Contacts of the strand formed by residues 150 - 158 (chain C) in PDB entry 3O9Z
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 LYS 150 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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143C LEU* 3.5 19.0 + - + -
146C GLU* 2.9 59.9 + - - +
147C LYS 3.7 8.5 + - - +
148C GLY 3.6 12.9 + - - +
149C ALA* 1.3 77.9 - - - +
151C ASP* 1.3 61.4 + - - +
194C PHE* 4.0 12.1 - - + -
218C GLY 2.9 16.9 + - - +
219C ALA* 3.1 10.4 - - + -
220C ARG* 3.0 26.5 + - - +
249C VAL* 3.4 26.9 - - + -
250C ASP* 4.5 4.5 - - + +
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Residues in contact with ASP 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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149C ALA 4.2 0.6 + - - +
150C LYS* 1.3 76.1 - - - +
152C VAL* 1.3 63.4 + - - +
153C VAL* 5.7 0.2 - - - +
220C ARG* 2.9 40.3 + - + +
222C ARG* 3.4 23.5 + - - -
248C ALA 3.7 0.9 - - - +
249C VAL* 3.6 19.3 - - - +
250C ASP 4.3 3.8 + - - +
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Residues in contact with VAL 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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151C ASP* 1.3 81.7 + - - +
153C VAL* 1.3 75.5 + - - +
154C LEU* 4.3 1.3 - - + +
190C LEU* 4.3 5.2 - - + -
194C PHE* 3.7 25.8 - - + -
219C ALA* 4.0 8.3 - - + -
220C ARG 2.8 17.9 + - - +
221C VAL* 3.4 18.1 - - + -
222C ARG* 3.0 25.1 + - - +
247C ILE* 3.8 24.7 - - + -
248C ALA 3.2 9.0 - - - +
249C VAL* 3.7 16.8 - - + -
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Residues in contact with VAL 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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151C ASP* 5.1 0.4 - - - +
152C VAL* 1.3 74.1 - - - +
154C LEU* 1.3 59.2 + - - +
155C THR* 4.0 6.1 + - - +
222C ARG* 3.3 43.5 - - + +
246C SER* 3.7 2.3 + - - +
247C ILE* 3.7 1.7 - - - -
248C ALA* 2.9 43.8 + - + +
306C HIS* 3.5 31.0 - - + +
307C PRO* 4.1 14.6 - - + -
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Residues in contact with LEU 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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152C VAL* 4.1 2.0 - - + -
153C VAL* 1.3 73.6 - - - +
155C THR* 1.3 64.9 + - - +
156C TYR* 3.9 17.9 - - + -
186C PHE* 3.6 47.8 - - + -
189C LEU* 4.4 9.0 - - + -
190C LEU* 4.4 9.6 - - + -
221C VAL* 4.1 15.5 - - + -
222C ARG 2.8 10.6 + - - +
223C TRP* 3.2 7.0 - - + -
224C PHE 3.1 23.4 + - - +
246C SER 3.4 11.7 - - - +
247C ILE* 3.8 27.4 - - + -
256C PHE* 4.9 2.7 - - + -
306C HIS* 3.3 4.3 + - - -
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Residues in contact with THR 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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153C VAL* 4.0 7.4 + - - +
154C LEU* 1.3 73.6 - - - +
156C TYR* 1.3 64.0 + - - +
157C VAL* 4.3 6.5 - - + -
224C PHE* 3.6 6.1 - - + -
244C TYR* 3.4 31.4 - - + +
245C ARG* 3.5 0.2 - - - -
246C SER* 2.8 42.0 + - - +
306C HIS* 2.8 23.6 + - + +
308C PHE* 3.5 36.6 - - + -
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Residues in contact with TYR 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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130C LEU* 4.7 0.2 - - + -
154C LEU* 3.9 3.4 - - + -
155C THR* 1.3 76.5 - - - +
157C VAL* 1.3 60.3 + - - +
158C THR* 4.1 5.6 - - + -
182C ILE* 3.6 28.5 - - + -
185C HIS* 3.6 24.1 - - + +
186C PHE* 3.8 36.6 - + + -
224C PHE 2.9 12.6 + - - +
225C LEU* 3.2 7.0 - - + +
226C SER 2.9 23.6 + - - +
244C TYR 3.5 2.0 - - - -
245C ARG* 3.7 24.2 - - + -
256C PHE* 4.0 21.5 - + - -
260C PHE* 3.4 19.8 - - - -
312C AKG 2.6 30.1 + - - -
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Residues in contact with VAL 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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155C THR* 4.3 12.6 - - + -
156C TYR* 1.3 79.2 - - - +
158C THR* 1.3 65.0 + - - +
224C PHE* 4.2 13.7 - - + -
226C SER* 3.2 9.2 - - - +
228C ASP 3.5 27.4 - - - +
229C PRO* 4.3 1.8 - - + -
231C PHE* 3.9 26.0 - - + +
232C VAL* 3.9 22.4 - - + +
242C ARG 4.8 0.2 - - - +
243C THR* 3.2 4.2 - - - -
244C TYR* 2.7 48.2 + - + +
245C ARG* 4.4 2.3 - - - +
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Residues in contact with THR 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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156C TYR* 4.1 4.0 - - + -
157C VAL* 1.3 76.6 - - - +
159C GLY* 1.3 65.3 + - - +
160C ARG* 2.8 28.4 + - - +
182C ILE* 3.6 30.7 - - + -
226C SER 2.9 13.3 + - - +
227C ILE* 3.1 20.8 - - + +
242C ARG 3.9 2.5 - - - -
243C THR* 3.7 10.4 - - - +
245C ARG* 3.6 8.9 + - - -
312C AKG 2.8 28.9 + - - +
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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