Contacts of the helix formed by residues 203 - 218 (chain T) in PDB entry 2WQT
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 203 (chain T).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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90R ASP* 3.6 27.2 + - + +
168R GLY* 5.5 4.4 - - - -
123T PHE* 3.8 13.0 - + - -
127T TYR* 4.5 6.9 + - - -
178T LEU* 3.6 21.9 + - + +
179T LYS* 3.6 34.3 + - + +
197T GLY 3.8 1.8 + - - -
200T CYS 3.1 10.6 + - - +
201T LEU 3.1 2.2 + - - -
202T GLY* 1.3 79.9 - - - +
204T PRO* 1.3 68.6 - - + +
205T LEU* 3.1 46.7 + - + +
206T ASN* 2.8 39.7 + - - +
207T ALA 3.7 0.5 + - - -
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Residues in contact with PRO 204 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108T ILE* 3.8 26.0 - - + -
110T LEU* 6.1 0.4 - - + -
178T LEU* 3.4 27.8 - - + +
197T GLY* 3.3 20.9 - - - +
200T CYS* 3.7 18.1 - - + +
203T HIS* 1.3 89.6 - - + +
205T LEU* 1.3 65.4 + - + +
207T ALA* 3.2 15.8 + - - +
208T ALA 3.2 8.5 + - - -
230T THR* 3.7 26.3 - - + +
233T LEU* 4.9 1.6 - - + -
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Residues in contact with LEU 205 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110T LEU* 3.7 20.9 - - + -
123T PHE* 3.5 23.3 - - + +
126T LEU* 3.8 12.8 - - + -
127T TYR* 3.6 50.3 - - + -
130T ILE* 3.6 24.9 - - + -
178T LEU* 4.2 11.9 - - + -
203T HIS* 3.0 16.0 + - + +
204T PRO* 1.3 76.9 - - + +
206T ASN* 1.3 60.8 + - - +
208T ALA* 3.6 4.0 - - - +
209T VAL* 2.8 32.6 + - - +
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Residues in contact with ASN 206 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89R GLY* 3.5 10.2 - - - -
90R ASP 2.9 25.0 + - - -
91R ASN 4.6 0.4 + - - -
92R GLU* 3.5 26.2 + - + +
123T PHE* 3.4 22.0 - - - -
201T LEU* 2.9 34.7 + - + +
202T GLY* 4.1 0.6 - - - -
203T HIS* 2.8 17.6 + - - +
205T LEU* 1.3 74.5 - - - +
207T ALA* 1.3 58.9 + - - +
209T VAL* 3.7 5.3 - - - +
210T TRP* 2.9 31.0 + - - +
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Residues in contact with ALA 207 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61T VAL* 3.9 19.2 - - + +
64T THR* 4.5 4.3 - - + -
200T CYS* 4.6 4.3 - - - -
201T LEU* 3.9 17.8 - - + +
203T HIS 3.7 1.6 + - - -
204T PRO 3.2 10.2 + - - +
206T ASN* 1.3 79.6 - - - +
208T ALA* 1.3 56.7 + - - +
210T TRP* 3.5 4.1 + - - +
211T LEU* 3.0 30.0 + - - +
230T THR* 3.2 31.2 - - - +
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Residues in contact with ALA 208 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110T LEU* 3.8 23.1 - - + -
126T LEU* 3.5 31.4 - - + +
204T PRO 3.2 7.2 + - - +
205T LEU* 3.6 3.4 - - - +
206T ASN 3.3 0.2 - - - -
207T ALA* 1.3 76.7 - - - +
209T VAL* 1.3 59.0 + - - +
211T LEU* 3.3 5.5 + - - +
212T ALA* 2.9 31.2 + - - +
228T ILE* 4.5 16.9 - - + +
230T THR* 4.5 3.5 - - + +
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Residues in contact with VAL 209 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92R GLU* 6.2 0.2 - - - +
121T ILE* 3.6 13.2 - - + +
122T THR 4.3 1.1 - - - -
123T PHE* 3.8 33.2 - - + +
126T LEU* 4.1 20.6 - - + -
205T LEU 2.8 22.9 + - - +
206T ASN* 3.3 6.3 + - - +
208T ALA* 1.3 72.8 - - - +
210T TRP* 1.3 67.1 + - - +
212T ALA* 3.2 3.3 + - - +
213T ARG* 3.1 58.7 + - - +
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Residues in contact with TRP 210 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39T TYR* 4.4 6.7 - - - -
61T VAL* 4.2 8.7 - - + -
76T GLN* 3.7 31.4 + - - +
77T PRO* 3.5 38.0 - - + +
78T ASP* 3.6 39.3 - - - -
