Contacts of the strand formed by residues 206 - 214 (chain E) in PDB entry 6CNC
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 206 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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918A GLY 5.3 2.7 + - - +
1000A ALA* 5.8 1.8 - - - -
1003A ASP* 4.5 7.9 - - - -
202E SER 2.9 21.8 + - - +
203E GLU* 4.5 13.2 - - - +
204E THR* 3.6 8.1 + - - +
205E SER* 1.3 81.4 - - - +
207E ARG* 1.3 66.0 + - - -
208E TYR* 3.8 12.6 - - - -
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Residues in contact with ARG 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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918A GLY 4.7 2.1 - - - +
990A ASN* 5.2 3.8 + - - +
992A ALA* 3.3 35.7 + - - +
995A VAL* 3.9 19.9 - - + +
999A ASP* 4.3 32.0 + - + +
1000A ALA* 4.4 7.6 + - - -
1003A ASP* 4.4 19.0 + - - +
199E ILE* 5.0 4.4 - - + +
200E ARG 4.0 6.7 - - - +
201E LYS* 3.7 42.6 - - + +
203E GLU* 5.4 6.1 - - - +
206E GLY* 1.3 73.6 - - - -
208E TYR* 1.3 66.6 + - - +
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Residues in contact with TYR 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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913A GLN* 4.1 14.4 + - + -
915A THR* 4.1 11.7 - - + -
917A GLY 4.4 4.0 - - - -
918A GLY* 3.3 43.3 - - - +
995A VAL* 4.9 10.1 - - - +
997A GLN* 5.5 9.6 - - - +
999A ASP* 5.8 2.0 - - - -
1000A ALA 6.1 0.7 - - - +
1332A ARG* 4.1 5.7 + - - -
1356A GLN* 4.4 16.4 + - - -
199E ILE* 3.8 2.8 - - - +
200E ARG* 2.8 83.9 + - + +
202E SER* 5.4 6.7 - - - -
204E THR* 5.2 2.5 - - - -
206E GLY 3.8 11.0 - - - -
207E ARG* 1.3 81.8 - - - +
209E ALA* 1.3 82.1 + - - +
210E SER* 5.0 1.1 - - - -
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Residues in contact with ALA 209 (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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914A PHE* 4.9 5.5 - - - +
915A THR* 4.7 7.6 - - - +
995A VAL* 3.5 31.8 - - + +
996A ASP* 4.9 3.4 - - - +
997A GLN* 5.4 5.6 + - - +
197E LYS* 4.8 7.6 - - + -
198E ILE 3.2 14.4 - - - +
199E ILE* 4.0 6.3 - - + -
200E ARG 4.4 0.7 - - - +
208E TYR* 1.3 91.4 - - - +
210E SER* 1.3 63.2 + - - +
211E TYR* 5.0 8.4 - - + +
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Residues in contact with SER 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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912A VAL 5.9 1.3 - - - -
913A GLN* 6.0 1.6 - - - -
914A PHE* 3.6 25.1 - - - -
1329A GLU* 4.7 0.2 + - - -
176E PRO* 6.1 0.7 - - - -
197E LYS* 4.8 0.2 - - - +
198E ILE* 2.8 36.4 + - - +
200E ARG* 2.5 42.6 + - - +
208E TYR* 5.0 1.1 - - - -
209E ALA* 1.3 75.3 - - - +
211E TYR* 1.3 70.0 + - - +
212E ARG* 5.3 2.9 + - - +
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Residues in contact with TYR 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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914A PHE* 3.0 46.5 - + + -
996A ASP* 4.4 17.9 + - - +
156E LEU* 4.3 8.1 - - + -
164E LEU* 3.6 46.4 - - + +
167E ARG* 5.7 1.2 + - - -
168E TYR* 4.6 11.0 - + - -
175E LEU* 5.7 3.8 - - + -
176E PRO* 3.7 9.9 - - - +
195E VAL* 4.6 5.8 - - + -
196E VAL 3.7 3.1 - - - +
197E LYS* 3.4 56.1 - - + +
209E ALA* 5.0 7.9 - - + +
210E SER* 1.3 81.3 - - - +
212E ARG* 1.3 68.5 + - - +
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Residues in contact with ARG 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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1328A ILE* 4.0 14.6 - - - +
1329A GLU* 2.8 26.2 + - - +
1332A ARG* 4.4 11.1 - - - +
1360A ASP* 4.5 5.1 + - - -
1363A THR* 3.3 30.1 + - - +
1364A TYR 3.7 8.3 + - - -
175E LEU* 5.7 2.5 - - - -
176E PRO* 3.4 27.5 - - + +
177E ARG 3.5 17.4 + - - -
178E ILE* 3.5 34.1 - - + -
195E VAL* 3.5 6.0 - - - +
196E VAL* 2.9 39.1 + - + +
198E ILE* 3.7 15.9 - - + -
200E ARG* 4.7 5.0 - - - +
210E SER* 5.4 2.2 - - - +
211E TYR* 1.3 80.6 - - - +
213E ILE* 1.3 61.3 + - - +
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Residues in contact with ILE 213 (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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161E LYS* 5.3 1.8 - - + +
172E GLU* 3.7 37.5 - - + +
173E SER* 4.6 6.1 - - - +
175E LEU* 4.1 29.2 - - + +
176E PRO 3.0 16.1 + - - +
177E ARG* 3.3 19.4 - - + +
178E ILE* 2.5 37.2 + - - +
193E GLY* 4.6 2.5 - - - -
194E GLU 3.1 21.8 - - - +
195E VAL* 4.3 9.4 - - + -
196E VAL* 5.5 1.1 - - - -
212E ARG* 1.3 75.4 - - - +
214E CYS* 1.3 64.3 + - - +
215E MET* 5.1 9.6 - - + -
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Residues in contact with CYS 214 (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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178E ILE* 3.2 7.2 - - + -
180E ARG* 3.6 40.6 - - - -
185E ALA* 5.0 2.0 - - - -
190E LEU* 3.5 36.1 - - + +
191E LYS 3.6 22.7 - - - +
192E ARG* 4.3 1.4 - - - -
193E GLY* 2.8 32.4 + - - -
194E GLU 2.9 13.8 + - - +
213E ILE* 1.3 72.9 - - - +
215E MET* 1.3 59.6 + - - +
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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
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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