Contacts of the strand formed by residues 133 - 144 (chain E) in PDB entry 2EST
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 ASN 133 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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132E ASN* 1.3 92.5 + - - +
134E SER* 1.3 66.6 + - - +
135E PRO* 3.3 7.6 - - - +
159E TYR* 4.6 3.5 + - - -
161E PRO* 3.6 25.7 - - - +
162E THR* 3.1 22.7 + - - +
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Residues in contact with SER 134 (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 LEU* 3.6 29.5 - - - +
131E ALA* 2.9 28.0 + - - +
132E ASN 3.3 1.2 - - - -
133E ASN* 1.3 75.8 - - - +
135E PRO* 1.3 65.4 - - - +
136E CYS* 3.3 8.0 - - - -
161E PRO* 3.1 5.2 - - - +
162E THR* 3.0 32.1 + - - -
201E CYS* 5.3 1.1 - - - -
202E LEU 5.6 2.7 - - - -
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Residues in contact with PRO 135 (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 ASN 3.3 7.6 - - - +
134E SER* 1.3 82.3 - - - +
136E CYS* 1.3 62.0 + - - +
137E TYR* 5.0 6.3 - - + -
159E TYR* 3.5 33.2 - - + +
161E PRO* 4.6 0.2 - - + -
200E HIS 4.2 0.2 - - - +
201E CYS* 3.4 3.3 - - - +
202E LEU* 3.1 53.7 + - + +
207E TYR* 4.7 1.0 - - - -
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Residues in contact with CYS 136 (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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134E SER* 3.3 19.9 + - - -
135E PRO* 1.3 76.9 - - - +
137E TYR* 1.3 62.8 - - - +
159E TYR* 3.4 8.4 - - - -
160E LEU 2.8 42.6 + - - +
162E THR* 3.4 23.3 - - - -
199E LEU* 3.5 17.0 - - + -
200E HIS 3.1 5.6 - - - -
201E CYS* 3.0 32.8 - - - -
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Residues in contact with TYR 137 (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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27E TRP* 4.0 25.1 - + + -
135E PRO* 5.1 4.0 - - + -
136E CYS* 1.3 79.0 - - - +
138E ILE* 1.4 60.5 + - - +
139E THR* 5.1 1.1 - - + -
157E GLN* 3.9 26.2 - - - -
158E ALA 3.1 19.1 - - - -
159E TYR* 3.6 38.1 - + + -
199E LEU* 3.4 7.5 - - - -
200E HIS* 2.7 45.9 + - + +
207E TYR* 3.6 37.3 + + - -
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Residues in contact with ILE 138 (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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16E VAL* 3.8 15.8 - - + +
137E TYR* 1.4 70.8 - - - +
139E THR* 1.3 71.0 + - - +
156E GLN 3.5 0.5 - - - +
157E GLN* 3.2 5.7 - - - +
158E ALA* 2.8 51.8 + - + +
160E LEU* 3.7 24.6 - - + +
189E SER 4.5 4.3 - - - +
190E GLY* 3.5 29.4 - - - +
194E ASP* 4.7 5.2 - - + -
198E PRO 4.0 5.6 - - - +
199E LEU* 4.5 1.1 - - + +
213E THR* 3.8 20.2 - - + +
226E THR* 4.3 0.7 - - + -
228E PHE* 3.7 29.4 - - + -
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Residues in contact with THR 139 (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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16E VAL* 3.9 6.4 - - - +
27E TRP* 3.4 44.2 - - + +
30E GLN* 2.8 26.0 + - - +
137E TYR* 4.0 0.4 - - + -
138E ILE* 1.3 88.6 - - - +
140E GLY* 1.4 56.6 + - - +
155E LEU* 4.3 6.7 - - + -
156E GLN 3.2 8.3 - - - +
157E GLN* 4.1 3.4 - - + -
194E ASP* 4.4 6.2 - - - +
197E GLY* 5.0 3.8 - - - -
198E PRO* 3.3 16.0 + - - +
200E HIS* 3.0 27.0 + - + -
213E THR* 5.6 0.2 + - - -
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Residues in contact with GLY 140 (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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16E VAL* 3.9 4.0 + - - +
30E GLN* 4.3 4.7 - - - -
40E HIS* 6.3 0.2 - - - -
139E THR* 1.4 74.9 - - - +
141E TRP* 1.4 65.9 - - - -
142E GLY 3.6 3.2 + - - -
155E LEU* 3.4 16.7 - - - +
156E GLN* 3.1 38.2 + - - +
194E ASP* 3.8 11.9 - - - -
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Residues in contact with TRP 141 (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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30E GLN* 3.5 37.2 - - + -
31E ILE 3.7 15.3 - - - -
32E SER* 3.7 8.1 - - - -
40E HIS* 3.5 34.8 + + + +
70E GLU* 3.5 48.2 - - + -
71E HIS* 3.0 23.0 + - - -
73E LEU* 3.6 34.0 - - + +
140E GLY* 1.4 68.2 - - - -
142E GLY* 1.3 55.7 + - - +
151E LEU* 3.2 16.9 - - - +
152E ALA* 2.9 30.2 + - - -
153E GLN 4.0 0.4 - - - -
154E THR 3.6 18.4 - - - -
155E LEU* 3.3 18.2 - - + +
193E GLY 4.4 1.9 + - - -
194E ASP* 4.0 0.2 + - - -
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Residues in contact with GLY 142 (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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16E VAL 3.4 7.7 + - - -
140E GLY 3.6 1.0 - - - -
141E TRP* 1.3 78.3 - - - +
143E LEU* 1.3 65.7 + - - -
144E THR* 3.6 0.9 + - - +
151E LEU* 3.8 3.8 - - - -
152E ALA* 3.3 11.8 + - - +
192E GLN 3.4 13.9 - - - -
193E GLY 3.7 9.0 + - - -
194E ASP* 3.1 24.9 + - - -
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Residues in contact with LEU 143 (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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16E VAL 3.4 10.4 + - - -
17E VAL 3.6 0.5 + - - -
142E GLY* 1.3 72.1 - - - -
144E THR* 1.3 60.3 + - - +
145E ARG 3.4 18.6 - - - +
148E ASN* 4.0 9.9 - - - +
149E GLY 3.8 18.6 - - - +
150E GLN* 3.2 16.6 - - - +
151E LEU* 3.6 26.2 - - + +
191E CYS* 3.2 33.9 - - - +
192E GLN* 3.2 34.7 + - + +
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Residues in contact with THR 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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16E VAL 3.6 16.4 - - - +
17E VAL* 3.6 22.0 - - - +
18E GLY 3.9 4.5 + - - -
142E GLY 4.2 1.1 - - - +
143E LEU* 1.3 75.6 - - - +
145E ARG* 1.4 71.4 + - - +
149E GLY* 5.2 0.2 - - - -
150E GLN* 3.5 17.1 + - - +
152E ALA* 4.0 29.4 - - + -
156E GLN* 4.5 10.1 - - + +
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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