Contacts of the helix formed by residues 150 - 171 (chain B) in PDB entry 1XLB
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 LEU 150 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142B SER* 5.7 2.5 - - - +
145B ASP* 4.8 13.9 - - + +
148B LYS* 3.6 17.4 + - + +
149B ASP* 1.3 73.3 + - - +
151B ALA* 1.3 57.9 + - - +
153B ALA* 3.7 4.8 + - - +
154B LEU* 3.4 29.5 + - - +
191B PHE* 3.6 31.5 - - + -
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Residues in contact with ALA 151 (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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149B ASP* 3.2 8.3 + - - +
150B LEU* 1.3 70.6 - - - +
152B ALA* 1.3 59.6 + - - +
154B LEU* 3.3 11.2 + - - +
155B ASP* 2.9 35.1 + - - +
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Residues in contact with ALA 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149B ASP* 3.0 31.3 + - + +
151B ALA* 1.3 71.2 - - - +
153B ALA* 1.3 55.5 + - - +
155B ASP* 3.1 10.7 + - - +
156B ARG* 2.6 54.3 + - + +
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Residues in contact with ALA 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104B THR* 3.2 15.5 - - + +
148B LYS* 4.8 6.3 - - + -
149B ASP 2.9 16.0 + - - +
150B LEU* 3.8 7.0 - - - +
151B ALA 3.3 0.2 - - - -
152B ALA* 1.3 73.0 - - - +
154B LEU* 1.3 52.2 + - + +
156B ARG* 3.3 4.1 + - - +
157B MET* 2.8 36.4 + - - +
191B PHE* 3.5 42.4 - - + -
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Residues in contact with LEU 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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150B LEU* 3.4 18.4 + - + +
151B ALA* 3.3 10.6 + - - +
153B ALA* 1.3 71.4 - - + +
155B ASP* 1.3 58.1 + - - +
157B MET* 3.3 8.0 + - + +
158B ARG* 2.8 31.5 + - - +
191B PHE* 4.8 18.4 - - + -
192B LEU* 4.3 23.8 - - + +
201B PHE* 3.9 15.5 - - + -
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Residues in contact with ASP 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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151B ALA* 2.9 24.4 + - - +
152B ALA* 3.1 10.5 + - - +
154B LEU* 1.3 73.6 - - - +
156B ARG* 1.3 79.5 + - - +
158B ARG* 3.1 33.5 + - - +
159B GLU* 2.9 30.0 + - - +
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Residues in contact with ARG 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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103B PHE* 3.6 25.0 - - - +
104B THR* 4.4 5.8 - - - -
111B ARG* 3.6 36.6 - - - +
152B ALA* 2.6 35.8 + - + +
153B ALA* 3.7 5.6 - - - +
155B ASP* 1.3 98.5 + - - +
157B MET* 1.3 59.7 + - - +
159B GLU* 2.6 36.3 + - - +
160B GLY* 3.1 19.4 + - - -
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Residues in contact with MET 157 (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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103B PHE* 4.2 21.4 - - - -
104B THR* 3.7 16.3 - - + +
137B GLY* 5.4 4.3 - - - +
140B GLU* 3.7 33.0 - - + -
153B ALA 2.8 20.7 + - - +
154B LEU* 3.5 10.5 - - + +
156B ARG* 1.3 68.1 - - - +
158B ARG* 1.3 65.6 + - - +
160B GLY* 3.4 1.2 + - - -
161B VAL* 3.1 32.0 + - + +
191B PHE* 4.3 18.8 - - + +
192B LEU* 4.6 17.7 - - + -
201B PHE* 3.5 22.9 - - + -
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Residues in contact with ARG 158 (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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154B LEU 2.8 16.9 + - - +
155B ASP* 3.1 32.5 + - - +
157B MET* 1.3 76.5 - - - +
159B GLU* 1.3 58.7 + - - +
161B VAL* 3.7 0.5 - - - +
162B ASP* 2.8 46.2 + - + +
201B PHE* 3.5 18.3 - - + -
204B GLN* 3.1 46.5 + - - +
205B LEU* 3.7 12.2 - - + +
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Residues in contact with GLU 159 (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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115B LEU* 5.6 5.6 - - + -
155B ASP 2.9 14.9 + - - +
156B ARG* 2.6 47.5 + - - +
158B ARG* 1.3 77.6 - - - +
160B GLY* 1.4 60.2 + - - +
162B ASP* 3.9 2.8 - - - +
163B THR* 2.7 41.1 + - - +
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Residues in contact with GLY 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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103B PHE* 3.7 29.6 - - - -
115B LEU* 3.6 25.1 - - - +
156B ARG 3.1 9.5 + - - -
158B ARG 3.3 0.2 - - - -
159B GLU* 1.4 81.4 - - - +
161B VAL* 1.3 55.2 + - - +
163B THR 3.3 0.2 + - - -
164B ALA* 3.0 26.5 + - - +
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Residues in contact with VAL 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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103B PHE* 3.8 10.8 - - + -
135B MET* 3.8 27.1 - - - -
157B MET* 3.1 26.2 + - - +
158B ARG 4.0 1.6 - - - +
