Contacts of the helix formed by residues 194 - 212 (chain A) in PDB entry 6C9G
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 GLY 194 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138A VAL* 3.1 29.1 - - - +
172A LEU* 4.8 0.4 - - - -
192A TYR* 3.3 23.4 - - - -
193A ALA* 1.3 76.0 - - - +
195A PRO* 1.3 65.3 - - - +
196A GLU* 2.7 14.1 + - - -
197A VAL* 3.2 11.0 + - - +
198A ASP 3.4 4.3 + - - -
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Residues in contact with PRO 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133A HIS* 3.5 32.5 - - + +
138A VAL* 4.6 0.2 - - + -
166A MET* 3.4 28.9 - - + -
193A ALA* 3.3 17.0 - - + +
194A GLY* 1.3 90.0 - - - +
196A GLU* 1.3 63.0 + - - +
197A VAL 3.2 0.2 + - - -
198A ASP 3.4 1.9 + - - -
199A ILE* 3.1 31.0 + - + +
233B HIS* 4.6 5.4 - - + -
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Residues in contact with GLU 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185A GLU* 3.4 19.8 - - - +
192A TYR* 3.3 13.2 - - - +
193A ALA* 3.1 21.5 + - - +
194A GLY* 2.7 24.2 + - - -
195A PRO* 1.3 77.7 - - - +
197A VAL* 1.3 58.2 + - - +
199A ILE* 3.8 11.2 - - - +
200A TRP 3.2 16.6 + - - -
255A PRO* 4.2 18.0 - - + +
258A ARG* 2.9 32.4 + - + +
209B HIS* 3.3 20.4 + - - +
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Residues in contact with VAL 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A VAL* 5.4 0.2 - - + -
140A ARG* 4.9 17.9 - - + +
182A ALA* 5.9 1.1 - - - -
183A ALA* 4.4 7.7 - - + +
185A GLU* 4.0 14.4 - - - +
186A VAL* 3.7 33.2 - - + -
192A TYR* 3.8 31.2 - - + -
194A GLY* 3.2 9.6 + - - +
195A PRO 3.1 0.4 - - - -
196A GLU* 1.3 77.2 - - - +
198A ASP* 1.3 69.7 + - - +
199A ILE 3.2 1.1 - - - -
200A TRP* 3.4 6.7 + - - +
201A SER* 3.1 27.6 + - - +
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Residues in contact with ASP 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A VAL* 4.0 4.5 - - + +
132A CYS* 5.7 0.5 - - - +
133A HIS* 2.8 37.3 + - + +
138A VAL* 3.2 12.6 - - - +
139A HIS* 3.0 22.6 + - - +
140A ARG* 2.8 30.5 + - - -
142A LEU* 3.8 21.1 - - + +
194A GLY 3.4 1.0 + - - +
195A PRO 3.4 1.0 + - - +
197A VAL* 1.3 77.6 - - - +
199A ILE* 1.3 53.8 + - - +
201A SER* 3.5 5.2 + - - -
202A SER* 2.8 37.6 + - - -
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Residues in contact with ILE 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A LEU* 5.4 3.1 - - + -
129A VAL* 5.6 1.1 - - + -
133A HIS* 4.9 4.3 - - + -
195A PRO* 3.1 24.5 + - + +
196A GLU* 3.8 8.5 - - - +
197A VAL 3.2 0.2 - - - -
198A ASP* 1.3 75.2 - - - +
200A TRP* 1.3 66.2 + - - +
202A SER* 3.1 8.1 + - - -
203A GLY* 2.9 19.1 + - - -
250A MET* 3.5 23.9 - - + +
258A ARG* 4.4 10.5 - - + -
259A ALA 3.3 28.5 - - - +
260A THR* 3.7 17.0 - - + -
261A ILE* 3.8 25.6 - - + +
264A ILE* 4.3 8.5 - - + -
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Residues in contact with TRP 200 (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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180A ASN 5.0 0.6 + - - -
181A TYR 3.6 13.8 + - - -
182A ALA 3.3 12.5 + - - -
