Contacts of the strand formed by residues 143 - 153 (chain E) in PDB entry 2ESV
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 LYS 143 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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167D MET* 4.0 20.4 - - + +
170D MET* 3.4 30.1 - - - +
172D PHE* 3.6 37.5 - - - -
137E GLU* 3.1 27.9 + - - +
138E ILE* 3.7 3.0 + - - -
141E THR* 3.1 24.1 + - - +
142E GLN* 1.3 86.1 + - - +
144E ALA* 1.3 61.8 + - - +
198E ARG* 3.8 26.2 - - + +
199E VAL 3.3 11.4 - - - +
200E SER* 5.0 3.1 - - - -
201E ALA* 3.7 4.2 - - - +
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Residues in contact with ALA 144 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133E PRO* 3.6 21.8 - - + -
137E GLU* 4.0 0.4 - - - -
138E ILE* 4.2 7.6 - - + -
143E LYS* 1.3 75.5 - - - +
145E THR* 1.3 63.3 + - - +
146E LEU* 3.8 1.9 + - - +
197E LEU 3.6 1.9 - - - +
198E ARG* 3.4 1.5 - - - -
199E VAL* 2.8 40.3 + - + +
201E ALA* 4.5 3.4 - - - -
204E TRP* 3.6 34.5 - - + -
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Residues in contact with THR 145 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127D LEU* 3.2 21.1 - - - +
139D LEU* 3.7 23.4 - - + +
141D THR* 5.5 0.3 + - - -
165D LEU* 5.7 1.3 - - + -
176D SER* 6.2 0.9 - - - -
133E PRO* 3.4 13.3 - - - +
137E GLU* 2.7 33.6 + - - +
144E ALA* 1.3 71.2 - - - +
146E LEU* 1.3 71.9 + - - +
147E VAL* 4.6 0.7 - - + -
196E ARG* 4.1 22.0 - - + -
197E LEU 3.4 9.2 - - - +
198E ARG* 3.0 22.8 + - + +
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Residues in contact with LEU 146 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130E VAL* 4.2 15.3 - - + -
131E PHE 3.5 8.5 - - - +
132E GLU* 5.7 0.2 - - - -
133E PRO* 3.8 25.4 - - + -
144E ALA 4.0 7.0 - - - +
145E THR* 1.3 74.7 - - - +
147E VAL* 1.3 60.1 + - - +
162E TRP* 3.7 24.9 - - + -
195E SER 3.8 0.2 - - - +
196E ARG* 3.3 5.0 - - - -
197E LEU* 2.7 45.5 + - + +
199E VAL* 4.6 7.6 - - + -
204E TRP* 4.1 20.9 - - + -
211E PHE* 3.7 40.2 - - + -
242E ALA* 5.0 1.3 - - + -
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Residues in contact with VAL 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127D LEU* 3.6 23.8 - - + -
137D VAL* 4.3 10.8 - - + -
139D LEU* 4.3 10.5 - - + -
178D VAL* 4.0 34.1 - - + -
130E VAL* 3.6 3.3 - - - +
131E PHE* 2.8 44.7 + - + +
145E THR* 4.6 1.6 - - + -
146E LEU* 1.3 77.7 - - - +
148E CYS* 1.3 72.0 + - - +
149E LEU* 5.0 3.1 - - + -
162E TRP* 4.2 2.2 - - - -
194E SER* 4.6 3.6 - - - -
195E SER 3.2 9.2 - - - +
196E ARG* 4.2 13.9 - - + -
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Residues in contact with CYS 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128E VAL* 3.8 11.7 - - - -
129E ALA 3.5 10.1 - - - -
130E VAL* 4.6 0.4 - - - +
147E VAL* 1.3 76.2 - - - +
149E LEU* 1.3 65.1 + - - +
150E ALA 4.2 0.4 - - - -
160E LEU* 4.0 9.0 - - - -
162E TRP* 3.4 17.4 - - + -
193E LEU 4.5 0.2 - - - -
194E SER* 3.2 9.5 - - - -
195E SER* 2.7 39.1 + - - +
213E CYS* 2.0 50.3 - - + -
215E VAL* 4.9 0.2 - - - -
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Residues in contact with LEU 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137D VAL* 4.5 5.2 - - + -
178D VAL* 4.7 6.3 - - + -
180D TRP* 3.7 57.9 - - + +
127E GLU 3.7 1.6 - - - +
128E VAL* 3.4 2.3 - - - -
129E ALA* 2.8 40.5 + - + +
131E PHE* 3.7 32.5 - - + -
147E VAL* 5.0 1.3 - - + -
148E CYS* 1.3 75.6 - - - +
150E ALA* 1.3 60.3 + - - +
151E THR* 3.8 25.2 + - + +
193E LEU 3.7 2.9 - - - +
194E SER* 3.9 16.6 - - - -
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Residues in contact with ALA 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126E PRO* 4.5 6.1 - - + -
127E GLU 3.3 7.9 - - - +
128E VAL* 4.4 2.9 - - + +
148E CYS* 4.2 0.6 - - - -
149E LEU* 1.3 71.9 - - - +
151E THR* 1.3 60.2 + - - +
153E PHE* 3.4 15.4 - - + -
158E VAL* 5.8 0.2 - - + -
160E LEU* 4.5 6.3 - - + -
192E ALA* 3.1 4.3 - - - +
193E LEU* 2.8 44.3 + - + +
215E VAL* 3.9 31.0 - - + -
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Residues in contact with THR 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180D TRP* 4.8 6.1 - - - +
125E PRO 4.4 0.2 - - - +
126E PRO* 3.5 1.2 - - - +
127E GLU* 2.8 52.5 + - - +
149E LEU* 3.8 33.2 + - + +
150E ALA* 1.3 78.2 - - - +
152E GLY* 1.3 63.9 + - - +
153E PHE* 3.4 3.7 + - - -
182E GLU* 3.4 12.8 - - - +
191E TYR 3.6 2.7 - - - -
192E ALA* 4.1 8.1 - - + +
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Residues in contact with GLY 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124E PHE* 3.3 8.7 - - - +
125E PRO 3.4 6.2 - - - +
127E GLU* 6.1 1.1 - - - -
151E THR* 1.3 73.2 - - - +
153E PHE* 1.3 59.3 + - - +
182E GLU* 2.7 24.3 + - - -
190E ARG* 3.0 45.8 + - - -
191E TYR 2.9 3.9 + - - -
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Residues in contact with PHE 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124E PHE 3.4 11.4 - - - +
125E PRO 4.1 0.2 - - - -
126E PRO* 3.8 32.5 - - + -
150E ALA* 3.4 31.0 - - + -
152E GLY* 1.3 78.4 - - - +
154E TYR* 1.3 61.1 + - - +
155E PRO 3.8 12.3 - - - -
156E ASP* 3.6 14.6 - - + -
158E VAL* 3.6 39.5 - - + -
179E PRO* 3.9 12.8 - - + -
190E ARG* 4.4 0.7 - - - -
191E TYR* 2.8 63.0 + - + -
192E ALA* 3.9 0.9 - - - -
193E LEU* 3.9 8.7 - - + -
217E PHE* 4.3 4.0 - - + -
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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