Contacts of the helix formed by residues 191 - 212 (chain E) in PDB entry 2VUU
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 ASP 191 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154E ASN* 3.1 28.3 + - - +
155E ASN* 5.8 3.1 - - - +
190E LEU* 1.3 78.0 - - - +
192E ALA* 1.3 55.8 + - - +
193E GLU* 4.1 2.9 + - - +
194E HIS* 3.3 10.6 + - + +
195E ASP* 2.7 54.0 + - - +
196E VAL 3.9 0.2 + - - -
220E PHE* 5.0 0.8 - - - -
329E ARG* 2.9 50.4 + - - +
334E TYR* 3.7 13.8 - - - +
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Residues in contact with ALA 192 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16E ARG* 3.8 33.0 - - + +
20E SER* 3.3 2.6 + - - -
153E TYR* 4.0 30.8 - - + +
154E ASN 5.3 0.2 - - - +
155E ASN* 5.2 2.2 - - - +
190E LEU* 3.5 7.9 + - - +
191E ASP* 1.3 69.9 + - - +
193E GLU* 1.3 64.8 + - - +
196E VAL* 3.0 43.1 + - + +
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Residues in contact with GLU 193 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16E ARG* 4.4 25.6 - - + +
20E SER* 2.5 27.2 + - - -
23E ARG* 4.8 14.9 + - - +
43E ILE* 5.5 5.0 - - - +
155E ASN* 5.0 11.0 + - - +
191E ASP* 3.5 4.7 + - - +
192E ALA* 1.3 78.8 - - - +
194E HIS* 1.3 61.1 + - - +
198E PRO* 5.1 0.3 - - - +
329E ARG* 4.8 8.3 + - - +
342E GLU* 5.7 1.7 - - - +
710M SER* 2.8 33.3 + - - +
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Residues in contact with HIS 194 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191E ASP* 3.3 23.0 + - - +
193E GLU* 1.3 82.9 - - - +
195E ASP* 1.3 77.1 + - - +
198E PRO* 3.4 21.1 - - - +
325E TRP* 4.5 2.6 + + - -
327E GLY 3.1 25.6 - - - -
328E TRP 4.2 0.4 - - - -
329E ARG* 3.1 53.0 - - + +
333E GLU* 4.4 7.8 + - - -
695M ALA* 3.5 19.9 - - + +
707M ARG* 3.9 31.2 + - - +
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Residues in contact with ASP 195 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
190E LEU* 4.4 0.7 - - + -
191E ASP* 2.7 36.9 + - - +
194E HIS* 1.3 98.5 + - - +
196E VAL* 1.3 62.7 + - - +
197E GLY 3.4 2.2 - - - -
198E PRO* 3.5 2.1 - - - +
199E ALA* 3.3 25.1 + - - +
220E PHE* 3.6 26.2 - - + +
325E TRP* 3.1 14.4 + - + +
328E TRP* 2.9 23.2 - - - +
329E ARG 3.0 19.9 + - - +
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Residues in contact with VAL 196 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17E GLN* 3.5 42.6 - - + +
20E SER* 4.0 2.0 - - - -
78E PHE* 4.9 0.7 - - + -
150E ALA* 6.1 0.2 - - + -
190E LEU* 4.0 22.7 - - + -
191E ASP 3.9 0.4 + - - -
192E ALA* 3.0 36.8 + - + +
195E ASP* 1.3 75.1 - - - +
197E GLY* 1.3 67.4 + - - +
199E ALA* 4.1 3.0 - - - +
200E LEU* 3.1 43.0 + - + +
218E LEU* 4.7 13.7 - - + -
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Residues in contact with GLY 197 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20E SER* 3.1 16.0 + - - -
21E LEU* 3.5 32.1 - - - +
24E VAL* 4.4 6.3 - - - -
196E VAL* 1.3 77.1 - - - +
198E PRO* 1.3 69.1 - - - +
200E LEU* 3.8 1.9 - - - +
201E LEU* 3.0 24.2 + - - +
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Residues in contact with PRO 198 (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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20E SER* 4.4 1.3 - - - +
24E VAL* 4.3 19.5 - - + -
193E GLU 5.1 0.4 - - - +
194E HIS 3.4 26.5 - - - +
195E ASP 3.5 5.2 - - - +
197E GLY* 1.3 88.9 - - - +
