Contacts of the helix formed by residues 146 - 165 (chain A) in PDB entry 6EBT
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 146 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A GLN* 3.2 17.0 - - - -
143A THR 3.1 10.2 + - - -
144A GLY 3.4 1.0 + - - -
145A SER* 1.3 77.8 - - - +
147A THR* 1.3 64.8 + - - +
149A THR* 3.2 5.7 + - - -
150A ASN* 3.1 20.3 + - - +
187A SER* 4.7 1.1 - - - -
191A PHE* 3.6 24.7 - - - +
410A PRO* 4.0 4.4 - - - +
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Residues in contact with THR 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A THR* 3.2 12.5 + - - -
145A SER* 2.6 23.8 + - - -
146A GLY* 1.3 76.0 - - - +
148A GLN* 1.3 66.3 + - - +
150A ASN* 3.1 2.6 + - - +
151A MET* 2.8 46.3 + - + +
187A SER* 3.3 27.4 - - - +
188A ASN* 5.1 0.3 + - - -
602A GOL 4.4 11.2 + - - +
235B HIS* 4.9 3.6 + - - -
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Residues in contact with GLN 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72A THR* 4.9 1.0 + - - -
75A SER* 3.0 32.9 + - - +
79A PHE* 4.1 18.6 - - + -
138A LEU* 3.4 12.4 - - + +
142A GLN* 3.2 13.8 + - + +
143A THR* 2.4 55.3 + - - +
147A THR* 1.3 82.2 - - - +
149A THR* 1.3 51.6 + - - +
151A MET* 3.4 18.7 + - + +
152A ASN* 2.7 33.4 + - - +
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Residues in contact with THR 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A MET* 3.3 23.6 - - + +
92A VAL* 4.8 0.2 - - + -
93A ILE* 3.8 28.7 - - + +
96A PHE* 3.9 22.2 - - + -
138A LEU* 4.3 5.2 - - - +
142A GLN* 3.0 28.5 + - - -
146A GLY 3.2 6.5 + - - -
148A GLN* 1.3 74.4 - - - +
150A ASN* 1.3 60.1 + - - +
152A ASN* 3.1 9.5 + - + +
153A VAL* 2.7 29.0 + - + +
191A PHE* 4.5 3.1 - - + -
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Residues in contact with ASN 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A PHE* 3.5 20.3 - - + -
100A LYS* 2.9 29.1 + - - -
146A GLY 3.1 11.3 + - - +
147A THR 3.5 7.4 - - - +
149A THR* 1.3 76.9 - - - +
151A MET* 1.3 56.6 + - - +
153A VAL* 3.2 3.5 + - - +
154A ASN* 2.9 39.2 + - - +
182A ASN* 3.3 19.0 + - - -
187A SER* 3.1 33.8 + - - +
190A THR* 3.6 10.5 + - - +
191A PHE* 5.9 0.4 - - + -
602A GOL 3.8 6.7 + - - -
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Residues in contact with MET 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A GLN* 3.5 53.4 - - + +
72A THR* 4.6 0.7 - - - +
75A SER* 4.3 4.5 - - - +
147A THR* 2.8 31.3 + - + +
148A GLN* 3.5 29.8 - - + +
150A ASN* 1.3 69.0 - - + +
152A ASN* 1.3 61.6 + - - +
154A ASN* 3.2 9.7 + - - +
155A GLU* 2.8 38.4 + - + +
602A GOL 5.3 5.2 - - - +
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Residues in contact with ASN 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A TYR* 3.7 3.2 - - - +
72A THR* 3.4 25.5 + - - +
135A HIS 3.1 21.6 + - - -
136A PHE* 3.4 31.7 - - + +
137A PRO* 3.5 9.2 - - - +
138A LEU* 3.6 13.6 - - + +
148A GLN 2.7 19.1 + - - +
149A THR* 3.1 14.3 + - - +
151A MET* 1.3 72.9 - - - +
153A VAL* 1.3 61.2 + - - +
155A GLU* 3.9 0.9 - - - +
