Contacts of the helix formed by residues 207 - 224 (chain A) in PDB entry 3SA0
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 LYS 207 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A HIS* 3.1 69.2 + - + +
142A SER* 5.1 0.8 - - - +
144A ASN* 4.0 22.3 + - - +
146A LEU* 3.5 21.1 - - + -
174A ALA* 4.7 6.3 - - + +
206A THR* 1.3 74.3 - - - +
208A SER* 1.3 61.9 + - - +
209A ILE 3.0 0.2 - - - -
210A ASP* 3.0 13.5 + - - +
211A ILE* 3.5 7.0 + - + +
303A GLU* 6.2 4.5 - - + -
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Residues in contact with SER 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
197A GLU* 4.2 2.0 + - - -
206A THR* 2.9 19.3 + - - -
207A LYS* 1.3 78.4 - - - +
209A ILE* 1.3 62.1 + - - +
211A ILE* 3.4 8.9 + - - +
212A TRP 3.2 13.0 + - - -
298A PRO* 3.6 36.9 + - - +
301A ARG* 2.9 34.0 + - - -
302A ILE 5.8 0.9 - - - -
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Residues in contact with ILE 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A LEU* 4.9 2.0 - - + -
148A ARG* 4.3 14.8 - - + -
187A TYR* 4.1 6.7 - - + +
193A TYR 4.9 0.5 - - - +
194A ARG* 6.1 0.7 - - - -
195A ALA* 3.9 8.8 - - + +
197A GLU* 3.8 17.0 - - - +
198A ILE* 3.2 41.5 - - + -
202A SER* 4.4 4.9 - - - +
204A GLY* 3.8 25.1 - - - +
206A THR* 3.0 17.7 + - - +
207A LYS 3.0 1.0 + - - -
208A SER* 1.3 81.9 + - - +
210A ASP* 1.3 80.3 + - - +
212A TRP* 3.5 4.5 + - - +
213A SER* 3.4 22.1 + - - +
301A ARG* 4.5 1.8 - - - +
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Residues in contact with ASP 210 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A LEU* 3.8 3.9 - - + +
141A HIS* 2.8 36.1 + - + +
146A LEU* 3.5 4.2 - - - +
147A HIS* 3.0 24.0 + - - +
148A ARG* 2.9 29.4 + - - -
150A LEU* 3.9 20.8 + - + +
207A LYS 3.0 3.3 + - - +
209A ILE* 1.3 86.9 - - - +
211A ILE* 1.3 65.0 + - - +
213A SER* 3.1 7.8 + - - -
214A VAL* 3.0 27.1 + - - +
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Residues in contact with ILE 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A LEU* 4.4 11.4 - - + -
137A LEU* 4.1 12.8 - - + -
141A HIS* 4.8 4.5 - - + -
207A LYS* 3.5 11.2 + - + +
208A SER* 3.4 11.7 + - - +
210A ASP* 1.3 77.4 - - - +
212A TRP* 1.3 63.4 + - - +
214A VAL* 3.2 5.5 + - + +
215A GLY* 2.9 19.8 + - - -
293A MET* 4.0 11.8 - - + +
301A ARG* 3.9 15.5 - - + -
302A ILE* 3.3 36.3 - - + +
303A GLU* 4.1 2.2 - - - +
304A VAL* 3.7 37.7 - - + +
307A ALA* 5.2 2.7 - - + -
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Residues in contact with TRP 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A TRP 5.2 0.4 + - - -
193A TYR 3.5 11.7 - - - -
194A ARG 3.3 12.3 + - - -
195A ALA* 3.4 29.2 - - + -
196A PRO* 3.6 29.2 - - + -
208A SER 3.2 4.4 + - - -
209A ILE 3.6 9.9 - - - +
211A ILE* 1.3 78.7 - - - +
213A SER* 1.3 61.9 + - - +
215A GLY* 3.1 3.1 + - - -
216A CYS* 3.0 33.0 + - - -
228A PHE* 3.5 24.1 - + - -
240A ILE* 3.7 25.2 - - + +
244A LEU* 3.9 9.9 - - + -
