Contacts of the helix formed by residues 191 - 208 (chain C) in PDB entry 3M0V
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 ASN 191 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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308A GLU* 6.0 0.9 - - - -
311A ASP* 2.9 34.4 + - - +
315A ARG* 4.2 6.0 - - - +
365A GLN* 3.7 29.0 + - + +
190C SER* 1.3 72.0 - - - +
192C PHE* 1.3 64.4 + - - +
193C THR* 3.1 11.8 + - - -
194C ARG* 3.0 44.1 + - + +
195C ALA* 3.0 23.3 + - - +
198C ARG* 5.1 3.2 + - - +
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Residues in contact with PHE 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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263A ASN* 4.2 5.2 - - - -
265A GLU* 3.7 21.5 - - + -
266A MET* 3.7 35.4 - - + -
269A ALA* 3.8 13.7 - - + -
270A ARG* 3.4 21.4 + - - +
308A GLU* 3.4 38.2 + - - +
184C SER* 4.7 1.6 - - - -
188C GLY 6.2 0.9 - - - -
190C SER* 3.6 14.5 + - - -
191C ASN* 1.3 71.2 + - - +
193C THR* 1.3 62.9 + - - +
195C ALA* 3.8 4.5 - - - +
196C PHE* 3.1 16.8 + - - +
228C TYR* 3.6 30.5 - + - -
229C SER* 3.4 28.0 - - - -
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Residues in contact with THR 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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269A ALA* 4.0 21.8 + - - +
270A ARG* 4.6 1.3 - - - +
273A GLN* 3.9 29.9 + - + +
308A GLU* 5.1 1.1 + - - -
315A ARG* 3.2 40.1 + - - +
191C ASN* 3.1 8.7 + - - -
192C PHE* 1.3 74.9 - - - +
194C ARG* 1.3 64.1 + - - +
196C PHE* 3.2 3.1 + - - +
197C GLU* 2.9 46.9 + - - +
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Residues in contact with ARG 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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315A ARG* 3.9 37.3 + - - +
191C ASN* 3.0 33.1 + - + +
193C THR* 1.3 77.3 - - - +
195C ALA* 1.3 63.2 + - - +
197C GLU* 2.9 32.0 + - - +
198C ARG* 3.0 46.8 + - - +
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Residues in contact with ALA 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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147C SER* 3.4 16.1 - - - +
190C SER* 4.8 11.0 - - - -
191C ASN 3.0 19.5 + - - +
192C PHE* 3.8 6.1 - - - +
194C ARG* 1.3 77.9 - - - +
196C PHE* 1.3 56.8 + - - +
198C ARG* 3.3 24.6 + - - +
199C TYR* 3.0 22.2 + - - +
231C VAL* 4.4 18.8 - - + -
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Residues in contact with PHE 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
270A ARG* 3.6 30.3 - - - +
273A GLN* 3.2 24.0 - - - +
274A PHE* 3.8 21.1 - + - -
192C PHE 3.1 16.0 + - - +
193C THR 3.7 3.6 - - - +
195C ALA* 1.3 77.0 - - - +
197C GLU* 1.3 59.5 + - - +
199C TYR* 3.2 5.1 + + - +
200C LEU* 2.9 50.0 + - + +
231C VAL* 3.8 20.2 - - + +
237C THR* 3.6 24.0 - - + -
240C LEU* 4.3 7.0 - - + -
241C ILE* 3.5 32.8 - - + -
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Residues in contact with GLU 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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273A GLN* 4.0 19.5 + - - +
193C THR* 2.9 38.4 + - + +
194C ARG* 2.9 46.0 + - - +
196C PHE* 1.3 76.0 - - - +
198C ARG* 1.3 63.7 + - + +
200C LEU* 3.3 10.6 + - - +
201C SER* 3.1 23.6 + - - -
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Residues in contact with ARG 198 (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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366A GLU* 5.3 4.2 + - - -
146C LEU 3.4 8.1 - - - +
147C SER* 2.9 32.4 + - - -
148C HIS 3.5 15.8 + - - -
149C THR* 3.5 29.0 - - - +
154C ARG* 3.7 23.7 + - - +
190C SER* 5.8 2.6 - - - +
191C ASN* 5.1 4.2 + - - +
194C ARG* 3.0 39.9 + - - +
195C ALA* 3.5 28.9 - - - +
197C GLU* 1.3 77.8 - - + +
199C TYR* 1.3 61.2 + - - +
201C SER* 3.3 7.3 + - - -
202C ALA* 3.0 19.6 + - - +
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Residues in contact with TYR 199 (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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146C LEU* 3.8 17.7 + - + -
147C SER* 4.0 7.4 - - - -
178C VAL* 5.0 5.2 + - + +
180C ILE* 3.6 33.2 - - + -
195C ALA 3.0 14.3 + - - +
196C PHE* 3.2 20.8 + + - +
198C ARG* 1.3 77.8 - - - +
200C LEU* 1.3 61.3 + - + +
202C ALA* 3.3 2.4 + - - +
203C MET* 2.9 69.6 + - + +
