Contacts of the helix formed by residues 199 - 212 (chain C) in PDB entry 3G33
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 PRO 199 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189C GLU* 4.4 0.4 - - - -
197C ALA* 3.1 17.7 - - + -
198C THR* 1.3 97.3 - - - +
200C VAL* 1.3 59.7 + - - +
201C ASP 3.1 1.1 - - - -
202C MET* 3.2 21.1 + - + +
285C PRO* 3.5 39.5 - - + +
288C ARG* 2.9 35.1 + - + +
289C ILE 6.4 0.2 - - - -
290C SER* 6.4 0.9 - - - -
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Residues in contact with VAL 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C VAL* 5.1 2.2 - - + -
143C HIS 5.4 1.1 - - - +
144C ARG* 4.7 26.7 - - - +
187C ALA* 3.7 23.6 - - + +
189C GLU* 3.5 30.7 - - + +
190C VAL* 3.7 19.3 - - + -
196C TYR* 4.6 2.2 - - - -
197C ALA* 3.3 35.9 - - + +
198C THR 2.7 6.8 + - - +
199C PRO* 1.3 75.5 - - - +
201C ASP* 1.3 62.4 + - - +
203C TRP* 3.6 8.0 + - - +
204C SER* 3.9 8.4 + - - +
288C ARG* 4.0 0.7 - - - +
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Residues in contact with ASP 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133C LEU* 4.0 13.9 - - + +
137C HIS* 2.8 39.6 + - + +
142C VAL* 3.3 10.1 - - - +
143C HIS* 2.1 53.9 + - - +
146C LEU* 3.4 10.6 - - + +
198C THR 3.0 3.0 + - - +
200C VAL* 1.3 76.6 - - - +
202C MET* 1.3 58.9 + - - +
204C SER* 2.9 26.2 + - - -
205C VAL* 3.1 13.1 + - - +
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Residues in contact with MET 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C LEU* 4.0 13.0 - - + -
133C LEU* 3.8 19.3 - - + -
137C HIS* 5.5 3.4 - - + -
199C PRO* 3.2 19.7 + - + +
201C ASP* 1.3 78.1 - - + +
203C TRP* 1.3 60.8 + - - +
205C VAL* 3.2 15.3 + - + +
206C GLY 3.2 9.5 + - - -
280C MET* 3.7 39.1 - - + +
288C ARG* 3.9 11.2 - - + -
289C ILE* 3.3 33.7 - - + +
290C SER* 3.9 15.5 - - - +
291C ALA* 3.6 20.9 - - - +
294C ALA* 4.1 2.0 - - + -
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Residues in contact with TRP 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
184C TRP 4.9 0.4 + - - -
185C TYR 3.7 6.5 - - - -
186C ARG 3.0 29.5 + - - -
187C ALA* 3.7 8.1 - - + -
188C PRO* 3.4 18.6 - - + -
199C PRO 3.6 2.6 + - - -
200C VAL 3.6 7.7 + - - +
201C ASP 3.1 0.8 - - - -
202C MET* 1.3 77.6 - - - +
204C SER* 1.3 61.4 - - - +
206C GLY* 3.2 10.0 + - - -
207C CYS* 3.3 25.2 + - - -
219C PHE* 4.1 7.2 - + - -
231C ILE* 3.4 47.0 - - + +
235C ILE* 4.0 7.2 - - + -
280C MET 4.1 5.6 - - - -
281C LEU* 3.3 54.2 - - + +
282C THR 3.7 11.0 - - - -
283C PHE 4.4 1.6 - - - -
288C ARG* 3.4 33.3 - - - +
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Residues in contact with SER 204 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C ARG 5.6 1.2 + - - -
145C ASP* 5.3 1.2 - - - -
146C LEU* 3.6 38.1 + - - +
185C TYR* 2.7 31.4 + - - +
186C ARG* 5.0 0.3 + - - -
187C ALA 5.1 0.2 + - - -
200C VAL* 3.9 8.9 + - - +
201C ASP* 2.9 12.4 + - - -
203C TRP* 1.3 76.0 - - - +
205C VAL* 1.3 63.8 + - - +
207C CYS* 3.5 2.3 + - - +
208C ILE* 3.2 30.8 + - - +
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Residues in contact with VAL 205 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C MET* 3.7 15.3 - - + +
129C PHE* 3.4 35.2 - - + -
130C LEU* 3.8 13.9 - - + -
133C LEU* 3.5 24.0 - - + -
146C LEU* 4.3 1.8 - - + -
201C ASP 3.1 14.3 + - - +
202C MET* 3.3 14.6 - - + +
203C TRP 3.2 0.2 - - - -
204C SER* 1.3 78.4 - - - +
206C GLY* 1.3 56.5 + - - +
208C ILE* 3.6 1.8 + - - +
209C PHE* 2.9 27.4 + - - +
280C MET* 3.5 18.4 - - + -