293A MET 4.0 5.4 - - - -
294A LEU* 3.5 44.9 - - + +
295A THR 3.6 10.3 - - - -
301A ARG* 3.7 23.2 - - - +
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Residues in contact with SER 213 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A ARG 5.5 3.1 + - - -
149A ASP* 5.7 0.2 - - - -
150A LEU* 3.5 34.2 + - - -
193A TYR* 2.9 28.3 + - - +
209A ILE* 3.4 10.9 + - - +
210A ASP* 3.1 12.7 + - - -
212A TRP* 1.3 79.0 - - - +
214A VAL* 1.3 63.8 + - - +
216A CYS* 3.1 7.9 + - - +
217A ILE* 3.0 26.4 + - - +
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Residues in contact with VAL 214 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A LEU* 3.6 27.6 - - + -
133A ILE* 3.9 24.7 - - + -
134A LEU* 4.0 15.9 - - + -
137A LEU* 3.9 23.1 - - + -
150A LEU* 4.0 9.9 - - + -
210A ASP 3.0 15.2 + - - +
211A ILE* 3.2 8.9 + - - +
213A SER* 1.3 75.0 - - - +
215A GLY* 1.3 57.9 + - - +
217A ILE* 3.0 9.7 + - + +
218A LEU* 2.8 27.2 + - - +
293A MET* 4.2 6.5 - - + -
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Residues in contact with GLY 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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211A ILE 2.9 11.3 + - - -
212A TRP 3.1 4.7 + - - -
214A VAL* 1.3 77.6 - - - +
216A CYS* 1.3 60.8 + - - +
218A LEU* 3.2 1.5 + - - -
219A ALA* 3.0 19.6 + - - +
290A LEU* 3.2 13.3 - - - +
293A MET* 3.8 29.3 - - - -
294A LEU* 3.8 12.3 - - - -
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Residues in contact with CYS 216 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
192A TRP 3.9 12.6 - - - +
193A TYR* 3.7 22.0 - - + -
212A TRP* 3.0 43.7 + - - -
213A SER 3.1 8.0 + - - +
215A GLY* 1.3 77.1 - - - +
217A ILE* 1.3 55.9 + - - +
219A ALA* 3.4 3.1 + - - +
220A GLU* 3.0 29.1 + - - +
227A ILE* 4.1 14.8 - - + +
228A PHE* 3.9 23.8 - - - -
294A LEU* 3.8 1.5 - - - +
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Residues in contact with ILE 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A LEU* 3.8 27.8 - - + -
130A LEU* 6.3 0.2 - - + -
133A ILE* 4.1 20.6 - - + -
150A LEU* 3.9 12.3 - - + -
151A LYS* 3.6 31.0 - - - +
152A PRO* 4.0 19.7 - - + -
155A LEU* 4.1 10.5 - - + -
193A TYR* 4.3 4.0 - - + -
213A SER 3.0 19.3 + - - +
214A VAL* 3.0 12.8 + - + +
216A CYS* 1.3 75.0 - - - +
218A LEU* 1.3 64.3 + - - +
220A GLU* 3.2 7.8 + - - +
221A MET* 2.9 25.4 + - + +
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Residues in contact with LEU 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A ILE* 3.7 28.5 - - + -
130A LEU* 4.0 33.6 - - + +
214A VAL 2.8 12.7 + - - +
215A GLY* 3.2 8.5 + - - +
217A ILE* 1.3 74.5 - - - +
219A ALA* 1.3 63.8 + - - +
221A MET* 3.1 12.7 + - + +
222A LEU* 3.1 37.6 + - + +
286A ALA* 3.8 24.5 - - + +
289A LEU* 4.8 2.0 - - + -
290A LEU* 3.9 23.8 - - + +
293A MET* 4.4 8.1 - - - -
312A TYR* 4.9 3.8 - - + -
