Contacts of the strand formed by residues 141 - 152 (chain A) in PDB entry 2FHP
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 LEU 141 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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113A GLN* 3.4 16.3 + - - +
114A PHE 3.6 2.0 - - - +
117A VAL* 3.7 30.1 - - + -
132A LEU* 5.4 0.4 - - + -
135A MSE 3.8 23.8 - - + +
136A LEU* 3.9 26.2 - - + -
139A GLN* 3.3 4.4 - - - +
140A LEU* 1.3 87.5 - - - +
142A THR* 1.3 65.6 + - - +
143A ASN* 3.9 2.1 + - - +
145A ALA* 3.8 15.9 - - + -
147A ILE* 3.9 20.2 - - + -
164A LEU* 4.2 17.0 - - + -
182A GLN* 4.2 14.2 + - - +
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Residues in contact with THR 142 (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 GLN* 3.8 31.6 - - + +
114A PHE 3.0 23.1 + - - +
115A ASP* 3.0 35.5 + - - +
141A LEU* 1.3 74.3 - - - +
143A ASN* 1.3 62.0 + - - +
144A GLU* 3.8 3.4 + - - +
145A ALA* 3.0 19.2 + - - +
182A GLN* 2.8 20.1 + - - -
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Residues in contact with ASN 143 (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 GLN* 5.5 2.8 + - - -
141A LEU 4.9 1.7 - - - +
142A THR* 1.3 76.2 - - - +
144A GLU* 1.3 67.2 + - + +
145A ALA 3.4 0.4 - - - +
182A GLN* 3.4 21.5 + - - +
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Residues in contact with GLU 144 (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 ASP* 4.3 4.1 - - - +
142A THR* 3.2 6.4 + - - +
143A ASN* 1.3 82.8 - - + +
145A ALA* 1.3 68.4 + - - +
146A VAL* 3.6 2.3 + - - +
181A ARG* 4.2 12.7 + - - +
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Residues in contact with ALA 145 (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 PHE 3.4 21.8 - - - +
115A ASP 3.4 10.1 - - - +
117A VAL* 5.9 0.2 - - + -
141A LEU* 3.8 21.5 - - + -
142A THR* 3.0 23.3 + - - +
143A ASN 3.4 0.8 + - - -
144A GLU* 1.3 80.9 - - - +
146A VAL* 1.3 61.1 + - - +
147A ILE* 5.1 1.7 - - + +
164A LEU* 5.7 1.9 - - + +
181A ARG* 4.1 20.4 + - - +
182A GLN* 4.2 8.3 + - + +
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Residues in contact with VAL 146 (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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36A ILE* 4.0 22.2 - - + +
40A PHE* 5.7 4.0 - - + -
64A MSE 5.9 0.9 - - + -
115A ASP 3.1 13.8 + - - +
116A LEU* 3.3 18.8 - - + +
117A VAL* 3.0 23.9 + - - +
144A GLU 4.9 1.6 - - - +
145A ALA* 1.3 75.4 - - - +
147A ILE* 1.3 68.1 + - - +
148A VAL* 4.9 0.4 - - + -
179A ILE* 3.5 28.9 - - + -
180A TYR 3.6 5.4 - - - +
181A ARG* 3.8 29.2 - - - +
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Residues in contact with ILE 147 (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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117A VAL* 3.4 32.5 - - + +
119A LEU* 3.9 18.4 - - + -
132A LEU* 3.8 32.8 - - + -
141A LEU* 3.9 22.4 - - + -
145A ALA* 5.1 1.3 - - + -
146A VAL* 1.3 78.6 - - - +
148A VAL* 1.3 63.9 + - - +
149A CYS* 3.9 13.2 - - - -
164A LEU* 4.4 9.6 - - + -
178A THR 3.6 0.7 - - - +
179A ILE* 3.3 10.2 - - - +
180A TYR* 2.9 48.2 + - + +
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Residues in contact with VAL 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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32A ILE* 3.7 46.7 - - + -
36A ILE* 4.1 11.4 - - + -
55A LEU* 6.2 0.4 - - + -
116A LEU* 3.9 21.3 - - + -
117A VAL 2.8 9.8 + - - +
118A LEU* 3.5 15.0 - - + -
119A LEU* 2.8 27.4 + - - +
146A VAL* 4.9 0.7 - - + -
147A ILE* 1.3 75.5 - - - +
149A CYS* 1.3 66.1 + - - +
150A GLU* 4.8 2.9 - - + +
177A VAL* 4.2 10.8 - - + -
178A THR 3.6 2.9 - - - -
179A ILE* 3.8 14.1 - - + -
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Residues in contact with CYS 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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119A LEU* 3.4 9.0 - - - -
128A ILE* 3.8 40.8 - - + -
147A ILE* 3.9 18.8 - - - -
148A VAL* 1.3 75.5 - - - +
150A GLU* 1.3 62.5 + - - +
151A THR* 4.2 0.7 - - + -
157A LEU* 4.0 13.2 - - + -
176A GLN 3.5 0.7 - - - +
177A VAL* 3.3 7.4 - - - +
178A THR* 2.8 40.6 + - - +
180A TYR* 4.0 16.2 - - - -
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Residues in contact with GLU 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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22A ARG* 3.3 14.0 + - - +
24A THR* 3.0 38.7 + - - +
28A VAL* 4.0 3.5 - - - +
32A ILE* 4.1 19.5 - - + +
55A LEU* 3.4 27.6 - - + +
119A LEU 2.9 14.7 + - - +
120A ASP* 3.5 31.6 - - + +
121A PRO* 3.9 6.6 - - - +
148A VAL* 4.8 4.0 - - + +
149A CYS* 1.3 77.2 - - - +
151A THR* 1.3 67.0 + - - +
175A THR* 3.7 11.2 - - + +
176A GLN 3.3 5.2 - - - +
177A VAL* 4.7 4.5 - - + -
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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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22A ARG* 3.9 10.7 + - - +
121A PRO* 5.5 0.2 - - + -
126A GLN* 4.5 7.0 - - + -
128A ILE* 3.5 27.6 - - + -
149A CYS* 4.8 0.2 - - + -
150A GLU* 1.3 81.2 - - - +
152A ASP* 1.3 62.8 + - - +
155A VAL* 3.8 20.6 - - + +
157A LEU* 4.1 16.1 - - + +
175A THR* 3.7 4.7 - - - -
176A GLN* 2.8 57.5 + - - +
178A THR* 4.8 0.3 + - - -
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Residues in contact with ASP 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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22A ARG* 4.1 14.8 - - + +
123A TYR* 3.9 29.2 - - + -
151A THR* 1.3 78.4 + - - +
153A LYS* 1.3 64.2 + - - +
154A THR* 2.6 48.1 + - - +
155A VAL* 3.0 15.3 + - + +
174A ILE* 3.7 24.5 - - - +
176A GLN* 3.4 7.1 - - - +
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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