Contacts of the strand formed by residues 191 - 200 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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162B ALA* 3.9 0.7 - - - -
163B GLY* 2.9 44.9 + - - -
190B THR* 1.3 72.9 - - - +
192B TYR* 1.3 62.0 + - - +
193B THR* 3.5 22.0 + - - +
217B SER* 3.7 25.9 + - - -
218B LEU 3.5 17.3 - - - +
219B LEU* 3.5 15.2 - - + +
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Residues in contact with TYR 192 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160B VAL* 3.6 17.9 - - + -
161B SER 3.4 11.4 - - - -
162B ALA* 4.4 9.9 - - + -
169B VAL* 4.1 20.7 - - + +
185B ASN 4.9 0.9 + - - -
186B LEU* 3.6 29.6 - - + -
187B ARG* 3.1 48.1 + - - +
190B THR* 3.5 23.7 + - + +
191B ARG* 1.3 75.6 - - - +
193B THR* 1.3 61.0 + - - +
194B PHE* 3.5 27.7 - - + -
217B SER* 3.5 0.6 - - - -
218B LEU 3.1 31.6 + - - +
220B THR* 3.9 12.3 - - + -
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Residues in contact with THR 193 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159B ASP* 3.2 3.5 - - - +
160B VAL* 3.8 0.9 - - - -
161B SER* 2.9 45.1 + - - -
163B GLY* 5.1 2.9 - - - -
191B ARG* 3.5 21.9 + - - +
192B TYR* 1.3 72.7 - - - +
194B PHE* 1.3 64.3 + - - +
215B PRO* 3.6 27.4 - - + -
216B VAL 3.7 3.8 - - - +
217B SER* 3.2 24.2 + - - +
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Residues in contact with PHE 194 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B LEU* 3.5 5.6 - - + +
129B ALA* 4.0 17.7 - - + -
138B VAL* 3.8 33.0 - - + -
140B LEU* 3.7 24.0 - - + -
159B ASP 3.5 3.6 - - - +
160B VAL* 3.5 33.4 - - + -
183B LEU* 3.7 27.1 - - + -
186B LEU* 4.8 2.5 - - + -
192B TYR* 3.5 30.3 - + + -
193B THR* 1.3 75.2 - - - +
195B ALA* 1.3 60.1 + - - +
215B PRO* 3.3 7.1 - - - +
216B VAL 3.0 48.1 + - - +
218B LEU* 4.2 10.5 - - + -
220B THR* 6.2 0.2 - - + -
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Residues in contact with ALA 195 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127B LEU* 4.0 3.4 - - - -
158B VAL* 3.2 4.5 - - - +
159B ASP* 2.7 38.0 + - + +
194B PHE* 1.3 77.4 - - - +
196B VAL* 1.3 60.5 + - - +
212B TRP* 3.4 24.6 - - + -
213B SER* 3.8 24.5 - - - +
215B PRO* 4.6 8.3 - - + -
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Residues in contact with VAL 196 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B PRO* 3.7 23.7 - - + +
127B LEU* 4.1 13.9 - - + +
142B TRP* 3.7 38.6 - - + +
156B TYR* 3.9 6.1 - - + -
157B GLU 3.4 4.0 - - - +
158B VAL* 3.8 19.1 - - + +
195B ALA* 1.3 74.3 - - - +
197B ARG* 1.3 72.8 + - - +
212B TRP* 3.6 5.2 - - - -
213B SER* 3.1 41.2 + - - +
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Residues in contact with ARG 197 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17B LEU* 5.8 5.3 - - - +
21B ARG* 3.2 31.3 - - - +
124B PRO* 4.2 1.1 - - - -
156B TYR* 3.1 29.3 - - - -
157B GLU* 2.6 37.3 + - + +
171B ARG* 5.2 6.2 - - - +
196B VAL* 1.3 74.2 - - - +
198B ALA* 1.3 61.1 + - - +
209B TRP* 3.5 56.8 - - + +
210B SER* 3.5 23.1 + - - +
211B ALA 4.7 0.7 - - - +
212B TRP* 3.5 44.7 - - + +
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Residues in contact with ALA 198 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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121B LEU* 4.4 7.2 - - + +
122B ASP 4.1 7.4 - - - +
124B PRO* 3.7 18.2 - - + -
145B PRO* 4.7 2.9 - - + -
154B ILE* 4.3 7.6 - - + -
155B ARG 3.4 6.5 - - - -
156B TYR* 4.1 11.7 - - + -
197B ARG* 1.3 80.3 - - - +
199B ARG* 1.3 61.2 + - - +
208B PHE 4.2 0.3 - - - +
209B TRP* 3.5 3.2 - - - -
210B SER* 2.8 46.1 + - - +
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Residues in contact with ARG 199 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119B VAL 6.0 0.2 - - - -
121B LEU* 3.7 13.2 - - - +
154B ILE* 3.6 3.3 - - - -
155B ARG* 2.8 67.7 + - + +
198B ALA* 1.3 77.1 - - - +
200B MET* 1.3 70.1 + - - +
202B GLU* 3.2 22.3 + - - -
206B GLY* 4.8 0.2 - - - -
207B GLY 3.0 34.9 + - - +
208B PHE* 3.7 18.4 - - - +
209B TRP* 3.5 45.5 - - + +
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Residues in contact with MET 200 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119B VAL* 3.7 34.0 + - + +
121B LEU* 3.7 30.4 - - + +
148B THR* 4.4 2.9 - - + -
149B PRO* 3.7 25.6 - - + +
150B MET* 4.0 19.5 - - + +
153B HIS* 4.1 15.3 - - - +
154B ILE* 4.2 7.0 - - + -
199B ARG* 1.3 82.2 + - - +
201B ALA* 1.3 63.4 + - - +
202B GLU* 3.8 8.7 - - - +
205B PHE* 3.6 38.1 - - + +
206B GLY* 4.2 6.1 - - - +
207B GLY* 6.2 0.6 - - - -
208B PHE 5.4 0.4 + - - -
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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