Contacts of the helix formed by residues 150 - 156 (chain C) in PDB entry 6TXA
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 LEU 150 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148C LYS* 4.4 1.4 - - - +
149C GLN* 1.3 89.6 - - + +
151C GLY* 1.3 55.5 + - - +
152C GLY 3.1 0.9 + - - -
153C GLY* 2.7 39.0 + - - -
154C TYR 4.8 0.7 - - - +
160C ALA* 4.0 12.9 + - + +
162C HIS* 3.7 26.6 + - + -
319C ASP* 3.6 22.7 - - - +
323C LEU* 3.7 33.7 - - + -
373C ALA* 5.6 0.4 - - + -
374C TYR* 3.6 27.8 - - + -
383C ASP* 5.3 1.4 - - - +
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Residues in contact with GLY 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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148C LYS* 3.6 15.5 + - - +
149C GLN 3.4 5.9 + - - -
150C LEU* 1.3 74.0 - - - +
152C GLY* 1.3 63.1 + - - -
153C GLY 3.3 0.5 + - - -
154C TYR* 3.5 16.8 + - - +
155C TYR* 4.6 1.2 - - - -
213C PHE* 3.8 48.6 + - - -
214C SER* 4.8 0.2 - - - -
383C ASP* 4.6 1.3 - - - -
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Residues in contact with GLY 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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150C LEU 3.1 1.2 + - - -
151C GLY* 1.3 67.6 - - - -
153C GLY* 1.3 58.2 + - - +
154C TYR 3.1 2.7 - - - -
155C TYR* 2.9 40.0 + - - +
156C VAL* 3.9 1.9 + - - +
213C PHE* 4.3 2.2 - - - -
379C GLY* 4.5 12.0 - - - -
382C ILE* 4.3 13.0 - - - +
383C ASP* 3.0 25.5 + - - -
386C ILE* 5.0 4.0 - - - -
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Residues in contact with GLY 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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150C LEU* 2.7 26.9 + - - -
152C GLY* 1.3 71.2 - - - +
154C TYR* 1.3 51.3 + - - +
156C VAL* 2.9 9.2 + - - +
157C PHE* 2.7 41.6 + - - +
160C ALA* 4.6 5.8 - - - -
323C LEU* 6.4 0.2 - - - -
373C ALA 5.6 4.9 - - - -
379C GLY* 4.8 7.4 - - - -
383C ASP* 4.7 1.0 + - - -
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Residues in contact with TYR 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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148C LYS* 3.8 27.8 - - + -
150C LEU 4.2 1.2 + - - -
151C GLY 3.5 13.8 + - - +
152C GLY 3.1 0.6 - - - -
153C GLY* 1.3 75.1 - - - +
155C TYR* 1.3 76.5 + + + +
156C VAL 3.1 4.2 + - - -
157C PHE 3.3 17.0 - - - +
158C PRO* 3.3 33.9 - - + +
160C ALA* 3.7 27.7 + - - +
161C SER* 3.8 17.1 - - - -
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Residues in contact with TYR 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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148C LYS* 5.3 5.3 + - - -
151C GLY 4.8 1.3 - - - -
152C GLY* 2.9 25.2 + - - +
154C TYR* 1.3 97.0 - + + +
156C VAL* 1.3 61.4 + - - +
213C PHE* 4.6 25.1 - + - -
378C VAL* 5.4 1.0 - - - +
382C ILE* 3.5 32.3 - - + +
386C ILE* 4.7 9.2 - - + -
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Residues in contact with VAL 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 GLY 4.6 1.1 - - - +
153C GLY* 2.9 7.6 + - - +
155C TYR* 1.3 84.1 - - - +
157C PHE* 1.3 79.8 + - + +
158C PRO* 3.5 10.5 - - - +
376C HIS* 3.5 29.4 - - + +
378C VAL* 3.9 14.4 - - + +
379C GLY* 3.5 35.7 - - - +
382C ILE* 4.7 0.9 - - + -
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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