Contacts of the strand formed by residues 150 - 161 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148A GLY 3.8 0.2 + - - -
149A GLY* 1.3 83.9 - - - +
151A LYS* 1.3 67.4 + - - +
152A ILE* 3.3 15.4 + - + +
173A TRP* 3.3 9.3 - - - -
174A LEU 2.9 34.2 + - - +
175A ALA* 5.5 0.9 - - - -
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Residues in contact with LYS 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A GLU* 1.3 72.8 - - - +
152A ILE* 1.3 62.6 + - - +
153A GLU 4.1 9.2 - - - +
154A GLU* 3.0 29.2 + - - -
171A GLU* 3.2 46.3 + - + +
172A LEU 3.3 11.2 - - - +
173A TRP* 3.6 26.8 - - + +
187A LYS* 3.6 6.7 - - - +
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Residues in contact with ILE 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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150A GLU* 3.3 19.5 + - + +
151A LYS* 1.3 78.8 - - - +
153A GLU* 1.3 79.8 + - - +
172A LEU* 2.9 33.5 + - + +
174A LEU* 3.8 44.2 - - + +
209A ALA* 4.4 8.3 - - + +
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Residues in contact with GLU 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A LYS* 3.7 8.9 - - - +
152A ILE* 1.3 93.5 - - + +
154A GLU* 1.3 67.9 + - - +
155A PHE* 3.4 37.0 - - + -
171A GLU* 3.7 3.5 - - - -
172A LEU* 2.8 32.4 + - + +
208A LYS* 5.9 1.0 - - - +
209A ALA* 5.0 8.3 + - - -
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Residues in contact with GLU 154 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A LYS* 3.0 18.6 + - - -
153A GLU* 1.3 82.0 - - - +
155A PHE* 1.3 66.9 + - - +
169A THR* 3.4 26.5 - - + +
170A TRP 3.3 14.1 - - - +
171A GLU* 4.3 3.6 - - - +
187A LYS* 2.7 36.0 + - - -
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Residues in contact with PHE 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153A GLU* 3.4 35.0 - - + -
154A GLU* 1.3 78.1 - - - +
156A THR* 1.3 62.1 + - - +
157A ILE* 4.1 19.1 - - + -
168A GLY 3.6 0.9 - - - +
169A THR* 3.5 5.0 - - - -
170A TRP* 2.8 40.6 + - + +
172A LEU* 3.7 32.5 - - + -
184A PHE* 3.7 18.6 - + + -
205A ALA* 3.7 36.6 - - + -
208A LYS* 5.1 11.2 - - + -
209A ALA* 4.7 4.5 - - + -
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Residues in contact with THR 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A PHE* 1.3 72.3 - - - +
157A ILE* 1.3 65.8 + - - +
158A PRO* 4.4 3.4 - - - +
167A GLU* 4.1 33.0 - - + +
168A GLY 3.3 11.4 - - - +
169A THR* 4.8 8.6 + - - +
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Residues in contact with ILE 157 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155A PHE* 3.8 22.3 + - + -
156A THR* 1.3 78.2 - - - +
158A PRO* 1.4 81.0 - - + +
159A PHE* 3.9 0.9 - - - -
167A GLU* 4.5 1.3 - - - -
168A GLY 3.0 27.2 + - - -
170A TRP* 3.2 19.5 + - + +
184A PHE* 4.5 3.4 - - + -
197A PHE* 6.0 0.2 - - + -
198A ASP 5.3 0.2 - - - +
201A HIS* 3.9 33.9 - - + +
202A PHE* 3.7 49.6 - - + -
205A ALA* 4.3 9.4 - - + -
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Residues in contact with PRO 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156A THR 4.4 4.0 - - - +
157A ILE* 1.4 99.8 - - + +
159A PHE* 1.3 66.7 + - - +
165A SER* 6.5 0.9 - - - -
166A VAL 3.2 14.6 - - - +
167A GLU* 4.1 17.2 - - + +
197A PHE* 4.3 7.3 - - - +
201A HIS* 4.0 26.0 - - + +
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Residues in contact with PHE 159 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140A PHE* 3.8 23.3 - + + -
157A ILE 3.9 4.9 - - - -
158A PRO* 1.3 79.0 - - - +
160A VAL* 1.3 73.3 + - - +
161A LEU* 3.9 20.9 - - + -
165A SER* 3.7 2.7 - - - -
166A VAL* 2.8 58.1 + - + +
168A GLY* 3.8 21.8 - - - -
170A TRP* 3.9 13.2 - + + -
186A LEU* 3.8 29.4 - - + -
190A VAL* 5.1 1.1 - - + -
195A VAL* 4.1 7.9 - - + -
196A LYS 3.3 13.7 - - - +
197A PHE* 3.8 13.7 - - + +
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Residues in contact with VAL 160 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159A PHE* 1.3 78.5 - - - +
161A LEU* 1.3 60.5 + - - +
162A ASN 4.1 0.2 - - - -
163A GLY* 3.6 35.9 - - - +
164A GLU 3.5 6.5 - - - +
165A SER* 4.3 13.9 - - - +
194A ARG 3.4 0.6 - - - +
195A VAL* 3.2 9.0 - - - -
196A LYS* 2.6 65.2 + - + +
267A BR 4.6 11.4 - - + -
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Residues in contact with LEU 161 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159A PHE* 3.9 20.3 + - + -
160A VAL* 1.3 72.8 - - - +
162A ASN* 1.3 89.7 + - - +
163A GLY 3.2 0.4 - - - -
164A GLU* 2.8 29.1 + - - +
166A VAL* 4.0 17.9 - - + -
190A VAL* 4.1 26.9 - - + -
194A ARG 3.4 15.3 - - - +
195A VAL* 3.9 15.7 - - + -
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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