Contacts of the strand formed by residues 182 - 192 (chain A) in PDB entry 4BEI
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 GLY 182 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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177A VAL* 3.8 20.1 - - - +
181A GLY* 1.3 74.8 - - - -
183A PHE* 1.3 57.6 + - - -
237A ASN* 3.5 6.8 + - - +
238A PHE* 2.7 45.0 + - - +
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Residues in contact with PHE 183 (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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174A ILE* 4.5 8.8 - - - +
177A VAL* 4.4 1.3 - - - +
182A GLY* 1.3 73.2 - - - -
184A VAL* 1.3 63.2 + - - +
185A PRO* 3.9 31.0 - - + +
233A VAL* 6.5 0.2 - - + -
235A GLY* 3.6 32.8 - - - -
236A ILE 3.5 13.9 - - - -
237A ASN* 3.9 17.9 - - + +
1273A PEG 5.9 0.7 - - - -
100B GLN* 4.7 13.2 - - + -
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Residues in contact with VAL 184 (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 ASN* 3.7 22.0 - - - +
174A ILE* 4.0 17.5 - - + +
177A VAL* 3.8 24.2 - - + -
183A PHE* 1.3 79.2 - - - +
185A PRO* 1.3 70.5 - - + +
186A PHE* 3.5 32.5 - - + -
235A GLY* 3.3 1.5 - - - -
236A ILE 2.9 29.8 + - - -
238A PHE* 4.0 18.6 - - + -
268A VAL* 4.4 8.7 - - + -
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Residues in contact with PRO 185 (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 ASN* 4.3 0.3 - - - +
171A GLN* 3.2 43.4 + - - +
172A PHE* 3.7 25.1 - - + +
174A ILE* 4.5 7.6 - - + -
183A PHE* 3.9 24.4 - - + +
184A VAL* 1.3 93.9 - - + +
186A PHE* 1.3 63.9 + - - +
233A VAL* 4.0 11.7 - - + -
235A GLY* 3.7 9.2 - - - -
1273A PEG 4.1 5.4 - - - +
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Residues in contact with PHE 186 (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 ILE* 4.7 2.2 - - + -
169A LYS 3.3 8.3 - - - +
170A ASN* 3.6 35.0 - - + -
171A GLN* 4.8 0.2 - - - -
184A VAL* 3.5 35.4 - - + -
185A PRO* 1.3 75.5 - - - +
187A THR* 1.3 65.8 + - - +
188A VAL* 3.8 3.3 + - + +
204A MET* 4.5 16.6 - - + -
216A VAL* 5.6 1.1 - - + -
233A VAL* 3.4 4.0 - - - -
234A ARG* 2.8 48.5 + - - +
235A GLY* 4.8 0.4 - - - -
236A ILE* 3.7 19.3 - - + -
249A ILE* 3.7 28.7 - - + -
266A MET* 4.0 27.6 - - + -
268A VAL* 4.1 7.0 - - + -
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Residues in contact with THR 187 (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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167A ASP 3.5 2.1 + - - +
168A ILE* 3.3 7.1 - - - +
169A LYS* 2.9 52.2 + - - +
171A GLN* 3.7 37.1 - - + +
186A PHE* 1.3 73.7 - - - +
188A VAL* 1.3 62.5 + - - +
189A ASP* 4.4 11.1 + - - -
232A LYS 3.7 4.7 - - - +
233A VAL* 4.4 10.1 - - + +
1273A PEG 4.8 5.4 - - - +
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Residues in contact with VAL 188 (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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167A ASP 3.6 1.8 - - - -
168A ILE* 4.1 16.4 - - + -
186A PHE 4.2 8.5 - - - +
187A THR* 1.3 79.3 - - - +
189A ASP* 1.3 66.2 + - - +
190A LEU* 3.7 23.3 - - + -
202A PHE* 4.0 20.6 - - + -
204A MET* 4.2 21.8 - - + -
230A TYR* 3.7 10.0 - - + +
231A SER* 3.4 3.8 - - - -
232A LYS* 2.8 49.9 + - + +
234A ARG* 4.4 11.0 - - + -
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Residues in contact with ASP 189 (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 THR* 3.8 1.9 - - - +
166A ILE* 3.6 0.9 - - - -
167A ASP* 2.7 60.2 + - + +
169A LYS* 5.6 2.6 + - - -
187A THR* 4.4 10.0 + - - -
188A VAL* 1.3 81.2 + - - +
190A LEU* 1.3 61.6 + - - +
191A ASN* 3.9 2.4 + - + +
229A THR* 4.2 8.7 - - + +
230A TYR 3.5 2.5 - - - -
231A SER* 2.6 31.1 + - - -
232A LYS 5.3 0.3 - - - +
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Residues in contact with LEU 190 (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 LEU* 4.4 6.3 - - + -
165A THR 3.4 4.3 - - - +
166A ILE* 4.2 29.6 - - + -
168A ILE* 4.7 2.2 - - + -
188A VAL* 3.7 22.0 - - + -
189A ASP* 1.3 78.1 - - - +
191A ASN* 1.3 60.6 + - - +
192A ASN 3.8 1.6 + - - -
200A VAL* 4.6 9.2 - - + -
202A PHE* 4.3 24.2 - - + -
222A TRP* 5.9 1.3 - - + -
224A ILE* 4.2 17.8 - - + +
228A ASP 4.1 0.3 - - - +
229A THR* 3.4 5.0 - - - -
230A TYR* 2.9 59.3 + - + +
253A VAL* 4.4 11.2 - - + -
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Residues in contact with ASN 191 (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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163A GLY 3.5 0.5 - - - +
164A LEU* 3.5 3.8 - - - -
165A THR* 2.8 55.9 + - + +
189A ASP* 3.9 3.2 + - + +
190A LEU* 1.3 71.1 - - - +
192A ASN* 1.3 70.4 + - - +
193A GLY* 3.2 12.2 + - - +
227A GLY* 4.1 6.8 - - - +
228A ASP 3.5 10.2 - - - +
229A THR* 4.0 17.1 + - + -
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Residues in contact with ASN 192 (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 LEU* 3.5 11.2 - - + +
190A LEU 3.8 0.6 + - - -
191A ASN* 1.3 74.6 + - - +
193A GLY* 1.3 57.8 + - - +
194A ARG* 3.0 29.5 + - - +
196A GLY 3.2 19.7 + - - -
198A ALA* 3.4 14.1 - - - +
224A ILE* 2.8 45.3 + - + -
225A ALA 3.2 12.2 + - - +
226A SER* 4.4 1.6 - - - -
227A GLY* 3.0 28.1 + - - -
228A ASP 3.1 6.1 + - - +
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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