Contacts of the strand formed by residues 150 - 159 (chain A) in PDB entry 3FN3
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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143A VAL* 4.4 0.2 - - - +
144A VAL* 2.9 48.9 + - + +
145A ASP* 3.3 8.9 + - - +
148A THR* 3.0 18.4 + - - +
149A SER* 1.3 75.8 - - - +
151A HIS* 1.3 65.2 + - - +
198A ARG* 2.4 38.2 + - + +
199A ILE 3.6 9.6 - - - +
200A ASN* 2.9 20.6 - - - +
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Residues in contact with HIS 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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141A ILE* 4.2 12.6 - - + -
142A LEU 3.3 5.8 - - - +
143A VAL* 3.4 36.6 - - + +
144A VAL* 4.1 2.8 - - - +
146A PRO* 5.8 0.2 - - + -
149A SER* 2.5 43.2 + - - -
150A GLU* 1.3 77.7 - - - +
152A GLU* 1.3 61.6 + - - +
153A LEU* 3.8 17.5 - - + -
197A LEU 4.3 0.2 - - - -
198A ARG* 3.2 8.8 - - - +
199A ILE 2.8 33.5 + - - +
201A THR* 3.7 18.3 - - + +
202A THR* 5.2 1.3 - - - -
226A ILE* 3.8 25.2 - - + +
227A PRO* 5.2 3.8 + - + +
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Residues in contact with GLU 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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140A ARG* 3.8 10.9 + - - +
141A ILE* 3.4 3.6 - - - -
142A LEU* 2.8 51.6 + - + +
144A VAL* 3.8 12.6 - - + +
151A HIS* 1.3 75.7 - - - +
153A LEU* 1.3 61.8 + - - +
154A THR* 4.5 5.8 + - - +
196A THR* 3.5 29.8 + - + +
197A LEU 3.3 3.1 - - - +
198A ARG* 2.9 36.8 + - + -
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Residues in contact with LEU 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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140A ARG 3.6 4.3 - - - -
141A ILE* 4.0 9.2 - - + +
151A HIS* 3.8 18.6 - - + -
152A GLU* 1.3 78.1 - - - +
154A THR* 1.3 61.0 + - - +
167A TRP* 3.5 20.0 - - + -
196A THR* 3.2 4.9 - - - -
197A LEU* 2.9 46.0 + - + +
199A ILE* 4.6 4.9 - - + -
207A PHE* 3.7 42.6 - - + -
224A LEU* 3.9 21.3 - - + -
226A ILE* 3.8 23.8 - - + -
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Residues in contact with THR 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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138A ASN 4.6 0.4 - - - +
139A GLN* 3.2 5.0 - - - +
140A ARG* 2.9 67.7 + - + +
152A GLU* 3.9 6.8 + - - +
153A LEU* 1.3 75.0 + - - +
155A CYS* 1.3 71.7 + - - +
156A GLN* 4.8 2.2 - - + +
167A TRP* 4.2 0.2 - - - -
194A THR* 3.9 21.8 - - + -
195A SER 3.3 10.1 - - - +
196A THR* 2.6 27.0 + - - +
224A LEU* 4.1 1.4 - - - +
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Residues in contact with CYS 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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137A ILE* 3.8 8.7 - - + -
138A ASN 3.4 5.2 - - - -
139A GLN* 4.3 4.3 - - - -
154A THR* 1.3 79.6 - - - +
156A GLN* 1.3 61.5 + - - +
165A VAL* 5.3 1.3 - - + -
167A TRP* 3.8 5.7 - - + -
194A THR* 3.3 2.1 - - - +
195A SER* 3.0 30.0 + - - -
209A CYS* 2.0 53.4 - - + -
211A PHE* 3.7 17.8 - - + -
224A LEU* 3.6 16.6 - - - -
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Residues in contact with GLN 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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137A ILE* 3.6 1.0 - - - -
138A ASN* 2.7 66.3 + - + +
154A THR* 5.1 2.2 - - + -
155A CYS* 1.3 74.5 - - - +
157A ALA* 1.3 72.4 + - - +
158A GLU* 4.8 4.6 + - - +
186A ARG* 5.3 5.9 + - - +
192A ASN* 2.8 34.8 + - - +
193A VAL 3.1 7.0 - - - +
194A THR* 3.4 22.0 - - + +
211A PHE* 4.0 2.5 - - - -
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Residues in contact with ALA 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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134A TYR* 3.8 18.6 - - + +
136A LYS 3.6 19.3 - - - +
137A ILE* 4.1 9.6 - - + -
138A ASN* 4.9 0.2 - - - +
156A GLN* 1.3 86.7 - - - +
158A GLU* 1.3 66.9 + - - +
191A PHE 3.6 0.2 - - - +
192A ASN* 3.7 1.0 - - - +
193A VAL* 2.7 33.7 + - - +
211A PHE* 4.0 16.6 - - + -
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Residues in contact with GLU 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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132A ALA* 5.3 0.2 - - - +
133A PRO 3.9 11.1 - - - +
134A TYR* 3.4 6.9 - - - -
135A ASN 5.2 0.3 + - - -
136A LYS* 5.1 4.8 + - - +
156A GLN* 4.8 4.2 + - - +
157A ALA* 1.3 81.7 - - - +
159A GLY* 1.3 57.0 + - - +
184A SER* 2.6 38.9 + - - -
185A LYS 4.7 1.4 + - - -
186A ARG* 3.2 33.8 + - - +
190A LEU* 4.4 16.9 - - + +
191A PHE 3.0 13.7 - - - +
192A ASN* 3.1 23.1 - - - +
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Residues in contact with GLY 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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132A ALA* 3.2 22.2 - - - -
134A TYR* 2.9 30.4 + - - -
158A GLU* 1.3 76.9 - - - +
160A TYR* 1.3 59.9 + - - +
190A LEU* 4.2 6.3 - - - -
191A PHE* 3.0 22.3 + - - -
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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