Contacts of the strand formed by residues 147 - 154 (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 PHE 147 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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97A PHE* 3.2 21.1 - - - +
116A VAL* 3.9 19.9 - - + -
117A GLY* 3.8 10.1 + - - +
118A SER 2.8 12.6 + - - +
119A ASN* 3.7 22.7 - - - -
120A ARG 3.7 23.8 - - - -
121A VAL* 3.8 17.0 - - + -
138A TYR* 4.1 7.0 - + - -
140A ASP* 3.4 26.7 - - + -
145A GLU* 3.7 22.9 - - + -
146A ASN* 1.3 70.8 - - - +
148A TYR* 1.4 59.7 + - - +
149A THR 3.7 1.3 - - - +
165A VAL* 3.7 21.8 - - + -
166A ALA* 3.6 28.3 - - - +
171A ILE 5.1 0.7 - - - -
173A ARG* 4.7 8.1 - - + -
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Residues in contact with TYR 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A PHE* 3.6 39.9 - + + +
98A GLY* 4.6 0.5 - - - -
116A VAL* 4.1 2.7 - - - -
146A ASN* 3.7 24.3 + - - -
147A PHE* 1.4 74.7 - - - +
149A THR* 1.3 60.6 + - - +
166A ALA 3.0 4.9 + - - -
167A GLY* 3.9 4.9 - - - -
168A SER* 3.5 34.8 - - - -
192A ALA* 4.0 13.0 - - + +
193A ILE 3.3 25.1 - - - +
194A ASN* 3.9 11.3 - - - +
367A ARG* 5.4 4.5 + - - -
501A LQD 3.4 71.2 - + + +
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Residues in contact with THR 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A GLY* 5.3 2.0 - - - -
116A VAL* 3.8 11.8 - - - +
147A PHE* 3.7 1.2 - - - +
148A TYR* 1.3 80.7 + - - +
150A CYS* 1.3 76.0 + - - +
165A VAL* 3.5 3.8 - - - +
166A ALA* 3.3 32.3 + - + +
193A ILE* 4.2 4.9 - - + +
194A ASN 3.8 4.9 - - - -
195A GLU* 3.5 36.6 - - - +
196A LEU* 3.2 32.3 + - + +
367A ARG* 5.7 1.3 + - - -
415A GLN* 6.0 0.7 - - - -
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Residues in contact with CYS 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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98A GLY* 5.5 1.0 - - - -
99A VAL 4.8 3.1 - - - -
100A GLN* 3.4 45.8 - - - +
114A ALA* 4.3 22.9 - - - -
116A VAL* 3.8 20.1 - - + +
149A THR* 1.3 83.8 + - - +
151A ALA* 1.3 63.7 + - - +
163A LEU* 4.1 6.5 - - + -
164A ALA 3.1 13.5 - - - +
165A VAL* 3.7 15.0 - - + -
196A LEU* 4.4 5.1 - - - +
415A GLN* 6.0 0.2 + - - -
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Residues in contact with ALA 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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100A GLN* 4.7 7.0 - - - -
150A CYS* 1.3 77.2 - - - +
152A TRP* 1.3 61.6 + - - +
163A LEU* 3.3 6.6 - - - +
164A ALA 2.8 32.1 + - - +
196A LEU* 3.8 28.7 - - + +
197A LYS* 4.4 4.9 - - + +
198A PHE* 3.7 23.4 - - + +
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Residues in contact with TRP 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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100A GLN* 3.1 33.3 + - + +
101A PHE 3.6 17.5 - - - +
102A ASN* 3.6 47.9 - - + +
103A TRP 5.2 0.9 - - - +
104A HIS* 3.5 15.7 + - + -
112A VAL* 4.3 13.5 - - + -
113A PHE 4.5 0.4 - - - -
114A ALA* 3.9 23.8 - - + +
123A LEU* 3.9 25.8 - - + -
151A ALA* 1.3 74.3 - - - +
153A THR* 1.3 61.8 + - - +
161A PRO* 4.5 4.0 - - + -
162A LEU 3.5 21.8 - - - -
163A LEU* 3.8 17.5 - - + +
177A PRO* 3.8 24.9 - - + -
198A PHE* 3.2 17.9 - - - +
68C VAL* 4.6 3.1 - - + -
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Residues in contact with THR 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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102A ASN* 5.2 0.2 - - - +
104A HIS* 3.7 17.0 + - - +
152A TRP* 1.3 77.2 - - - +
154A TYR* 1.3 64.7 + - - +
161A PRO* 3.7 4.0 - - - +
162A LEU* 2.8 59.4 + - + +
164A ALA 5.9 0.2 - - - +
174A ILE* 6.0 0.2 - - + -
198A PHE* 3.4 34.7 - - + +
203A PRO* 2.7 36.1 + - - +
220A ILE* 4.1 3.6 - - + -
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Residues in contact with TYR 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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104A HIS* 3.4 33.7 - + + -
153A THR* 1.3 80.7 + - - +
155A ASP* 1.3 73.1 + - - +
156A SER* 3.3 14.0 + - - -
159A SER* 4.7 1.3 - - - -
160A HIS 3.2 12.8 - - - +
162A LEU* 4.0 8.2 - - - +
201A ARG 4.6 3.6 + - - -
203A PRO* 3.5 50.0 - - + +
204A ASN* 5.1 2.8 + - - -
220A ILE* 6.1 0.2 - - - +
63C ARG* 3.4 36.4 + - + -
65C ILE* 3.6 34.8 - - + -
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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