Contacts of the strand formed by residues 149 - 160 (chain C) in PDB entry 2CX9
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 149 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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145C LYS* 3.2 10.4 + - - -
146C VAL* 2.7 31.5 + - - +
148C GLY* 1.3 79.1 - - - +
150C TRP* 1.3 69.7 + - - -
224C PHE* 3.1 8.0 - - - -
225C VAL 3.0 14.1 - - - -
226C PRO 3.8 0.7 - - - -
227C GLU* 3.7 12.1 + - - -
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Residues in contact with TRP 150 (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 ALA* 3.2 29.2 - - + -
144C GLU 3.5 3.8 - - - +
145C LYS* 3.7 44.4 - - + -
146C VAL* 3.3 9.1 - - - +
149C GLY* 1.3 78.6 - - - -
151C ARG* 1.3 60.0 + - - +
152C LEU* 3.7 18.8 - - + -
174C THR* 4.0 13.9 - - + -
190C PHE* 3.5 28.7 - + + -
223C LEU 3.3 0.9 - - - +
224C PHE* 3.2 10.9 - - - -
225C VAL 2.9 28.5 + - - +
226C PRO 3.9 15.3 - - - -
227C GLU* 3.9 14.4 + - - -
229C ALA* 4.9 0.2 - - + -
230C LEU* 3.7 31.2 - - + +
234C ARG* 3.8 33.0 - - + -
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Residues in contact with ARG 151 (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 LYS 3.5 1.6 - - - +
144C GLU* 2.8 38.5 + - + +
146C VAL* 3.8 31.4 - - + +
150C TRP* 1.3 74.9 - - - +
152C LEU* 1.3 62.9 + - - +
153C ASN* 3.1 23.5 + - - +
222C ASP* 3.3 37.6 + - - +
223C LEU 3.5 5.2 - - - -
224C PHE* 3.6 27.1 - - - +
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Residues in contact with LEU 152 (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 THR* 5.3 1.1 - - + -
142C LYS 3.1 9.2 - - - +
143C ALA* 4.3 11.0 - - + -
150C TRP* 3.7 24.0 - - + -
151C ARG* 1.3 70.3 - - - +
153C ASN* 1.3 61.9 + - - +
154C GLY 4.2 0.4 - - - -
170C VAL* 4.6 8.1 - - + -
172C ALA* 5.2 3.4 - - + -
190C PHE* 4.2 20.2 - - + -
192C PHE* 3.8 19.7 - - + -
220C LEU* 3.8 28.7 - - + +
223C LEU* 2.8 37.8 + - + +
225C VAL* 3.5 34.5 - - + -
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Residues in contact with ASN 153 (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 LYS 4.3 1.2 - - - +
141C THR* 3.3 3.4 - - - +
142C LYS* 2.8 42.4 + - + +
144C GLU* 3.6 21.0 + - - +
151C ARG* 3.1 24.2 + - - +
152C LEU* 1.3 71.6 - - - +
154C GLY* 1.3 58.5 + - - +
220C LEU 3.5 4.7 - - - +
222C ASP* 3.0 47.9 + - - +
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Residues in contact with GLY 154 (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 LYS 5.6 0.2 - - - -
141C THR* 3.5 17.9 - - - +
153C ASN* 1.3 74.1 - - - +
155C THR* 1.3 61.2 + - - -
156C LYS* 6.0 0.2 - - - -
219C ILE* 4.6 0.3 - - - +
220C LEU* 2.6 50.9 + - - +
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Residues in contact with THR 155 (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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129C GLU* 3.6 14.7 - - - +
130C PRO* 3.5 25.9 - - + +
141C THR* 3.5 4.9 + - - -
154C GLY* 1.3 77.4 + - - -
156C LYS* 1.3 73.0 + - - +
217C GLN* 3.6 24.9 - - + +
218C LEU 2.9 20.1 + - - +
219C ILE* 3.8 18.0 - - + +
220C LEU* 4.9 0.2 - - - -
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Residues in contact with LYS 156 (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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126C GLY* 2.9 42.2 + - - -
127C LEU 3.3 15.5 + - - +
128C THR 3.4 9.6 - - - +
129C GLU* 3.7 8.4 + - + -
139C LEU* 3.3 11.1 - - - +
141C THR* 4.0 9.4 - - + -
155C THR* 1.3 78.6 - - - +
157C GLN* 1.3 60.2 + - - +
159C ILE* 3.3 19.3 - - + -
170C VAL* 3.5 24.9 - - + -
171C MET 3.1 17.0 + - - -
217C GLN* 3.2 10.6 - - - +
218C LEU* 2.6 47.7 + - + -
220C LEU* 5.0 4.5 - - + +
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Residues in contact with GLN 157 (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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128C THR* 2.8 23.4 + - + +
129C GLU 3.5 24.2 - - - +
130C PRO* 3.6 20.6 - - + +
156C LYS* 1.3 75.1 - - - +
158C PHE* 1.3 109.3 + - + +
159C ILE* 3.2 11.4 + - - +
205C GLU* 5.1 5.3 + - - +
217C GLN* 3.2 44.0 + - - +
347D TYR* 4.3 12.8 + - - +
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Residues in contact with PHE 158 (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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128C THR* 5.0 12.4 - - + -
157C GLN* 1.3 101.9 + - + +
159C ILE* 1.3 62.1 + - - +
160C THR* 3.4 6.4 + - - -
205C GLU* 4.1 18.2 - - + -
215C THR* 3.4 26.8 - - + +
216C ALA 3.6 6.1 + - - -
346D GLY* 3.5 34.8 - - - -
347D TYR* 3.7 32.3 - + - -
350D VAL* 3.9 29.6 - - + -
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Residues in contact with ILE 159 (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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124C ALA* 3.9 13.9 - - + -
125C TRP 3.3 45.1 - - - +
126C GLY* 3.7 7.4 - - - +
127C LEU 4.0 2.9 - - - +
128C THR* 3.5 19.3 - - - +
156C LYS* 3.3 27.1 - - + -
157C GLN 3.3 20.6 - - - +
158C PHE* 1.3 76.7 - - - +
160C THR* 1.3 55.6 + - - +
162C GLY* 2.7 31.2 + - - -
215C THR* 4.1 0.4 - - - +
216C ALA 3.1 20.4 + - - +
218C LEU* 3.9 15.0 - - + -
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Residues in contact with THR 160 (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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87C LEU* 4.3 28.4 - - + +
88C THR* 4.7 1.1 - - - +
91C SER* 3.3 24.5 - - - +
95C LEU* 5.7 4.3 - - - +
123C GLY 3.8 0.2 - - - +
124C ALA* 3.7 14.4 - - - -
125C TRP 4.5 1.0 + - - -
158C PHE 3.4 7.0 + - - -
159C ILE* 1.3 73.2 - - - +
161C GLN* 1.3 99.0 + - - +
213C SER* 5.4 0.7 - - - -
214C ASP 3.1 14.4 - - - +
215C THR* 4.4 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
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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