Contacts of the strand formed by residues 139 - 151 (chain C) in PDB entry 6A3V
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 GLY 139 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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138C ALA* 1.3 80.3 - - - +
140C VAL* 1.3 64.5 + - - -
141C TYR* 3.9 8.9 - - - -
205C HIS* 3.8 4.3 + - - +
206C LEU 3.1 26.8 + - - +
239C ARG* 4.1 9.4 - - - -
241C THR* 4.7 7.2 - - - -
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Residues in contact with VAL 140 (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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139C GLY* 1.3 73.7 - - - -
141C TYR* 1.3 64.3 + - - +
203C LEU* 4.1 22.9 - - + -
204C LEU 3.4 9.6 - - - +
205C HIS* 3.4 39.3 - - + +
239C ARG* 4.1 2.1 - - - +
240C VAL* 3.0 26.8 + - + +
241C THR* 3.5 20.7 + - - +
92E PHE* 3.6 35.4 - - + -
119E SER* 4.7 2.2 - - - +
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Residues in contact with TYR 141 (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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91C MET* 3.4 19.8 - - + +
135C VAL* 3.3 22.0 - - + +
137C LYS 2.4 28.7 + - - -
138C ALA 3.9 0.3 + - - -
139C GLY 3.9 14.1 - - - -
140C VAL* 1.3 75.0 - - - +
142C TYR* 1.3 60.8 + - - +
143C VAL* 3.9 7.4 + - + +
203C LEU* 3.3 9.3 - - - +
204C LEU* 3.0 31.0 + - - +
206C LEU* 3.5 30.5 - - + -
237C LEU* 3.5 39.0 - - + -
238C PHE 3.3 6.7 - - - +
239C ARG* 3.5 44.0 + - + +
240C VAL* 4.3 0.4 - - - +
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Residues in contact with TYR 142 (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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142A TYR* 3.9 25.9 + + - -
141C TYR* 1.3 70.7 - - - +
143C VAL* 1.3 59.3 + - - +
144C PHE* 4.0 17.1 + + + -
199C PHE* 4.3 1.9 - - - -
201C GLY* 3.9 8.5 - - - -
202C ARG 3.9 19.1 - - - -
203C LEU* 3.8 21.7 - - + +
237C LEU* 3.6 2.4 - - - -
238C PHE* 2.9 70.8 + + + -
240C VAL* 4.0 3.2 - - + +
142E TYR* 3.9 17.7 + + - -
144E PHE* 3.7 27.8 - + - -
199E PHE* 3.5 25.3 - - - -
238E PHE* 4.1 6.5 - + + -
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Residues in contact with VAL 143 (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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141C TYR* 4.4 11.2 - - + +
142C TYR* 1.3 76.9 - - - +
144C PHE* 1.3 63.8 + - - +
165C LEU* 3.9 16.6 - - + -
179C LEU* 3.9 13.8 - - + +
201C GLY* 3.1 20.6 - - - -
202C ARG 3.2 14.2 + - - +
204C LEU* 4.6 18.2 - - + -
206C LEU* 4.9 2.5 - - + -
212C LEU* 4.8 6.7 - - + -
235C LEU* 3.6 21.3 - - + -
236C GLY 3.5 13.2 - - - +
237C LEU* 3.7 27.8 - - + -
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Residues in contact with PHE 144 (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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142A TYR* 3.6 22.9 - + - -
201A GLY 3.7 2.2 - - - -
202A ARG* 3.6 33.4 - - + -
203A LEU* 4.0 14.1 - - + -
94C GLN* 4.3 1.1 - - - -
142C TYR* 4.0 18.8 - + + -
143C VAL* 1.3 76.0 - - - +
145C PHE* 1.3 62.3 + - - +
146C GLN* 3.8 9.6 - - + -
179C LEU* 4.6 1.1 - - - -
199C PHE* 3.5 36.6 - + + -
200C GLN 3.1 7.0 - - - +
201C GLY* 4.2 0.9 - - - -
234C VAL* 4.5 3.6 - - + -
235C LEU* 3.6 10.5 - - - +
236C GLY* 3.3 52.2 + - - -
237C LEU 4.1 2.0 - - - -
238C PHE* 4.6 6.1 - + - -
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Residues in contact with PHE 145 (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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109C TRP* 5.6 1.3 - + - -
144C PHE* 1.3 73.8 - - - +
146C GLN* 1.3 65.7 + - - +
163C LEU* 4.1 20.6 - - + -
164C ALA 3.8 9.0 - - - -
165C LEU* 3.4 28.9 - - + -
179C LEU* 3.4 56.3 - - + -
