Contacts of the strand formed by residues 183 - 192 (chain X) in PDB entry 3HI6
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 TYR 183 (chain X).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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151X ASP 2.9 22.3 + - - -
152X TYR* 2.8 49.3 + - + +
153X PHE* 3.8 28.9 - + - -
154X PRO* 4.5 0.4 - - + -
155X GLU* 3.4 46.2 + - + -
175X ALA* 3.9 16.2 - - + -
176X VAL 3.4 15.7 - - - -
177X LEU* 3.9 33.3 - - + +
178X GLN* 3.8 0.7 - - - -
182X LEU* 1.3 74.1 - - - +
184X SER* 1.3 60.8 + - - +
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Residues in contact with SER 184 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148X LEU* 5.2 5.3 - - - +
149X VAL 3.2 12.8 - - - -
150X LYS* 3.9 16.8 - - - -
152X TYR* 3.9 3.6 - - - -
174X PRO 4.4 0.3 - - - +
175X ALA* 3.4 1.4 - - - -
176X VAL* 2.9 45.4 + - - +
178X GLN* 3.4 25.2 + - - +
183X TYR* 1.3 75.0 - - - +
185X LEU* 1.3 63.0 - - - +
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Residues in contact with LEU 185 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148X LEU* 3.6 5.6 - - - +
149X VAL* 2.7 58.4 + - + +
152X TYR* 3.4 22.0 - - - +
157X VAL* 4.0 16.2 - - + +
159X VAL* 4.3 7.6 - - + -
172X THR* 3.9 19.5 - - + -
173X PHE* 3.5 23.3 - - - +
174X PRO 4.0 3.4 - - - +
175X ALA* 3.9 14.1 - - + +
176X VAL* 5.6 0.7 - - - -
184X SER* 1.3 75.3 - - - +
186X SER* 1.3 71.7 + - - +
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Residues in contact with SER 186 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131X LEU* 3.8 20.2 - - - +
147X CYS 3.3 6.1 - - - -
148X LEU* 3.3 23.9 - - - +
172X THR* 3.8 0.3 - - - -
173X PHE* 2.9 47.7 + - - +
185X LEU* 1.3 75.7 - - - +
187X SER* 1.3 61.3 + - - +
188X VAL* 5.0 2.2 - - - -
132Y VAL* 4.4 9.1 - - - +
175Y SER* 5.0 10.3 + - - -
177Y THR* 4.9 2.9 + - - -
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Residues in contact with SER 187 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146X GLY* 3.1 3.6 - - - -
147X CYS* 2.9 36.5 + - - +
149X VAL* 5.8 0.4 - - - -
159X VAL* 3.6 25.3 - - - +
161X TRP* 3.1 23.7 + - - -
170X VAL* 4.0 1.6 - - - +
171X HIS 3.2 5.8 + - - -
172X THR* 2.8 29.0 + - - +
185X LEU* 4.4 0.6 - - - +
186X SER* 1.3 72.8 - - - +
188X VAL* 1.3 63.9 + - - +
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Residues in contact with VAL 188 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131X LEU* 4.3 17.5 - - + -
145X LEU 3.3 13.9 - - - +
146X GLY* 4.1 0.4 - - - -
161X TRP* 4.5 2.7 - - - -
170X VAL* 3.3 5.5 - - - +
171X HIS* 2.7 64.3 + - + +
173X PHE* 3.9 18.2 - - + -
186X SER* 5.0 2.2 - - - -
187X SER* 1.3 81.1 - - - +
189X VAL* 1.3 62.3 + - - +
190X THR* 6.3 0.7 - - + -
117Y PHE* 4.9 5.8 - - + -
132Y VAL* 5.9 2.5 - - + -
134Y LEU* 4.0 35.9 - - + -
136Y ASN* 5.0 0.4 - - - +
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Residues in contact with VAL 189 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143X ALA 4.0 0.2 - - - +
144X ALA* 3.5 1.3 - - - -
145X LEU* 2.9 60.0 + - + +
161X TRP* 4.0 19.3 - - + -
166X LEU* 4.1 18.6 - - + -
168X SER 3.9 9.0 - - - +
169X GLY 3.4 12.8 - - - +
170X VAL* 3.9 21.1 - - + -
188X VAL* 1.3 76.5 - - - +
190X THR* 1.3 76.8 + - - +
191X VAL* 4.2 9.4 - - + -
201X TYR* 5.4 0.2 - - + -
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Residues in contact with THR 190 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142X THR* 4.8 12.6 - - - +
143X ALA 3.1 12.8 - - - +
144X ALA* 3.9 15.9 - - + -
166X LEU* 5.9 0.3 - - - +
168X SER 4.8 4.2 - - - +
169X GLY* 3.5 15.5 + - - +
188X VAL* 6.3 1.1 - - + -
189X VAL* 1.3 82.9 - - - +
191X VAL* 1.3 64.9 + - - +
115Y PHE* 4.6 8.7 - - + -
134Y LEU* 5.3 1.6 - - + -
136Y ASN* 3.3 30.8 + - - +
137Y ASN* 5.6 1.2 + - - -
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Residues in contact with VAL 191 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165H ALA* 4.9 4.9 - - + -
142X THR* 3.4 6.5 - - - -
143X ALA* 2.7 40.2 + - + +
145X LEU* 4.4 7.2 - - + -
166X LEU* 4.4 4.0 - - + -
189X VAL* 4.2 22.4 - - + +
190X THR* 1.3 79.1 - - - +
192X PRO* 1.4 79.7 - - + +
195X SER* 3.7 5.8 - - - +
196X LEU* 3.9 21.5 - - + -
201X TYR* 3.7 32.5 - - + +
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Residues in contact with PRO 192 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162H ASN* 5.9 7.0 - - + +
165H ALA* 4.8 13.0 - - + -
199H LYS* 5.6 1.3 - - - +
221H SO4 3.9 24.7 - - - +
141X SER 3.7 6.7 - - - +
142X THR* 4.4 6.3 - - + -
191X VAL* 1.4 90.3 - - + +
193X SER* 1.3 62.6 + - - +
194X SER* 3.7 17.0 - - - +
195X SER* 2.4 36.6 + - - +
196X LEU* 4.0 0.9 + - - +
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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