Contacts of the strand formed by residues 182 - 192 (chain G) 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 G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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172B PHE* 6.0 0.2 - - - +
174B ILE* 3.6 16.7 - - - +
177G VAL* 3.7 22.1 - - - +
181G GLY* 1.3 75.3 - - - -
183G PHE* 1.3 58.2 + - - -
237G ASN* 3.5 3.9 + - - +
238G PHE* 2.7 43.3 + - - +
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Residues in contact with PHE 183 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171B GLN* 5.5 0.4 - - - -
172B PHE* 3.4 30.1 - + + -
174B ILE* 3.4 18.3 - - + +
183B PHE* 3.4 53.1 + + - +
185B PRO* 4.0 17.3 - - + -
174G ILE* 4.5 5.9 - - - +
177G VAL* 4.4 0.9 - - - +
182G GLY* 1.3 74.0 - - - +
184G VAL* 1.3 63.1 + - - +
185G PRO* 3.9 20.2 - - + +
235G GLY* 3.6 31.6 - - - -
236G ILE 3.5 12.3 - - - -
237G ASN* 3.8 2.5 - - - -
100H GLN* 4.0 12.8 - - - -
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Residues in contact with VAL 184 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170G ASN* 3.7 21.5 - - - +
174G ILE* 4.0 17.5 - - + +
177G VAL* 3.8 24.5 - - + -
183G PHE* 1.3 79.2 - - - +
185G PRO* 1.3 69.9 - - + +
186G PHE* 3.5 32.3 - - + -
235G GLY* 3.4 1.2 - - - -
236G ILE 2.9 32.4 + - - -
238G PHE* 3.8 19.3 - - + -
268G VAL* 4.4 7.9 - - + -
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Residues in contact with PRO 185 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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183B PHE* 4.0 23.1 - - + -
170G ASN* 4.3 0.3 - - - +
171G GLN* 3.2 42.7 + - - +
172G PHE* 3.6 22.7 - - + +
174G ILE* 4.5 4.3 - - + -
183G PHE* 3.9 19.1 - - + +
184G VAL* 1.3 93.3 - - + +
186G PHE* 1.3 65.6 + - - +
233G VAL* 4.0 11.9 - - + -
235G GLY* 3.7 8.5 - - - -
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Residues in contact with PHE 186 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168G ILE* 4.7 2.9 - - + -
169G LYS 3.3 7.6 - - - +
170G ASN* 3.5 34.5 - - + -
184G VAL* 3.5 35.4 - - + -
185G PRO* 1.3 76.2 - - - +
187G THR* 1.3 66.1 + - - +
188G VAL* 3.8 2.9 + - + +
204G MET* 4.5 16.8 - - + -
216G VAL* 5.6 1.1 - - + -
233G VAL* 3.4 4.6 - - - -
234G ARG* 2.8 48.4 + - - +
236G ILE* 3.7 20.0 - - + -
249G ILE* 3.7 30.3 - - + -
266G MET* 4.0 26.5 - - + -
268G VAL* 4.1 7.0 - - + -
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Residues in contact with THR 187 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167G ASP 3.5 2.2 + - - +
168G ILE* 3.3 7.3 - - - +
169G LYS* 2.9 52.0 + - - +
171G GLN* 3.6 37.1 - - + +
186G PHE* 1.3 72.2 - - - +
188G VAL* 1.3 61.9 + - - +
189G ASP* 4.4 12.1 + - - -
232G LYS 3.7 5.2 - - - -
233G VAL* 4.4 10.3 - - + +
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Residues in contact with VAL 188 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167G ASP 3.6 2.0 - - - -
168G ILE* 4.1 15.9 - - + -
186G PHE 4.2 9.4 - - - +
187G THR* 1.3 78.7 - - - +
189G ASP* 1.3 64.2 + - - +
190G LEU* 3.7 23.8 - - + -
202G PHE* 4.0 20.4 - - + -
204G MET* 4.2 21.5 - - + -
230G TYR* 4.7 9.9 - - + -
231G SER* 3.4 4.0 - - - -
232G LYS* 2.8 48.0 + - + +
234G ARG* 4.4 10.1 - - + -
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Residues in contact with ASP 189 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165G THR* 3.8 1.9 - - - +
166G ILE* 3.6 1.0 - - - -
167G ASP* 2.7 60.5 + - + +
169G LYS* 5.6 2.1 + - - -
187G THR* 4.4 13.3 + - - -
188G VAL* 1.3 77.5 - - - +
190G LEU* 1.3 62.3 + - - +
191G ASN* 3.9 3.2 + - + +
229G THR* 4.2 8.7 - - + +
230G TYR 3.5 2.5 - - - -
231G SER* 2.6 30.4 + - - -
232G LYS 5.3 0.4 - - - +
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Residues in contact with LEU 190 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164G LEU* 4.4 6.3 - - + -
165G THR 3.4 4.9 - - - +
166G ILE* 4.2 30.1 - - + -
168G ILE* 4.7 3.4 - - + -
188G VAL* 3.7 21.3 - - + -
189G ASP* 1.3 77.2 - - - +
191G ASN* 1.3 60.7 + - - +
192G ASN 3.9 1.4 + - - -
200G VAL* 4.5 10.5 - - + -
202G PHE* 4.4 24.0 - - + -
222G TRP* 5.9 1.1 - - + -
224G ILE* 4.2 17.5 - - + +
228G ASP 4.1 0.3 - - - +
229G THR* 3.5 4.4 - - - +
230G TYR* 2.9 59.9 + - + +
253G VAL* 4.4 10.8 - - + -
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Residues in contact with ASN 191 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163G GLY 3.5 0.5 - - - +
164G LEU* 3.5 3.4 - - - -
165G THR* 2.8 55.3 + - + +
189G ASP* 3.9 3.2 - - + +
190G LEU* 1.3 72.2 - - - +
192G ASN* 1.3 69.8 + - - +
193G GLY* 3.2 11.9 + - - +
227G GLY* 4.2 6.2 - - - +
228G ASP 3.5 9.9 - - - +
229G THR* 4.0 17.2 + - + -
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Residues in contact with ASN 192 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164G LEU* 3.5 12.2 - - + +
190G LEU 3.9 1.0 + - - -
191G ASN* 1.3 74.4 + - - +
193G GLY* 1.3 57.2 + - - +
194G ARG* 3.0 29.6 + - - +
196G GLY 3.2 19.8 + - - -
198G ALA* 3.4 14.6 - - - +
224G ILE* 2.8 45.1 + - + -
225G ALA 3.2 12.9 + - - +
226G SER* 3.9 1.8 - - - +
227G GLY* 3.0 28.4 + - - -
228G 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