218C SER* 3.6 18.2 - - - -
231C VAL* 4.0 12.8 - - + -
232C VAL* 3.7 18.7 - - + +
241C ILE* 3.3 29.5 - - + +
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Residues in contact with LEU 200 (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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273A GLN* 4.1 12.8 - - - +
274A PHE* 4.8 7.6 - - + -
196C PHE* 2.9 58.9 + - + +
197C GLU* 3.7 7.2 - - - +
198C ARG 3.3 0.2 - - - -
199C TYR* 1.3 79.1 - - + +
201C SER* 1.3 61.4 + - - +
203C MET* 3.5 3.8 + - - +
204C ALA* 3.0 23.2 + - - +
241C ILE* 4.0 27.1 - - + +
244C THR* 4.4 26.1 - - + +
245C LEU* 4.0 8.1 - - + +
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Residues in contact with SER 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154C ARG* 6.1 1.6 - - - -
197C GLU 3.1 17.0 + - - -
198C ARG* 3.6 7.4 - - - -
199C TYR 3.2 0.2 - - - -
200C LEU* 1.3 77.4 - - - +
202C ALA* 1.3 61.3 + - - +
204C ALA* 3.2 19.6 + - - +
205C GLU* 3.4 18.9 + - - +
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Residues in contact with ALA 202 (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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146C LEU* 3.3 37.2 - - + +
154C ARG* 4.9 8.1 - - + +
158C VAL* 3.6 22.4 - - + +
198C ARG 3.0 8.9 + - - +
199C TYR 3.7 3.4 - - - +
201C SER* 1.3 74.7 - - - +
203C MET* 1.3 65.1 + - - +
205C GLU* 3.1 19.8 + - - +
206C ILE* 3.2 16.4 + - - +
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Residues in contact with MET 203 (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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146C LEU* 3.9 22.7 - - + -
178C VAL* 4.2 17.9 - - + -
199C TYR* 2.9 58.3 + - + +
200C LEU* 3.9 2.0 - - - +
202C ALA* 1.3 77.3 - - - +
204C ALA* 1.3 57.0 + - - +
206C ILE* 3.1 15.6 + - - +
207C TYR* 2.8 30.0 + - - +
216C LEU* 3.7 31.6 - - + +
218C SER* 4.3 10.3 - - - -
245C LEU* 3.8 25.5 - - + +
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Residues in contact with ALA 204 (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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200C LEU 3.0 15.9 + - - +
201C SER* 3.3 14.1 - - - +
203C MET* 1.3 77.8 - - - +
205C GLU* 1.3 61.2 + - + +
207C TYR* 3.4 6.2 + - - +
208C LYS* 3.2 35.8 + - - +
245C LEU* 3.7 12.8 - - + +
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Residues in contact with GLU 205 (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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155C ALA* 6.0 1.7 - - - -
158C VAL* 3.9 26.7 - - + +
162C LEU* 4.2 7.6 - - - +
201C SER* 3.4 19.0 + - - +
202C ALA* 3.1 12.0 + - - +
204C ALA* 1.3 77.1 - - + +
206C ILE* 1.3 64.6 + - - +
208C LYS* 3.4 33.2 + - + +
209C GLY 3.7 3.1 + - - -
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Residues in contact with ILE 206 (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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146C LEU* 3.9 18.8 - - + -
158C VAL* 4.0 16.4 - - + +
161C ASN* 3.5 38.4 - - + +
162C LEU* 4.0 9.2 - - + +
165C ILE* 4.1 7.9 - - + +
176C LEU* 4.0 25.4 - - + -
178C VAL* 5.0 0.7 - - + -
202C ALA 3.2 9.6 + - - +
203C MET* 3.1 25.7 + - - +
205C GLU* 1.3 74.0 - - - +
207C TYR* 1.3 66.6 + - - +
209C GLY* 2.9 16.1 + - - -
210C LEU* 3.6 6.6 + - + +
216C LEU* 4.1 13.5 - - + -
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Residues in contact with TYR 207 (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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203C MET 2.8 16.6 + - - +
204C ALA* 3.4 10.8 - - - +
206C ILE* 1.3 77.8 - - - +
208C LYS* 1.3 65.7 + - + +
210C LEU* 3.1 34.8 + - + +
216C LEU* 4.4 6.5 - - + +
245C LEU* 3.5 44.4 - - + -
246C GLY* 3.3 0.6 - - - -
247C PRO* 3.3 16.5 - - - +
248C LYS* 3.1 48.5 + - + +
249C ALA* 3.8 23.8 - - + -
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Residues in contact with LYS 208 (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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204C ALA* 3.2 26.6 + - - +
205C GLU* 3.5 24.5 - - + +
206C ILE 3.2 0.4 - - - -
207C TYR* 1.3 79.4 - - + +
209C GLY* 1.3 58.2 + - - +
210C LEU 3.4 3.4 + - - +
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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