Contacts of the helix formed by residues 147 - 165 (chain B) in PDB entry 1W98
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 HIS 147 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A ARG* 3.7 37.0 + - - +
141B CYS* 5.0 0.2 - - - -
145B LYS 4.9 1.8 - - - -
146B LEU* 1.3 76.5 - - - +
148B ARG* 1.3 60.8 + - - +
149B GLU* 4.2 5.2 - - + +
150B THR* 2.8 25.7 + - + +
151B PHE 3.2 8.5 + - - -
189B GLU* 2.8 38.9 + - - +
341B ASP* 2.5 28.7 + - - -
344B ASN* 3.2 35.7 - - + +
345B ILE* 3.8 11.3 - - + +
346B GLN* 4.1 2.8 - - - +
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Residues in contact with ARG 148 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147B HIS* 1.3 70.5 - - - +
149B GLU* 1.3 62.6 + - - +
151B PHE* 3.1 2.4 + - - +
152B TYR* 2.9 30.1 + - + -
232B VAL* 3.9 19.0 - - + +
260B PHE* 3.6 19.3 - - - -
261B ILE* 3.4 24.5 + - - +
264B ALA* 3.7 27.1 - - - +
265B GLU* 5.0 2.6 - - - +
268B ASP* 4.1 12.9 + - - -
342B ALA 4.9 0.2 + - - -
343B HIS* 2.7 36.9 + - - +
344B ASN* 2.9 24.3 + - - +
345B ILE 3.0 17.4 + - - -
346B GLN* 3.3 27.9 + - - +
347B THR* 3.2 27.5 + - - +
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Residues in contact with GLU 149 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
157A ARG* 4.4 9.2 - - - +
147B HIS* 4.2 2.2 - - + +
148B ARG* 1.3 79.0 - - - +
150B THR* 1.3 56.2 + - - +
153B LEU* 2.9 44.7 + - + +
188B GLU* 3.4 36.2 - - + +
228B PRO 4.6 4.9 - - - +
230B THR* 2.8 35.4 + - - +
232B VAL* 3.5 12.1 - - + +
233B SER* 3.9 14.4 - - - -
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Residues in contact with THR 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146B LEU* 4.1 9.4 - - - +
147B HIS* 2.8 17.2 + - + +
149B GLU* 1.3 74.6 - - - +
151B PHE* 1.3 64.4 + - - +
153B LEU* 4.5 0.7 - - - -
154B ALA* 3.2 20.3 + - - +
181B LEU* 3.8 15.8 - - - +
184B ALA* 3.5 17.3 - - - +
185B ALA* 3.9 10.6 + - - -
188B GLU* 3.5 30.3 - - + -
189B GLU* 2.6 35.2 + - + +
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Residues in contact with PHE 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134B LEU* 3.4 35.2 - - + -
137B LEU* 4.0 15.7 - - + -
138B MET* 3.5 39.5 - - + -
141B CYS* 3.8 19.3 - - - -
147B HIS 3.2 5.6 + - - +
148B ARG 3.1 2.3 + - - +
150B THR* 1.3 75.3 + - - +
152B TYR* 1.3 94.6 + + - +
154B ALA* 3.1 6.7 + - + +
155B GLN* 2.9 42.3 + - + +
271B VAL* 4.3 8.3 - - + -
346B GLN* 3.5 26.7 - - + +
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Residues in contact with TYR 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148B ARG* 2.9 27.1 + - + +
149B GLU 4.1 0.4 - - - +
151B PHE* 1.3 89.4 - + - +
153B LEU* 1.3 57.2 + - - +
155B GLN* 3.4 21.4 - - - +
156B ASP* 3.0 29.3 + - - +
230B THR* 3.5 25.8 - - + +
231B ILE* 3.7 28.7 - - + -
232B VAL* 3.6 29.4 - - + -
264B ALA* 6.2 0.9 - - + -
267B LEU* 3.2 12.0 - - + +
268B ASP* 2.7 48.6 + - - -
271B VAL* 3.4 24.6 - - + +
346B GLN* 4.4 3.6 - - - -
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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
----------------------------------------------------------
149B GLU* 2.9 31.5 + - - +
150B THR* 3.8 0.4 - - - +
151B PHE 3.3 0.2 - - - -
