Contacts of the strand formed by residues 156 - 165 (chain A) in PDB entry 1LE9
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 156 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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79A LYS* 4.4 29.0 + - + +
86A HIS* 3.5 13.3 + - - -
153A ASP* 3.6 22.9 + - + +
154A LEU 3.5 0.6 - - - -
155A ASN* 1.3 82.5 - - - +
157A VAL* 1.3 69.0 + - - +
182A PRO* 6.0 0.7 - - + -
183A ILE 3.2 5.6 - - - +
184A PHE* 4.0 22.7 - - + -
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Residues in contact with VAL 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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34A PHE* 3.7 23.3 - - + -
76A LEU* 3.7 28.5 - - + -
77A VAL 3.7 6.1 - - - +
78A THR 5.1 0.7 - - - -
79A LYS* 4.9 2.7 - - - +
86A HIS* 3.3 36.8 - - + +
88A HIS* 4.0 10.8 - - + +
118A ILE* 4.5 2.0 - - + -
156A ALA* 1.3 81.8 - - - +
158A ARG* 1.3 62.9 + - - +
182A PRO* 3.6 2.1 - - - +
183A ILE* 2.9 43.7 + - + +
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Residues in contact with ARG 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A LEU* 3.1 9.5 - - - +
77A VAL* 2.5 53.8 + - + +
78A THR 3.9 3.1 - - - +
79A LYS* 2.2 49.1 + - - +
80A ASP* 4.6 1.8 + - - +
81A PRO* 5.7 0.2 - - - +
83A HIS* 2.7 30.3 + - - -
157A VAL* 1.3 77.8 - - - +
159A LEU* 1.3 59.9 + - - +
179A LEU* 4.1 13.0 - - + +
180A SER* 3.0 20.2 + - - +
181A HIS* 3.9 4.2 - - - +
182A PRO* 3.6 33.4 - - + +
183A ILE* 5.6 0.9 - - - -
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Residues in contact with LEU 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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27A PRO* 3.4 31.4 - - + -
46A ILE* 5.0 9.0 - - + -
59A PRO* 4.5 14.4 - - + -
74A ILE* 4.3 9.0 - - + -
75A SER 3.5 4.9 - - - +
76A LEU* 3.2 23.8 - - + -
90A LEU* 4.0 22.7 - - + -
116A LEU* 5.3 7.6 - - + -
118A ILE* 5.7 2.0 - - + -
158A ARG* 1.3 72.7 - - - +
160A CYS* 1.3 60.4 + - - +
161A PHE* 4.6 13.9 - - + -
178A VAL 3.3 1.2 - - - +
179A LEU* 3.0 4.7 - - - -
180A SER* 2.5 50.7 + - - +
183A ILE* 4.5 8.7 - - + -
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Residues in contact with CYS 160 (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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73A ARG 4.2 0.2 - - - +
74A ILE* 3.3 11.6 - - - +
75A SER* 2.7 37.7 + - - +
77A VAL* 4.2 3.6 - - + -
140A PRO* 3.1 41.5 - - + -
141A PHE* 3.3 21.5 - - - -
159A LEU* 1.3 75.2 - - - +
161A PHE* 1.3 71.6 + - - +
162A GLN 3.8 1.9 + - - -
177A PRO* 3.4 14.4 - - - -
178A VAL 3.5 7.4 - - - -
179A LEU* 4.1 8.7 - - + -
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Residues in contact with PHE 161 (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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21A VAL* 5.2 0.7 - - + -
23A ILE* 3.2 33.2 - - + -
59A PRO* 4.8 8.3 - - + -
61A ILE* 3.5 41.7 - - + -
72A VAL* 4.8 3.1 - - + -
73A ARG 4.7 1.8 - - - -
74A ILE* 3.5 47.6 - - + -
113A PHE* 3.7 16.6 - + - -
159A LEU* 4.6 20.2 - - + -
160A CYS* 1.3 81.2 - - - +
162A GLN* 1.3 50.9 + - - +
163A VAL* 2.6 30.4 + - + +
176A THR 4.4 0.2 - - - +
177A PRO* 3.5 15.9 - - - +
178A VAL* 3.4 23.7 + - + +
180A SER* 4.7 0.2 - - - -
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Residues in contact with GLN 162 (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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72A VAL* 4.6 0.7 - - - -
73A ARG* 3.0 64.4 + - + +
75A SER* 2.4 28.9 + - - +
138A ASN* 4.2 3.0 - - - +
139A ASN 4.3 3.6 + - - -
140A PRO* 3.5 42.2 - - + +
160A CYS* 4.6 1.1 - - - -
161A PHE* 1.3 67.8 - - - +
163A VAL* 1.3 58.9 + - - +
164A THR* 3.8 6.2 + - - -
175A LEU 4.6 1.6 - - - -
177A PRO* 4.1 15.7 - - + -
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Residues in contact with VAL 163 (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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20A TYR 5.5 0.4 - - - +
21A VAL* 4.0 31.2 - - + -
61A ILE* 4.5 14.4 - - + -
63A ILE* 4.3 24.2 - - + -
71A THR 4.2 11.9 - - - +
72A VAL* 5.0 7.2 - - + +
104A LEU* 4.6 5.4 - - + -
161A PHE* 2.6 23.5 + - + +
162A GLN* 1.3 70.3 - - - +
164A THR* 1.3 61.3 + - - +
165A VAL* 4.4 4.7 - - + -
175A LEU* 2.8 45.0 + - + +
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Residues in contact with THR 164 (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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70A GLY* 3.5 0.5 - - - -
71A THR* 3.1 42.0 + - - +
162A GLN 3.8 6.1 + - - -
163A VAL* 1.3 73.1 - - - +
165A VAL* 1.3 80.5 + - - +
172A PRO* 4.4 11.2 - - + -
173A LEU 3.9 0.7 - - - -
174A LEU* 3.4 43.5 - - + +
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Residues in contact with VAL 165 (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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19A ALA* 3.6 29.6 - - + +
63A ILE* 4.2 22.4 - - + -
66A TYR* 3.8 28.3 - - + -
69A PRO 4.2 5.6 - - - +
70A GLY* 4.5 3.4 - - - -
104A LEU* 4.9 1.3 - - + -
163A VAL* 4.4 7.2 + - + -
164A THR* 1.3 82.8 - - - +
166A ARG* 1.3 80.4 + - - +
171A ARG 3.6 0.3 - - - +
172A PRO* 3.5 2.9 - - - +
173A LEU* 2.6 49.6 + - + +
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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