Contacts of the helix formed by residues 140 - 156 (chain C) in PDB entry 2OZL
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 ALA 140 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C ASN* 5.8 2.9 - - + -
137C ILE* 3.0 24.1 + - + +
138C VAL 3.3 1.6 - - - -
139C GLY* 1.3 76.8 - - - +
141C GLN* 1.3 61.5 + - - +
143C PRO* 3.2 5.4 - - - +
144C LEU* 3.5 11.6 - - + +
174C GLN* 3.3 14.9 - - - +
91D ASP* 3.9 21.8 - - - +
92D GLN* 3.1 23.9 + - - +
96D SER* 4.2 11.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 141 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ILE* 3.8 9.4 - - + +
87C THR* 3.6 27.4 - - - +
88C ALA* 3.9 16.6 - - - +
135C ASN* 3.7 21.2 - - - +
137C ILE 3.7 5.6 + - - +
138C VAL* 4.8 0.3 - - - -
139C GLY 3.4 22.0 + - - +
140C ALA* 1.3 72.4 + - - +
142C VAL* 1.3 61.7 + - - +
143C PRO 3.5 0.2 - - - -
144C LEU* 3.5 12.8 + - - +
145C GLY* 2.9 22.9 + - - -
163C THR* 3.6 5.3 - - + +
164C LEU 3.0 28.6 + - - +
165C TYR* 3.5 21.2 - - - +
169C ALA* 5.0 2.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 142 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C GLY 3.5 7.2 - - - +
141C GLN* 1.3 81.0 - - - +
143C PRO* 1.3 76.0 - - + +
145C GLY* 3.1 2.9 + - - -
146C ALA* 3.0 20.3 + - - +
163C THR* 3.5 10.7 - - + +
165C TYR* 3.9 25.4 - - + -
175C ILE* 3.6 40.8 - - + -
178C ALA* 3.9 12.1 - - + -
191C PHE* 3.7 30.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 143 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C GLY 3.2 12.1 - - - +
140C ALA 3.2 11.0 - - - +
142C VAL* 1.3 92.0 - - + +
144C LEU* 1.3 55.0 + - - +
146C ALA* 3.2 3.2 + - + -
147C GLY 2.9 23.0 + - - -
174C GLN* 3.4 39.0 - - + +
178C ALA* 4.3 10.3 - - + -
61D GLY* 3.6 27.4 - - - +
64D GLY* 3.7 15.3 - - - -
65D ILE* 3.3 13.3 - - + +
92D GLN* 3.8 1.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 144 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ILE* 3.8 14.4 - - + -
132C TYR 5.8 0.2 - - - +
135C ASN* 3.9 21.5 - - - +
140C ALA* 3.5 17.5 - - + +
141C GLN* 3.5 13.0 + - - +
142C VAL 3.1 0.6 - - - -
143C PRO* 1.3 77.9 - - - +
145C GLY* 1.3 57.1 + - - +
147C GLY* 3.0 3.6 + - - -
148C ILE* 2.9 32.8 + - - +
64D GLY 3.4 19.0 + - - +
67D VAL* 3.4 31.0 - - + -
68D GLY* 3.4 6.6 - - - +
71D MET* 3.7 15.5 - - + -
92D GLN* 3.9 9.9 - - - +
96D SER* 3.9 14.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 145 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ILE* 3.8 13.6 - - - +
141C GLN 2.9 14.9 + - - -
142C VAL 3.1 2.6 + - - -
144C LEU* 1.3 76.2 - - - +
146C ALA* 1.3 56.3 + - - +
148C ILE* 3.2 2.6 + - - -
149C ALA* 2.9 26.3 + - - +
161C CYS* 3.5 13.3 - - - -
163C THR* 3.3 23.3 + - - -
189C CYS* 4.3 0.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 146 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C VAL 3.0 12.2 + - - +
143C PRO* 3.5 10.1 - - + +
145C GLY* 1.3 76.1 - - - +
147C GLY* 1.3 58.1 + - - +
149C ALA* 3.3 5.1 + - - +
150C LEU* 2.9 22.0 + - - +
163C THR* 4.2 0.8 + - - -
178C ALA* 4.6 12.8 - - + +
182C ALA* 5.0 0.2 - - + -
187C LEU* 3.5 19.2 - - + +
189C CYS* 4.1 15.9 - - - -
191C PHE* 4.7 6.5 - - + -
65D ILE* 3.9 20.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 147 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C PRO 2.9 10.7 + - - -
144C LEU 3.0 4.8 + - - -
146C ALA* 1.3 75.9 - - - +
148C ILE* 1.3 61.9 + - - +
150C LEU* 3.1 5.6 + - - +
151C ALA 3.1 17.3 + - - -
65D ILE* 3.1 35.6 - - - +
69D ALA* 3.4 16.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 148 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C HIS* 3.7 38.6 - - + +
