Contacts of the helix formed by residues 158 - 175 (chain A) in PDB entry 2XCV
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 ASN 158 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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151A TYR* 4.5 8.6 + - - -
152A ILE 4.6 1.0 - - - +
153A LEU* 3.8 28.2 - - + +
154A ASN* 3.3 8.7 + - - +
155A THR* 3.1 38.9 + - - +
156A LEU 3.1 1.6 - - - -
157A PHE* 1.3 77.4 - - - +
159A LEU* 1.3 56.2 + - - +
160A PRO* 3.4 2.2 - - - -
161A GLU* 2.8 34.9 + - - +
162A THR* 2.7 37.3 + - - -
202A ARG* 3.8 11.1 - - - +
1491A IMP 4.6 4.2 + - - -
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Residues in contact with LEU 159 (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 TRP* 4.8 5.6 - - + +
66A GLU* 4.0 22.7 - - + +
91A TYR* 3.8 15.8 - - - +
96A PRO* 3.9 26.7 - - + +
97A THR 4.0 2.2 - - - +
98A ARG* 3.8 31.9 - - + +
155A THR 3.9 1.5 + - - +
156A LEU* 3.5 38.8 - - + +
158A ASN* 1.3 73.9 - - - +
160A PRO* 1.4 73.6 - - + +
162A THR* 3.3 6.3 + - - +
163A TYR* 3.2 22.3 + - - +
374A GLU* 5.2 2.7 - - + +
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Residues in contact with PRO 160 (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 GLU* 3.4 37.9 - - + +
69A GLY* 4.3 6.7 - - - -
70A PHE* 3.7 25.5 - - - +
73A THR* 5.5 2.7 - - - +
91A TYR* 3.9 11.4 - - + -
156A LEU 3.9 3.4 - - - +
157A PHE* 3.6 19.3 - - - +
159A LEU* 1.4 93.0 - - + +
161A GLU* 1.3 57.4 + - - +
163A TYR* 3.3 1.0 + - - -
164A LEU* 2.8 29.2 + - - +
205A VAL* 6.0 2.5 - - + -
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Residues in contact with GLU 161 (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 THR* 6.1 0.2 - - - -
153A LEU* 3.6 19.1 - - + +
157A PHE 4.1 1.3 + - - +
158A ASN* 2.8 39.9 + - - +
160A PRO* 1.3 77.1 - - - +
162A THR* 1.3 61.3 + - - +
164A LEU* 3.6 8.8 - - + +
165A LEU* 2.9 36.9 + - + +
198A PHE* 4.7 3.8 - - - -
201A VAL* 3.7 21.5 - - + +
202A ARG* 2.6 44.4 + - - -
205A VAL* 3.9 20.0 - - + +
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Residues in contact with THR 162 (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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95A PHE* 4.0 1.1 - - + -
96A PRO* 3.6 22.2 - - + -
97A THR 4.3 6.0 + - - +
98A ARG* 5.9 0.3 - - - -
100A LEU* 3.7 28.0 - - + -
109A LEU* 3.6 31.5 - - + +
153A LEU* 3.7 26.1 + - + +
158A ASN* 2.7 30.9 + - - +
159A LEU* 3.5 7.7 - - - +
161A GLU* 1.3 72.9 - - - +
163A TYR* 1.3 63.3 + - - +
165A LEU* 3.7 3.2 + - - +
166A ALA* 3.6 7.3 + - - +
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Residues in contact with TYR 163 (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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70A PHE* 3.4 23.1 - + - -
90A ALA 3.3 27.8 + - - -
91A TYR* 3.8 14.1 - + + -
92A ASP* 3.4 38.9 + - + +
95A PHE* 3.6 32.5 - + + -
96A PRO* 4.2 6.1 - - + -
125A PHE* 3.7 24.9 - + - -
159A LEU 3.2 8.4 + - - +
160A PRO 3.8 5.6 - - - +
162A THR* 1.3 82.3 - - - +
164A LEU* 1.3 62.3 + - - +
166A ALA* 3.4 4.7 + - - +
167A CYS* 3.0 42.1 + - - -
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Residues in contact with LEU 164 (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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70A PHE* 3.9 14.0 - - + -
73A THR* 3.5 34.5 - - + -
74A VAL* 3.8 26.5 - - + -
77A LEU* 4.0 14.4 - - + -
86A LEU* 5.4 0.2 - - + -
89A PHE* 3.9 20.4 - - + -
160A PRO 2.8 18.7 + - - +
161A GLU* 3.6 6.7 - - - +
163A TYR* 1.3 76.2 - - - +
165A LEU* 1.3 56.5 + - - +
167A CYS* 3.3 2.2 + - - +
168A LEU* 2.8 53.9 + - + +
201A VAL* 4.1 12.1 - - + -
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Residues in contact with LEU 165 (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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102A PHE* 3.8 41.5 - - + -
109A LEU* 5.0 1.8 - - + -
153A LEU* 4.4 15.7 - - + -
161A GLU* 2.9 31.8 + - + +
162A THR* 4.1 4.5 - - - +
164A LEU* 1.3 72.9 - - - +
166A ALA* 1.3 58.4 + - - +
168A LEU* 3.4 4.1 + - - +
169A VAL* 2.9 36.3 + - - +
197A MET* 4.1 13.2 - - + +
198A PHE* 4.0 35.9 - - + -
201A VAL* 3.8 28.3 - - + -
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Residues in contact with ALA 166 (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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95A PHE* 3.6 35.4 - - + -
109A LEU* 4.1 7.0 - - + +
