Contacts of the helix formed by residues 142 - 157 (chain C) in PDB entry 6ERH
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 SER 142 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100C LYS 5.5 2.3 + - - -
102C ILE* 5.9 0.6 - - - +
141C TYR* 1.3 78.1 - - - +
143C LEU* 1.4 55.3 + - - +
144C SER* 3.1 12.1 - - - -
145C GLU* 2.8 58.0 + - - +
146C VAL* 3.2 11.3 + - - +
176C HIS* 3.6 7.0 - - - -
182C LYS* 4.2 17.9 - - - -
185C ARG* 4.2 11.9 - - - -
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Residues in contact with LEU 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C LEU* 5.4 1.6 - - + -
88C TYR* 4.3 23.6 - - + -
141C TYR* 4.3 7.7 - - + -
142C SER* 1.4 69.6 - - - +
144C SER* 1.3 52.8 + - - +
146C VAL* 3.2 16.4 + - + +
147C LEU* 2.8 50.1 + - + +
168C LEU* 4.7 11.2 - - + -
175C PRO* 4.0 10.5 - - + -
176C HIS* 3.1 26.9 - - + +
186C ALA* 4.0 10.5 - - + -
216C PHE* 3.8 24.5 - - + -
217C TYR* 3.6 26.7 - - + +
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Residues in contact with SER 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C SER* 3.9 5.9 + - - -
143C LEU* 1.3 74.6 - - - +
145C GLU* 1.4 60.0 + - - +
147C LEU* 3.3 2.0 + - - -
148C TRP* 3.0 25.5 + - - +
182C LYS* 4.7 3.0 + - - -
185C ARG* 3.6 63.0 + - - +
186C ALA* 3.8 10.1 - - - +
189C LYS* 3.7 19.5 - - - +
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Residues in contact with GLU 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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99C PHE* 3.4 51.5 - - + +
100C LYS* 3.8 15.6 + - - +
102C ILE* 3.7 9.4 - - + -
142C SER* 2.8 30.1 + - - +
144C SER* 1.4 75.9 + - - +
146C VAL* 1.3 64.2 + - - +
148C TRP* 3.2 4.5 + - - +
149C VAL* 3.1 27.9 + - - +
185C ARG* 3.9 20.1 + - - +
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Residues in contact with VAL 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C LEU* 3.6 39.7 - - + -
88C TYR* 3.7 37.5 - - + -
102C ILE* 3.7 21.7 - - + +
141C TYR* 4.7 0.9 - - + -
142C SER 3.5 19.7 - - - +
143C LEU* 3.2 19.3 + - + +
145C GLU* 1.3 76.2 - - - +
147C LEU* 1.3 59.6 + - - +
149C VAL* 3.4 5.8 + - - +
150C CYS* 3.2 22.9 + - - -
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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
----------------------------------------------------------
41C LEU* 4.7 16.8 - - + -
143C LEU* 2.8 32.5 + - + +
144C SER 3.8 4.5 - - - +
146C VAL* 1.3 73.9 - - + +
148C TRP* 1.4 59.7 + - - +
150C CYS* 3.4 3.9 + - - +
151C ALA* 2.9 31.0 + - - +
166C ILE* 4.7 9.0 - - + -
168C LEU* 6.4 1.3 - - + -
186C ALA* 4.2 20.4 - - + +
189C LYS* 3.8 9.3 - - + -
190C ALA* 4.2 13.5 - - + +
193C LEU* 3.8 32.3 - - + +
200C LEU* 4.2 14.1 - - + -
220C ILE* 5.4 7.6 - - + -
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Residues in contact with TRP 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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96C SER* 4.9 1.3 - - - -
97C VAL* 3.6 36.1 - - + -
99C PHE* 3.6 28.7 - + + -
144C SER 3.0 13.3 + - - +
145C GLU* 3.2 10.3 + - - +
147C LEU* 1.4 75.5 - - - +
149C VAL* 1.3 65.9 + - - +
151C ALA* 3.4 2.6 + - - +
152C ASN* 3.0 54.4 + - + +
189C LYS* 3.5 31.8 - - + +
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Residues in contact with VAL 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C VAL* 4.9 2.2 - - + -
95C ASN* 3.6 31.0 - - + +
96C SER* 5.5 2.0 - - - +
97C VAL* 4.9 1.6 - - + -
99C PHE* 3.5 19.7 - - + -
102C ILE* 4.0 14.4 - - + -
104C VAL* 3.5 31.9 - - + -
145C GLU 3.1 15.2 + - - +
146C VAL 3.7 6.5 - - - +
