Contacts of the helix formed by residues 144 - 158 (chain C) in PDB entry 2OX4
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 ARG 144 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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143C GLY* 1.3 73.2 - - - -
145C LYS* 1.3 60.5 + - - +
146C GLU* 3.9 14.5 + - + +
147C GLU* 2.8 54.5 + - + +
148C TYR* 3.3 7.8 - - - -
172C ARG* 3.3 50.4 + - - +
173C ASN* 4.6 8.2 - - - +
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Residues in contact with LYS 145 (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 3.8 2.2 + - - -
144C ARG* 1.3 73.0 - - - +
146C GLU* 1.3 85.0 + - + +
148C TYR* 3.3 12.2 + - - +
149C ALA 3.3 15.2 + - - -
195C GLU* 3.8 61.5 + - + +
196C ARG* 4.4 4.5 - - + -
199C ALA* 3.5 17.9 - - + +
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Residues in contact with GLU 146 (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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144C ARG* 3.1 16.4 + - + +
145C LYS* 1.3 101.4 + - + +
147C GLU* 1.3 61.7 + - + +
149C ALA* 3.4 8.1 + - - +
150C GLU* 2.9 43.5 + - - +
199C ALA* 5.4 0.2 - - - -
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Residues in contact with GLU 147 (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 LYS* 3.8 27.3 - - + +
143C GLY* 2.9 15.8 + - - -
144C ARG* 2.8 47.5 + - + +
146C GLU* 1.3 77.5 - - + +
148C TYR* 1.3 59.1 + - - +
150C GLU* 3.4 16.9 + - - +
151C GLU* 3.0 37.3 + - - +
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Residues in contact with TYR 148 (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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131C LEU* 4.5 4.4 - - + +
132C GLN* 3.6 33.7 - - + +
142C LYS* 2.7 41.5 + - + -
143C GLY 4.1 1.1 - - - -
144C ARG 3.3 15.3 - - - -
145C LYS 3.5 7.0 - - - +
146C GLU 3.3 0.4 - - - -
147C GLU* 1.3 74.1 - - - +
149C ALA* 1.3 63.6 + - - +
151C GLU* 4.0 4.8 - - - +
152C ALA* 3.1 23.0 + - - +
165C VAL* 3.5 24.2 - - + -
166C ASP 3.9 6.9 + - - -
167C VAL* 4.6 0.7 - - + -
170C HIS* 4.2 5.4 - - - +
196C ARG* 3.4 60.3 + - + +
200C ILE* 3.6 18.5 - - + +
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Residues in contact with ALA 149 (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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145C LYS 3.3 8.5 + - - +
146C GLU* 3.4 10.1 + - - +
148C TYR* 1.3 77.1 - - - +
150C GLU* 1.3 56.7 + - - +
152C ALA* 3.3 3.6 + - - +
153C LEU* 3.0 35.6 + - + +
199C ALA* 3.6 27.3 - - + +
200C ILE* 4.0 12.4 - - - +
203C ALA* 3.9 10.6 - - + +
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Residues in contact with GLU 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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146C GLU* 2.9 34.7 + - - +
147C GLU* 3.6 16.0 + - - +
148C TYR 3.3 0.2 - - - -
149C ALA* 1.3 72.8 - - - +
151C GLU* 1.3 74.7 + - - +
153C LEU* 3.3 11.4 + - + +
154C LYS* 3.0 33.2 + - - +
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Residues in contact with GLU 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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131C LEU* 3.5 40.4 - - + +
134C GLY* 3.4 2.5 - - - -
135C TRP* 2.8 28.8 + - - +
142C LYS* 3.8 25.3 - - + +
147C GLU* 3.0 22.3 + - - +
148C TYR* 4.0 4.9 - - - +
150C GLU* 1.3 81.0 - - - +
152C ALA* 1.3 65.1 + - - +
154C LYS* 3.0 39.4 + - - +
155C ALA* 3.1 21.5 + - - +
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Residues in contact with ALA 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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131C LEU* 3.7 18.5 - - + +
148C TYR 3.1 13.5 + - - +
149C ALA* 3.5 9.9 - - - +
151C GLU* 1.3 76.9 - - - +
153C LEU* 1.3 57.8 + - - +
155C ALA* 3.2 5.0 + - - +
156C VAL* 3.0 30.0 + - - +
163C VAL* 4.5 5.0 - - + +
200C ILE* 3.8 20.2 - - + -
204C VAL* 3.7 21.3 - - + -
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Residues in contact with LEU 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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149C ALA* 3.0 24.1 + - + +
150C GLU* 3.7 8.7 - - + +
152C ALA* 1.3 74.1 - - - +
154C LYS* 1.3 58.8 + - - +
156C VAL* 3.3 11.9 + - + +
157C ALA* 2.9 31.1 + - - +
203C ALA* 3.5 39.7 - - + +
204C VAL* 4.5 6.7 - - + -
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Residues in contact with LYS 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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135C TRP* 3.7 23.4 + - + +
150C GLU* 3.0 24.9 + - - +
151C GLU* 3.0 44.7 + - - +
153C LEU* 1.3 74.3 - - - +
155C ALA* 1.3 62.6 + - - +
157C ALA* 3.5 7.6 + - - +
158C GLU* 3.3 27.0 + - - +
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Residues in contact with ALA 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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128C ALA* 3.6 31.0 - - + -
131C LEU* 4.4 2.7 - - + -
135C TRP* 3.9 15.8 - - + +
151C GLU 3.1 12.2 + - - +
152C ALA 3.2 8.7 + - - +
154C LYS* 1.3 76.7 - - - +
156C VAL* 1.3 62.2 + - - +
158C GLU 3.0 10.2 + - - -
160C TYR* 3.2 25.8 + - + -
163C VAL* 3.9 13.0 - - + -
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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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152C ALA 3.0 16.5 + - - +
153C LEU* 3.3 16.4 + - + +
155C ALA* 1.3 75.8 - - + +
157C ALA* 1.3 58.2 + - - +
159C GLY* 2.9 20.8 + - - -
160C TYR 3.6 14.5 + - - +
163C VAL* 5.2 1.8 - - + -
204C VAL* 3.8 25.8 - - + +
208C VAL* 3.8 28.7 - - + -
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Residues in contact with ALA 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 LEU 2.9 17.5 + - - +
154C LYS* 3.7 9.0 - - - +
155C ALA 3.2 0.2 - - - -
156C VAL* 1.3 76.9 - - - +
158C GLU* 1.3 60.6 + - + +
159C GLY 3.5 0.5 + - - -
362C LYS* 3.6 12.5 + - - -
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Residues in contact with GLU 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C TRP* 3.0 32.7 + - - +
154C LYS* 3.3 10.6 + - - +
155C ALA 3.0 10.3 + - - +
157C ALA* 1.3 78.7 - - + +
159C GLY* 1.3 56.9 + - - +
160C TYR* 3.6 17.5 + - + -
346C LEU* 5.7 2.8 - - - +
362C LYS* 3.7 26.9 + - - +
363C GLY 4.1 2.1 + - - -
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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