Contacts of the helix formed by residues 160 - 179 (chain C) in PDB entry 1FBA
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 TYR 160 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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160A TYR* 3.3 52.3 + + + -
0B ACE 4.1 26.9 + - + +
214B LYS* 5.7 4.3 - - - -
159C SER* 1.3 74.1 - - - +
161C GLN* 1.3 65.3 + - - +
163C ILE* 4.5 6.1 - - + -
164C LEU* 2.9 57.3 + - + +
0D ACE 3.8 29.8 + - + +
1D THR* 3.5 9.8 + - - +
214D LYS* 4.8 5.5 + - - -
218D ASP* 4.2 20.2 + - + -
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Residues in contact with GLN 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C LEU* 4.1 22.6 - - + +
116C PHE 4.9 3.2 + - - +
118C SER* 3.8 27.5 - - - +
121C GLU* 5.1 0.2 + - - -
159C SER* 3.1 7.3 + - - +
160C TYR* 1.3 81.2 - - - +
162C SER* 1.3 56.9 + - - +
164C LEU* 3.6 8.0 - - + +
165C GLU* 3.0 28.8 + - + +
1D THR* 3.0 16.3 + - + +
218D ASP* 3.6 24.9 - - + +
219D HIS* 3.2 39.5 + - + +
220D HIS* 3.8 17.0 + - - -
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Residues in contact with SER 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C LEU* 4.2 9.0 - - - -
121C GLU* 3.2 36.9 + - - +
122C VAL 4.1 4.9 + - - -
150C VAL 4.9 1.0 + - - -
151C LEU* 3.3 22.8 - - - +
152C LYS 5.7 0.3 + - - -
158C PRO* 4.5 1.1 - - - -
159C SER* 3.1 11.0 + - - -
161C GLN* 1.3 76.6 - - - +
163C ILE* 1.3 61.3 + - - +
165C GLU* 4.7 0.2 - - - -
166C ASN* 2.9 46.9 + - - +
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Residues in contact with ILE 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
0B ACE 4.4 14.6 - - + +
2B THR* 4.1 9.0 - - + -
151C LEU* 4.8 5.8 - - + -
158C PRO* 3.9 29.4 - - + +
159C SER 3.0 23.8 + - - +
160C TYR* 3.9 7.0 - - + +
162C SER* 1.3 75.4 - - - +
164C LEU* 1.3 61.6 + - - +
166C ASN* 4.4 0.6 - - - +
167C ALA* 3.1 28.2 + - - +
207C THR* 3.8 32.3 - - + +
208C VAL* 4.4 16.4 - - + +
211C ALA* 3.3 30.7 - - + -
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Residues in contact with LEU 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160C TYR* 2.9 46.8 + - + +
161C GLN* 3.6 7.9 - - + +
163C ILE* 1.3 76.8 - - - +
165C GLU* 1.3 66.7 + - + +
167C ALA* 4.0 3.2 - - - +
168C ASN* 3.0 28.9 + - + +
211C ALA* 5.7 1.6 - - - -
164D LEU* 6.5 2.0 - - + -
168D ASN* 3.5 27.6 - - - +
218D ASP* 3.8 32.1 - - + +
219D HIS* 4.3 4.7 - - - +
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Residues in contact with GLU 165 (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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115C LEU* 4.2 12.3 - - + -
123C THR* 2.8 41.7 + - + +
161C GLN 3.0 16.0 + - - +
162C SER* 4.0 4.3 - - - +
164C LEU* 1.3 85.3 - - + +
166C ASN* 1.3 60.8 + - - +
168C ASN* 3.2 2.7 + - - +
169C VAL* 2.9 38.1 + - - +
127D LEU* 6.1 0.3 - - - +
168D ASN* 3.0 29.5 + - - -
172D ARG* 3.7 20.7 + - - +
219D HIS* 4.0 7.6 - - + -
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Residues in contact with ASN 166 (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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122C VAL 2.9 24.3 + - - +
123C THR* 3.7 19.3 + - - +
149C CYS* 3.3 31.7 - - + +
150C VAL 4.3 4.1 + - - -
151C LEU* 3.8 21.7 - - + +
162C SER* 2.9 37.2 + - - +
163C ILE 4.4 0.9 - - - +
165C GLU* 1.3 75.7 - - - +
167C ALA* 1.3 65.4 + - - +
169C VAL* 3.4 5.4 + - - +
170C LEU* 3.0 33.3 + - + +
