Contacts of the helix formed by residues 135 - 151 (chain A) in PDB entry 2X7X
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 ASP 135 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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122A LYS* 5.7 0.7 + - - -
133A GLY 4.2 0.2 + - - -
134A ALA* 1.3 69.6 - - - +
136A ASN* 1.3 62.8 + - - +
137A TYR* 3.0 24.0 + - - +
138A GLU* 3.6 30.2 - - + +
139A ILE* 3.2 26.3 + - - +
171A GLU* 4.2 4.4 - - - +
296A VAL* 4.3 16.7 - - + +
297A MET 3.9 5.7 + - - -
299A THR* 5.5 0.2 - - - +
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Residues in contact with ASN 136 (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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120A ASP 4.0 5.9 + - - -
131A TYR* 5.1 1.2 + - - -
134A ALA 3.2 14.6 + - - -
135A ASP* 1.3 71.8 + - - +
137A TYR* 1.3 65.1 + - - +
139A ILE* 3.4 7.5 + - - +
140A GLY 3.1 17.7 + - - -
167A THR* 5.4 0.6 + - - -
168A PRO* 3.7 27.1 - - + +
171A GLU* 3.6 26.2 + - + +
172A ARG* 2.8 46.9 + - - +
271A TYR* 3.1 28.8 + - - -
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Residues in contact with TYR 137 (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 ASP* 3.0 12.6 + - - +
136A ASN* 1.3 78.1 - - - +
138A GLU* 1.3 68.7 + - + +
140A GLY 3.1 2.3 + - - -
141A ARG* 2.9 46.6 + - - +
171A GLU* 3.6 20.9 + - + +
174A GLN* 3.6 38.8 + - + -
175A GLY* 3.4 27.3 - - - -
178A ALA* 3.3 20.3 - - - +
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Residues in contact with GLU 138 (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 ASP* 3.4 31.0 + - + +
136A ASN 3.4 0.2 - - - -
137A TYR* 1.3 87.7 - - + +
139A ILE* 1.3 57.1 + - + +
141A ARG* 3.3 41.4 + - - +
142A SER* 2.8 35.3 + - - +
299A THR* 5.4 4.9 - - + -
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Residues in contact with ILE 139 (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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134A ALA* 4.5 5.2 - - + -
135A ASP 3.2 20.9 + - - +
136A ASN* 3.6 11.7 - - - +
137A TYR 3.2 0.2 - - - -
138A GLU* 1.3 73.0 - - - +
140A GLY* 1.3 59.4 + - - +
142A SER* 3.2 8.0 + - - -
143A VAL* 2.8 28.9 + - + +
172A ARG* 4.9 1.6 - - + -
247A ILE* 3.8 36.8 - - + -
269A PHE* 4.1 14.4 - - + -
270A ILE 4.3 3.1 - - - +
271A TYR* 3.8 30.3 - - + -
299A THR* 3.6 35.7 - - + +
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Residues in contact with GLY 140 (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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136A ASN 3.1 12.7 + - - -
137A TYR 3.1 3.8 + - - -
139A ILE* 1.3 74.5 - - - +
141A ARG* 1.3 57.1 + - - +
143A VAL* 3.0 4.2 + - - +
144A GLY 2.8 26.7 + - - -
172A ARG* 3.6 12.8 - - - +
175A GLY 4.1 0.2 - - - -
176A PHE* 3.4 15.0 - - - -
219A TYR* 3.6 23.1 + - - -
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Residues in contact with ARG 141 (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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137A TYR* 2.9 38.5 + - - +
138A GLU* 3.3 35.6 + - - +
140A GLY* 1.3 75.2 - - - +
142A SER* 1.3 57.4 + - - +
144A GLY 3.2 0.5 + - - -
145A ASN* 2.9 41.0 + - - +
175A GLY* 3.2 19.1 - - - +
178A ALA* 4.5 10.7 - - - +
179A ALA* 3.4 17.7 - - + +
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Residues in contact with SER 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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138A GLU* 2.8 22.4 + - - +
139A ILE* 3.4 10.3 - - - -
141A ARG* 1.3 75.1 - - - +
143A VAL* 1.3 56.6 + - - +
145A ASN* 3.4 8.9 + - - +
146A TYR* 2.9 30.8 + - - +
269A PHE* 3.5 27.3 - - - -
299A THR* 4.9 6.6 - - - +
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Residues in contact with VAL 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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139A ILE 2.8 21.0 + - - +
140A GLY 3.3 7.4 - - - +
142A SER* 1.3 71.9 - - - +
