Contacts of the strand formed by residues 147 - 152 (chain G) in PDB entry 1E50
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 147 (chain G).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107G ALA* 3.3 4.3 - - - -
108G GLY 2.9 34.1 + - - -
109G ASN* 5.1 2.4 - - - +
145G SER 4.7 2.4 + - - -
146G PHE* 1.3 76.2 + - - +
148G LEU* 1.3 72.7 + - - +
149G THR* 3.9 4.2 + - - +
161G THR* 4.4 7.4 - - + -
162G TYR 3.3 10.3 - - - +
163G HIS* 3.3 45.3 - - + +
164G ARG 4.2 2.1 + - - -
60H THR 5.1 5.4 + - - -
61H GLY 5.0 3.6 - - - +
62H THR* 5.1 10.5 - - - +
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Residues in contact with LEU 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75G LEU* 3.6 26.7 - - + -
89G PHE* 3.9 17.7 - - + -
105G VAL* 3.9 21.5 - - + -
106G MET 3.2 11.4 - - - +
107G ALA* 3.6 9.6 - - + -
134G LEU* 5.6 0.2 - - + -
136G PHE* 3.5 30.7 - - + -
146G PHE* 4.9 0.4 - - + -
147G THR* 1.3 76.2 - - - +
149G THR* 1.3 62.8 + - - +
150G ILE* 4.0 5.4 - - + -
161G THR* 3.1 9.0 - - - -
162G TYR* 2.7 50.0 + - + +
165G ALA* 4.2 12.1 - - + -
166G ILE* 4.7 3.4 - - + -
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Residues in contact with THR 149 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104G THR 3.5 1.9 - - - +
105G VAL* 3.4 4.7 - - - -
106G MET* 2.7 57.0 + - + +
147G THR* 3.9 3.3 + - - +
148G LEU* 1.3 75.1 + - - +
150G ILE* 1.3 60.6 + - - +
151G THR* 3.9 6.5 + - - +
159G VAL* 3.6 25.4 - - + -
160G ALA 3.6 2.5 - - - -
161G THR* 4.1 10.8 - - + +
62H THR* 4.2 4.7 - - - +
63H ASN* 3.0 36.5 + - - +
64H LEU* 4.4 1.6 - - + -
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Residues in contact with ILE 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65G THR* 4.0 18.6 - - + -
70G PHE* 5.7 0.7 - - + -
72G CYS* 4.0 23.8 - - + -
89G PHE* 4.3 5.2 - - + -
91G VAL* 3.7 45.3 - - + -
103G VAL* 4.0 12.1 - - + -
104G THR 3.3 4.5 - - - +
105G VAL* 4.7 9.2 - - + -
148G LEU* 4.8 9.2 - - + -
149G THR* 1.3 75.1 - - - +
151G THR* 1.3 63.3 + - - +
152G VAL* 4.0 6.3 + - + +
158G GLN 3.7 0.9 - - - +
159G VAL* 3.4 3.8 - - - +
160G ALA* 2.7 51.0 + - + +
162G TYR* 5.1 6.3 - - + -
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Residues in contact with THR 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103G VAL* 3.1 6.3 - - - +
104G THR* 2.9 52.1 + - - -
106G MET* 4.2 3.5 - - - +
149G THR* 3.9 15.9 - - - +
150G ILE* 1.3 74.4 - - - +
152G VAL* 1.3 65.2 + - - +
153G PHE* 3.5 30.8 - - + -
157G PRO* 4.2 16.4 - - + -
158G GLN 3.6 7.4 - - - +
159G VAL* 4.2 10.4 - - + +
65H SER* 4.1 17.4 + - - +
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Residues in contact with VAL 152 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70G PHE* 3.2 48.7 - - + -
91G VAL* 4.9 0.2 - - + -
97G VAL* 4.1 13.5 - - + -
101G THR* 3.9 19.3 - - + -
102G LEU 3.7 2.7 - - - -
103G VAL* 4.4 20.6 - - + -
124G MET* 4.6 2.2 - - + -
150G ILE* 4.6 7.9 - - + +
151G THR* 1.3 75.0 - - - +
153G PHE* 1.3 60.3 + - - +
154G THR* 2.9 14.1 + - + +
157G PRO* 3.5 0.7 - - - +
158G GLN* 2.8 39.9 + - + +
160G ALA* 6.3 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
------------------------------------------------------------
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