188C PRO* 6.5 0.2 - - + -
212C VAL* 5.7 0.2 - - - -
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Residues in contact with ALA 167 (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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163C ILE 3.1 21.7 + - - +
164C LEU* 4.0 3.8 - - - +
166C ASN* 1.3 77.9 - - - +
168C ASN* 1.3 60.5 + - - +
170C LEU* 3.5 4.4 + - - +
171C ALA* 3.2 16.8 + - - +
211C ALA* 3.6 36.1 - - + +
212C VAL* 3.8 18.6 - - + +
215C ALA* 3.3 15.1 - - + +
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Residues in contact with ASN 168 (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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164C LEU* 3.0 22.9 + - + +
165C GLU* 3.2 6.2 + - - +
167C ALA* 1.3 76.6 - - - +
169C VAL* 1.3 62.4 + - - +
171C ALA* 3.4 4.2 + - - +
172C ARG* 3.2 22.5 + - - +
215C ALA* 4.1 8.3 - - + +
219C HIS* 2.8 24.8 + - - -
164D LEU* 4.5 16.0 - - - +
165D GLU* 3.0 26.5 + - - +
168D ASN* 3.9 25.2 - - - +
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Residues in contact with VAL 169 (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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123C THR* 3.9 11.4 - - - +
124C THR 3.6 20.6 - - - +
127C LEU* 4.0 22.1 - - + +
147C TRP* 4.0 15.8 - - + +
149C CYS* 3.7 20.6 - - - -
165C GLU* 2.9 26.1 + - - +
166C ASN* 3.4 11.4 - - - +
168C ASN* 1.3 75.6 - - - +
170C LEU* 1.3 68.8 + - - +
172C ARG* 3.3 5.5 + - - +
173C TYR* 3.1 24.3 + - - +
127D LEU* 6.5 1.3 - - + -
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Residues in contact with LEU 170 (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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147C TRP* 3.7 26.9 - - + +
149C CYS* 3.6 17.0 - - + -
166C ASN* 3.0 22.5 + - + +
167C ALA* 3.7 4.7 - - - +
168C ASN 3.3 0.2 - - - -
169C VAL* 1.3 79.2 - - - +
171C ALA* 1.3 54.1 - - - +
173C TYR* 3.4 15.2 + - + -
174C ALA* 2.9 31.2 + - - +
186C VAL* 4.3 17.1 - - + +
187C GLU 3.9 20.0 - - - +
188C PRO* 3.8 33.4 - - + -
212C VAL* 4.3 12.6 - - + -
216C LEU* 4.7 2.7 - - + -
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Residues in contact with ALA 171 (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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167C ALA 3.2 13.0 + - - +
168C ASN 3.7 4.9 - - - +
169C VAL 3.2 0.6 - - - -
170C LEU* 1.3 73.0 - - - +
172C ARG* 1.3 66.2 + - - +
175C SER* 3.1 24.4 + - - -
215C ALA* 3.5 18.6 - - + +
216C LEU* 3.7 17.7 - - + +
219C HIS* 3.5 34.2 - - + +
221C VAL* 3.8 5.0 - - - +
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Residues in contact with ARG 172 (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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127C LEU* 3.8 30.1 - - + +
168C ASN* 3.2 22.3 + - - +
169C VAL* 3.3 8.0 + - - +
171C ALA* 1.3 72.8 - - - +
173C TYR* 1.3 65.9 - - - +
175C SER* 3.4 14.0 + - - -
176C ILE* 3.0 56.8 + - - +
219C HIS* 3.9 15.3 + - + -
113D VAL* 4.0 13.7 - - - +
114D PRO 4.6 6.7 + - - -
115D LEU* 3.7 16.7 - - - +
116D PHE 5.4 0.4 - - - +
123D THR* 3.4 23.5 - - - +
165D GLU* 3.6 38.7 + - - +
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Residues in contact with TYR 173 (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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108C VAL* 3.7 13.7 - - + -
127C LEU* 3.9 10.9 - - + +
130C LEU* 4.2 6.7 - - + +
