Contacts of the helix formed by residues 200 - 217 (chain A) in PDB entry 4IW0
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 200 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127A ARG* 3.9 13.5 - - - +
132A VAL* 4.3 20.4 - - + -
164A LEU* 5.1 3.8 - - + +
165A GLU 5.8 1.8 - - - +
166A ASP 5.5 3.4 - - - +
168A GLU 5.3 0.4 + - - -
199A GLY* 1.3 70.8 - - - -
201A THR* 1.3 63.4 + - - +
202A VAL* 3.2 4.2 + - - -
203A ASP* 3.5 17.8 + - - +
204A LEU 4.3 0.9 + - - -
295A PHE* 3.2 41.2 - - + -
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Residues in contact with THR 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
181A HIS* 4.1 14.6 + - - -
199A GLY* 4.5 8.4 + - - -
200A ALA* 1.3 78.7 - - - +
202A VAL* 1.3 68.5 + - - +
203A ASP 3.2 1.3 - - - -
204A LEU* 3.2 22.0 + - + +
205A TRP* 3.5 7.8 + - - +
284A ILE 5.7 0.3 - - - +
289A GLN* 4.3 29.6 + - + +
292A CYS* 4.3 26.5 - - + -
293A TRP 4.6 7.0 - - - +
294A GLY* 6.0 0.9 - - - -
295A PHE* 5.3 2.2 - - + -
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Residues in contact with VAL 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A VAL* 6.4 0.7 - - + -
134A ARG* 4.7 8.9 - - + -
170A PHE* 4.1 14.1 - - + -
181A HIS* 3.9 27.4 + - + +
184A MET* 3.6 36.3 - - + -
198A TYR* 4.0 15.7 - - + -
199A GLY 3.5 18.2 - - - +
200A ALA* 4.5 1.6 - - - -
201A THR* 1.3 81.1 - - - +
203A ASP* 1.3 75.7 + - - +
205A TRP* 3.6 3.8 + - - +
206A SER* 3.3 23.0 + - - -
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Residues in contact with ASP 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A MET* 4.2 19.0 - - + +
132A VAL* 3.7 29.8 - - - +
133A HIS 3.8 3.8 + - - -
134A ARG* 3.2 31.1 + - - +
136A ILE* 3.6 21.2 - - + +
200A ALA* 3.5 14.1 + - - +
201A THR 3.2 0.4 - - - -
202A VAL* 1.3 85.5 - - - +
204A LEU* 1.3 57.1 + - - +
206A SER* 3.3 2.9 + - - -
207A ILE* 3.0 33.2 + - + +
295A PHE* 4.8 5.1 - - + -
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Residues in contact with LEU 204 (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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123A MET* 5.4 0.2 - - + -
200A ALA 4.5 0.4 - - - +
201A THR* 3.2 16.6 + - + +
203A ASP* 1.3 77.2 - - - +
205A TRP* 1.3 56.4 + - - +
207A ILE* 3.5 20.5 + - + +
208A GLY* 2.9 23.2 + - - -
284A ILE* 4.2 27.3 - - + +
292A CYS* 5.2 4.0 - - - -
293A TRP 3.7 24.2 - - - +
294A GLY* 4.4 9.0 - - - -
295A PHE* 3.8 42.2 - - + +
298A PHE* 4.1 32.9 - - + -
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Residues in contact with TRP 205 (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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178A GLU 4.8 1.6 + - - -
179A TYR 4.2 2.9 - - - -
180A LEU 3.0 32.4 + - - +
181A HIS* 3.5 26.7 - + + -
182A PRO* 3.5 35.2 - - + -
201A THR 3.5 3.4 + - - +
202A VAL 4.0 4.7 - - - +
203A ASP 3.2 0.6 - - - -
204A LEU* 1.3 77.2 - - - +
206A SER* 1.3 60.2 + - - +
207A ILE 3.1 0.2 - - - -
208A GLY* 3.1 1.6 + - - +
209A VAL* 3.0 45.4 + - + +
221A PHE* 3.7 35.7 - + - -
234A MET* 6.1 1.0 - - - +
238A ILE* 3.9 18.2 - - + -
241A LYS* 5.5 2.5 - - + -
284A ILE 4.1 5.5 + - - +
285A LEU* 3.4 28.8 - - + +
