Contacts of the strand formed by residues 169 - 176 (chain A) in PDB entry 3POW
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 169 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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63A ASP* 5.9 0.2 - - - +
96A THR* 3.6 34.3 - - + +
97A VAL 3.7 6.1 - - - +
98A LYS* 3.5 18.0 - - + +
168A PHE* 1.3 73.0 - - - +
170A HIS* 1.3 69.1 + - - +
347A TRP* 3.4 25.4 + - + -
350A THR* 4.0 18.2 - - + +
351A LYS* 5.7 2.9 - - - +
354A GLU* 2.6 35.1 + - - +
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Residues in contact with HIS 170 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A THR* 3.2 5.3 - - - -
97A VAL 3.0 33.7 + - - +
164A LYS* 3.5 37.7 - - + +
166A ASP* 2.6 36.2 + - - -
168A PHE* 3.1 28.7 + - + +
169A THR* 1.3 78.2 + - - +
171A LEU* 1.3 61.3 + - - +
172A TYR* 3.8 20.8 - + + -
186A ILE* 4.6 1.6 - - + -
187A ASP* 2.8 32.7 + - - +
347A TRP* 4.1 2.5 - - - -
351A LYS* 6.4 0.4 - - - -
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Residues in contact with LEU 171 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94A GLN* 3.5 32.5 - - + +
95A PHE* 3.7 5.2 - - - +
96A THR* 3.8 21.3 - - + -
170A HIS* 1.3 73.7 - - - +
172A TYR* 1.4 61.1 + - - +
173A THR* 4.0 7.9 - - - +
185A LYS 3.8 0.5 - - - +
186A ILE* 3.3 10.2 - - - +
187A ASP* 2.8 34.4 + - - +
188A ASN* 3.9 31.4 - - + +
329A ASN 5.3 2.2 - - - +
343A GLY* 3.7 29.2 - - - -
346A THR* 4.7 3.4 - - - +
347A TRP* 3.9 21.2 - - + -
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Residues in contact with TYR 172 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93A VAL 3.9 0.3 - - - +
94A GLN* 3.2 6.1 - - - +
95A PHE* 2.9 42.9 + - + +
97A VAL* 4.0 17.0 - - + -
132A PHE* 3.9 18.3 - + + -
134A PRO* 3.7 35.0 - - + +
144A VAL* 3.8 31.9 - - + -
163A CYS* 3.5 6.1 - - - +
164A LYS* 3.0 35.2 + - - +
170A HIS* 3.8 25.6 - - + -
171A LEU* 1.4 73.5 - - - +
173A THR* 1.3 61.5 + - - +
184A VAL* 5.8 0.4 - - + -
185A LYS 3.7 1.1 - - - -
186A ILE* 3.9 27.4 - - + -
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Residues in contact with THR 173 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92A VAL* 3.7 21.5 - - + -
93A VAL 3.5 2.9 - - - +
94A GLN* 2.7 34.0 + - - +
132A PHE* 3.4 10.4 - - - -
171A LEU* 4.0 9.0 - - - +
172A TYR* 1.3 75.7 - - - +
174A LEU* 1.4 60.7 + - - +
175A ILE* 4.1 17.7 - - + -
183A GLU 3.9 0.5 - - - +
184A VAL* 3.4 6.2 - - - -
185A LYS* 2.9 53.6 + - + +
188A ASN* 4.9 0.9 + - - -
339A ALA* 4.9 1.3 - - + -
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Residues in contact with LEU 174 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91A LEU* 3.7 1.3 - - + +
92A VAL* 3.3 6.1 - - - +
93A VAL* 2.9 41.5 + - + +
130A ILE* 4.0 27.8 - - + -
132A PHE* 3.6 31.5 - - + -
146A VAL* 3.8 26.7 - - + -
148A PHE* 4.9 1.8 - - + -
173A THR* 1.4 73.0 - - - +
175A ILE* 1.3 71.3 + - - +
176A VAL* 4.0 20.4 - - + +
182A TYR* 4.5 7.4 - - + -
183A GLU 3.7 9.4 - - - +
184A VAL* 4.0 11.0 - - + -
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Residues in contact with ILE 175 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90A THR* 3.9 14.6 - - + -
91A LEU 3.5 3.6 - - - -
92A VAL* 4.0 19.1 - - + -
173A THR* 4.1 9.9 - - + -
174A LEU* 1.3 74.9 - - - +
176A VAL* 1.3 62.9 + - - +
177A ARG* 3.8 17.7 - - + +
182A TYR* 3.1 9.4 - - - +
183A GLU* 2.9 50.1 + - + +
185A LYS* 3.9 31.6 - - + +
336A GLU* 3.7 40.6 - - + +
339A ALA* 6.4 0.2 - - + -
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Residues in contact with VAL 176 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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86A ASN* 4.8 5.0 + - - +
89A GLN 4.3 0.9 - - - +
90A THR* 3.4 3.3 - - - +
91A LEU* 2.8 59.3 + - + +
130A ILE* 5.0 0.4 - - + -
148A PHE* 3.7 36.3 - - + -
174A LEU* 4.0 22.0 - - + -
175A ILE* 1.3 77.0 - - - +
177A ARG* 1.3 64.0 + - - +
181A THR 3.8 6.3 - - - +
182A TYR* 4.5 2.2 - - + +
196A LEU* 4.7 4.5 - - + -
306A TYR* 3.9 32.3 - - + +
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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