Contacts of the strand formed by residues 191 - 200 (chain C) in PDB entry 6MOL
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 ARG 191 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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163C GLY* 3.1 39.7 + - - -
190C THR* 1.3 73.9 - - - +
192C TYR* 1.3 60.2 + - - +
193C THR* 3.7 17.7 + - - -
217C SER* 3.2 29.4 + - - -
218C LEU 3.9 8.5 - - - +
219C LEU* 4.1 18.8 - - + +
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Residues in contact with TYR 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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160C VAL* 3.5 28.7 - - + -
161C SER 3.5 12.8 - - - -
162C ALA* 4.6 5.2 - - + -
169C VAL* 4.6 14.4 - - + +
186C LEU* 3.6 21.1 - - + -
187C ARG* 3.0 54.3 + - + +
190C THR* 3.4 27.8 + - + -
191C ARG* 1.3 72.4 - - - +
193C THR* 1.3 60.3 + - - +
194C PHE* 3.6 26.0 - + + -
217C SER* 3.2 2.1 - - - -
218C LEU 2.8 39.3 + - - +
220C THR* 3.9 14.8 - - + -
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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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159C ASP* 3.3 2.8 - - - +
160C VAL* 4.0 1.2 - - - -
161C SER* 3.0 46.1 + - - -
162C ALA 5.7 0.2 - - - -
163C GLY* 5.2 3.8 - - - -
191C ARG* 3.7 16.1 + - - -
192C TYR* 1.3 73.3 - - - +
194C PHE* 1.3 63.4 + - - +
215C PRO* 3.7 28.7 - - + -
216C VAL 3.8 2.7 - - - +
217C SER* 3.1 23.1 + - - +
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Residues in contact with PHE 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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127C LEU* 3.4 5.4 - - + +
129C ALA* 4.1 12.8 - - + -
138C VAL* 3.8 33.0 - - + -
140C LEU* 3.8 32.8 - - + -
158C VAL* 5.9 0.4 - - + -
159C ASP 3.4 9.6 - - - +
160C VAL* 4.0 12.6 - - + -
183C LEU* 3.7 24.2 - - + -
186C LEU* 5.2 1.3 - - + -
192C TYR* 3.6 37.5 - + + -
193C THR* 1.3 77.0 - - - +
195C ALA* 1.3 60.8 + - - +
215C PRO* 3.2 7.6 - - - +
216C VAL 2.9 49.4 + - - +
218C LEU* 4.1 14.4 - - + -
220C THR* 5.8 2.0 - - + -
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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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127C LEU* 3.9 2.9 - - - -
140C LEU* 6.4 0.2 - - - -
158C VAL* 3.3 3.2 - - - +
159C ASP* 2.7 42.1 + - + +
194C PHE* 1.3 77.0 - - - +
196C VAL* 1.3 59.2 + - - +
212C TRP* 3.3 24.5 - - + -
213C SER* 3.8 25.6 - - - +
215C PRO* 4.6 8.5 - - + -
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Residues in contact with VAL 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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124C PRO* 3.8 22.6 - - + +
127C LEU* 4.2 12.8 - - + -
142C TRP* 3.8 39.0 - - + +
156C TYR* 4.0 5.6 - - + -
157C GLU 3.4 7.6 - - - +
158C VAL* 3.9 15.7 - - + +
195C ALA* 1.3 73.8 - - - +
197C ARG* 1.3 74.3 + - - +
212C TRP* 3.5 6.5 - - - -
213C SER* 3.1 41.1 + - - +
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Residues in contact with ARG 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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21C ARG* 5.4 8.5 - - - +
124C PRO* 4.1 1.5 - - - +
156C TYR* 3.2 28.9 - - - -
157C GLU* 2.6 34.7 + - + +
171C ARG* 4.2 17.1 - - - +
196C VAL* 1.3 75.4 - - - +
198C ALA* 1.3 60.3 + - - +
209C TRP* 3.5 57.6 - - + +
210C SER* 3.5 23.3 + - - +
211C ALA 4.7 1.1 - - - +
212C TRP* 3.5 44.6 - - + +
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Residues in contact with ALA 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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121C LEU* 4.5 6.8 - - + +
122C ASP 4.3 6.7 - - - +
124C PRO* 3.8 19.5 - - + -
145C PRO* 4.8 3.4 - - + -
154C ILE* 4.2 6.7 - - + -
155C ARG 3.3 6.5 - - - -
156C TYR* 4.1 11.9 - - + -
197C ARG* 1.3 79.2 - - - +
199C ARG* 1.3 62.4 + - - +
208C PHE 4.1 0.5 - - - +
209C TRP* 3.5 2.8 - - - -
210C SER* 2.8 45.0 + - - +
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Residues in contact with ARG 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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121C LEU* 3.9 13.6 - - - +
154C ILE* 3.6 2.3 - - - -
155C ARG* 2.6 74.4 + - + +
198C ALA* 1.3 76.6 - - - +
200C MET* 1.3 68.8 + - - +
202C GLU* 3.3 22.8 + - - -
206C GLY* 4.9 0.2 - - - -
207C GLY 3.1 34.8 + - - +
208C PHE 3.7 18.4 - - - +
209C TRP* 3.5 45.3 - - + +
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Residues in contact with MET 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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119C VAL* 3.7 35.4 + - + -
121C LEU* 3.7 26.4 - - + +
148C THR* 4.6 1.3 - - + -
149C PRO* 3.7 23.6 - - + +
150C MET* 4.0 17.5 - - + +
153C HIS* 3.8 15.9 - - - +
154C ILE* 4.0 13.5 - - + -
199C ARG* 1.3 82.5 + - - +
201C ALA* 1.3 63.9 + - - +
202C GLU* 3.8 8.1 - - - +
205C PHE* 3.5 39.5 - - + +
206C GLY* 4.4 6.8 - - - +
207C GLY* 5.9 1.2 - - - +
208C PHE 5.3 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