286A GLU* 3.2 31.2 - - - -
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Residues in contact with SER 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ARG* 5.6 2.9 - - - -
135A ASN* 5.6 1.6 + - - -
136A ILE* 3.6 34.3 + - - +
179A TYR* 2.6 32.0 + - - +
180A LEU* 4.8 2.4 - - - +
181A HIS 5.2 0.5 + - - -
202A VAL 3.3 11.8 + - - -
203A ASP* 3.3 9.9 + - - -
205A TRP* 1.3 78.7 - - - +
207A ILE* 1.3 55.3 + - - +
209A VAL* 4.9 0.2 - - - -
210A THR* 2.6 33.6 + - - -
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Residues in contact with ILE 207 (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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119A VAL* 4.4 13.0 - - + -
120A VAL* 6.4 0.2 - - - -
123A MET* 4.1 37.5 - - + -
136A ILE* 3.9 17.9 - - + -
203A ASP 3.0 15.8 + - - +
204A LEU* 3.6 23.3 - - + +
206A SER* 1.3 77.2 - - - +
208A GLY* 1.3 59.0 + - - +
210A THR* 3.3 6.1 + - - -
211A PHE* 3.0 61.0 + - + -
284A ILE* 5.6 0.7 - - + -
298A PHE* 4.5 15.9 - - + -
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Residues in contact with GLY 208 (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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204A LEU 2.9 16.3 + - - -
205A TRP 3.1 4.0 + - - -
207A ILE* 1.3 77.9 - - - +
209A VAL* 1.3 60.7 + - - +
211A PHE* 3.5 3.4 + - - +
212A TYR* 3.3 21.7 + - - +
281A LEU* 4.0 9.2 - - - +
284A ILE* 3.9 20.2 - - - -
285A LEU* 3.9 16.8 - - - +
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Residues in contact with VAL 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178A GLU 3.9 15.9 - - - +
179A TYR* 3.6 27.1 - - + -
205A TRP* 3.0 45.6 + - + +
206A SER 4.3 0.4 - - - +
208A GLY* 1.3 72.4 - - - +
210A THR* 1.3 67.1 + - - +
212A TYR* 3.4 4.0 + - - +
213A HIS* 3.2 20.1 + - - +
219A LEU* 4.1 8.1 - - + -
220A PRO* 3.7 31.5 - - + +
221A PHE* 4.8 5.4 - - + -
285A LEU* 4.4 4.7 - - + -
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Residues in contact with THR 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A LEU* 3.9 27.3 - - + +
98A LEU* 5.7 0.7 - - + +
115A VAL* 6.1 0.2 - - + -
136A ILE* 3.9 9.7 + - - +
137A LYS* 4.5 0.3 - - - -
138A PRO* 3.9 17.0 - - + +
141A ILE* 4.5 12.8 - - + -
179A TYR* 3.5 19.3 - - - -
206A SER 2.6 22.7 + - - -
207A ILE* 3.3 7.5 + - - -
208A GLY 3.3 0.4 - - - -
209A VAL* 1.3 79.8 - - - +
211A PHE* 1.3 70.0 + - + +
213A HIS* 3.2 6.8 + - - +
214A ALA* 3.2 20.3 + - + +
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Residues in contact with PHE 211 (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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112A PHE* 3.5 27.2 - + + -
115A VAL* 3.7 29.8 - - + -
116A LEU* 3.7 38.8 - - + -
119A VAL* 3.9 28.5 - - + -
120A VAL* 5.1 0.9 - - + -
207A ILE* 3.0 35.9 + - + +
208A GLY* 3.9 5.8 - - - +
209A VAL 3.3 0.2 - - - -
210A THR* 1.3 81.7 - - + +
212A TYR* 1.3 63.0 + - - +
214A ALA* 3.3 10.2 + - + -
215A ALA* 3.4 11.4 + - - +
277A LEU* 5.7 5.0 - - + +
280A VAL* 6.5 0.9 - - + -
281A LEU* 4.3 17.9 - - + -
284A ILE* 5.6 2.7 - - + -
298A PHE* 4.9 10.1 - + - -
302A THR* 5.9 0.2 - - + -
