Contacts of the helix formed by residues 151 - 164 (chain C) in PDB entry 4X6D
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 151 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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148C LEU 4.1 9.4 + - - +
149C ASN 4.8 1.7 - - - -
150C GLN* 1.3 97.0 - - + +
152C GLN* 1.3 61.4 + - - +
153C HIS* 2.9 26.5 + - - +
154C GLU* 3.5 40.7 + - + +
155C ASN* 3.7 5.2 + - - +
99F THR* 3.0 26.8 + - - +
100F GLN* 3.8 15.8 - - - +
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Residues in contact with GLN 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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129C ASN* 2.9 36.7 + - - +
130C SER* 5.0 4.5 - - - -
149C ASN* 5.3 7.1 + - - +
150C GLN 4.1 2.6 + - - -
151C ASN* 1.3 71.1 + - - +
153C HIS* 1.3 63.8 + - + +
154C GLU 3.2 0.7 - - - -
155C ASN* 3.1 22.9 + - - +
156C ASP* 2.8 50.8 + - - +
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Residues in contact with HIS 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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151C ASN* 2.9 9.2 + - - +
152C GLN* 1.3 76.5 - - + +
154C GLU* 1.3 64.3 + - - +
156C ASP* 3.3 20.0 + - + +
157C ILE* 3.2 30.9 + - + +
48E TYR* 3.7 29.8 + + - +
50E TYR* 5.8 0.2 - - + -
55E LYS* 5.6 8.9 - - - -
98F PRO 5.5 2.5 - - - +
99F THR* 3.6 16.2 + - - +
100F GLN* 3.6 11.1 + - - -
101F GLY* 3.2 33.2 + - - +
102F MET* 6.4 2.0 - - + -
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Residues in contact with GLU 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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73C ARG* 2.7 52.5 + - - +
76C ARG* 3.3 23.3 + - - -
148C LEU 5.3 3.4 - - - +
151C ASN* 3.5 32.7 + - + +
152C GLN 3.2 0.2 - - - -
153C HIS* 1.3 77.3 - - - +
155C ASN* 1.3 66.1 + - - +
157C ILE* 3.2 7.0 + - - +
158C THR* 3.1 9.5 + - - -
98F PRO 5.6 2.0 - - - -
99F THR* 3.4 19.7 - - - +
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Residues in contact with ASN 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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126C PHE* 3.5 12.6 - - + -
129C ASN* 3.6 5.8 + - - +
130C SER* 3.5 19.0 - - - +
131C TRP* 3.7 13.6 + - - -
148C LEU 3.5 16.1 - - - +
149C ASN* 3.0 30.5 + - - +
151C ASN 3.7 5.0 + - - +
152C GLN* 3.1 30.5 + - - +
154C GLU* 1.3 79.0 - - - +
156C ASP* 1.3 57.5 + - - +
158C THR* 3.3 7.2 + - - -
159C HIS* 2.9 30.7 + - - +
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Residues in contact with ASP 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C ASN* 3.4 12.6 + - - -
152C GLN* 2.8 41.1 + - - +
153C HIS* 3.5 26.2 - - - +
154C GLU 3.1 0.4 - - - -
155C ASN* 1.3 74.3 - - - +
157C ILE* 1.3 57.8 + - + +
159C HIS* 3.2 6.8 + - - +
160C ASN* 2.8 27.6 + - - +
31E TYR* 5.4 0.9 - - + -
48E TYR* 4.4 3.3 + - - +
50E TYR* 3.5 48.6 + - + +
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Residues in contact with ILE 157 (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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69C LEU* 4.5 2.0 - - + -
73C ARG* 3.3 24.7 - - - +
153C HIS* 3.4 16.2 - - + +
154C GLU* 3.2 5.5 + - - +
156C ASP* 1.3 73.2 - - + +
158C THR* 1.3 67.2 + - - +
160C ASN* 3.3 7.4 + - - +
161C LEU* 3.0 35.6 + - + +
31E TYR* 4.9 4.0 - - + +
94E LEU* 3.7 24.2 - - + -
97F LEU* 3.6 33.7 - - + -
98F PRO 4.5 10.3 - - - +
