Contacts of the helix formed by residues 1151 - 1162 (chain C) in PDB entry 5ZX2
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 GLU1151 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1149C GLU 3.3 6.3 + - - +
1150C GLY* 1.3 71.0 - - - -
1152C ASP* 1.3 61.9 + - - +
1153C GLU 3.4 0.7 - - - -
1154C ASP* 4.1 2.1 + - - -
1155C LEU* 3.8 7.7 - - + +
58D TRP* 5.6 2.7 - - + -
71D LYS* 4.3 23.3 - - - +
84D ARG* 3.0 43.3 + - + +
86D LYS* 6.4 0.4 - - - +
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Residues in contact with ASP1152 (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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1150C GLY* 3.2 2.5 - - - -
1151C GLU* 1.3 78.5 - - - +
1153C GLU* 1.3 55.3 + - - +
1154C ASP 3.2 0.2 - - - -
1155C LEU* 3.0 11.2 + - - +
1156C GLU* 2.7 36.9 + - + +
71D LYS* 4.7 9.5 - - - +
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Residues in contact with GLU1153 (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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1149C GLU* 5.7 3.1 - - - +
1150C GLY 3.9 10.6 + - - +
1151C GLU 3.4 1.0 - - - -
1152C ASP* 1.3 77.5 - - - +
1154C ASP* 1.3 61.9 + - - +
1156C GLU* 3.4 16.4 - - - +
1157C ARG* 3.1 23.9 + - - +
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Residues in contact with ASP1154 (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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1150C GLY 5.3 0.4 + - - -
1151C GLU 4.1 1.4 + - - +
1152C ASP 3.2 0.2 - - - -
1153C GLU* 1.3 78.7 - - - +
1155C LEU* 1.3 64.1 + - - +
1157C ARG* 3.5 8.2 + - - +
1158C ALA* 3.0 29.3 + - - +
84D ARG* 3.7 29.8 + - - +
135F ALA* 5.4 8.1 - - - +
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Residues in contact with LEU1155 (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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1151C GLU* 3.8 16.6 - - + +
1152C ASP* 3.0 9.9 + - - +
1154C ASP* 1.3 80.5 - - - +
1156C GLU* 1.3 60.3 + - - +
1158C ALA* 3.3 7.0 + - + +
1159C ALA* 2.9 30.8 + - - +
58D TRP* 4.4 9.2 - - + -
68D VAL* 4.1 31.0 - - + -
71D LYS* 4.5 21.3 - - + +
84D ARG* 3.8 15.5 - - - +
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Residues in contact with GLU1156 (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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1152C ASP* 2.7 22.3 + - + +
1153C GLU* 3.4 19.6 - - - +
1155C LEU* 1.3 74.1 - - - +
1157C ARG* 1.3 61.5 + - - +
1159C ALA* 3.4 5.1 + - - +
1160C ALA* 2.8 34.6 + - + +
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Residues in contact with ARG1157 (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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1101C LYS* 6.4 0.2 - - - +
1104C GLU* 3.8 25.5 + - - -
1108C LYS* 5.2 3.2 - - - +
1153C GLU 3.1 18.2 + - - +
1154C ASP* 3.9 8.2 - - - +
1156C GLU* 1.3 82.3 - - - +
1158C ALA* 1.3 59.4 + - - +
1160C ALA* 3.3 6.4 + - + +
1161C ASN* 2.9 46.3 + - - +
135F ALA* 3.8 29.1 + - - +
136F LEU* 6.3 0.4 - - - +
137F PRO* 6.4 0.4 - - - +
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Residues in contact with ALA1158 (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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816C PRO* 4.8 19.8 - - + +
817C GLU* 5.0 3.1 - - - +
1154C ASP* 3.0 21.0 + - - +
1155C LEU* 3.8 9.6 - - + +
1156C GLU 3.3 0.2 - - - -
1157C ARG* 1.3 78.3 - - - +
1159C ALA* 1.3 59.8 + - - +
1161C ASN* 3.4 19.2 + - - +
1162C LEU* 3.6 17.2 + - - +
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Residues in contact with ALA1159 (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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1155C LEU 2.9 18.0 + - - +
1156C GLU* 3.9 5.2 - - - +
1158C ALA* 1.3 73.8 - - - +
1160C ALA* 1.3 65.3 + - - +
1162C LEU* 3.2 15.8 + - - +
1163C GLY 3.4 8.1 + - - -
1164C ILE* 3.4 23.1 + - + +
157F TYR* 4.9 15.7 - - + +
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Residues in contact with ALA1160 (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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1156C GLU* 2.8 26.2 + - + +
1157C ARG* 3.3 7.8 + - + +
1159C ALA* 1.3 76.9 - - - +
1161C ASN* 1.3 63.6 + - - +
1163C GLY* 3.3 12.5 + - - +
1164C ILE 4.6 7.4 - - - +
142F LYS* 4.2 9.5 + - - -
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Residues in contact with ASN1161 (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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817C GLU* 4.5 12.5 + - - +
1157C ARG* 2.9 31.5 + - - +
1158C ALA* 3.6 11.9 - - - +
1159C ALA 3.2 0.6 - - - -
1160C ALA* 1.3 78.8 - - - +
1162C LEU* 1.3 61.9 + - - +
1163C GLY 3.5 0.2 - - - -
134F GLU 5.3 0.6 + - - -
135F ALA* 3.2 26.3 + - - +
136F LEU 3.9 2.4 + - - -
137F PRO* 3.3 36.1 - - + +
138F ASP 4.5 5.0 + - - +
142F LYS* 3.2 31.9 + - - +
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Residues in contact with LEU1162 (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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816C PRO* 3.8 26.5 - - + +
817C GLU* 4.0 22.7 - - + +
820C LEU* 5.5 1.8 - - + -
1158C ALA 3.6 11.6 + - - +
1159C ALA* 3.2 10.8 + - - +
1160C ALA 3.2 0.6 - - - -
1161C ASN* 1.3 82.1 - - - +
1163C GLY* 1.3 63.1 + - - +
1164C ILE* 5.0 4.8 - - + +
138F ASP* 5.9 0.7 - - + +
141F ILE* 4.0 27.6 - - + -
142F LYS* 5.0 6.1 - - - -
145F LEU* 3.5 35.0 - - + +
146F GLN* 4.9 1.6 - - - +
153F ARG* 4.9 2.6 - - - -
157F TYR* 4.8 12.8 - - + -
161F VAL* 4.3 22.0 - - + -
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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