Contacts of the helix formed by residues 132 - 148 (chain C) in PDB entry 3L49
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 ASN 132 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131C SER* 1.3 70.8 - - - +
133C ASN* 1.3 57.0 + - - +
134C TYR* 3.2 17.7 + - - +
135C SER* 3.1 37.7 + - - -
136C ILE* 3.0 31.5 + - - +
299C PHE* 3.8 33.1 - - + -
300C ALA 4.5 2.6 + - - -
302C ALA* 5.8 0.8 - - - +
139D GLU* 3.5 22.8 - - - +
142D LEU* 3.9 10.0 - - - +
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Residues in contact with ASN 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C THR* 3.2 26.1 + - - +
131C SER* 3.1 14.5 + - - +
132C ASN* 1.3 70.4 + - - +
134C TYR* 1.3 60.2 + - + +
135C SER 3.3 0.2 - - - -
136C ILE* 4.0 11.8 - - - +
137C GLY* 2.8 30.8 + - - -
165C VAL* 3.4 21.1 - - - +
168C ILE* 3.6 32.7 - - + +
169C ARG* 2.7 43.7 + - + +
172C GLN* 4.3 0.2 - - - +
272C GLN* 4.7 0.6 + - - +
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Residues in contact with TYR 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C ASN* 3.2 13.6 + - - +
133C ASN* 1.3 80.3 - - - +
135C SER* 1.3 56.5 + - - +
138C ALA* 3.2 23.2 + - - +
168C ILE* 3.7 31.1 - - + +
172C GLN* 3.3 37.7 - - - +
299C PHE* 5.1 4.9 - + - -
134D TYR 5.9 0.2 - - - -
138D ALA* 3.8 17.3 - - + -
142D LEU* 3.9 26.9 - - + -
172D GLN* 4.7 1.2 + - - -
175D TYR* 3.6 27.3 + + - -
176D VAL* 4.0 27.0 + - + +
179D ALA* 3.8 23.9 - - - +
180D PHE* 5.1 2.8 - - - -
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Residues in contact with SER 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C ASN* 3.1 33.0 + - - -
134C TYR* 1.3 74.1 - - - +
136C ILE* 1.3 60.3 + - - +
138C ALA* 3.2 2.6 + - - +
139C GLU* 2.8 46.3 + - - +
135D SER* 3.8 23.5 + - - +
138D ALA* 4.7 1.9 - - - +
139D GLU* 3.5 19.0 + - - +
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Residues in contact with ILE 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131C SER* 3.7 23.1 - - - -
132C ASN 3.0 17.5 + - - +
133C ASN* 3.9 10.5 - - - +
135C SER* 1.3 75.2 - - - +
137C GLY* 1.3 65.2 + - - +
139C GLU* 4.1 4.2 - - - +
140C LEU* 3.0 28.9 + - - +
169C ARG* 4.5 7.2 - - + +
249C VAL* 3.8 22.7 - - + -
270C ALA* 3.7 27.4 - - + +
272C GLN* 4.2 13.5 - - + -
302C ALA* 3.7 31.4 - - + -
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Residues in contact with GLY 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C ASN 2.8 22.4 + - - -
136C ILE* 1.3 76.8 - - - +
138C ALA* 1.3 61.4 + - - +
140C LEU* 4.2 4.3 - - - +
141C ALA* 3.4 19.8 + - - +
169C ARG* 4.1 18.1 - - - +
172C GLN* 3.6 19.1 - - - +
173C MET* 4.1 5.2 + - - +
222C TRP* 5.5 1.8 + - - -
249C VAL* 6.1 0.2 - - - -
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Residues in contact with ALA 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C TYR 3.2 18.1 + - - +
135C SER* 3.2 6.0 + - - +
137C GLY* 1.3 73.7 - - - +
139C GLU* 1.3 55.8 + - - +
141C ALA* 3.1 4.9 + - - +
142C LEU* 2.8 42.2 + - + +
172C GLN* 3.7 10.0 - - - +
176C VAL* 4.0 13.2 - - + +
134D TYR* 3.7 30.7 - - + -
135D SER* 4.8 3.6 - - - +
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Residues in contact with GLU 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C SER* 2.8 30.5 + - - +
136C ILE* 4.1 3.4 - - - +
138C ALA* 1.3 73.1 - - - +
140C LEU* 1.3 57.4 + - - +
142C LEU* 3.4 8.1 + - - +
143C GLN* 2.9 30.1 + - - +
304C LEU* 3.7 33.8 + - + +
132D ASN* 3.5 22.0 + - - +
135D SER* 3.3 16.6 + - - +
139D GLU* 5.3 1.4 - - - +
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Residues in contact with LEU 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C ILE 3.0 17.9 + - - +
137C GLY* 4.2 4.0 - - - +
139C GLU* 1.3 76.5 - - - +
141C ALA* 1.3 61.8 + - - +
143C GLN* 3.4 3.7 + - - +
144C MET* 3.1 23.7 + - - +
222C TRP* 3.8 26.7 - - + +
223C ALA 4.5 0.4 - - - +
247C TYR* 4.2 11.5 - - + -
248C GLY* 3.6 36.6 - - - +
249C VAL* 3.8 17.9 - - + -
268C ALA* 4.0 18.2 - - + +
270C ALA* 4.3 6.7 - - + +
