Contacts of the strand formed by residues 135 - 154 (chain A) in PDB entry 4EWS
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 ARG 135 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A ALA* 3.5 1.4 - - - -
132A ASP* 2.7 43.6 + - + +
133A SER* 4.1 8.1 - - - +
134A GLY* 1.3 78.4 - - - +
136A VAL* 1.4 63.8 + - - +
137A ARG 3.5 0.2 + - - -
196A ASP* 2.8 39.4 + - - +
199A GLN* 3.4 41.5 + - - +
200A THR* 3.4 24.2 + - - +
203A ALA* 4.9 6.5 - - - +
217A LEU* 3.8 4.0 - - - -
507A 0RP 5.1 1.5 - - - -
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Residues in contact with VAL 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A LEU* 4.2 14.4 - - + -
130A THR 3.3 7.2 - - - +
135A ARG* 1.4 71.4 - - - +
137A ARG* 1.3 69.6 + - - +
138A THR* 4.9 0.4 - - + -
192A ASN* 5.2 0.2 + - - -
195A ALA* 3.9 7.1 - - - +
199A GLN* 2.8 41.2 + - - +
217A LEU* 3.8 12.9 - - + +
221A PRO* 4.0 23.1 - - + -
507A 0RP 3.2 59.9 - - + +
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Residues in contact with ARG 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A GLN 3.8 0.7 - - - +
129A LEU* 3.6 4.9 - - - -
130A THR* 2.8 46.6 + - - +
131A ALA 5.5 0.2 - - - -
132A ASP* 3.2 44.3 + - + -
135A ARG 3.5 0.6 + - - -
136A VAL* 1.3 76.9 - - - +
138A THR* 1.3 61.4 + - - +
139A ASP* 3.0 33.7 + - - +
192A ASN* 3.8 17.0 + - - +
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Residues in contact with THR 138 (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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127A THR* 3.7 15.5 - - + -
128A GLN 3.6 3.8 - - - -
129A LEU* 3.6 23.6 - - + -
136A VAL* 4.9 2.7 - - + -
137A ARG* 1.3 74.6 - - - +
139A ASP* 1.4 67.0 + - - +
140A ALA 4.4 0.2 - - - -
188A ASN* 4.3 3.6 - - - +
191A SER* 3.5 12.6 - - - +
192A ASN* 2.8 54.2 + - - +
195A ALA* 4.1 19.3 - - + -
501A 2OB 4.3 12.6 - - + -
507A 0RP 4.9 1.1 - - - -
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Residues in contact with ASP 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A THR* 4.1 1.7 - - - +
128A GLN* 2.9 42.9 + - + +
130A THR* 3.8 7.8 + - - +
137A ARG* 3.0 49.9 + - - +
138A THR* 1.4 77.2 - - - +
140A ALA* 1.3 59.4 + - - +
141A PRO* 3.4 17.2 - - + +
188A ASN* 3.7 5.8 - - - +
192A ASN* 5.0 0.5 - - - +
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Residues in contact with ALA 140 (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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125A ILE* 3.7 30.1 - - + -
126A ASN 3.6 11.9 - - - +
127A THR* 3.9 9.4 - - + +
139A ASP* 1.3 72.5 - - - +
141A PRO* 1.4 63.1 - - - +
142A ASP 3.3 2.7 - - - +
143A CYS* 4.0 10.5 - - + +
184A CYS* 5.4 0.7 - - - +
187A ILE* 5.2 1.6 - - + -
188A ASN* 2.9 38.0 + - - +
191A SER* 6.5 0.4 - - - -
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Residues in contact with PRO 141 (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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126A ASN 4.2 1.1 - - - +
128A GLN* 3.4 31.9 - - - +
139A ASP* 3.4 14.1 - - + +
140A ALA* 1.4 84.2 - - - +
142A ASP* 1.3 71.5 + - - +
143A CYS* 3.4 6.7 + - - +
180A LYS* 5.7 2.9 + - - -
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Residues in contact with ASP 142 (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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80A LYS* 4.7 10.9 - - - -
124A GLN 3.6 2.9 - - - +
125A ILE* 3.8 0.2 - - - -
126A ASN* 3.0 45.4 + - + +
128A GLN* 4.1 16.5 + - - -
140A ALA 4.5 1.7 - - - -
141A PRO* 1.3 81.6 - - - +
143A CYS* 1.3 58.4 + - - +
144A TYR* 3.4 35.6 + - + +
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Residues in contact with CYS 143 (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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123A LEU* 5.6 0.7 - - - -
124A GLN 3.3 3.8 - - - -
125A ILE* 4.2 26.2 - - + +
140A ALA* 4.0 13.9 - - + +
141A PRO 3.4 5.6 + - - +
142A ASP* 1.3 75.6 - - - +
144A TYR* 1.4 64.9 + - - +
145A LEU* 4.7 4.7 - - - -
180A LYS* 3.5 20.7 - - - -
184A CYS* 2.0 56.1 - - + -
187A ILE* 4.5 5.8 - - - -
188A ASN* 5.7 0.4 - - - -
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Residues in contact with TYR 144 (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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122A ASP 4.5 0.2 - - - -
123A LEU* 3.4 6.9 - - - +
124A GLN* 2.9 57.0 + - + +
126A ASN* 3.8 13.1 + - - -
142A ASP* 3.4 44.7 + - + +
143A CYS* 1.4 76.2 - - - +
145A LEU* 1.3 70.6 + - - +
180A LYS* 5.4 1.3 - - - +
