - - + +
213C ALA* 6.3 0.7 - - + -
217C SER* 5.1 1.6 - - - +
219C ILE* 3.4 34.3 - - + +
220C MET* 4.2 26.0 - - + -
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Residues in contact with CYS 183 (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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143C ALA* 4.3 17.5 - - - -
147C GLN* 6.2 1.3 - - - -
179C LYS 3.2 21.0 + - - +
180C HIS* 3.6 19.7 - - - -
182C LEU* 1.3 75.0 - - - +
184C TYR* 1.3 67.4 + - - +
185C TYR 3.5 0.2 - - - -
186C TYR* 4.0 5.4 - - - -
187C TYR* 3.2 46.2 + - + -
219C ILE* 4.2 14.8 - - + +
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Residues in contact with TYR 184 (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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455A LEU* 5.8 0.2 - - + -
138C LEU* 3.6 37.4 - - + +
142C HIS* 3.9 15.3 + + - -
143C ALA* 4.2 22.9 - - + +
146C CYS* 3.6 30.1 - - - -
162C LEU* 3.4 15.3 - - + +
166C MET* 3.3 34.4 - - + +
176C TYR* 4.5 3.1 - - - +
180C HIS 3.3 20.7 + - - +
181C PHE* 4.6 2.7 - + - +
183C CYS* 1.3 78.5 - - - +
185C TYR* 1.3 79.6 + + - +
187C TYR* 3.6 2.2 + - - +
188C GLY* 3.0 24.6 + - - -
204C PHE* 4.1 16.2 - + - -
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Residues in contact with TYR 185 (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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452A ALA* 4.0 4.2 - - - +
455A LEU* 3.4 25.1 - - + +
166C MET* 5.5 1.7 - - - -
181C PHE* 3.6 50.4 + + - +
182C LEU 3.9 1.4 + - - +
183C CYS 3.5 0.2 - - - -
184C TYR* 1.3 92.4 - + - +
186C TYR* 1.3 61.4 + - - +
189C GLY* 3.3 17.0 + - - -
203C TYR* 3.5 15.5 + - - -
204C PHE* 3.2 69.1 - + - +
205C TYR* 4.4 2.8 - - - -
207C GLN* 3.6 31.8 - - + +
208C ALA* 4.1 15.5 - - + -
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Residues in contact with TYR 186 (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 3.3 18.2 + - - +
183C CYS* 4.2 3.8 - - - +
184C TYR 3.3 0.4 - - - -
185C TYR* 1.3 79.2 - - - +
187C TYR* 1.3 87.2 + + - +
188C GLY 3.6 0.2 + - - -
189C GLY 3.6 6.8 + - - -
190C MET* 3.9 18.0 + - + +
205C TYR* 3.9 19.0 - + - -
208C ALA* 4.8 1.5 - - + +
218C HIS* 5.3 8.1 + + - -
219C ILE* 4.2 20.4 - - + -
222C GLU* 3.4 32.7 + - + +
223C SER* 4.1 17.3 - - - +
226C LYS* 2.7 44.2 + - + -
290C ASN* 4.2 6.8 + - - -
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Residues in contact with TYR 187 (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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143C ALA 4.8 6.1 - - - -
146C CYS* 4.1 22.9 - - + +
147C GLN* 3.7 47.3 - - + +
150C LEU* 3.8 30.1 - - + +
183C CYS* 3.2 31.3 + - + +
184C TYR 4.2 0.7 - - - +
186C TYR* 1.3 104.7 - + - +
188C GLY* 1.3 62.0 + - - +
189C GLY 3.3 0.7 + - - -
190C MET* 3.5 17.2 + - - +
191C ILE* 3.9 14.7 - - - +
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Residues in contact with GLY 188 (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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146C CYS* 4.9 6.0 - - - +
162C LEU* 5.0 5.5 - - - +
184C TYR 3.0 18.1 + - - -
186C TYR 3.3 0.2 - - - -
187C TYR* 1.3 77.8 - - - +
189C GLY* 1.3 61.9 + - - +
190C MET 3.3 0.2 - - - -
191C ILE* 3.5 19.3 + - - +
192C TYR* 3.5 20.8 + - - -
204C PHE* 3.7 19.7 - - - -
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Residues in contact with GLY 189 (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 TYR 3.3 11.3 + - - -
