Contacts of the strand formed by residues 143 - 153 (chain A) in PDB entry 2LHS
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 GLY 143 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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99A PRO 6.1 0.2 - - - -
142A SER* 1.3 74.9 - - - +
144A SER* 1.3 59.8 + - - -
145A HIS* 2.9 17.7 + - - -
167A ASN* 4.0 4.9 - - - -
168A LEU 2.7 40.9 + - - -
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Residues in contact with SER 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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64A PRO* 4.9 6.6 + - - +
69A LYS* 3.0 33.6 + - - +
99A PRO 4.9 4.4 + - - +
101A TRP* 3.2 14.9 + - - -
103A ALA* 4.8 5.5 - - - +
143A GLY* 1.3 66.5 - - - -
145A HIS* 1.3 60.5 + - - +
166A VAL 3.3 7.0 - - - -
167A ASN* 3.9 13.3 + - - -
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Residues in contact with HIS 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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69A LYS* 4.4 0.8 - - - +
96A ILE* 4.2 13.1 - - + +
97A THR* 3.5 9.0 - - - +
98A LYS 4.7 3.4 - - - +
99A PRO* 5.4 4.5 - - + +
101A TRP* 3.3 24.0 - - + +
137A ILE* 5.2 0.2 - - - +
141A ARG* 2.9 37.5 + - + +
142A SER 4.2 3.1 + - - +
143A GLY 2.9 19.8 + - - -
144A SER* 1.3 75.0 + - - +
146A VAL* 1.3 79.7 + - - +
147A ILE* 3.5 19.3 - - + +
165A ASP* 3.2 6.5 - - - +
166A VAL* 2.9 43.2 + - + +
168A LEU* 3.7 21.0 - - + +
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Residues in contact with VAL 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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10A ARG* 3.6 26.5 - - - +
62A GLN* 4.5 0.9 - - - +
96A ILE* 3.8 0.5 - - - -
97A THR* 3.4 40.9 + - + -
101A TRP* 3.7 14.4 - - + -
107A LEU* 4.4 10.3 - - + -
145A HIS* 1.3 87.6 - - - +
147A ILE* 1.3 60.5 + - - +
148A LEU* 3.7 13.9 - - + -
163A ALA* 3.9 13.9 - - + -
164A ILE 3.3 23.8 - - - +
165A ASP* 3.9 8.3 - - - +
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Residues in contact with ILE 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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7A PRO* 6.2 0.9 - - + -
72A LEU* 6.4 0.4 - - + -
79A PHE* 5.6 5.8 - - + -
94A TYR* 5.0 6.3 - - + -
95A PHE 3.7 10.5 - - - +
96A ILE* 3.9 10.1 - - + -
117A PHE* 4.2 15.3 - - + -
137A ILE* 4.2 32.1 - - + -
145A HIS* 3.5 30.7 - - + +
146A VAL* 1.3 73.6 - - - +
148A LEU* 1.3 69.0 + - - +
149A ALA* 5.9 0.9 - - + -
162A GLN 3.9 0.5 - - - +
163A ALA* 3.5 0.3 - - - -
164A ILE* 2.9 47.4 + - + +
166A VAL* 3.9 23.3 - - + -
168A LEU* 4.7 1.8 - - + -
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Residues in contact with LEU 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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48A ILE* 4.8 2.5 - - + -
49A ALA* 4.0 17.7 - - + +
93A ARG 4.2 0.3 - - - +
94A TYR* 3.4 3.7 - - - +
95A PHE* 3.0 64.8 + - + +
107A LEU* 4.2 3.6 - - + -
112A PHE* 3.7 25.6 - - + -
146A VAL* 3.7 27.1 - - + +
147A ILE* 1.3 79.8 - - - +
149A ALA* 1.3 61.4 + - - +
161A TYR* 4.0 23.4 - - + -
162A GLN 3.7 3.1 - - - -
163A ALA* 3.9 21.1 - - + -
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Residues in contact with ALA 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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4A VAL* 5.1 8.3 - - + -
7A PRO* 5.9 3.1 - - + -
79A PHE* 5.5 1.8 - - + -
81A TRP* 3.8 15.9 - - + -
93A ARG 3.6 4.7 - - - -
94A TYR* 3.4 29.4 - - + -
147A ILE* 4.0 2.2 + - + +
148A LEU* 1.3 73.0 - - - +
150A VAL* 1.3 57.7 - - - +
160A PHE 3.5 1.4 - - - +
161A TYR* 4.2 0.7 - - - -
162A GLN* 2.7 47.4 + - + +
164A ILE* 6.2 2.2 - - + -
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Residues in contact with VAL 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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81A TRP* 4.0 5.2 - - - -
91A SER 4.2 0.2 - - - +
92A TRP* 3.4 5.4 - - - +
93A ARG* 2.8 69.6 + - + +
95A PHE* 5.7 0.4 - - + -
148A LEU 5.3 0.2 - - - +
149A ALA* 1.3 74.8 - - - +
151A TRP* 1.3 63.3 + - - +
152A ASP* 3.6 15.5 - - - +
159A ALA* 4.0 4.7 - - + -
160A PHE 3.3 28.0 - - - +
161A TYR* 3.4 44.9 - - + +
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Residues in contact with TRP 151 (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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1A HIS 3.4 37.0 - - - -
2A GLY* 4.2 7.4 - - - -
81A TRP* 3.8 22.4 - + + -
83A LEU* 3.4 38.1 - - + -
85A ALA* 4.4 10.8 - - + -
87A HIS* 4.5 13.2 - + - -
88A SER 5.3 0.2 - - - -
89A THR* 3.1 38.4 + - - +
91A SER 3.7 2.7 - - - -
92A TRP* 3.4 31.4 - + + -
127A PRO* 5.7 0.2 - - + -
150A VAL* 1.3 74.6 - - - +
152A ASP* 1.3 63.8 + - - +
153A ILE* 3.4 33.9 + - + +
159A ALA* 3.4 18.4 - - - -
160A PHE 3.6 8.2 + - - +
162A GLN* 5.3 3.1 - - - +
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Residues in contact with ASP 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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36A LYS* 3.9 15.5 - - - +
89A THR* 3.0 8.3 + - - -
90A THR* 2.9 42.5 + - + +
91A SER* 2.9 17.8 + - - +
93A ARG* 2.9 43.0 + - - +
150A VAL* 3.6 13.3 - - - +
151A TRP* 1.3 73.2 - - - +
153A ILE* 1.3 59.4 + - - +
158A ASN 3.8 4.3 - - - -
159A ALA* 3.6 17.7 - - - +
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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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1A HIS 5.3 1.6 - - - +
33A GLU* 4.4 11.7 - - - +
36A LYS* 2.8 25.8 + - - -
87A HIS* 3.4 33.0 - - + +
88A SER 3.7 7.9 - - - +
89A THR* 4.4 0.2 - - - +
90A THR* 3.5 1.1 - - - +
151A TRP* 3.4 48.9 - - + +
152A ASP* 1.3 72.7 - - - +
154A ALA* 1.3 60.9 + - - +
155A ASP 3.6 10.8 - - - +
156A THR* 3.1 26.0 - - - +
158A ASN* 3.0 31.4 + - + +
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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