Contacts of the strand formed by residues 147 - 160 (chain A) in PDB entry 5O67
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 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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118A ARG* 3.6 7.1 - - - -
119A TYR* 3.3 49.3 + - + -
145A ILE* 3.9 3.8 + - + +
146A LYS* 1.3 76.0 - - - +
148A ASP* 1.3 69.4 + - - +
149A ASN* 4.2 7.0 - - - +
175A ARG* 6.0 2.0 - - - +
176A GLU 3.6 7.0 - - - +
177A SER* 3.9 16.6 - - - +
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Residues in contact with ASP 148 (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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116A TYR* 2.7 34.0 + - + -
117A ALA 3.7 3.8 - - - -
118A ARG* 2.8 24.7 + - - -
146A LYS* 6.3 0.2 - - - -
147A ALA* 1.3 77.4 - - - +
149A ASN* 1.3 63.8 + - - +
150A TRP* 3.9 10.9 + - + +
174A TYR* 4.1 1.0 - - - +
175A ARG* 3.9 3.1 - - - -
176A GLU* 3.0 55.9 + - + +
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Residues in contact with ASN 149 (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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115A THR* 3.4 2.1 - - - +
116A TYR* 3.3 6.0 - - - -
117A ALA* 2.8 47.5 + - + +
119A TYR* 4.1 24.5 + - + +
147A ALA* 4.5 4.3 - - - +
148A ASP* 1.3 80.1 + - - +
150A TRP* 1.3 64.9 + - - +
151A THR* 4.9 6.3 + - - +
173A VAL* 5.3 2.0 - - - +
174A TYR 3.8 2.7 - - - +
175A ARG* 3.4 46.0 + - + +
176A GLU 4.7 0.7 + - - -
177A SER* 5.7 0.2 + - - -
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Residues in contact with TRP 150 (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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114A ILE* 3.8 32.8 - - + -
115A THR 3.4 9.6 - - - -
116A TYR* 3.7 41.8 - + + -
148A ASP* 4.3 8.2 - - + +
149A ASN* 1.3 74.4 - - - +
151A THR* 1.3 66.3 + - - +
173A VAL* 3.7 2.9 - - - +
174A TYR* 2.9 67.5 + + + +
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Residues in contact with THR 151 (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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113A GLY 3.8 0.3 - - - +
114A ILE* 3.4 8.7 - - - +
115A THR* 3.1 43.3 + - - +
149A ASN* 4.9 7.4 + - - +
150A TRP* 1.3 78.1 + - - +
152A LEU* 1.3 67.0 + - - +
153A ASP* 3.8 20.3 + - - +
171A PRO* 4.3 10.5 - - + -
172A VAL 3.2 12.1 - - - +
173A VAL* 4.1 18.0 - - + +
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Residues in contact with LEU 152 (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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112A THR* 4.1 21.1 - - + -
113A GLY 3.3 17.9 - - - +
114A ILE* 4.8 14.6 - - + -
151A THR* 1.3 73.0 - - - +
153A ASP* 1.3 63.1 + - - +
154A LEU* 4.4 15.0 - - + -
170A VAL 3.7 1.0 - - - +
171A PRO* 3.4 1.9 - - - +
172A VAL* 2.7 59.5 + - + +
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Residues in contact with ASP 153 (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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111A GLU* 4.4 5.4 - - - +
112A THR* 3.6 6.6 - - - +
113A GLY* 2.8 42.0 + - - +
115A THR* 4.6 9.9 + - - -
151A THR* 3.8 17.3 - - - +
152A LEU* 1.3 74.0 - - - +
154A LEU* 1.3 66.3 + - - +
155A THR* 4.3 3.6 - - - +
169A ASN* 3.2 30.8 + - - +
170A VAL 3.8 1.6 - - - -
171A PRO* 4.1 9.4 - - - +
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Residues in contact with LEU 154 (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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110A PHE* 3.5 33.7 - - + -
111A GLU 3.7 1.6 - - - -
112A THR* 4.0 15.3 - - + -
152A LEU* 4.4 14.8 - - + -
153A ASP* 1.3 80.1 - - - +
155A THR* 1.3 61.3 + - - +
168A VAL 4.1 0.2 - - - +
169A ASN* 3.4 2.4 + - - -
170A VAL* 2.8 50.6 + - + +
172A VAL* 4.4 22.0 - - + -
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Residues in contact with THR 155 (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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109A SER 3.9 0.3 - - - +
110A PHE* 3.2 13.9 - - - -
111A GLU* 2.8 61.0 + - - -
153A ASP* 4.6 1.9 - - - +
154A LEU* 1.3 73.6 + - - +
156A GLY* 1.3 64.8 + - - +
157A ARG* 4.0 25.6 - - - +
167A ASP* 4.6 7.0 - - + +
168A VAL 3.3 17.0 - - - +
169A ASN* 3.0 23.7 + - + +
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Residues in contact with GLY 156 (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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109A SER 3.4 6.3 - - - -
110A PHE* 4.4 8.0 - - - -
155A THR* 1.3 74.6 - - - +
157A ARG* 1.3 60.1 + - - -
167A ASP* 3.1 7.0 - - - +
168A VAL* 2.9 34.0 + - - +
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Residues in contact with ARG 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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101A GLY* 4.9 9.1 + - - -
103A ALA* 3.8 28.8 - - + +
107A LYS 3.7 0.8 - - - +
108A PHE* 3.6 10.1 - - - -
109A SER* 2.9 47.9 + - - +
111A GLU* 3.2 44.2 + - - +
155A THR* 4.0 17.0 - - + +
156A GLY* 1.3 71.2 - - - +
158A TYR* 1.3 59.9 + - - +
159A ASN* 4.1 1.6 - - + +
165A GLN* 4.0 19.6 - - - +
166A PHE 3.2 6.3 - - - +
167A ASP* 3.7 22.9 + - + +
229A ARG* 6.0 0.4 - - - +
403A PRO* 5.3 4.4 - - - +
405A TYR* 5.3 2.4 + - - -
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Residues in contact with TYR 158 (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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107A LYS* 3.6 22.7 - - + +
108A PHE* 4.1 29.6 - + + -
157A ARG* 1.3 71.9 - - - +
159A ASN* 1.3 77.3 + - - +
160A LEU* 3.4 28.7 - - + +
165A GLN* 3.3 4.6 - - - -
166A PHE* 2.8 76.1 + + + +
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Residues in contact with ASN 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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102A PHE* 3.6 18.9 - - - -
103A ALA* 3.8 19.3 - - + +
104A GLY* 3.1 24.4 + - - -
106A GLY 3.6 9.4 + - - +
107A LYS* 2.9 29.3 + - - +
157A ARG* 4.1 1.3 - - + -
158A TYR* 1.3 84.3 - - - +
160A LEU* 1.3 60.0 + - - +
161A ASP 4.0 1.9 + - - -
162A ASN* 3.5 21.6 - - - +
164A TRP 3.5 11.0 - - - +
165A GLN* 3.4 20.9 - - + +
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Residues in contact with LEU 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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158A TYR* 3.4 30.5 - - + +
159A ASN* 1.3 71.2 - - - +
161A ASP* 1.3 84.6 + - - +
162A ASN 3.2 2.9 - - - -
163A ARG* 3.0 20.4 + - - +
164A TRP* 2.7 48.0 + - + +
166A PHE* 4.4 15.5 - - + -
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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