304C LEU* 3.8 25.4 - - + +
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Residues in contact with ALA 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C GLY 3.4 12.9 + - - +
138C ALA 3.1 7.7 + - - +
140C LEU* 1.3 76.4 - - - +
142C LEU* 1.3 59.5 + - - +
144C MET* 3.4 15.1 + - + +
145C VAL* 3.0 32.7 + - - +
173C MET* 3.6 30.7 - - + -
176C VAL* 3.9 16.2 - - + -
177C LEU* 4.3 4.9 - - + +
222C TRP* 5.6 0.4 - - - +
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Residues in contact with LEU 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C ALA* 2.8 25.9 + - + +
139C GLU* 3.6 5.8 - - - +
141C ALA* 1.3 74.7 - - - +
143C GLN* 1.3 59.2 + - - +
145C VAL* 3.3 2.0 + - - -
146C ALA* 2.9 24.1 + - - +
176C VAL* 3.9 20.4 - - + -
180C PHE* 4.9 6.3 - - + -
132D ASN* 3.7 35.2 - - - +
134D TYR* 4.1 20.6 - - + -
297D PHE* 3.1 40.5 - - + -
299D PHE* 3.8 18.6 - - + -
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Residues in contact with GLN 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C GLU 2.9 17.5 + - - +
140C LEU* 3.5 7.6 - - - +
142C LEU* 1.3 76.4 - - - +
144C MET* 1.3 52.3 + - - +
146C ALA* 3.1 11.6 + - - +
147C ASP* 2.8 72.0 + - - +
247C TYR* 4.4 1.1 - - + -
268C ALA* 4.1 14.6 - - + -
304C LEU* 4.0 12.6 - - + +
306C THR* 3.5 36.9 + - + +
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Residues in contact with MET 144 (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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140C LEU 3.1 9.0 + - - +
141C ALA* 3.5 22.2 - - + +
142C LEU 3.3 0.2 - - - -
143C GLN* 1.3 77.5 - - - +
145C VAL* 1.3 59.6 + - + +
147C ASP* 3.5 2.1 + - - +
148C LEU* 3.0 39.8 + - + +
154C VAL* 3.9 21.3 - - + -
173C MET* 5.2 6.5 - - + -
177C LEU* 5.3 4.5 - - + -
220C ALA* 3.8 19.3 - - + -
221C ILE 4.8 0.2 - - - +
222C TRP* 3.5 35.2 - - + -
247C TYR* 3.6 45.5 + - + -
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Residues in contact with VAL 145 (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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141C ALA 3.0 20.9 + - - +
142C LEU* 3.7 6.5 - - - +
144C MET* 1.3 75.3 - - + +
146C ALA* 1.3 63.3 + - - +
148C LEU* 3.2 11.0 + - - +
150C GLY* 3.0 37.8 + - - -
176C VAL* 4.4 2.2 - - + -
177C LEU* 3.9 22.4 - - + -
180C PHE* 3.6 51.8 - - + -
183C VAL* 4.2 13.5 - - + -
296D PRO* 4.1 1.0 - - + +
297D PHE* 4.3 6.1 - - + -
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Residues in contact with ALA 146 (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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142C LEU 2.9 14.0 + - - +
143C GLN* 3.1 15.5 + - - +
145C VAL* 1.3 75.4 - - - +
147C ASP* 1.3 64.4 + - - +
149C GLY* 3.2 12.0 + - - -
295D LYS* 3.3 37.1 + - + +
296D PRO* 4.2 12.1 - - + +
297D PHE* 4.0 16.5 - - + +
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Residues in contact with ASP 147 (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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143C GLN* 2.8 44.4 + - - +
144C MET 3.7 1.1 - - - +
146C ALA* 1.3 71.3 - - - +
148C LEU* 1.3 59.9 + - - +
149C GLY 3.3 0.9 + - - -
245C ARG* 4.1 29.0 + - - +
247C TYR* 2.8 39.2 + - - +
267C GLY* 4.4 8.5 - - - +
306C THR* 5.9 0.2 - - - -
295D LYS* 4.5 10.4 + - - +
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Residues in contact with LEU 148 (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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144C MET* 3.0 24.1 + - + +
145C VAL* 3.7 6.1 - - - +
146C ALA 3.2 0.8 - - - -
147C ASP* 1.3 76.9 - - + +
149C GLY* 1.3 59.5 + - - +
150C GLY* 4.2 2.9 - - - +
151C LYS* 3.0 34.2 + - - +
152C GLY* 4.4 9.4 - - - -
153C ASN 4.8 0.2 - - - +
154C VAL* 4.1 25.6 - - + -
183C VAL* 4.2 18.2 - - + -
219C GLY* 3.8 34.3 - - - +
220C ALA* 4.2 10.3 - - + -
245C ARG* 4.3 7.2 - - - +
247C TYR* 5.6 0.4 - - - +
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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