Contacts of the strand formed by residues 149 - 160 (chain A) in PDB entry 6AF6
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 GLY 149 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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145A PRO* 3.5 3.1 - - - +
146A CYS* 2.8 32.2 + - - +
147A GLU 3.3 2.2 + - - -
148A GLY* 1.3 80.7 - - - +
150A TYR* 1.3 75.3 + - - -
220A PHE* 4.1 1.5 - - - -
221A ILE 3.1 11.9 - - - -
223A GLN* 3.6 15.9 + - - +
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Residues in contact with TYR 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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143A ALA* 3.6 31.2 - - + -
144A GLN 3.2 7.9 - - - +
145A PRO* 3.7 15.3 - - + -
146A CYS* 3.7 4.3 - - - -
149A GLY* 1.3 80.2 - - - -
151A ILE* 1.3 63.0 + - - +
152A LEU 4.0 0.2 - - - -
174A THR* 3.8 11.4 - - + -
186A PHE* 3.6 27.1 - + - -
219A ILE 3.4 1.4 - - - +
220A PHE* 3.4 6.6 - - - -
221A ILE* 2.8 46.4 + - + -
223A GLN* 3.0 32.0 + - - -
226A ARG* 3.0 20.3 + - + -
230A GLU* 2.5 39.5 + - - -
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Residues in contact with ILE 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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142A THR* 3.4 4.5 + - - +
143A ALA* 4.2 0.7 - - - -
144A GLN* 2.9 41.0 + - + +
146A CYS* 4.1 16.8 - - + -
150A TYR* 1.3 77.7 - - - +
152A LEU* 1.3 59.7 + - - +
153A ASN* 3.8 9.8 + - - +
218A ASP* 3.7 34.8 - - + +
219A ILE 3.3 6.5 - - - +
220A PHE* 4.1 20.6 - - + -
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Residues in contact with LEU 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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141A ALA* 4.7 0.2 - - + -
142A THR 3.2 17.5 - - - +
143A ALA* 4.3 4.5 - - + +
150A TYR 4.0 0.2 - - - -
151A ILE* 1.3 72.8 - - - +
153A ASN* 1.4 63.3 + - - +
170A ILE* 3.7 25.1 - - + -
172A ALA* 3.5 27.4 - - + -
188A ILE* 4.5 5.4 - - + -
216A PHE* 3.6 44.3 - - + +
218A ASP 3.2 6.6 + - - -
219A ILE* 2.7 44.3 + - + +
221A ILE* 3.7 25.4 - - + -
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Residues in contact with ASN 153 (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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141A ALA* 3.3 4.5 - - - +
142A THR* 2.9 41.5 + - - +
151A ILE* 3.8 11.5 + - - +
152A LEU* 1.4 78.8 + - - +
154A GLY* 1.3 59.3 + - - +
216A PHE* 3.4 14.8 - - - +
217A ASN* 3.6 8.1 - - - +
218A ASP* 2.8 42.4 + - - +
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Residues in contact with GLY 154 (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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140A GLN 5.7 0.4 - - - -
141A ALA* 4.0 12.8 - - - -
153A ASN* 1.3 76.6 - - - +
155A LYS* 1.3 61.2 - - - +
215A VAL* 3.5 6.3 - - - +
216A PHE* 2.9 39.9 + - - +
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Residues in contact with LYS 155 (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 GLU* 3.4 29.5 + - - +
130A PRO* 3.8 20.2 - - + +
141A ALA* 4.7 2.6 - - - +
154A GLY* 1.3 75.6 - - - +
156A LYS* 1.3 69.9 + - - +
157A ILE* 4.0 20.9 - - + -
213A GLU* 4.2 18.1 - - - +
214A ILE 3.4 10.3 - - - +
215A VAL* 4.0 16.4 - - + -
216A PHE* 4.6 0.2 - - - -
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Residues in contact with LYS 156 (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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126A ALA* 3.4 27.6 - - + -
127A ALA* 2.8 21.2 + - - +
128A THR 3.2 14.1 - - - +
129A GLU* 2.7 31.8 + - + +
139A MET* 3.6 7.3 - - - -
141A ALA* 4.2 8.1 - - - -
155A LYS* 1.3 74.9 - - - +
157A ILE* 1.3 65.1 + - - +
159A ILE* 4.1 4.9 - - + -
171A TYR 2.9 29.7 + - - +
213A GLU* 3.2 6.2 - - - +
214A ILE* 2.9 45.1 + - + +
216A PHE* 3.8 24.7 - - + -
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Residues in contact with ILE 157 (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 THR* 2.9 23.4 + - + +
129A GLU 3.7 15.9 - - - +
130A PRO* 3.7 41.1 - - + +
155A LYS* 4.0 16.8 - - - -
156A LYS* 1.3 79.8 - - - +
158A PHE* 1.3 100.6 + - + +
159A ILE* 3.1 18.8 - - - +
213A GLU* 4.1 11.2 - - + +
501A FAD 6.1 0.2 - - - +
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Residues in contact with PHE 158 (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 THR* 3.9 15.7 - - + -
157A ILE* 1.3 96.0 - - + +
159A ILE* 1.3 59.1 + - - +
160A THR 3.3 1.2 + - - -
211A TRP* 3.5 48.4 - + + -
212A SER 3.7 6.0 + - - -
501A FAD 2.9 76.5 + + - -
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Residues in contact with ILE 159 (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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124A ALA* 3.8 17.3 - - + -
125A ASN 3.5 16.4 - - - +
126A ALA* 3.6 23.3 - - + -
127A ALA 4.2 0.7 - - - +
128A THR 4.4 0.7 - - - +
156A LYS* 4.1 11.7 - - + +
157A ILE 3.1 32.5 - - - +
158A PHE* 1.3 73.8 - - - +
160A THR* 1.3 64.9 + - - +
162A ALA* 3.1 26.7 + - + -
211A TRP* 3.2 16.0 - - - +
212A SER 3.0 20.4 + - - +
214A ILE* 4.7 7.9 - - + -
501A FAD 3.6 24.5 - - - +
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Residues in contact with THR 160 (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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87A PHE* 3.7 8.4 - - + -
88A SER* 4.5 0.9 - - - -
91A ALA* 3.9 27.5 - - + +
124A ALA* 3.3 16.1 - - - +
125A ASN 4.5 0.3 + - - -
158A PHE 3.3 1.8 + - - -
159A ILE* 1.3 72.2 - - - +
161A ASN* 1.3 74.4 + - - +
162A ALA 3.2 4.7 + - - -
209A CYS* 3.8 25.7 - - - -
210A PRO 3.7 5.2 - - - -
211A TRP* 3.9 5.6 - - - +
501A FAD 2.9 46.9 + - - +
505A PRO* 5.0 0.2 - - - -
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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