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Residues in contact with TYR 212 (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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208A GLY 3.3 11.4 + - - +
209A VAL 3.9 0.2 - - - +
210A THR 3.3 0.2 - - - -
211A PHE* 1.3 77.0 - - - +
213A HIS* 1.3 62.1 + - - +
215A ALA* 4.7 2.5 - - - +
216A THR* 2.8 58.2 + - + +
218A SER* 3.5 12.1 - - - -
219A LEU 4.1 3.4 - - - -
220A PRO* 3.6 41.3 - - + -
246A ILE* 3.9 33.2 - - + -
247A SER* 3.4 22.3 + - - -
262A ASP 4.9 0.2 + - - -
263A MET* 4.3 7.4 - - - -
264A PRO* 3.4 20.0 - - + +
281A LEU* 4.3 23.2 - - + +
285A LEU* 5.7 2.2 - - + -
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Residues in contact with HIS 213 (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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95A TYR* 5.9 4.0 - - - -
98A LEU* 3.5 35.9 - - + +
138A PRO* 4.4 6.1 - - + -
179A TYR* 3.5 23.4 + - - -
209A VAL 3.2 14.2 + - - +
210A THR* 3.4 12.3 - - - +
211A PHE 3.2 0.2 - - - -
212A TYR* 1.3 78.3 - - - +
214A ALA* 1.3 56.9 - - - +
215A ALA 3.4 0.2 - - - -
217A GLY* 3.1 36.1 + - - -
218A SER* 3.3 24.3 + - - +
219A LEU* 4.2 15.2 - - + +
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Residues in contact with ALA 214 (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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94A LEU* 5.3 5.8 - - + -
98A LEU* 4.3 14.4 - - + +
106A GLY* 3.5 1.7 - - - -
107A LEU* 2.6 58.9 + - + +
112A PHE* 3.9 12.6 - - + -
115A VAL* 5.3 8.1 - - + -
210A THR 3.2 11.6 + - - +
211A PHE* 3.8 9.9 - - - +
212A TYR 3.2 0.8 - - - -
213A HIS* 1.3 79.6 - - - +
215A ALA* 1.3 52.2 + - - +
216A THR 3.6 0.2 - - - -
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Residues in contact with ALA 215 (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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106A GLY* 3.2 13.6 - - - -
107A LEU 4.4 3.0 - - - +
112A PHE* 3.9 10.3 - - + -
211A PHE 3.4 12.9 + - - +
212A TYR* 3.6 2.7 + - - +
214A ALA* 1.3 81.7 - - - +
216A THR* 1.3 58.5 + - - +
263A MET* 3.9 18.2 - - + -
267A CYS* 3.3 22.1 - - - -
268A SER 3.9 1.4 + - - -
269A LEU* 3.9 29.2 - - + -
277A LEU* 4.8 2.0 - - + -
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Residues in contact with THR 216 (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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104A ALA 3.6 0.9 - - - +
105A TYR* 3.2 21.4 - - - +
106A GLY 3.6 4.9 - - - -
212A TYR* 2.8 42.8 + - + +
215A ALA* 1.3 80.4 - - - +
217A GLY* 1.3 61.6 + - - +
218A SER* 3.0 21.1 + - - -
263A MET* 3.8 13.0 - - + -
264A PRO* 3.6 34.5 - - + -
266A SER* 4.4 7.8 + - - -
267A CYS* 4.8 4.5 - - + +
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Residues in contact with GLY 217 (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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98A LEU* 6.0 0.4 - - - -
103A ASN 4.2 4.7 - - - -
104A ALA* 3.3 21.9 - - - +
106A GLY* 3.8 7.7 - - - +
213A HIS* 3.1 30.9 + - - -
215A ALA 3.8 0.6 - - - -
216A THR* 1.3 78.9 + - - +
218A SER* 1.3 65.9 + - - +
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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