Contacts of the strand formed by residues 151 - 162 (chain A) in PDB entry 1WS6
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 VAL 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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124A ARG* 4.9 1.1 - - - -
125A PHE* 3.2 13.0 - - + +
126A THR 3.5 2.0 - - - +
127A VAL 4.5 1.1 - - - -
128A ALA* 3.7 18.2 - - + +
149A GLY 4.3 6.0 - - - +
150A LEU* 1.3 78.6 - - + +
152A GLU* 1.3 76.7 + - - +
153A ALA 3.9 0.2 + - - -
155A GLY* 3.4 24.0 - - - -
156A LEU 3.5 24.2 - - - +
157A TYR* 3.3 36.5 + - + -
185A VAL* 3.7 16.3 - - + +
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Residues in contact with GLU 152 (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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124A ARG* 4.5 19.6 - - + +
125A PHE 2.9 17.4 + - - +
126A THR* 2.8 36.5 + - - +
150A LEU 3.7 2.2 + - - -
151A VAL* 1.3 80.4 - - - +
153A ALA* 1.3 76.1 + - - +
154A GLY 5.7 0.9 - - - -
155A GLY 2.9 17.8 + - - +
185A VAL* 3.8 2.4 - - - +
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Residues in contact with ALA 153 (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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151A VAL 3.9 0.2 + - - -
152A GLU* 1.3 84.5 - - - +
154A GLY* 1.3 60.3 + - - +
155A GLY 3.4 0.5 + - - -
185A VAL* 3.6 17.4 - - - +
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Residues in contact with GLY 154 (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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52A ARG* 3.9 9.5 + - - -
53A TYR* 2.7 32.5 + - - -
126A THR* 5.6 0.4 - - - -
152A GLU* 5.2 1.1 - - - -
153A ALA* 1.3 72.0 - - - +
155A GLY* 1.3 52.9 + - - +
185A VAL 2.5 21.7 + - - -
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Residues in contact with GLY 155 (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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52A ARG* 4.5 0.3 + - - -
53A TYR* 3.3 11.5 + - - -
126A THR* 3.0 21.8 - - - -
151A VAL* 3.4 15.3 - - - -
152A GLU* 2.9 10.6 + - - +
153A ALA 3.2 1.0 + - - -
154A GLY* 1.3 79.6 - - - +
156A LEU* 1.3 58.3 + - - +
184A GLU* 3.8 4.3 - - - +
185A VAL 3.1 23.1 + - - -
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Residues in contact with LEU 156 (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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48A TYR* 3.8 28.7 - - + -
49A LEU* 4.3 9.0 - - + -
52A ARG* 4.2 5.8 - - - +
53A TYR* 3.5 25.7 + - + +
126A THR 2.9 10.4 + - - +
127A VAL* 3.3 9.3 - - + +
128A ALA 2.9 25.1 + - - -
151A VAL* 3.5 5.7 - - - +
155A GLY* 1.3 71.2 - - - +
157A TYR* 1.3 63.9 + - - +
158A VAL* 4.0 10.8 - - + -
182A LEU* 4.2 18.6 - - + -
183A VAL 3.3 27.4 - - - +
184A GLU* 3.5 28.9 - - + -
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Residues in contact with TYR 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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128A ALA* 3.4 5.2 - - + -
145A LEU* 3.3 48.9 - - + -
146A LEU* 3.6 35.6 + - + -
148A SER* 4.7 0.4 - - - -
149A GLY* 3.4 12.8 + - - -
150A LEU 3.2 25.5 + - - -
151A VAL* 3.3 27.9 + - + -
156A LEU* 1.3 71.6 - - - +
158A VAL* 1.3 61.1 + - - +
159A LEU* 4.1 5.2 - - + -
181A THR 3.5 2.9 - - - +
182A LEU* 3.5 1.7 - - - -
183A VAL* 2.8 42.7 + - + +
185A VAL* 3.4 33.9 - - + -
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Residues in contact with VAL 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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45A LEU* 4.3 22.7 - - + -
49A LEU* 5.3 0.9 - - + -
127A VAL* 4.5 13.0 - - + -
128A ALA 2.9 9.5 + - - +
129A PHE* 3.4 24.1 - - + -
130A MSE 2.9 27.4 + - - +
156A LEU* 4.4 18.8 - - + -
157A TYR* 1.3 79.0 - - - +
159A LEU* 1.3 65.7 + - - +
180A LEU* 3.8 23.8 - - + -
181A THR 3.4 6.1 - - - +
182A LEU* 4.3 15.5 - - + -
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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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130A MSE 3.6 4.3 - - + -
142A PHE* 3.5 45.1 - - + -
145A LEU* 4.1 21.5 - - + -
146A LEU* 4.6 9.6 - - + -
157A TYR* 4.5 7.9 - - + +
158A VAL* 1.3 85.3 - - - +
160A GLN* 1.3 59.7 + - - +
161A HIS* 3.6 3.8 - - + -
167A LEU* 3.5 28.3 - - + -
180A LEU* 3.2 6.7 - - - -
181A THR* 2.8 52.2 + - + +
183A VAL* 4.4 11.4 - - + -
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Residues in contact with GLN 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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35A ARG* 4.6 5.4 - - - +
37A SER* 4.5 11.4 + - - -
38A PRO* 4.4 8.6 - - - +
41A LEU* 3.7 25.7 - - + +
129A PHE* 3.6 21.6 - - + -
130A MSE 2.9 11.8 + - - +
131A ALA* 3.8 21.8 - - + +
132A PRO* 4.3 3.6 - - - +
134A TYR* 2.9 29.5 + - - +
138A LEU* 4.2 2.3 - - - +
142A PHE* 3.5 11.3 - - - -
158A VAL 4.2 0.2 + - - -
159A LEU* 1.3 72.6 - - - +
161A HIS* 1.3 68.6 + - - +
178A ASN* 3.9 13.2 + - + -
179A ALA 3.4 9.6 - - - +
180A LEU* 3.5 13.0 - - + +
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Residues in contact with HIS 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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134A TYR* 3.7 11.7 - - - -
138A LEU* 3.9 9.6 - - + -
142A PHE* 3.9 17.5 - + + -
159A LEU* 3.6 15.7 + - + -
160A GLN* 1.3 78.2 - - - +
162A PRO* 1.3 93.1 + - + +
165A LEU* 3.2 35.8 + - + +
167A LEU* 4.0 7.3 - - + +
172A ARG* 3.6 6.7 - - - -
178A ASN* 3.5 3.1 - - - +
179A ALA* 2.8 54.9 + - + -
181A THR* 3.1 24.6 + - - -
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Residues in contact with PRO 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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134A TYR* 3.7 40.8 - - + +
138A LEU* 3.8 6.7 - - + -
161A HIS* 1.3 98.1 + - + +
163A LYS* 1.3 57.9 + - - +
164A ASP* 3.0 9.2 - - + +
165A LEU* 2.8 34.5 + - + +
177A GLU* 3.6 10.1 - - + +
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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