180C ALA 4.2 2.9 - - - -
181C LEU* 3.6 28.3 - - + -
199C PHE* 3.3 25.3 - - - -
200C GLN* 2.6 20.6 + - + +
214C VAL* 3.8 29.2 - - + -
234C VAL 4.1 2.9 - - - -
235C LEU* 4.4 11.7 - - + -
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Residues in contact with GLN 146 (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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200A GLN* 2.7 41.5 + - - +
201A GLY 2.9 17.1 - - - +
202A ARG* 3.1 34.7 + - - +
144C PHE* 3.8 3.0 - - + -
145C PHE* 1.3 79.4 - - - +
147C LEU* 1.3 62.3 + - - +
163C LEU* 4.1 5.5 - - - +
181C LEU* 4.8 0.2 - - - -
197C PHE* 4.7 2.6 - - + -
198C GLY 4.0 4.5 - - - +
199C PHE* 3.7 10.3 - - + -
232C ALA* 3.9 15.0 + - - +
233C THR* 3.5 10.6 - - - +
234C VAL* 3.0 47.9 + - - +
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Residues in contact with LEU 147 (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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146C GLN* 1.3 74.3 - - - +
148C GLU* 1.3 64.7 + - - +
149C LEU* 3.6 15.3 - - + -
161C VAL* 4.1 20.0 - - + +
163C LEU* 3.7 41.3 - - + +
181C LEU* 4.5 7.8 - - + +
183C VAL* 3.6 28.6 - - + +
197C PHE* 3.5 8.1 - - - -
198C GLY 3.1 29.8 + - - -
216C LEU* 4.8 0.2 - - + -
228C LEU* 3.7 29.8 - - + -
232C ALA 4.4 1.3 - - - -
233C THR* 3.9 12.1 - - + +
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Residues in contact with GLU 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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180A ALA* 4.4 22.1 - - - +
181A LEU* 5.7 0.2 - - - -
182A THR* 5.3 7.3 + - - -
200A GLN* 5.3 1.1 + - - -
147C LEU* 1.3 76.0 - - - +
149C LEU* 1.3 64.4 + - - +
195C SER* 5.4 7.2 - - - -
196C ALA 3.2 18.2 - - - +
197C PHE* 4.1 19.9 - - + +
228C LEU* 3.6 5.9 - - - +
229C THR* 2.8 41.3 + - - +
232C ALA* 3.2 36.9 + - + +
233C THR* 4.1 4.6 + - - -
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Residues in contact with LEU 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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102C LEU* 3.8 21.3 - - + -
147C LEU* 3.6 30.7 - - + -
148C GLU* 1.3 77.0 - - - +
150C ARG* 1.3 59.9 + - - +
161C VAL* 3.6 28.0 - - + -
183C VAL* 3.7 25.8 - - + -
185C LEU* 3.8 9.9 - - + -
195C SER* 3.2 4.2 - - - -
196C ALA* 2.7 40.2 + - + -
226C TRP* 3.3 18.3 - - + -
227C GLN 3.4 9.4 - - - +
228C LEU* 3.9 11.4 - - + -
229C THR* 3.8 1.8 - - - -
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Residues in contact with ARG 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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100C VAL* 6.0 0.4 - - - +
149C LEU* 1.3 74.8 - - - +
151C ARG* 1.3 66.5 + - - +
152C VAL* 3.4 16.8 + - + +
194C ASN* 3.3 9.2 - - + +
195C SER* 4.5 4.3 - - - +
226C TRP* 3.4 4.5 - - - -
227C GLN* 3.2 32.9 + - - +
228C LEU 5.0 5.2 + - - -
229C THR* 3.4 30.2 - - - +
230C GLN* 4.3 10.1 - - - +
66D ARG* 4.0 22.4 - - - +
72D PHE* 3.9 17.0 - - - -
99D CYS 4.1 1.2 + - - -
100D SER* 2.7 45.0 + - - +
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Residues in contact with ARG 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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150C ARG* 1.3 73.5 - - - +
152C VAL* 1.3 59.0 + - - +
153C VAL 3.3 22.2 - - - +
154C ALA* 4.2 11.0 - - - +
155C GLY 4.3 3.4 - - - +
156C GLU 2.8 29.7 + - - +
157C GLY 3.6 6.7 + - - -
186C PRO* 2.7 31.9 + - - +
187C PRO 3.9 7.1 + - - -
188C ALA* 3.8 17.0 - - - +
193C ARG* 2.9 22.4 + - - +
194C ASN* 2.8 40.2 + - - +
225C ALA 3.1 18.2 - - - +
226C TRP* 3.3 24.9 - - + -
100D SER 3.8 6.9 - - - +
101D MET* 3.3 21.2 - - - +
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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