Contacts of the strand formed by residues 222 - 231 (chain A) in PDB entry 1OWH
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 ARG 222 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133A CYS* 3.6 24.9 - - + +
134A LEU 5.1 5.3 + - - -
218A SER* 4.2 1.1 - - - -
219A LEU 2.9 26.2 + - - +
220A GLN 4.8 2.5 - - - +
221A GLY* 1.3 82.4 - - - +
223A MET* 1.3 66.3 - - - +
224A THR* 2.8 27.8 + - - +
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Residues in contact with MET 223 (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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14A TRP* 3.7 23.1 - - + -
132A ILE* 3.7 21.4 - - + +
133A CYS* 3.7 10.6 + - - +
148A GLU* 3.6 24.9 - - - +
216A VAL* 3.8 13.9 - - + +
217A CYS 3.7 2.5 - - - -
218A SER* 4.2 22.7 - - - +
221A GLY 4.0 2.1 + - - +
222A ARG* 1.3 77.9 - - - +
224A THR* 1.3 60.3 + - - +
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Residues in contact with THR 224 (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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132A ILE* 4.2 4.5 - - - -
133A CYS 3.6 5.8 - - - +
134A LEU 4.1 1.8 - - - +
135A PRO* 3.7 39.7 - - + -
216A VAL* 3.3 6.0 - - - +
217A CYS 2.9 32.2 + - - -
219A LEU* 4.3 16.2 + - + +
222A ARG* 2.8 28.2 + - - +
223A MET* 1.3 74.4 + - - +
225A LEU* 1.3 63.0 + - - +
226A THR* 3.0 14.7 + - - +
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Residues in contact with LEU 225 (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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38A SER* 3.8 11.7 - - - +
41A MET* 3.7 34.8 - - + -
50A ILE* 3.8 13.2 - - + -
132A ILE* 3.9 15.5 - - + +
133A CYS 2.9 19.2 + - - +
134A LEU* 4.7 2.9 - - + -
135A PRO* 3.4 19.2 - - - +
214A PRO* 3.5 28.9 - - + -
215A LEU 3.9 3.8 - - - +
216A VAL* 4.4 4.7 - - + -
224A THR* 1.3 68.8 - - - +
226A THR* 1.3 63.4 + - - +
227A GLY 3.4 22.7 - - - +
228A ILE* 4.0 9.6 - - + -
247A VAL* 3.5 13.7 - - + +
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Residues in contact with THR 226 (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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135A PRO* 5.1 2.6 - - - +
140A ASP* 4.2 12.1 + - - +
141A PRO* 3.9 26.4 - - + +
174A LEU* 5.1 2.2 - - + -
195A LEU* 3.5 27.3 - - + +
215A LEU* 3.1 8.4 + - + -
217A CYS* 3.4 36.8 - - - +
219A LEU* 5.6 0.5 - - - +
224A THR* 3.0 17.3 + - - +
225A LEU* 1.3 75.4 - - - +
227A GLY* 1.3 58.8 + - - +
245A THR 3.8 1.0 - - - +
246A ARG* 4.1 0.2 - - - -
247A VAL* 3.3 22.6 + - - +
248A SER 4.8 1.2 + - - -
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Residues in contact with GLY 227 (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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195A LEU* 5.0 1.1 - - - -
215A LEU* 2.9 44.9 + - - +
225A LEU* 3.4 5.2 - - - +
226A THR* 1.3 82.2 - - - +
228A ILE* 1.3 70.0 + - - +
244A TYR* 4.2 3.8 - - - -
245A THR 3.2 11.9 - - - -
247A VAL* 3.9 2.0 - - - -
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Residues in contact with ILE 228 (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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38A SER* 4.8 2.0 - - - +
50A ILE* 4.5 15.5 - - + +
51A SER 3.9 20.9 - - - +
52A ALA* 4.1 5.4 - - + -
109A ASP 4.6 4.0 - - - +
110A ILE* 5.6 3.8 - - + -
212A GLY* 3.7 31.0 - - - +
213A GLY 3.5 9.0 - - - +
225A LEU* 4.0 25.4 - - + -
227A GLY* 1.3 80.6 - - - +
229A VAL* 1.3 72.6 - - - +
230A SER* 3.9 1.4 - - - -
244A TYR* 3.2 6.0 - - - +
245A THR* 3.0 37.2 + - + +
247A VAL* 4.0 13.7 - - + -
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Residues in contact with VAL 229 (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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52A ALA* 4.0 3.6 - - - +
149A ILE* 4.8 9.0 - - + -
150A THR 5.5 2.5 - - - +
206A SER* 3.7 27.6 - - - +
210A ASP* 3.4 26.2 - - + +
211A SER* 3.8 16.9 - - - -
212A GLY* 3.0 23.0 + - - +
213A GLY* 3.0 21.8 + - - +
214A PRO 4.8 2.0 - - - +
228A ILE* 1.3 74.3 - - - +
230A SER* 1.3 60.2 + - - +
243A VAL 5.1 0.9 - - - +
244A TYR* 3.5 27.9 - - + -
1001A 239 3.9 19.1 - - + -
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Residues in contact with SER 230 (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 HIS* 3.0 25.7 + - - -
106A HIS* 3.9 4.7 + - - +
109A ASP* 2.6 33.9 + - - +
228A ILE 3.3 7.4 + - - -
229A VAL* 1.3 76.2 - - - +
231A TRP* 1.3 77.7 + - - +
243A VAL 3.0 16.6 + - - -
244A TYR 4.4 0.4 - - - -
245A THR* 4.1 15.7 - - - -
1001A 239 4.0 9.2 + - - -
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Residues in contact with TRP 231 (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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104A LEU* 3.6 39.0 - - + +
105A ALA* 3.6 21.3 - - + -
106A HIS* 3.5 26.5 + - + +
186A TYR* 3.7 42.8 - + + -
189A GLU* 4.3 8.5 - - + -
190A VAL* 4.3 5.4 - - + -
194A MET* 3.6 21.6 - - - +
230A SER* 1.3 103.0 - - - +
232A GLY* 1.3 74.6 - - - +
242A GLY 3.7 0.2 - - - -
243A VAL* 2.7 66.1 + - + +
1001A 239 3.8 19.3 - - + -
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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