Contacts of the strand formed by residues 148 - 167 (chain B) in PDB entry 5I7L
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 ALA 148 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100A PRO* 6.1 2.2 - - + -
142B ASN* 3.5 7.0 - - - +
143B THR* 2.9 45.0 + - + +
146B VAL* 4.5 10.3 - - + +
147B GLY* 1.3 79.2 - - - +
149B SER* 1.3 60.9 + - - +
150B LEU* 4.8 0.4 - - + -
195B LEU* 4.3 26.7 - - + -
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Residues in contact with SER 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B GLN* 3.4 13.9 - - - -
142B ASN* 3.0 21.3 - - - -
148B ALA* 1.3 73.3 - - - +
150B LEU* 1.3 64.8 + - - +
151B LEU 3.8 0.2 - - - -
194B GLY* 4.6 0.7 - - - -
195B LEU* 3.5 26.0 + - - +
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Residues in contact with LEU 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A THR* 4.0 27.6 - - + +
99A ILE* 3.9 24.7 - - + -
100A PRO* 4.8 4.5 - - + -
105B ILE 5.3 0.2 - - - +
106B ILE* 6.0 2.9 - - + -
141B VAL* 2.7 23.2 + - + +
142B ASN 4.7 3.6 - - - +
143B THR* 3.8 35.2 - - + +
148B ALA* 3.9 0.9 + - + -
149B SER* 1.3 73.6 - - - +
151B LEU* 1.3 71.2 + - + +
194B GLY* 3.2 4.2 - - - -
195B LEU* 2.9 42.7 + - + -
199B PRO* 3.6 8.2 - - + +
203B LEU* 4.1 15.5 - - + -
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Residues in contact with LEU 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140B GLN* 3.0 9.4 + - - -
141B VAL* 2.8 38.0 + - + -
149B SER 5.4 0.2 - - - -
150B LEU* 1.3 89.3 - - + +
152B ARG* 1.3 61.4 + - - +
153B LEU* 4.5 8.1 - - + -
191B LEU* 4.4 11.0 - - + -
193B ASP 3.7 4.7 - - - +
194B GLY* 4.9 0.4 - - - -
199B PRO* 3.9 27.6 - - + +
200B ILE* 4.0 16.6 - - + +
203B LEU* 4.2 10.5 - - + -
204B LEU* 4.0 31.9 - - + +
207B LEU* 3.6 28.3 - - + -
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Residues in contact with ARG 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111B THR* 5.7 4.2 - - - +
112B ASP* 5.5 1.2 + - - -
138B LYS* 3.3 33.2 - - + +
139B LEU 3.4 8.7 - - - +
140B GLN* 3.1 24.5 - - + +
151B LEU* 1.3 73.9 - - - +
153B LEU* 1.3 64.6 + - - +
191B LEU* 3.8 2.4 - - - +
192B LEU* 2.8 55.0 + - + +
193B ASP* 2.9 37.5 + - + +
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Residues in contact with LEU 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138B LYS* 3.2 10.0 - - - +
139B LEU* 2.8 49.1 + - + +
141B VAL* 4.7 3.1 - - + -
151B LEU* 4.5 8.1 - - + -
152B ARG* 1.3 81.3 - - - +
154B ALA* 1.3 60.3 - - - +
155B VAL* 4.7 1.8 - - + -
189B ILE* 3.7 24.0 - - + -
190B SER 3.3 13.5 - - - +
191B LEU* 4.0 11.7 - - + -
192B LEU* 3.6 5.8 - - - +
204B LEU* 3.6 28.3 - - + -
207B LEU* 4.5 18.6 - - + -
208B THR* 5.7 1.1 - - - +
211B LEU* 4.1 20.9 - - + -
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Residues in contact with ALA 154 (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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137B ILE 3.7 3.8 - - - +
138B LYS* 4.3 9.9 - - - +
153B LEU* 1.3 73.5 - - - +
155B VAL* 1.3 61.1 + - - +
156B LYS* 5.6 8.1 - - + -
188B GLN 3.2 4.9 - - - +
189B ILE* 3.3 2.4 - - - +
