Contacts of the strand formed by residues 150 - 161 (chain B) in PDB entry 3O7O
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 GLU 150 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148B GLY 3.9 0.4 + - - -
149B GLY* 1.3 77.7 - - - +
151B LYS* 1.3 67.1 + - - +
152B ILE* 3.4 12.8 + - + +
173B TRP* 3.7 7.0 - - - -
174B LEU 2.8 33.8 + - - +
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Residues in contact with LYS 151 (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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150B GLU* 1.3 73.8 - - - +
152B ILE* 1.3 62.3 + - - +
153B GLU 4.1 9.2 - - - +
154B GLU* 2.7 36.1 + - - -
171B GLU* 3.1 36.5 + - + +
172B LEU 3.4 11.9 - - - +
173B TRP* 3.6 31.8 - - + +
187B LYS* 3.5 7.1 - - - +
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Residues in contact with ILE 152 (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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150B GLU* 3.8 16.4 - - + +
151B LYS* 1.3 76.4 - - - +
153B GLU* 1.3 76.1 + - - +
172B LEU* 2.9 34.4 + - + +
174B LEU* 3.7 42.0 - - + -
209B ALA* 4.2 13.0 - - + +
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Residues in contact with GLU 153 (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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151B LYS* 3.9 8.3 - - - +
152B ILE* 1.3 90.9 - - + +
154B GLU* 1.3 62.9 - - - +
155B PHE* 3.7 37.0 - - + -
171B GLU* 3.8 2.4 - - - -
172B LEU* 2.9 30.0 + - + +
208B LYS* 4.2 16.6 + - - +
209B ALA* 4.2 18.4 - - - +
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Residues in contact with GLU 154 (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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151B LYS* 2.7 31.0 + - - -
153B GLU* 1.3 80.6 - - - +
155B PHE* 1.3 67.2 + - - +
169B THR* 3.5 24.2 - - + +
170B TRP 3.4 10.1 - - - +
171B GLU* 4.2 8.5 - - + -
187B LYS* 2.8 25.6 + - - -
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Residues in contact with PHE 155 (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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153B GLU* 3.7 38.6 - - + -
154B GLU* 1.3 78.1 - - - +
156B THR* 1.3 62.4 + - - +
157B ILE* 4.0 19.1 - - + -
169B THR* 3.5 4.2 - - - -
170B TRP* 2.7 42.6 + - + +
172B LEU* 3.7 32.1 - - + -
184B PHE* 3.8 17.5 - + - -
205B ALA* 3.7 37.0 - - + -
208B LYS* 4.4 15.5 - - + -
209B ALA* 4.6 1.3 - - + -
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Residues in contact with THR 156 (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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155B PHE* 1.3 72.2 - - - +
157B ILE* 1.3 65.7 + - - +
158B PRO* 4.4 3.3 - - - +
167B GLU* 3.6 39.5 - - + +
168B GLY 3.3 11.4 + - - +
169B THR* 4.6 10.3 + - - +
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Residues in contact with ILE 157 (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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155B PHE* 4.0 22.0 - - + -
156B THR* 1.3 80.8 - - - +
158B PRO* 1.4 76.3 - - + +
159B PHE* 3.8 2.1 - - + -
167B GLU* 4.8 1.1 - - - -
168B GLY 2.9 27.0 + - - -
170B TRP* 3.2 22.2 + - + +
184B PHE* 4.5 3.1 - - + -
197B PHE* 6.1 0.2 - - + -
201B HIS* 3.7 40.2 - - + +
202B PHE* 3.6 46.7 - - + -
205B ALA* 4.4 7.9 - - + -
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Residues in contact with PRO 158 (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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156B THR 4.4 3.6 - - - +
157B ILE* 1.4 100.0 - - + +
159B PHE* 1.3 61.8 + - - +
165B SER* 6.6 0.9 - - - -
166B VAL 3.3 14.4 - - - +
167B GLU* 4.4 17.4 - - + +
197B PHE* 4.5 5.7 - - - +
201B HIS* 3.9 29.1 - - + +
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Residues in contact with PHE 159 (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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140B PHE* 3.7 24.2 - + + -
157B ILE* 3.8 12.8 - - + -
158B PRO* 1.3 75.4 - - - +
160B VAL* 1.3 73.5 + - - +
161B LEU* 3.8 25.6 - - + -
165B SER* 3.9 1.5 - - - -
166B VAL* 3.0 49.9 + - + +
168B GLY* 4.0 11.2 - - - -
170B TRP* 3.9 12.3 - + + -
186B LEU* 3.9 38.4 - - + -
190B VAL* 5.3 1.3 - - + -
195B VAL* 4.1 7.6 - - + -
196B LYS 3.3 12.6 - - - +
197B PHE* 3.7 15.0 - - + +
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Residues in contact with VAL 160 (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 PHE* 1.3 74.2 - - - +
161B LEU* 1.3 57.3 + - - +
162B ASN 4.1 0.2 - - - -
163B GLY* 3.5 38.4 - - - +
164B GLU 3.5 5.4 - - - +
165B SER* 4.1 16.8 - - - +
194B ARG 3.6 0.7 - - - +
195B VAL* 3.2 9.2 - - - +
196B LYS* 2.6 61.2 + - + +
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Residues in contact with LEU 161 (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 PHE* 3.8 20.7 + - + -
160B VAL* 1.3 70.8 - - - +
162B ASN* 1.3 82.8 + - - +
163B GLY 3.2 0.2 - - - -
164B GLU* 2.8 34.7 + - - +
166B VAL* 4.0 17.9 - - + -
190B VAL* 4.1 30.7 - - + -
193B GLY* 5.0 0.4 - - - -
194B ARG 3.5 8.3 - - - +
195B VAL* 3.8 22.0 - - + -
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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