144A GLY* 1.3 63.9 + - - +
146A TYR* 3.3 2.4 + - - +
147A ILE* 3.1 36.6 + - + +
176A PHE* 4.3 0.4 - - + -
219A TYR* 3.4 54.3 - - + +
245A VAL* 4.3 9.6 - - + -
247A ILE* 4.5 8.1 - - + -
269A PHE* 3.5 31.0 - - + -
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Residues in contact with GLY 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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140A GLY 2.8 12.4 + - - -
141A ARG 3.6 2.9 - - - -
143A VAL* 1.3 78.0 - - - +
145A ASN* 1.3 56.7 + - - +
147A ILE* 3.9 1.3 - - - +
148A ALA* 3.0 30.9 + - - +
176A PHE* 3.6 24.7 - - - -
179A ALA* 4.0 9.6 - - - -
180A ILE* 3.8 14.0 - - - +
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Residues in contact with ASN 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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141A ARG* 2.9 37.7 + - - +
142A SER* 3.9 6.7 - - - +
144A GLY* 1.3 76.1 - - - +
146A TYR* 1.3 63.7 + - - +
148A ALA* 3.4 4.4 + - - +
149A SER* 3.0 26.0 + - - -
179A ALA* 3.6 14.0 - - - +
183A PHE* 4.2 16.4 - - - -
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Residues in contact with TYR 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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142A SER 2.9 18.8 + - - +
143A VAL* 3.8 3.4 - - - +
145A ASN* 1.3 77.6 - - - +
147A ILE* 1.3 59.6 + - - +
149A SER* 3.8 5.8 - - - -
150A SER* 3.0 39.6 + - - -
243A ILE* 4.6 5.4 - - + -
245A VAL* 4.2 20.0 - - + -
266A ASP* 3.6 22.6 + - + +
267A ALA* 3.5 25.4 - - + -
269A PHE* 4.2 10.3 - + + -
301A VAL* 4.2 14.4 - - + -
303A ASP* 3.7 23.8 + - - +
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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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143A VAL* 3.1 34.9 + - + +
144A GLY 4.0 3.1 - - - +
146A TYR* 1.3 76.3 - - + +
148A ALA* 1.3 59.3 + - - +
150A SER* 3.2 4.4 + - - -
151A LEU* 2.8 41.1 + - + +
157A ILE* 3.8 24.5 - - + -
176A PHE* 4.5 9.2 - - + -
186A ILE* 5.4 0.4 - - + -
217A ALA* 3.8 26.5 - - + -
218A VAL 4.8 0.2 - - - +
219A TYR* 4.2 18.4 - - + -
243A ILE* 4.2 4.9 - - + -
245A VAL* 3.9 27.1 - - + -
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Residues in contact with ALA 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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144A GLY 3.0 18.3 + - - +
145A ASN 3.4 3.3 + - - +
147A ILE* 1.3 76.6 - - - +
149A SER* 1.3 59.2 + - - +
151A LEU 3.7 0.2 + - - -
152A LYS 3.2 2.6 + - - -
153A GLY* 2.9 29.5 + - - -
180A ILE* 5.2 2.7 - - + -
183A PHE* 3.7 46.2 - - + -
186A ILE* 4.1 19.7 - - + +
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Residues in contact with SER 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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145A ASN 3.0 17.1 + - - -
146A TYR* 3.8 6.3 - - - -
148A ALA* 1.3 78.0 - - - +
150A SER* 1.3 62.2 + - - +
152A LYS* 3.2 18.0 + - - +
183A PHE* 5.5 0.8 - - - -
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Residues in contact with SER 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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146A TYR* 3.0 31.3 + - - -
147A ILE 3.2 3.8 + - - -
149A SER* 1.3 77.1 + - - +
151A LEU* 1.3 61.3 + - - +
152A LYS* 3.2 8.6 + - - +
243A ILE* 4.0 30.9 - - - +
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Residues in contact with LEU 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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147A ILE* 2.8 37.7 + - + +
150A SER* 1.3 78.8 - - - +
152A LYS* 1.3 73.3 + - - +
153A GLY 3.0 2.2 + - - -
154A LYS* 3.1 22.5 + - - +
155A GLY* 4.0 17.7 - - - -
156A ASN 4.7 0.2 - - - +
157A ILE* 4.7 2.7 - - + -
186A ILE* 4.1 13.5 - - + -
216A ASP* 3.7 42.0 - - + +
217A ALA* 4.2 6.7 - - + -
243A ILE* 4.6 12.8 - - + -
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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