Contacts of the strand formed by residues 157 - 166 (chain C) in PDB entry 4FQX
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 SER 157 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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43A TRP* 5.8 0.3 - - - -
46A GLU* 3.0 30.1 + - - +
125C ASN* 4.3 2.9 + - - -
126C LEU 3.5 13.3 + - - -
127C PHE* 4.4 2.9 - - - +
152C ALA* 3.7 3.1 - - - +
153C VAL* 2.9 36.9 + - - +
154C ASP 4.5 2.7 - - - -
155C GLY 3.3 2.6 - - - -
156C LEU* 1.3 80.0 - - - +
158C PHE* 1.3 81.5 + - - +
6D HIS* 5.7 0.2 - - - -
30D LYS* 3.7 12.9 + - - +
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Residues in contact with PHE 158 (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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46A GLU* 4.8 0.5 - - - +
23C TYR* 3.8 41.1 - + + -
125C ASN 3.9 4.9 + - - -
126C LEU* 2.9 48.3 + - + +
127C PHE* 4.0 14.1 - + - -
129C PRO* 3.5 43.5 - - + -
150C VAL* 4.5 6.1 - - + -
151C SER 3.4 17.7 - - - +
152C ALA* 4.0 12.8 - - + -
153C VAL* 4.2 6.2 - - - +
157C SER* 1.3 84.6 + - - +
159C GLN* 1.3 64.7 + - - +
4D VAL* 4.5 1.6 - - + -
6D HIS* 3.7 32.1 - + - -
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Residues in contact with GLN 159 (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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39C GLU 4.3 15.2 + - - -
122C PHE* 3.2 22.7 - - + -
123C VAL 3.4 15.0 - - - +
124C SER* 4.6 3.6 - - - -
126C LEU* 4.6 5.2 - - - -
150C VAL* 3.3 5.2 - - - +
151C SER* 2.9 50.3 + - - +
152C ALA 5.4 0.2 + - - -
153C VAL* 3.4 25.7 - - + +
158C PHE* 1.3 74.8 - - - +
160C ALA* 1.3 66.0 + - - +
161C PHE* 3.7 24.2 - - + -
150D PRO* 5.8 3.7 - - - +
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Residues in contact with ALA 160 (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 CYS 3.7 0.4 - - - +
122C PHE* 3.7 2.1 - - - -
123C VAL* 2.8 38.9 + - + +
126C LEU* 4.3 2.9 - - + -
131C LEU* 4.0 26.9 - - + -
148C THR* 4.1 10.8 - - + -
149C PHE 3.2 11.7 - - - +
150C VAL* 4.1 10.1 - - + -
159C GLN* 1.3 80.7 - - - +
161C PHE* 1.3 68.0 + - - +
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Residues in contact with PHE 161 (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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55C ARG* 5.0 0.9 - - - +
120C VAL* 3.9 13.5 - - + -
121C CYS 3.4 4.7 - - - -
122C PHE* 3.4 34.8 - + + -
123C VAL* 6.0 0.4 - - - -
133C VAL* 6.1 0.2 - - - -
148C THR* 3.5 5.9 - - - -
149C PHE* 2.9 42.5 + - + +
151C SER* 5.3 1.6 - - - -
159C GLN* 3.7 27.6 - - + -
160C ALA* 1.3 78.3 - - - +
162C SER* 1.3 60.8 + - - +
163C TYR* 3.5 19.7 - - + +
150D PRO* 3.5 19.7 - - + -
151D ASN* 3.1 33.2 - - - -
152D GLY* 3.4 17.9 - - - -
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Residues in contact with SER 162 (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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120C VAL* 3.6 2.3 - - - +
121C CYS* 3.0 33.7 + - - -
133C VAL* 3.8 27.7 - - - +
135C TRP* 3.1 22.4 + - - -
144C GLY 4.4 5.2 + - - -
146C GLY 5.2 0.7 + - - -
147C PRO 4.1 8.8 + - - -
148C THR* 4.0 13.9 + - - -
161C PHE* 1.3 75.6 - - - +
163C TYR* 1.3 71.9 + - - +
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Residues in contact with TYR 163 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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55C ARG* 3.3 18.8 + - - -
108C LEU* 4.9 3.4 - - + -
118C THR* 3.8 16.6 - - + -
119C LEU 3.4 2.9 - - - -
120C VAL* 3.8 27.1 - - + -
135C TRP* 4.2 1.8 - - - -
144C GLY 3.1 10.5 - - - +
145C PHE* 3.1 28.3 + - - +
147C PRO 4.6 3.9 + - - -
149C PHE* 4.0 15.9 - + - -
161C PHE* 3.5 19.4 - - + +
162C SER* 1.3 80.8 + - - +
164C LEU* 1.3 61.1 + - - +
165C ASP* 5.6 0.4 - - - +
151D ASN 2.7 28.8 + - - -
152D GLY* 3.0 25.6 + - - -
153D ASP* 4.1 17.5 - - + -
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Residues in contact with LEU 164 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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118C THR* 3.3 3.6 - - - -
119C LEU* 2.8 41.6 + - + +
135C TRP* 3.7 42.1 - - + -
142C VAL* 4.3 6.7 - - + -
143C GLU* 3.8 31.9 - - + +
144C GLY* 3.9 13.7 - - - +
145C PHE* 3.8 3.8 - - + -
163C TYR* 1.3 73.9 - - - +
165C ASP* 1.3 72.1 + - - +
166C PHE* 3.6 4.6 + - + -
174C PHE* 3.7 36.1 - - + -
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Residues in contact with ASP 165 (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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117C ASN 3.6 4.4 - - - +
118C THR* 2.8 26.9 + - - +
143C GLU* 4.1 14.0 - - - +
145C PHE* 3.7 17.9 - - + +
163C TYR* 6.1 0.4 - - - -
164C LEU* 1.3 78.6 - - - +
166C PHE* 1.3 62.7 + - - +
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Residues in contact with PHE 166 (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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107C THR* 3.8 7.0 - - + -
116C PRO* 3.9 1.0 - - - +
117C ASN* 2.8 63.3 + - + +
118C THR 3.7 5.4 - - - -
119C LEU* 3.6 41.3 - - + -
164C LEU* 3.9 3.6 - - + +
165C ASP* 1.3 76.1 - - - +
167C THR* 1.3 64.8 + - - +
168C PRO* 3.5 32.8 - - + -
172C ASP* 3.9 2.9 - - - -
174C PHE* 3.8 32.1 - + + -
191C TRP* 3.7 25.6 - + - -
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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