190B SER* 2.9 45.2 + - - +
192B LEU* 3.7 28.6 - - + +
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Residues in contact with VAL 155 (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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135B LEU 3.8 0.3 - - - +
136B GLY* 3.2 6.2 - - - -
137B ILE* 2.7 51.7 + - + +
139B LEU* 3.8 35.9 - - + -
153B LEU* 4.7 4.5 - - + +
154B ALA* 1.3 80.1 - - - +
156B LYS* 1.3 68.0 + - - +
157B LEU* 5.4 2.2 - - + -
187B LEU* 3.7 28.0 - - + -
188B GLN 3.4 3.6 - - - +
189B ILE* 4.3 10.8 - - + -
211B LEU* 5.3 0.2 - - + -
215B LEU* 3.7 16.8 - - + -
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Residues in contact with LYS 156 (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 GLN* 3.1 25.7 + - - -
116B LEU* 4.3 22.9 - - + +
135B LEU 3.4 9.6 - - - +
136B GLY* 4.0 7.9 - - - -
138B LYS* 5.8 3.6 - - - +
154B ALA* 5.6 7.6 - - + -
155B VAL* 1.3 80.0 + - - +
157B LEU* 1.3 62.2 + - - +
158B ASP* 5.9 0.9 - - - +
186B SER 3.1 6.5 - - - +
187B LEU* 3.2 5.7 - - - +
188B GLN* 2.9 61.2 + - + +
190B SER* 5.8 1.3 - - - +
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Residues in contact with LEU 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133B ILE 3.6 0.9 - - - +
135B LEU* 2.9 41.3 + - + +
155B VAL* 5.4 2.2 - - + -
156B LYS* 1.3 76.6 - - - +
158B ASP* 1.3 67.1 + - - +
159B ILE* 4.2 7.6 - - + -
182B HIS* 3.8 22.7 - - + -
186B SER* 3.6 20.8 + - - +
187B LEU* 4.0 28.7 - - + +
215B LEU* 4.7 1.8 - - + +
216B PRO* 4.2 13.7 - - + -
219B VAL* 3.5 45.5 - - + -
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Residues in contact with ASP 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132B THR* 3.9 25.2 - - + +
133B ILE 3.3 2.7 - - - -
134B PRO* 3.2 24.6 - - - +
156B LYS* 5.9 0.7 - - - +
157B LEU* 1.3 74.8 + - - +
159B ILE* 1.3 64.7 + - - +
182B HIS* 3.4 6.9 - - - +
183B SER* 2.8 36.0 + - - -
186B SER* 3.0 30.1 + - - +
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Residues in contact with ILE 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131B VAL 3.5 1.6 - - - +
132B THR* 3.3 2.3 - - - -
133B ILE* 2.7 58.3 + - + +
135B LEU* 3.5 22.4 - - + -
157B LEU* 4.2 2.5 - - + -
158B ASP* 1.3 79.0 - - - +
160B THR* 1.3 63.1 + - - +
161B ALA* 4.9 0.7 - - + +
180B CYS* 3.7 30.1 - - - -
181B THR 3.6 3.8 - - - +
182B HIS* 3.8 20.4 - - + -
219B VAL* 3.9 20.6 - - + -
220B GLN* 4.2 13.0 - - - -
223B VAL* 4.4 13.2 - - + -
224B CYS* 4.3 2.2 - - - -
227B VAL* 5.4 0.2 - - + -
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Residues in contact with THR 160 (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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130B TYR* 4.8 14.1 - - + -
131B VAL 3.3 8.7 - - - +
132B THR* 3.4 19.4 + - - +
158B ASP 3.9 1.8 + - - -
159B ILE* 1.3 74.5 - - - +
161B ALA* 1.3 70.7 + - - +
179B ASP 3.7 1.7 - - - +
180B CYS* 3.6 0.9 - - - -
181B THR* 3.0 37.2 + - - +
183B SER* 3.7 24.8 + - - +
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Residues in contact with ALA 161 (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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130B TYR* 3.4 3.3 - - - +
