Contacts of the strand formed by residues 107 - 122 (chain A) 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 A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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18A MET* 3.6 20.4 - - + -
102A THR* 3.9 1.6 - - - +
103A ILE* 2.7 50.4 + - + +
106A GLY* 1.3 79.5 - - - +
108A ASN* 1.3 60.6 + - - +
109A THR* 3.3 7.4 + - - +
111A PHE* 3.8 19.2 - + + -
156A LEU* 3.9 18.8 - - + -
160A ALA* 4.0 23.6 - - + -
162A ILE* 4.1 15.9 - - + -
189A LEU* 3.5 51.6 - - + -
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Residues in contact with ASN 108 (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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102A THR* 4.4 13.4 + - + +
104A PRO* 2.9 29.7 + - - +
106A GLY 4.2 7.3 + - - +
107A PHE* 1.3 74.8 - - - +
109A THR* 1.3 62.3 + - - +
110A SER 3.9 2.5 + - - -
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Residues in contact with THR 109 (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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107A PHE* 3.3 4.4 - - - +
108A ASN* 1.3 79.5 + - - +
110A SER* 1.3 70.6 + - - +
111A PHE* 3.3 18.8 - - - -
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Residues in contact with SER 110 (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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100A LEU* 4.2 27.2 - - - +
101A VAL 3.0 19.1 - - - -
102A THR* 3.3 18.1 + - - +
108A ASN 3.9 3.0 + - - -
109A THR* 1.3 81.9 - - - +
111A PHE* 1.3 60.5 + - - +
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Residues in contact with PHE 111 (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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100A LEU* 3.4 6.6 - - - -
101A VAL* 2.9 43.3 + - + +
103A ILE* 4.2 23.8 - - + -
107A PHE* 3.8 20.2 - + + -
109A THR 3.3 18.8 - - - -
110A SER* 1.3 74.2 - - - +
112A LEU* 1.3 59.9 + - - +
113A VAL* 3.6 14.2 + - + -
152A PHE* 4.0 23.3 - + - -
156A LEU* 3.2 39.9 - - + -
159A GLN* 2.9 32.8 - - + +
160A ALA* 5.1 6.1 - - + -
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Residues in contact with LEU 112 (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 THR 5.2 3.8 - - - +
77A ARG* 6.4 1.1 - - + -
98A GLU* 3.8 34.5 - - + +
99A ASP* 3.5 33.0 - - - +
100A LEU* 3.6 18.2 - - + +
111A PHE* 1.3 70.5 - - - +
113A VAL* 1.3 64.9 + - - +
155A SER* 3.7 5.9 + - - -
159A GLN* 2.7 37.8 + - - +
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Residues in contact with VAL 113 (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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54A PHE* 3.9 13.2 - - + -
98A GLU* 3.4 5.6 - - - -
99A ASP 3.1 25.8 + - - +
101A VAL* 3.2 28.3 - - + -
111A PHE* 3.9 25.4 - - + +
112A LEU* 1.3 80.8 - - - +
114A ASN* 1.3 73.1 - - - +
115A ILE* 4.3 2.5 - - + +
152A PHE* 4.0 23.6 - - + +
155A SER* 4.1 19.1 - - - +
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Residues in contact with ASN 114 (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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54A PHE* 3.5 21.5 - - - +
79A LYS* 3.0 30.4 + - - +
96A VAL* 5.2 0.4 - - + -
97A GLY 3.2 6.9 - - - +
98A GLU* 4.2 5.9 - - - +
113A VAL* 1.3 78.3 - - - +
115A ILE* 1.3 62.5 + - - +
149A LEU* 3.5 29.8 - - + +
150A GLU* 2.9 49.9 + - - +
152A PHE* 5.9 1.7 - - - +
155A SER* 5.0 2.6 + - - -
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Residues in contact with ILE 115 (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 ILE* 4.1 37.2 - - + -
54A PHE* 3.9 21.3 - - + +
56A VAL* 4.3 10.1 - - + -
68A PHE* 4.3 16.8 - - + -
76A TYR* 4.1 13.5 - - + -
95A PHE 3.3 3.6 - - - +
96A VAL* 3.6 2.8 - - - +
