Contacts of the helix formed by residues 203 - 218 (chain H) 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 H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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123H PHE* 3.8 12.6 - + - -
127H TYR* 4.5 6.9 + - - -
178H LEU* 3.6 25.5 + - + +
179H LYS* 3.6 35.8 + - + +
197H GLY 3.8 2.0 + - - -
200H CYS 3.0 12.5 + - - +
201H LEU 3.1 1.6 + - - -
202H GLY* 1.3 79.6 - - - +
204H PRO* 1.3 68.7 - - + +
205H LEU* 3.1 43.3 + - + +
206H ASN* 2.9 39.2 + - - +
207H ALA 3.7 0.5 + - - -
90I ASP* 3.6 25.4 + - + +
167I GLY 5.7 2.0 - - - -
168I GLY* 5.8 1.4 + - - -
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Residues in contact with PRO 204 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108H ILE* 3.8 26.9 - - + -
110H LEU* 6.0 0.2 - - + -
178H LEU* 3.3 30.7 - - + +
197H GLY* 3.4 18.6 - - - +
200H CYS* 3.7 16.8 - - + +
203H HIS* 1.3 88.7 - - + +
205H LEU* 1.3 64.9 + - + +
207H ALA* 3.2 15.2 + - - +
208H ALA 3.2 9.0 + - - -
230H THR* 3.7 27.1 - - + +
233H LEU* 4.9 1.3 - - + -
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Residues in contact with LEU 205 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110H LEU* 3.7 22.0 - - + -
123H PHE* 3.5 24.5 - - + +
126H LEU* 3.8 11.6 - - + +
127H TYR* 3.6 52.3 - - + +
130H ILE* 3.5 25.4 - - + -
178H LEU* 4.2 12.1 - - + -
203H HIS* 3.1 14.8 + - + +
204H PRO* 1.3 75.4 - - + +
206H ASN* 1.3 60.3 + - - +
208H ALA* 3.6 4.4 - - - +
209H VAL* 2.8 32.4 + - - +
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Residues in contact with ASN 206 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123H PHE* 3.3 21.7 - - - -
201H LEU* 3.0 34.3 + - + +
202H GLY* 4.1 1.0 - - - -
203H HIS* 2.9 18.7 + - - +
205H LEU* 1.3 75.1 - - - +
207H ALA* 1.3 59.5 + - - +
209H VAL* 3.2 6.5 + - - +
210H TRP* 2.9 30.5 + - - +
89I GLY* 3.5 5.5 - - - -
90I ASP 3.0 24.6 + - - -
92I GLU* 3.3 31.5 + - - +
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Residues in contact with ALA 207 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61H VAL* 3.9 18.6 - - + +
64H THR* 4.5 3.8 - - + -
200H CYS* 4.6 3.8 - - - -
201H LEU* 3.9 18.2 - - + +
203H HIS 3.7 1.4 + - - -
204H PRO* 3.2 10.2 + - + +
206H ASN* 1.3 78.1 - - - +
208H ALA* 1.3 56.5 + - - +
210H TRP* 3.5 3.3 + - - +
211H LEU* 3.0 30.0 + - - +
230H THR* 3.1 32.1 - - - +
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Residues in contact with ALA 208 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110H LEU* 3.7 23.6 - - + -
126H LEU* 3.5 30.5 - - + +
204H PRO 3.2 6.3 + - - +
205H LEU* 3.6 3.1 - - - +
207H ALA* 1.3 75.4 - - - +
209H VAL* 1.3 59.5 + - - +
211H LEU* 3.3 5.8 + - - +
212H ALA* 2.9 31.2 + - - +
228H ILE* 4.5 16.7 - - + +
230H THR* 4.5 3.5 - - + +
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Residues in contact with VAL 209 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121H ILE* 3.7 13.9 - - + +
122H THR 4.3 1.1 - - - -
123H PHE* 3.8 34.1 - - + +
126H LEU* 4.1 20.0 - - + -
205H LEU 2.8 29.1 + - - +
206H ASN* 3.6 7.2 - - - +
208H ALA* 1.3 68.9 - - - +
210H TRP* 1.3 67.6 + - - +
212H ALA* 3.2 4.4 + - - +
213H ARG* 3.1 58.4 + - - +
92I GLU* 6.1 1.6 - - - +
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Residues in contact with TRP 210 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39H TYR* 4.4 6.1 - - - -
61H VAL* 4.2 9.4 - - + -
76H GLN* 3.7 30.4 + - - +
77H PRO* 3.5 38.2 - - + +
78H ASP* 3.6 38.1 - - - -
79H PHE* 4.3 12.3 - + + -
201H LEU* 4.5 7.2 - - + -
206H ASN 2.9 16.4 + - - +
