Contacts of the helix formed by residues 203 - 220 (chain H) in PDB entry 2QJK
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 SER 203 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191H ASP* 3.8 17.5 - - - -
192H ASP* 5.5 0.9 - - - -
201H ASP* 2.6 26.2 + - - +
202H ALA* 1.3 76.5 - - - +
204H VAL* 1.3 68.9 + - - +
205H HIS* 3.8 12.0 + - - +
206H ALA* 2.6 27.4 + - - +
207H MET* 3.1 8.7 + - - -
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Residues in contact with VAL 204 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135H LEU 4.9 10.1 - - - +
136H THR* 5.4 6.9 + - - +
189H LEU* 3.5 22.3 - - + +
190H MET* 3.2 20.4 - - - +
191H ASP* 2.9 48.0 + - - +
202H ALA 3.5 3.1 + - - -
203H SER* 1.3 71.5 - - - +
205H HIS* 1.3 62.7 + - - +
207H MET* 4.5 7.4 - - - -
208H ALA* 3.2 23.7 + - + +
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Residues in contact with HIS 205 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9H VAL* 6.3 0.6 - - - +
132H TYR* 3.1 34.9 + - - +
136H THR* 5.5 3.6 - - - -
203H SER* 2.7 15.7 + - - +
204H VAL* 1.3 77.2 - - - +
206H ALA* 1.3 70.0 + - + +
208H ALA* 4.9 1.6 - - - -
209H GLU* 3.2 43.6 + - - +
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Residues in contact with ALA 206 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200H HIS* 5.0 4.3 - - + +
201H ASP* 3.5 32.8 - - - +
203H SER* 2.6 21.2 + - - +
205H HIS* 1.3 80.9 + - + +
207H MET* 1.3 67.9 + - - +
209H GLU* 2.7 20.0 + - - +
210H ASP* 2.8 23.3 + - - +
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Residues in contact with MET 207 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31H VAL* 4.4 14.2 - - + +
35H VAL* 4.7 1.3 - - + -
189H LEU* 4.1 27.8 - - + -
190H MET 4.5 6.5 - - - +
193H LEU* 4.1 15.5 - - + -
194H VAL* 3.3 46.4 - - + +
196H TYR* 4.1 19.7 - - + +
202H ALA* 3.6 29.4 - - + +
203H SER 3.9 6.5 - - - +
204H VAL* 4.0 9.9 - - - +
206H ALA* 1.3 76.3 - - - +
208H ALA* 1.3 64.7 + - - +
210H ASP* 3.0 3.0 + - - +
211H VAL* 2.8 28.9 + - - +
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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
----------------------------------------------------------
132H TYR* 3.8 17.0 - - + +
135H LEU* 3.9 28.3 - - + -
136H THR* 4.4 4.9 - - - +
189H LEU* 3.8 5.5 - - + +
204H VAL* 3.2 15.4 + - + +
205H HIS 3.8 3.6 - - - +
206H ALA 3.2 0.6 - - - -
207H MET* 1.3 78.4 - - - +
209H GLU* 1.3 65.6 + - - +
211H VAL* 3.4 10.1 - - - +
212H SER* 2.8 29.6 + - - -
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Residues in contact with GLU 209 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9H VAL* 4.0 19.7 - - + +
10H PRO* 5.2 4.2 - - - +
11H PHE* 3.1 41.3 - - + -
24H GLN* 3.6 17.1 + - - +
132H TYR* 3.5 14.2 - - + -
205H HIS* 3.2 34.2 + - - +
206H ALA* 2.7 16.4 + - - +
208H ALA* 1.3 75.2 - - - +
210H ASP* 1.3 64.2 + - - +
213H ALA* 3.3 5.9 + - - +
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Residues in contact with ASP 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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24H GLN* 2.8 42.5 + - + +
27H ARG* 3.2 31.3 + - - -
28H GLY* 4.2 18.2 - - - +
196H TYR* 3.6 18.3 + - - +
200H HIS* 4.5 1.7 + - - -
206H ALA* 2.8 23.9 + - - +
207H MET 3.0 6.2 + - - +
209H GLU* 1.3 72.8 - - - +
211H VAL* 1.3 54.0 + - - +
212H SER 2.6 5.4 + - - -
213H ALA* 2.6 28.2 + - - +
214H PHE 2.8 9.8 + - - -
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Residues in contact with VAL 211 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28H GLY* 3.8 14.6 - - - +
31H VAL* 3.8 31.4 - - + +
32H TYR* 3.9 16.8 - - + +
36H CYS* 4.1 14.6 - - - -
135H LEU* 3.6 24.9 - - + -
189H LEU* 5.7 0.2 - - + -
207H MET 2.8 16.2 + - - +
208H ALA* 3.4 11.7 - - - +
210H ASP* 1.3 73.4 - - - +
212H SER* 1.3 60.2 + - - +
214H PHE* 3.3 2.3 - - + +
215H LEU* 2.8 38.3 + - + +
301H HEM 4.1 9.2 - - + -
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Residues in contact with SER 212 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H PHE* 3.8 16.8 - - - -
104H ALA* 5.4 0.2 - - - +
128H PRO* 3.9 14.1 - - - +
131H ILE* 3.8 11.6 - - - +
132H TYR* 3.5 25.1 + - - -
135H LEU* 4.5 0.3 - - - +
208H ALA 2.8 19.3 + - - -
209H GLU 3.5 5.6 - - - -