97A GLY 2.7 52.5 + - - +
98A GLU 3.9 12.8 - - - +
99A ASP* 4.4 3.8 - - + +
101A VAL* 5.9 0.4 - - + -
113A VAL* 4.3 2.9 - - + +
114A ASN* 1.3 79.1 - - - +
116A ALA* 1.3 70.6 - - - +
117A THR* 3.9 3.8 + - - +
149A LEU* 6.6 0.2 - - - -
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Residues in contact with ALA 116 (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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53A ASN* 5.3 3.4 - - - +
54A PHE 2.8 18.2 + - - +
55A ALA* 3.1 13.4 - - + +
56A VAL* 2.9 27.0 + - - +
83A VAL* 4.2 10.8 - - + -
92A TRP* 3.7 24.9 - - + -
94A GLY* 5.2 0.4 - - - -
95A PHE 3.4 6.5 - - - +
96A VAL* 4.6 2.0 - - + +
115A ILE* 1.3 76.8 - - - +
117A THR* 1.3 60.0 + - - +
118A ILE 3.8 0.4 - - - -
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Residues in contact with THR 117 (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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56A VAL* 3.7 4.3 - - + +
57A ALA 4.5 0.9 - - - +
58A GLY* 3.2 28.9 - - - +
68A PHE* 4.2 18.1 - - + +
70A THR* 3.9 25.7 - - + +
76A TYR* 4.2 7.4 + - - -
94A GLY* 2.8 21.0 - - - -
95A PHE* 2.9 36.3 + - + +
115A ILE* 4.2 4.7 + - - +
116A ALA* 1.3 71.9 - - - +
118A ILE* 1.3 62.7 + - - +
119A PHE 3.3 1.2 + - - -
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Residues in contact with ILE 118 (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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55A ALA* 4.2 13.9 - - + +
56A VAL* 2.9 24.8 + - - +
57A ALA* 4.3 2.2 - - - -
58A GLY* 2.8 27.5 + - - +
59A THR* 3.7 5.9 + - - +
92A TRP* 3.5 41.7 - - + -
93A THR 3.4 4.7 - - - -
94A GLY* 4.0 0.4 - - - -
117A THR* 1.3 68.9 - - - +
119A PHE* 1.3 60.7 + - - +
120A GLU 3.5 26.9 - - - +
121A SER* 3.9 7.6 - - - -
124A PHE* 3.8 23.3 - - + -
125A PHE* 3.9 17.0 - - + -
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Residues in contact with PHE 119 (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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58A GLY* 5.7 0.7 - - - -
59A THR* 4.1 23.6 + - + +
82A ASP* 3.8 24.2 - - - -
93A THR* 2.8 24.5 + - + -
94A GLY* 3.4 38.6 - - - -
95A PHE* 3.2 39.0 - + + -
117A THR 3.3 0.8 + - - -
118A ILE* 1.3 74.1 - - - +
120A GLU* 1.3 72.3 + - + +
310C ARG* 5.5 0.9 - - - -
383C SER* 4.0 22.2 - - - -
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Residues in contact with GLU 120 (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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91A SER* 4.5 4.2 + - - +
92A TRP* 3.1 5.4 - - - +
93A THR* 2.6 48.2 + - - -
118A ILE* 3.5 3.3 - - - +
119A PHE* 1.3 98.0 - - + +
121A SER* 1.3 70.7 + - - +
122A GLU* 4.3 3.1 + - - +
295C LYS* 3.8 26.0 + - - +
310C ARG* 3.5 16.7 + - - +
381C GLU* 3.8 21.0 - - - +
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Residues in contact with SER 121 (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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61A HIS* 3.8 20.8 + - - -
91A SER 3.2 12.3 - - - -
92A TRP* 4.0 1.6 - - - -
118A ILE* 3.9 15.0 - - - +
120A GLU* 1.3 81.9 + - - +
122A GLU* 1.3 74.4 + - - +
123A ASN 5.3 0.2 + - - -
124A PHE* 3.8 17.0 + - - +
125A PHE* 3.7 21.0 + - - -
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Residues in contact with GLU 122 (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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90A GLY* 3.1 4.3 - - - -
91A SER* 2.9 38.0 + - - +
120A GLU* 4.7 4.0 - - - +
121A SER* 1.3 83.6 - - - +
123A ASN* 1.3 78.5 + - + +
124A PHE 3.0 0.6 + - - -
222C GLY* 6.5 3.1 - - - -
295C LYS* 3.1 42.5 + - + -
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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