124A GLY* 3.5 18.4 - - - +
125A PHE* 3.7 14.4 - - + -
162A THR 3.6 3.5 + - - +
163A TYR 3.4 8.5 + - - +
165A LEU* 1.3 76.3 - - - +
167A CYS* 1.3 56.4 + - - +
169A VAL* 3.4 1.1 + - - -
170A ASP* 2.9 31.7 + - - +
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Residues in contact with CYS 167 (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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70A PHE* 4.3 8.3 - - - -
89A PHE* 3.7 33.0 - - + -
125A PHE* 3.6 15.6 - - - -
163A TYR* 3.0 57.8 + - - +
164A LEU* 3.5 9.2 - - - +
166A ALA* 1.3 70.9 - - - +
168A LEU* 1.3 57.4 + - - +
170A ASP* 3.7 2.4 - - - +
171A PHE* 2.8 31.0 + - - +
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Residues in contact with LEU 168 (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* 4.2 6.1 - - + -
82A TYR* 4.3 6.1 - - + -
86A LEU* 3.9 32.3 - - + -
89A PHE* 3.9 11.0 - - + -
164A LEU* 2.8 34.6 + - + +
165A LEU* 3.7 3.8 - - - +
167A CYS* 1.3 72.1 - - - +
169A VAL* 1.3 65.5 + - - +
171A PHE* 3.4 3.2 + - + +
172A PHE* 3.0 48.5 + - + -
197A MET* 3.9 24.9 - - + -
201A VAL* 3.4 32.8 - - + -
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Residues in contact with VAL 169 (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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102A PHE* 4.6 5.6 - - + -
107A GLY 3.9 12.3 - - - +
123A HIS* 3.5 35.0 - - + +
124A GLY* 3.6 20.2 - - - +
165A LEU 2.9 25.4 + - - +
166A ALA* 3.9 2.7 - - - +
168A LEU* 1.3 71.2 - - - +
170A ASP* 1.3 55.5 + - - +
173A THR* 2.6 39.6 + - - +
185A PHE* 3.9 7.4 - - - -
194A TYR* 3.9 23.6 - - + -
197A MET* 3.9 14.4 - - + -
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Residues in contact with ASP 170 (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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124A GLY* 3.9 9.4 - - - -
125A PHE* 3.5 37.6 + - + +
166A ALA 2.9 18.5 + - - +
167A CYS 3.7 3.7 - - - +
169A VAL* 1.3 74.7 - - - +
171A PHE* 1.3 69.1 + - - +
173A THR* 3.5 2.6 + - - -
174A ASN* 2.9 46.0 + - - +
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Residues in contact with PHE 171 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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83A PRO* 3.7 21.5 - - + -
85A GLU* 3.4 49.6 - - + -
86A LEU* 4.5 7.9 - - + -
89A PHE* 3.7 22.7 - + + -
167A CYS 2.8 20.6 + - - +
168A LEU 3.7 3.6 - - - +
170A ASP* 1.3 77.2 + - - +
172A PHE* 1.3 90.4 + + - +
174A ASN* 3.2 1.9 + - - +
175A CYS* 3.0 41.5 + - + +
177A ARG* 4.0 7.6 - - - -
178A TYR* 4.2 5.6 - + - -
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Residues in contact with PHE 172 (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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82A TYR* 3.9 23.8 - + - -
83A PRO* 4.3 7.4 - - + -
86A LEU* 5.1 0.2 - - + -
168A LEU* 3.0 50.3 + - + -
171A PHE* 1.3 91.1 - + - +
173A THR* 1.3 62.4 + - - +
174A ASN 3.4 0.2 + - - -
175A CYS 3.5 15.1 - - - +
178A TYR* 3.6 52.6 - + + +
180A SER* 4.6 0.5 + - - -
185A PHE* 3.6 28.5 - + + -
192A MET* 3.5 34.8 - - + -
197A MET* 4.0 15.0 - - - -
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Residues in contact with THR 173 (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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123A HIS* 4.1 12.8 + - + +
169A VAL* 2.6 32.1 + - - +
170A ASP* 3.8 5.6 - - - -
172A PHE* 1.3 76.9 - - - +
174A ASN* 1.3 72.0 + - - +
175A CYS 3.9 1.7 + - - +
178A TYR 5.5 1.2 - - - +
180A SER* 3.8 16.6 + - - +
185A PHE* 3.5 18.3 - - - -
194A TYR* 4.7 0.2 + - - -
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Residues in contact with ASN 174 (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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170A ASP* 2.9 39.8 + - - +
171A PHE* 3.7 2.0 - - - +
173A THR* 1.3 90.2 + - - +
175A CYS* 1.3 61.0 + - - +
176A PRO* 3.6 9.7 - - - +
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Residues in contact with CYS 175 (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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171A PHE* 3.0 32.6 + - + +
172A PHE 3.5 9.2 + - - +
173A THR 3.5 2.4 - - - +
174A ASN* 1.3 77.3 - - - +
176A PRO* 1.4 66.1 - - - +
177A ARG* 3.3 38.1 - - - -
178A TYR* 3.1 44.9 + - + +
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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