Contacts of the strand formed by residues 107 - 122 (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 PHE 107 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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18B MET* 3.6 19.3 - - + -
102B THR* 3.9 1.7 - - - +
103B ILE* 2.7 50.6 + - + +
106B GLY* 1.3 79.9 - - - +
108B ASN* 1.3 59.8 + - - +
109B THR* 3.3 6.9 + - - +
111B PHE* 3.8 19.7 - + + -
156B LEU* 3.9 18.4 - - + -
160B ALA* 4.0 23.6 - - + -
162B ILE* 4.1 15.9 - - + -
189B LEU* 3.5 51.8 - - + -
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Residues in contact with ASN 108 (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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102B THR* 4.4 12.9 + - + +
104B PRO* 2.9 29.1 + - - +
106B GLY 4.2 7.3 + - - +
107B PHE* 1.3 75.5 - - - +
109B THR* 1.3 62.0 + - - +
110B SER 3.9 2.8 + - - -
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Residues in contact with THR 109 (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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107B PHE* 3.3 5.6 - - - +
108B ASN* 1.3 78.7 + - - +
110B SER* 1.3 70.9 + - - +
111B PHE* 3.3 18.3 - - - -
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Residues in contact with SER 110 (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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100B LEU* 4.2 26.9 - - - +
101B VAL 3.0 18.6 - - - -
102B THR* 3.3 18.1 + - - +
108B ASN 3.9 3.0 + - - -
109B THR* 1.3 81.9 - - - +
111B PHE* 1.3 60.0 + - - +
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Residues in contact with PHE 111 (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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100B LEU* 3.4 6.9 - - - -
101B VAL* 2.9 43.9 + - + +
103B ILE* 4.2 22.7 - - + -
107B PHE* 3.8 20.4 - + + -
109B THR 3.3 19.1 - - - -
110B SER* 1.3 74.0 - - - +
112B LEU* 1.3 59.5 + - - +
113B VAL* 3.6 14.3 + - + -
152B PHE* 4.0 23.6 - + - -
156B LEU* 3.2 38.4 - - + -
159B GLN* 2.9 33.7 - - + +
160B ALA* 5.1 6.1 - - + -
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Residues in contact with LEU 112 (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 5.2 3.8 - - - +
77B ARG* 6.4 0.9 - - + -
98B GLU* 3.8 34.3 - - + +
99B ASP* 3.5 33.0 - - - +
100B LEU* 3.6 19.1 - - + +
111B PHE* 1.3 70.5 - - - +
113B VAL* 1.3 63.4 + - - +
155B SER* 3.7 5.9 + - - -
159B GLN* 2.7 37.3 + - - +
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Residues in contact with VAL 113 (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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54B PHE* 3.9 12.8 - - + -
98B GLU* 3.4 6.1 - - - -
99B ASP 3.1 25.4 + - - +
101B VAL* 3.2 28.0 - - + -
111B PHE* 3.9 25.8 - - + +
112B LEU* 1.3 81.4 - - - +
114B ASN* 1.3 73.5 + - - +
115B ILE* 4.3 2.6 - - + +
152B PHE* 4.0 24.0 - - + +
155B SER* 4.1 18.6 - - - +
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Residues in contact with ASN 114 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B PHE* 3.5 21.0 - - - +
79B LYS* 3.0 30.3 - - - +
96B VAL* 5.2 0.4 - - + -
97B GLY 3.2 6.7 - - - +
98B GLU* 4.2 5.8 - - - +
113B VAL* 1.3 78.7 - - - +
115B ILE* 1.3 61.3 + - - +
149B LEU* 3.5 29.7 - - + +
150B GLU* 2.9 50.1 + - - +
152B PHE* 5.9 2.1 - - - +
155B SER* 5.0 2.0 + - - -
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Residues in contact with ILE 115 (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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36B ILE* 4.1 37.2 - - + -
54B PHE* 3.9 21.5 - - + +
56B VAL* 4.3 11.0 - - + -
68B PHE* 4.3 17.3 - - + -
