Contacts of the helix formed by residues 142 - 159 (chain C) in PDB entry 2OAT
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 GLY 142 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141C THR* 1.3 72.5 - - - +
143C VAL* 1.3 60.6 + - - +
145C ALA 3.1 9.9 + - - -
146C GLY* 3.1 9.7 + - - -
178C TRP 4.3 0.2 - - - +
265C ILE* 3.5 33.2 - - - +
291C GLY* 5.6 1.1 - - - -
292C LYS 6.1 0.6 - - - +
302C SER* 4.3 5.7 - - - -
440C PFM 2.8 33.9 + - - -
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Residues in contact with VAL 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C THR* 3.6 10.3 - - - +
142C GLY* 1.3 72.5 - - - +
144C GLU* 1.3 63.4 + - + +
146C GLY* 3.1 2.4 + - - +
147C GLU* 2.8 33.3 + - + +
178C TRP* 3.3 25.6 - - + +
179C GLY* 3.8 12.6 - - - -
180C ARG 4.0 4.3 - - - +
181C THR* 3.3 43.7 - - + +
184C ALA* 3.8 5.8 - - + -
440C PFM 2.8 24.5 + - - +
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Residues in contact with GLU 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C MET* 3.6 26.2 - - + +
140C ASN* 2.9 40.5 + - - +
141C THR* 3.2 27.1 + - - +
142C GLY 3.2 0.6 - - - -
143C VAL* 1.3 84.3 - - + +
145C ALA* 1.4 57.7 + - - +
147C GLU* 3.4 8.2 + - + +
148C THR* 2.7 33.4 + - - -
181C THR* 6.5 0.2 - - + -
321C SER* 4.3 4.4 + - - -
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Residues in contact with ALA 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C MET* 4.6 2.2 - - + -
141C THR 3.2 2.6 + - - -
142C GLY 3.1 9.1 + - - +
144C GLU* 1.4 79.6 - - - +
146C GLY* 1.3 58.5 + - - +
148C THR* 3.3 3.0 + - - -
149C ALA* 2.9 26.9 + - - +
265C ILE* 4.5 3.4 - - + -
289C LEU* 3.8 12.9 - - + +
290C LEU 4.5 0.2 - - - +
302C SER* 3.8 21.7 + - - +
303C ALA 4.0 11.4 - - - +
304C VAL* 3.5 28.2 - - + +
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Residues in contact with GLY 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C GLY 3.1 8.6 + - - -
143C VAL 3.1 7.3 + - - -
145C ALA* 1.3 77.3 - - - +
147C GLU* 1.3 56.0 + - - +
149C ALA* 3.1 4.1 + - - +
150C CYS* 2.9 31.7 + - - -
178C TRP* 3.5 22.2 - - - -
228C MET* 4.4 3.8 - - - +
289C LEU* 3.8 19.1 - - - +
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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
----------------------------------------------------------
139C MET* 6.3 0.4 - - + -
143C VAL* 2.8 24.9 + - + +
144C GLU* 3.8 8.3 - - + +
146C GLY* 1.3 71.8 - - - +
148C THR* 1.3 62.6 + - - +
150C CYS* 3.2 8.3 + - - +
151C LYS* 3.0 36.0 + - + +
178C TRP* 3.5 8.9 - - + -
181C THR* 2.7 40.1 + - + +
183C SER* 3.4 26.3 + - - -
319C HIS* 5.8 2.5 - - + -
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Residues in contact with THR 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C LEU* 3.7 26.7 - - + -
139C MET* 3.4 10.7 - - - +
144C GLU 2.7 21.9 + - - -
145C ALA 3.4 5.2 - - - -
147C GLU* 1.3 77.5 - - - +
149C ALA* 1.4 58.4 + - - +
151C LYS* 3.2 4.3 + - - +
152C LEU* 2.8 40.0 + - + +
304C VAL* 3.8 15.0 - - + -
314C ILE* 5.0 1.7 - - + +
319C HIS* 2.9 35.4 + - + +
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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
----------------------------------------------------------
145C ALA 2.9 13.7 + - - +
146C GLY* 3.1 9.8 + - - +
148C THR* 1.4 78.0 - - - +
150C CYS* 1.3 56.8 + - - +
152C LEU* 3.3 11.9 + - - +
153C ALA* 2.9 29.8 + - - +
228C MET* 5.5 1.1 - - - -
261C ILE* 4.1 21.4 - - + +
287C ILE* 4.1 13.6 - - + +
289C LEU* 3.6 22.9 - - + -
304C VAL* 4.7 0.9 - - + +
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Residues in contact with CYS 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 GLY 2.9 17.2 + - - -
147C GLU* 3.2 10.3 + - - +
149C ALA* 1.3 76.1 - - - +
151C LYS* 1.3 60.5 + - + +
153C ALA* 3.3 1.8 + - - +
154C ARG* 2.9 38.0 + - - +
170C ILE* 3.7 28.1 - - + +
172C PHE* 4.2 8.7 - - - -
178C TRP* 3.9 26.2 - - - -
204C PHE* 4.2 13.5 - - + -
228C MET* 4.9 6.3 - - - -
261C ILE* 5.1 2.2 - - - -
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Residues in contact with LYS 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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147C GLU* 3.0 22.0 + - + +
