Contacts of the strand formed by residues 185 - 197 (chain C) in PDB entry 2MPR
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 185 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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180C GLN* 3.2 14.1 + - - +
181C THR* 3.3 14.3 + - - -
182C ASN* 2.9 25.7 + - - +
183C PRO 3.1 1.6 - - - -
184C ASP* 1.3 78.7 - - - +
186C VAL* 1.3 62.2 + - - -
219C HIS* 3.5 1.8 - - - -
220C THR 3.3 4.9 - - - -
221C GLN* 3.2 15.9 - - - -
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Residues in contact with VAL 186 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178C GLY* 3.4 34.8 - - - +
179C LEU 3.2 7.0 - - - +
180C GLN* 3.3 28.9 - - + +
181C THR* 4.2 0.7 - - - -
184C ASP 5.4 1.3 - - - -
185C GLY* 1.3 75.6 - - - +
187C LEU* 1.3 66.7 + - - +
188C GLU* 6.0 0.7 - - + -
218C GLU 3.9 0.2 - - - +
219C HIS* 3.1 9.0 + - - -
220C THR* 2.8 42.0 + - - +
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Residues in contact with LEU 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178C GLY 3.5 4.3 + - - -
179C LEU* 2.7 50.3 + - + +
181C THR* 3.6 27.1 - - + +
186C VAL* 1.3 78.9 - - - +
188C GLU* 1.3 65.4 + - - +
189C LEU* 3.9 25.8 - - + -
217C ALA* 4.6 6.1 - - + -
218C GLU 3.5 25.4 - - - +
219C HIS* 4.2 11.9 - - + -
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Residues in contact with GLU 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108C GLN* 4.2 11.1 - - - +
110C HIS* 3.2 26.0 + - - -
120C TRP* 3.9 20.5 - - + -
175C ARG* 4.0 17.7 + - - +
176C LEU 3.2 12.1 - - - +
177C ALA* 3.7 22.2 - - + +
178C GLY 4.9 0.2 - - - +
186C VAL* 6.0 0.7 - - + -
187C LEU* 1.3 75.2 - - - +
189C LEU* 1.3 70.4 + - - +
216C THR* 3.9 1.2 - - - +
217C ALA* 3.4 5.2 - - - -
218C GLU* 2.9 42.5 + - + +
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Residues in contact with LEU 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C TRP* 4.4 0.4 - - - -
175C ARG* 3.3 3.6 - - - +
176C LEU* 2.8 45.8 + - + +
179C LEU* 3.6 27.8 - - + -
187C LEU* 3.9 21.1 - - + -
188C GLU* 1.3 84.6 - - - +
190C GLY* 1.3 57.7 + - - +
191C VAL* 6.5 0.2 - - + -
216C THR 3.4 3.6 - - - +
217C ALA* 4.0 18.6 - - + -
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Residues in contact with GLY 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C TRP* 3.7 23.7 - - - -
174C VAL 3.2 10.8 - - - -
189C LEU* 1.3 75.8 - - - +
191C VAL* 1.3 66.1 + - - +
192C ASP* 5.2 0.7 - - - -
214C MET 4.6 0.2 - - - -
215C PHE* 3.5 4.0 - - - +
216C THR 2.9 36.0 + - - +
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Residues in contact with VAL 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C TRP* 4.9 0.4 - - - -
172C PHE 3.8 0.5 - - - +
173C ASP* 3.6 3.3 - - - +
174C VAL* 2.9 41.5 + - + +
189C LEU 5.9 0.2 - - - -
190C GLY* 1.3 79.7 - - - +
192C ASP* 1.3 69.4 + - - +
193C TYR* 5.6 0.2 - - + -
213C TRP* 3.7 33.7 - - + -
214C MET 3.5 2.9 - - - +
215C PHE* 4.0 23.1 - - + -
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Residues in contact with ASP 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C TRP* 3.1 29.0 + - - -
122C ILE* 3.9 4.8 - - - +
171C VAL* 3.6 12.2 - - + +
172C PHE 3.4 2.5 - - - +
173C ASP* 2.6 33.7 - - - +
190C GLY 5.2 0.3 - - - -
191C VAL* 1.3 77.8 - - - +
193C TYR* 1.3 60.2 + - - +
213C TRP* 3.2 8.0 - - - -
214C MET* 2.8 42.3 + - + +
216C THR* 5.2 1.0 + - - -
239C MET* 3.5 20.9 - - + +
245C GLY* 4.4 8.4 - - - -
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Residues in contact with TYR 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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171C VAL* 4.4 0.4 - - - -
172C PHE* 2.9 57.9 + + + +
191C VAL* 4.3 0.6 - - + +
192C ASP* 1.3 73.9 - - - +
194C GLY* 1.3 58.4 + - - +
195C ARG* 3.7 30.0 - - + -
211C ASP* 2.6 41.2 + - + +
212C GLY 3.3 17.0 - - - -
213C TRP* 3.4 48.2 - + + -
239C MET* 4.5 1.1 - - - -
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Residues in contact with GLY 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170C ASP 3.1 11.0 - - - -
171C VAL* 4.2 2.7 - - - -
193C TYR* 1.3 77.5 - - - +
195C ARG* 1.3 63.0 + - - -
211C ASP* 3.1 5.4 - - - +
212C GLY 3.0 34.0 + - - +
239C MET* 4.0 8.6 - - - +
247C ALA* 3.8 19.3 - - - +
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Residues in contact with ARG 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169C ASN* 3.3 6.4 - - - -
170C ASP* 3.0 37.5 + - + +
172C PHE* 4.6 15.0 - - + -
193C TYR* 3.7 27.1 - - + +
194C GLY* 1.3 76.0 - - - +
196C ALA* 1.3 90.3 + - - +
197C ASN* 3.5 28.3 + - + +
210C LYS* 3.3 26.9 - - + +
211C ASP* 3.6 14.4 - - + -
247C ALA* 3.8 3.7 - - - +
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Residues in contact with ALA 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167C THR* 3.8 20.9 - - + -
168C ALA 3.5 6.5 - - - -
169C ASN* 3.8 11.0 + - - +
195C ARG* 1.3 98.1 + - - +
197C ASN* 1.3 54.4 + - - +
204C LEU* 4.0 16.6 - - + -
210C LYS* 2.9 37.7 + - - +
249C GLY* 4.3 8.1 - - - -
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Residues in contact with ASN 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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13A TRP* 3.6 17.6 - - - -
17A GLY* 3.9 4.0 - - - -
18A GLY* 2.8 45.2 + - - +
19A GLU* 4.3 1.0 - - - +
145C ARG* 4.9 0.4 - - - +
167C THR* 4.5 1.3 - - - +
168C ALA* 2.8 30.0 + - + +
170C ASP* 3.1 29.8 + - - +
195C ARG* 3.7 26.3 + - - +
196C ALA* 1.3 74.9 - - - +
198C THR* 1.3 60.9 + - - +
199C THR 4.0 0.3 + - - -
210C LYS* 4.8 0.2 - - - +
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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