Contacts of the helix formed by residues 233 - 251 (chain A) in PDB entry 6OZE
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 PRO 233 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124A LEU* 4.0 21.8 - - + -
153A VAL* 4.0 16.8 - - + -
207A LEU* 3.6 11.9 - - + -
224A THR* 3.5 31.4 - - + +
227A CYS 3.6 8.3 - - - +
228A SER* 3.7 14.8 - - - +
231A ARG 3.6 7.5 - - - +
232A ILE* 1.3 89.1 - - + +
234A GLU* 1.3 62.0 + - - +
235A PRO 3.4 0.9 - - - -
236A VAL* 3.1 10.3 + - + +
237A ARG 2.8 24.8 + - - -
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Residues in contact with GLU 234 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A LEU* 3.7 14.4 - - + -
75A LEU* 4.1 19.8 - - + +
227A CYS 2.8 17.8 + - - +
228A SER* 4.6 0.2 - - - +
229A ARG* 3.8 41.0 + - + +
230A PHE* 3.7 6.2 - - - -
232A ILE 3.4 2.5 + - - +
233A PRO* 1.3 70.7 - - - +
235A PRO* 1.3 60.8 - - + +
237A ARG* 2.5 46.3 + - - -
238A GLN* 2.8 49.6 + - - +
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Residues in contact with PRO 235 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48A VAL* 3.7 29.8 - - + +
49A GLY 3.6 25.1 - - - +
50A GLY* 3.5 9.8 - - - +
68A VAL* 3.2 11.4 - - - +
70A LEU* 4.0 23.3 - - + -
75A LEU* 4.8 2.2 - - + -
124A LEU* 3.9 10.3 - - + -
227A CYS* 3.9 18.2 - - + -
233A PRO 3.5 4.3 - - - -
234A GLU* 1.3 92.9 - - + +
236A VAL* 1.3 60.5 + - - +
239A ALA* 3.2 17.0 + - - +
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Residues in contact with VAL 236 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A GLY* 4.8 1.6 - - - -
51A VAL 5.1 2.2 - - - +
52A ASP* 5.2 1.0 - - - +
124A LEU* 3.7 36.1 - - + +
125A VAL 4.6 0.7 - - - +
126A ASP* 4.1 27.1 - - + +
153A VAL* 4.4 20.9 - - + -
155A LYS* 4.4 12.8 - - - +
232A ILE* 3.8 17.0 - - + -
233A PRO* 3.1 16.1 + - + +
235A PRO* 1.3 72.6 - - - +
237A ARG* 1.3 62.2 + - - +
239A ALA* 3.3 6.0 + - - +
240A ASP* 2.9 27.6 + - + +
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Residues in contact with ARG 237 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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229A ARG* 5.7 0.4 - - - +
230A PHE* 3.5 37.7 - - - -
232A ILE* 3.8 31.6 - - + +
233A PRO 2.8 15.7 + - - +
234A GLU* 2.5 40.0 + - - +
236A VAL* 1.3 77.6 - - - +
238A GLN* 1.3 73.1 + - - +
240A ASP* 3.3 6.8 + - + +
241A ILE* 3.0 52.6 + - + +
244A ARG* 6.0 1.1 - - - +
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Residues in contact with GLN 238 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68A VAL* 4.1 12.3 - - + -
70A LEU* 4.5 4.9 - - + -
75A LEU 6.1 0.2 - - - +
77A VAL* 3.9 31.6 - - + +
80A GLU* 5.7 0.5 - - - +
234A GLU* 2.8 45.3 + - - +
235A PRO 4.2 3.1 - - - +
237A ARG* 1.3 92.6 - - - +
239A ALA* 1.3 61.3 + - - +
241A ILE* 3.4 16.7 + - - +
242A CYS* 2.9 36.5 + - - -
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Residues in contact with ALA 239 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50A GLY 3.8 18.8 - - - +
51A VAL* 3.8 9.0 - - - +
52A ASP* 3.8 18.2 - - + +
66A SER* 3.6 9.2 - - - +
68A VAL* 3.9 13.6 - - + +
235A PRO 3.2 18.3 + - - +
236A VAL 3.3 4.0 + - - +
238A GLN* 1.3 77.3 - - - +
240A ASP* 1.3 62.0 + - - +
242A CYS* 3.4 1.6 + - - -
243A SER* 3.0 26.7 + - - -
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Residues in contact with ASP 240 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ASP* 3.8 22.3 - - - +
54A SER* 3.9 8.7 + - - -
126A ASP* 5.1 0.8 - - - +
155A LYS* 4.7 16.8 + - - +
232A ILE* 6.2 0.2 - - + -
236A VAL* 2.9 14.7 + - + +
237A ARG* 3.6 11.7 - - + +
239A ALA* 1.3 76.4 - - - +
241A ILE* 1.3 62.0 + - - +
243A SER* 3.3 3.5 + - - -
244A ARG* 3.0 61.4 + - - +
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Residues in contact with ILE 241 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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237A ARG* 3.0 57.7 + - + +
238A GLN* 3.8 20.2 - - - +
240A ASP* 1.3 75.3 - - - +
242A CYS* 1.3 66.1 + - - +
244A ARG* 3.2 27.3 + - - +
245A GLU* 2.9 48.7 + - + +
248A ARG* 5.8 0.4 - - - +
