Contacts of the helix formed by residues 143 - 159 (chain A) in PDB entry 3EA4
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 HIS 143 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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118A TYR* 4.3 3.1 - - - -
141A PRO* 3.5 7.1 - - - +
142A ARG* 1.3 79.7 - - - +
144A GLU* 1.3 71.0 + - - +
145A GLN* 3.0 39.7 - - + +
146A GLY* 2.8 20.4 + - - +
147A GLY 3.0 8.1 + - - -
174A ASN* 3.3 34.0 + - - +
544A ASN* 4.8 3.0 + - - -
546A GLN* 3.3 27.2 + - - +
547A GLU* 3.1 2.1 + - - +
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Residues in contact with GLU 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A TYR* 3.7 39.9 - - + +
141A PRO* 4.7 3.3 - - - +
143A HIS* 1.3 74.6 - - - +
145A GLN* 1.3 59.7 + - - +
146A GLY 3.2 0.2 - - - -
147A GLY* 3.1 6.8 + - - +
148A VAL* 3.0 27.9 + - - +
165A ILE 5.3 2.0 - - - +
166A ALA* 4.6 6.4 - - + +
167A THR* 5.0 3.1 - - - +
171A GLY* 3.3 39.2 - - - +
174A ASN* 3.1 33.9 - - + +
175A LEU* 3.7 15.2 - - + +
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Residues in contact with GLN 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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143A HIS* 3.0 24.2 - - + +
144A GLU* 1.3 72.9 - - - +
146A GLY* 1.3 65.2 + - - +
148A VAL* 3.3 5.7 - - + +
149A PHE* 3.1 50.7 + - + +
174A ASN 3.6 19.5 + - - +
177A SER* 3.8 21.5 + - - -
513A MET 4.6 5.3 + - - -
543A MET* 4.8 11.5 + - - +
544A ASN* 2.9 29.5 + - - +
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Residues in contact with GLY 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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141A PRO* 4.1 6.3 - - - -
143A HIS* 2.8 13.7 + - - +
145A GLN* 1.3 78.5 - - - +
147A GLY* 1.3 54.9 + - - +
150A ALA* 2.9 31.7 + - - +
518A PRO* 3.5 16.4 - - - +
521A ILE* 6.1 0.2 - - - +
544A ASN* 4.3 3.7 + - - -
546A GLN* 4.7 1.1 - - - -
547A GLU* 3.6 23.9 + - - -
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Residues in contact with GLY 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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116A PHE* 3.7 16.2 - - - +
141A PRO* 3.7 20.3 - - - +
143A HIS 3.0 10.5 + - - -
144A GLU* 3.1 8.7 + - - -
146A GLY* 1.3 73.9 - - - +
148A VAL* 1.3 61.7 + - - -
150A ALA* 3.2 6.4 + - - +
151A ALA* 3.0 20.4 + - - +
164A CYS* 4.2 7.2 - - - -
175A LEU* 5.8 0.4 - - - -
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Residues in contact with VAL 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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144A GLU 3.0 13.4 + - - +
145A GLN* 3.3 23.1 - - + +
147A GLY* 1.3 70.3 - - - +
149A PHE* 1.3 57.8 + - + +
151A ALA* 3.0 4.7 + - - +
152A GLU* 2.8 30.8 + - - +
164A CYS* 3.3 32.5 - - - +
175A LEU* 3.8 33.0 - - + +
178A GLY* 3.9 28.0 - - - +
179A LEU* 4.6 3.4 - - + +
189A LEU* 4.3 13.8 - - + +
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Residues in contact with PHE 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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145A GLN* 3.1 49.4 + - + +
148A VAL* 1.3 77.4 - - - +
150A ALA* 1.3 57.6 + - - +
152A GLU* 3.3 22.4 + - - +
153A GLY 2.9 22.9 + - - -
177A SER* 4.3 9.0 - - - -
178A GLY* 3.7 25.6 - - - -
181A ASP* 4.2 8.5 - - + -
512A ALA* 3.9 20.6 - - + -
513A MET 3.9 9.9 - - - -
514A GLY 3.4 27.1 - - - -
515A PHE* 3.7 18.6 - + + +
518A PRO* 3.5 19.5 - - + -
519A ALA* 3.6 9.0 - - - +
544A ASN* 4.0 0.7 - - - -
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Residues in contact with ALA 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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116A PHE* 3.6 29.4 - - + -
141A PRO* 6.1 1.1 - - + -
146A GLY 2.9 20.3 + - - +
147A GLY* 3.4 5.6 - - - +
149A PHE* 1.3 73.6 - - - +
151A ALA* 1.3 58.8 - - - +
153A GLY 3.1 1.2 + - - -
154A TYR* 2.8 26.5 + - - +
518A PRO* 3.1 21.2 + - + +
521A ILE* 4.4 7.6 - - + -
522A GLY* 3.2 11.1 - - - +
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Residues in contact with ALA 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 PHE* 3.7 21.7 - - + -
147A GLY 3.0 12.9 + - - +
148A VAL* 3.0 8.9 + - - +
150A ALA* 1.3 74.6 - - - +
152A GLU* 1.3 57.0 + - - +
