Contacts of the strand formed by residues 156 - 163 (chain C) in PDB entry 1T7C
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 GLN 156 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16C ILE* 3.9 19.6 - - + +
19C GLY* 4.4 3.5 + - - +
20C GLU* 3.3 24.7 + - - +
21C GLU* 3.6 16.7 + - - +
22C ALA* 4.6 0.9 - - - -
139C THR* 3.3 7.3 - - - +
140C GLY 3.0 35.4 + - - +
142C GLY 5.2 0.7 - - - +
144C THR* 4.0 18.9 - - + +
152C PRO* 3.9 23.4 - - + +
154C ARG* 2.9 25.7 + - - +
155C LEU* 1.3 82.2 + - - +
157C GLN* 1.3 61.5 + - - +
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Residues in contact with GLN 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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8C PRO* 4.8 1.2 - - - +
9C VAL 2.9 23.1 + - - +
10C LEU* 3.6 16.3 - - - +
16C ILE* 3.8 3.3 - - - +
19C GLY* 3.3 1.9 - - - -
20C GLU* 2.8 69.6 + - + +
21C GLU 4.5 1.0 + - - -
22C ALA* 3.3 18.4 - - + +
23C VAL 4.3 1.9 + - - -
26C SER* 4.5 1.0 + - - -
27C TRP* 2.8 30.2 + - - +
137C VAL* 4.3 4.0 - - + -
138C THR 3.3 8.3 - - - -
139C THR* 3.7 15.9 - - + -
156C GLN* 1.3 76.6 - - - +
158C ALA* 1.3 64.6 + - - +
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Residues in contact with ALA 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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10C LEU* 6.4 0.2 - - - -
16C ILE* 3.6 23.1 - - + -
19C GLY* 4.1 8.3 - - - -
20C GLU* 5.5 2.9 - - - -
137C VAL* 3.3 7.2 - - - +
138C THR* 3.0 38.1 + - + -
157C GLN* 1.3 78.9 - - - +
159C SER* 1.3 60.8 + - - +
160C LEU* 3.6 2.9 - - - +
188C VAL* 4.1 23.6 - - + -
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Residues in contact with SER 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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10C LEU* 4.1 21.7 - - - +
11C SER* 4.5 13.1 + - - -
20C GLU* 5.4 2.2 + - - -
135C THR* 4.1 15.9 - - - +
136C CYS 3.3 9.9 - - - -
137C VAL* 3.9 12.9 - - - +
158C ALA* 1.3 74.4 - - - +
160C LEU* 1.3 61.6 + - - +
186C SER* 4.6 1.6 + - - -
188C VAL* 3.9 14.3 - - - +
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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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135C THR* 4.4 5.3 - - - +
136C CYS* 2.8 45.0 + - - +
138C THR* 4.0 13.2 - - + +
158C ALA 3.6 13.7 - - - +
159C SER* 1.3 76.4 - - - +
161C PRO* 1.3 71.7 - - + +
183C ALA* 3.9 11.4 - - + +
184C GLY* 3.7 25.1 - - - +
186C SER* 3.9 8.7 - - - +
188C VAL* 3.9 12.8 - - + +
189C SER* 6.1 2.0 - - - -
190C SER 6.1 0.4 - - - +
199C LEU* 3.9 15.5 - - + -
228C TYR* 3.7 24.2 - - + +
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Residues in contact with PRO 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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133C GLY* 4.1 17.7 - - - +
134C THR 3.3 7.0 - - - +
135C THR* 4.4 3.6 - - - +
160C LEU* 1.3 86.0 - - + +
162C LEU* 1.3 67.6 + - - +
163C LEU* 4.0 8.9 - - + +
183C ALA* 3.2 5.3 - - - +
184C GLY 3.0 32.5 + - - +
186C SER* 3.2 29.6 - - - +
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Residues in contact with LEU 162 (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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130C PHE* 3.6 38.6 - - + +
131C ALA 3.9 13.0 - - - +
132C ALA* 4.2 3.5 - - - +
133C GLY* 2.8 24.0 + - - +
134C THR* 3.0 15.2 + - - +
136C CYS* 3.6 33.0 - - + -
161C PRO* 1.3 75.7 - - - +
163C LEU* 1.3 65.2 + - - +
181C ILE* 4.2 22.0 - - + -
182C CYS 3.7 3.1 - - - +
183C ALA* 4.0 7.9 - - + -
199C LEU* 4.0 26.7 - - + -
201C CYS* 4.1 3.4 - - - -
210C VAL* 4.5 1.6 - - + -
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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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132C ALA* 4.2 4.0 - - - +
161C PRO* 4.0 9.2 - - + +
162C LEU* 1.3 82.7 - - - +
164C SER* 1.3 69.8 + - - +
165C ASN* 3.8 1.4 + - - +
167C ASN* 3.6 24.2 - - + +
168C CYS* 4.8 3.1 - - - +
181C ILE* 4.9 5.0 - - - +
182C CYS* 2.9 27.8 + - + +
183C ALA* 4.0 17.5 - - - +
184C GLY 3.8 23.3 - - - +
185C ALA* 4.2 4.3 - - + -
225C PRO* 3.6 36.1 - - + -
230C ARG* 5.7 1.4 + - - -
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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
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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