102F MET* 4.4 23.6 - - + -
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Residues in contact with THR 158 (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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73C ARG* 3.5 14.8 + - - +
114C LEU* 3.7 29.4 - - + -
126C PHE* 3.8 23.4 - - + -
131C TRP* 5.2 4.2 + - + -
154C GLU 3.1 14.9 + - - -
155C ASN* 3.3 11.3 + - - -
157C ILE* 1.3 76.0 - - - +
159C HIS* 1.3 64.5 + - - +
161C LEU* 3.3 8.9 + - - +
162C LEU* 3.0 28.0 + - + +
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Residues in contact with HIS 159 (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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126C PHE* 3.9 10.3 - + + -
128C ASN 3.6 22.6 + - - -
129C ASN* 3.8 21.2 - - + +
155C ASN 2.9 18.2 + - - +
156C ASP* 3.4 4.5 - - - +
158C THR* 1.3 76.2 - - - +
160C ASN* 1.3 56.4 + - - +
162C LEU* 3.3 3.3 + - + +
163C SER* 2.8 57.3 + - - -
30E GLN* 4.7 7.6 - - - -
50E TYR* 2.6 36.5 + + - -
51E SER* 5.6 2.0 - - - -
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Residues in contact with ASN 160 (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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156C ASP 2.8 17.4 + - - +
157C ILE* 3.7 5.2 - - - +
159C HIS* 1.3 72.5 - - - +
161C LEU* 1.3 61.1 + - - +
163C SER* 4.3 2.2 - - - -
164C ASP* 3.1 26.5 + - - +
165C THR* 3.3 3.7 + - - -
30E GLN* 4.2 6.4 - - - +
31E TYR* 2.6 31.9 + - - +
50E TYR* 3.3 20.3 + - - +
93E SER* 3.1 27.7 + - - -
94E LEU* 3.1 27.1 + - + +
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Residues in contact with LEU 161 (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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66C LEU* 4.2 23.6 - - + -
69C LEU* 3.9 32.5 - - + -
70C PHE* 5.9 9.2 - - + -
73C ARG* 4.9 6.1 - - - +
157C ILE* 3.0 28.6 + - + +
158C THR* 3.5 9.9 - - - +
160C ASN* 1.3 75.0 - - - +
162C LEU* 1.3 61.6 + - + +
165C THR* 3.2 23.4 + - + +
166C CYS* 3.0 30.5 + - - +
94E LEU* 4.4 11.0 - - + -
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Residues in contact with LEU 162 (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 GLY* 4.5 3.4 - - - -
101C GLY* 3.9 19.3 - - - +
112C SER* 2.6 28.1 + - - -
113C PHE* 3.6 22.2 - - - +
114C LEU* 3.8 21.5 - - + -
126C PHE* 3.7 31.6 - - + +
158C THR* 3.0 25.7 + - + +
159C HIS* 3.8 3.4 - - + +
161C LEU* 1.3 78.0 - - + +
163C SER* 1.3 57.9 + - - +
166C CYS* 3.7 8.1 - - + +
167C PRO* 3.3 17.3 - - - +
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Residues in contact with SER 163 (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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112C SER* 3.7 8.7 - - - -
159C HIS* 2.8 53.2 + - - -
160C ASN* 4.3 2.3 - - - -
162C LEU* 1.3 74.5 - - - +
164C ASP* 1.3 61.4 + - - +
167C PRO* 3.8 11.6 - - - +
30E GLN* 5.7 0.9 + - - -
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Residues in contact with ASP 164 (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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160C ASN* 3.1 24.3 + - - +
162C LEU 3.4 1.2 + - - -
163C SER* 1.3 83.9 - - - +
165C THR* 1.3 64.4 + - - +
167C PRO* 3.6 7.2 - - - +
168C ARG* 3.2 38.0 + - - +
30E GLN* 5.0 5.9 + - - +
93E SER* 3.1 31.9 + - - -
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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