210H ASP 2.6 4.2 + - - -
211H VAL* 1.3 75.4 - - - +
213H ALA* 1.3 54.3 + - - -
215H LEU* 2.6 30.0 + - - +
216H MET* 2.6 18.4 + - - +
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Residues in contact with ALA 213 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H PHE* 4.2 4.4 - - + -
13H PHE* 3.8 27.6 - - + -
20H PHE* 3.8 1.9 - - - -
24H GLN* 3.8 28.7 - - + +
25H LEU* 3.3 14.8 - - + +
209H GLU 3.3 9.7 + - - +
210H ASP 2.6 12.6 + - - +
212H SER* 1.3 74.5 - - - +
214H PHE* 1.3 62.0 + - - +
216H MET* 3.1 4.7 + - - +
217H TRP 3.0 16.8 + - - -
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Residues in contact with PHE 214 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25H LEU* 3.6 28.4 - - + +
28H GLY* 3.8 20.4 - - - -
29H LEU* 3.8 30.1 - - + -
32H TYR* 3.6 25.6 - + + -
42H MET* 3.2 38.8 - - + -
50H LEU* 4.7 5.8 - - + -
56H PRO* 4.8 3.1 - - + -
89H PHE* 5.0 1.3 - + - -
210H ASP 2.8 5.9 + - - -
211H VAL* 3.3 10.3 - - + +
213H ALA* 1.3 77.3 - - - +
215H LEU* 1.3 59.9 + - + +
217H TRP* 2.8 40.1 + + - +
218H ALA* 2.7 31.9 + - + -
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Residues in contact with LEU 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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32H TYR* 5.1 3.4 - - + -
42H MET* 4.3 14.4 - - + -
100H LEU* 3.7 55.9 - - + +
103H MET* 5.5 0.2 - - + -
104H ALA* 3.6 11.3 + - + +
131H ILE* 4.4 28.9 - - + -
211H VAL* 2.8 19.7 + - + +
212H SER* 2.6 15.0 + - - +
214H PHE* 1.3 87.7 - - + +
216H MET* 1.3 60.0 + - - +
218H ALA* 3.6 4.5 - - + +
219H ALA* 3.2 17.8 + - - +
301H HEM 4.1 19.1 - - + -
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Residues in contact with MET 216 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
431G BGL 4.2 19.5 - - - +
13H PHE* 3.5 43.1 - - + -
20H PHE* 4.0 9.4 - - + -
104H ALA* 3.7 25.1 - - + +
105H LYS* 5.5 4.9 - - + -
128H PRO* 4.4 16.6 - - + -
212H SER 2.6 14.0 + - - +
213H ALA 3.3 9.6 - - - +
215H LEU* 1.3 72.3 - - - +
217H TRP* 1.3 66.1 + - - +
219H ALA* 3.2 3.2 + - - +
220H GLU* 2.9 31.8 + - + +
223H LEU* 4.4 10.3 - - + -
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Residues in contact with TRP 217 (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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20H PHE* 3.3 29.8 - + + -
25H LEU* 4.0 12.1 - - + -
45H VAL* 4.7 8.7 - - + -
49H SER* 3.5 47.3 - - - -
50H LEU* 4.2 11.2 - - + -
52H GLU* 5.6 1.3 - - + -
53H PRO 5.8 0.2 + - - -
54H GLY 3.9 7.2 - - - -
55H GLY* 3.5 23.8 - - - +
56H PRO* 3.6 21.3 - - + -
213H ALA 3.0 7.4 + - - +
214H PHE* 2.8 40.8 + + - +
216H MET* 1.3 75.4 - - - +
218H ALA* 1.3 89.0 + - + +
220H GLU 2.9 1.4 + - - -
221H PRO* 2.8 62.1 + - + +
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Residues in contact with ALA 218 (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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85G ARG* 2.9 30.1 + - - -
42H MET* 3.8 30.7 - - + -
45H VAL* 3.9 6.8 - - + +
100H LEU 5.0 0.4 - - - +
101H SER 3.9 4.9 - - - +
214H PHE* 2.7 16.0 + - + +
215H LEU* 3.6 16.6 - - + +
217H TRP* 1.3 94.6 - - + +
219H ALA* 1.3 57.0 + - - +
221H PRO* 3.7 0.5 - - - +
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Residues in contact with ALA 219 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81G GLU* 4.5 4.9 - - - +
85G ARG* 3.9 7.7 + - - +
101H SER 3.1 20.0 - - - +
102H LEU* 3.6 24.6 - - + +
104H ALA* 4.4 7.6 - - + -
105H LYS* 3.9 23.8 + - + +
215H LEU 3.2 12.8 + - - +
216H MET* 3.8 2.9 - - - +
217H TRP 3.0 0.6 - - - -
218H ALA* 1.3 79.6 - - - +
220H GLU* 1.3 58.6 + - - +
221H PRO* 3.2 9.7 - - - +
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Residues in contact with GLU 220 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84G MET* 5.0 3.3 - - - +
91G PHE* 5.6 2.8 - - - +
95G TYR* 2.7 28.8 + - - -
272G ASN* 4.2 2.1 + - - +
20H PHE* 4.0 5.5 - - - -
105H LYS* 4.0 24.9 + - + -
216H MET* 2.9 21.3 + - + +
217H TRP 2.9 5.8 + - - +
219H ALA* 1.3 80.6 - - - +
221H PRO* 1.3 66.0 - - - +
222H LYS* 3.2 11.5 + - - +
223H LEU* 3.0 31.7 + - + +
226H ARG* 2.3 35.3 + - - +
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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