183A ALA* 3.5 23.1 - - + -
184A PRO* 3.5 36.3 - - + -
196A GLU 3.2 12.8 + - - +
197A VAL 3.4 8.5 + - - +
199A ILE* 1.3 76.9 - - - +
201A SER* 1.3 63.1 + - - +
203A GLY* 3.1 11.3 + - - -
204A VAL* 3.1 24.1 + - + +
216A PHE* 3.5 30.7 - + - -
228A ILE* 3.9 16.5 - - + +
231A GLY* 4.7 0.9 - - - -
250A MET 3.9 10.3 - - - -
251A LEU* 3.0 46.4 - - + +
252A GLN 3.3 20.9 - - - -
253A VAL* 4.7 2.5 - - + -
258A ARG* 3.7 9.6 - - - +
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Residues in contact with SER 201 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140A ARG 5.0 5.7 + - - -
142A LEU* 3.6 34.0 + - - +
181A TYR* 2.7 28.6 + - - +
182A ALA* 4.9 0.2 - - - -
197A VAL* 3.1 17.6 + - - +
198A ASP* 3.7 9.0 + - - -
200A TRP* 1.3 78.9 - - - +
202A SER* 1.3 58.1 + - - +
204A VAL* 3.0 8.5 + - - +
205A ILE* 2.9 31.9 + - - +
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Residues in contact with SER 202 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A PHE* 3.6 9.2 - - - -
125A ILE* 5.0 6.6 - - - +
126A LEU* 4.4 12.7 - - - +
129A VAL* 4.0 12.0 - - - +
142A LEU* 3.8 14.4 - - - +
198A ASP 2.8 22.6 + - - -
199A ILE* 3.1 8.5 + - - -
201A SER* 1.3 76.1 - - - +
203A GLY* 1.3 56.6 + - - +
205A ILE* 3.4 13.1 + - - +
206A LEU* 2.9 28.6 + - - +
250A MET* 3.8 12.1 - - - -
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Residues in contact with GLY 203 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
199A ILE 2.9 12.0 + - - -
200A TRP 3.1 5.3 + - - -
202A SER* 1.3 77.2 - - - +
204A VAL* 1.3 60.9 + - - +
206A LEU* 3.3 2.1 + - - -
207A TYR* 3.1 20.3 + - - +
247A LEU* 3.5 12.9 - - - +
250A MET* 3.5 23.5 - - - +
251A LEU* 4.2 15.2 - - - +
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Residues in contact with VAL 204 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
180A ASN 3.8 17.9 - - - +
181A TYR* 3.4 30.1 - - + -
200A TRP* 3.1 34.5 + - + +
201A SER* 3.0 8.8 + - - +
203A GLY* 1.3 73.0 - - - +
205A ILE* 1.3 65.8 + - - +
207A TYR* 3.3 3.3 + - - +
208A ALA* 3.0 21.3 + - - +
214A LEU* 4.4 4.3 - - + -
215A PRO* 3.7 33.2 - - + +
216A PHE* 4.8 3.1 - - + -
251A LEU* 4.2 6.7 - - + -
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Residues in contact with ILE 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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103A LEU* 4.7 8.7 - - + -
122A PHE* 5.4 2.9 - - + -
125A ILE* 4.1 31.2 - - + -
142A LEU* 4.0 13.2 - - + -
143A LYS* 3.7 28.9 - - - +
144A PRO* 3.9 21.3 - - + -
147A VAL* 4.3 12.8 - - + -
181A TYR* 4.5 3.1 - - + -
201A SER 2.9 15.2 + - - +
202A SER* 3.6 13.7 - - - +
204A VAL* 1.3 76.3 - - - +
206A LEU* 1.3 61.8 + - - +
208A ALA* 3.1 8.2 + - - +
209A LEU* 3.0 33.6 + - + +
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Residues in contact with LEU 206 (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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118A SER* 4.8 2.9 - - - +
122A PHE* 3.7 44.0 - - + -
202A SER 2.9 17.2 + - - +
203A GLY* 3.6 6.1 - - - +
204A VAL 3.3 0.4 - - - -
205A ILE* 1.3 77.0 - - - +