154A TYR* 3.3 3.2 - - - +
155A ALA* 2.9 24.4 + - - +
162A GLY* 3.4 22.7 - - - -
163A ILE 3.9 8.1 - - - +
164A CYS* 4.2 6.1 - - + -
189A LEU* 3.7 17.7 - - + -
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Residues in contact with GLU 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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148A VAL 2.8 14.6 + - - +
149A PHE* 3.4 22.9 - - - +
151A ALA* 1.3 75.5 - - - +
153A GLY* 1.3 55.2 + - - +
155A ALA* 3.3 1.2 + - - +
156A ARG* 2.7 79.5 + - - +
178A GLY* 3.4 12.3 - - - +
181A ASP* 2.6 30.9 - - - +
182A ALA* 4.0 10.8 + - + -
187A VAL* 4.0 13.4 - - + +
189A LEU* 4.2 15.3 - - + -
515A PHE* 4.0 6.3 - - + -
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Residues in contact with GLY 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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149A PHE 2.9 13.3 + - - -
150A ALA 3.1 1.8 + - - -
152A GLU* 1.3 73.9 - - - +
154A TYR* 1.3 61.9 + - - +
156A ARG* 4.6 3.1 - - - -
157A SER* 3.0 30.0 + - - -
505A LEU* 4.0 8.2 - - - +
519A ALA* 3.4 29.5 - - - +
523A ALA 3.8 7.1 + - - -
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Residues in contact with TYR 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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113A GLU* 4.5 5.9 + - - +
114A THR* 3.2 46.5 + - + -
116A PHE* 3.9 23.3 - + + -
150A ALA 2.8 13.2 + - - +
151A ALA* 3.3 8.7 - - - +
153A GLY* 1.3 77.5 - - - +
155A ALA* 1.3 57.0 + - - +
157A SER* 3.3 4.8 + - - -
158A SER* 2.8 31.0 + - - -
160A LYS* 3.2 39.9 + - + +
161A PRO 3.7 23.1 - - - -
162A GLY* 4.2 5.2 - - - -
163A ILE* 5.3 1.3 - - + -
522A GLY 3.6 24.0 - - - +
525A VAL* 4.2 2.5 - - + -
526A ALA* 3.6 20.0 - - + +
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Residues in contact with ALA 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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151A ALA 2.9 20.2 + - - +
152A GLU* 3.3 3.8 + - - +
154A TYR* 1.3 72.1 - - - +
156A ARG* 1.3 58.9 + - - +
158A SER 3.2 0.2 + - - -
159A GLY* 2.9 30.0 + - - -
160A LYS 3.0 23.4 - - - +
162A GLY 3.6 3.8 - - - +
187A VAL* 3.8 12.6 - - + -
188A PRO* 3.4 28.2 - - + +
502A ARG* 3.7 3.9 + - - -
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Residues in contact with ARG 156 (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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152A GLU* 2.7 56.3 + - - +
153A GLY 4.0 1.1 - - - +
155A ALA* 1.3 73.6 - - - +
157A SER* 1.3 57.7 + - - +
158A SER 3.4 0.2 - - - -
181A ASP* 3.2 12.5 + - - -
185A ASP* 2.9 31.3 + - - +
187A VAL* 3.7 21.8 - - + +
188A PRO* 6.3 0.2 - - - -
311A LEU* 5.7 0.7 - - - +
333A MET* 3.9 12.3 - - - +
502A ARG* 3.1 37.4 + - - +
504A TRP 5.4 1.3 + - - +
505A LEU* 3.7 26.4 - - + +
506A SER 2.7 29.4 + - - +
507A SER* 4.3 0.4 - - - +
515A PHE* 3.6 22.3 - - - -
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Residues in contact with SER 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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153A GLY 3.0 21.7 + - - -
154A TYR 3.3 6.1 + - - -
156A ARG* 1.3 76.7 - - - +
158A SER* 1.3 57.0 + - - +
480A ILE* 4.6 4.1 - - - +
502A ARG* 3.9 26.0 - - - +
505A LEU* 3.9 11.9 - - - -
523A ALA* 3.4 18.8 - - - -
526A ALA* 3.7 2.1 - - - +
527A ASN* 2.9 35.8 + - - +
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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
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154A TYR* 2.8 23.2 + - - -
155A ALA 3.5 0.5 + - - -
156A ARG 3.4 0.6 + - - -
157A SER* 1.3 78.8 - - - +
159A GLY* 1.3 60.0 + - - +
160A LYS* 3.0 42.8 + - - +
502A ARG* 4.1 7.0 - - - +
526A ALA* 4.0 18.2 - - - -
527A ASN* 4.9 1.8 - - - +
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Residues in contact with GLY 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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155A ALA 2.9 9.4 + - - -
158A SER* 1.3 76.5 - - - +
160A LYS* 1.3 61.2 + - - +
161A PRO* 4.3 1.6 - - - +
188A PRO* 5.0 7.7 - - - +
243A THR* 6.0 0.5 - - - +
312A ASN* 5.4 1.1 - - - -
502A ARG* 3.6 30.9 + - - +
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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