Contacts of the strand formed by residues 156 - 165 (chain A) in PDB entry 2WLH
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 LYS 156 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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152A ASP* 4.2 3.5 - - - +
153A PHE 3.0 27.2 + - - +
154A GLU 3.3 5.6 + - - +
155A GLY* 1.3 83.5 - - - +
157A PRO* 1.3 79.1 - - + +
158A THR* 3.2 4.8 + - - +
217A PRO* 4.6 15.8 - - + +
218A ILE 4.1 7.2 - - - +
219A ASP* 3.2 43.5 + - + +
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Residues in contact with PRO 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A ILE* 4.7 13.0 - - + -
151A SER 3.5 8.1 - - - +
152A ASP* 3.9 18.4 - - - +
155A GLY 4.9 0.4 - - - +
156A LYS* 1.3 86.5 - - + +
158A THR* 1.3 58.2 + - - +
217A PRO* 4.0 0.2 - - - +
218A ILE* 2.9 45.1 + - + +
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Residues in contact with THR 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149A VAL 3.5 1.7 - - - +
150A ILE* 3.4 4.8 - - - -
151A SER 2.6 36.5 + - - +
153A PHE* 4.0 14.8 + - + +
156A LYS* 3.2 10.2 + - - +
157A PRO* 1.3 78.1 + - - +
159A LEU* 1.3 70.2 + - - +
160A MET* 3.6 14.6 + - + +
201A THR* 5.1 0.4 - - + -
215A MET* 3.5 19.1 - - + -
216A HIS 3.1 34.1 - - - +
217A PRO* 3.3 10.5 - - + +
218A ILE* 4.3 0.2 - - - -
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Residues in contact with LEU 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A MET* 3.7 38.1 - - + -
149A VAL 3.4 9.9 - - - +
150A ILE* 3.4 31.4 - - + -
158A THR* 1.3 74.2 - - - +
160A MET* 1.3 59.7 + - - +
178A LEU* 4.3 8.4 - - + +
198A LEU* 4.2 9.6 - - + -
215A MET* 3.4 0.7 - - - -
216A HIS* 2.8 43.0 + - + +
218A ILE* 4.1 4.2 - - + +
224A ILE* 3.9 26.5 - - + -
239A PHE* 3.9 19.3 - - + -
265A ILE* 4.4 7.6 - - + -
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Residues in contact with MET 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A MET* 3.3 10.0 - - - +
149A VAL* 2.9 45.9 + - + +
151A SER* 3.4 26.7 - - - +
153A PHE* 3.9 26.9 - - + -
158A THR* 3.8 13.9 - - - +
159A LEU* 1.3 74.1 - - - +
161A MET* 1.3 60.7 + - - +
178A LEU* 5.7 1.3 - - - -
213A THR* 4.1 14.8 - - + -
214A VAL 2.9 20.2 - - - +
215A MET* 3.7 26.7 - - + +
270A HIS* 5.6 2.2 - - + -
271A PHE* 3.7 7.4 - - + -
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Residues in contact with MET 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A PHE* 4.1 17.7 - - + -
145A SER* 3.2 11.4 - - - +
147A ARG 3.9 5.2 - - - +
148A MET* 3.6 22.9 - - + -
160A MET* 1.3 74.3 - - - +
162A ARG* 1.3 92.2 + - - +
163A LEU* 4.3 3.8 - - + +
176A VAL* 5.6 0.4 - - - -
178A LEU* 4.7 7.4 - - + -
213A THR* 3.5 3.1 - - - +
214A VAL* 2.8 43.8 + - - +
241A VAL* 3.8 26.0 - - + -
260A TYR* 3.5 27.8 - - + +
271A PHE* 3.6 9.2 - - - -
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Residues in contact with ARG 162 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A PHE 3.8 0.2 - - - -
145A SER* 2.8 50.3 + - - -
161A MET* 1.3 86.5 - - - +
163A LEU* 1.3 59.7 + - - +
211A SER* 4.5 4.4 + - - +
212A TRP 3.2 14.1 - - - +
213A THR* 3.5 21.1 + - - +
214A VAL* 4.5 0.4 - - - +
271A PHE* 3.3 30.2 - - + +
272A VAL 2.9 29.2 + - - -
273A ASP* 4.6 0.8 + - - +
274A VAL* 3.8 26.5 - - - +
289A LYS 3.2 16.2 + - - -
290A PHE* 2.9 48.9 + - + +
292A GLU 4.0 2.2 + - - -
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Residues in contact with LEU 163 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A VAL* 3.7 17.9 - - + -
143A LEU 3.4 5.2 - - - -
144A PHE* 3.4 39.7 - - + -
161A MET* 4.4 7.2 - - + -
162A ARG* 1.3 76.2 - - - +
164A ALA* 1.3 59.3 + - - +
176A VAL* 4.6 6.1 - - + -
208A PHE* 3.8 11.0 - - + -
211A SER* 3.2 4.5 + - - -
212A TRP* 2.8 60.1 + - + +
214A VAL* 4.3 14.6 - - + -
241A VAL* 5.0 2.9 - - + -
243A PHE* 3.8 28.9 - - + -
290A PHE* 3.6 2.5 - - - -
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Residues in contact with ALA 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A VAL* 3.5 2.2 - - - -
143A LEU* 2.8 39.5 + - + +
163A LEU* 1.3 74.6 - - - +
165A ASN* 1.3 64.1 + - - +
166A LEU* 3.6 1.1 + - + +
208A PHE* 4.0 2.7 - - - -
210A LEU 3.3 9.0 - - - +
211A SER* 4.7 2.2 - - - -
287A LEU* 3.8 28.9 - - + -
290A PHE* 3.4 25.3 - - + -
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Residues in contact with ASN 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A GLY* 4.0 7.8 - - - +
142A VAL* 4.7 0.4 - - - +
164A ALA* 1.3 74.2 - - - +
166A LEU* 1.3 68.5 + - - +
167A ARG* 2.7 26.1 + - - +
169A GLU 2.8 26.5 + - - +
170A GLN* 4.3 1.0 - - - +
171A ILE* 4.4 11.6 - - - +
208A PHE* 3.5 28.0 + - + -
209A SER* 3.4 31.9 + - - +
210A LEU* 2.9 12.7 + - - +
247A HIS* 4.9 2.5 + - - -
285A LEU* 5.3 3.6 - - - +
287A LEU* 4.6 5.9 - - - +
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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