Contacts of the strand formed by residues 141 - 152 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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113B GLN* 3.7 12.5 - - - +
114B PHE 3.6 6.5 - - - +
117B VAL* 3.7 30.3 - - + -
132B LEU* 5.0 0.9 - - + -
135B MSE 3.7 31.8 + - + +
136B LEU* 3.7 29.8 - - + -
139B GLN* 3.4 2.5 - - - +
140B LEU* 1.3 81.3 - - - +
142B THR* 1.3 65.8 + - - +
143B ASN* 3.9 2.1 + - - +
145B ALA* 3.9 11.0 - - + -
147B ILE* 4.1 20.2 - - + -
164B LEU* 4.2 16.6 - - + -
182B GLN* 4.7 12.1 - - - +
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Residues in contact with THR 142 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113B GLN* 3.8 30.1 - - + +
114B PHE 3.0 24.1 + - - +
115B ASP* 2.9 35.9 + - - +
141B LEU* 1.3 78.1 - - - +
143B ASN* 1.3 65.0 + - - +
144B GLU* 3.6 9.7 + - - -
145B ALA* 3.1 27.4 + - - +
182B GLN* 3.5 7.5 - - - +
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Residues in contact with ASN 143 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141B LEU 5.0 1.9 - - - +
142B THR* 1.3 74.4 - - - +
144B GLU* 1.3 73.5 + - - +
145B ALA 3.4 0.2 - - - -
182B GLN* 3.3 31.9 - - - +
183B GLU* 5.0 2.1 - - - -
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Residues in contact with GLU 144 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115B ASP* 4.4 11.6 - - - +
142B THR* 3.1 12.2 + - - +
143B ASN* 1.3 94.7 + - - +
145B ALA* 1.3 66.9 + - - +
146B VAL* 3.5 1.9 + - - +
181B ARG* 4.6 11.2 + - - +
182B GLN* 4.6 3.4 - - - -
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Residues in contact with ALA 145 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114B PHE 3.5 20.2 - - - +
115B ASP 3.3 10.8 - - - +
117B VAL* 5.9 0.2 - - + -
141B LEU* 3.9 22.4 - - + -
142B THR* 3.1 20.9 + - - +
143B ASN 3.4 1.4 + - - -
144B GLU* 1.3 79.7 - - - +
146B VAL* 1.3 60.0 + - - +
147B ILE* 4.9 2.2 - - + -
164B LEU* 5.0 1.0 - - - +
180B TYR 4.1 0.2 - - - +
181B ARG* 3.5 3.6 - - - +
182B GLN* 2.9 33.7 + - + +
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Residues in contact with VAL 146 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36B ILE* 3.7 24.5 - - + +
40B PHE* 5.3 5.8 - - + -
115B ASP 3.0 11.3 + - - +
116B LEU* 3.3 24.5 - - + +
117B VAL 3.0 23.6 + - - -
144B GLU 5.0 1.1 - - - +
145B ALA* 1.3 74.1 - - - +
147B ILE* 1.3 70.8 + - - +
179B ILE* 3.7 22.2 - - + -
180B TYR 3.4 11.0 - - - +
181B ARG* 3.8 25.4 - - - +
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Residues in contact with ILE 147 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117B VAL* 3.4 29.8 - - + +
119B LEU* 3.9 9.6 - - + -
132B LEU* 3.8 35.9 - - + -
141B LEU* 4.1 18.4 - - + -
145B ALA* 4.9 1.3 - - + -
146B VAL* 1.3 83.1 - - - +
148B VAL* 1.3 64.9 + - - +
149B CYS* 3.8 21.8 - - - -
164B LEU* 4.0 11.4 - - + -
178B THR 3.7 0.3 - - - +
179B ILE* 3.3 9.9 - - - +
180B TYR* 2.8 49.9 + - + +
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Residues in contact with VAL 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32B ILE* 3.7 40.4 - - + -
36B ILE* 3.8 30.5 - - + -
55B LEU* 5.9 0.4 - - + -
116B LEU* 4.0 9.6 - - + -
117B VAL 2.8 9.8 + - - +
118B LEU* 3.9 17.5 - - + -
119B LEU* 2.8 30.7 + - - +
146B VAL* 4.9 0.2 - - + -
147B ILE* 1.3 74.6 - - - +
149B CYS* 1.3 65.8 + - - +
150B GLU* 4.7 3.6 - - + +
177B VAL* 4.3 4.9 - - + -
178B THR 3.7 2.5 - - - -
179B ILE* 3.9 16.4 - - + -
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Residues in contact with CYS 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119B LEU* 3.5 6.3 - - - -
128B ILE* 3.7 33.2 - - + -
132B LEU* 4.5 0.2 - - - -
147B ILE* 3.8 18.6 - - - -
148B VAL* 1.3 76.7 - - - +
150B GLU* 1.3 64.6 + - - +
151B THR* 4.8 0.2 - - + -
157B LEU* 3.9 19.7 - - + -
176B GLN 3.5 0.7 - - - +
177B VAL* 3.3 7.8 - - - +
178B THR* 2.9 41.3 + - - +
180B TYR* 4.0 19.5 - - - -
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Residues in contact with GLU 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25B THR 5.9 0.9 + - - -
28B VAL* 4.2 10.0 - - - +
32B ILE* 4.0 23.2 - - + +
55B LEU* 3.3 30.4 - - - +
119B LEU 2.8 15.5 + - - +
120B ASP* 3.4 38.1 - - + +
121B PRO* 4.0 12.3 - - - +
148B VAL* 4.7 4.3 - - + +
149B CYS* 1.3 76.3 - - - +
151B THR* 1.3 65.9 + - - +
175B THR* 3.8 18.9 + - - +
176B GLN 3.4 3.8 - - - -
177B VAL* 4.5 4.5 - - + -
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Residues in contact with THR 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126B GLN* 4.4 9.2 - - + -
128B ILE* 3.6 26.5 - - + -
149B CYS* 4.8 0.4 + - + -
150B GLU* 1.3 80.6 - - - +
152B ASP* 1.3 63.9 + - - +
155B VAL* 3.9 18.5 - - + +
157B LEU* 4.1 18.6 - - + +
175B THR* 3.8 6.5 + - - -
176B GLN* 2.8 61.5 + - - +
178B THR* 4.8 0.3 + - - -
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Residues in contact with ASP 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123B TYR* 3.7 33.2 - - + -
151B THR* 1.3 79.6 + - - +
153B LYS* 1.3 66.9 + - - +
154B THR* 2.8 40.7 + - - +
155B VAL* 3.2 14.4 + - + +
174B ILE* 4.3 8.4 - - - +
176B GLN* 3.3 8.7 - - - +
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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