Contacts of the strand formed by residues 163 - 174 (chain A) in PDB entry 6K0X
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 LEU 163 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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114A GLU* 3.2 13.7 - - - +
116A VAL* 3.4 12.8 - - + +
119A LEU* 3.8 21.5 - - + +
159A VAL* 3.1 36.9 + - + +
161A ASP 3.7 0.2 - - - -
162A LEU* 1.3 76.6 - - - +
164A SER* 1.3 67.9 + - - +
167A GLY 3.7 15.0 - - - +
168A LEU 3.6 27.1 - - - +
169A PHE* 4.0 10.5 - - + +
191A LEU* 4.2 17.9 - - + -
211A PHE 4.1 7.2 - - - +
213A LYS* 3.4 26.3 + - + -
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Residues in contact with SER 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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114A GLU* 3.2 20.4 + - - +
115A LYS* 4.2 4.7 - - - -
116A VAL 2.9 14.8 + - - -
117A ASP* 2.7 27.2 + - - -
162A LEU 3.4 1.8 + - - -
163A LEU* 1.3 80.9 - - - +
165A PRO* 1.3 69.6 - - - +
166A ARG* 3.4 5.5 - - - +
167A GLY* 2.8 29.5 + - - -
213A LYS* 3.9 6.8 - - - +
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Residues in contact with PRO 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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114A GLU* 4.3 16.4 - - + +
163A LEU 4.8 0.2 - - - +
164A SER* 1.3 89.3 - - - +
166A ARG* 1.3 59.4 + - + +
167A GLY 3.4 0.5 + - - -
212A THR* 5.0 1.2 - - - +
213A LYS* 3.7 25.1 + - + +
214A SER* 4.7 9.9 + - - -
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Residues in contact with ARG 166 (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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42A GLU 3.9 16.9 + - - -
45A GLY* 3.1 44.1 + - - +
46A VAL* 3.3 8.1 - - - +
47A GLU* 6.1 1.3 - - - -
117A ASP* 3.1 43.0 + - - +
164A SER* 3.4 13.0 - - - +
165A PRO* 1.3 78.2 - - + +
167A GLY* 1.3 63.5 + - - +
168A LEU* 3.7 14.3 + - - +
212A THR* 4.6 3.6 - - - +
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Residues in contact with GLY 167 (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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116A VAL 3.9 7.6 - - - -
117A ASP 3.2 12.1 - - - -
163A LEU* 3.7 12.4 - - - +
164A SER* 2.8 26.9 + - - +
165A PRO 3.2 0.8 - - - -
166A ARG* 1.3 79.2 - - - +
168A LEU* 1.3 59.0 + - - -
212A THR* 3.4 25.6 - - - +
213A LYS 3.9 2.4 + - - -
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Residues in contact with LEU 168 (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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42A GLU* 3.8 34.8 - - + +
43A LEU* 3.6 28.0 - - + -
117A ASP 2.9 11.4 + - - +
118A LEU* 3.5 5.5 - - + +
119A LEU 2.8 26.3 + - - +
163A LEU* 3.6 5.1 - - - +
166A ARG* 3.9 9.9 - - - +
167A GLY* 1.3 76.5 - - - +
169A PHE* 1.3 59.6 + - - +
170A TYR* 3.7 28.0 - - + +
210A LYS* 4.2 6.1 - - + -
211A PHE 3.4 3.4 - - - +
212A THR* 3.6 33.0 - - + +
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Residues in contact with PHE 169 (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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119A LEU* 3.3 24.9 - - + -
121A PHE* 3.9 10.5 - - + -
155A PHE* 3.6 31.2 - + - -
156A PHE* 4.6 7.4 - + - -
159A VAL* 3.7 37.2 - - + -
163A LEU* 4.0 5.6 - - + +
168A LEU* 1.3 72.5 - - - +
170A TYR* 1.3 75.7 + - - +
171A LEU* 3.8 25.8 - - + -
186A MET* 3.9 10.3 - - + -
209A LEU 3.6 1.2 - - - +
210A LYS* 3.3 4.3 - - - -
211A PHE* 2.7 70.7 + + + +
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Residues in contact with TYR 170 (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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32A LEU* 4.1 17.2 - - + +
35A ALA* 4.7 11.7 - - + -
36A LEU* 3.7 23.6 - - + -
39A ALA* 3.2 27.9 - - + +
43A LEU* 4.5 2.0 - - + -
118A LEU* 3.7 24.7 - - + -
119A LEU 2.9 9.3 + - - +
120A VAL* 3.5 7.4 - - + +
121A PHE 3.0 26.0 + - - +
168A LEU* 3.7 20.9 - - + +
169A PHE* 1.3 79.0 - - - +
171A LEU* 1.3 60.7 + - - +
196A ALA* 4.3 9.4 - - + -
208A VAL* 3.9 19.1 - - + -
209A LEU 3.3 2.7 - - - -
210A LYS* 3.6 42.2 + - + +
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Residues in contact with LEU 171 (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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121A PHE* 3.3 22.9 - - + +
123A PRO* 3.9 19.7 - - + -
152A MET* 4.5 5.4 - - + -
156A PHE* 3.8 32.8 - - + -
169A PHE* 3.8 23.8 - - + -
170A TYR* 1.3 74.3 - - - +
172A VAL* 1.3 69.2 + - - +
173A THR* 3.6 20.4 + - + -
182A ILE* 4.1 11.4 - - + -
207A SER 3.6 0.3 - - - +
208A VAL* 3.3 4.7 - - - +
209A LEU* 2.8 40.3 + - + +
211A PHE* 4.4 10.8 - - + -
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Residues in contact with VAL 172 (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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28A ASP* 4.1 12.1 - - + +
31A LEU* 5.2 0.7 - - + -
32A LEU* 3.8 41.3 - - + -
121A PHE 3.1 6.3 + - - -
122A ASN* 3.3 31.4 - - + +
123A PRO* 3.2 22.9 - - - +
125A TYR* 4.3 6.2 - - + -
152A MET* 4.6 0.3 - - - +
171A LEU* 1.3 74.6 - - - +
173A THR* 1.3 68.8 + - - +
206A LEU* 4.1 26.7 - - + -
207A SER 3.6 4.7 - - - +
208A VAL* 4.4 10.1 - - + +
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Residues in contact with THR 173 (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 TYR* 5.0 1.8 - - - -
152A MET* 4.5 2.2 - - - -
171A LEU* 3.6 26.5 - - + -
172A VAL* 1.3 82.7 - - - +
174A ILE* 1.3 68.3 - - - +
177A ASN* 3.5 13.9 - - - +
179A PRO* 3.9 14.4 - - - +
182A ILE* 3.9 17.3 - - + -
206A LEU* 3.2 9.4 - - - +
207A SER* 2.8 48.4 + - - -
209A LEU* 4.0 12.8 - - + +
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Residues in contact with ILE 174 (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 TYR* 3.5 48.7 - - + +
126A VAL* 4.6 6.7 - - + -
127A VAL* 4.9 3.6 - - + +
173A THR* 1.3 74.4 - - - +
175A LYS* 1.3 62.9 + - - +
176A GLU* 3.4 32.3 - - + +
177A ASN* 2.8 46.7 + - - +
179A PRO* 3.9 7.4 - - - +
204A GLU* 4.0 20.2 - - + +
205A THR 3.3 8.7 - - - +
206A LEU* 3.5 20.2 - - + -
207A SER 5.5 0.4 - - - -
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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