Contacts of the strand formed by residues 182 - 192 (chain H) 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 H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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177H VAL* 3.8 21.4 - - - +
181H GLY* 1.3 74.5 - - - -
183H PHE* 1.3 57.3 + - - -
237H ASN* 3.5 6.7 + - - +
238H PHE* 2.7 43.9 + - - +
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Residues in contact with PHE 183 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100G GLN* 4.9 13.9 - - - -
174H ILE* 4.5 9.7 - - - +
177H VAL* 4.4 1.4 - - - +
182H GLY* 1.3 74.1 - - - -
184H VAL* 1.3 63.7 + - - +
185H PRO* 3.9 29.9 - - + +
233H VAL* 6.5 0.2 - - + -
235H GLY* 3.6 32.3 - - - -
236H ILE 3.5 13.9 - - - -
237H ASN* 3.9 18.2 - - + +
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Residues in contact with VAL 184 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170H ASN* 3.7 22.0 - - - +
174H ILE* 4.0 17.3 - - + +
177H VAL* 3.8 23.8 - - + -
183H PHE* 1.3 78.5 - - - +
185H PRO* 1.3 71.9 - - + +
186H PHE* 3.5 32.6 - - + -
235H GLY* 3.4 1.6 - - - -
236H ILE 2.9 29.8 + - - -
238H PHE* 4.0 18.2 - - + -
268H VAL* 4.4 8.7 - - + -
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Residues in contact with PRO 185 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170H ASN* 4.3 0.2 - - - +
171H GLN* 3.2 43.2 + - - +
172H PHE* 3.7 26.2 - - + +
174H ILE* 4.5 7.6 - - + -
183H PHE* 3.9 24.7 - - + +
184H VAL* 1.3 92.8 - - + +
186H PHE* 1.3 64.3 + - - +
233H VAL* 4.0 11.2 - - + -
235H GLY* 3.7 8.5 - - - -
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Residues in contact with PHE 186 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168H ILE* 4.7 2.9 - - + -
169H LYS 3.3 8.5 - - - +
170H ASN* 3.6 34.8 - - + -
184H VAL* 3.5 36.1 - - + -
185H PRO* 1.3 75.8 - - - +
187H THR* 1.3 67.0 + - - +
188H VAL* 3.8 2.6 + - + +
204H MET* 4.5 16.8 - - + -
216H VAL* 5.6 1.1 - - + -
233H VAL* 3.4 3.9 - - - -
234H ARG 2.8 48.2 + - - +
235H GLY 5.1 0.2 - - - -
236H ILE* 3.7 19.3 - - + -
249H ILE* 3.7 28.9 - - + -
266H MET* 4.0 26.9 - - + -
268H VAL* 4.1 7.6 - - + -
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Residues in contact with THR 187 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167H ASP 3.5 2.1 + - - +
168H ILE* 3.3 7.1 - - - +
169H LYS* 2.9 51.6 + - - +
171H GLN* 3.7 36.7 - - + +
186H PHE* 1.3 72.6 - - - +
188H VAL* 1.3 62.2 + - - +
189H ASP* 4.4 10.7 + - - -
232H LYS 3.7 4.5 - - - -
233H VAL* 4.4 11.0 - - + +
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Residues in contact with VAL 188 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167H ASP 3.6 2.0 - - - -
168H ILE* 4.1 16.2 - - + -
186H PHE 4.1 9.6 - - - +
187H THR* 1.3 79.3 - - - +
189H ASP* 1.3 66.2 + - - +
190H LEU* 3.7 23.1 - - + -
202H PHE* 4.0 20.6 - - + -
204H MET* 4.2 21.1 - - + -
230H TYR* 4.7 10.3 - - + -
231H SER* 3.3 4.2 - - - -
232H LYS* 2.8 46.2 + - + +
234H ARG* 4.4 10.5 - - + -
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Residues in contact with ASP 189 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165H THR* 3.8 1.7 - - - +
166H ILE* 3.6 1.2 - - - -
167H ASP* 2.7 59.0 + - + +
169H LYS* 5.5 2.4 + - - -
187H THR* 4.4 9.7 + - - -
188H VAL* 1.3 81.0 + - - +
190H LEU* 1.3 63.3 + - - +
191H ASN* 3.9 4.1 + - + +
229H THR* 4.2 6.0 + - - +
230H TYR 3.5 2.0 - - - -
231H SER* 2.6 30.9 + - - -
232H LYS 5.3 0.3 - - - +
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Residues in contact with LEU 190 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164H LEU* 4.4 5.6 - - + -
165H THR 3.4 4.3 - - - +
166H ILE* 4.2 30.1 - - + -
168H ILE* 4.7 2.5 - - + -
188H VAL* 3.7 21.8 - - + -
189H ASP* 1.3 79.3 - - - +
191H ASN* 1.3 60.6 + - - +
192H ASN 3.8 1.7 + - - -
200H VAL* 4.6 9.9 - - + -
202H PHE* 4.3 23.6 - - + -
222H TRP* 5.9 1.1 - - + -
224H ILE* 4.2 18.6 - - + +
228H ASP 4.1 0.2 - - - +
229H THR* 3.4 4.7 + - - -
230H TYR* 2.9 59.1 + - + +
253H VAL* 4.4 11.4 - - + -
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Residues in contact with ASN 191 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163H GLY 3.5 0.5 - - - +
164H LEU* 3.5 2.7 - - - -
165H THR* 2.8 54.5 + - + +
189H ASP* 3.9 4.6 - - + +
190H LEU* 1.3 72.2 - - - +
192H ASN* 1.3 61.3 + - - +
193H GLY 3.2 5.8 + - - +
228H ASP 4.0 5.2 - - - +
229H THR* 4.6 9.2 - - - +
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Residues in contact with ASN 192 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164H LEU* 3.5 12.3 - - + +
190H LEU 3.8 0.8 + - - -
191H ASN* 1.3 69.3 - - - +
193H GLY* 1.3 56.5 + - - +
194H ARG* 3.0 30.0 + - - +
196H GLY 3.2 18.9 + - - -
198H ALA* 3.4 14.8 - - - +
224H ILE* 2.8 45.1 + - + -
225H ALA 3.2 12.7 + - - +
226H SER* 3.9 1.8 - - - +
227H GLY* 3.0 28.8 + - - -
228H ASP 3.1 10.0 + - - +
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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