Contacts of the strand formed by residues 192 - 202 (chain A) in PDB entry 6CQT
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 192 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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111A PRO* 4.5 3.9 - - - +
112A THR 3.3 9.0 - - - -
114A VAL* 3.9 8.1 - - - -
145A VAL* 3.8 14.0 - - - +
187A VAL* 3.0 19.9 + - - -
188A ALA* 3.2 21.3 - - - +
190A PHE 3.4 2.4 + - - -
191A GLY* 1.3 80.6 - - - +
193A ASP* 1.3 60.9 + - - -
194A PRO* 3.3 4.2 - - - +
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Residues in contact with ASP 193 (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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111A PRO* 3.6 27.1 - - + +
112A THR 2.6 23.7 + - - +
113A PRO* 4.4 1.8 - - + -
114A VAL* 3.6 7.7 - - - +
187A VAL* 4.2 0.2 - - - -
192A GLY* 1.3 71.7 - - - -
194A PRO* 1.3 63.0 - - - +
195A THR* 2.6 48.0 + - - +
196A SER* 3.0 38.2 + - - +
197A VAL* 3.8 0.2 - - - +
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Residues in contact with PRO 194 (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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111A PRO* 5.6 1.3 - - + -
184A GLN* 2.8 63.8 + - - +
187A VAL* 3.9 13.2 - - + -
188A ALA* 4.3 14.4 - - + -
192A GLY 3.3 10.8 - - - +
193A ASP* 1.3 88.5 - - - +
195A THR* 1.3 61.5 + - + +
196A SER 3.2 1.8 - - - -
197A VAL* 3.6 6.5 - - + +
223A HIS* 3.1 10.2 - - - -
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Residues in contact with THR 195 (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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193A ASP* 2.6 33.6 + - - +
194A PRO* 1.3 76.9 - - + +
196A SER* 1.3 56.1 + - - -
223A HIS* 3.1 29.3 + - - -
224A ARG* 5.7 0.2 + - - -
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Residues in contact with SER 196 (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 PRO* 3.7 20.9 - - - +
114A VAL 2.9 24.3 + - - +
193A ASP* 3.0 26.3 + - - +
195A THR* 1.3 80.5 - - - +
197A VAL* 1.3 59.0 + - - +
198A THR* 4.2 1.3 - - - -
223A HIS* 3.7 3.1 - - - -
224A ARG* 4.2 9.3 + - - +
484A ALA 3.7 14.2 + - - -
485A ARG 4.6 4.9 + - - -
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Residues in contact with VAL 197 (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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114A VAL* 3.5 12.3 - - + +
116A VAL* 3.8 27.8 - - + -
180A LEU* 5.4 1.8 - - + -
183A VAL* 4.3 11.7 - - + -
184A GLN* 3.7 11.2 - - - +
193A ASP 3.8 7.0 - - - +
194A PRO* 3.6 22.9 - - + +
196A SER* 1.3 76.8 - - - +
198A THR* 1.3 63.0 + - - +
199A LEU* 4.3 5.6 - - + -
221A LEU 4.0 3.8 - - - +
222A PHE* 3.5 20.8 - - + +
223A HIS* 2.8 40.4 + - - +
224A ARG* 3.3 4.4 + - - +
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Residues in contact with THR 198 (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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114A VAL 2.8 13.0 + - - -
115A LEU* 3.3 19.1 - - + +
116A VAL 2.8 24.9 + - - -
196A SER 5.2 0.3 - - - -
197A VAL* 1.3 72.1 + - - +
199A LEU* 1.3 74.0 + - - +
200A PHE 3.8 0.5 + - - -
224A ARG* 3.3 29.9 + - + +
226A VAL* 4.0 16.6 - - + -
480A TRP 5.8 0.2 - - - +
483A PHE* 4.2 7.9 - - + -
484A ALA* 3.3 31.7 + - + +
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Residues in contact with LEU 199 (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 VAL* 3.5 21.1 - - + +
118A ILE* 4.8 5.4 - - + -
180A LEU* 3.4 40.6 - - + -
197A VAL* 4.3 1.1 - - + -
198A THR* 1.3 75.5 - - - +
200A PHE* 1.3 61.7 + - - +
209A VAL* 4.0 23.1 - - + -
212A HIS* 4.2 15.0 - - + -
222A PHE* 3.6 52.3 - - + -
224A ARG 2.9 9.8 + - - +
225A ALA* 3.3 1.9 - - - -
226A VAL 2.7 24.9 + - - -
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Residues in contact with PHE 200 (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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115A LEU* 3.8 22.4 - - + -
116A VAL 2.9 21.6 + - - +
117A TRP* 3.3 48.0 - + + -
118A ILE* 2.9 23.9 + - - +
138A LEU* 4.3 12.3 - - + -
146A LEU* 3.8 20.9 - - + -
199A LEU* 1.3 76.5 - - - +
201A GLY* 1.3 58.8 + - - +
209A VAL* 4.0 5.1 - - - +
226A VAL* 3.3 28.9 - - + -
228A GLN* 3.6 14.8 - - - +
454A ILE* 4.3 12.1 - - + -
455A PHE* 3.8 20.6 - + - -
480A TRP* 3.9 12.8 - + - -
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Residues in contact with GLY 201 (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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117A TRP* 3.6 8.9 - - - -
118A ILE 3.2 16.2 - - - -
200A PHE* 1.3 77.1 - - - +
202A GLU* 1.3 60.6 + - - -
205A GLY 3.7 11.4 - - - -
206A ALA* 3.4 9.8 - - - +
209A VAL* 3.9 1.2 - - - +
226A VAL 3.3 5.9 + - - +
228A GLN* 3.0 27.9 + - - +
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Residues in contact with GLU 202 (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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86A TRP* 5.8 1.0 - - - -
117A TRP* 3.6 20.9 - - + -
118A ILE 3.6 5.1 + - - -
120A GLY* 3.1 18.5 + - - +
133A TYR* 5.2 1.4 + - - -
201A GLY* 1.3 74.9 - - - +
203A SER* 1.3 76.4 + - - +
205A GLY 2.8 19.6 + - - -
206A ALA 3.4 1.7 - - - +
228A GLN* 3.2 12.3 - - + +
229A SER* 4.1 2.3 - - - -
447A HIS* 3.0 27.6 + - - -
448A GLY* 3.5 16.4 + - - -
450A GLU* 3.5 23.5 - - - +
451A ILE* 3.6 22.3 - - + +
607A VX 5.8 0.5 - - - +
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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