199E ALA* 1.3 63.1 + - - +
201E LEU* 3.0 23.4 - - + +
202E GLN* 3.0 9.5 + - - +
325E TRP* 3.4 44.2 - - + +
699M PHE* 4.6 10.8 - - + -
703M HIS* 5.1 3.6 + - - +
707M ARG* 5.7 3.8 - - + -
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Residues in contact with ALA 199 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
195E ASP 3.3 16.9 + - - +
196E VAL 4.1 2.0 - - - +
198E PRO* 1.3 75.7 - - - +
200E LEU* 1.3 66.9 + - - +
202E GLN* 3.0 9.0 + - - +
203E ILE* 2.9 25.4 + - - +
218E LEU* 3.9 27.1 - - + -
220E PHE* 4.2 11.9 - - + -
324E LEU* 4.8 10.6 - - + +
325E TRP* 4.2 11.6 - - + +
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Residues in contact with LEU 200 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21E LEU* 4.1 21.1 - - + -
78E PHE* 3.4 58.6 - - + -
109E ILE* 3.8 25.5 - - + +
148E VAL* 4.2 14.6 - - + -
196E VAL* 3.1 33.4 + - + +
197E GLY 3.8 2.7 - - - +
199E ALA* 1.3 77.5 - - - +
201E LEU* 1.3 56.5 + - - +
203E ILE* 3.1 8.5 + - + +
204E PHE* 2.9 37.5 + - + -
218E LEU* 5.0 5.4 - - + +
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Residues in contact with LEU 201 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8E ILE* 6.2 1.3 - - + -
21E LEU* 4.7 5.8 - - + +
24E VAL* 3.1 35.0 - - + -
25E ALA* 5.0 6.1 - - + +
28E VAL* 4.4 7.9 - - + -
30E HIS* 4.1 28.9 - - + +
197E GLY 3.0 10.1 + - - +
198E PRO 3.0 11.7 - - - +
200E LEU* 1.3 76.9 - - - +
202E GLN* 1.3 57.8 + - - +
204E PHE* 3.2 10.8 + - + +
205E LYS* 2.8 33.4 + - + +
699M PHE* 3.9 4.3 - - + -
703M HIS* 3.4 37.0 - - + +
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Residues in contact with GLN 202 (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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198E PRO 3.0 7.8 + - - +
199E ALA 3.0 9.8 + - - +
201E LEU* 1.3 76.9 - - - +
203E ILE* 1.3 61.5 + - - +
205E LYS* 3.3 31.5 + - - +
206E ASP* 2.8 57.1 + - - +
323E LYS 5.4 0.4 - - - +
324E LEU* 3.1 47.1 + - + +
702M LEU* 4.7 14.3 - - - +
703M HIS* 4.8 4.4 + - - -
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Residues in contact with ILE 203 (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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107E HIS* 3.7 19.1 - - + +
109E ILE* 3.3 24.9 - - + -
146E THR* 4.6 5.2 - - + -
148E VAL* 4.0 22.7 - - + -
199E ALA* 2.9 19.2 + - + +
200E LEU* 3.5 9.9 - - - +
202E GLN* 1.3 74.3 - - - +
204E PHE* 1.3 65.7 + - - +
206E ASP* 3.2 4.2 + - - +
207E GLY 3.1 16.5 + - - -
211E TRP* 3.9 16.8 - - + +
216E ILE* 3.6 27.1 - - + -
218E LEU* 5.4 1.6 - - + -
324E LEU* 3.7 28.5 - - + -
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Residues in contact with PHE 204 (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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8E ILE* 4.4 24.9 - - + -
21E LEU* 4.5 18.2 - - + -
30E HIS* 6.1 3.4 - - + -
76E LEU* 3.8 34.4 - - + +
77E ALA 3.2 28.5 - - - -
78E PHE* 4.3 2.5 - - + -
107E HIS* 3.6 32.6 + - + +
109E ILE* 3.4 30.1 - - + -
200E LEU* 2.9 25.2 + - + -
201E LEU* 3.6 11.4 - - + +
203E ILE* 1.3 76.7 - - - +
205E LYS* 1.3 63.7 + - - +
207E GLY* 3.1 14.0 + - - -
208E PRO* 5.3 0.2 - - - +
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Residues in contact with LYS 205 (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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3E GLN 5.8 6.5 + - - +
