Contacts of the strand formed by residues 211 - 223 (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 ASP 211 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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193C TYR* 2.6 31.4 + - + +
194C GLY 3.1 15.7 - - - +
195C ARG* 3.6 5.8 - - + -
209C SER 2.8 13.6 + - - +
210C LYS* 1.3 84.2 - - + +
212C GLY* 1.3 60.8 + - - +
213C TRP* 6.1 0.4 - - - -
237C ASP* 3.2 13.7 - - - +
238C ALA* 2.9 25.5 + - - +
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Residues in contact with GLY 212 (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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193C TYR* 3.3 9.0 - - - -
194C GLY 3.0 27.7 + - - -
211C ASP* 1.3 82.1 - - - +
213C TRP* 1.3 67.4 + - - -
236C THR* 3.3 21.8 - - - -
238C ALA* 3.8 1.0 - - - +
239C MET* 3.5 10.8 - - - -
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Residues in contact with TRP 213 (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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191C VAL* 3.7 32.8 - - + -
192C ASP 3.2 12.8 - - - -
193C TYR* 3.4 38.7 - + + -
211C ASP* 6.2 0.2 - - - -
212C GLY* 1.3 78.8 - - - -
214C MET* 1.3 62.8 + - - +
215C PHE* 3.9 29.6 - + + -
234C TYR 4.5 0.4 - - - -
235C ALA* 3.3 2.3 - - - -
236C THR* 2.8 45.0 + - + +
239C MET* 3.5 4.3 - - - +
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Residues in contact with MET 214 (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* 5.2 1.3 - - - -
190C GLY 4.0 0.2 - - - +
191C VAL* 3.5 3.6 - - - +
192C ASP* 2.8 41.4 + - + +
213C TRP* 1.3 76.1 - - - +
215C PHE* 1.3 74.7 + - - +
216C THR* 4.3 4.5 - - - +
233C GLN* 4.4 16.2 - - + +
234C TYR 3.3 11.4 - - - +
235C ALA* 3.8 9.6 - - + -
239C MET* 4.0 17.5 - - + +
243C GLY* 3.4 32.3 - - - +
244C LYS* 3.9 3.8 - - - +
245C GLY* 3.6 25.1 - - - +
279C MET* 3.5 24.5 - - + -
281C ARG* 4.4 4.5 - - - +
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Residues in contact with PHE 215 (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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190C GLY 3.5 3.4 - - - +
191C VAL* 4.0 32.3 - - + -
213C TRP* 3.9 35.7 - + + -
214C MET* 1.3 79.3 - - - +
216C THR* 1.3 63.5 + - - +
232C VAL 3.8 0.7 - - - +
233C GLN* 3.1 8.0 - - - +
234C TYR* 2.9 64.8 + + + +
236C THR* 5.9 1.1 - - - -
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Residues in contact with THR 216 (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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119C TYR* 5.7 0.9 - - + -
120C TRP* 3.6 50.2 + - + -
188C GLU 4.4 0.7 - - - +
189C LEU* 3.4 5.4 - - - +
190C GLY 2.9 31.1 + - - +
192C ASP* 5.2 0.7 + - - -
214C MET* 4.5 5.7 - - - +
215C PHE* 1.3 75.4 - - - +
217C ALA* 1.3 71.7 + - - +
218C GLU* 4.6 3.6 - - + +
231C VAL* 4.4 5.6 - - + -
232C VAL 3.6 3.1 - - - -
233C GLN* 2.8 36.0 + - + +
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Residues in contact with ALA 217 (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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187C LEU* 4.6 7.2 - - + -
188C GLU 3.4 6.7 - - - -
189C LEU* 4.0 15.9 - - + -
216C THR* 1.3 76.4 - - - +
218C GLU* 1.3 62.1 + - - +
219C HIS 4.3 0.2 - - - -
230C PHE 3.7 1.3 - - - +
231C VAL* 3.4 4.5 - - - +
232C VAL* 3.0 41.9 + - + +
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Residues in contact with GLU 218 (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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110C HIS* 2.9 33.2 + - + +
119C TYR* 2.6 35.5 + - - -
120C TRP* 5.4 0.2 - - - -
186C VAL 3.9 0.7 - - - +
187C LEU* 3.5 4.9 - - - +
188C GLU* 2.9 46.0 + - + +
216C THR* 4.8 7.4 - - + -
217C ALA* 1.3 74.1 - - - +
219C HIS* 1.3 64.7 + - - +
220C THR* 4.1 9.3 + - - +
229C LYS* 3.3 28.2 + - + -
230C PHE 3.4 3.4 - - - +
231C VAL* 3.7 14.8 - - + +
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Residues in contact with HIS 219 (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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181C THR* 3.3 16.2 + - + -
182C ASN* 3.0 22.6 + - - -
185C GLY* 3.5 5.3 - - - -
186C VAL 3.1 20.6 - - - -
187C LEU* 4.2 13.2 - - + +
217C ALA 4.3 0.2 - - - -
218C GLU* 1.3 74.1 - - - +
220C THR* 1.3 68.6 + - - +
221C GLN* 3.3 31.1 + - + +
228C ASN* 3.5 3.3 + - - +
229C LYS* 3.2 5.9 - - - -
230C PHE* 2.9 48.8 + - + +
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Residues in contact with THR 220 (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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184C ASP 3.6 1.7 - - - +
185C GLY* 3.3 3.5 - - - -
186C VAL* 2.8 45.0 + - - +
218C GLU* 4.2 6.6 + - - +
219C HIS* 1.3 75.0 - - - +
221C GLN* 1.3 63.9 + - - +
222C SER* 4.1 4.4 + - - +
227C TYR* 4.1 18.6 - - + -
228C ASN 3.6 1.6 - - - -
229C LYS* 3.0 40.2 + - + +
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Residues in contact with GLN 221 (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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182C ASN* 2.8 25.5 + - - +
183C PRO 3.1 16.8 + - - -
184C ASP* 2.9 26.3 + - - +
185C GLY* 3.2 8.7 - - - -
219C HIS* 3.3 14.6 + - + +
220C THR* 1.3 73.0 - - - +
222C SER* 1.3 68.4 + - - +
223C MET* 3.7 14.2 + - + +
227C TYR* 3.2 6.4 - - - -
228C ASN* 2.9 41.4 + - + +
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Residues in contact with SER 222 (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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184C ASP* 2.9 34.0 + - - +
220C THR* 4.1 5.4 + - - +
221C GLN* 1.3 82.7 + - - +
223C MET* 1.3 64.2 + - - +
226C GLY 3.6 10.9 + - - -
227C TYR* 4.5 1.9 - - - +
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Residues in contact with MET 223 (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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221C GLN* 3.9 20.4 - - + +
222C SER* 1.3 77.6 - - - +
224C LEU* 1.3 86.4 + - + +
225C LYS 3.0 3.4 - - - -
226C GLY* 2.7 36.9 + - - +
227C TYR* 4.5 2.7 - - - -
228C ASN* 4.3 20.6 - - + -
288C ILE* 4.0 21.3 - - + +
298C TYR* 4.6 4.7 - - - +
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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