Contacts of the strand formed by residues 144 - 151 (chain A) in PDB entry 4RWN
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 VAL 144 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A GLN* 4.2 5.4 - - + +
29A VAL* 4.1 41.7 - - + +
32A ALA* 3.7 24.9 - - + -
73A SER 5.5 1.8 - - - +
74A ASP 5.4 1.3 - - - -
75A ALA* 4.6 3.4 - - + +
134A VAL* 4.4 2.7 - - - -
135A LEU* 2.8 34.7 + - - +
140A LEU* 4.6 1.8 - - + -
142A GLN* 4.1 13.0 - - + +
143A GLU* 1.3 80.7 - - - +
145A GLU* 1.3 67.5 + - - +
146A PHE* 3.4 27.3 - - + -
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Residues in contact with GLU 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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72A ARG* 3.7 21.3 - - - +
73A SER 5.0 0.9 - - - +
74A ASP* 3.4 27.3 + - + +
75A ALA 2.9 24.8 + - - -
119A GLU* 5.5 4.4 - - - +
133A PHE 3.4 8.7 - - - +
134A VAL* 4.2 15.7 - - + +
144A VAL* 1.3 77.7 - - - +
146A PHE* 1.3 63.8 + - - +
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Residues in contact with PHE 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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32A ALA* 3.6 25.1 - - + -
33A ILE* 3.8 7.2 - - + -
36A VAL* 3.6 25.1 - - + -
74A ASP* 5.2 0.9 - - - -
75A ALA* 3.4 26.5 - - + -
77A LEU* 3.9 24.0 - - + -
131A LEU 4.3 0.2 - - - -
132A SER* 3.2 2.4 - - - -
133A PHE* 2.7 69.0 + + + +
135A LEU* 3.7 15.5 - - + -
144A VAL* 3.4 33.7 - - + -
145A GLU* 1.3 74.2 - - - +
147A ASP* 1.3 69.0 + - - +
148A VAL* 4.1 2.9 - - + -
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Residues in contact with ASP 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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74A ASP* 2.9 5.5 + - - +
75A ALA 3.0 7.3 + - - +
76A ASP* 3.6 11.8 - - - +
77A LEU 2.8 30.1 + - - +
130A ALA* 4.5 2.2 - - + -
131A LEU 3.9 2.7 - - - -
132A SER* 2.8 28.5 + - - -
146A PHE* 1.3 77.6 - - - +
148A VAL* 1.3 62.2 + - - +
149A LEU* 3.8 3.9 - - + +
402A APC 2.8 32.1 + - - +
404A MG 2.0 31.6 - - - -
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Residues in contact with VAL 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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36A VAL* 4.6 11.9 - - + -
40A LEU* 4.8 9.2 - - + -
77A LEU* 3.3 16.2 - - + +
79A VAL* 3.8 24.2 - - + -
101A ILE* 4.4 21.1 - - + -
130A ALA* 3.4 0.9 - - - -
131A LEU* 2.8 43.6 + - + +
133A PHE* 3.7 29.6 - - + -
146A PHE* 4.4 5.2 - - + -
147A ASP* 1.3 76.0 - - - +
149A LEU* 1.3 63.1 + - - +
150A PRO* 3.8 4.6 - - - +
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Residues in contact with LEU 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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77A LEU 2.8 19.9 + - - +
78A VAL* 3.3 12.5 - - + +
79A VAL* 2.7 31.1 + - - -
129A ARG* 3.4 28.3 - - + +
130A ALA* 3.6 11.9 - - + -
147A ASP 3.8 12.6 - - - +
148A VAL* 1.3 71.8 - - - +
150A PRO* 1.3 63.8 - - - +
187A THR* 3.5 29.6 - - + -
402A APC 3.6 52.7 - - + +
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Residues in contact with PRO 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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79A VAL* 3.3 14.8 - - + +
81A LEU* 4.1 21.8 - - + -
84A LEU* 4.2 6.1 - - + -
90A GLN* 3.8 14.6 + - - +
94A ARG* 3.8 35.1 - - + +
97A PHE* 4.3 9.4 - - + -
98A ILE* 3.8 14.4 - - + +
101A ILE* 5.0 4.7 - - + -
129A ARG 3.6 13.2 - - - +
148A VAL* 3.8 7.4 - - + +
149A LEU* 1.3 87.1 - - - +
151A ALA* 1.3 61.7 + - - +
187A THR* 5.0 0.3 + - - -
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Residues in contact with ALA 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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78A VAL* 3.6 27.1 - - + -
79A VAL 3.0 7.5 + - - -
80A PHE* 3.4 16.0 - - + -
81A LEU 3.2 24.4 + - - -
84A LEU* 3.6 12.3 - - - +
90A GLN* 3.4 17.9 - - - +
149A LEU 4.4 0.2 - - - +
150A PRO* 1.3 75.9 - - - +
152A PHE* 1.3 62.7 + - - +
187A THR* 4.2 7.6 - - - +
188A CYS* 4.6 2.0 - - - -
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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