186C TYR 3.6 0.6 + - - -
187C TYR 3.3 0.8 - - - -
188C GLY* 1.3 75.3 - - - +
190C MET* 1.3 63.3 + - - +
192C TYR 3.6 1.6 + - - -
193C THR* 2.8 28.2 + - - -
201C ALA* 4.1 6.6 - - - +
204C PHE* 3.9 13.2 - - - -
205C TYR* 3.2 29.6 + - - -
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Residues in contact with MET 190 (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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150C LEU* 4.1 32.5 - - + -
155C PHE* 4.6 9.4 - - + -
186C TYR* 3.9 21.3 - - + +
187C TYR* 3.5 11.1 + - - +
188C GLY 3.3 0.8 - - - -
189C GLY* 1.3 73.9 - - - +
191C ILE* 1.3 64.8 + - + +
193C THR* 3.8 7.2 - - - -
194C GLY* 3.5 16.1 + - - -
205C TYR* 3.2 15.7 + - - +
226C LYS* 4.5 20.6 - - - -
294C LEU* 4.7 15.5 - - + -
55H TYR* 5.8 0.3 + - - -
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Residues in contact with ILE 191 (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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146C CYS* 5.1 10.8 - - + +
149C CYS* 4.5 8.7 - - + -
155C PHE* 3.7 48.7 - - + +
158C ALA* 3.8 21.5 - - + +
159C LEU* 5.4 2.5 - - + -
162C LEU* 3.8 29.8 - - + -
187C TYR 3.9 15.5 - - - +
188C GLY* 3.5 8.5 + - - +
189C GLY 3.2 1.0 - - - -
190C MET* 1.3 79.6 - - + +
192C TYR* 1.3 67.4 + - + +
194C GLY* 3.6 0.5 + - - -
195C LEU* 3.2 32.7 + - + +
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Residues in contact with TYR 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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159C LEU* 6.4 1.6 - - + -
162C LEU* 2.3 49.0 + - + +
163C ASP* 4.3 3.0 - - - -
188C GLY 3.5 19.0 + - - -
189C GLY 3.6 2.5 + - - +
191C ILE* 1.3 79.8 - - + +
193C THR* 1.3 61.6 + - - +
195C LEU* 3.7 10.5 + - + -
196C LYS 3.7 1.0 + - - -
197C ASN* 2.9 68.8 + - + +
198C PHE* 5.6 0.2 - - - -
200C ARG* 3.7 41.8 + - + -
201C ALA* 3.8 13.2 - - + +
204C PHE* 4.0 25.4 - + - -
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Residues in contact with THR 193 (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 2.8 22.4 + - - -
190C MET* 3.8 8.9 - - - -
191C ILE 3.2 1.0 - - - -
192C TYR* 1.3 81.2 - - - +
194C GLY* 1.3 63.5 + - - +
196C LYS* 3.5 10.0 + - - +
198C PHE* 4.5 17.4 - - + -
201C ALA* 4.0 8.6 - - - +
205C TYR* 3.9 13.3 + - - -
230C VAL* 4.4 7.3 - - + +
294C LEU* 3.8 20.9 - - + +
297C GLN* 3.5 32.7 - - - +
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Residues in contact with GLY 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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155C PHE* 5.5 4.0 - - - -
190C MET 3.5 10.1 + - - -
191C ILE 3.6 1.5 + - - -
192C TYR 3.5 0.2 - - - -
193C THR* 1.3 75.5 - - - +
195C LEU* 1.3 57.3 + - - +
196C LYS* 3.1 15.4 + - - +
297C GLN* 5.4 3.1 - - - -
51H ASN* 2.9 33.0 - - - +
55H TYR* 4.9 11.0 - - - -
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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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155C PHE* 4.8 11.4 - - + -
159C LEU* 3.9 29.2 - - + -
191C ILE* 3.2 24.5 + - + +
192C TYR* 4.3 12.3 - - + +
193C THR 3.3 0.8 - - - -
194C GLY* 1.3 74.0 - - - +
196C LYS* 1.3 65.6 + - - +
197C ASN* 2.7 38.5 + - - +
49H ASP* 5.5 2.9 - - - +
51H ASN* 3.4 23.1 - - + +
52H ASN* 3.7 18.2 - - - +
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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