Contacts of the strand formed by residues 147 - 156 (chain C) in PDB entry 6D6U
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 GLU 147 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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139C ASP* 5.0 6.2 - - - +
142C ARG* 5.9 1.2 - - - +
146C ASP* 1.3 80.1 - - - +
148C GLN* 1.3 63.7 + - - +
149C ASN 4.3 0.5 + - - -
213C LYS* 2.7 41.7 + - - +
214C LEU 3.3 7.4 - - - +
215C LYS* 4.6 25.4 + - + +
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Residues in contact with GLN 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50C VAL* 4.7 0.5 - - - +
137C MET 5.5 0.4 - - - +
138C MET* 3.2 49.9 - - + +
139C ASP 4.3 8.4 + - - +
140C LEU* 3.4 19.6 - - - +
146C ASP* 3.7 10.3 + - - +
147C GLU* 1.3 77.7 - - - +
149C ASN* 1.3 60.4 + - - +
150C CYS* 3.9 8.8 + - - -
186C PHE* 4.2 16.1 - - + -
213C LYS* 3.2 3.9 - - - -
214C LEU* 2.6 50.6 + - + +
216C ARG* 3.4 26.8 - - - +
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Residues in contact with ASN 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136C CYS* 4.7 0.9 - - - +
137C MET 4.2 14.0 + - - +
147C GLU 4.3 0.8 + - - -
148C GLN* 1.3 71.1 - - - +
150C CYS* 1.3 72.1 + - - +
151C THR* 4.2 5.4 + - - -
211C SER* 3.9 3.6 - - - -
212C PHE 4.2 3.6 + - - -
213C LYS* 4.3 15.2 - - + +
1H NAG 1.4 70.0 + - - +
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Residues in contact with CYS 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57C TYR* 3.6 18.6 - - + -
136C CYS* 2.0 46.9 - - + -
137C MET 5.1 1.3 - - - -
138C MET* 4.2 13.5 - - - -
148C GLN* 3.9 6.9 - - - -
149C ASN* 1.3 76.1 + - - +
151C THR* 1.3 62.2 + - - +
210C LEU 4.0 0.2 - - - +
211C SER* 3.5 4.0 - - - -
212C PHE* 3.4 41.0 + - + +
214C LEU* 4.5 18.2 - - + -
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Residues in contact with THR 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57C TYR* 2.6 27.2 + - - -
100C ASN* 4.0 17.3 + - - -
134C ALA* 4.5 1.7 - - - +
135C ALA 5.2 0.2 - - - +
136C CYS* 4.0 6.3 - - - +
149C ASN* 4.2 7.8 + - - -
150C CYS* 1.3 77.9 + - - +
152C LEU* 1.3 68.0 + - - +
153C GLU* 3.8 22.7 - - + +
209C SER* 3.4 24.2 - - - +
210C LEU 3.3 4.9 - - - -
211C SER* 3.5 11.3 + - - +
212C PHE* 6.2 0.7 - - - -
1H NAG 4.3 15.8 + - - +
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Residues in contact with LEU 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42C ILE* 5.2 0.9 - - + -
57C TYR* 4.0 5.8 - - - +
59C LEU* 4.3 15.7 - - + -
61C MET* 3.9 32.5 - - + -
98C PHE* 4.3 23.3 - - + -
100C ASN* 4.0 14.1 - - - +
132C THR* 4.4 5.6 - - + -
134C ALA* 4.1 19.1 - - + -
151C THR* 1.3 75.4 - - - +
153C GLU* 1.3 61.1 + - - +
154C ILE* 3.8 19.8 + - + +
208C LEU 4.0 0.2 - - - +
209C SER* 3.7 1.7 - - - -
210C LEU* 2.9 49.2 + - + +
212C PHE* 6.2 1.1 - - + -
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Residues in contact with GLU 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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98C PHE* 3.4 6.6 - - - +
99C LEU* 3.0 46.8 + - + +
100C ASN* 3.6 16.8 + - - +
151C THR* 3.8 24.8 - - + +
152C LEU* 1.3 71.4 - - - +
154C ILE* 1.3 62.1 + - - +
155C GLU* 5.4 0.2 - - - -
196C LYS* 4.6 7.7 + - - -
207C ARG* 2.9 47.5 + - - -
208C LEU 3.5 3.8 - - - -
209C SER* 4.5 6.6 + - - +
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Residues in contact with ILE 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40C MET* 3.6 34.5 - - + -
42C ILE* 3.7 29.8 - - + -
63C PHE* 3.8 15.0 - - + -
96C THR* 4.3 13.5 - - - +
97C TYR 4.1 2.5 - - - -
98C PHE* 3.8 23.1 - - + -
152C LEU* 4.4 16.4 - - + +
153C GLU* 1.3 75.6 - - - +
155C GLU* 1.3 66.8 + - - +
166C PHE* 4.7 0.7 - - - -
168C TRP* 4.6 10.3 - - + -
207C ARG* 3.4 1.3 - - - -
208C LEU* 2.7 45.8 + - + +
210C LEU* 6.1 1.1 - - + +
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Residues in contact with GLU 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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96C THR* 3.3 3.5 - - - -
97C TYR* 2.6 62.5 + - + +
99C LEU* 3.2 27.2 - - + +
154C ILE* 1.3 80.4 - - - +
156C SER* 1.3 69.4 + - - +
166C PHE* 3.8 9.6 - - - -
198C VAL* 4.7 1.9 - - - +
200C PHE* 4.3 3.3 - - - -
205C TYR* 4.4 8.9 - - + +
206C PRO 3.2 17.7 - - - +
207C ARG* 3.5 30.8 + - + +
405C ABU 4.2 10.4 + - - -
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Residues in contact with SER 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95C ASP* 3.6 17.0 + - - -
97C TYR* 3.2 10.8 - - - -
155C GLU* 1.3 82.8 - - - +
157C TYR* 1.3 68.6 + - - +
158C GLY 3.8 0.3 + - - -
159C TYR* 3.5 34.4 + - - +
164C ILE* 4.2 11.7 - - - +
166C PHE* 3.4 24.9 - - - -
205C TYR* 3.7 14.1 - - - +
206C PRO* 3.6 9.8 + - - +
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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