Contacts of the strand formed by residues 214 - 223 (chain X) in PDB entry 2XAC
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 HIS 214 (chain X).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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210X THR* 4.2 0.4 - - - -
211X VAL 2.8 37.5 + - - +
212X ASN* 3.0 15.7 + - + -
213X GLY* 1.3 72.2 - - - +
215X LEU* 1.3 62.6 + - - +
216X TYR* 3.1 30.2 + - + +
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Residues in contact with LEU 215 (chain X).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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208X GLU* 4.1 35.0 - - + +
209X ALA 3.4 8.7 - - - +
210X THR* 3.4 23.3 - - + +
213X GLY 3.1 8.0 + - - +
214X HIS* 1.3 72.6 + - - +
216X TYR* 1.3 66.8 + - - +
217X LYS* 4.3 14.0 + - + +
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Residues in contact with TYR 216 (chain X).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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132X GLY* 4.2 11.7 + - - -
133X ARG* 3.7 45.3 + - + +
134X PRO* 3.5 28.7 - - + -
135X PHE* 3.3 6.0 - - + -
208X GLU* 3.4 1.6 - - - +
209X ALA 2.6 44.8 + - - +
211X VAL* 3.8 21.0 + - + +
214X HIS* 3.1 51.8 + + + +
215X LEU* 1.3 75.9 - - - +
217X LYS* 1.3 62.0 + - - +
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Residues in contact with LYS 217 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18B ILE* 5.6 16.0 - - - +
133X ARG* 3.8 4.7 + - - +
135X PHE* 4.5 0.7 - - - -
139X TYR* 3.3 38.6 - - + -
206X THR* 3.5 23.6 - - + -
207X CYS 3.1 4.7 - - - +
208X GLU* 3.9 18.1 + - + +
215X LEU* 5.0 13.8 - - + +
216X TYR* 1.3 77.7 - - - +
218X THR* 1.3 63.7 + - - +
219X ASN* 4.1 3.8 - - - +
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Residues in contact with THR 218 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133X ARG* 2.7 29.6 + - - +
135X PHE* 3.5 17.6 - - - +
137X GLU* 3.8 22.2 - - + +
138X MET 5.9 1.8 - - - +
139X TYR* 4.9 4.0 - - + -
140X SER 6.1 1.3 - - - +
144X GLU* 6.2 0.4 - - + +
206X THR* 3.4 3.3 - - - -
207X CYS* 2.8 39.9 + - - -
217X LYS* 1.3 71.5 - - - +
219X ASN* 1.3 68.8 + - - +
220X TYR* 3.3 30.8 - - + +
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Residues in contact with ASN 219 (chain X).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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17B TRP* 5.6 2.0 - - - -
18B ILE* 4.3 12.5 - - - +
139X TYR* 3.1 27.9 + - - -
140X SER 3.5 20.8 + - - +
141X GLU 4.6 3.7 + - - +
142X ILE 4.4 0.6 + - - -
143X PRO* 3.3 37.1 - - + +
144X GLU 3.6 3.6 + - - -
204X LEU* 4.0 19.3 - - + -
205X LEU 3.7 3.6 - - - -
206X THR* 4.1 11.6 - - + +
217X LYS* 5.1 4.2 - - - +
218X THR* 1.3 81.5 - - - +
220X TYR* 1.3 64.6 + - - +
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Residues in contact with TYR 220 (chain X).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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137X GLU* 2.9 25.9 + - - -
143X PRO* 4.4 1.1 - - - -
144X GLU* 3.5 35.9 - - + -
146X ILE* 3.9 6.3 - - + -
156X ILE* 3.5 30.3 - - + -
157X PRO* 3.5 26.2 - - + -
158X CYS* 3.1 45.8 + - + +
203X GLY 3.6 0.9 - - - +
204X LEU* 3.3 3.6 - - - +
205X LEU* 2.6 47.4 + - - +
207X CYS* 4.0 1.3 - - - -
218X THR* 3.3 36.2 - - + +
219X ASN* 1.3 73.2 - - - +
221X LEU* 1.3 61.7 + - - +
222X THR* 3.8 0.4 + - - -
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Residues in contact with LEU 221 (chain X).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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46A GLN* 5.4 2.5 - - - +
48A VAL* 3.8 34.8 - - + -
81A LEU* 3.6 31.6 - - + -
83A ILE* 4.4 10.5 - - + -
17B TRP* 4.4 7.0 - - + -
21B TYR* 5.9 1.6 - - + -
62B PRO* 6.4 0.7 - - + -
143X PRO* 4.1 13.2 - - + +
144X GLU 3.0 13.3 + - - +
145X ILE* 3.7 8.6 - - + +
146X ILE* 3.0 27.3 + - - +
203X GLY* 3.7 10.8 - - - +
204X LEU* 4.4 6.5 - - + +
220X TYR* 1.3 71.5 - - - +
222X THR* 1.3 79.4 + - - +
223X HIS* 4.7 8.1 - - + +
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Residues in contact with THR 222 (chain X).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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62B PRO* 5.1 2.3 - - - +
146X ILE* 3.6 10.1 - - + -
148X MET* 3.7 15.0 - - - -
154X LEU* 4.2 14.8 - - + -
156X ILE* 4.2 18.4 - - + -
201X GLU 2.6 23.8 + - - +
202X ILE* 3.3 5.6 - - - +
203X GLY* 2.8 33.5 + - - -
205X LEU* 3.5 20.2 - - + -
220X TYR 4.6 1.3 - - - +
221X LEU* 1.3 87.8 - - - +
223X HIS* 1.3 63.1 + - - +
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Residues in contact with HIS 223 (chain X).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45A LYS* 5.4 9.5 - - - +
46A GLN* 4.0 29.1 + - - +
83A ILE* 5.1 7.2 - - + +
62B PRO* 6.3 1.1 - - + -
145X ILE* 3.6 20.6 - - + +
146X ILE 3.1 14.4 + - - -
147X HIS* 3.2 55.5 + + + -
148X MET* 2.8 30.4 + - - +
202X ILE* 4.3 6.7 - - - -
221X LEU* 4.8 5.8 - - + -
222X THR* 1.3 77.2 - - - +
224X ARG* 1.3 72.5 + - - +
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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