156A VAL* 3.0 27.5 + - - +
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Residues in contact with VAL 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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93A ILE* 4.7 4.5 - - + +
96A PHE* 3.6 37.9 - - + -
97A GLY 5.0 0.7 - - - +
100A LYS* 3.7 21.5 - - + -
127A VAL* 5.3 2.0 - - + -
136A PHE* 3.6 25.8 - - + -
149A THR* 2.7 26.6 + - + +
150A ASN 3.6 4.0 - - - +
152A ASN* 1.3 72.7 - - - +
154A ASN* 1.3 58.9 + - - +
156A VAL* 3.9 0.7 - - - +
157A ILE* 2.9 52.5 + - + +
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Residues in contact with ASN 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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100A LYS* 3.0 27.3 + - - -
150A ASN* 2.9 28.4 + - - +
151A MET* 3.7 9.1 - - - +
153A VAL* 1.3 75.6 - - - +
155A GLU* 1.3 62.8 + - - +
157A ILE 4.0 0.2 - - - -
158A SER* 3.1 26.5 + - - -
177A PRO* 3.5 28.3 + - + +
178A ASN* 5.3 0.8 + - - +
181A VAL* 3.4 17.5 - - - +
182A ASN* 3.2 31.4 + - - +
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Residues in contact with GLU 155 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A TYR 3.2 8.8 - - - +
68A TYR* 4.2 0.7 - - - -
69A GLY* 2.8 34.1 + - - +
70A ALA 3.5 4.2 + - - -
71A GLN* 2.9 44.1 + - + +
72A THR* 2.7 30.5 + - - -
151A MET* 2.8 21.9 + - + +
152A ASN 3.9 2.7 - - - +
154A ASN* 1.3 73.3 - - - +
156A VAL* 1.3 61.9 - - - +
158A SER* 3.0 18.9 + - - -
159A ASN* 3.0 12.4 + - - +
177A PRO* 4.5 13.9 - - + -
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Residues in contact with VAL 156 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A TYR* 3.4 17.9 - - + +
68A TYR* 3.7 17.5 - - - +
127A VAL* 4.4 4.5 - - + -
132A LEU* 4.1 22.2 - - + -
135A HIS* 3.4 31.9 - - + +
136A PHE* 3.9 21.8 - - + -
152A ASN* 3.0 26.1 + - - +
153A VAL 4.0 2.7 - - - +
155A GLU* 1.3 75.3 - - - +
157A ILE* 1.3 58.7 + - - +
159A ASN 3.6 0.2 + - - -
160A ARG* 3.0 29.1 + - - +
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Residues in contact with ILE 157 (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 GLY* 5.0 2.0 - - - -
100A LYS* 3.6 25.6 - - + -
120A ILE* 3.8 29.8 - - + +
123A ALA* 3.6 10.2 - - + +
124A ALA* 4.1 15.9 - - - +
127A VAL* 4.1 21.3 - - + -
132A LEU* 6.3 0.2 - - - -
153A VAL* 2.9 40.6 + - + +
156A VAL* 1.3 76.6 - - + +
158A SER* 1.3 58.4 + - - +
160A ARG* 4.6 0.2 - - - -
161A ALA* 2.9 27.5 + - - +
181A VAL* 3.7 22.4 - - + -
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Residues in contact with SER 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154A ASN 3.1 15.4 + - - -
155A GLU* 3.0 10.2 + - - -
157A ILE* 1.3 75.6 - - - +
159A ASN* 1.3 67.3 + - - +
161A ALA* 3.2 1.6 + - - +
162A ILE* 2.6 43.4 + - - +
172A LYS* 5.6 0.2 - - - -
175A VAL* 3.5 37.8 + - - +
177A PRO* 3.6 20.5 - - - +
181A VAL* 4.0 5.8 - - - -
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Residues in contact with ASN 159 (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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51A ARG* 3.4 20.5 - - - +
