Contacts of the helix formed by residues 133 - 148 (chain A) in PDB entry 1E3H
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 TYR 133 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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45A THR* 4.6 7.6 - - + -
47A VAL* 4.6 2.8 - - + +
70A VAL* 4.2 8.1 - - + +
72A GLU* 2.6 44.5 + - + +
94A ASP* 3.8 2.9 - - + +
95A ALA* 3.6 17.8 + - - -
98A THR* 3.7 21.1 - - + -
124A ILE* 3.5 43.3 - - + -
127A LEU* 4.1 21.5 - - + +
131A HIS 4.0 1.2 - - - -
132A LEU* 1.3 73.5 - - - +
134A ASP* 1.3 70.6 + - - +
135A VAL 3.4 0.2 - - - -
136A VAL* 2.9 19.0 + - - +
137A ALA* 3.0 12.4 + - + +
392A LEU* 4.3 5.8 - - + -
903A SO4 2.9 41.0 + - - +
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Residues in contact with ASP 134 (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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98A THR* 3.5 24.5 - - + +
101A LEU* 4.0 19.9 - - + +
132A LEU* 4.1 3.7 - - - +
133A TYR* 1.3 85.7 - - - +
135A VAL* 1.3 82.0 + - - +
137A ALA* 3.0 15.4 + - - +
138A ILE* 3.1 16.4 + - - +
160A ARG* 2.8 42.5 + - - -
903A SO4 3.4 14.7 + - - +
906A SO4 4.6 1.4 + - - -
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Residues in contact with VAL 135 (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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132A LEU* 4.2 9.9 - - + +
134A ASP* 1.3 93.3 + - - +
136A VAL* 1.3 61.4 + - - +
138A ILE* 3.7 16.5 + - + +
139A ASN* 2.8 26.9 + - - -
158A GLY 3.8 0.6 - - - +
159A VAL* 3.8 13.2 - - - +
160A ARG* 3.7 32.5 - - + +
171A PHE* 3.6 31.4 - - + -
185A VAL* 3.8 28.3 - - + -
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Residues in contact with VAL 136 (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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22A ILE* 4.3 13.5 - - + -
39A ALA* 3.8 33.2 - - + +
40A TYR 4.9 6.1 - - - +
41A LEU* 4.0 28.0 - - + -
45A THR* 4.8 7.9 - - + -
47A VAL* 3.8 15.3 - - + -
132A LEU 4.0 16.6 - - - +
133A TYR* 2.9 10.8 + - - +
135A VAL* 1.3 76.2 - - + +
137A ALA* 1.3 67.0 + - - +
139A ASN* 3.3 8.9 + - - +
140A ALA* 3.1 19.8 + - - +
171A PHE* 4.6 4.9 - - + -
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Residues in contact with ALA 137 (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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47A VAL* 3.9 24.6 - - + +
70A VAL* 5.4 0.4 - - + -
98A THR* 4.0 19.7 - - + -
102A ILE* 3.9 8.5 - - + +
122A ALA* 4.5 8.2 - - + +
124A ILE* 4.6 8.7 - - + -
133A TYR* 3.0 10.8 + - + +
134A ASP 3.4 8.5 - - - +
136A VAL* 1.3 75.5 - - - +
138A ILE* 1.3 59.0 + - - +
140A ALA* 3.2 1.3 + - - +
141A ALA* 2.8 33.1 + - - +
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Residues in contact with ILE 138 (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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98A THR* 5.6 0.4 - - + -
101A LEU* 4.0 33.7 - - + +
102A ILE* 4.0 22.6 - - + +
105A PRO* 5.3 2.7 - - + -
134A ASP 3.1 10.8 + - - +
135A VAL* 3.8 21.3 - - + +
136A VAL 3.2 0.4 - - - -
137A ALA* 1.3 78.2 - - - +
139A ASN* 1.3 62.8 + - - +
141A ALA* 3.4 2.9 + - - +
142A SER* 3.1 21.0 + - - -
156A ILE* 4.9 10.1 - - + +
158A GLY* 3.9 24.9 - - - +
185A VAL* 4.2 19.5 - - + -
187A ALA* 4.8 9.0 - - + -
200A MSE 4.3 4.7 - - + -
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Residues in contact with ASN 139 (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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22A ILE* 5.1 4.1 - - + +
24A PHE* 3.7 21.1 - - + -
39A ALA* 5.2 0.2 - - + -
135A VAL 2.8 19.0 + - - -
136A VAL* 3.3 6.7 + - - +
137A ALA 3.3 0.4 - - - -
138A ILE* 1.3 73.2 - - - +
140A ALA* 1.3 61.6 + - - +
142A SER* 3.3 4.0 + - - -
143A ALA* 2.9 30.1 + - - +
156A ILE 4.5 0.2 - - - -
157A GLY* 3.5 9.2 - - - -
158A GLY 2.7 45.2 + - - +
171A PHE* 4.0 11.5 - - - -
239A LEU* 3.8 14.9 - - - +
243A GLN* 3.5 12.4 + - - +
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Residues in contact with ALA 140 (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 PHE* 4.9 0.7 - - - -
37A ALA* 4.3 4.6 - - - +
38A VAL 5.5 0.2 - - - -
39A ALA* 3.8 20.8 - - + +
47A VAL* 4.0 21.5 - - + +
49A SER* 3.2 24.5 - - - -
122A ALA* 5.8 0.2 - - + -
