Contacts of the strand formed by residues 192 - 201 (chain A) in PDB entry 6OE7
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 LEU 192 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74A ARG* 3.8 23.3 - - + -
78A VAL* 3.7 32.8 - - + -
87A PRO* 3.8 23.3 - - + -
181A ASP 3.5 1.7 - - - +
182A CYS* 3.4 6.6 - - - -
183A TRP* 2.9 53.2 + - + +
185A PRO* 5.4 0.9 - - + -
190A ASP 3.4 3.6 + - - +
191A VAL* 1.3 70.3 - - - +
193A TYR* 1.3 64.1 + - - +
194A SER* 4.1 2.3 + - - +
303A EDO 3.7 28.3 - - - +
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Residues in contact with TYR 193 (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 LEU* 5.1 0.4 - - + -
58A HIS* 5.3 4.0 + - + -
59A PHE* 3.7 36.6 - + - -
72A PRO 4.9 0.7 - - - +
73A MET* 3.5 37.7 - - + -
74A ARG* 2.9 21.8 + - - +
180A PHE* 4.1 13.2 - + - -
181A ASP 3.6 2.7 - - - -
182A CYS* 3.4 27.9 - - - -
191A VAL* 3.7 28.6 - - + +
192A LEU* 1.3 76.6 - - - +
194A SER* 1.3 59.4 + - - +
303A EDO 3.1 23.4 + - - +
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Residues in contact with SER 194 (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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73A MET* 4.4 1.5 - - - -
74A ARG* 3.1 22.7 - - - +
76A GLY 3.5 18.8 - - - -
77A LEU* 3.6 2.8 - - - +
78A VAL* 2.9 35.9 + - - +
180A PHE* 2.9 25.4 - - - +
181A ASP 3.0 14.4 + - - -
183A TRP* 5.7 0.2 - - - +
192A LEU* 4.6 4.9 + - - +
193A TYR* 1.3 73.4 - - - +
195A TYR* 1.3 60.5 + - - +
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Residues in contact with TYR 195 (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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5A THR* 6.1 0.7 - - - +
50A SER* 3.2 25.8 + - - -
52A VAL* 4.0 11.4 - - + -
73A MET* 3.4 35.4 - - + -
74A ARG 2.9 20.4 + - - -
75A TRP* 3.4 45.5 - + + +
76A GLY 2.9 25.1 + - - -
77A LEU* 3.4 6.5 + - - -
118A CYS* 4.0 16.8 - - - -
120A VAL* 3.5 41.1 - - + +
179A ILE 3.1 12.6 - - - +
180A PHE* 4.1 2.5 - - + +
194A SER* 1.3 74.4 - - - +
196A THR* 1.3 68.1 + - - +
197A ILE* 3.8 6.4 - - + +
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Residues in contact with THR 196 (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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77A LEU* 4.1 6.0 - - + +
94A THR 2.9 24.0 + - - -
95A THR 3.6 2.0 - - - -
96A ASN* 3.0 29.3 + - - -
97A CYS* 3.7 12.1 - - + +
108A PHE* 3.7 28.1 - - + -
178A GLY* 3.2 24.4 - - - -
179A ILE* 2.8 27.0 + - + +
195A TYR* 1.3 77.1 - - - +
197A ILE* 1.3 59.8 - - - +
198A ILE* 5.2 0.7 - - + +
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Residues in contact with ILE 197 (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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2A CYS* 5.0 2.7 - - + +
5A THR* 5.0 4.3 - - + -
75A TRP* 3.6 35.4 - - + +
95A THR 3.1 6.9 + - - -
96A ASN* 3.0 44.0 + - - +
97A CYS* 3.1 2.1 + - - -
120A VAL* 4.0 20.6 - - + -
176A MET* 4.3 17.9 - - + -
177A ALA 3.9 8.7 - - - +
195A TYR* 3.8 18.6 - - + +
196A THR* 1.3 72.8 - - - +
198A ILE* 1.3 73.6 + - - +
214A PRO* 3.8 23.3 - - + -
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Residues in contact with ILE 198 (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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97A CYS* 3.1 20.6 - - + +
99A SER* 3.8 9.6 - - - -
102A VAL* 5.6 1.8 - - + -
177A ALA* 3.1 20.7 + - + +
178A GLY* 4.6 1.3 - - - -
179A ILE* 3.9 26.7 - - + +
196A THR 5.2 0.4 - - - +
197A ILE* 1.3 74.5 - - - +
199A THR* 1.3 63.2 + - - +
214A PRO* 3.5 5.7 - - - +
215A ALA* 2.8 32.9 + - + +
226A TRP* 3.6 38.4 - - + -
238A LEU* 5.6 3.8 - - + -
241A ILE* 3.7 29.6 - - + -
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Residues in contact with THR 199 (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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2A CYS* 4.1 15.3 - - - -
96A ASN* 3.8 33.2 - - + +
97A CYS 2.9 5.1 + - - -
98A ARG* 3.4 12.1 + - - -
99A SER* 3.0 26.9 + - - -
198A ILE* 1.3 71.9 - - - +
200A VAL* 1.3 69.0 + - - +
212A ARG* 3.1 14.2 + - + +
213A MET 3.3 11.2 - - - +
214A PRO* 4.8 0.4 - - + -
108B T 4.1 0.2 + - - -
109B DRZ 2.6 33.1 + - + +
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Residues in contact with VAL 200 (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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99A SER* 3.7 14.8 - - - +
199A THR* 1.3 79.4 - - - +
201A ASP* 1.3 70.5 + - - +
212A ARG* 3.4 18.6 - - - +
213A MET* 2.9 46.8 + - + +
214A PRO 4.0 7.6 - - - +
215A ALA* 4.2 5.2 - - + +
241A ILE* 3.7 22.2 - - + -
242A HIS* 3.9 15.7 - - - +
243A PRO* 3.8 22.2 - - + -
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Residues in contact with ASP 201 (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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98A ARG* 5.2 0.9 + - - -
200A VAL* 1.3 78.4 - - - +
202A SER* 1.3 69.9 + - - +
211A HIS* 3.6 11.4 + - - +
212A ARG* 2.9 21.9 + - - +
213A MET* 3.7 0.4 - - - +
243A PRO* 3.3 25.2 - - + +
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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