147C LEU 3.4 0.2 - - - -
148C TRP* 1.3 81.5 - - + +
150C CYS* 1.3 60.6 + - - +
152C ASN* 3.4 6.7 + - - +
153C LEU* 3.3 24.2 + - + +
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Residues in contact with CYS 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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39C ILE* 3.2 42.7 - - + +
41C LEU* 3.8 36.3 - - - -
86C VAL* 4.5 8.1 - - - -
146C VAL 3.2 16.6 + - - +
147C LEU* 3.7 9.2 - - - +
149C VAL* 1.3 75.3 - - - +
151C ALA* 1.3 64.7 + - - +
153C LEU* 3.0 16.0 + - - +
154C PHE* 3.6 2.7 + - - -
166C ILE* 3.7 21.8 - - + -
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Residues in contact with ALA 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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147C LEU 2.9 17.4 + - - +
148C TRP* 3.7 6.5 - - - +
150C CYS* 1.3 74.1 - - - +
152C ASN* 1.4 60.9 - - - +
154C PHE* 3.2 32.2 + - - +
155C SER* 3.4 10.3 + - - -
166C ILE* 4.6 1.4 - - - +
189C LYS* 4.6 6.3 - - - +
193C LEU* 3.6 25.4 - - + -
198C ILE* 4.4 7.7 - - + +
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Residues in contact with ASN 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96C SER* 3.2 22.1 + - - -
148C TRP* 3.0 50.0 + - + +
149C VAL* 3.4 7.9 - - - +
150C CYS 3.2 0.2 - - - -
151C ALA* 1.4 75.7 - - - +
153C LEU* 1.4 61.4 + - - +
155C SER* 3.2 12.6 + - - -
156C ASP* 3.1 50.9 + - - +
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Residues in contact with LEU 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C ILE* 3.8 18.8 - - + -
84C ALA* 4.3 11.9 - - + -
86C VAL* 3.7 30.3 - - + -
104C VAL* 4.0 27.4 - - + -
107C GLU* 4.2 21.3 - - + -
108C LEU* 3.6 21.1 - - + +
149C VAL* 3.3 16.2 + - + +
150C CYS* 3.0 9.4 + - - +
152C ASN* 1.4 76.6 - - - +
154C PHE* 1.4 62.4 + - - +
156C ASP* 3.6 20.0 + - + +
157C VAL* 3.8 7.6 + - - +
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Residues in contact with PHE 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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37C SER* 3.5 28.7 - - - -
39C ILE* 3.6 20.2 - - + -
108C LEU* 3.6 14.6 - - + -
150C CYS 3.6 12.5 + - - -
151C ALA* 3.2 15.0 + - - +
153C LEU* 1.4 77.8 - - - +
155C SER* 1.3 62.1 + - - +
157C VAL* 3.3 22.3 - - - +
164C LYS* 3.7 39.9 + - + +
165C ARG 3.5 31.0 - - - -
166C ILE* 3.6 24.0 - - + -
198C ILE* 3.6 24.5 - - + -
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Residues in contact with SER 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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151C ALA 3.4 10.1 + - - -
152C ASN* 3.2 17.8 + - - -
154C PHE* 1.3 79.4 - - - +
156C ASP* 1.3 63.0 + - - +
157C VAL 3.5 7.4 + - - +
164C LYS* 5.6 3.3 + - - +
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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
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96C SER* 5.1 1.9 + - - -
107C GLU* 5.8 4.1 - - - +
152C ASN* 3.1 41.1 + - - +
153C LEU* 3.9 15.9 - - + +
154C PHE 3.4 0.6 - - - -
155C SER* 1.3 76.8 - - - +
157C VAL* 1.3 62.6 + - - +
158C GLN* 3.5 6.9 + - - +
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Residues in contact with VAL 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C SER* 4.9 6.3 - - - +
82C LEU* 3.8 32.5 - - + -
108C LEU* 4.7 15.9 - - + +
153C LEU 3.8 7.2 + - - +
154C PHE* 3.3 20.0 + - - +
155C SER 3.4 8.7 - - - +
156C ASP* 1.3 77.9 - - - +
158C GLN* 1.3 86.2 + - - +
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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