Contacts of the helix formed by residues 151 - 162 (chain C) in PDB entry 1A6Z
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 LYS 151 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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85A GLU* 4.2 7.9 + - - +
131C LEU* 4.7 24.3 - - + +
147C TRP 5.5 0.7 - - - -
148C GLU* 4.4 8.7 + - - +
149C ARG 4.2 0.6 - - - -
150C HIS* 1.3 70.5 - - - +
152C ILE* 1.3 63.6 + - - +
153C ARG 3.1 0.4 - - - -
154C ALA* 3.0 11.2 + - + +
155C ARG* 2.9 61.6 + - + +
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Residues in contact with ILE 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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77A THR* 4.1 9.9 - - + -
78A VAL* 3.9 35.0 - - + +
81A TRP* 3.5 50.4 - - + +
85A GLU* 5.4 1.8 + - - -
150C HIS* 3.0 22.2 - - + +
151C LYS* 1.3 76.9 - - - +
153C ARG* 1.3 61.1 + - + +
155C ARG* 3.2 15.6 + - + +
156C GLN* 2.9 50.5 + - + +
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Residues in contact with ARG 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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78A VAL* 5.6 5.4 - - + -
75C MET* 3.7 17.9 - - + +
78C VAL* 6.1 1.2 - - - +
79C ASP* 3.5 25.9 + - - -
116C TYR* 3.2 25.5 + - - -
133C TRP* 3.6 22.9 - - + -
147C TRP* 3.5 49.4 - - - +
150C HIS 3.3 8.2 + - - +
151C LYS 3.1 0.6 - - - -
152C ILE* 1.3 84.4 - - + +
154C ALA* 1.3 65.0 + - - +
156C GLN* 3.3 6.5 + - - +
157C ASN* 2.9 34.4 + - - +
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Residues in contact with ALA 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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126C PHE* 3.5 13.1 - - + -
131C LEU* 3.7 39.0 - - + +
133C TRP* 3.7 25.4 - - + -
147C TRP 5.7 0.2 - - - +
150C HIS 4.6 0.2 + - - -
151C LYS* 3.0 12.7 + - - +
153C ARG* 1.3 77.1 - - - +
155C ARG* 1.3 58.3 + - - +
157C ASN* 3.2 2.5 + - - +
158C ARG* 2.8 29.1 + - - +
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Residues in contact with ARG 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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81A TRP* 5.9 7.9 - - - -
131C LEU* 3.8 30.7 - - + +
151C LYS* 2.9 60.8 + - - +
152C ILE* 3.4 20.0 - - + +
154C ALA* 1.3 76.6 - - - +
156C GLN* 1.3 57.7 + - + +
158C ARG* 3.5 9.2 + - - +
159C ALA* 2.9 29.1 + - - +
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Residues in contact with GLN 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A HIS* 3.8 44.5 + - + +
77A THR* 4.0 19.0 - - - +
78A VAL* 3.1 26.3 - - + +
152C ILE* 2.9 34.0 + - + +
153C ARG* 3.8 5.2 - - + +
155C ARG* 1.3 72.5 - - + +
157C ASN* 1.3 61.2 + - - +
159C ALA* 3.1 9.3 + - - +
160C TYR* 2.9 28.3 + - - +
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Residues in contact with ASN 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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75C MET* 3.9 12.7 - - - +
114C TRP* 3.4 39.4 - - + -
116C TYR* 5.2 0.7 + - - -
126C PHE* 3.7 17.5 - - + -
133C TRP* 3.4 25.8 + - - -
153C ARG* 2.9 33.5 + - - +
154C ALA 3.4 4.3 - - - +
156C GLN* 1.3 79.4 - - - +
158C ARG* 1.3 62.6 + - - +
160C TYR* 3.1 13.8 + - - +
161C LEU* 3.1 17.2 + - - +
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Residues in contact with ARG 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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126C PHE* 3.6 14.1 - - + -
128C PRO* 3.1 34.3 + - + -
129C ASP* 4.1 10.3 + - - +
131C LEU* 3.5 34.9 - - + +
154C ALA 2.8 19.4 + - - +
155C ARG* 3.9 11.4 + - - +
157C ASN* 1.3 73.3 - - - +
159C ALA* 1.3 64.0 + - - +
161C LEU* 3.1 5.7 + - - +
162C GLU* 2.9 57.2 + - + +
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Residues in contact with ALA 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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155C ARG 2.9 15.0 + - - +
156C GLN* 3.3 13.2 - - - +
158C ARG* 1.3 78.3 - - - +
160C TYR* 1.3 63.1 + - - +
162C GLU* 5.1 2.2 - - - -
163C ARG* 3.0 56.7 + - - +
164C ASP* 3.5 2.8 + - - -
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Residues in contact with TYR 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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10C TYR* 3.9 9.4 - - - -
68C SER* 5.2 3.6 - - - -
72C TRP* 3.2 38.9 - + - -
100C LEU* 3.9 19.1 - - + -
114C TRP* 4.3 15.7 - + + -
156C GLN 2.9 12.1 + - - +
157C ASN* 3.1 8.3 + - - +
159C ALA* 1.3 79.9 - - - +
161C LEU* 1.3 77.4 + - + +
164C ASP* 3.2 35.4 + - + +
165C CYS* 2.8 57.5 + - + +
168C GLN* 3.7 15.9 + - - -
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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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100C LEU* 4.7 1.3 - - + -
101C GLY 3.6 15.7 - - - +
102C CYS* 3.7 13.7 - - - +
110C THR* 4.3 2.4 - - - +
112C GLY* 3.9 13.6 + - - -
113C TYR* 3.4 41.3 - - - +
114C TRP* 4.0 11.4 - - + -
126C PHE* 3.7 32.8 - - + -
128C PRO* 4.0 8.3 - - + -
157C ASN 3.1 11.2 + - - +
158C ARG* 3.1 8.3 + - + +
160C TYR* 1.3 98.4 - - + +
162C GLU* 1.3 61.2 + - + +
165C CYS* 4.2 2.0 - - - -
166C PRO* 3.4 16.6 - - - +
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Residues in contact with GLU 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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110C THR* 4.5 18.0 + - - +
112C GLY 5.7 4.9 - - - +
128C PRO* 4.4 8.5 - - + +
129C ASP* 5.0 4.7 - - - +
158C ARG* 2.9 49.3 + - + +
159C ALA* 4.6 1.9 - - - +
161C LEU* 1.3 82.6 - - + +
163C ARG* 1.3 60.5 + - + +
166C PRO* 3.4 14.7 - - - +
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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