201E LEU* 2.8 20.3 + - + +
202E GLN* 3.6 29.5 - - - +
204E PHE* 1.3 74.7 - - - +
206E ASP* 1.3 64.2 + - - +
207E GLY* 3.3 1.0 + - - -
702M LEU* 3.4 24.2 + - - +
703M HIS* 3.2 34.1 + - + +
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Residues in contact with ASP 206 (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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202E GLN* 2.8 39.4 + - - +
203E ILE 3.2 0.4 + - - +
205E LYS* 1.3 76.6 - - - +
207E GLY* 1.3 62.2 + - - +
209E GLN* 3.9 12.7 + - - +
210E LYS* 3.4 25.2 - - + +
211E TRP* 2.8 38.9 + - + +
324E LEU* 3.6 13.9 - - - +
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Residues in contact with GLY 207 (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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107E HIS* 3.7 10.6 - - - -
203E ILE 3.1 3.6 + - - -
204E PHE 3.1 17.1 + - - -
205E LYS 3.1 1.3 - - - -
206E ASP* 1.3 80.6 - - - +
208E PRO* 1.3 75.3 - - - +
209E GLN* 3.1 12.3 - - - -
210E LYS 3.3 7.6 + - - -
211E TRP* 3.4 11.1 + - - -
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Residues in contact with PRO 208 (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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106E GLN* 3.6 29.2 - - + +
107E HIS* 3.4 29.6 - - + +
144E PRO* 4.4 2.2 - - + -
207E GLY* 1.3 79.5 - - - +
209E GLN* 1.3 75.2 + - - +
210E LYS 2.9 8.0 + - - -
211E TRP 3.7 0.2 - - - -
212E ASN* 2.6 55.1 + - - +
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Residues in contact with GLN 209 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206E ASP 3.9 12.9 + - - +
207E GLY* 3.9 14.5 - - - -
208E PRO* 1.3 94.5 - - - +
210E LYS* 1.3 58.2 + - + +
212E ASN* 5.4 0.2 - - - -
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Residues in contact with LYS 210 (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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206E ASP* 3.4 27.1 - - + +
207E GLY 3.3 8.4 + - - +
208E PRO 2.9 0.4 - - - -
209E GLN* 1.3 82.8 - - + +
211E TRP* 1.3 100.6 + - + +
212E ASN 3.7 1.1 - - - -
214E HIS* 3.6 17.8 + - - -
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Residues in contact with TRP 211 (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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107E HIS* 4.4 3.4 - - + -
146E THR* 2.3 38.0 + - + +
203E ILE* 3.9 13.2 - - + +
206E ASP* 2.8 40.0 + - + +
207E GLY 3.4 10.5 + - - +
208E PRO* 3.1 2.9 + - - -
210E LYS* 1.3 110.1 - - + +
212E ASN* 1.3 63.0 + - - +
214E HIS* 3.1 36.5 + + - +
216E ILE* 3.4 28.0 - - + -
320E GLU* 3.7 37.2 - - + -
323E LYS* 6.4 3.1 - - + -
324E LEU* 3.7 27.8 - - + +
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Residues in contact with ASN 212 (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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143E LEU 4.5 1.8 + - - -
144E PRO* 3.3 26.3 - - - +
145E SER* 3.1 23.2 + - - +
146E THR* 4.2 0.2 - - - -
208E PRO* 2.6 32.0 + - - +
209E GLN* 5.4 0.2 - - - -
210E LYS 3.7 1.6 - - - -
211E TRP* 1.3 70.9 - - - +
213E GLY* 1.3 73.0 + - - +
214E HIS* 3.2 12.5 + - - -
214F HIS* 4.2 4.5 + - - -
280F PRO 5.2 0.5 - - - -
281F GLU* 4.1 44.7 + - + +
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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