86C ILE* 4.4 5.2 - - + -
132C TYR* 3.4 42.8 - - + -
144C LEU 2.9 21.3 + - - +
145C GLY* 3.6 11.2 - - - +
147C GLY* 1.3 76.7 - - - +
149C ALA* 1.3 63.4 + - - +
151C ALA* 3.2 4.3 + - - +
152C CYS* 3.0 21.4 + - - -
161C CYS* 3.8 9.6 - - + -
68D GLY 3.4 19.5 - - - +
71D MET* 4.2 7.9 - - + -
72D ALA* 4.3 13.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 149 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145C GLY 2.9 13.1 + - - +
146C ALA 3.4 9.4 - - - +
148C ILE* 1.3 75.7 - - - +
150C LEU* 1.3 65.0 + - - +
152C CYS* 3.1 9.1 + - - +
153C LYS* 3.1 17.8 + - - +
161C CYS* 4.0 9.1 - - + +
187C LEU* 4.1 6.7 - - + -
188C PRO* 3.5 24.6 - - - +
189C CYS* 3.6 28.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 150 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C ALA 2.9 13.0 + - - +
147C GLY* 3.2 9.6 - - - +
149C ALA* 1.3 77.0 - - - +
151C ALA* 1.3 56.7 + - - +
153C LYS* 3.3 9.9 + - + +
154C TYR* 2.9 36.4 + - + +
185C TRP* 4.8 15.5 - - + -
187C LEU* 3.6 27.8 - - + +
24D PHE* 4.1 31.0 - - + -
26D LEU* 5.4 1.6 - - + -
53D ILE* 4.8 15.5 - - + -
65D ILE* 3.8 22.2 - - + -
69D ALA* 4.6 3.6 - - + -
74D LEU* 5.4 2.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 151 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C GLY 3.1 9.4 + - - +
148C ILE 3.2 8.7 + - - +
150C LEU* 1.3 75.6 - - - +
152C CYS* 1.3 59.0 + - - +
154C TYR* 3.4 0.3 - - - +
155C ASN* 2.9 43.8 + - - +
69D ALA 4.4 2.5 - - - +
72D ALA* 3.5 26.9 - - + -
74D LEU* 3.6 29.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 152 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C HIS* 3.4 38.6 - - - -
148C ILE* 3.0 20.1 + - - -
149C ALA* 3.1 9.4 + - - +
151C ALA* 1.3 78.1 - - - +
153C LYS* 1.3 62.5 + - - +
155C ASN* 3.4 5.2 + - - +
156C GLY* 3.1 20.6 + - - -
157C LYS 4.0 4.9 + - - -
158C ASP 4.9 2.4 + - - -
159C GLU* 3.3 37.1 + - + +
160C VAL 4.1 7.4 - - - -
161C CYS 4.6 0.2 - - - -
188C PRO* 4.1 5.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 153 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C ALA 3.1 9.1 + - - +
150C LEU* 3.6 13.1 - - + +
152C CYS* 1.3 78.8 - - - +
154C TYR* 1.3 62.7 + - - +
156C GLY* 3.3 12.5 + - - -
185C TRP* 2.9 35.1 + - - +
186C LYS* 4.4 9.6 - - - +
187C LEU* 4.3 11.2 - - + -
188C PRO* 4.0 14.1 - - + +
50D LYS* 5.1 1.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 154 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150C LEU* 2.9 24.1 + - + +
151C ALA 3.2 5.4 + - - +
153C LYS* 1.3 78.3 - - - +
155C ASN* 1.3 61.9 + - - +
21D GLU* 2.8 30.6 + - + -
22D LYS* 4.1 5.8 - - + -
23D VAL 3.4 6.6 + - - -
24D PHE* 3.8 20.5 - + - +
50D LYS* 3.0 70.7 + - + +
51D ARG* 3.1 22.3 + - - -
53D ILE* 6.2 1.3 - - + -
74D LEU* 3.8 33.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 155 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151C ALA* 2.9 33.2 + - - +
152C CYS* 4.0 4.6 - - - +
154C TYR* 1.3 80.3 - - - +
156C GLY* 1.3 64.7 + - - +
157C LYS* 3.4 29.0 + - + +
159C GLU* 6.0 0.2 + - - -
22D LYS* 5.9 1.7 - - - +
72D ALA 4.9 7.1 + - - -
74D LEU* 4.0 18.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 156 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C CYS 3.1 10.3 + - - -
153C LYS* 3.3 11.4 + - - -
154C TYR 3.4 0.2 - - - -
155C ASN* 1.3 79.7 - - - +
157C LYS* 1.3 59.4 + - - +
158C ASP* 3.4 11.9 + - - +
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
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