Contacts of the strand formed by residues 192 - 201 (chain A) in PDB entry 2FIN
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 ASN 192 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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31A LYS 3.7 0.8 - - - +
32A VAL 3.7 0.2 - - - -
33A THR* 2.7 54.2 + - - +
190A VAL* 3.7 3.5 - - - +
191A LYS* 1.3 113.5 + - - +
193A LEU* 1.3 60.5 + - - +
194A GLU* 4.3 4.7 - - + +
217A TYR* 3.1 14.6 - - - +
218A VAL* 3.7 18.0 - - + +
219A ASP 2.9 14.9 + - - -
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Residues in contact with LEU 193 (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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30A ILE* 3.7 19.5 - - + -
31A LYS 3.5 5.4 - - - +
32A VAL* 4.2 10.8 - - + -
146A ILE* 5.4 7.0 - - + -
148A ILE* 4.0 34.5 - - + -
185A VAL* 4.1 14.8 - - + -
190A VAL* 3.9 15.3 - - + -
192A ASN* 1.3 73.5 - - - +
194A GLU* 1.3 76.7 + - - +
195A PHE* 2.8 46.9 - - + -
217A TYR* 2.9 26.2 + - + +
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Residues in contact with GLU 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ILE* 3.7 3.9 - - - -
31A LYS* 3.2 49.1 + - + +
192A ASN* 5.5 4.3 - - + +
193A LEU* 1.3 88.7 - - - +
195A PHE* 1.3 65.5 + - - +
196A SER* 5.2 0.4 - - - -
215A PHE 4.0 7.4 - - - +
216A LYS* 4.9 21.6 - - + +
217A TYR 4.7 3.6 - - - +
218A VAL* 5.8 3.8 - - + -
232A LEU* 3.4 33.4 - - + +
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Residues in contact with PHE 195 (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 VAL* 5.6 2.9 - - + -
29A ILE 3.6 9.0 - - - +
30A ILE* 5.5 1.1 - - + -
146A ILE* 4.0 27.8 - - + -
180A ILE* 4.2 16.6 - - + -
183A THR* 4.6 24.5 - - + -
185A VAL* 5.2 4.7 - - + -
193A LEU* 2.8 53.4 - - + -
194A GLU* 1.3 72.4 - - - +
196A SER* 1.3 65.8 + - - +
197A VAL* 5.7 0.2 - - + -
214A GLY* 2.8 24.2 - - - -
215A PHE* 3.2 48.9 + + + +
216A LYS 4.0 1.1 - - - -
217A TYR* 3.9 16.2 - + + -
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Residues in contact with SER 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A VAL* 3.3 3.8 - - - +
29A ILE* 2.7 50.0 + - - +
171A HIS* 5.8 0.9 - - - -
195A PHE* 1.3 78.0 + - - +
197A VAL* 1.3 64.5 + - - +
212A LYS* 6.1 0.4 - - - -
213A ASP 3.4 7.2 - - - -
214A GLY* 4.2 0.2 - - - -
229A ASP* 3.0 35.4 + - - -
232A LEU* 3.0 24.3 - - - +
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Residues in contact with VAL 197 (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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26A ILE* 3.4 29.2 - - + -
27A ASP 3.7 7.9 - - - +
28A VAL* 4.0 17.3 - - + -
144A VAL* 4.9 10.1 - - + -
179A ILE* 4.1 19.1 - - + -
180A ILE* 3.7 18.4 - - + -
195A PHE* 5.7 0.4 - - + -
196A SER* 1.3 80.4 - - - +
198A ARG* 1.3 77.5 + - - +
212A LYS* 3.2 20.1 - - - +
213A ASP* 3.0 34.8 + - - +
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Residues in contact with ARG 198 (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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25A GLY 3.9 2.4 - - - +
26A ILE* 4.4 2.7 - - - -
27A ASP* 3.5 27.8 + - + +
169A ILE* 3.8 22.8 - - + +
170A SER* 3.3 29.4 + - - +
171A HIS* 4.3 9.2 - - + +
172A LYS* 3.3 45.7 + - - +
174A VAL* 3.2 38.7 - - - +
179A ILE* 5.4 0.4 - - - -
197A VAL* 1.3 85.2 - - - +
199A ILE* 1.3 62.7 + - - +
200A GLY 4.1 0.5 + - - -
205A GLU* 4.1 23.0 - - - +
210A GLU* 4.3 9.8 + - - +
211A VAL 3.2 19.5 + - - +
212A LYS* 4.2 3.8 - - + +
213A ASP* 5.1 0.4 - - - -
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Residues in contact with ILE 199 (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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24A MET* 3.8 15.0 - - + -
25A GLY 3.3 15.7 - - - +
26A ILE* 4.3 11.2 - - + +
98A PRO* 3.5 32.1 - - + -
138A MET* 5.2 3.8 - - + -
139A ILE* 3.8 34.3 - - + +
142A CYS* 5.0 9.9 - - + -
179A ILE* 4.2 11.0 - - + +
197A VAL* 5.0 0.2 - - - +
198A ARG* 1.3 75.4 - - - +
200A GLY* 1.3 61.0 + - - +
209A LEU 2.9 15.1 - - - +
210A GLU* 3.8 0.5 - - - -
211A VAL* 3.6 35.8 + - + +
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Residues in contact with GLY 200 (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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24A MET* 3.6 10.8 - - - -
25A GLY 3.3 20.4 + - - +
169A ILE* 4.5 9.5 - - - +
198A ARG 4.1 1.2 + - - -
199A ILE* 1.3 77.2 - - - +
201A ASP* 1.3 68.2 + - - +
202A MET* 3.1 7.4 + - - +
209A LEU 3.6 3.6 - - - -
210A GLU* 2.9 22.7 - - - -
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Residues in contact with ASP 201 (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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22A HIS* 3.7 34.8 - - + -
23A HIS* 3.1 23.1 + - - +
24A MET* 3.5 8.4 - - - -
169A ILE* 4.0 4.9 - - - +
200A GLY* 1.3 70.4 - - - -
202A MET* 1.3 67.3 + - - +
203A CYS* 2.9 19.8 + - - +
204A LYS* 2.7 42.2 + - - +
205A GLU* 3.5 22.1 + - - +
206A SER* 5.1 4.3 - - - +
209A LEU* 5.9 0.4 - - + -
210A GLU* 3.2 8.8 + - - +
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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