Contacts of the strand formed by residues 130 - 140 (chain K) in PDB entry 2WQT
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 ILE 130 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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110K LEU* 4.3 20.0 - - + -
111K VAL 3.7 4.7 - - - +
112K LEU* 4.7 4.0 - - + +
113K ASN* 3.2 9.5 + - - +
126K LEU* 3.6 19.3 - - + +
127K TYR* 3.3 20.4 + - + +
128K ASN 4.8 1.0 - - - +
129K ALA* 1.3 75.3 - - - +
131K GLU* 1.3 60.5 + - - +
132K TRP 3.6 25.1 - - - +
133K VAL* 4.2 5.4 - - + -
173K PRO* 3.5 36.0 - - + +
178K LEU* 5.2 2.9 - - + -
205K LEU* 3.5 40.2 - - + -
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Residues in contact with GLU 131 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111K VAL* 2.7 28.3 + - - +
112K LEU 3.8 11.8 - - - +
113K ASN* 3.2 24.9 + - - +
129K ALA 3.6 0.4 + - - -
130K ILE* 1.3 75.0 - - - +
132K TRP* 1.3 71.0 + - + +
172K ARG* 3.2 39.3 + - - +
173K PRO* 3.8 5.8 - - - +
225K GLY* 5.3 2.3 - - - -
128N ASN* 2.9 33.5 + - - +
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Residues in contact with TRP 132 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110K LEU* 3.5 4.3 - - - -
111K VAL* 2.9 45.8 + - + -
130K ILE* 3.6 5.8 - - - +
131K GLU* 1.3 100.1 - - + +
133K VAL* 1.3 63.5 + - - +
134K LEU* 4.2 11.9 - - + -
170K ALA* 3.6 35.0 - - + -
171K GLN 3.4 22.0 - - - -
172K ARG* 3.4 44.2 - - - -
173K PRO* 5.0 0.2 - - - -
124N ASP 5.2 4.7 - - - -
127N TYR* 4.3 16.8 - + + -
128N ASN* 2.6 40.1 - - + +
173N PRO* 5.0 9.0 - - + -
174N ALA* 4.1 20.4 - - + -
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Residues in contact with VAL 133 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108K ILE* 4.1 11.0 - - + -
109K ALA 3.4 3.4 - - - -
110K LEU* 3.8 14.8 - - + -
130K ILE* 4.2 8.5 - - + -
132K TRP* 1.3 75.7 - - - +
134K LEU* 1.3 63.2 - - - +
171K GLN* 2.8 40.1 + - - +
173K PRO* 4.0 18.6 - - + -
176K LEU* 3.6 33.9 - - + -
178K LEU* 3.9 22.9 - - + -
252K ILE* 4.2 12.6 - - + -
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Residues in contact with LEU 134 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108K ILE* 3.7 3.3 - - - +
109K ALA* 2.8 57.7 + - + +
111K VAL* 3.9 26.5 - - + -
132K TRP* 4.2 7.9 - - + -
133K VAL* 1.3 79.8 - - - +
135K PRO* 1.4 74.8 - - + +
166K ILE* 4.0 21.8 - - + -
167K GLY 4.4 2.2 - - - +
169K PRO 4.3 4.7 - - - +
170K ALA* 3.8 25.1 - - + -
227K ILE* 5.1 1.1 - - + -
252K ILE* 4.1 5.6 - - - -
124N ASP* 4.6 9.9 - - + +
127N TYR* 3.8 21.8 - - + -
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Residues in contact with PRO 135 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107K GLU 3.9 5.4 - - - +
108K ILE* 5.0 0.2 - - - -
134K LEU* 1.4 90.4 - - + +
136K ALA* 1.3 58.6 + - - +
166K ILE* 3.8 2.3 - - - +
167K GLY* 2.9 26.7 + - - -
168K GLY 3.5 25.4 - - - +
169K PRO 3.9 9.6 - - - +
249K ILE* 3.7 20.6 - - + -
252K ILE* 3.8 16.3 - - + +
253K GLY 3.9 3.4 - - - -
254K SER 3.6 24.2 - - - +
255K VAL* 3.7 10.3 - - + -
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Residues in contact with ALA 136 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106K ALA* 3.6 4.7 - - - +
107K GLU* 2.8 38.5 + - + +
109K ALA* 4.1 11.0 - - + -
135K PRO* 1.3 76.2 - - - +
137K LEU* 1.3 63.1 + - - +
164K TYR* 5.6 0.4 - - + -
165K VAL 3.2 12.3 - - - +
166K ILE* 4.4 4.9 - - + -
229K LEU* 3.9 28.0 - - + -
249K ILE* 4.2 0.7 - - - +
255K VAL* 3.7 11.5 - - - +
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Residues in contact with LEU 137 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104K ILE* 4.2 12.8 - - + -
105K GLU 3.4 8.7 - - - +
106K ALA* 4.2 1.3 - - - -
107K GLU* 5.3 0.2 - - - -
136K ALA* 1.3 78.3 - - - +
138K GLU* 1.3 60.9 + - - +
139K VAL 4.0 0.2 - - - -
164K TYR* 3.3 5.9 - - - +
165K VAL* 2.9 44.1 + - + +
185K MET* 4.0 19.7 - - - -
245K PHE* 4.2 12.1 - - + +
247K ALA* 3.7 28.7 - - + +
255K VAL* 3.8 24.4 - - + +
256K ALA 4.0 1.6 - - - -
257K ALA* 4.0 36.3 - - + +
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Residues in contact with GLU 138 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60K LYS* 3.1 50.5 + - - +
82K LEU* 5.0 0.8 - - + +
86K MET* 5.6 0.6 - - + +
103K ARG 3.6 0.2 - - - +
104K ILE* 3.2 3.3 - - - -
105K GLU* 2.8 42.1 + - + +
107K GLU* 3.1 34.3 - - + +
136K ALA 4.2 0.2 - - - -
137K LEU* 1.3 74.7 - - - +
139K VAL* 1.3 63.1 + - - +
140K VAL* 3.5 15.3 + - - +
161K CYS* 3.7 15.9 - - - -
162K GLY 4.7 1.2 + - - -
163K VAL 3.8 10.5 - - - +
164K TYR* 4.2 1.6 - - + -
229K LEU* 3.8 17.7 - - + -
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Residues in contact with VAL 139 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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94K ILE* 4.3 7.6 - - + -
99K VAL* 4.1 15.0 - - + -
102K PRO* 4.0 23.6 - - + -
103K ARG 3.2 10.8 - - - +
104K ILE* 3.5 18.4 - - + -
138K GLU* 1.3 70.7 - - - +
140K VAL* 1.3 59.5 + - - +
162K GLY* 3.2 8.1 + - - -
163K VAL* 2.9 52.8 + - + +
165K VAL* 4.7 9.0 - - + -
257K ALA* 5.8 0.2 - - + -
259K PHE* 3.8 25.8 - - + -
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Residues in contact with VAL 140 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60K LYS* 4.0 3.6 - - - +
99K VAL* 3.7 1.6 - - - +
101K GLN 4.0 0.2 - - - +
102K PRO* 3.4 5.0 - - - +
103K ARG* 2.7 54.9 + - + +
105K GLU* 3.8 12.8 - - - +
138K GLU* 3.5 21.0 + - + +
139K VAL* 1.3 76.2 - - - +
141K GLY* 1.3 59.5 + - - +
147K TRP* 3.6 22.4 - - + -
160K SER* 3.2 17.3 - - - +
162K GLY 4.2 0.4 - - - +
236K MET* 3.9 12.6 - - - -
1264K PO4 3.6 24.7 - - - +
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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