207A TYR* 1.3 61.9 + - - +
209A LEU* 3.4 7.6 + - + +
210A LEU* 3.1 39.6 + - + +
243A VAL* 4.2 7.6 - - + -
246A LEU* 4.0 26.2 - - + -
247A LEU* 3.8 20.2 - - + -
250A MET* 4.3 5.8 - - - -
269A TRP* 4.0 13.7 - - + -
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Residues in contact with TYR 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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203A GLY 3.1 13.2 + - - +
204A VAL 3.5 8.5 - - - +
205A ILE 3.3 0.2 - - - -
206A LEU* 1.3 77.0 - - - +
208A ALA* 1.3 53.2 + - - +
210A LEU* 3.2 4.5 + - - -
211A CYS* 2.8 58.7 + - + +
213A THR* 3.2 29.9 + - - -
214A LEU 3.9 0.8 + - - -
215A PRO* 3.5 39.9 - - + +
233A PHE* 3.7 20.2 - + - -
234A TYR* 2.4 37.9 + - - +
236A PRO* 3.7 10.2 - - + +
239A LEU* 4.9 3.4 - - + -
247A LEU* 4.0 21.0 - - + +
251A LEU* 5.4 1.1 - - + -
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Residues in contact with ALA 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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107A ILE* 4.1 20.5 - - + +
144A PRO* 4.6 10.5 - - + -
204A VAL 3.0 14.0 + - - +
205A ILE* 3.5 11.4 - - - +
207A TYR* 1.3 76.8 - - - +
209A LEU* 1.3 58.5 + - - +
212A GLY* 2.8 29.8 + - - -
213A THR 3.5 18.8 - - - +
214A LEU* 4.4 14.4 - - + -
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Residues in contact with LEU 209 (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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103A LEU* 4.0 17.3 - - + -
107A ILE* 4.1 7.8 - - + +
112A ARG* 3.7 1.2 - - - -
113A LEU* 2.9 53.0 + - + +
118A SER* 3.3 35.0 + - - +
121A LEU* 3.9 23.1 - - + -
122A PHE* 4.2 19.7 - - + +
125A ILE* 4.7 3.4 - - + -
205A ILE* 3.0 31.8 + - + +
206A LEU* 3.6 10.3 - - + +
208A ALA* 1.3 78.6 - - - +
210A LEU* 1.3 58.0 + - - +
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Residues in contact with LEU 210 (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 ARG* 3.3 22.7 - - - +
113A LEU 4.1 5.6 - - - +
115A GLU* 4.5 13.0 - - + +
118A SER* 3.5 26.0 - - - +
206A LEU* 3.1 29.9 + - + +
207A TYR* 3.8 2.5 - - - +
209A LEU* 1.3 77.7 - - - +
211A CYS* 1.3 61.6 + - - +
238A TYR* 3.7 7.7 - - - -
239A LEU* 3.7 19.2 - - + +
243A VAL* 3.7 38.6 - - + -
247A LEU* 4.4 8.5 - - + -
269A TRP* 4.3 12.1 - - + -
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Residues in contact with CYS 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 ARG* 3.6 15.9 + - - -
207A TYR* 2.8 61.3 + - + +
210A LEU* 1.3 76.6 - - - +
212A GLY* 1.3 59.4 + - - +
213A THR* 3.1 13.9 + - - +
236A PRO* 3.8 23.8 - - + -
238A TYR* 3.3 19.2 + - - +
239A LEU* 4.0 16.2 - - - -
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Residues in contact with GLY 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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107A ILE* 3.9 21.6 - - - +
111A GLY* 4.8 0.9 - - - -
112A ARG* 3.5 15.7 - - - +
208A ALA* 2.8 25.2 + - - -
211A CYS* 1.3 72.0 - - - +
213A THR* 1.3 63.8 + - - +
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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