Contacts of the strand formed by residues 144 - 155 (chain A) in PDB entry 2E56
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 GLU 144 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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69A ARG* 3.6 43.6 + - - +
138A ILE* 3.6 7.4 - - - +
139A SER* 3.3 27.1 + - - +
142A PRO* 3.3 19.5 - - - +
143A GLU* 1.4 94.3 - - - +
145A MET* 1.3 68.0 + - - +
146A LEU* 3.4 0.3 + - - -
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Residues in contact with MET 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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38A ASP* 3.9 21.8 - - + +
39A LYS* 3.3 27.8 - - - +
41A GLN* 3.7 29.4 - - + +
69A ARG* 3.7 23.8 + - - +
136A GLU* 6.1 3.8 - - + -
137A ALA 3.8 4.7 - - - +
138A ILE* 4.7 6.9 - - + +
144A GLU* 1.3 80.1 - - - +
146A LEU* 1.3 61.8 + - - +
147A PHE* 3.6 13.7 - - - +
148A CYS* 3.5 37.7 - - + +
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Residues in contact with LEU 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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41A GLN* 3.8 19.2 - - - +
65A TYR* 3.6 36.6 + - + +
68A ARG* 4.0 8.0 - - + +
69A ARG* 4.0 26.9 + - + +
71A LEU* 3.8 27.1 - - + -
74A LEU* 3.8 26.2 - - + -
137A ALA* 2.7 19.9 + - + +
138A ILE* 4.5 0.9 - - - +
139A SER* 4.1 16.6 - - - +
144A GLU 3.4 0.4 + - - -
145A MET* 1.3 77.0 - - - +
147A PHE* 1.3 79.2 + - + +
501A MYR 5.5 1.1 - - + -
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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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36A TYR* 5.8 4.3 - - + -
41A GLN* 4.9 3.4 - - + -
42A TYR 5.3 5.6 - - - +
44A ILE* 4.0 18.6 - - + -
65A TYR* 3.8 27.4 - + + +
76A PHE* 4.1 12.3 - + - -
135A VAL* 4.1 14.8 - - + -
136A GLU* 3.8 1.4 - - - +
137A ALA* 2.9 47.7 + - + +
145A MET* 3.6 15.6 - - - +
146A LEU* 1.3 94.6 - - + +
148A CYS* 1.3 66.9 + - - +
149A LEU* 3.6 34.8 - - + -
501A MYR 4.6 8.1 - - + -
601A MYR 4.3 15.7 - - + -
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Residues in contact with CYS 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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36A TYR* 3.8 4.7 - - - -
37A CYS* 2.1 76.5 + - - +
38A ASP* 3.9 7.0 - - + -
134A VAL* 3.9 13.9 - - - -
135A VAL 3.3 7.4 - - - -
136A GLU* 4.8 14.8 - - + -
145A MET* 3.5 13.2 - - + +
147A PHE* 1.3 77.0 - - - +
149A LEU* 1.3 69.4 + - - +
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Residues in contact with LEU 149 (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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34A TYR* 3.8 19.1 - - + -
35A THR 3.7 2.9 - - - +
36A TYR* 3.5 39.7 - - + -
37A CYS* 3.3 5.1 - - - -
44A ILE* 3.9 9.6 - - + -
46A ILE* 3.9 27.1 - - + -
133A CYS 3.7 1.2 - - - +
134A VAL* 3.3 2.6 - - - -
135A VAL* 2.7 37.5 + - + +
147A PHE* 3.6 31.9 - - + -
148A CYS* 1.3 77.2 - - - +
150A GLU* 1.3 59.4 + - - +
151A PHE* 3.9 22.7 - - + -
601A MYR 4.5 2.9 - - + -
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Residues in contact with GLU 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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34A TYR* 3.1 4.8 - - - -
35A THR* 3.0 47.9 + - - +
37A CYS* 3.7 15.8 - - + +
132A LYS* 4.1 21.3 - - + +
133A CYS 3.7 2.0 - - - -
134A VAL* 3.9 26.2 - - + +
149A LEU* 1.3 73.4 - - - +
151A PHE* 1.3 66.0 + - - +
152A VAL* 3.9 10.1 + - + +
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Residues in contact with PHE 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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24A VAL* 4.6 4.5 - - + -
32A ILE* 4.3 6.7 - - + -
33A SER 3.4 7.2 - - - +
34A TYR* 3.6 27.1 - + + -
46A ILE* 3.7 25.6 - - + -
132A LYS* 3.2 8.8 - - - +
133A CYS 2.8 43.9 + - - +
135A VAL* 3.8 25.1 - - + -
149A LEU* 3.9 18.8 - - + -
150A GLU* 1.3 74.9 - - - +
152A VAL* 1.3 61.8 + - - +
153A ILE* 4.1 16.4 - - + -
601A MYR 4.0 18.6 - - + -
701A MYR 3.9 35.9 - - + -
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Residues in contact with VAL 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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21A GLN* 6.2 1.8 - - - +
31A SER 3.4 4.2 - - - +
32A ILE* 3.6 1.7 - - - -
33A SER* 2.8 42.7 + - - +
34A TYR* 5.8 0.7 - - - -
130A LYS* 3.9 16.4 - - - +
131A TYR 3.5 3.4 - - - +
132A LYS* 4.1 22.7 - - + -
150A GLU* 3.9 11.6 + - + +
151A PHE* 1.3 79.0 - - - +
153A ILE* 1.3 64.1 + - - +
154A LEU* 3.7 31.2 - - + -
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Residues in contact with ILE 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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30A ALA* 4.0 12.8 - - + -
31A SER 3.4 3.8 - - - +
32A ILE* 4.3 22.4 - - + -
52A ILE* 6.3 1.6 - - + -
54A LEU* 3.8 36.8 - - + -
131A TYR* 2.7 58.7 + - + +
132A LYS 4.7 0.7 - - - -
133A CYS* 4.5 7.2 - - + +
151A PHE* 4.1 21.1 - - + +
152A VAL* 1.3 79.4 - - - +
154A LEU* 1.3 61.8 + - - +
701A MYR 4.4 18.2 - - + -
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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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23A TRP* 5.5 9.6 - - + -
30A ALA* 3.2 5.9 - - - +
31A SER* 2.8 49.7 + - - +
54A LEU* 4.3 2.0 - - - -
129A GLY 4.0 1.8 - - - +
130A LYS* 3.6 39.5 - - + +
152A VAL* 3.7 15.2 - - + -
153A ILE* 1.3 73.2 - - - +
155A HIS* 1.3 65.6 + - - +
801A NAG 4.7 17.9 - - - -
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Residues in contact with HIS 155 (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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29A ASP* 3.4 23.5 + - + +
54A LEU* 3.7 12.5 - - + +
55A LYS* 5.0 0.2 - - - -
127A SER* 3.5 42.4 + - - -
128A LYS* 3.9 7.5 - - + +
129A GLY 3.0 31.8 + - - +
131A TYR* 5.0 0.4 - - + -
153A ILE 3.8 1.4 + - - -
154A LEU* 1.3 78.2 - - - +
156A GLN* 1.3 84.8 + - - +
157A PRO* 3.2 6.9 - - - +
159A SER* 2.7 29.1 + - - -
160A ASN* 3.6 21.8 + - - -
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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