Contacts of the strand formed by residues 151 - 157 (chain A) in PDB entry 2I7C
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 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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80A ASN* 3.4 36.6 - - - +
81A VAL 3.6 3.4 - - - -
82A LEU* 3.5 50.0 - - + -
105A ASP* 2.5 32.4 + - - +
143A PHE* 3.5 17.7 - - - -
147A VAL* 3.6 27.0 - - + +
149A ASN* 4.3 7.4 - - + +
150A THR* 1.3 75.8 - - - +
152A ASP* 1.3 62.9 + - - +
153A VAL 3.7 12.3 - - - +
154A ILE* 4.0 9.6 - - + -
180A ALA* 2.8 23.0 + - + +
181A LEU* 3.5 7.4 - - - +
182A LYS* 2.9 26.9 + - - +
185A GLY* 4.3 0.2 - - - -
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Residues in contact with ASP 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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75A SER* 4.2 6.6 + - - +
77A GLU 4.6 3.2 - - - +
78A PRO* 3.9 22.0 - - + -
79A LYS* 2.7 32.6 + - - +
80A ASN* 2.9 22.6 + - - +
151A TYR* 1.3 72.8 - - - +
153A VAL* 1.3 64.6 + - - +
181A LEU* 4.3 0.2 - - - -
182A LYS* 3.4 27.8 + - - +
184A ASN* 5.1 3.3 + - - +
185A GLY* 3.3 8.8 - - - -
186A TYR* 3.1 24.9 + - - -
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Residues in contact with VAL 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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71A PRO* 3.9 25.1 - - + +
72A MET* 3.9 17.3 - - - -
75A SER* 3.8 25.8 - - - +
78A PRO* 4.4 3.6 - - + -
80A ASN 3.6 2.2 + - - -
81A VAL* 3.4 17.3 - - + +
82A LEU 3.0 23.7 + - - -
151A TYR* 3.7 1.9 - - - +
152A ASP* 1.3 85.0 - - - +
154A ILE* 1.3 68.5 + - - +
155A ILE* 3.8 29.2 - - + -
186A TYR* 3.3 11.2 - - + +
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Residues in contact with ILE 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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82A LEU* 3.4 32.5 - - + +
84A VAL* 4.3 7.6 - - + -
144A LEU* 4.6 2.0 - - + -
151A TYR* 4.0 9.9 - - + -
153A VAL* 1.3 76.9 - - - +
155A ILE* 1.3 65.6 + - - +
156A VAL* 4.1 20.4 - - + -
177A ILE* 3.9 23.8 - - + +
180A ALA* 4.0 20.9 - - + +
181A LEU* 3.6 30.3 - - + -
186A TYR 2.9 8.3 + - - +
187A CYS* 3.2 12.3 - - + -
188A VAL* 3.0 25.6 + - - +
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Residues in contact with ILE 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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67A MET* 4.0 24.2 - - + +
68A THR* 4.1 15.7 - - - +
71A PRO* 4.3 2.2 - - + -
72A MET* 5.0 0.2 - - + -
81A VAL* 4.4 5.2 - - + -
82A LEU 2.8 11.4 + - - +
83A VAL* 3.5 2.6 - - - +
84A VAL 2.8 25.8 + - - +
91A ILE* 3.7 44.2 - - + -
95A LEU* 4.0 21.3 - - + -
153A VAL* 3.8 16.8 - - + -
154A ILE* 1.3 75.2 - - - +
156A VAL* 1.3 61.6 + - - +
157A ASP* 3.3 6.0 + - + +
188A VAL* 3.5 19.5 - - + -
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Residues in contact with VAL 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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67A MET* 3.5 3.6 - - - +
84A VAL* 3.9 24.5 - - + -
154A ILE* 4.1 10.1 - - + -
155A ILE* 1.3 71.0 - - - +
157A ASP* 1.3 57.2 + - - +
158A SER* 3.4 19.4 + - - +
168A LEU* 4.5 5.8 - - + +
173A PHE* 4.2 15.0 - - + -
174A TYR* 5.2 1.1 - - - +
177A ILE* 3.9 28.0 - - + -
187A CYS* 3.9 13.2 - - - -
188A VAL 2.8 10.1 + - - -
189A ALA* 3.5 17.2 - - + -
190A GLN* 2.9 29.9 + - - +
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Residues in contact with ASP 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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63A TYR* 2.7 35.7 + - - +
64A HIS* 4.4 0.2 + - - -
67A MET* 4.3 1.3 - - + -
83A VAL* 4.3 4.5 - - + -
84A VAL 2.8 16.6 + - - +
86A GLY* 3.0 38.0 + - - +
88A ASP* 4.5 0.9 - - - +
91A ILE* 3.5 29.5 + - + +
155A ILE* 3.3 4.4 + - + -
156A VAL* 1.3 69.9 - - - +
158A SER* 1.3 56.7 + - - +
801A AAT 3.0 37.4 + - - +
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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