Contacts of the strand formed by residues 153 - 166 (chain A) in PDB entry 2ADS
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 PHE 153 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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11A ARG* 3.2 8.0 - - - -
12A ILE* 2.7 55.2 + - + -
13A GLU* 5.3 8.5 - - + -
89A ARG 5.0 0.2 - - - -
90A GLY* 3.2 16.6 - - - -
91A PHE* 2.9 64.4 - + + -
93A ASN 5.8 0.4 - - - -
97A CYS* 6.1 1.8 - - + -
145A VAL* 5.3 5.2 - - + -
146A LEU 3.8 8.3 - - - +
147A LYS* 3.8 23.6 - - + +
151A GLY 4.0 6.3 - - - -
152A TYR* 1.4 79.1 - + - +
154A LEU* 1.3 57.1 + - - +
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Residues in contact with LEU 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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9A LEU* 3.7 29.2 - - + -
10A TYR 3.2 10.3 - - - +
11A ARG* 4.4 5.4 - - + +
12A ILE* 3.6 7.6 - - - +
145A VAL* 3.5 4.9 - - - +
146A LEU* 2.8 36.1 + - + +
147A LYS 3.7 5.8 - - - +
148A SER* 3.3 42.2 - - - +
152A TYR 4.5 1.3 - - - +
153A PHE* 1.3 80.3 - - - +
155A LEU* 1.3 60.3 + - - +
310A GLU* 3.9 22.4 - - + +
618A TYR* 3.8 17.0 - - - +
620A LEU* 3.8 12.3 - - + -
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Residues in contact with LEU 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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8A ASN 3.0 7.8 - - - +
9A LEU* 3.5 2.5 - - - -
10A TYR* 2.8 38.5 + - + +
12A ILE* 3.5 27.1 - - + -
101A PHE* 5.3 3.6 - - + -
143A GLU* 4.2 15.9 - - + -
144A LYS 2.9 29.8 - - - +
145A VAL* 4.1 11.7 - - + -
154A LEU* 1.3 74.2 - - - +
156A HIS* 1.3 66.9 - - - +
157A LEU* 5.3 3.1 - - + -
291A LEU* 4.7 8.1 - - + -
294A TYR* 4.8 8.3 - - + -
305A ILE* 3.7 37.2 - - + -
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Residues in contact with HIS 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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8A ASN* 3.4 41.8 + - + +
9A LEU* 4.9 0.9 - - + -
10A TYR* 5.5 2.0 - - - -
143A GLU* 3.7 1.0 - - - -
144A LYS* 2.8 72.7 + - + +
146A LEU* 4.8 16.2 - - + -
155A LEU* 1.3 81.1 - - - +
157A LEU* 1.3 82.9 + - - +
602A ASN* 5.7 2.9 - - - -
603A ASN 5.2 1.4 - - - -
604A PRO* 3.9 25.4 - - + +
10M G 5.4 0.4 - - - -
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Residues in contact with LEU 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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8A ASN* 4.8 1.6 + - - +
10A TYR* 6.0 2.6 - - + -
142A ASN 3.4 17.5 - - - +
143A GLU* 4.5 3.8 - - + -
144A LYS* 4.3 1.9 - - - -
155A LEU* 5.3 5.4 - - + -
156A HIS* 1.3 100.7 + - - +
158A ASP* 1.3 67.1 + - - +
159A LEU* 5.7 0.2 - - + -
287A ILE* 3.9 35.1 - - + +
290A ILE* 3.5 40.6 - - + -
291A LEU* 5.1 7.4 - - + +
294A TYR* 3.5 34.8 - - + +
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Residues in contact with ASP 158 (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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140A GLU* 3.2 14.8 - - - +
141A VAL* 3.5 7.4 - - - +
142A ASN* 2.7 77.8 + - + +
144A LYS* 3.7 22.9 + - - +
157A LEU* 1.3 77.9 - - - +
159A LEU* 1.3 58.4 + - - +
160A LYS* 3.3 35.9 + - - +
9M G 4.4 3.1 + - - -
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Residues in contact with LEU 159 (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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118A PHE* 6.3 2.9 - - + -
140A GLU 4.0 2.7 - - - -
141A VAL* 3.7 26.7 - - + +
157A LEU* 5.6 0.2 - - + -
158A ASP* 1.3 72.4 - - - +
160A LYS* 1.3 77.9 + - - +
161A PHE* 4.7 17.7 - - + -
286A LEU* 4.2 23.3 - - + -
287A ILE* 6.5 0.4 - - + -