53A GLU* 4.6 1.8 + - - -
67A TYR* 2.7 40.1 + - + +
68A TYR 3.9 6.1 + - - -
69A GLY* 4.5 2.4 - - - +
155A GLU* 3.0 8.4 + - - +
158A SER* 1.3 82.6 + - - +
160A ARG* 1.3 59.2 + - - +
162A ILE* 3.5 13.8 - - - +
163A GLU* 2.9 27.0 + - - +
169A LEU* 3.8 13.3 - - + +
170A GLY* 2.9 32.4 + - - +
172A LYS 5.1 0.7 + - - -
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Residues in contact with ARG 160 (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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67A TYR* 3.6 36.1 + - + -
123A ALA* 3.7 22.2 - - + -
126A GLU* 2.8 41.2 + - - +
132A LEU* 4.4 8.5 - - + +
156A VAL 3.0 20.2 + - - +
157A ILE* 4.6 0.2 - - - -
159A ASN* 1.3 73.7 - - - +
161A ALA* 1.3 58.5 + - - +
163A GLU* 2.7 39.4 + - - +
164A MET* 2.9 56.8 + - + +
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Residues in contact with ALA 161 (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 ALA* 3.7 34.3 - - + +
120A ILE* 4.0 3.1 - - - +
123A ALA* 4.0 0.4 - - - +
157A ILE 2.9 20.9 + - - +
158A SER 3.6 3.1 - - - +
160A ARG* 1.3 75.8 - - - +
162A ILE* 1.3 63.8 + - - +
164A MET* 3.1 7.6 + - - +
165A LEU* 3.0 27.0 + - - +
175A VAL* 3.7 23.8 - - + -
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Residues in contact with ILE 162 (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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158A SER* 2.6 31.9 + - - +
159A ASN* 3.5 17.9 - - - +
161A ALA* 1.3 71.9 - - - +
163A GLU* 1.3 61.4 + - - +
165A LEU* 3.0 9.0 + - - +
167A GLY* 2.9 38.8 + - - +
168A GLU 3.4 24.5 - - - +
169A LEU* 4.3 2.0 - - + +
172A LYS* 3.8 10.5 - - - +
173A ILE 3.3 38.8 - - - +
174A PRO* 4.5 7.0 - - - -
175A VAL* 3.5 28.7 - - - +
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Residues in contact with GLU 163 (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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67A TYR* 2.5 37.4 + - - -
159A ASN 2.9 14.8 + - - +
160A ARG* 2.7 29.4 + - - +
162A ILE* 1.3 76.2 - - - +
164A MET* 1.3 61.3 + - - +
166A GLY* 3.0 14.0 + - - +
167A GLY 4.6 4.0 - - - -
169A LEU* 4.0 20.1 - - + +
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Residues in contact with MET 164 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ALA* 3.8 17.3 - - + +
122A LYS* 3.6 33.2 - - + -
123A ALA* 3.7 21.1 - - - +
126A GLU* 3.4 27.1 - - - +
160A ARG* 2.9 42.3 + - + +
161A ALA* 3.1 10.7 + - - +
163A GLU* 1.3 76.3 - - - +
165A LEU* 1.3 64.6 + - + +
166A GLY 3.4 0.6 + - - -
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Residues in contact with LEU 165 (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 LYS* 4.1 24.9 - - + +
116A ILE* 4.6 5.8 - - + -
119A ALA* 3.8 23.3 - - + -
161A ALA 3.0 13.4 + - - +
162A ILE 3.0 5.3 + - - +
164A MET* 1.3 80.3 - - + +
166A GLY* 1.3 61.0 + - - +
167A GLY* 3.4 1.9 + - - -
174A PRO* 3.6 33.0 - - + +
175A VAL* 4.0 9.6 - - + -
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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