Contacts of the strand formed by residues 150 - 159 (chain C) in PDB entry 6PI7
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 ALA 150 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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117B PHE* 5.3 1.1 - - - -
140C PRO* 5.1 10.8 - - + -
141C SER 6.1 0.7 - - - +
142C SER* 5.7 8.5 - - - +
149C THR* 1.4 77.8 - - - +
151C ALA* 1.3 61.9 + - - +
152C LEU* 5.6 0.7 - - - +
196C VAL 3.9 0.3 - - - +
197C THR* 3.4 4.6 - - - -
198C VAL* 2.8 36.7 + - + +
199C PRO 4.7 1.1 - - - +
200C SER* 4.0 25.3 - - - +
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Residues in contact with ALA 151 (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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117B PHE* 3.7 45.1 - - + -
119B PHE* 3.7 20.5 - - + -
136B LEU* 5.4 3.8 - - + -
138B ASN* 6.1 0.7 - - - +
140C PRO* 3.5 17.0 - - - +
141C SER 5.0 0.2 + - - -
149C THR 4.1 0.4 + - - -
150C ALA* 1.3 73.9 - - - +
152C LEU* 1.3 62.5 + - - +
195C VAL* 6.0 2.2 - - + -
196C VAL 3.5 8.7 - - - +
197C THR* 4.7 4.0 - - + +
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Residues in contact with LEU 152 (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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119B PHE* 4.1 5.2 - - - -
138C LEU* 3.4 16.6 - - - +
140C PRO* 3.9 23.1 - - + -
150C ALA 5.6 0.4 - - - +
151C ALA* 1.3 74.8 - - - +
153C GLY* 1.3 59.6 + - - +
168C TRP* 5.2 1.1 - - + -
195C VAL* 3.3 7.3 - - - +
196C VAL* 2.8 47.1 + - + +
198C VAL* 5.6 6.7 - - + -
208C TYR* 5.0 18.2 - - + -
225C VAL* 4.9 12.1 - - + +
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Residues in contact with GLY 153 (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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137C PRO* 3.7 3.8 - - - +
138C LEU* 2.7 43.2 + - - +
152C LEU* 1.3 76.2 - - - +
154C CYS* 1.3 58.5 - - - -
168C TRP* 3.6 18.5 - - - -
194C SER 3.0 14.4 - - - -
195C VAL* 3.9 2.7 - - - -
225C VAL* 4.1 5.4 - - - +
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Residues in contact with CYS 154 (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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135C VAL* 4.0 12.8 - - + -
136C PHE 3.4 7.0 - - - -
137C PRO* 4.7 4.3 - - - -
138C LEU* 4.3 3.4 - - - +
153C GLY* 1.3 76.6 - - - -
155C LEU* 1.3 60.0 - - - +
156C VAL* 4.0 1.8 + - + -
166C VAL* 5.7 0.4 - - + -
168C TRP* 3.9 5.1 - - + -
192C LEU* 5.3 0.2 - - - +
193C SER* 3.4 6.5 + - - -
194C SER* 2.8 36.5 + - - +
210C CYS* 2.1 53.4 - - + -
212C VAL* 5.2 2.9 - - + -
223C LYS* 4.2 11.4 - - - -
225C VAL* 5.3 2.9 - - - -
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Residues in contact with LEU 155 (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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125B GLN* 6.0 0.7 - - - +
132B SER* 5.1 15.0 - - - -
179B THR* 6.2 1.8 - - + -
134C SER 3.3 6.6 - - - +
135C VAL* 3.3 2.9 - - - -
136C PHE* 2.8 52.5 + - + +
137C PRO 5.9 0.9 - - - -
138C LEU* 4.9 3.3 - - + +
154C CYS* 1.3 71.4 - - - +
156C VAL* 1.3 59.7 + - - +
157C LYS* 4.4 20.9 - - + -
191C SER* 6.0 1.6 - - - -
192C LEU 3.7 8.7 - - - +
193C SER* 4.4 9.2 - - - +
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Residues in contact with VAL 156 (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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133C PRO* 4.4 13.9 - - + -
134C SER 3.6 6.1 - - - -
135C VAL* 4.6 4.7 - - + +
154C CYS* 4.0 3.3 + - + +
155C LEU* 1.3 68.1 - - - +
157C LYS* 1.3 58.6 + - - +
159C TYR* 3.7 11.1 - - + -
164C VAL* 5.5 2.5 - - + -
166C VAL* 5.7 1.3 - - + -
191C SER* 3.2 4.4 - - - -
192C LEU* 2.8 53.9 + - + +
212C VAL* 4.6 20.2 - - + -
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Residues in contact with LYS 157 (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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125B GLN* 4.0 24.2 - - + +
130B THR* 5.4 6.3 - - + -
132B SER* 5.4 3.6 - - - -
181B THR* 6.4 1.6 - - + -
133C PRO* 3.5 1.4 - - - +
134C SER* 2.8 38.7 + - - +
136C PHE* 4.4 15.9 - - + -
155C LEU* 4.4 13.9 - - + -
156C VAL* 1.3 72.2 - - - +
158C ASP* 1.3 87.1 + - - +
159C TYR 3.7 1.1 - - - -
185C GLN* 3.9 17.5 - - - +
191C SER* 3.9 9.4 - - - -
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Residues in contact with ASP 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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131C LYS* 2.9 35.9 + - - +
132C GLY 3.2 8.0 - - - +
134C SER* 5.3 2.9 - - - +
157C LYS* 1.3 90.3 - - - +
159C TYR* 1.3 55.8 + - - +
185C GLN* 2.8 34.2 + - - +
187C SER* 4.6 1.4 + - - -
189C LEU* 3.8 24.7 - - + +
190C TYR 2.9 13.8 + - - -
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Residues in contact with TYR 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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131C LYS* 3.2 14.4 - - - +
133C PRO* 3.6 35.9 - - + -
156C VAL* 3.7 21.3 - - + -
158C ASP* 1.3 75.6 - - - +
160C PHE* 1.3 65.6 + - - +
161C PRO 3.6 17.5 - - - -
162C GLU* 3.0 25.9 + - - -
164C VAL* 4.3 18.0 + - + +
182C ALA* 3.0 16.6 - - - +
189C LEU* 3.7 2.9 - - - -
190C TYR* 2.8 60.5 + + + +
191C SER* 4.1 2.9 - - - -
192C LEU* 3.4 19.1 - - + +
214C HIS* 3.9 8.5 - + - +
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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