Contacts of the strand formed by residues 150 - 157 (chain A) in PDB entry 3HPN
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 GLY 150 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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58A TRP* 3.5 18.8 - - - -
59A VAL 3.1 13.5 - - - -
60A TYR* 4.1 0.2 - - - -
61A ARG* 3.9 4.0 - - - -
98A GLU* 3.4 4.3 - - - +
99A SER 2.9 27.6 + - - -
148A ARG* 3.2 7.5 - - - +
149A LYS* 1.3 80.1 - - - +
151A PHE* 1.3 65.9 + - - +
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Residues in contact with PHE 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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4A LEU* 4.0 11.2 - - + -
5A LEU* 6.4 0.2 - - + -
58A TRP* 3.3 6.6 - - - +
59A VAL* 2.8 71.9 + - + +
60A TYR 3.9 8.7 - - - -
61A ARG* 4.4 9.0 - - + -
67A ILE* 3.5 26.7 - - + -
96A TYR* 5.2 3.8 - + + -
97A ALA 3.3 13.0 - - - +
98A GLU* 4.1 12.6 - - + +
99A SER 4.5 0.7 - - - +
146A LEU* 3.7 24.7 - - + -
150A GLY* 1.3 76.2 - - - +
152A TYR* 1.3 67.7 + - - +
153A LEU* 3.8 22.4 - - + -
169A VAL* 4.0 15.0 - - + -
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Residues in contact with TYR 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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55A ARG* 3.5 30.5 - - + -
56A THR* 3.4 20.6 - - - -
57A ASN 3.8 4.9 - - - -
58A TRP* 3.4 36.3 - + - -
96A TYR* 3.2 9.4 - - - +
97A ALA* 2.8 36.5 + - + +
99A SER* 4.3 5.4 - - - -
102A ASP* 2.8 16.8 + - - -
103A TYR* 2.7 56.5 + + - +
104A GLY 4.0 0.7 + - - -
112A PHE* 3.9 22.4 - + + -
151A PHE* 1.3 77.4 - - - +
153A LEU* 1.3 67.0 + - - +
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Residues in contact with LEU 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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5A LEU* 5.3 0.7 - - + -
55A ARG* 3.5 4.0 - - - +
56A THR* 3.0 46.0 + - + +
59A VAL* 6.4 0.2 - - + -
67A ILE* 4.4 2.9 - - + -
69A ILE* 3.9 39.3 - - + -
94A LEU* 4.4 7.9 - - + -
95A TYR 3.4 7.6 - - - +
96A TYR* 4.0 11.7 - - + -
112A PHE* 4.4 0.4 - - - -
151A PHE* 3.8 22.6 - - + -
152A TYR* 1.3 82.5 - - - +
154A ALA* 1.3 62.5 + - - +
155A PHE* 4.7 4.0 - - + -
167A VAL* 4.6 9.2 - - + -
169A VAL* 3.6 29.6 - - + -
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Residues in contact with ALA 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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53A TRP* 3.9 19.3 - - + -
54A LEU 3.0 13.0 - - - +
55A ARG* 4.1 8.1 - - + -
94A LEU* 3.7 4.5 - - - +
95A TYR* 2.8 38.7 + - + +
107A PHE* 4.3 1.8 - - + -
112A PHE* 3.7 26.0 - - + -
153A LEU* 1.3 77.1 - - - +
155A PHE* 1.3 67.8 + - - +
156A GLN 4.2 0.4 - - - -
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Residues in contact with PHE 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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16A TRP* 3.8 22.0 - + - -
25A TRP* 3.2 25.7 + - + -
52A ASN 3.2 1.4 - - - +
53A TRP* 3.3 4.5 - - - -
54A LEU* 2.7 57.5 + - + +
56A THR* 4.2 11.4 - - + -
71A LEU* 3.8 23.3 - - + -
92A PHE* 4.1 17.3 - + + -
93A ASN 3.4 6.5 - - - +
94A LEU* 3.8 21.8 - - + -
153A LEU* 4.7 4.7 - - + -
154A ALA* 1.3 79.8 - - - +
156A GLN* 1.3 60.3 + - - +
164A LEU* 3.9 21.8 - - + -
167A VAL* 4.1 20.6 - - + -
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Residues in contact with GLN 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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25A TRP* 4.4 0.7 - - - -
51A ASP* 2.7 26.2 + - - +
52A ASN 3.2 3.6 - - - +
53A TRP* 3.6 38.6 - - + +
92A PHE* 3.4 7.7 - - - +
93A ASN* 2.6 71.4 + - + +
95A TYR* 3.8 9.9 + - + -
154A ALA 4.2 0.8 + - - -
155A PHE* 1.3 71.6 - - - +
157A ASP* 1.3 68.5 + - - +
158A ILE* 3.8 14.5 + - - +
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Residues in contact with ASP 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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25A TRP* 3.7 18.3 - - + +
42A VAL* 3.4 33.6 - - + +
44A ASN* 5.1 1.0 - - - +
50A GLN* 3.6 1.2 - - - +
51A ASP* 3.5 6.4 + - - -
52A ASN* 2.7 60.2 + - + +
91A THR 5.2 0.3 - - - +
92A PHE* 4.6 4.3 - - + -
156A GLN* 1.3 75.1 - - - +
158A ILE* 1.3 58.5 + - - +
159A GLY* 3.0 9.8 + - - -
160A ALA* 2.9 36.9 + - - +
162A VAL* 4.7 1.6 - - - +
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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