Contacts of the strand formed by residues 163 - 174 (chain A) in PDB entry 2FK2
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 THR 163 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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131A GLU* 3.7 21.1 - - - +
134A LYS* 6.5 0.7 - - + -
158A CYS* 2.7 33.6 + - - +
159A SER* 3.7 9.0 + - - -
161A LYS* 3.4 15.3 - - + +
162A SER* 1.3 83.8 - - - +
164A ASN* 1.3 71.4 + - - +
186A CYS* 3.1 29.8 - - + +
187A CYS 3.2 20.2 - - - +
188A PRO* 4.4 1.1 - - + -
189A LEU* 3.8 5.6 - - - +
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Residues in contact with ASN 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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158A CYS* 4.0 3.1 - - - -
159A SER* 5.3 2.6 + - - -
163A THR* 1.3 79.6 - - - +
165A LEU* 1.3 67.3 + - - +
166A HIS* 3.3 1.4 + - - +
186A CYS* 3.5 0.2 - - - -
187A CYS* 2.8 36.4 + - + +
188A PRO 4.8 1.9 + - - +
189A LEU* 3.4 36.5 + - - +
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Residues in contact with LEU 165 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151A HIS* 3.6 21.5 - - + +
154A ALA* 3.9 9.2 - - + -
155A LYS* 3.6 42.8 + - + +
158A CYS* 3.6 24.0 - - - +
164A ASN* 1.3 74.7 - - - +
166A HIS* 1.3 60.1 + - - +
167A ASP 3.3 27.1 - - - +
168A TYR* 4.0 10.5 - - + -
184A PHE* 3.6 20.6 - - + -
185A VAL 3.7 4.9 - - - +
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Residues in contact with HIS 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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164A ASN 3.3 2.1 + - - +
165A LEU* 1.3 76.2 - - - +
167A ASP* 1.3 71.5 + - + +
168A TYR* 5.5 0.7 - - - -
185A VAL* 2.9 19.6 + - + +
187A CYS* 4.0 25.6 - - + -
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Residues in contact with ASP 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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165A LEU* 3.3 7.2 - - - +
166A HIS* 1.3 91.3 - - + +
168A TYR* 1.3 93.1 + - - +
184A PHE* 4.4 0.2 - - - -
185A VAL* 3.1 32.5 + - + +
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Residues in contact with TYR 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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101A CU1 1.9 32.7 - - - -
147A HIS* 2.7 16.5 + + - -
151A HIS* 3.0 30.5 + + + -
154A ALA* 4.7 1.6 - - + -
165A LEU* 4.0 16.4 - - + -
166A HIS 5.5 0.4 - - - -
167A ASP* 1.3 97.7 + - - +
169A GLY* 1.3 58.4 + - - +
170A MET* 3.3 35.4 - - + -
182A VAL* 4.0 9.4 - - + -
183A GLU 3.2 8.5 - - - +
184A PHE* 3.7 16.2 - - + +
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Residues in contact with GLY 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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168A TYR* 1.3 76.8 - - - +
170A MET* 1.3 66.1 + - - -
171A LEU* 5.3 0.2 - - - -
182A VAL* 3.5 4.6 - - - -
183A GLU* 2.8 43.6 + - - +
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Residues in contact with MET 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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147A HIS* 4.0 22.9 - - + +
150A TRP* 3.7 31.9 - - + -
168A TYR* 3.3 42.0 - - + -
169A GLY* 1.3 76.1 - - - -
171A LEU* 1.3 65.5 + - - +
173A PRO* 5.8 0.3 - - - +
179A PHE* 3.3 52.9 - - + -
181A GLY 3.6 3.1 - - - -
182A VAL* 4.3 2.5 - - + +
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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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137A HIS* 3.3 40.4 - - + +
138A GLN 4.3 2.2 - - - +
139A GLU* 4.9 2.7 - - + +
170A MET* 1.3 80.7 - - - +
172A LEU* 1.3 79.7 + - + +
173A PRO* 3.6 2.7 - - - -
179A PHE* 3.4 5.9 - - - +
180A ARG 3.1 15.9 + - - -
181A GLY* 2.9 16.5 + - - -
182A VAL 3.8 29.2 - - - +
183A GLU* 4.1 26.0 - - + +
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Residues in contact with LEU 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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139A GLU* 3.5 37.2 - - + +
140A ARG 5.7 0.2 - - - +
171A LEU* 1.3 85.6 - - + +
173A PRO* 1.3 79.2 - - - +
180A ARG* 3.0 53.7 + - + +
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Residues in contact with PRO 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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170A MET 5.8 0.7 - - - +
171A LEU* 3.5 1.7 - - - -
172A LEU* 1.3 87.1 - - - +
174A CYS* 1.3 56.0 + - - +
178A LYS 3.5 11.4 - - - +
179A PHE* 3.9 16.4 - - + -
180A ARG* 2.7 22.9 + - - -
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Residues in contact with CYS 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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144A CYS* 2.0 53.8 - - + -
172A LEU 4.0 2.0 - - - +
173A PRO* 1.3 76.4 - - - +
175A GLY* 1.3 75.9 + - - +
176A ILE 4.3 0.3 - - - -
178A LYS* 2.9 35.1 + - - +
179A PHE 4.2 0.9 - - - +
180A ARG* 3.7 17.5 - - + +
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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