Contacts of the strand formed by residues 144 - 152 (chain A) in PDB entry 5FO9
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 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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135A ASP* 4.3 4.7 - - - +
136A LYS* 5.8 0.2 - - - -
139A TYR* 4.2 9.9 - - - -
143A SER* 1.3 77.9 - - - +
145A VAL* 1.3 66.4 + - - +
146A LEU* 3.7 28.6 + - + +
192A SER* 4.2 8.5 - - - -
193A TRP 3.6 5.2 - - - +
194A ASP* 3.0 28.0 + - - +
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Residues in contact with VAL 145 (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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134A THR* 4.5 11.0 - - + -
135A ASP* 4.0 0.4 - - - +
139A TYR* 3.4 49.8 - - + +
144A THR* 1.3 70.7 - - - +
146A LEU* 1.3 65.8 + - - +
147A TYR* 3.8 13.9 - - + -
192A SER* 3.2 6.1 - - - -
193A TRP* 2.9 46.6 + - + +
195A ILE* 3.7 27.1 - - + -
206A ILE* 4.9 6.3 - - + -
222A PHE* 4.3 11.2 - - + -
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Residues in contact with LEU 146 (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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134A THR* 3.8 0.3 - - - -
135A ASP* 2.9 45.0 + - + +
144A THR* 3.7 26.9 + - + +
145A VAL* 1.3 72.5 - - - +
147A TYR* 1.3 62.6 + - - +
191A LEU 3.6 4.3 - - - +
192A SER* 3.9 14.1 - - - -
770B SER* 5.7 2.5 - - - +
773B TRP* 3.8 48.5 - - + +
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Residues in contact with TYR 147 (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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132A ILE* 4.1 16.8 - - + -
133A GLN 3.1 14.1 - - - +
134A THR* 4.0 15.7 - - + -
145A VAL* 3.8 16.8 - - + -
146A LEU* 1.3 75.6 - - - +
148A ARG* 1.3 63.3 + - - +
149A ILE* 4.1 13.0 - - + -
165A VAL* 4.0 12.0 - - + +
167A ILE* 4.4 6.6 - - + +
176A LYS* 3.8 18.0 + - - -
191A LEU* 2.9 79.3 + - + +
192A SER 3.8 16.8 - - - -
193A TRP* 4.2 8.7 - - + -
206A ILE* 4.1 24.0 - - + -
773B TRP* 4.1 3.3 - - - -
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Residues in contact with ARG 148 (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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131A PHE 3.7 0.7 - - - +
132A ILE* 3.5 4.7 - - - +
133A GLN* 2.9 56.6 + - - +
147A TYR* 1.3 74.2 - - - +
149A ILE* 1.3 64.0 + - - +
150A PHE* 4.0 14.3 - - + -
188A VAL* 4.4 15.4 - - + +
189A LEU 3.2 7.9 - - - +
190A PRO* 5.1 9.9 - - + +
594A VAL* 3.5 37.8 - - - +
595A LEU 2.7 37.6 + - - +
596A VAL* 4.7 0.4 - - - +
773B TRP* 3.3 54.7 - - + +
774B ASN 4.0 5.1 + - - -
775B VAL* 4.8 5.9 - - - +
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Residues in contact with ILE 149 (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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130A LEU* 4.4 11.9 - - + -
131A PHE 3.5 5.6 - - - +
132A ILE* 4.2 17.0 - - + -
147A TYR* 4.1 15.5 - - + -
148A ARG* 1.3 76.7 - - - +
150A PHE* 1.3 66.8 + - - +
151A THR* 3.6 21.2 + - + +
163A VAL* 4.8 9.4 - - + -
165A VAL* 3.7 26.5 - - + -
188A VAL* 3.7 0.7 - - - -
189A LEU* 2.9 47.2 + - + +
191A LEU* 3.6 24.9 - - + -
206A ILE* 5.6 0.2 - - + -
208A ALA* 4.4 11.4 - - + -
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Residues in contact with PHE 150 (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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129A TYR 3.8 0.5 - - - +
130A LEU* 3.3 9.0 - - - +
131A PHE* 2.8 64.5 + - + +
133A GLN* 3.3 41.5 - - + -
148A ARG* 4.0 15.0 - - + -
149A ILE* 1.3 72.3 - - - +
151A THR* 1.3 61.1 + - - +
152A VAL* 3.9 2.2 + - + -
187A GLY 3.2 7.0 - - - +
188A VAL* 3.7 30.7 - - + -
594A VAL* 4.2 8.1 - - + -
611A LEU* 3.8 12.6 - - + -
807B VAL* 3.8 26.7 - - + -
809B MET* 3.7 13.2 - - + -
815B ILE* 4.1 19.1 - - + -
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Residues in contact with THR 151 (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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130A LEU* 3.6 17.0 - - + -
149A ILE* 3.9 15.7 - - + +
150A PHE* 1.3 73.0 - - - +
152A VAL* 1.3 64.5 + - - +
159A VAL* 2.7 36.5 + - - -
163A VAL* 4.0 17.7 - - + -
182A SER* 3.4 18.0 + - - -
187A GLY* 3.0 22.6 + - - +
189A LEU* 4.9 2.2 - - + -
210A TYR* 3.5 18.8 - - - -
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Residues in contact with VAL 152 (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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128A GLY* 3.5 1.6 - - - -
129A TYR* 2.9 52.7 + - + +
131A PHE* 3.8 17.0 - - + -
150A PHE* 5.0 1.6 - - + -
151A THR* 1.3 81.1 - - - +
153A ASN* 1.3 68.6 + - - +
156A LEU* 3.5 30.1 - - + +
157A LEU 3.1 14.4 - - - +
159A VAL* 3.9 4.0 - - - +
210A TYR* 3.0 10.8 + - - -
809B MET* 4.2 22.7 - - + -
815B ILE* 4.5 7.9 - - + -
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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