Contacts of the helix formed by residues 159 - 169 (chain C) in PDB entry 3MAX
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 159 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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72C TYR* 4.9 2.9 - - + -
73C HIS* 2.9 19.3 + - + +
144C LEU 3.5 13.9 + - - +
145C HIS 3.4 21.4 + - - -
147C ALA* 2.8 29.5 + - + +
158C VAL* 1.3 68.4 - - - +
160C ASP* 1.3 62.4 + - - +
161C ILE* 3.3 13.3 + - - +
162C VAL* 3.2 32.1 + - + +
163C LEU* 3.2 26.5 + - - +
187C GLY 3.7 12.5 - - - -
188C VAL* 3.9 1.5 - - - +
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Residues in contact with ASP 160 (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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118C SER 4.1 0.7 - - - +
119C THR* 3.6 42.6 - - - +
122C SER* 2.6 27.6 + - - +
123C VAL* 4.8 0.7 - - - +
142C GLY* 3.3 5.3 - - - -
143C GLY* 2.8 20.9 + - - -
144C LEU* 2.8 36.3 + - + +
158C VAL 3.1 5.6 + - - +
159C ASN* 1.3 69.4 - - - +
161C ILE* 1.3 64.4 + - - +
163C LEU* 3.4 2.0 + - - +
164C ALA* 2.8 30.8 + - - +
303C LEU* 4.1 1.4 - - - +
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Residues in contact with ILE 161 (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 GLY* 3.5 41.3 - - - +
144C LEU 4.0 0.2 - - - +
145C HIS* 3.6 14.8 - - + -
159C ASN* 3.2 7.4 - - - +
160C ASP* 1.3 83.0 - - - +
162C VAL* 1.3 52.1 + - - +
164C ALA* 3.2 5.8 + - - +
165C ILE* 2.7 49.1 + - + +
177C TYR* 3.4 49.6 - - + +
188C VAL* 3.7 10.3 - - + -
263C VAL* 4.1 10.3 - - + -
265C GLN* 3.9 4.7 - - + -
303C LEU* 3.9 7.4 - - + -
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Residues in contact with VAL 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C TYR* 3.6 38.4 - - + -
159C ASN* 3.2 34.4 + - + +
161C ILE* 1.3 74.3 - - - +
163C LEU* 1.3 53.2 + - - +
165C ILE* 3.2 2.3 + - - +
166C LEU* 2.8 38.4 + - + +
187C GLY 4.1 1.1 - - - +
188C VAL* 4.0 14.4 - - + -
191C ALA* 3.7 22.2 - - + -
192C PHE* 3.8 24.9 - - + -
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Residues in contact with LEU 163 (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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68C GLU* 3.4 32.9 - - + +
69C MET* 3.9 25.1 - - + +
71C LYS* 4.1 7.7 - - + +
72C TYR* 3.9 21.8 - - + +
73C HIS* 4.6 2.7 - - + -
119C THR* 3.7 23.3 - - + -
123C VAL* 4.0 17.4 - - + +
158C VAL* 3.9 17.0 - - + -
159C ASN 3.2 14.8 + - - +
160C ASP* 3.7 6.7 - - - +
162C VAL* 1.3 76.3 - - - +
164C ALA* 1.3 60.8 + - - +
166C LEU* 3.4 7.3 + - + +
167C GLU* 3.1 21.8 + - - +
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Residues in contact with ALA 164 (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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122C SER* 3.6 27.1 - - - +
123C VAL* 4.1 7.0 - - - +
126C ALA* 3.5 12.3 - - + +
160C ASP 2.8 21.4 + - - +
161C ILE* 3.5 5.8 - - - +
163C LEU* 1.3 71.4 - - - +
165C ILE* 1.3 59.4 + - + +
167C GLU* 3.2 5.7 + - - +
168C LEU* 2.9 26.6 + - - +
263C VAL* 5.7 0.2 - - + -
301C LEU* 3.6 21.5 - - + -
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Residues in contact with ILE 165 (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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161C ILE* 2.7 39.9 + - + +
162C VAL 3.7 3.8 - - - +
164C ALA* 1.3 70.5 - - - +
166C LEU* 1.3 64.0 + - - +
168C LEU* 3.1 7.5 + - - +
169C LEU* 2.9 25.4 + - + +
175C VAL* 4.2 12.8 - - + -
177C TYR* 4.1 25.8 - - + -
188C VAL* 4.1 3.1 - - + -
192C PHE* 3.4 31.6 - - + -
198C VAL* 3.6 25.1 - - + -
263C VAL* 3.8 22.4 - - + -
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Residues in contact with LEU 166 (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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71C LYS* 3.9 39.5 - - + +
72C TYR* 4.3 16.4 - - + -
162C VAL* 2.8 26.5 + - + +
163C LEU* 3.7 9.2 - - + +
165C ILE* 1.3 73.4 - - - +
167C GLU* 1.3 61.2 + - - +
169C LEU* 3.3 21.7 + - + +
170C LYS* 3.7 14.2 + - - +
192C PHE* 3.9 22.2 - - + -
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Residues in contact with GLU 167 (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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68C GLU* 5.0 1.0 - - - +
71C LYS* 4.2 11.8 + - - -
123C VAL* 4.4 11.8 - - + +
126C ALA* 3.8 12.8 - - + -
127C VAL* 3.7 30.6 - - + +
130C ASN* 2.9 33.9 + - - +
163C LEU 3.1 14.2 + - - +
164C ALA* 3.4 9.6 - - - +
166C LEU* 1.3 76.1 - - - +
168C LEU* 1.3 61.9 + - - +
170C LYS* 3.0 52.5 + - - +
171C TYR* 4.9 3.5 - - - -
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Residues in contact with LEU 168 (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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126C ALA* 3.7 27.6 - - + +
129C LEU* 4.1 14.1 - - + -
130C ASN* 3.5 17.8 - - - +
164C ALA 2.9 18.7 + - - +
165C ILE* 3.1 8.0 + - - +
167C GLU* 1.3 76.2 - - - +
169C LEU* 1.3 57.3 + - - +
170C LYS 3.1 0.2 - - - -
171C TYR 3.1 3.1 + - - -
172C HIS* 2.9 46.1 + - + +
175C VAL* 4.1 20.6 - - + -
261C ALA* 4.6 10.3 - - + -
262C VAL 5.2 0.9 - - - +
263C VAL* 3.6 31.2 - - + -
301C LEU* 4.6 8.3 - - + -
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Residues in contact with LEU 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165C ILE* 2.9 26.9 + - + +
166C LEU* 3.7 15.5 - - + +
167C GLU 3.2 0.8 - - - -
168C LEU* 1.3 73.9 - - - +
170C LYS* 1.3 62.6 + - - +
171C TYR 3.2 0.4 - - - -
172C HIS 3.4 17.8 + - - +
173C GLN 4.1 0.2 - - - +
175C VAL* 3.9 10.8 - - + -
192C PHE* 4.3 11.2 - - + -
195C THR* 6.1 0.9 - - + -
197C ARG* 2.7 73.8 + - + +
198C VAL* 3.8 19.1 - - + -
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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