Contacts of the helix formed by residues 149 - 160 (chain C) in PDB entry 2AXZ
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 PHE 149 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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107C LEU* 4.7 2.9 - - + -
145C ARG* 3.8 14.6 - - - -
147C THR* 4.0 18.2 - - + -
148C PHE* 1.3 74.8 - - - +
150C GLY* 1.3 68.1 + - - +
151C ILE* 3.2 6.1 - - + +
152C ASP* 2.5 31.3 + - - +
153C TYR* 3.0 16.0 - - - -
186C TYR* 4.2 0.2 - - - -
10D GLN* 4.8 4.9 - - + -
11D ILE* 3.6 31.4 - - + -
14D GLU* 3.9 19.3 - - + -
15D LEU* 3.9 20.0 - - + -
56D VAL* 3.3 32.1 - - + -
60D GLU* 3.2 12.1 - - - +
64D ARG* 3.4 26.2 - - - +
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Residues in contact with GLY 150 (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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149C PHE* 1.3 70.5 - - - +
151C ILE* 1.3 61.6 + - - +
153C TYR* 3.1 6.7 + - - +
154C GLU* 3.0 20.3 + - - +
185C ASP 5.5 0.4 - - - -
186C TYR* 3.5 20.2 - - - -
189C THR* 3.5 18.8 + - - -
60D GLU* 2.9 25.2 + - - -
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Residues in contact with ILE 151 (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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107C LEU* 3.0 65.1 - - + +
108C GLN* 4.0 8.5 - - + +
111C SER* 3.8 12.6 - - - -
149C PHE* 3.1 7.2 + - + +
150C GLY* 1.3 74.8 - - - +
152C ASP* 1.3 62.1 + - - +
154C GLU* 3.2 18.2 + - - +
155C ILE* 2.9 29.3 + - + +
55D GLY 3.9 20.9 - - - +
56D VAL* 5.1 4.9 - - - -
57D ASN* 5.5 3.0 - - - +
60D GLU* 4.2 2.8 + - - -
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Residues in contact with ASP 152 (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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107C LEU* 3.3 19.1 - - - +
142C TYR* 3.5 20.0 + - + +
145C ARG* 3.1 37.2 + - - -
148C PHE* 3.1 4.7 - - + -
149C PHE* 2.5 34.6 + - - +
151C ILE* 1.3 79.5 - - - +
153C TYR* 1.3 61.0 + - - +
155C ILE* 3.1 4.4 + - - +
156C VAL* 2.9 31.7 + - - +
175C MSE 3.4 18.8 - - + -
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Residues in contact with TYR 153 (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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148C PHE* 3.8 16.6 + - + +
149C PHE 3.0 29.2 - - - -
150C GLY* 3.1 8.2 + - - +
152C ASP* 1.3 77.1 - - - +
154C GLU* 1.3 52.0 + - - +
156C VAL* 4.5 1.3 - - - -
157C SER* 2.6 38.6 + - - -
175C MSE 3.3 35.4 + - + -
176C TYR* 3.4 29.2 - + - -
178C ILE* 3.1 35.6 - - + +
186C TYR* 3.3 22.5 + + - -
189C THR* 3.8 14.6 - - - +
190C ILE* 3.4 18.2 - - + -
193C VAL* 3.1 13.0 - - + +
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Residues in contact with GLU 154 (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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79C LYS* 4.3 19.7 - - - +
108C GLN* 5.9 0.2 - - - -
111C SER* 2.5 28.9 + - - +
150C GLY 3.0 12.3 + - - +
151C ILE* 3.3 21.4 - - - +
153C TYR* 1.3 75.1 - - - +
155C ILE* 1.3 65.9 + - - +
157C SER* 3.2 6.8 + - - -
158C ASN* 3.0 24.2 + - + +
189C THR* 3.7 22.2 - - + +