152B TYR* 1.3 75.2 - - - +
154B ALA* 1.3 53.3 + - - +
156B ASP* 3.1 3.5 + - - +
157B PHE* 2.7 49.2 + - + -
184B ALA* 3.6 23.8 - - + +
187B LEU* 4.5 13.7 - - + -
188B GLU* 4.0 33.9 - - + +
226B LEU 4.4 2.9 - - - +
227B SER* 5.5 0.7 - - - -
228B PRO* 3.9 26.7 - - + +
230B THR* 3.6 20.4 - - + +
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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
----------------------------------------------------------
137B LEU* 4.7 12.1 - - + +
150B THR 3.2 10.2 + - - +
151B PHE* 3.1 10.2 + - + +
153B LEU* 1.3 77.1 - - - +
155B GLN* 1.3 57.0 + - - +
157B PHE* 4.4 0.7 - - - -
158B PHE* 2.9 33.1 + - - +
180B SER* 3.6 17.3 - - - +
181B LEU* 3.7 38.4 - - + +
184B ALA* 3.8 0.8 - - + +
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Residues in contact with GLN 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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130B ARG* 4.4 0.4 - - - +
134B LEU* 4.0 25.1 - - + -
137B LEU* 5.4 0.2 - - - +
151B PHE* 2.9 33.3 + - + +
152B TYR* 3.4 31.3 - - + +
154B ALA* 1.3 76.2 - - - +
156B ASP* 1.3 56.7 + - - +
158B PHE* 3.4 2.1 + - - +
159B ASP* 2.7 55.6 + - - +
231B ILE* 4.0 4.9 + - - +
271B VAL* 3.7 29.3 - - + +
277B LEU* 4.5 3.0 - - - +
281B TYR* 3.2 28.8 + - - -
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Residues in contact with ASP 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B ARG* 2.7 35.5 + - - -
152B TYR 3.0 17.1 + - - +
153B LEU 3.5 3.8 - - - +
155B GLN* 1.3 83.9 - - - +
157B PHE* 1.3 64.7 + - - +
159B ASP* 3.4 1.1 + - - +
160B ARG* 3.0 56.5 + - - +
228B PRO* 3.0 22.5 - - + +
230B THR* 5.1 0.7 - - + -
281B TYR* 2.8 20.3 + - + +
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Residues in contact with PHE 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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153B LEU* 2.7 32.0 + - + +
154B ALA 3.8 3.6 - - - +
156B ASP* 1.3 71.7 - - - +
158B PHE* 1.3 57.5 + - - +
160B ARG* 4.0 12.1 - - - +
161B TYR* 2.8 34.6 + - - +
180B SER* 3.7 28.5 - - - +
183B ILE* 3.6 30.3 - - + -
184B ALA* 4.0 13.0 - - + -
187B LEU* 3.6 15.3 - - + -
218B ILE* 4.5 4.0 - - + -
222B LEU* 4.1 20.5 - - + +
226B LEU* 3.5 43.5 - - + -
228B PRO* 4.0 13.0 - - + -
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Residues in contact with PHE 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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118B PHE* 4.4 4.0 - + - -
119B LEU* 6.0 1.6 - - + -
125B LEU* 6.0 0.2 - - + -
130B ARG* 3.9 26.2 - - + -
133B LEU* 3.5 32.1 - - + -
134B LEU* 4.1 14.6 - - + -
137B LEU* 5.7 2.0 - - + -
154B ALA 2.9 19.0 + - - +
155B GLN* 3.5 4.3 - - - +
157B PHE* 1.3 78.1 - - - +
159B ASP* 1.3 81.4 + - - +
161B TYR* 3.8 2.9 - - - +
162B MET* 3.0 62.8 + - + +
173B LEU* 4.4 14.1 - - + -
176B ILE* 3.7 24.9 - - + -
177B GLY* 4.6 4.3 - - - -
180B SER* 3.7 11.1 + - - +
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Residues in contact with ASP 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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114B ARG* 6.1 2.7 - - + -
118B PHE* 3.5 20.2 - - + -
130B ARG* 2.8 40.3 + - - -
134B LEU* 4.7 0.5 - - - +
155B GLN* 2.7 45.9 + - - +
