Contacts of the helix formed by residues 147 - 159 (chain C) in PDB entry 5EWL
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 GLN 147 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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124C ARG* 4.3 12.0 - - - +
144C TYR* 3.0 38.1 + - - +
146C HIS* 1.4 73.1 - - - +
148C ALA* 1.3 57.9 + - - +
149C LEU 3.1 0.2 - - - -
150C VAL* 2.9 29.2 + - - +
151C TRP* 3.0 30.1 + - + -
271C GLY* 3.2 17.4 - - - -
272C GLU* 3.0 32.2 + - - +
274C GLU* 5.1 0.5 - - - +
290C LEU* 3.6 23.3 - - + +
372C TYR* 3.9 19.1 - - + +
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Residues in contact with ALA 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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145C SER 3.3 16.8 + - - +
147C GLN* 1.3 76.9 - - - +
149C LEU* 1.4 54.6 + - - +
151C TRP* 3.4 21.2 + - + +
152C PHE* 3.0 30.5 + - - +
176C ALA 4.2 3.8 - - - +
179C LYS* 4.0 6.7 - - + -
180C LEU* 3.7 40.2 - - + +
183C LEU* 3.4 5.1 - - + +
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Residues in contact with LEU 149 (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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146C HIS* 3.0 35.8 + - + +
148C ALA* 1.4 75.7 - - - +
150C VAL* 1.3 66.0 + - + +
152C PHE* 3.8 3.2 - - - +
153C GLU* 3.3 27.7 + - - +
179C LYS* 3.4 31.4 - - - +
183C LEU* 3.7 21.3 - - + +
372C TYR* 5.8 3.4 - - + +
388C PHE* 4.5 14.9 - - + -
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Residues in contact with VAL 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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146C HIS 4.6 1.3 - - - +
147C GLN* 2.9 13.2 + - - +
149C LEU* 1.3 77.0 - - + +
151C TRP* 1.3 59.3 + - - +
153C GLU* 3.1 5.0 + - - +
154C MET* 2.9 39.3 + - + +
290C LEU* 3.8 31.4 - - + -
372C TYR* 3.6 38.1 - - + -
374C ILE* 4.6 1.6 - - + -
388C PHE* 3.8 36.1 - - + -
393C ILE* 4.6 1.8 - - + -
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Residues in contact with TRP 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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144C TYR 5.6 1.8 - - - -
145C SER 5.6 0.4 - - - -
147C GLN* 3.0 26.7 + - + -
148C ALA* 3.4 27.3 + - + +
150C VAL* 1.3 75.2 - - + +
152C PHE* 1.3 52.7 + - - +
154C MET* 3.3 5.1 - - + +
155C MET* 2.8 38.4 + - - +
165C LEU* 4.7 6.7 - - + -
176C ALA* 4.6 15.5 - - + -
180C LEU* 4.5 10.8 - - + -
241C ILE* 3.4 34.8 - - + -
242C LEU 4.1 12.6 - - - -
243C SER* 4.5 11.2 - - - -
269C LEU* 3.5 36.1 - - + +
270C VAL 3.2 21.0 + - - -
271C GLY* 3.8 21.1 - - - -
274C GLU* 5.5 0.9 - - - -
290C LEU* 3.6 13.5 - - + +
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Residues in contact with PHE 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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148C ALA 3.0 18.5 + - - +
149C LEU* 3.8 5.4 - - - +
151C TRP* 1.3 77.4 - - - +
153C GLU* 1.3 70.5 + - - +
155C MET* 3.3 12.1 + - - +
156C ARG* 3.0 49.0 + - - -
180C LEU* 4.7 2.9 - - + +
183C LEU* 3.8 46.0 - - + -
184C LEU* 3.7 26.7 - - + -
210C PRO* 3.6 29.8 - - + -
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Residues in contact with GLU 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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149C LEU 3.3 14.7 + - - +
150C VAL 3.1 8.4 + - - +
152C PHE* 1.3 91.0 - - - +
154C MET* 1.3 59.5 + - - +
156C ARG* 2.8 36.1 + - - +
157C LEU* 2.9 29.1 + - - +
388C PHE* 3.6 20.4 - - + -
391C SER 4.3 12.0 - - - +
392C TYR* 5.4 2.1 - - - -
393C ILE* 3.7 21.5 + - + +
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Residues in contact with MET 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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150C VAL* 2.9 34.5 + - + +
151C TRP* 3.3 13.0 - - + +
153C GLU* 1.3 75.2 - - - +
155C MET* 1.3 57.7 + - - +
157C LEU* 3.3 2.1 + - - -
158C PHE* 2.9 53.4 + - + +
160C TRP* 3.3 27.4 - - + -
269C LEU* 4.2 18.8 - - + -
288C ILE* 4.8 4.5 - - - -
290C LEU* 4.5 4.7 - - + -
374C ILE* 3.9 31.9 - - + -
393C ILE* 3.5 18.3 - - + +
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Residues in contact with MET 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 TRP 2.8 25.2 + - - +
152C PHE* 3.4 13.0 - - + +
154C MET* 1.3 76.0 - - - +
156C ARG* 1.3 55.8 + - - +
159C ASN* 3.0 10.0 + - - -
160C TRP* 2.9 60.3 + - + +
161C ASN* 5.5 0.9 - - - +
163C VAL* 3.8 27.1 - - + -
180C LEU* 4.4 6.1 - - - -
184C LEU* 3.8 20.2 - - + -
210C PRO* 3.7 30.9 - - + +
211C LYS 4.8 0.7 - - - +
241C ILE* 4.0 19.7 - - + -
269C LEU* 5.0 1.1 - - + -
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Residues in contact with ARG 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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152C PHE* 3.0 49.8 + - - +
153C GLU* 2.8 39.6 + - - +
154C MET 3.3 0.2 - - - -
155C MET* 1.3 76.2 - - - +
157C LEU* 1.3 59.4 + - - +
159C ASN* 3.3 23.0 + - - +
210C PRO* 4.4 17.5 - - + -
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Residues in contact with LEU 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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153C GLU 2.9 17.1 + - - +
154C MET* 3.6 5.4 - - - +
156C ARG* 1.3 78.8 - - - +
158C PHE* 1.3 82.6 + - + +
159C ASN* 3.3 7.7 + - - +
393C ILE* 3.7 37.5 - - + +
395C GLN* 3.8 21.5 - - + +
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Residues in contact with PHE 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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154C MET* 2.9 41.2 + - + +
157C LEU* 1.3 95.2 - - + +
159C ASN* 1.3 70.3 + - - +
160C TRP* 3.3 42.7 + + + +
393C ILE* 5.7 0.4 - - + -
395C GLN* 3.9 23.3 - - - -
400C ILE* 3.7 23.8 - - + -
402C TRP* 3.6 27.8 - + - -
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Residues in contact with ASN 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 MET 3.0 8.9 + - - -
156C ARG* 3.3 16.2 + - - +
157C LEU 3.3 10.6 - - - +
158C PHE* 1.3 79.7 - - - +
160C TRP* 1.3 61.4 - - - +
161C ASN* 3.4 27.8 + - - +
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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