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Residues in contact with CYS 242 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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66A SER* 3.9 6.5 - - - +
68A VAL* 3.8 15.9 - - + -
77A VAL* 6.5 0.2 - - - -
80A GLU* 3.7 33.0 - - - -
81A GLU 5.6 0.2 - - - +
82A SER* 3.5 17.8 + - - +
238A GLN* 2.9 25.6 + - - +
239A ALA* 3.6 5.6 - - - +
241A ILE* 1.3 78.7 - - - +
243A SER* 1.3 56.5 + - - +
245A GLU* 3.4 11.9 + - - +
246A HIS* 2.9 30.7 + - - +
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Residues in contact with SER 243 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A ASP* 2.7 29.8 + - - -
54A SER* 3.9 9.0 - - - -
64A CYS* 3.7 24.6 + - - -
66A SER* 2.6 26.9 + - - -
239A ALA 3.0 7.9 + - - -
240A ASP 3.7 2.9 - - - -
241A ILE 3.2 0.2 - - - -
242A CYS* 1.3 76.9 - - - +
244A ARG* 1.3 63.5 + - - +
246A HIS* 3.3 1.6 + - - +
247A ILE* 3.0 30.7 + - - +
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Residues in contact with ARG 244 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A SER* 5.4 7.0 - - - +
237A ARG* 6.0 1.6 - - - +
240A ASP* 3.0 44.8 + - - +
241A ILE* 3.5 30.6 - - - +
243A SER* 1.3 75.9 - - - +
245A GLU* 1.3 63.8 + - - +
247A ILE* 3.3 9.4 + - + +
248A ARG* 3.0 48.6 + - + +
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Residues in contact with GLU 245 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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241A ILE* 2.9 40.7 + - + +
242A CYS* 3.8 10.8 - - - +
244A ARG* 1.3 75.2 - - - +
246A HIS* 1.3 58.5 + - - +
248A ARG* 3.3 29.0 + - - +
249A LYS* 2.9 48.1 + - - +
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Residues in contact with HIS 246 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64A CYS* 3.7 22.4 - - - -
82A SER* 3.6 35.2 + - - -
83A ARG* 4.0 0.8 - - - -
84A MET* 3.8 23.0 + - + +
242A CYS 2.9 18.3 + - - +
243A SER 3.3 0.2 + - - -
245A GLU* 1.3 77.1 - - - +
247A ILE* 1.3 58.0 + - - +
249A LYS* 3.8 15.1 + - + +
250A SER* 2.8 56.3 + - - -
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Residues in contact with ILE 247 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54A SER* 3.8 29.4 - - - +
55A PHE 4.3 11.7 - - - +
56A VAL* 4.2 14.8 - - + -
57A ALA 5.8 0.2 - - - +
64A CYS* 3.6 17.7 - - + -
84A MET* 3.9 16.6 - - + -
243A SER 3.0 24.3 + - - +
244A ARG* 3.7 9.2 - - + +
246A HIS* 1.3 78.1 - - - +
248A ARG* 1.3 64.6 + - + +
250A SER* 4.7 0.2 - - - -
251A LEU* 2.9 43.3 + - + +
253A LEU* 4.2 13.2 - - + -
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Residues in contact with ARG 248 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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241A ILE* 5.8 0.8 - - - +
244A ARG* 3.0 44.2 + - - +
245A GLU* 3.4 33.7 + - - +
247A ILE* 1.3 75.9 - - + +
249A LYS* 1.3 64.5 + - + +
252A GLY* 3.0 4.2 + - - -
253A LEU* 2.8 53.4 + - + +
254A PRO* 4.3 19.1 - - - -
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Residues in contact with LYS 249 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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245A GLU* 2.9 38.5 + - - +
246A HIS* 3.8 14.6 + - - +
248A ARG* 1.3 78.4 - - + +
250A SER* 1.3 64.3 + - - +
252A GLY* 3.3 11.1 + - - -
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Residues in contact with SER 250 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84A MET* 3.7 21.9 - - - +
246A HIS* 2.8 42.2 + - - -
247A ILE 3.3 2.2 + - - -
249A LYS* 1.3 78.2 - - - +
251A LEU* 1.3 64.8 + - - +
252A GLY 3.8 0.2 + - - -
301A ACT 4.1 15.3 - - - +
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Residues in contact with LEU 251 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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56A VAL* 3.7 39.5 - - + -
62A ARG* 5.8 0.9 - - + -
84A MET* 4.7 4.7 - - + -
247A ILE* 2.9 23.5 + - + +
250A SER* 1.3 79.2 - - - +
252A GLY* 1.3 63.3 + - - +
253A LEU* 3.4 22.1 + - + +
301A ACT 3.6 30.3 - - + +
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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