Contacts of the helix formed by residues 137 - 151 (chain L) in PDB entry 6PSS
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 TYR 137 (chain L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133L SER 4.5 3.8 - - - +
134L VAL 3.2 16.7 + - - +
135L ALA* 3.1 7.7 - - - +
136L GLU* 1.3 79.2 - - - +
138L PRO* 1.3 69.6 - - + +
139L GLU* 3.6 30.1 - - + -
140L ALA* 4.0 11.1 + - + +
141L ILE* 4.3 3.8 + - - +
249L ILE* 6.1 0.9 - - - -
252L LEU* 5.9 1.0 - - - +
273L MET* 3.6 48.2 - - + -
276L MET* 5.4 7.1 - - - +
347L ILE* 4.9 4.0 + - - +
350L GLU* 2.6 25.8 + - - +
351L THR* 3.2 28.2 - - - -
358L VAL* 4.7 12.0 - - + +
361L ILE* 4.0 19.5 - - + -
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Residues in contact with PRO 138 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136L GLU 4.5 2.5 - - - +
137L TYR* 1.3 94.7 - - + +
139L GLU* 1.3 62.3 + - + +
140L ALA 3.2 2.7 - - - -
141L ILE* 2.8 31.2 + - + +
142L THR* 3.0 16.6 + - + +
228L TYR* 5.6 5.2 - - + +
249L ILE* 4.7 23.3 - - + -
252L LEU* 5.2 9.6 - - + -
351L THR* 3.4 28.0 - - - +
352L GLY* 5.5 0.9 - - - -
353L LEU* 6.0 4.7 - - + -
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Residues in contact with GLU 139 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137L TYR* 3.6 17.4 - - + -
138L PRO* 1.3 74.6 - - + +
140L ALA* 1.3 61.0 + - - +
142L THR* 2.6 36.1 + - + -
143L TYR* 2.9 15.9 + - - +
273L MET* 6.1 0.9 - - + -
349L GLU 4.5 1.4 - - - +
350L GLU* 3.0 48.1 - - - +
351L THR* 4.0 5.0 + - - -
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Residues in contact with ALA 140 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134L VAL* 4.6 19.3 - - + +
135L ALA* 6.3 0.2 - - - -
137L TYR* 4.0 14.7 + - - +
138L PRO 3.2 0.2 - - - -
139L GLU* 1.3 77.3 - - - +
141L ILE* 1.3 56.7 + - - +
143L TYR* 3.2 2.2 + - - -
144L LEU* 2.9 23.3 + - - +
256L PHE* 6.1 4.5 - - + -
269L LEU* 3.4 39.4 - - + +
273L MET* 4.7 12.2 - - - -
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Residues in contact with ILE 141 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137L TYR 4.3 3.5 + - - +
138L PRO 2.8 17.6 + - - +
140L ALA* 1.3 76.3 - - - +
142L THR* 1.3 61.4 + - - +
143L TYR 3.3 0.2 - - - -
144L LEU* 3.4 19.0 - - + +
145L LEU* 2.9 30.7 + - - +
224L LEU* 3.7 25.6 - - + -
228L TYR* 4.0 20.6 - - + -
252L LEU* 3.8 37.9 - - + +
255L VAL* 5.2 2.5 - - + -
256L PHE* 3.8 33.9 - - + +
259L PHE* 5.5 0.2 - - + -
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Residues in contact with THR 142 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138L PRO* 3.0 17.8 + - + +
139L GLU* 2.6 39.9 + - + +
141L ILE* 1.3 75.4 - - - +
143L TYR* 1.3 58.9 + - - +
145L LEU* 3.3 9.6 + - - +
146L GLU* 2.9 45.8 + - - +
228L TYR* 3.3 29.4 - - + +
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Residues in contact with TYR 143 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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139L GLU 2.9 9.5 + - - +
140L ALA 3.5 8.5 - - - +
142L THR* 1.3 81.6 + - - +
144L LEU* 1.3 56.3 + - - +
146L GLU* 4.4 5.2 - - - +
147L GLN* 2.8 50.6 + - + +
150L ARG* 3.6 29.1 + - - -
265L GLN* 5.9 0.2 - - - -
268L TYR* 6.1 4.5 - + + -
269L LEU* 3.5 32.8 - - + -
272L SER* 5.8 5.2 - - - -