145C ALA* 3.0 24.6 + - + -
147C TRP* 3.3 56.4 + + + -
169C VAL 3.1 14.1 + - - +
170C LEU* 3.4 20.2 - - + -
172C ARG* 1.3 80.8 - - - +
174C ALA* 1.3 73.1 + - + +
176C ILE* 3.3 3.5 + - - +
177C CYS* 3.0 41.8 + - - -
184C PRO* 3.6 15.5 - - + +
185C ILE 2.9 32.8 + - - -
186C VAL* 4.6 2.7 - - + -
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Residues in contact with ALA 174 (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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170C LEU 2.9 18.1 + - - +
171C ALA 3.9 3.6 - - - +
172C ARG 3.3 0.2 - - - -
173C TYR* 1.3 80.4 - - + +
175C SER* 1.3 62.4 + - - +
177C CYS* 3.4 1.9 + - - +
178C GLN* 3.0 30.9 + - - +
184C PRO* 3.7 27.4 - - + -
186C VAL* 4.4 8.3 - - + -
216C LEU* 4.0 18.6 - - + -
221C VAL* 4.1 8.5 - - + -
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Residues in contact with SER 175 (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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171C ALA 3.1 18.5 + - - -
172C ARG* 3.6 15.6 + - - -
174C ALA* 1.3 76.3 - - - +
176C ILE* 1.3 62.1 + - - +
178C GLN* 3.4 5.8 + - - +
179C SER* 3.1 22.2 + - - -
219C HIS* 4.5 10.4 + - - -
221C VAL* 3.9 14.4 - - - +
116D PHE* 3.5 37.6 + - - +
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Residues in contact with ILE 176 (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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127C LEU* 4.3 32.1 - - + +
130C LEU* 3.8 15.3 - - + +
131C ALA* 3.4 39.7 - - + +
134C CYS* 5.0 0.9 - - - -
172C ARG* 3.0 48.0 + - - +
173C TYR 3.8 4.0 - - - +
175C SER* 1.3 72.7 - - - +
177C CYS* 1.3 66.6 + - - +
179C SER* 2.5 25.7 + - - +
180C GLN* 3.3 7.4 + - - +
113D VAL* 5.9 1.6 - - + -
114D PRO 5.8 1.8 - - - +
116D PHE* 5.8 0.9 - - - -
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Residues in contact with CYS 177 (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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108C VAL* 4.8 1.6 - - - -
130C LEU* 4.9 1.8 - - - -
134C CYS* 4.1 20.2 - - - -
145C ALA* 3.7 20.4 - - - -
173C TYR* 3.0 49.1 + - - +
174C ALA 3.6 4.7 - - - +
176C ILE* 1.3 75.9 - - - +
178C GLN* 1.3 62.6 - - - +
180C GLN* 3.1 8.0 + - - +
182C ILE* 2.9 42.9 + - + +
184C PRO* 3.9 9.0 - - + -
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Residues in contact with GLN 178 (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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7C PRO* 5.4 1.3 - - + +
11C LEU* 3.7 19.1 - - - +
15C LEU* 3.7 19.0 - - + +
174C ALA 3.0 21.8 + - - +
175C SER* 3.8 5.3 - - - +
176C ILE 3.2 0.2 - - - -
177C CYS* 1.3 70.5 - - - +
179C SER* 1.3 64.4 + - - +
180C GLN 3.0 4.9 - - - -
181C ARG* 3.1 11.8 + - - +
182C ILE 3.6 4.3 - - - -
184C PRO* 3.8 12.1 - - + -
220C HIS 5.1 0.2 - - - +
221C VAL* 3.8 11.2 - - - +
222C TYR* 2.9 52.2 + - - +
225C GLY* 3.1 22.4 + - - -
226C THR* 3.3 7.5 - - - +
116D PHE* 4.2 12.7 - - + -
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Residues in contact with SER 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C LEU* 5.0 4.4 - - - +
131C ALA* 4.9 1.4 - - - +
175C SER 3.1 13.6 + - - -
176C ILE* 2.5 26.3 + - - +
178C GLN* 1.3 75.3 - - - +
180C GLN* 1.3 79.1 + - - +
181C ARG* 3.5 3.7 + - - +
116D PHE* 3.7 39.0 - - - -
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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