Contacts of the strand formed by residues 182 - 192 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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177B VAL* 3.7 22.3 - - - +
181B GLY* 1.3 75.0 - - - -
183B PHE* 1.3 57.8 + - - -
237B ASN* 3.5 4.4 + - - +
238B PHE* 2.7 42.6 + - - +
172G PHE* 6.0 0.2 - - - +
174G ILE* 3.6 16.7 - - - +
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Residues in contact with PHE 183 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100A GLN* 4.2 9.2 - - + -
174B ILE* 4.5 5.2 - - - +
177B VAL* 4.4 1.3 - - - +
182B GLY* 1.3 73.7 - - - +
184B VAL* 1.3 63.4 + - - +
185B PRO* 3.9 20.2 - - + +
235B GLY* 3.6 31.9 - - - -
236B ILE 3.5 13.7 - - - -
237B ASN* 3.8 3.4 - - - -
171G GLN* 5.8 0.2 - - - -
172G PHE* 3.4 28.7 - + + -
174G ILE* 3.4 18.3 - - + +
183G PHE* 3.4 54.1 + + - +
185G PRO* 4.0 16.8 - - + -
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Residues in contact with VAL 184 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170B ASN* 3.7 22.2 - - - +
174B ILE* 4.0 17.3 - - + +
177B VAL* 3.8 24.2 - - + -
183B PHE* 1.3 80.3 - - - +
185B PRO* 1.3 69.0 - - + +
186B PHE* 3.5 33.7 - - + -
235B GLY* 3.4 1.6 - - - -
236B ILE 2.9 29.4 + - - -
238B PHE* 3.8 18.2 - - + -
268B VAL* 4.4 7.9 - - + -
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Residues in contact with PRO 185 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170B ASN* 4.3 0.4 - - - +
171B GLN* 3.2 40.8 + - - +
172B PHE* 3.6 23.1 - - + +
174B ILE* 4.5 3.8 - - + -
183B PHE* 3.9 18.2 - - + +
184B VAL* 1.3 93.9 - - + +
186B PHE* 1.3 64.6 + - - +
233B VAL* 4.0 12.3 - - + -
235B GLY* 3.7 7.9 - - - -
183G PHE* 4.0 24.7 - - + -
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Residues in contact with PHE 186 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168B ILE* 4.7 2.5 - - + -
169B LYS 3.3 7.9 - - - +
170B ASN* 3.6 35.0 - - + -
184B VAL* 3.5 35.9 - - + -
185B PRO* 1.3 75.7 - - - +
187B THR* 1.3 66.7 + - - +
188B VAL* 3.8 2.9 + - + +
204B MET* 4.5 16.8 - - + -
216B VAL* 5.6 1.3 - - + -
233B VAL* 3.4 4.0 - - - -
234B ARG* 2.8 50.0 + - - +
236B ILE* 3.7 19.5 - - + -
249B ILE* 3.7 30.1 - - + -
266B MET* 4.0 27.1 - - + -
268B VAL* 4.1 7.4 - - + -
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Residues in contact with THR 187 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167B ASP 3.5 2.1 + - - +
168B ILE* 3.3 7.1 - - - +
169B LYS* 2.9 51.3 + - - +
171B GLN* 3.6 37.7 - - + +
186B PHE* 1.3 72.6 - - - +
188B VAL* 1.3 62.1 + - - +
189B ASP* 4.4 12.1 + - - -
232B LYS 3.7 4.9 - - - +
233B VAL* 4.4 9.6 - - + +
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Residues in contact with VAL 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167B ASP 3.6 1.8 - - - -
168B ILE* 4.1 15.7 - - + -
186B PHE 4.1 9.6 - - - +
187B THR* 1.3 78.7 - - - +
189B ASP* 1.3 66.7 + - - +
190B LEU* 3.7 23.8 - - + -
202B PHE* 4.0 20.0 - - + -
204B MET* 4.2 20.4 - - + -
230B TYR* 3.7 10.7 - - + +
231B SER* 3.4 3.8 - - - -
232B LYS* 2.8 47.9 + - + +
234B ARG* 4.4 11.2 - - + -
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Residues in contact with ASP 189 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165B THR* 3.8 1.9 - - - +
166B ILE* 3.6 1.0 - - - -
167B ASP* 2.7 58.8 + - + +
169B LYS* 5.6 2.4 + - - -
187B THR* 4.4 13.5 + - - -
188B VAL* 1.3 76.9 - - - +
190B LEU* 1.3 62.5 + - - +
191B ASN* 3.9 3.1 + - + +
229B THR* 4.2 9.3 - - + +
230B TYR 3.5 2.2 - - - -
231B SER* 2.6 30.5 + - - -
232B LYS 5.3 0.2 - - - +
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Residues in contact with LEU 190 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164B LEU* 4.4 6.1 - - + -
165B THR 3.4 4.9 - - - +
166B ILE* 4.2 30.1 - - + -
168B ILE* 4.7 2.0 - - + -
188B VAL* 3.7 22.7 - - + -
189B ASP* 1.3 78.8 - - - +
191B ASN* 1.3 60.1 + - - +
192B ASN 3.9 1.2 + - - -
200B VAL* 4.5 9.9 - - + -
202B PHE* 4.4 23.8 - - + -
222B TRP* 5.9 1.1 - - + -
224B ILE* 4.2 17.8 - - + +
228B ASP 4.1 0.2 - - - +
229B THR* 3.5 5.1 - - - -
230B TYR* 2.9 59.9 + - + +
253B VAL* 4.4 10.8 - - + -
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Residues in contact with ASN 191 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163B GLY 3.5 0.5 - - - +
164B LEU* 3.5 2.7 - - - -
165B THR* 2.8 57.0 + - + +
189B ASP* 3.9 3.5 + - + +
190B LEU* 1.3 71.4 - - - +
192B ASN* 1.3 69.2 + - - +
193B GLY* 3.2 12.2 + - - +
227B GLY* 4.2 6.9 - - - +
228B ASP 3.5 9.8 - - - +
229B THR* 4.1 16.3 + - + -
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Residues in contact with ASN 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164B LEU* 3.5 12.2 - - + +
190B LEU 3.9 0.6 + - - -
191B ASN* 1.3 74.6 + - - +
193B GLY* 1.3 57.4 + - - +
194B ARG* 3.0 29.7 + - - +
196B GLY 3.2 19.3 + - - -
198B ALA* 3.4 14.9 - - - +
224B ILE* 2.8 44.4 + - + -
225B ALA 3.2 12.5 + - - +
226B SER* 3.9 1.8 - - - +
227B GLY* 3.0 28.6 + - - -
228B ASP 3.1 6.7 + - - +
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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