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Residues in contact with LEU 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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35A PHE* 5.8 0.4 - - + -
121A ILE* 3.7 20.4 - - + -
122A ASP 3.5 2.0 - - - -
123A LEU* 3.9 21.3 - - + -
143A CYS* 4.7 0.4 - - - -
144A TYR* 1.3 85.9 - - - +
146A SER* 1.3 59.2 + - - +
147A PHE* 3.7 38.1 - - + -
179A LEU* 4.6 4.3 - - + +
180A LYS* 3.9 43.9 - - + +
183A ILE* 5.2 8.7 - - + -
184A CYS* 4.2 13.5 - - - -
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Residues in contact with SER 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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121A ILE* 3.4 4.1 - - - +
122A ASP* 2.8 49.9 + - - +
145A LEU* 1.3 73.8 - - - +
147A PHE* 1.3 62.3 + - - +
148A HIS* 3.8 12.5 + - - -
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Residues in contact with PHE 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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119A SER* 4.6 0.9 - - - -
120A ALA 3.4 3.8 - - - +
121A ILE* 3.7 22.7 - - + -
145A LEU* 3.7 39.0 - - + -
146A SER* 1.3 78.1 + - - +
148A HIS* 1.3 62.4 + - - +
149A LYS 4.4 16.4 - - - +
150A LEU* 4.6 12.6 - - + -
176A LYS* 3.7 60.3 - - + +
179A LEU* 3.8 22.0 - - + -
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Residues in contact with HIS 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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88A ASP* 4.5 12.9 + - - +
120A ALA* 2.6 29.0 + - + -
121A ILE 4.6 1.6 - - - -
122A ASP* 2.7 43.8 + - - +
146A SER* 3.9 15.5 + - - -
147A PHE* 1.3 71.5 - - - +
149A LYS* 1.3 58.7 + - - +
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Residues in contact with LYS 149 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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118A ASP* 3.2 40.6 + - - +
119A SER* 3.1 22.1 - - - -
120A ALA* 3.2 26.5 + - + +
147A PHE* 3.7 5.8 - - - -
148A HIS* 1.3 79.3 - - - +
150A LEU* 1.3 61.8 + - - +
151A LEU* 3.7 26.2 - - + +
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Residues in contact with LEU 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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117A ILE* 3.6 24.2 - - + -
118A ASP 3.5 2.0 - - - -
119A SER* 3.7 17.9 - - - -
147A PHE* 4.6 12.8 - - + -
149A LYS* 1.3 74.8 - - - +
151A LEU* 1.3 66.0 - - - +
167A PHE* 3.3 22.0 - - + -
172A SER* 3.3 46.1 + - - +
175A LEU* 3.8 15.9 - - + -
176A LYS* 3.6 21.1 - - + -
179A LEU* 5.3 2.0 - - + -
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Residues in contact with LEU 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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116A GLU 3.8 0.3 - - - +
117A ILE* 3.2 5.1 - - - +
118A ASP* 2.8 41.8 + - - +
149A LYS* 3.7 34.1 - - + +
150A LEU* 1.3 84.0 - - - +
152A LEU* 1.3 60.6 + - - +
153A HIS* 4.0 22.8 - - + +
164A LYS* 6.3 2.9 - - - -
167A PHE* 4.0 2.9 - - - -
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Residues in contact with LEU 152 (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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59A LEU* 5.3 7.2 - - + -
97A LEU* 5.5 0.9 - - + -
115A PHE* 3.7 41.5 - - + -
116A GLU 3.5 1.1 - - - -
117A ILE* 3.8 13.5 - - + +
151A LEU* 1.3 74.1 - - - +
153A HIS* 1.3 69.6 + - - +
154A LEU* 3.8 16.4 - - + -
163A ILE* 3.8 29.8 - - + +
164A LYS* 5.5 6.3 - - + +
167A PHE* 3.6 43.5 - - + -
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Residues in contact with HIS 153 (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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115A PHE* 3.3 2.5 - - - -
116A GLU* 2.8 61.2 + - + +
118A ASP* 3.8 32.6 + - + +
151A LEU* 4.0 22.2 - - + +
152A LEU* 1.3 80.6 + - - +
154A LEU* 1.3 62.6 + - - +
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Residues in contact with LEU 154 (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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97A LEU* 3.7 30.3 - - + -
113A ILE* 3.9 14.1 - - + -
114A ASP 3.9 3.1 - - - -
115A PHE* 3.9 15.9 - - + -
152A LEU* 3.8 23.8 - - + +
153A HIS* 1.3 73.9 - - - +
155A GLN* 1.3 68.0 + - - +
156A GLY 3.3 0.2 + - - -
157A GLU* 2.9 21.8 + - - +
158A ARG* 3.4 26.9 - - + +
159A GLU* 4.8 4.0 - - - +
163A ILE* 3.7 29.2 - - + -
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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
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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