131B VAL* 2.9 44.9 + - + +
133B ILE* 5.9 0.9 - - + -
159B ILE* 4.1 2.9 + - + +
160B THR* 1.3 80.9 - - - +
162B GLU* 1.3 60.8 + - - +
177B LEU* 3.4 30.5 - - + -
179B ASP 3.3 6.5 - - - +
180B CYS* 3.8 14.4 - - - -
227B VAL* 5.0 3.1 - - + -
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Residues in contact with GLU 162 (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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128B ARG* 3.0 35.2 - - + +
129B LEU 3.4 7.6 - - - +
130B TYR* 3.6 28.1 + - + -
161B ALA* 1.3 74.6 - - - +
163B ILE* 1.3 62.1 + - - +
164B LEU* 3.7 26.5 - - + +
177B LEU* 3.7 4.9 - - - +
178B GLY* 2.7 27.4 + - - -
179B ASP* 3.2 30.8 + - + +
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Residues in contact with ILE 163 (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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51B LEU* 4.8 4.5 - - + -
55B LEU* 4.3 11.4 - - + -
120B LEU* 5.1 0.4 - - + -
128B ARG* 5.0 0.9 - - - -
129B LEU* 2.7 56.7 + - + +
131B VAL* 3.8 32.8 - - + -
161B ALA 4.4 0.2 - - - +
162B GLU* 1.3 77.2 - - - +
164B LEU* 1.3 69.5 + - - +
165B ALA 4.3 0.3 + - - -
175B LEU* 3.7 32.1 - - + -
176B VAL 3.8 2.5 - - - +
177B LEU* 5.2 2.2 - - + -
227B VAL* 6.1 1.1 - - + -
231B LEU* 3.9 36.1 - - + -
246B LEU* 5.0 5.0 - - - +
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Residues in contact with LEU 164 (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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128B ARG* 5.1 5.4 - - + -
162B GLU* 3.7 30.5 - - + +
163B ILE* 1.3 81.1 - - - +
165B ALA* 1.3 66.7 + - - +
166B VAL* 3.5 6.1 + - + -
174B HIS 3.4 1.4 - - - +
175B LEU* 3.5 5.0 - - - -
176B VAL* 2.7 51.7 + - + +
177B LEU 4.7 2.0 - - - +
178B GLY* 3.7 28.5 - - - -
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Residues in contact with ALA 165 (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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163B ILE 4.3 0.6 + - - -
164B LEU* 1.3 72.4 - - - +
166B VAL* 1.3 63.8 + - - +
173B ILE* 5.2 3.1 - - + -
174B HIS 3.3 6.7 - - - -
175B LEU* 4.1 6.2 - - + +
243B VAL* 4.1 33.4 - - + +
246B LEU* 4.6 15.8 - - + +
247B ILE* 5.8 2.7 - - + -
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Residues in contact with VAL 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164B LEU* 4.4 9.4 - - + +
165B ALA* 1.3 79.3 - - - +
167B ARG* 1.3 64.6 + - - +
168B ASP* 5.1 1.6 - - + +
172B ARG 4.0 0.3 - - - +
173B ILE* 3.4 7.3 - - - +
174B HIS* 2.8 60.4 + - + +
176B VAL* 3.5 34.3 - - + -
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Residues in contact with ARG 167 (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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166B VAL* 1.3 77.1 - - - +
168B ASP* 1.3 68.1 + - - +
169B LYS* 3.7 4.3 + - - +
171B GLU* 2.9 62.7 + - - +
172B ARG* 2.7 35.8 + - - +
173B ILE* 3.6 20.5 - - + +
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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