Contacts of the strand formed by residues 149 - 160 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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145B LYS* 3.2 6.4 + - - -
146B VAL 2.9 27.5 + - - +
147B GLU 3.4 1.6 - - - -
148B GLY* 1.3 79.8 - - - +
150B TRP* 1.3 72.9 + - - -
224B PHE* 3.7 5.2 - - - -
225B VAL 3.2 11.9 - - - -
226B PRO 3.7 0.7 - - - -
227B GLU* 3.6 15.9 + - - -
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Residues in contact with TRP 150 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143B ALA* 3.8 16.8 - - + -
144B GLU 3.2 9.4 - - - +
145B LYS* 3.4 48.2 - - + -
146B VAL* 4.2 1.8 - - - +
149B GLY* 1.3 92.9 + - - -
151B ARG* 1.3 66.5 + - - +
152B LEU* 5.4 0.9 - - + -
174B THR* 3.5 26.2 - - + -
190B PHE* 3.5 27.7 - + + -
223B LEU 4.1 0.2 - - - -
224B PHE* 3.2 14.5 - - - -
225B VAL* 2.9 39.3 + - + -
226B PRO 4.3 9.9 - - - -
227B GLU* 3.2 21.3 + - - -
230B LEU* 4.4 19.9 - - + +
234B ARG* 3.7 35.9 - - + -
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Residues in contact with ARG 151 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142B LYS 3.5 1.6 - - - +
143B ALA* 3.4 4.0 - - - -
144B GLU* 2.8 50.6 + - + +
146B VAL* 3.3 30.8 - - + +
150B TRP* 1.3 76.0 - - - +
152B LEU* 1.3 63.2 + - - +
153B ASN* 4.2 9.9 + - - +
222B ASP* 2.6 54.2 + - - +
223B LEU 3.3 1.8 - - - -
224B PHE* 3.8 26.3 - - - +
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Residues in contact with LEU 152 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141B THR* 4.9 2.0 - - + -
142B LYS 3.4 5.4 - - - +
143B ALA* 3.6 30.3 - - + -
150B TRP* 5.4 0.9 - - + -
151B ARG* 1.3 73.0 - - - +
153B ASN* 1.3 63.4 + - - +
170B VAL* 4.8 4.9 - - + -
172B ALA* 3.8 14.4 - - + -
190B PHE* 4.4 15.9 - - + -
192B PHE* 4.1 25.8 - - + -
220B LEU* 3.6 22.3 - - + +
222B ASP 3.1 8.8 + - - -
223B LEU* 2.8 52.6 + - + +
225B VAL* 4.2 18.2 - - + -
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Residues in contact with ASN 153 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140B LYS 4.3 0.5 - - - +
141B THR* 3.4 4.8 - - - +
142B LYS* 2.9 44.1 + - + +
144B GLU* 5.5 2.6 + - - +
151B ARG* 4.5 8.5 + - - +
152B LEU* 1.3 85.8 + - - +
154B GLY* 1.3 58.9 + - - +
220B LEU* 3.2 4.4 - - - +
221B GLU* 3.5 6.8 - - - +
222B ASP* 2.7 43.5 + - - +
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Residues in contact with GLY 154 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140B LYS 5.2 1.6 - - - -
141B THR* 3.9 15.7 - - - -
153B ASN* 1.3 75.5 - - - +
155B THR* 1.3 65.5 + - - -
219B ILE* 3.7 2.8 - - - +
220B LEU* 2.9 36.8 + - - +
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Residues in contact with THR 155 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129B GLU* 3.0 31.1 + - - +
130B PRO* 3.6 22.6 - - + +
141B THR* 3.8 3.0 + - - +
154B GLY* 1.3 77.5 + - - -
156B LYS* 1.3 67.6 + - - +
217B GLN* 3.5 37.0 - - + +
218B LEU 3.2 6.7 - - - +
219B ILE* 4.3 11.7 - - + +
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Residues in contact with LYS 156 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126B GLY* 3.3 24.9 + - - +
127B LEU 3.2 15.0 + - - -
128B THR 3.4 11.7 - - - +
129B GLU* 2.9 18.7 + - + -
130B PRO* 4.5 0.2 - - - -
139B LEU* 3.6 4.8 - - - +
141B THR* 3.1 16.4 - - - +
155B THR* 1.3 82.6 - - - +
157B GLN* 1.3 60.4 + - - +
159B ILE* 3.7 21.0 - - + +
170B VAL* 3.7 16.2 - - + -
171B MET 2.7 28.3 + - - -
217B GLN* 3.2 9.4 - - - +
218B LEU* 2.8 45.3 + - + +
220B LEU* 5.1 5.6 - - + -
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Residues in contact with GLN 157 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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347A TYR* 3.0 22.7 + - - +
128B THR* 2.5 38.2 + - - +
129B GLU* 3.7 21.2 - - - +
130B PRO* 3.0 24.5 - - - +
156B LYS* 1.3 72.3 - - - +
158B PHE* 1.3 104.3 + - + +
159B ILE* 3.3 4.8 - - - +
205B GLU* 4.4 7.3 + - - -
217B GLN* 3.1 33.4 + - - +
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Residues in contact with PHE 158 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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346A GLY* 3.6 31.6 - - - -
347A TYR* 3.7 38.4 - + - -
350A VAL* 3.8 20.6 - - + -
128B THR* 4.4 5.9 + - - +
157B GLN* 1.3 94.8 - - + +
159B ILE* 1.3 62.1 + - - +
160B THR* 3.7 5.9 + - - -
205B GLU* 2.9 35.2 - - + -
215B THR* 3.6 25.3 - - + +
216B ALA 3.7 8.2 + - - -
217B GLN* 4.7 0.2 - - - +
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Residues in contact with ILE 159 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124B ALA* 3.9 26.9 - - + -
125B TRP 3.7 20.6 - - - +
126B GLY* 3.6 20.4 - - - -
127B LEU 4.3 0.9 - - - +
128B THR* 4.0 8.3 - - - +
156B LYS* 3.7 27.6 - - + -
157B GLN 3.3 17.3 - - - +
158B PHE* 1.3 71.2 - - - +
160B THR* 1.3 61.3 + - - +
161B GLN 3.4 0.7 + - - -
162B GLY* 3.0 17.0 + - - -
215B THR* 3.5 2.4 - - - -
216B ALA 2.9 33.9 + - - +
218B LEU* 3.9 19.7 - - + -
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Residues in contact with THR 160 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87B LEU* 4.2 17.9 - - + +
91B SER* 3.2 25.4 - - - +
95B LEU* 5.4 4.0 - - - +
124B ALA* 3.6 14.2 - - - -
125B TRP 4.4 2.4 + - - -
158B PHE 3.7 5.7 + - - -
159B ILE* 1.3 71.7 - - - +
161B GLN* 1.3 102.1 + - - +
162B GLY 3.1 1.3 + - - -
213B SER* 4.1 13.5 - - - +
214B ASP 3.3 9.6 - - - +
215B THR* 4.7 4.2 + - - +
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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