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Residues in contact with LEU 144 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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140L ALA 2.9 14.4 + - - +
141L ILE* 3.4 16.6 - - + +
142L THR 3.2 0.2 - - - -
143L TYR* 1.3 74.1 - - - +
145L LEU* 1.3 59.8 + - - +
147L GLN* 3.8 6.7 - - + +
148L TYR* 3.0 31.0 + - - +
161L LEU* 6.1 2.5 - - + -
162L ILE* 5.1 5.4 - - + -
165L PHE* 6.1 0.7 - - + -
221L PHE* 3.7 24.7 - - + -
224L LEU* 3.7 19.1 - - + -
256L PHE* 3.7 33.2 - - + -
259L PHE* 4.1 9.9 - - + -
261L LEU* 4.4 20.2 - - + -
269L LEU* 4.9 3.8 - - + +
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Residues in contact with LEU 145 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141L ILE 2.9 21.8 + - - +
142L THR* 3.3 11.0 - - - +
144L LEU* 1.3 77.6 - - - +
146L GLU* 1.3 69.3 + - - +
148L TYR* 3.8 1.2 - - - +
149L ASP* 2.9 13.1 + - - -
224L LEU* 3.7 33.4 - - + -
225L ARG* 2.4 59.6 + - + +
228L TYR* 3.6 42.6 - - + -
232L ARG* 5.4 1.6 - - - +
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Residues in contact with GLU 146 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142L THR* 2.9 39.7 + - - +
143L TYR* 4.2 5.1 + - + +
145L LEU* 1.3 94.5 - - - +
147L GLN* 1.3 57.9 + - - +
149L ASP* 3.5 14.2 - - + +
150L ARG* 2.9 53.9 + - - +
225L ARG* 5.1 0.3 + - - -
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Residues in contact with GLN 147 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143L TYR* 2.8 43.4 + - + +
144L LEU* 3.8 9.0 - - + +
145L LEU 3.2 0.2 - - - -
146L GLU* 1.3 75.2 - - - +
148L TYR* 1.3 61.4 + - - +
150L ARG* 3.1 33.4 + - - +
151L VAL* 2.9 37.2 + - - +
158L LEU* 5.2 1.1 - - - -
161L LEU* 3.3 33.6 - - + +
265L GLN* 3.8 21.6 + - - +
268L TYR* 6.2 0.6 - - - -
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Residues in contact with TYR 148 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144L LEU 3.0 16.6 + - - +
145L LEU* 4.1 1.6 - - - -
147L GLN* 1.3 76.2 - - - +
149L ASP* 1.3 58.5 + - - +
151L VAL 3.7 0.7 - - - +
152L GLU* 2.9 43.5 + - + +
158L LEU* 4.3 10.9 - - + +
218L ARG* 3.3 47.5 + - - +
221L PHE* 3.5 55.1 - + + +
222L ALA* 4.6 4.9 + - - +
225L ARG* 3.3 43.5 - - + -
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Residues in contact with ASP 149 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145L LEU 2.9 13.6 + - - +
146L GLU* 3.5 16.5 - - + +
147L GLN 3.1 0.2 - - - -
148L TYR* 1.3 82.0 - - - +
150L ARG* 1.3 61.1 + - - +
152L GLU* 3.2 20.7 + - - +
153L ALA* 3.7 5.2 + - - +
225L ARG* 1.7 53.1 + - - -
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Residues in contact with ARG 150 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143L TYR* 3.6 23.2 + - - -
146L GLU* 2.9 48.8 + - - +
147L GLN* 3.1 42.2 + - - +
149L ASP* 1.3 74.7 - - - +
151L VAL* 1.3 69.8 + - + +
153L ALA* 3.6 6.6 + - - +
155L GLU* 3.1 53.2 + - + +
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Residues in contact with VAL 151 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147L GLN* 2.9 27.1 + - - +
148L TYR 3.7 1.8 - - - -
150L ARG* 1.3 84.6 - - + +
152L GLU* 1.3 59.7 + - - +
153L ALA 3.2 0.9 - - - -
154L GLU* 2.9 32.4 + - - +
155L GLU* 3.9 1.1 - - + +
156L ALA* 3.3 52.5 - - + +
158L LEU* 3.6 39.5 - - + +
161L LEU* 3.9 5.2 - - + -
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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