Contacts of the strand formed by residues 144 - 153 (chain A) in PDB entry 2OSL
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 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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134A PRO* 4.9 5.6 - - + -
135A SER 5.0 5.8 - - - +
136A SER 5.9 0.2 - - - +
137A LYS* 3.5 31.9 - - + +
142A GLY 3.5 0.6 + - - -
143A THR* 1.3 75.7 - - - +
145A ALA* 1.3 63.2 + - - +
191A THR* 3.4 4.2 - - - +
192A VAL* 3.0 37.2 + - + +
197A LEU* 4.6 12.8 - - + -
115B PHE* 3.7 8.1 - - + -
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Residues in contact with ALA 145 (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 PRO* 3.4 20.9 - - - +
135A SER 4.9 0.5 + - - +
144A ALA* 1.3 78.3 - - - +
146A LEU* 1.3 63.0 + - - +
189A VAL* 5.5 0.4 - - + -
190A VAL 3.3 12.3 - - - +
191A THR* 4.3 5.4 - - + -
115B PHE* 3.5 40.1 - - + -
117B PHE* 3.4 21.5 - - + -
134B LEU* 4.2 9.2 - - + -
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Residues in contact with LEU 146 (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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132A LEU 3.7 13.0 - - - +
134A PRO* 4.0 10.1 - - + -
145A ALA* 1.3 75.9 - - - +
147A GLY* 1.3 56.1 + - - +
162A TRP* 3.6 29.2 - - + -
189A VAL* 3.4 4.3 - - - +
190A VAL* 2.7 47.5 + - + +
192A VAL* 3.8 20.9 - - + -
197A LEU* 3.8 17.5 - - + -
202A TYR* 3.7 29.8 - - + -
219A VAL* 3.6 20.4 - - + -
117B PHE* 4.1 4.7 - - - -
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Residues in contact with GLY 147 (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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131A PRO* 3.7 1.6 - - - +
132A LEU* 2.8 45.6 + - - +
146A LEU* 1.3 80.1 - - - +
148A CYS* 1.3 61.4 + - - +
162A TRP* 3.5 14.8 - - - -
188A SER 3.1 13.9 - - - -
189A VAL* 3.9 1.8 - - - -
219A VAL* 4.3 4.9 - - - +
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Residues in contact with CYS 148 (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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129A VAL* 4.0 13.0 - - + -
130A PHE 3.5 5.4 - - - -
131A PRO* 4.9 3.4 - - - -
132A LEU* 3.7 5.4 - - - +
147A GLY* 1.3 78.6 - - - -
149A LEU* 1.3 60.5 + - - +
150A VAL* 3.7 8.5 + - + +
160A VAL* 5.4 0.7 - - + -
162A TRP* 3.8 6.3 - - + -
187A SER* 3.5 6.8 + - - -
188A SER* 2.9 32.9 + - - +
204A CYS* 2.0 54.5 - - + -
217A LYS* 4.2 10.3 - - - -
219A VAL* 5.1 3.1 - - - -
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Residues in contact with LEU 149 (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 SER 3.5 1.7 - - - +
129A VAL* 4.4 0.7 - - - -
130A PHE* 2.6 44.4 + - + +
132A LEU* 3.9 19.2 - - + +
148A CYS* 1.3 71.3 - - - +
150A VAL* 1.3 69.1 + - - +
151A LYS* 3.3 15.7 + - + -
185A SER* 4.7 4.9 - - - +
186A LEU 4.1 7.2 - - - +
187A SER* 3.4 17.9 - - - +
123B GLN* 3.8 17.3 - - - +
130B SER* 3.6 34.8 - - - +
132B VAL* 4.7 10.8 - - + -
177B THR* 5.4 7.6 - - + +
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Residues in contact with VAL 150 (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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127A PRO* 3.6 31.9 - - + -
129A VAL* 3.9 15.7 - - + -
148A CYS* 3.7 8.4 + - + +
149A LEU* 1.3 70.7 - - - +
151A LYS* 1.3 59.8 + - - +
153A TYR* 3.9 15.0 - - + -
158A VAL* 4.3 12.1 - - + -
160A VAL* 5.0 7.0 - - + -
185A SER* 3.5 1.7 + - - -
186A LEU* 2.8 53.5 + - + +
188A SER* 6.0 1.1 - - - +
206A VAL* 3.8 26.2 - - + -
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Residues in contact with LYS 151 (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 SER* 3.2 36.9 + - - +
130A PHE* 3.9 13.5 - - + -
149A LEU* 4.2 13.7 - - + +
150A VAL* 1.3 78.8 - - - +
152A ASP* 1.3 103.1 + - - +
153A TYR* 4.5 3.4 - - - -
179A GLN* 3.3 23.6 + - - +
184A TYR 4.3 0.7 - - - -
185A SER* 3.4 11.7 - - - +
123B GLN* 3.4 27.4 - - - +
127B GLY* 4.2 13.3 + - - +
128B THR* 4.8 4.2 + - - -
130B SER* 4.0 14.1 - - - +
179B THR* 5.0 6.0 + - - +
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Residues in contact with ASP 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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125A LYS* 3.6 24.3 + - - +
126A GLY 3.1 18.4 - - - +
127A PRO 4.5 0.2 - - - -
128A SER* 4.6 4.4 + - - +
151A LYS* 1.3 102.8 + - - +
153A TYR* 1.3 60.0 + - - +
179A GLN* 2.9 24.6 + - - -
181A SER* 4.6 2.1 + - - -
183A LEU* 3.8 24.4 - - + +
184A TYR 3.2 12.5 + - - -
185A SER* 4.3 1.2 + - - -
127B GLY* 5.5 4.9 - - - +
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Residues in contact with TYR 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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125A LYS 3.5 8.1 - - - +
127A PRO* 3.4 38.4 - - + -
150A VAL* 3.9 19.1 - - + -
152A ASP* 1.3 77.2 - - - +
154A PHE* 1.3 60.5 + - - +
155A PRO 3.7 17.5 - - - -
156A GLU* 4.4 8.1 + - + -
157A PRO 4.8 0.2 - - - -
158A VAL* 3.4 32.1 + - + +
176A ALA* 3.4 24.4 - - - +
183A LEU* 3.9 6.0 - - - +
184A TYR* 3.0 57.2 + + + +
185A SER* 3.9 9.6 - - - -
186A LEU* 3.8 18.1 - - + +
208A HIS* 3.9 1.6 - + + -
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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