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Residues in contact with ALA 219 (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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215A GLY 3.0 12.9 + - - +
216A CYS* 3.6 8.3 - - - +
217A ILE 3.3 0.2 - - - -
218A LEU* 1.3 76.8 - - - +
220A GLU* 1.3 63.3 + - - +
222A LEU* 3.2 19.1 + - - +
223A SER* 3.3 16.4 + - - -
225A ARG 4.6 1.3 - - - -
227A ILE* 3.7 38.4 - - + -
279A PHE* 3.6 13.9 - - + -
290A LEU* 4.0 8.5 - - + +
294A LEU* 4.8 0.2 - - + -
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Residues in contact with GLU 220 (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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113A TYR* 5.3 7.6 - - - -
116A LEU* 3.9 18.7 - - + +
117A LYS* 6.1 0.5 - - - -
152A PRO* 3.9 15.2 - - + +
192A TRP* 5.6 1.4 - - - -
193A TYR* 2.7 38.5 + - - -
216A CYS 3.0 15.9 + - - +
217A ILE* 3.2 6.5 + - - +
219A ALA* 1.3 77.0 - - - +
221A MET* 1.3 54.4 + - - +
224A ASN* 2.7 37.1 + - - -
225A ARG* 3.5 25.0 + - - +
226A PRO* 3.7 25.8 - - + +
227A ILE 5.2 0.4 - - - +
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Residues in contact with MET 221 (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 LEU* 4.1 21.5 - - + -
116A LEU* 4.1 11.2 - - + +
121A LEU* 3.8 23.7 + - + +
126A ILE* 3.5 44.2 - - + +
129A PHE* 3.8 32.5 - - + -
130A LEU* 4.2 15.7 - - + +
133A ILE* 4.5 4.0 - - + -
217A ILE* 2.9 20.2 + - + +
218A LEU* 3.1 28.5 + - + +
220A GLU* 1.3 76.4 - - - +
222A LEU* 1.3 62.6 + - - +
223A SER 3.5 0.3 + - - -
224A ASN* 4.3 7.6 + - - +
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Residues in contact with LEU 222 (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 HIS* 5.9 3.3 - - - -
123A ASN* 5.5 2.7 - - - +
126A ILE* 3.8 27.9 - - + +
218A LEU* 3.1 30.4 + - + +
219A ALA* 3.2 8.5 + - - +
221A MET* 1.3 78.7 - - - +
223A SER* 1.3 57.5 + - - +
224A ASN* 5.0 1.4 - - - +
279A PHE* 3.8 21.0 - - + +
282A ALA* 3.9 21.5 - - + -
283A ASP 5.3 0.7 - - - +
286A ALA* 4.7 10.3 - - + -
287A LEU* 4.0 25.1 - - + -
290A LEU* 4.2 13.5 - - + -
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Residues in contact with SER 223 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
219A ALA 3.3 12.4 + - - -
221A MET 3.3 0.2 - - - -
222A LEU* 1.3 80.9 - - - +
224A ASN* 1.3 72.5 + - - +
225A ARG* 3.2 38.6 + - - +
278A LEU 5.5 1.8 - - - -
279A PHE* 3.6 23.0 - - - -
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Residues in contact with ASN 224 (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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116A LEU* 3.0 44.9 + - - +
117A LYS* 6.0 1.6 - - - +
119A GLN 2.9 29.3 + - - +
120A HIS* 4.2 19.0 + - - +
121A LEU 4.7 0.9 + - - -
220A GLU* 2.7 24.0 + - - -
221A MET 4.3 6.1 + - - +
222A LEU 5.0 1.0 - - - +
223A SER* 1.3 75.9 - - - +
225A ARG* 1.3 61.2 - - + +
226A PRO* 4.9 0.2 - - - +
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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