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Residues in contact with ILE 155 (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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107C LEU* 3.4 36.3 - - + +
110C PHE* 3.6 35.2 - - + -
111C SER* 3.8 10.1 - - - -
114C LEU* 3.7 10.1 - - + -
142C TYR* 3.3 26.2 - - + +
151C ILE* 2.9 30.4 + - + +
152C ASP* 3.1 6.7 + - - +
154C GLU* 1.3 75.9 - - - +
156C VAL* 1.3 53.9 + - + +
158C ASN* 2.3 33.8 + - - +
159C LEU* 2.7 21.5 + - + +
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Residues in contact with VAL 156 (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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142C TYR* 4.8 8.1 - - + +
152C ASP 2.9 19.1 + - - +
153C TYR* 4.0 4.7 - - - +
155C ILE* 1.3 75.4 - - + +
157C SER* 1.3 63.9 + - - +
159C LEU* 3.4 11.8 - - + +
160C LEU* 3.1 23.3 + - + +
168C VAL* 4.0 5.8 - - + -
171C ILE* 4.2 20.0 - - + -
172C ILE* 3.4 36.8 - - + -
175C MSE 3.5 24.7 - - - -
193C VAL* 3.9 13.0 - - + -
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Residues in contact with SER 157 (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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153C TYR 2.6 25.0 + - - -
154C GLU* 3.3 8.2 - - - -
155C ILE 3.1 0.2 - - - -
156C VAL* 1.3 80.1 - - - +
158C ASN* 1.3 60.9 + - - +
159C LEU 3.5 0.2 + - - -
160C LEU* 3.6 12.9 + - - +
161C ASN* 4.1 4.7 + - - +
189C THR* 3.6 3.0 + - - -
192C THR* 3.6 22.6 - - - +
193C VAL* 2.9 31.9 + - - +
196C ASN* 3.5 16.6 - - - +
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Residues in contact with ASN 158 (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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111C SER* 2.8 41.3 + - - +
114C LEU* 2.8 32.2 - - + +
115C GLY* 5.2 3.6 - - - +
118C SER* 5.6 0.4 - - - +
154C GLU* 3.0 12.1 + - + +
155C ILE 2.3 29.6 + - - -
157C SER* 1.3 74.8 - - - +
159C LEU* 1.3 72.8 + - - +
160C LEU 3.3 0.2 - - - -
161C ASN* 2.4 35.6 + - - +
162C VAL* 3.6 4.5 - - - +
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Residues in contact with LEU 159 (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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110C PHE* 6.1 3.1 - - + -
114C LEU* 4.1 15.0 - - + -
134C ILE* 5.4 7.9 - - + -
138C LEU* 4.0 29.2 - - + -
142C TYR* 6.1 0.7 - - + -
155C ILE* 2.7 18.4 + - + +
156C VAL* 3.4 14.1 - - + +
158C ASN* 1.3 82.8 - - - +
160C LEU* 1.3 57.3 + - - +
161C ASN 3.0 5.5 + - - -
162C VAL* 3.1 11.9 + - + +
163C LEU* 3.0 49.3 + - + +
168C VAL* 3.5 30.7 - - + -
171C ILE* 5.1 2.0 - - + -
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Residues in contact with LEU 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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156C VAL 3.1 18.7 + - - +
157C SER* 3.8 8.1 - - - +
158C ASN 3.3 0.2 - - - -
159C LEU* 1.3 76.4 - - - +
161C ASN* 1.3 57.6 + - - +
162C VAL 3.4 0.6 + - - -
163C LEU 3.7 12.1 - - - +
165C TYR* 4.0 22.7 - - + -
168C VAL* 3.5 31.6 - - + -
172C ILE* 4.0 21.1 - - + -
193C VAL* 4.0 10.8 - - + +
196C ASN* 4.0 11.0 - - + -
197C ALA* 3.9 28.5 - - - +
200C ILE* 3.4 29.0 - - + +
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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