79T PHE* 4.2 12.1 - + + -
201T LEU* 4.5 7.4 - - + -
206T ASN 2.9 17.6 + - - +
207T ALA* 3.6 5.8 - - - +
209T VAL* 1.3 79.1 - - - +
211T LEU* 1.3 90.4 + - + +
213T ARG* 3.5 9.2 + - + +
214T LYS* 3.1 47.7 + - + +
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Residues in contact with LEU 211 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59T ARG* 3.8 25.6 - - + -
61T VAL* 3.8 13.9 - - + -
79T PHE* 3.7 29.6 - - + -
207T ALA 3.0 17.4 + - - +
208T ALA* 3.7 3.4 - - - +
209T VAL 3.2 0.2 - - - -
210T TRP* 1.3 83.9 - - + +
212T ALA* 1.3 65.5 + - - +
214T LYS* 3.2 2.4 + - - +
215T MET* 2.9 50.9 + - + +
222T LEU* 4.1 5.4 - - + -
228T ILE* 3.7 40.8 - - + -
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Residues in contact with ALA 212 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116T LEU* 4.0 33.4 - - + +
118T ALA 4.6 1.1 - - - +
121T ILE* 3.8 18.8 - - + -
126T LEU* 4.4 4.0 - - + -
208T ALA 2.9 20.8 + - - +
209T VAL 3.2 5.1 + - - +
211T LEU* 1.3 73.1 - - - +
213T ARG* 1.3 56.7 + - - +
215T MET* 3.6 2.1 + - - +
216T ALA* 3.1 29.8 + - - +
222T LEU* 3.9 15.1 + - + +
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Residues in contact with ARG 213 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1K MET* 2.9 44.6 - - - +
87R CYS 4.8 8.3 + - - -
92R GLU* 6.0 0.2 + - - -
118T ALA 4.6 0.4 - - - -
119T THR* 3.4 25.9 - - - +
121T ILE* 2.8 38.2 + - + +
122T THR* 4.3 4.8 - - - +
123T PHE 5.3 0.2 - - - +
209T VAL* 3.1 33.0 + - - +
210T TRP* 3.6 8.7 - - + +
212T ALA* 1.3 74.1 - - - +
214T LYS* 1.3 65.6 + - - +
216T ALA* 3.2 6.4 + - - +
217T SER* 2.9 25.1 + - - -
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Residues in contact with LYS 214 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39T TYR* 4.2 25.1 + - - -
76T GLN* 4.3 21.1 - - - +
79T PHE* 4.5 7.4 - - + -
210T TRP* 3.1 36.5 + - + +
211T LEU* 3.6 9.6 - - - +
213T ARG* 1.3 76.2 - - - +
215T MET* 1.3 76.0 + - + +
217T SER* 3.0 12.3 + - - +
218T LEU* 2.9 46.1 + - + +
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Residues in contact with MET 215 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59T ARG* 3.8 33.0 - - - -
79T PHE* 3.1 48.7 - - + -
211T LEU* 2.9 26.2 + - + +
212T ALA 4.0 3.4 - - - +
214T LYS* 1.3 84.5 - - + +
216T ALA* 1.3 59.8 + - - +
218T LEU* 3.3 12.4 + - + +
220T GLU* 2.9 49.3 + - - +
222T LEU* 3.8 30.1 - - + +
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Residues in contact with ALA 216 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116T LEU 4.0 4.3 - - - +
117T PRO 3.4 28.5 - - - +
118T ALA 3.9 9.4 - - - +
119T THR* 3.8 15.5 - - + +
212T ALA 3.1 18.8 + - - +
213T ARG 3.2 5.1 + - - +
215T MET* 1.3 77.0 - - - +
217T SER* 1.3 60.3 + - - +
219T GLY* 3.2 13.7 + - - -
221T PRO* 4.2 14.1 - - - +
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Residues in contact with SER 217 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119T THR* 4.0 16.5 - - - +
213T ARG 2.9 14.2 + - - -
214T LYS* 3.0 18.4 + - - +
216T ALA* 1.3 75.4 - - - +
218T LEU* 1.3 68.0 + - - +
219T GLY 3.2 3.3 + - - -
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Residues in contact with LEU 218 (chain T).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39T TYR* 5.9 3.1 - - + -
79T PHE* 3.9 32.8 - - + -
214T LYS* 2.9 33.0 + - + +
215T MET* 3.7 13.5 - - + +
216T ALA 3.2 0.4 - - - -
217T SER* 1.3 85.6 + - - +
219T GLY* 1.3 61.5 + - - +
220T GLU* 3.5 21.3 + - + +
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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