Contacts of the strand formed by residues 149 - 160 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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145A LYS* 3.1 9.2 + - - +
146A VAL* 2.9 30.6 + - - +
147A GLU 3.4 1.6 - - - -
148A GLY* 1.3 81.0 - - - +
150A TRP* 1.3 69.1 + - - -
224A PHE* 4.1 1.3 - - - -
225A VAL 3.3 11.2 - - - -
226A PRO 3.9 0.2 - - - -
227A GLU* 3.1 19.4 + - - -
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Residues in contact with TRP 150 (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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143A ALA 3.9 9.0 - - - -
144A GLU 3.2 7.9 - - - -
145A LYS* 3.4 50.5 - - + +
146A VAL* 3.5 7.4 - - - +
149A GLY* 1.3 77.5 - - - -
151A ARG* 1.3 63.5 + - - +
152A LEU* 4.7 3.4 - - + -
174A THR* 3.9 20.4 - - + -
190A PHE* 3.5 32.1 - + + -
223A LEU 3.4 0.7 - - - +
224A PHE* 3.4 8.9 - - - -
225A VAL* 2.8 41.8 + - + -
226A PRO 4.1 12.3 - - - -
227A GLU* 3.5 15.2 + - - +
230A LEU* 4.1 33.0 - - + +
234A ARG* 3.6 37.2 - - + -
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Residues in contact with ARG 151 (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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142A LYS 3.6 1.4 - - - +
143A ALA* 3.2 4.2 - - - -
144A GLU* 2.8 54.4 + - + +
146A VAL* 4.1 21.3 - - + +
150A TRP* 1.3 77.2 - - - +
152A LEU* 1.3 61.7 + - - +
153A ASN* 4.1 12.3 + - - +
197A ARG* 5.6 6.7 - - - +
222A ASP* 2.6 50.5 + - - +
223A LEU 3.3 2.5 - - - -
224A PHE* 3.7 30.2 - - - +
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Residues in contact with LEU 152 (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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141A THR* 5.5 0.4 - - + -
142A LYS 3.5 2.2 - - - +
143A ALA* 3.3 31.0 - - + -
150A TRP* 4.7 1.6 - - + -
151A ARG* 1.3 71.9 - - - +
153A ASN* 1.3 62.3 + - - +
170A VAL* 5.1 4.0 - - + -
172A ALA* 4.7 6.3 - - + -
190A PHE* 4.4 19.3 - - + -
192A PHE* 3.8 20.9 - - + -
220A LEU* 3.7 22.6 - - + +
221A GLU 3.8 0.2 - - - -
222A ASP 3.0 8.5 + - - -
223A LEU* 2.7 65.8 + - + +
225A VAL* 3.9 17.5 - - + -
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Residues in contact with ASN 153 (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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140A LYS 4.5 0.9 - - - +
141A THR* 3.4 4.9 - - - +
142A LYS* 2.8 47.8 + - + +
144A GLU* 6.1 1.2 - - - +
151A ARG* 4.3 12.3 + - - +
152A LEU* 1.3 77.8 + - - +
154A GLY* 1.3 58.8 + - - +
220A LEU* 3.3 3.9 - - - +
221A GLU* 3.5 4.5 - - - -
222A ASP* 2.5 51.3 + - - +
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Residues in contact with GLY 154 (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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140A LYS 5.3 0.9 - - - -
141A THR* 3.7 15.5 - - - -
153A ASN* 1.3 75.2 - - - +
155A THR* 1.3 63.9 + - - -
219A ILE* 3.6 1.4 - - - +
220A LEU* 2.7 46.3 + - - +
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Residues in contact with THR 155 (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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129A GLU* 3.5 27.6 - - - +
130A PRO* 3.6 14.4 - - + +
141A THR* 3.6 5.0 + - - +
154A GLY* 1.3 78.1 + - - -
156A LYS* 1.3 69.0 + - - +
217A GLN* 3.5 36.6 - - + +
218A LEU 3.1 11.0 - - - +
219A ILE* 4.0 17.9 - - + +
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Residues in contact with LYS 156 (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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126A GLY* 3.2 29.4 + - - +
127A LEU 3.1 15.8 + - - -
128A THR 3.3 11.9 - - - +
129A GLU* 2.8 20.4 + - + -
139A LEU* 3.2 6.1 - - - +
141A THR* 3.4 12.8 - - - +
155A THR* 1.3 80.2 - - - +
157A GLN* 1.3 60.7 + - - +
159A ILE* 3.7 20.4 - - + -
170A VAL* 3.5 16.6 - - + -
171A MET 2.8 26.2 + - - -
217A GLN* 3.3 9.7 - - - +
218A LEU* 2.7 44.5 + - + +
220A LEU* 5.0 6.1 - - + -
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Residues in contact with GLN 157 (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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128A THR* 2.7 24.5 + - + -
129A GLU* 3.7 6.7 - - - +
130A PRO* 3.5 34.3 - - - +
156A LYS* 1.3 72.7 - - - +
158A PHE* 1.3 103.6 + - + +
159A ILE* 3.5 11.4 - - - +
205A GLU* 4.1 7.3 - - - +
217A GLN* 2.9 37.3 + - - +
347B TYR* 3.2 31.5 + - - +
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Residues in contact with PHE 158 (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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128A THR* 4.7 10.9 - - + -
157A GLN* 1.3 93.8 + - + +
159A ILE* 1.3 63.5 + - - +
160A THR* 3.5 5.9 + - - -
205A GLU* 3.1 36.1 + - - -
215A THR* 3.7 24.2 - - + +
216A ALA 3.7 8.9 + - - -
217A GLN* 4.7 0.2 - - - +
346B GLY* 3.8 33.2 - - - -
347B TYR* 3.8 39.7 - + - -
350B VAL* 3.7 13.7 - - + -
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Residues in contact with ILE 159 (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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124A ALA* 4.0 11.4 - - + -
125A TRP 3.4 43.3 - - - +
126A GLY* 3.6 11.7 - - - -
127A LEU 4.1 5.4 - - - +
128A THR* 4.2 5.4 - - - +
156A LYS* 3.7 25.4 - - + -
157A GLN 3.5 16.8 - - - +
158A PHE* 1.3 74.6 - - - +
160A THR* 1.3 65.7 + - - +
161A GLN 3.4 0.5 + - - -
162A GLY* 3.0 18.2 + - - -
215A THR* 3.4 1.8 - - - -
216A ALA 3.0 32.1 + - - +
218A LEU* 4.0 17.7 - - + -
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Residues in contact with THR 160 (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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87A LEU* 4.3 19.0 - - + +
91A SER* 3.3 24.5 - - - +
95A LEU* 5.9 2.2 - - - +
124A ALA* 3.7 13.7 - - - -
125A TRP 4.4 1.4 + - - -
158A PHE 3.5 6.5 + - - -
159A ILE* 1.3 72.6 - - - +
161A GLN* 1.3 103.0 + - - +
162A GLY 3.1 1.1 + - - -
213A SER* 4.0 14.6 - - - +
214A ASP 3.2 11.2 - - - +
215A THR* 4.6 4.6 + - - +
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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