160B GLY* 1.3 74.3 - - - +
162B ASP* 1.3 55.7 + - - +
164B ALA* 3.4 4.7 + - - +
165B ALA* 3.0 25.1 + - - +
177B ILE* 4.0 4.6 - - + +
179B LEU* 4.1 14.8 - - + -
201B PHE* 4.5 8.7 - - + -
205B LEU* 3.9 29.8 - - + -
211B VAL* 4.3 17.5 - - + -
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Residues in contact with ASP 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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158B ARG* 2.8 30.0 + - + +
159B GLU* 4.3 3.4 - - - +
161B VAL* 1.3 69.3 - - - +
163B THR* 1.3 60.5 + - - +
165B ALA* 4.3 2.1 - - - +
166B GLY* 3.0 23.7 + - - -
205B LEU* 3.7 15.8 - - - +
206B GLU* 2.7 37.8 + - - +
207B HIS* 2.7 44.9 + - + +
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Residues in contact with THR 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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115B LEU* 4.2 24.9 - - + +
119B LEU* 4.4 13.5 - - + -
159B GLU* 2.7 31.7 + - - +
160B GLY 3.7 3.6 - - - -
162B ASP* 1.3 75.7 - - - +
164B ALA* 1.3 63.4 + - - +
166B GLY* 3.5 1.3 + - - -
167B TYR* 3.1 22.7 + - + +
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Residues in contact with ALA 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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115B LEU* 4.9 0.9 - - + -
118B VAL* 4.1 9.9 - - + -
119B LEU* 3.9 13.6 - - + +
122B ILE* 3.7 16.2 - - + +
135B MET* 3.6 26.7 - - + -
160B GLY 3.0 12.0 + - - +
161B VAL 3.6 8.3 - - - +
163B THR* 1.3 76.5 - - - +
165B ALA* 1.3 54.2 + - - +
167B TYR* 3.5 5.2 + - - +
168B ILE* 3.2 29.1 + - - +
177B ILE* 4.2 3.1 - - + -
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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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161B VAL 3.0 18.6 + - - +
162B ASP* 4.0 2.7 - - - +
163B THR 3.4 0.4 - - - -
164B ALA* 1.3 70.2 - - - +
166B GLY* 1.3 63.7 + - - +
168B ILE* 3.1 14.5 + - - +
169B LYS* 3.1 17.0 + - - +
177B ILE* 3.7 18.5 - - + +
207B HIS* 3.5 26.7 - - + -
210B ILE* 3.6 17.6 - - + +
211B VAL* 4.3 7.0 - - + -
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Residues in contact with GLY 166 (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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162B ASP 3.0 17.5 + - - -
163B THR 3.9 1.6 - - - -
165B ALA* 1.3 72.1 - - - +
167B TYR* 1.3 50.7 + - - +
169B LYS* 3.3 6.3 + - - +
170B ASP* 2.8 43.9 + - - +
207B HIS* 3.9 21.9 - - - -
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Residues in contact with TYR 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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119B LEU* 3.7 44.1 + - + -
122B ILE* 4.0 19.3 - - + -
123B ASP* 2.4 41.1 + - - -
163B THR* 3.1 18.4 + - + +
164B ALA 3.5 4.7 - - - +
166B GLY* 1.3 75.4 - - - +
168B ILE* 1.3 58.7 + - - +
170B ASP* 3.9 9.3 + - + +
171B LYS* 3.2 50.5 + - + +
173B TYR* 4.1 4.0 - + - -
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Residues in contact with ILE 168 (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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122B ILE* 3.6 28.0 - - + -
133B PHE* 5.0 2.2 - - + -
164B ALA 3.2 13.4 + - - +
165B ALA 3.1 9.4 + - - +
167B TYR* 1.3 71.7 - - - +
169B LYS* 1.3 68.6 + - + +
171B LYS 3.3 1.0 + - - -
172B GLY* 2.9 20.6 + - - -
173B TYR* 3.1 34.5 + - + +
175B LEU* 3.4 50.0 - - + +
177B ILE* 3.9 29.6 - - + -
210B ILE* 3.8 10.3 - - + -
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Residues in contact with LYS 169 (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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165B ALA 3.1 13.2 + - - +
166B GLY* 3.4 8.1 - - - +
168B ILE* 1.3 78.7 - - + +
170B ASP* 1.3 62.1 + - - +
172B GLY* 3.1 11.7 + - - -
173B TYR 5.8 0.2 - - - -
206B GLU 5.0 1.4 + - - -
207B HIS* 3.1 36.8 + - + +
209B ASP* 2.7 40.7 + - - -
210B ILE* 4.0 24.9 - - + -
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Residues in contact with ASP 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
166B GLY* 2.8 27.2 + - - +
167B TYR* 3.9 12.4 + - + +
169B LYS* 1.3 72.7 - - - +
171B LYS* 1.3 61.2 + - + +
172B GLY 3.7 0.2 + - - -
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Residues in contact with LYS 171 (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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123B ASP* 5.0 0.8 + - - -
167B TYR* 3.2 53.3 + - + +
170B ASP* 1.3 77.2 - - + +
172B GLY* 1.3 60.7 + - - +
173B TYR* 3.3 47.7 + - + -
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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
------------------------------------------------------------
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