290A ILE* 4.0 28.7 - - + -
8G C 4.8 1.2 + - - -
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Residues in contact with LYS 160 (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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139A PRO* 3.8 1.4 - - - +
140A GLU* 2.7 49.6 + - - +
144A LYS* 5.5 6.7 - - - +
158A ASP* 3.3 22.6 + - - +
159A LEU* 1.3 87.7 - - - +
161A PHE* 1.3 77.9 - - - +
162A ARG* 4.7 6.7 - - - +
602A ASN* 5.5 7.5 + - - +
7G C 6.1 0.9 - - - -
8G C 4.0 27.9 + - - +
9G C 5.8 0.4 - - - +
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Residues in contact with PHE 161 (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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118A PHE* 4.9 12.8 - + - -
126A ILE* 5.2 4.3 - - + -
137A LEU* 3.5 50.0 - - + -
138A ILE 3.3 8.3 - - - +
139A PRO* 3.6 32.5 - - + -
140A GLU* 3.0 4.4 - - - +
159A LEU* 4.7 16.4 - - + -
160A LYS* 1.3 82.1 - - - +
162A ARG* 1.3 85.5 + - - +
163A ILE* 5.3 0.2 - - + -
276A VAL* 6.1 7.2 - - + -
8G C 4.5 14.6 + - - +
9G C 3.0 9.8 + - - +
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Residues in contact with ARG 162 (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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138A ILE* 2.8 32.6 + - + +
140A GLU* 2.8 33.6 + - + +
160A LYS* 4.7 8.3 - - - +
161A PHE* 1.3 97.4 + - - +
163A ILE* 1.3 62.3 + - - +
164A GLN* 3.0 41.4 + - + +
191A ASP* 4.9 6.5 - - - +
193A VAL* 6.2 0.7 - - + -
9G C 2.7 37.7 + - - -
10G C 2.9 32.9 + - - -
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Residues in contact with ILE 163 (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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135A ILE* 3.0 37.0 - - + -
136A ALA 3.3 11.2 - - - +
137A LEU* 3.8 24.0 - - + +
162A ARG* 1.3 69.5 - - - +
164A GLN* 1.3 60.0 + - - +
165A PRO* 4.5 2.4 - - - +
258A VAL* 5.2 1.4 - - - +
269A ARG* 3.2 34.3 - - - +
8G C 3.9 12.8 - - + +
9G C 2.7 44.7 + - - +
10G C 3.2 21.0 + - - -
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Residues in contact with GLN 164 (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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135A ILE* 4.7 0.7 - - - -
136A ALA* 3.0 30.5 + - - +
138A ILE* 3.7 10.9 - - + +
162A ARG* 3.0 43.3 + - + +
163A ILE* 1.3 79.0 - - - +
165A PRO* 1.4 66.3 - - - +
166A PHE* 5.0 3.1 - - - -
186A LYS* 2.8 41.9 + - + +
191A ASP* 2.8 31.7 + - - +
192A PHE* 3.5 8.1 + - - -
193A VAL* 3.8 20.9 - - + +
10G C 4.3 0.9 - - - +
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Residues in contact with PRO 165 (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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133A ARG* 5.6 4.3 - - + -
134A LYS 3.4 16.2 - - - +
135A ILE* 4.3 15.0 - - + -
163A ILE 4.5 1.1 - - - +
164A GLN* 1.4 90.1 - - + +
166A PHE* 1.3 86.5 + - + +
186A LYS* 4.4 14.4 + - + +
188A ILE* 5.5 0.7 - - - -
257A PRO 4.5 2.0 - - - +
258A VAL* 3.2 51.6 - - + -
259A LEU* 3.8 12.8 - - + +
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Residues in contact with PHE 166 (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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132A ASN 5.0 0.2 - - - +
133A ARG* 4.3 6.6 - - - +
134A LYS* 3.3 52.9 + - + +
136A ALA* 5.1 12.1 - - + -
138A ILE* 5.7 8.1 - - + -
164A GLN 5.0 4.7 - - - -
165A PRO* 1.3 93.6 - - + +
167A GLU* 1.3 60.7 + - - +
186A LYS* 5.3 6.3 - - - -
188A ILE* 3.5 49.6 - - + -
256A LYS* 4.0 19.1 - - + +
257A PRO 5.1 0.2 - - - -
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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