Contacts of the strand formed by residues 161 - 167 (chain A) in PDB entry 5H15
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 PRO 161 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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102A ASN* 4.6 9.2 - - - +
104A HIS* 6.1 0.4 - - + -
152A TRP* 4.5 10.5 - - + -
153A THR 3.7 7.2 - - - +
154A TYR* 4.2 1.8 - - - -
159A SER 3.7 0.9 - - - +
160A HIS* 1.4 110.3 - - + +
162A LEU* 1.3 60.3 + - - +
177A PRO* 3.0 28.7 - - + +
178A ILE* 3.7 13.7 - - + -
65C ILE* 4.2 12.6 - - + -
66C GLN* 3.6 31.4 - - + +
68C VAL* 4.4 9.2 - - + -
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Residues in contact with LEU 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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152A TRP* 3.5 12.0 - - - -
153A THR* 2.8 55.5 + - + +
154A TYR 4.0 2.0 - - - +
155A ASP* 4.0 28.3 - - + +
160A HIS* 4.0 15.9 - - + +
161A PRO* 1.3 82.2 - - - +
163A LEU* 1.3 60.3 + - - +
174A ILE* 4.4 12.6 - - + -
175A ILE 4.5 2.2 - - - +
177A PRO* 3.8 4.5 - - - -
183A ILE* 3.5 31.9 - - + -
184A LYS* 6.5 0.4 - - - -
204A ASN* 6.2 1.1 - - - +
220A ILE* 4.2 15.5 - - + -
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Residues in contact with LEU 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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114A ALA* 3.8 14.6 - - + -
121A VAL* 3.6 31.2 - - + -
123A LEU* 3.9 13.0 - - + -
150A CYS* 4.1 8.3 - - + -
151A ALA 3.3 27.8 - - - +
152A TRP* 3.8 33.9 - - + +
162A LEU* 1.3 75.2 - - - +
164A ALA* 1.4 61.0 + - - +
165A VAL* 4.1 6.7 + - + -
173A ARG 3.6 1.7 - - - +
174A ILE* 3.6 2.9 - - - -
175A ILE* 2.8 52.0 + - + +
177A PRO* 4.6 7.9 - - + -
198A PHE* 5.8 0.4 - - - -
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Residues in contact with ALA 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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150A CYS* 3.1 7.6 - - - +
151A ALA* 2.8 32.3 + - + +
162A LEU 4.4 0.2 - - - -
163A LEU* 1.4 72.1 - - - +
165A VAL* 1.3 59.4 + - - +
172A ILE* 4.7 1.1 - - + -
173A ARG 3.4 5.2 - - - +
174A ILE* 3.7 23.3 - - + -
196A LEU* 3.7 16.1 - - + +
198A PHE* 3.7 25.2 - - + -
206A LEU* 4.1 5.2 - - + -
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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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116A VAL* 3.9 2.2 - - + -
121A VAL* 3.6 32.5 - - + -
147A PHE* 3.7 25.4 - - + -
149A THR 3.5 8.5 - - - +
150A CYS* 3.7 17.7 - - + -
163A LEU* 4.2 7.4 - - + -
164A ALA* 1.3 78.4 - - - +
166A ALA* 1.3 63.5 + - - +
171A ILE 3.7 0.3 - - - +
172A ILE* 3.6 1.6 - - - -
173A ARG* 3.0 40.3 + - + +
175A ILE* 3.7 26.0 - - + -
196A LEU* 3.6 4.2 - - - +
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Residues in contact with ALA 166 (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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147A PHE* 3.6 11.4 - - - -
148A TYR 3.0 18.4 + - - -
149A THR* 3.3 17.4 + - + +
165A VAL* 1.3 79.5 - - - +
167A GLY* 1.3 58.4 + - - +
171A ILE 3.5 16.8 - - - +
172A ILE* 4.2 6.3 - - + -
193A ILE* 3.7 32.3 - - + -
196A LEU* 3.9 10.1 - - + -
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Residues in contact with GLY 167 (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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145A GLU* 3.7 5.3 + - - -
146A ASN 3.1 14.8 - - - -
147A PHE* 3.9 3.4 - - - -
148A TYR* 3.7 11.7 - - - -
166A ALA* 1.3 76.9 - - - +
168A SER* 1.4 59.0 + - - -
169A ARG 3.3 2.9 - - - -
170A GLY* 3.0 18.5 + - - -
171A ILE 4.4 3.6 + - - -
193A ILE* 3.1 22.9 + - - -
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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