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Residues in contact with GLY 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202C MET 3.2 7.9 + - - -
203C TRP 3.2 7.8 + - - -
205C VAL* 1.3 75.6 - - - +
207C CYS* 1.3 64.2 + - - +
209C PHE* 3.3 0.5 + - - +
210C ALA* 3.1 24.6 + - - +
218C LEU* 4.8 0.5 - - - +
277C LEU* 3.6 15.9 - - - +
280C MET* 3.4 19.0 - - - +
281C LEU* 4.1 12.3 - - - -
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Residues in contact with CYS 207 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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184C TRP 4.1 9.2 - - - +
185C TYR* 3.6 26.0 - - + -
203C TRP* 3.3 38.5 + - - -
204C SER 3.9 4.0 - - - +
205C VAL 3.4 0.2 - - - -
206C GLY* 1.3 75.9 - - - +
208C ILE* 1.3 58.4 + - - +
210C ALA* 3.7 3.3 + - - +
211C GLU* 3.3 25.5 + - - +
218C LEU* 4.3 18.5 + - + +
219C PHE* 3.8 27.8 - - + +
281C LEU* 4.3 2.0 - - - -
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Residues in contact with ILE 208 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C LEU* 3.6 28.5 - - + -
109C LEU* 5.9 0.7 - - + -
126C MET* 5.9 0.9 - - - -
129C PHE* 4.3 10.8 - - + -
146C LEU* 4.3 4.9 - - + -
147C LYS* 3.8 20.2 - - - +
148C PRO* 3.9 9.0 - - + -
151C ILE* 3.1 30.3 - - + -
185C TYR* 3.9 19.3 - - + -
204C SER 3.2 17.6 + - - +
205C VAL* 4.1 3.4 - - - +
206C GLY 3.2 0.2 - - - -
207C CYS* 1.3 74.2 - - - +
209C PHE* 1.3 65.8 + - - +
210C ALA 3.2 1.8 - - - -
211C GLU* 3.2 16.3 + - + +
212C MET* 3.2 23.4 + - + +
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Residues in contact with PHE 209 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C ILE* 4.1 4.0 - - + -
126C MET* 3.3 47.7 - - + -
205C VAL 2.9 19.5 + - - +
206C GLY 3.3 3.1 + - - +
208C ILE* 1.3 77.5 - - - +
210C ALA* 1.3 60.2 + - - +
212C MET* 3.5 7.9 - - - +
213C PHE* 3.4 43.0 - + - -
269C MET* 3.7 27.6 - - + -
273C GLY 4.0 8.7 - - - -
276C LEU* 4.7 10.3 - - + -
277C LEU* 3.8 22.2 - - + -
280C MET* 3.8 8.5 - - + -
299C TYR* 3.9 29.4 - + - -
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Residues in contact with ALA 210 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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206C GLY 3.1 16.6 + - - +
207C CYS 4.0 4.5 - - - +
209C PHE* 1.3 77.4 - - - +
211C GLU* 1.3 60.3 + - - +
212C MET 3.1 4.7 - - - -
213C PHE* 3.1 12.1 + - - -
214C ARG* 3.2 21.4 - - - +
218C LEU* 4.1 21.1 - - + -
266C VAL* 3.9 28.8 - - + +
269C MET* 5.9 0.4 - - - -
277C LEU* 4.4 10.5 - - + -
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Residues in contact with GLU 211 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106C ARG* 5.1 6.2 + - - +
109C LEU* 3.9 19.6 - - + +
148C PRO* 4.2 13.9 - - - +
185C TYR* 3.0 36.1 + - - -
207C CYS 3.3 12.7 + - - +
208C ILE* 3.2 9.3 + - + +
210C ALA* 1.3 77.7 - - - +
212C MET* 1.3 58.3 + - - +
214C ARG* 3.7 7.4 - - - +
215C ARG* 2.8 28.6 + - - -
216C LYS* 3.8 20.0 + - - +
217C PRO* 3.5 31.4 - - + +
218C LEU* 5.5 0.6 - - - +
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Residues in contact with MET 212 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105C LEU* 4.2 27.4 - - + -
109C LEU* 4.3 25.4 - - + +
116C GLY* 5.4 2.8 - - - -
117C LEU* 5.0 9.6 + - + +
122C ILE* 3.4 51.4 - - + +
125C LEU* 4.2 22.7 - - + +
126C MET* 3.8 28.9 - - - +
129C PHE* 5.8 4.0 - - + -
208C ILE* 3.2 18.4 + - + +
209C PHE* 3.5 9.9 - - - +
210C ALA 3.1 0.4 - - - -
211C GLU* 1.3 80.6 - - - +
213C PHE* 1.3 56.8 + - - +
214C ARG 3.3 0.8 + - - -
215C ARG* 4.8 5.7 + - - +
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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