156B ASP* 4.1 2.5 - - - +
158B PHE* 1.3 87.6 - - - +
160B ARG* 1.3 63.8 + - + +
162B MET* 3.5 3.5 + - - +
163B ALA* 3.3 18.9 + - - +
277B LEU* 3.8 17.0 - - + +
281B TYR* 5.1 2.2 - - - +
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Residues in contact with ARG 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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111B THR 5.9 0.2 + - - -
112B TYR* 3.5 27.6 - - - +
113B LEU 3.5 24.0 + - - +
114B ARG* 3.5 17.7 - - - +
156B ASP* 3.0 48.9 + - - +
157B PHE* 4.0 17.7 - - - +
159B ASP* 1.3 75.8 - - + +
161B TYR* 1.3 65.5 + - - +
163B ALA* 3.4 14.8 + - - +
164B THR* 3.5 16.6 + - - +
222B LEU* 3.7 29.9 + - + +
225B ARG* 2.6 39.0 + - - +
228B PRO* 4.3 0.4 - - - +
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Residues in contact with TYR 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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157B PHE 2.8 24.8 + - - +
158B PHE* 3.8 3.1 - - - +
160B ARG* 1.3 72.2 - - - +
162B MET* 1.3 63.2 + - - +
164B THR* 2.6 30.8 + - - -
165B GLN* 3.3 41.2 + - + +
168B VAL* 5.7 1.1 - - + -
176B ILE* 3.7 37.5 - - + -
214B MET* 4.3 7.7 - - + +
217B MET* 3.4 34.9 - - - +
218B ILE* 3.7 30.1 - - + -
221B ALA* 3.6 32.1 - - + -
222B LEU* 3.6 10.7 - - + +
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Residues in contact with MET 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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118B PHE* 3.4 25.4 - - + -
119B LEU* 4.6 0.4 - - + -
121B GLN* 3.4 0.7 - - - +
122B HIS* 3.0 38.0 + - + +
125B LEU* 3.5 33.0 - - + -
158B PHE* 3.0 42.2 + - + +
159B ASP 3.8 0.7 - - - +
160B ARG 3.4 0.2 - - - -
161B TYR* 1.3 80.3 - - + +
163B ALA* 1.3 55.9 + - - +
165B GLN* 3.0 19.7 + - - +
168B VAL* 4.0 20.9 - - + -
173B LEU* 4.1 6.7 - - + -
176B ILE* 4.0 19.3 - - - -
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Residues in contact with ALA 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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113B LEU 6.1 1.1 - - - +
115B ASP* 4.9 11.9 - - + +
118B PHE* 4.1 19.4 - - + -
121B GLN* 3.0 27.0 + - - +
159B ASP 3.3 11.2 + - - +
160B ARG* 3.6 12.1 - - - +
161B TYR 3.2 0.8 - - - -
162B MET* 1.3 77.9 - - - +
164B THR* 1.3 60.2 + - + +
165B GLN 3.2 0.2 - - - -
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Residues in contact with THR 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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121B GLN* 4.8 0.2 - - - -
160B ARG 3.5 14.4 - - - +
161B TYR* 2.6 20.5 + - - -
163B ALA* 1.3 76.8 - - + +
165B GLN* 1.3 74.7 + - - +
166B GLU* 5.1 3.9 - - - +
221B ALA* 3.7 34.1 - - - +
222B LEU* 4.8 3.1 - - + -
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Residues in contact with GLN 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B GLN* 2.7 27.0 - - - +
122B HIS* 3.2 15.8 + - + -
161B TYR* 3.4 55.0 + - + +
162B MET* 3.0 14.7 + - - +
164B THR* 1.3 98.3 + - - +
166B GLU* 1.3 63.9 + - - +
168B VAL* 4.3 10.0 - - + +
217B MET* 5.5 2.4 - - - +
221B ALA* 4.4 4.3 - - - +
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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