136A VAL 3.1 14.1 + - - +
137A ALA 3.6 6.3 - - - +
139A ASN* 1.3 76.5 - - - +
141A ALA* 1.3 62.7 + - - +
143A ALA* 3.4 5.5 + - - +
144A SER* 3.0 20.3 + - - -
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Residues in contact with ALA 141 (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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49A SER* 3.3 12.7 + - - +
102A ILE* 3.6 35.7 - - + -
106A LEU* 5.0 3.8 - - + -
120A VAL* 3.9 14.3 - - + +
122A ALA* 5.6 1.3 - - + -
137A ALA 2.8 16.6 + - - +
138A ILE 3.6 3.4 - - - +
140A ALA* 1.3 76.4 - - - +
142A SER* 1.3 59.2 + - - +
144A SER* 3.2 8.1 + - - -
145A THR* 2.7 27.9 + - - -
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Residues in contact with SER 142 (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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106A LEU* 4.5 12.9 - - - +
138A ILE 3.1 12.5 + - - -
139A ASN 3.5 5.2 - - - -
141A ALA* 1.3 77.2 - - - +
143A ALA* 1.3 58.2 + - - +
145A THR* 3.1 4.5 + - - -
146A GLN* 2.8 27.9 + - - +
152A PHE* 4.0 5.4 - - - -
155A PRO* 3.8 3.1 - - - +
156A ILE* 2.8 45.3 + - - +
243A GLN* 2.7 20.4 + - - -
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Residues in contact with ALA 143 (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 PHE* 4.1 18.4 - - + -
37A ALA* 3.6 20.6 - - + -
139A ASN 2.9 17.6 + - - +
140A ALA* 3.7 2.2 - - - +
142A SER* 1.3 75.2 - - - +
144A SER* 1.3 64.6 + - - +
146A GLN* 3.1 7.2 + - - +
147A LEU* 3.0 26.9 + - - +
243A GLN* 3.2 15.6 + - + +
246A LEU* 4.6 8.3 - - + -
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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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35A GLY* 3.3 21.7 - - - +
36A SER 4.1 5.2 - - - +
37A ALA* 3.6 10.9 - - - +
49A SER* 2.8 45.9 + - - -
51A THR* 2.7 24.1 + - - -
140A ALA 3.0 8.0 + - - -
141A ALA 3.2 4.9 + - - -
143A ALA* 1.3 77.0 - - - +
145A THR* 1.3 61.9 + - - +
147A LEU* 3.4 1.0 + - - -
148A ALA* 3.1 17.7 + - - +
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Residues in contact with THR 145 (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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51A THR* 3.0 19.8 + - + -
106A LEU* 4.1 5.9 - - + +
110A PHE* 3.8 31.2 - - + -
120A VAL* 3.8 10.9 - - - +
141A ALA 2.7 21.7 + - - -
142A SER* 3.1 6.1 + - - -
144A SER* 1.3 75.8 + - - +
146A GLN* 1.3 66.8 + - - +
148A ALA* 3.1 14.6 + - - +
149A GLY 4.0 2.3 + - - -
150A LEU* 4.1 15.7 + - + -
152A PHE* 3.7 25.4 - - + -
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Residues in contact with GLN 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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142A SER 2.8 13.0 + - - +
143A ALA* 3.4 12.6 - - - +
145A THR* 1.3 76.1 - - - +
147A LEU* 1.3 62.8 + - + +
148A ALA 3.3 0.7 + - - -
149A GLY* 3.4 10.9 + - - -
150A LEU 4.7 1.4 + - - +
152A PHE* 3.6 15.5 + - + -
154A GLY* 3.1 40.4 + - - +
155A PRO* 3.3 16.1 - - + +
243A GLN* 5.2 4.0 - - + +
244A ALA* 6.2 0.2 - - - -
247A ALA* 3.9 26.9 - - + +
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Residues in contact with LEU 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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26A THR* 3.3 21.8 - - + +
34A ALA 3.6 1.0 - - - +
35A GLY* 4.1 1.8 - - - -
36A SER 3.2 26.2 - - - +
37A ALA* 4.1 7.2 - - + -
143A ALA 3.0 20.3 + - - +
144A SER 3.7 5.2 - - - +
146A GLN* 1.3 73.7 - - + +
148A ALA* 1.3 58.8 + - - +
149A GLY 3.1 6.9 + - - -
246A LEU* 4.1 8.1 - - + +
247A ALA* 3.7 34.8 - - + +
250A ALA* 3.8 20.4 - - + -
252A LYS* 2.9 46.5 - - + +
253A PRO 5.1 0.2 - - - +
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Residues in contact with ALA 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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34A ALA* 3.3 29.2 - - + +
35A GLY 3.7 12.8 - - - +
51A THR* 4.1 11.4 - - + -
144A SER 3.1 11.9 + - - +
145A THR 3.1 13.4 + - - +
147A LEU* 1.3 76.4 - - - +
149A GLY* 1.3 62.9 + - - +
150A LEU* 3.4 14.6 + - + +
253A PRO 4.7 3.1 - - - +
255A GLY 5.2 1.0 + - - -
257A PHE* 4.3 9.9 - - - -
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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