Contacts of the helix formed by residues 143 - 155 (chain b) in PDB entry 6QXT
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 THR 143 (chain b).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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33a LYS* 5.2 7.4 - - - -
141b SER 3.7 2.6 + - - -
142b CYS* 1.3 75.4 - - - +
144b VAL* 1.3 56.3 + - - +
145b PHE* 3.2 8.5 - - - -
146b GLU* 3.1 11.9 + - - +
147b LYS* 2.8 32.8 + - - +
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Residues in contact with VAL 144 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29a ALA* 5.0 17.2 + - + +
32a VAL* 6.4 1.3 - - + -
33a LYS* 5.4 5.2 - - + +
65b ILE* 5.2 12.3 - - + +
66b LEU* 6.3 4.7 - - + -
142b CYS 4.1 0.2 + - - -
143b THR* 1.3 73.6 - - - +
145b PHE* 1.3 57.8 + - - +
147b LYS* 3.2 8.7 + - - +
148b ILE* 2.9 30.1 + - - +
172b TYR* 4.9 17.0 - - + -
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Residues in contact with PHE 145 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143b THR* 3.2 6.5 - - - -
144b VAL* 1.3 78.6 - - - +
146b GLU* 1.3 57.0 + - - +
148b ILE* 3.4 5.3 + - - +
149b PHE* 2.9 29.0 + - - +
173b PHE* 5.8 4.9 - - + -
177b GLU* 5.1 15.3 - - + -
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Residues in contact with GLU 146 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142b CYS* 4.3 11.4 - - + +
143b THR* 3.1 21.0 + - - +
145b PHE* 1.3 78.9 - - - +
147b LYS* 1.3 58.4 + - - +
149b PHE* 3.7 7.3 - - - +
150b GLU* 2.9 28.8 + - - +
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Residues in contact with LYS 147 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65b ILE* 4.8 18.6 - - + +
66b LEU* 5.5 4.5 - - + -
139b THR* 5.9 6.3 - - - -
142b CYS* 4.6 10.0 - - + +
143b THR 2.8 13.6 + - - +
144b VAL* 3.4 13.9 - - - +
145b PHE 3.2 0.2 - - - -
146b GLU* 1.3 74.7 - - - +
148b ILE* 1.3 60.4 + - - +
150b GLU* 3.2 7.2 + - - +
151b ILE* 2.9 27.5 + - - +
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Residues in contact with ILE 148 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65b ILE* 5.6 9.1 - - + +
144b VAL 2.9 15.4 + - - +
145b PHE* 3.9 4.7 - - - +
147b LYS* 1.3 76.9 - - - +
149b PHE* 1.3 58.2 + - - +
151b ILE* 3.2 8.3 + - - +
152b LEU* 2.9 27.9 + - - +
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Residues in contact with PHE 149 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145b PHE 2.9 18.1 + - - +
146b GLU* 3.7 9.4 - - - +
148b ILE* 1.3 77.4 - - - +
150b GLU* 1.3 57.9 + - - +
152b LEU* 3.2 8.0 + - - +
153b GLN* 2.9 27.3 + - - +
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Residues in contact with GLU 150 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70b ILE* 5.9 8.9 - - + +
137b ILE* 6.0 7.2 - - + -
146b GLU 2.9 17.8 + - - +
147b LYS* 3.2 7.2 + - - +
149b PHE* 1.3 75.9 - - - +
151b ILE* 1.3 58.0 + - - +
153b GLN* 3.2 8.8 + - - +
154b ILE* 2.9 30.3 + - - +
117c LEU* 6.3 3.4 - - + +
118c ASP* 6.0 7.0 - - + +
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Residues in contact with ILE 151 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70b ILE* 6.0 5.1 - - + +
147b LYS 2.9 14.0 + - - +
148b ILE* 3.5 12.8 - - - +
149b PHE 3.2 0.2 - - - -
150b GLU* 1.3 78.1 - - - +
152b LEU* 1.3 55.7 + - - +
154b ILE* 3.4 4.5 + - - +
155b PHE* 3.0 30.0 + - - +
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Residues in contact with LEU 152 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148b ILE 2.9 14.2 + - - +
149b PHE* 3.6 10.3 - - - +
151b ILE* 1.3 77.6 - - - +
153b GLN* 1.3 61.0 + - - +
155b PHE* 3.8 14.4 + - - +
156b LYS* 4.4 3.8 + - - +
184b TYR* 6.3 3.1 - - + -
185b THR* 6.3 3.6 - - - -
188b SER* 4.8 16.2 - - - -
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Residues in contact with GLN 153 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149b PHE 2.9 15.3 + - - +
150b GLU* 3.6 10.1 - - - +
151b ILE 3.2 0.6 - - - -
152b LEU* 1.3 79.4 - - - +
154b ILE* 1.3 58.6 + - - +
155b PHE 3.6 0.2 + - - -
156b LYS* 3.9 14.0 + - - +
157b TYR* 4.4 1.7 + - - +
116c GLU* 5.9 2.7 - - + +
117c LEU* 4.7 20.9 - - + +
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Residues in contact with ILE 154 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70b ILE* 5.3 13.0 - - + +
75b VAL* 5.5 7.7 - - + +
150b GLU 2.9 16.5 + - - +
151b ILE* 3.8 4.5 - - - +
153b GLN* 1.3 73.4 - - - +
155b PHE* 1.3 59.5 + - - +
156b LYS 3.2 2.5 - - - -
157b TYR* 3.0 28.1 + - + +
158b LEU* 3.1 12.6 + - - +
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Residues in contact with PHE 155 (chain b).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151b ILE 3.0 17.5 + - - +
152b LEU* 3.9 11.4 - - - +
153b GLN 3.3 0.8 - - - -
154b ILE* 1.3 79.1 - - - +
156b LYS* 1.3 60.0 + - - +
158b LEU* 3.3 25.0 + - - +
161b LYS* 5.3 3.1 - - - +
164b LEU* 5.3 13.9 - - + -
190b ALA* 5.0 13.9 - - + -
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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