Contacts of the helix formed by residues 146 - 164 (chain E) in PDB entry 3Q3G
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 ILE 146 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105B GLY* 5.6 8.5 - - - +
143E GLY 5.3 0.9 - - - -
144E SER 3.3 11.6 + - - +
145E ILE* 1.3 73.0 - - - +
147E PRO* 1.4 77.6 - - + +
148E HIS* 3.8 37.5 - - + -
149E ASP* 3.0 36.8 + - - +
150E PHE* 3.0 10.0 + - - +
204E GLN* 4.6 0.2 - - - -
627E EDO 4.3 16.8 - - - +
146G ILE* 4.9 28.9 - - + -
148G HIS* 6.3 0.7 - - + +
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Residues in contact with PRO 147 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145E ILE 3.9 1.7 - - - +
146E ILE* 1.4 86.5 - - + +
148E HIS* 1.3 64.0 + - + +
150E PHE* 3.3 4.4 + - + +
151E ARG* 2.9 38.8 + - - +
204E GLN* 4.4 12.5 - - - +
146G ILE* 6.4 2.9 - - + -
147G PRO* 5.8 12.3 - - + -
148G HIS* 5.4 12.6 - - + -
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Residues in contact with HIS 148 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103D HIS 3.9 5.2 - - - -
104D TYR* 3.3 25.5 + - + +
105D GLY* 3.3 24.5 - - - -
146E ILE* 3.3 18.9 - - + -
147E PRO* 1.3 81.0 - - + +
149E ASP* 1.3 56.6 + - - +
151E ARG* 2.7 42.9 + - - +
152E ARG* 3.0 50.7 + - - +
627E EDO 3.8 6.3 - - - +
146G ILE* 5.5 6.8 - - + +
147G PRO* 5.9 4.8 - - - +
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Residues in contact with ASP 149 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
145E ILE* 3.8 10.6 - - + -
146E ILE* 3.0 32.1 + - + +
148E HIS* 1.3 73.6 - - - +
150E PHE* 1.3 63.1 + - - +
152E ARG* 2.8 26.4 + - - +
153E MET* 3.0 18.9 + - - +
301E ASN* 5.8 1.2 - - - +
302E PHE* 3.4 51.0 + - + +
303E GLU 4.8 0.5 + - - -
627E EDO 4.4 4.7 + - - -
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Residues in contact with PHE 150 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139E ILE* 3.9 19.1 - - + -
140E ASP 4.2 2.2 - - - -
141E GLY* 4.0 4.9 - - - -
145E ILE* 3.5 7.9 - - + +
146E ILE 3.0 8.7 + - - +
147E PRO* 3.7 8.5 - - + +
149E ASP* 1.3 75.4 - - - +
151E ARG* 1.4 57.2 + - - +
153E MET* 3.4 21.8 + - + +
154E LYS* 3.0 47.9 + - + +
175E GLN* 3.6 35.9 - - - -
202E ILE* 3.8 25.4 - - + -
204E GLN* 3.6 55.4 - - + +
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Residues in contact with ARG 151 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
710C GOL 4.4 9.9 + - - +
103D HIS 3.9 4.2 + - - -
104D TYR* 3.3 34.0 - - - -
147E PRO* 2.9 22.6 + - - +
148E HIS* 2.7 48.1 + - - +
150E PHE* 1.4 74.1 - - - +
152E ARG* 1.4 59.6 + - + +
154E LYS* 3.1 17.8 + - + +
155E GLU* 2.9 41.7 + - - +
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Residues in contact with ARG 152 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104D TYR* 4.5 3.4 + - - +
106D TYR* 2.7 35.4 + - - -
148E HIS* 3.0 30.7 + - - +
149E ASP* 2.8 32.2 + - - +
151E ARG* 1.4 74.6 - - + +
153E MET* 1.3 56.9 + - - +
155E GLU* 3.3 8.8 - - - +
156E PHE* 2.9 27.4 + - - +
302E PHE* 3.8 12.7 - - + +
303E GLU* 3.5 53.1 + - - +
305E LEU* 4.7 2.9 - - - +
627E EDO 2.9 30.3 + - - -
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Residues in contact with MET 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139E ILE* 3.9 22.7 - - + -
140E ASP* 3.3 26.0 - - - +
145E ILE* 4.8 2.5 - - + -
149E ASP 3.0 13.0 + - - +
150E PHE* 3.6 32.8 - - + +
151E ARG 3.3 0.4 - - - -
152E ARG* 1.3 73.6 - - - +
154E LYS* 1.4 58.4 + - - +
156E PHE* 3.3 7.1 + - + +
157E VAL* 2.9 29.3 + - - +
240E ILE* 3.6 48.0 - - + +
302E PHE* 4.0 20.2 - - + -
305E LEU* 4.1 5.8 - - + +
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Residues in contact with LYS 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139E ILE* 4.9 8.1 - - + -
150E PHE* 3.0 39.2 + - + +
151E ARG* 3.1 17.2 + - + +
153E MET* 1.4 75.1 - - - +
155E GLU* 1.3 58.1 + - - +
157E VAL* 3.4 4.9 + - - +
158E SER* 3.0 25.1 + - - -
199E VAL* 3.3 39.3 + - + +
200E LYS* 2.7 31.7 + - - +
202E ILE* 2.8 34.4 + - + +
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Residues in contact with GLU 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62C SER* 4.5 18.6 - - - +
710C GOL 2.8 37.5 + - - -
151E ARG* 2.9 22.6 + - - +
152E ARG* 3.3 13.6 - - - +
154E LYS* 1.3 74.2 - - - +
156E PHE* 1.4 57.6 + - - +