148C THR* 3.6 7.2 - - - +
150C CYS* 1.3 73.6 - - + +
152C LEU* 1.3 66.4 + - - +
154C ARG* 3.4 8.2 + - - +
155C LYS* 2.9 27.3 + - - +
314C ILE* 4.5 11.2 - - + -
318C GLU 3.8 15.7 + - - -
319C HIS* 2.8 42.4 + - + +
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Residues in contact with LEU 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C LEU* 5.3 0.9 - - + -
148C THR* 2.8 32.4 + - + +
149C ALA* 3.6 6.3 - - - +
151C LYS* 1.3 79.0 - - - +
153C ALA* 1.3 59.7 + - - +
155C LYS* 3.9 2.3 - - - +
156C TRP* 2.8 31.7 + - - +
287C ILE* 4.2 5.6 - - + -
304C VAL* 3.8 27.6 - - + -
306C CYS* 4.6 4.9 - - - -
310C ILE* 3.8 35.4 - - + +
311C MET* 3.8 25.4 - - - +
313C THR* 3.9 2.9 + - - +
314C ILE* 3.3 30.7 - - + +
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Residues in contact with ALA 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 2.9 16.7 + - - +
150C CYS 3.7 4.7 - - - +
151C LYS 3.3 0.2 - - - -
152C LEU* 1.3 78.4 - - - +
154C ARG* 1.3 58.5 + - - +
156C TRP* 3.7 1.9 - - - +
157C GLY 2.8 23.4 + - - -
170C ILE* 4.3 9.0 - - + -
225C ALA* 3.5 13.2 - - + +
226C ALA* 3.6 31.0 - - + -
259C LEU* 3.9 15.7 - - + -
261C ILE* 4.3 5.4 - - + -
287C ILE* 4.8 0.9 - - + +
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Residues in contact with ARG 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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150C CYS* 2.9 25.0 + - - +
151C LYS* 3.8 8.3 - - - +
153C ALA* 1.3 73.6 - - - +
155C LYS* 1.3 60.6 + - - +
157C GLY* 3.0 2.4 + - - -
158C TYR* 2.9 52.2 + - + +
168C ALA* 4.4 27.5 + - + +
170C ILE* 4.3 17.1 - - + +
201C MET* 3.7 21.8 - - - +
202C PRO* 3.2 25.9 + - - +
203C GLY* 4.6 4.9 + - - -
204C PHE* 3.6 21.3 - - - -
225C ALA* 4.9 0.2 - - - -
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Residues in contact with LYS 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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151C LYS 2.9 19.3 + - - +
152C LEU* 4.5 0.9 - - - -
154C ARG* 1.3 76.5 - - - +
156C TRP* 1.3 54.1 + - - +
158C TYR* 3.9 6.9 - - + -
159C THR* 2.7 55.6 + - + +
313C THR* 2.8 47.1 + - - +
314C ILE* 4.4 9.2 - - + +
315C LYS* 4.8 4.9 - - - +
318C GLU* 3.0 32.3 + - - -
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Residues in contact with TRP 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 LEU 2.8 19.1 + - - +
153C ALA 3.8 3.1 - - - +
155C LYS* 1.3 75.3 - - - +
157C GLY* 1.3 74.2 + - - +
159C THR* 3.9 0.2 - - - -
160C VAL* 2.7 61.2 + - + +
161C LYS* 3.0 28.5 + - + -
225C ALA* 3.6 21.1 - - - -
257C GLN* 3.5 44.6 - - + -
259C LEU* 3.6 40.9 - - + +
309C ASP* 3.7 28.2 + - - +
310C ILE* 4.2 14.9 - - + +
313C THR* 3.8 14.7 + - + +
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Residues in contact with GLY 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 ALA 2.8 19.7 + - - -
154C ARG 3.0 4.2 + - - -
156C TRP* 1.3 83.6 - - - +
158C TYR* 1.3 56.6 + - - +
161C LYS* 3.3 5.2 - - - +
162C GLY 2.9 11.4 + - - -
163C ILE* 2.9 43.6 + - - +
168C ALA* 5.3 0.4 - - - -
225C ALA* 4.1 2.7 - - - -
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Residues in contact with TYR 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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154C ARG* 2.9 45.5 + - + +
155C LYS* 4.0 9.0 - - + +
157C GLY* 1.3 74.8 - - - +
159C THR* 1.3 66.5 + - + +
162C GLY* 3.6 15.9 + - - -
163C ILE* 3.2 26.2 - - + +
164C GLN 3.5 18.4 - - - -
165C LYS* 3.7 27.4 - - + -
166C TYR* 3.3 39.9 + + - +
168C ALA* 3.1 38.8 + - + +
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Residues in contact with THR 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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155C LYS* 2.7 53.3 + - + +
158C TYR* 1.3 78.7 - - + +
160C VAL* 1.3 65.8 + - - +
162C GLY* 5.4 0.4 - - - -
313C THR* 3.7 19.1 - - - +
315C LYS* 6.4 0.4 - - - +
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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
------------------------------------------------------------
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