Contacts of the strand formed by residues 91 - 103 (chain B) in PDB entry 2EWY
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 SER 91 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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84B THR* 5.2 3.4 - - - -
85B VAL 3.2 17.5 - - - -
86B LYS* 3.9 15.6 + - - -
87B TYR* 4.6 4.5 - - - -
90B GLY* 1.3 77.0 - - - -
92B TRP* 1.3 68.0 + - - +
120B GLU* 4.9 2.8 + - - -
121B SER* 3.2 3.9 - - - -
122B GLU* 2.9 41.0 + - - +
124B PHE* 3.9 4.6 - - - +
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Residues in contact with TRP 92 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53B ASN* 4.1 14.1 - - + -
55B ALA* 3.6 14.6 - - + -
83B VAL* 3.6 29.8 - - + -
84B THR* 3.1 17.2 + - - -
85B VAL* 3.2 43.3 + - + -
87B TYR* 2.8 32.8 + + - -
91B SER* 1.3 75.6 - - - +
93B THR* 1.3 74.5 + - - +
94B GLY 4.1 1.8 - - - -
116B ALA* 3.7 24.9 - - + -
118B ILE* 3.5 29.6 - - + -
120B GLU* 3.1 13.0 - - - +
121B SER* 3.9 4.5 - - - +
124B PHE* 3.4 36.0 - + - -
134B ILE* 4.3 2.2 - - + +
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Residues in contact with THR 93 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B ASP* 4.9 4.7 - - + -
83B VAL 3.3 17.9 - - - +
84B THR* 3.5 17.2 + - - -
92B TRP* 1.3 82.6 + - - +
94B GLY* 1.3 58.8 + - - +
118B ILE* 3.4 2.0 - - - -
119B PHE* 2.8 47.3 + - + -
120B GLU* 2.6 36.8 + - - -
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Residues in contact with GLY 94 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82B ASP* 3.2 3.3 - - - +
83B VAL* 2.8 37.3 + - - +
92B TRP* 3.9 5.7 - - - -
93B THR* 1.3 77.3 - - - +
95B PHE* 1.3 63.4 + - - -
117B THR 2.8 20.9 - - - -
118B ILE* 4.0 0.4 - - - -
119B PHE* 3.4 12.1 - - - -
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Residues in contact with PHE 95 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B TYR* 4.4 11.7 + - - +
78B SER* 5.7 2.9 - - - +
81B PHE 4.5 1.1 - - - +
82B ASP* 3.2 28.5 - - - +
94B GLY* 1.3 73.2 - - - -
96B VAL* 1.3 62.8 + - - +
115B ILE 3.3 5.0 - - - +
116B ALA* 3.4 1.1 - - - -
117B THR* 2.9 46.3 + - + -
119B PHE* 3.2 39.0 - + + -
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Residues in contact with VAL 96 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B TYR* 3.9 4.3 + - - -
78B SER* 4.3 2.1 + - - -
79B LYS* 3.0 35.0 + - + +
80B GLY 4.0 1.6 + - - -
81B PHE* 2.8 47.9 + - + +
83B VAL* 3.6 34.3 - - + +
95B PHE* 1.3 74.3 - - - +
97B GLY* 1.3 64.3 + - - +
114B ASN* 5.2 1.6 - - + -
115B ILE 3.6 5.4 - - - +
116B ALA* 5.2 2.5 - - + -
149B LEU* 3.7 35.0 - - + -
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Residues in contact with GLY 97 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76B TYR* 3.5 12.7 + - - -
77B ARG 3.4 12.8 - - - -
79B LYS* 3.8 8.8 - - - +
95B PHE 3.7 0.2 + - - -
96B VAL* 1.3 76.8 - - - +
98B GLU* 1.3 61.3 + - - +
114B ASN* 3.2 7.4 - - - +
115B ILE* 2.7 41.9 + - - -
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Residues in contact with GLU 98 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75B THR 4.6 0.4 - - - -
76B TYR* 3.2 5.7 - - - -
77B ARG* 3.0 48.4 + - + +
79B LYS* 3.9 29.4 - - + -
97B GLY* 1.3 78.6 - - - +
99B ASP* 1.3 68.8 + - - +
112B LEU* 3.8 31.4 - - + +
113B VAL 3.4 10.7 - - - +
114B ASN* 4.2 6.3 - - - +
115B ILE* 4.1 3.1 - - - -
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Residues in contact with ASP 99 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36B ILE* 4.6 9.6 - - + -
37B GLY* 3.2 14.8 - - - -
68B PHE* 3.7 6.0 - - + -
73B SER* 2.7 24.6 + - - -
75B THR* 2.6 26.2 + - - -
76B TYR* 3.1 24.0 - - + +
98B GLU* 1.3 79.2 - - - +
100B LEU* 1.3 79.1 + - - +
101B VAL* 4.6 1.1 - - + -
111B PHE 3.7 0.2 - - - +
112B LEU* 3.5 10.9 - - - +
113B VAL* 3.1 34.1 + - + +
115B ILE* 4.4 7.1 - - + +
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Residues in contact with LEU 100 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35B LEU 4.0 0.2 - - - +
36B ILE* 3.8 1.7 - - - +
37B GLY* 3.0 28.6 + - - +
38B THR* 4.5 5.6 - - - +
75B THR* 3.8 29.6 - - + +
99B ASP* 1.3 87.3 + - - +
101B VAL* 1.3 61.8 + - - +
110B SER* 4.2 20.9 - - - +
111B PHE* 3.4 20.6 - - - +
112B LEU* 3.6 24.5 - - + +
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Residues in contact with VAL 101 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34B MET* 4.0 30.1 - - + -
35B LEU 3.5 9.2 - - - +
36B ILE* 4.7 10.3 - - + -
54B PHE* 4.1 10.3 - - + -
99B ASP* 4.0 2.0 - - + +
100B LEU* 1.3 80.3 - - - +
102B THR* 1.3 69.6 + - - +
103B ILE* 4.7 1.1 - - + -
110B SER* 3.0 5.8 - - - -
111B PHE* 2.9 45.8 + - + +
113B VAL* 3.2 34.1 - - + -
115B ILE* 5.9 0.7 - - + -
152B PHE* 4.1 11.4 - - + -
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Residues in contact with THR 102 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B MET* 3.6 2.1 - - - +
35B LEU* 2.9 54.8 + - + -
40B PRO* 6.5 0.2 - - - -
101B VAL* 1.3 71.9 - - - +
103B ILE* 1.3 62.9 + - - +
104B PRO* 3.1 14.2 - - + +
107B PHE 3.9 13.0 - - - +
108B ASN* 4.4 15.4 + - - +
110B SER* 3.3 26.8 + - - +
111B PHE* 5.0 0.9 - - - -
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Residues in contact with ILE 103 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21B ASN* 5.6 0.4 - - - +
32B LEU* 4.0 32.1 - - + -
33B GLU 4.4 2.5 - - - +
34B MET* 4.0 21.3 - - + -
101B VAL* 4.7 0.4 - - + -
102B THR* 1.3 73.8 - - - +
104B PRO* 1.3 69.8 - - + +
105B LYS* 3.2 18.1 + - + +
107B PHE* 2.7 45.7 + - + +
111B PHE* 4.2 15.2 - - + -
152B PHE* 4.2 14.1 - - + -
156B LEU* 4.7 0.2 - - + -
189B LEU* 3.5 30.7 - - + -
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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