158E SER* 3.4 6.1 + - - -
159E THR* 3.0 35.4 + - - +
196E ARG* 3.7 18.1 + - - +
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Residues in contact with PHE 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137E PHE* 5.2 1.8 - + - -
152E ARG 2.9 15.0 + - - +
153E MET* 3.3 10.1 + - - +
155E GLU* 1.4 72.7 - - - +
157E VAL* 1.4 62.5 - - + +
159E THR* 3.4 1.1 + - - -
160E VAL* 3.0 40.8 + - + +
238E VAL* 5.1 1.1 - - + -
240E ILE* 4.0 21.1 - - + -
269E ILE* 3.7 25.4 - - + -
305E LEU* 3.2 50.3 - - + -
306E LYS* 5.2 0.2 - - - -
308E ILE* 4.3 4.9 - - + -
309E GLN* 3.3 40.1 + - - +
312E LEU* 3.7 25.6 - - + -
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Residues in contact with VAL 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137E PHE* 3.8 28.4 - - + -
139E ILE* 3.9 17.0 - - + -
153E MET 2.9 24.1 + - - +
154E LYS* 3.4 6.5 + - - +
156E PHE* 1.4 71.0 - - - +
158E SER* 1.4 61.4 + - - +
160E VAL* 3.4 5.3 + - - +
161E MET* 3.0 39.9 + - - +
173E LEU* 3.8 24.7 - - + -
199E VAL* 4.5 4.7 - - + -
240E ILE* 3.8 26.9 - - + -
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Residues in contact with SER 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154E LYS 3.0 13.9 + - - -
155E GLU* 3.4 6.9 + - - -
157E VAL* 1.4 75.2 - - - +
159E THR* 1.4 56.8 + - - +
161E MET* 3.3 5.2 + - - +
162E GLU* 3.0 34.1 + - - +
195E PRO* 3.9 7.6 - - - +
196E ARG* 3.5 40.5 + - - +
199E VAL* 3.4 28.9 - - - +
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Residues in contact with THR 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62C SER* 4.2 7.3 + - - -
63C GLY* 6.0 4.0 - - - +
155E GLU* 3.0 18.2 + - - +
156E PHE* 4.7 0.2 - - - -
158E SER* 1.4 73.0 - - - +
160E VAL* 1.3 56.8 + - - +
162E GLU* 3.2 11.6 + - + +
163E GLN* 2.9 47.1 + - + +
196E ARG* 3.2 17.2 + - - +
309E GLN* 3.5 34.0 + - - +
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Residues in contact with VAL 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137E PHE* 3.7 24.5 - - + -
156E PHE* 3.0 41.7 + - + +
157E VAL* 3.9 4.5 - - - +
159E THR* 1.3 74.4 - - - +
161E MET* 1.3 56.8 + - - +
163E GLN* 4.0 5.7 - - - +
164E LEU* 3.1 47.0 + - + +
238E VAL* 5.7 1.1 - - + -
309E GLN* 3.4 26.2 - - + +
312E LEU* 4.2 18.6 - - + -
313E ARG* 5.9 3.8 - - + +
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Residues in contact with MET 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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137E PHE* 3.9 8.1 - - + -
157E VAL* 3.0 30.8 + - - +
158E SER 3.5 5.4 - - - +
160E VAL* 1.3 77.2 - - - +
162E GLU* 1.4 60.4 + - - +
164E LEU 3.6 0.3 + - - -
165E LYS* 3.3 21.1 + - - +
171E PHE* 3.7 49.9 - - + -
184E PHE* 4.0 23.6 - - + -
189E PHE* 3.4 35.7 - - + -
195E PRO* 3.8 28.0 - - + +
198E LEU* 4.7 0.4 - - + -
199E VAL* 4.5 5.8 - - - -
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Residues in contact with GLU 162 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158E SER 3.0 16.9 + - - +
159E THR* 3.2 10.1 + - + +
161E MET* 1.4 76.6 - - - +
163E GLN* 1.3 60.9 + - + +
165E LYS* 3.4 23.3 - - + +
195E PRO* 3.8 20.3 - - + +
196E ARG* 2.8 56.2 + - - +
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Residues in contact with GLN 163 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159E THR* 2.9 39.3 + - + +
160E VAL* 4.1 6.7 - - - +
161E MET 3.4 0.2 - - - -
162E GLU* 1.3 77.8 - - + +
164E LEU* 1.4 57.8 + - - +
165E LYS* 3.3 3.3 + - - +
309E GLN* 3.9 19.3 - - - +
310E ASN* 5.5 1.6 + - - -
313E ARG* 2.8 51.2 + - + +
317E PHE* 3.8 15.4 - - - -
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Residues in contact with LEU 164 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135E ILE* 4.4 13.2 - - + -
160E VAL* 3.1 39.5 + - + +
161E MET 3.6 2.4 + - - -
162E GLU 3.5 0.4 - - - -
163E GLN* 1.4 75.2 - - - +
165E LYS* 1.4 62.1 + - - +
166E LYS* 3.1 22.2 + - - -
169E THR* 3.5 9.0 - - - +
171E PHE* 3.8 15.9 - - + -
238E VAL* 6.4 0.4 - - + -
313E ARG* 3.7 29.2 - - + +
316E ILE* 3.8 37.5 - - + -
317E PHE* 3.5 27.8 - - + -
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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
------------------------------------------------------------
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