207H ALA* 3.6 5.8 - - - +
208H ALA 3.4 0.2 - - - -
209H VAL* 1.3 79.3 - - - +
211H LEU* 1.3 91.1 + - + +
213H ARG* 3.4 10.3 + - - +
214H LYS* 3.1 47.6 + - + +
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Residues in contact with LEU 211 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59H ARG* 3.8 26.2 - - + +
61H VAL* 3.8 14.6 - - + -
79H PHE* 3.7 29.4 - - + -
207H ALA 3.0 17.6 + - - +
208H ALA* 3.7 3.6 - - - +
210H TRP* 1.3 82.6 - - + +
212H ALA* 1.3 66.3 + - - +
213H ARG 3.2 0.2 + - - -
214H LYS* 3.2 2.0 + - - +
215H MET* 2.9 45.9 + - + +
222H LEU* 4.1 5.8 - - + -
228H ILE* 3.7 40.6 - - + -
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Residues in contact with ALA 212 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116H LEU* 4.0 33.3 - - + +
118H ALA 5.0 0.7 - - - +
121H ILE* 3.8 18.2 - - + -
126H LEU* 4.4 4.3 - - + -
208H ALA 2.9 17.4 + - - +
209H VAL 3.2 4.5 + - - +
211H LEU* 1.3 75.0 - - - +
213H ARG* 1.3 61.7 + - - +
215H MET* 3.6 1.9 + - - +
216H ALA* 3.1 25.6 + - - +
222H LEU* 3.9 15.5 + - + +
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Residues in contact with ARG 213 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118H ALA 4.6 1.6 - - - -
119H THR* 3.4 25.8 - - - +
120H ASP 4.0 1.2 - - - -
121H ILE* 2.8 33.3 + - + -
122H THR* 4.2 4.9 - - - +
123H PHE 5.2 0.4 - - - +
209H VAL* 3.1 32.7 + - - +
210H TRP* 3.6 10.8 - - - +
212H ALA* 1.3 73.6 - - - +
214H LYS* 1.3 66.3 + - - +
216H ALA* 3.2 6.2 + - - +
217H SER* 2.9 25.6 + - - -
87I CYS 4.8 7.7 + - - -
1R MET* 2.4 53.9 - - - +
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Residues in contact with LYS 214 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39H TYR* 4.3 24.5 + - - -
76H GLN* 4.3 21.3 - - - +
79H PHE* 4.5 7.5 - - + -
210H TRP* 3.1 37.8 + - + +
211H LEU* 3.5 9.9 - - - +
213H ARG* 1.3 78.2 - - - +
215H MET* 1.3 68.6 + - + +
217H SER* 3.1 13.3 + - - +
218H LEU* 2.9 52.0 + - + +
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Residues in contact with MET 215 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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59H ARG* 3.8 32.5 - - - -
79H PHE* 3.1 47.3 - - + -
211H LEU* 2.9 25.4 + - + +
212H ALA 3.9 3.4 - - - +
214H LYS* 1.3 85.1 - - + +
216H ALA* 1.3 59.5 + - - +
218H LEU* 3.3 13.2 + - + +
220H GLU* 2.9 50.6 + - - +
222H LEU* 3.9 30.5 - - + +
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Residues in contact with ALA 216 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116H LEU 4.0 4.3 - - - +
117H PRO 3.4 29.7 - - - +
118H ALA 3.9 9.6 - - - +
119H THR* 3.8 13.5 - - + +
212H ALA 3.1 19.5 + - - +
213H ARG 3.2 4.5 + - - +
215H MET* 1.3 75.6 - - - +
217H SER* 1.3 58.3 + - - +
219H GLY* 3.2 17.3 + - - -
221H PRO* 4.2 13.0 - - - +
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Residues in contact with SER 217 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119H THR* 3.9 16.6 - - - +
213H ARG 2.9 13.4 + - - -
214H LYS* 3.1 19.4 + - - +
216H ALA* 1.3 73.6 - - - +
218H LEU* 1.3 65.9 + - - +
219H GLY 3.1 5.7 + - - -
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Residues in contact with LEU 218 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39H TYR* 5.9 2.2 - - + -
79H PHE* 3.9 32.1 - - + -
214H LYS* 2.9 33.0 + - + +
215H MET* 3.7 14.1 - - + +
216H ALA 3.2 0.4 - - - -
217H SER* 1.3 84.5 + - - +
219H GLY* 1.3 61.3 + - - +
220H 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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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