Contacts of the strand formed by residues 150 - 160 (chain C) in PDB entry 3LON
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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48C ILE* 3.7 23.1 - - + -
94C LEU* 4.1 16.1 - - + +
95C THR 2.7 16.1 + - - +
96C PRO* 4.3 2.0 - - + -
97C CYS* 2.7 26.4 + - - +
142C PRO* 5.5 1.1 - - + -
143C LEU 3.8 5.6 - - - +
144C LEU* 4.4 4.7 - - - -
148C GLY 4.1 1.0 + - - -
149C HIS* 1.3 68.7 - - - +
151C VAL* 1.3 58.1 + - - +
152C GLY 4.8 3.4 - - - +
172C VAL* 3.4 25.9 - - + +
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Residues in contact with VAL 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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97C CYS* 3.8 15.5 - - + -
101C SER 5.2 2.0 - - - +
104C LEU* 4.0 31.4 - - + -
118C ARG* 4.1 25.4 + - - +
143C LEU* 2.7 15.2 + - + +
144C LEU 4.0 1.3 - - - -
145C CYS* 3.6 39.9 - - + +
150C ALA* 1.3 73.3 - - - +
152C GLY* 1.3 58.5 + - - +
169C PHE* 4.2 5.4 - - + -
171C PRO* 3.5 6.6 - - - +
172C VAL* 3.1 25.8 + - - +
173C GLU* 4.7 0.7 - - - +
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Residues in contact with GLY 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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48C ILE* 5.8 0.2 - - - -
142C PRO* 3.7 4.5 - - - +
143C LEU* 3.0 30.1 + - - +
150C ALA* 3.7 3.3 - - - +
151C VAL* 1.3 82.3 + - - +
153C LEU* 1.3 64.0 + - - +
169C PHE* 3.8 12.3 - - - -
170C ILE 2.9 15.3 - - - -
171C PRO* 4.0 0.4 - - - -
172C VAL* 4.0 7.1 - - - +
175C LEU* 6.0 0.2 - - - -
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Residues in contact with LEU 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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46C THR* 4.0 12.6 - - + +
48C ILE* 3.9 26.9 - - + -
53C TRP* 3.9 9.4 - - + -
54C THR* 3.9 39.9 - - - +
55C VAL* 5.1 0.4 - - + -
82C LEU* 4.0 12.1 - - + -
140C GLY* 3.5 23.1 - - - +
141C GLY 3.5 2.7 - - - +
152C GLY* 1.3 74.6 - - - +
154C PHE* 1.3 65.4 + - - +
155C ARG* 2.9 2.4 + - - -
169C PHE* 3.1 3.5 - - - -
170C ILE* 2.8 51.8 + - + +
175C LEU* 4.0 11.7 - - + -
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Residues in contact with PHE 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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55C VAL* 3.7 4.3 - - - +
106C LEU* 3.5 31.4 - - + -
135C LEU* 3.8 43.5 - - + -
138C SER* 3.2 33.2 - - - +
139C SER* 3.5 11.3 - - - -
140C GLY 2.9 27.2 + - - -
141C GLY 2.8 14.8 + - - +
143C LEU* 3.6 11.2 - - + +
153C LEU* 1.3 68.1 - - - +
155C ARG* 1.3 59.6 + - - +
156C ALA* 3.3 26.2 - - - -
157C ALA* 3.7 15.9 - - + -
167C VAL* 3.4 22.4 - - + -
168C ASP 3.6 6.5 - - - -
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Residues in contact with ARG 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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55C VAL* 4.1 4.5 - - + -
57C HIS* 3.1 30.4 + - - -
80C GLN 4.5 2.5 - - - -
81C ASP* 3.4 38.9 + - - +
139C SER* 3.8 7.6 + - - -
153C LEU 2.9 1.8 + - - -
154C PHE* 1.3 74.8 - - - +
156C ALA* 1.3 86.9 + - - +
168C ASP* 2.7 47.4 + - - +
169C PHE* 3.9 8.7 - - - -
170C ILE* 3.8 24.7 - - + -
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Residues in contact with ALA 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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57C HIS* 5.1 2.5 - - + -
139C SER* 4.7 3.6 - - - -
154C PHE* 3.3 12.9 - - - -
155C ARG* 1.3 109.8 - - - +
157C ALA* 1.3 65.8 + - - +
158C VAL* 5.1 0.7 - - + -
168C ASP* 2.7 35.2 + - + +
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Residues in contact with ALA 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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132C ILE* 4.1 26.5 - - + -
135C LEU* 4.1 14.6 - - + -
154C PHE* 3.6 20.2 - - + -
156C ALA* 1.3 77.9 - - - +
158C VAL* 1.3 63.1 + - - +
159C CYS* 3.6 9.4 + - - -
164C ALA* 4.3 9.2 - - + -
166C ALA 3.9 4.3 - - - -
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Residues in contact with VAL 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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123C ARG* 3.4 48.5 - - - +
156C ALA* 4.3 1.3 - - + +
157C ALA* 1.3 72.6 - - - +
159C CYS* 1.3 61.6 + - - +
160C THR* 5.4 0.4 + - - +
164C ALA* 4.5 0.2 - - - -
165C LYS* 3.4 16.0 + - - +
166C ALA* 2.8 30.7 + - + +
167C VAL 4.2 0.9 - - - -
168C ASP* 4.2 18.8 - - + +
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Residues in contact with CYS 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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132C ILE* 4.5 26.0 - - + -
157C ALA* 3.6 11.1 + - - -
158C VAL* 1.3 78.1 - - - +
160C THR* 1.3 62.0 + - - +
161C ARG 4.0 1.7 + - - -
162C GLY* 4.5 5.4 - - - +
163C VAL 3.0 30.1 - - - +
164C ALA* 3.6 6.5 - - + +
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Residues in contact with THR 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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158C VAL* 5.4 0.7 + - - +
159C CYS* 1.3 73.0 + - - +
161C ARG* 1.3 84.0 + - + +
163C VAL* 2.8 24.2 + - - +
165C LYS* 4.0 32.1 + - - +
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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