76B TYR* 4.1 13.0 - - + -
95B PHE 3.3 2.8 - - - +
96B VAL* 4.6 2.9 - - - +
97B GLY 2.7 53.2 + - - +
98B GLU 3.9 13.0 - - - +
99B ASP* 4.4 3.6 - - + +
101B VAL* 5.9 0.4 - - + -
113B VAL* 4.3 3.6 - - + +
114B ASN* 1.3 78.9 - - - +
116B ALA* 1.3 71.1 + - - +
117B THR* 3.9 3.2 + - - +
149B LEU* 6.1 0.4 - - - +
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Residues in contact with ALA 116 (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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53B ASN* 5.3 3.1 - - - +
54B PHE 2.8 19.4 + - - +
55B ALA* 3.1 13.4 - - + +
56B VAL* 2.9 27.0 + - - +
83B VAL* 4.2 11.9 - - + -
92B TRP* 3.7 24.0 - - + -
94B GLY* 5.2 0.4 - - - -
95B PHE 3.4 6.3 - - - +
96B VAL* 4.6 3.1 - - + +
115B ILE* 1.3 75.8 - - - +
117B THR* 1.3 60.7 + - - +
118B ILE 3.8 0.4 - - - -
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Residues in contact with THR 117 (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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56B VAL* 3.7 3.8 - - + +
57B ALA 4.5 0.7 - - - +
58B GLY* 3.3 28.5 - - - +
68B PHE* 4.2 18.2 - - + +
70B THR* 3.9 25.9 - - + +
76B TYR* 4.2 6.6 + - - -
94B GLY* 2.8 21.7 - - - -
95B PHE* 2.9 35.4 + - + +
115B ILE* 4.2 5.2 + - - +
116B ALA* 1.3 72.1 - - - +
118B ILE* 1.3 61.6 + - - +
119B PHE* 3.3 1.0 + - - +
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Residues in contact with ILE 118 (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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55B ALA* 4.2 13.9 - - + +
56B VAL 2.9 24.4 + - - +
57B ALA* 4.3 2.2 - - - -
58B GLY* 2.8 27.5 + - - +
59B THR* 3.7 6.1 + - - +
92B TRP* 3.5 42.0 - - + -
93B THR 3.4 4.7 - - - -
94B GLY* 4.0 0.2 - - - -
117B THR* 1.3 69.8 - - - +
119B PHE* 1.3 60.9 + - - +
120B GLU 3.5 27.1 - - - +
121B SER* 3.9 7.6 - - - -
124B PHE* 3.8 23.1 - - + -
125B PHE* 3.9 15.5 - - + -
132B ASN 5.6 0.2 - - - +
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Residues in contact with PHE 119 (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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58B GLY* 5.7 0.7 - - - -
59B THR* 4.1 24.5 + - + +
82B ASP* 3.8 25.1 - - - -
93B THR* 2.8 24.9 + - + -
94B GLY* 3.4 38.1 - - - -
95B PHE* 3.2 39.5 - + + -
117B THR 3.3 0.8 + - - -
118B ILE* 1.3 74.2 - - - +
120B GLU* 1.3 70.9 + - + +
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Residues in contact with GLU 120 (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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91B SER* 4.5 4.2 + - - +
92B TRP* 3.1 5.2 - - - +
93B THR* 2.6 52.4 + - - -
118B ILE* 3.5 3.5 - - - +
119B PHE* 1.3 97.7 - - + +
121B SER* 1.3 72.3 + - - +
122B GLU* 4.3 9.6 + - - +
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Residues in contact with SER 121 (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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61B HIS* 3.8 21.1 + - - -
91B SER 3.2 12.8 - - - -
92B TRP* 4.0 1.8 - - - -
118B ILE* 3.9 15.2 - - - +
120B GLU* 1.3 81.1 + - - +
122B GLU* 1.3 75.3 + - - +
124B PHE* 3.8 15.7 + - - +
125B PHE* 3.7 21.3 + - - -
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Residues in contact with GLU 122 (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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90B GLY* 3.1 4.5 - - - -
91B SER* 2.9 38.2 + - - +
120B GLU* 4.7 11.5 - - - +
121B SER* 1.3 84.7 - - - +
123B ASN* 1.3 77.4 + - + +
124B PHE 3.0 0.6 + - - -
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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