Contacts of the strand formed by residues 210 - 221 (chain B) in PDB entry 6CU0
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 GLN 210 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133B LEU 3.6 1.4 - - - +
134B VAL* 3.5 2.6 - - - -
135B VAL* 2.9 32.6 + - + +
167B LEU* 3.9 30.6 - - + +
168B GLN 3.3 20.1 - - - +
169B PRO* 3.4 25.4 + - - +
205B HIS 4.9 1.4 + - - -
206B LEU* 4.4 10.7 - - + +
207B SER* 3.2 50.9 + - - +
208B ALA 3.3 2.0 - - - -
209B GLY* 1.3 75.7 - - - +
211B ARG* 1.3 60.5 + - - +
212B LEU* 4.2 15.7 - - + -
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Residues in contact with ARG 211 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132B GLU* 3.7 32.1 - - + +
133B LEU 3.2 7.9 - - - +
134B VAL* 4.5 10.5 - - + +
166B HIS 3.9 0.2 - - - +
168B GLN* 2.9 46.4 + - + +
209B GLY 3.6 3.9 + - - +
210B GLN* 1.3 73.1 - - - +
212B LEU* 1.3 62.0 + - - +
213B GLY 3.9 1.2 + - - -
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Residues in contact with LEU 212 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132B GLU* 3.3 4.1 - - - -
133B LEU* 2.8 52.0 + - + +
135B VAL* 3.4 31.0 - - + -
143B VAL* 4.4 7.4 - - + -
165B LEU* 4.0 31.2 - - + -
166B HIS 3.8 4.9 - - - -
167B LEU* 3.7 15.7 - - + -
206B LEU* 4.2 13.7 - - + -
210B GLN* 3.8 14.4 - - + +
211B ARG* 1.3 72.8 - - - +
213B GLY* 1.3 57.8 + - - +
235B LEU* 5.1 6.0 - - + +
237B LEU* 3.7 26.0 - - + -
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Residues in contact with GLY 213 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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109B TRP* 5.8 0.7 - - - -
131B LYS 4.2 13.2 - - - -
132B GLU* 4.7 7.5 + - - +
164B ALA 3.8 0.5 - - - +
165B LEU* 3.5 3.0 - - - +
166B HIS* 2.8 38.7 + - - +
211B ARG 3.9 1.2 + - - -
212B LEU* 1.3 74.7 - - - +
214B VAL* 1.3 65.3 + - - -
215B HIS* 4.2 9.1 + - - -
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Residues in contact with VAL 214 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106B PRO* 3.4 6.8 - - - +
107B LEU* 3.0 44.8 + - + +
109B TRP* 3.6 32.5 - - + +
131B LYS 4.9 1.8 + - - -
145B PHE* 4.1 13.5 - - + -
163B LEU* 4.1 24.5 - - + -
164B ALA 3.4 8.5 - - - +
165B LEU* 3.7 19.3 - - + -
213B GLY* 1.3 76.2 - - - -
215B HIS* 1.3 65.9 + - - +
235B LEU* 3.8 13.7 - - + -
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Residues in contact with HIS 215 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105B GLY* 4.4 3.8 - - - -
106B PRO* 3.7 38.7 - - + +
162B SER 3.5 1.6 - - - +
163B LEU* 3.5 5.8 - - - -
164B ALA* 2.8 38.0 + - + +
166B HIS* 3.5 34.5 - + + +
213B GLY* 4.2 12.2 + - - -
214B VAL* 1.3 79.2 - - - +
216B LEU* 1.3 63.1 + - - +
217B HIS* 4.0 0.9 + - - +
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Residues in contact with LEU 216 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99B ASN* 5.9 0.2 - - + -
101B LEU 4.6 3.4 - - - +
102B LEU* 4.1 17.9 - - + -
103B ILE 3.8 30.1 - - - +
104B ASP* 3.4 3.6 - - - +
105B GLY* 3.1 38.1 + - - +
107B LEU* 3.8 24.6 - - + +
161B VAL* 3.5 28.0 - - + -
162B SER 3.3 4.7 - - - +
163B LEU* 3.5 23.8 - - + -
214B VAL 4.3 0.4 + - - -
215B HIS* 1.3 73.3 - - - +
217B HIS* 1.3 64.0 + - - +
218B THR* 4.7 2.0 - - + -
228B LEU* 4.6 12.1 - - + -
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Residues in contact with HIS 217 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104B ASP* 3.4 26.2 + - - +
161B VAL* 3.5 2.6 - - - +
162B SER* 2.7 53.5 + - - +
215B HIS 4.0 0.6 + - - +
216B LEU* 1.3 75.3 - - - +
218B THR* 1.3 83.6 + - - +
219B GLU* 4.4 4.2 + - + -
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Residues in contact with THR 218 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102B LEU* 4.1 37.9 - - + +
103B ILE 4.5 1.1 - - - +
104B ASP* 2.9 30.7 + - - +
160B SER 3.4 11.2 + - - -
161B VAL* 4.2 14.4 - - - +
162B SER* 5.4 0.2 - - - -
185B LEU* 5.8 0.9 - - - +
216B LEU* 4.7 5.6 - - + -
217B HIS* 1.3 86.9 + - - +
219B GLU* 1.3 60.1 + - - +
220B ALA* 3.2 21.9 + - + +
223B ARG* 4.5 5.7 - - + +
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Residues in contact with GLU 219 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158B SER 4.0 0.9 - - - +
159B GLY* 3.7 8.2 - - - -
160B SER* 3.0 41.2 + - - +
162B SER* 5.9 0.2 + - - -
185B LEU* 5.7 0.7 - - - +
217B HIS* 4.4 7.4 - - + +
218B THR* 1.3 68.4 + - - +
220B ALA* 1.3 63.6 + - - +
221B ARG* 3.5 2.6 + - - +
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Residues in contact with ALA 220 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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158B SER 5.0 0.4 - - - -
218B THR* 3.2 14.8 + - - +
219B GLU* 1.3 69.5 - - - +
221B ARG* 1.3 61.0 - - - +
222B ALA 3.8 1.1 - - - +
223B ARG* 3.6 32.3 - - + +
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Residues in contact with ARG 221 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190A SER* 4.5 4.8 + - - -
191A GLU* 3.8 32.9 + - - +
157B GLY* 3.5 1.0 - - - -
158B SER* 3.1 55.1 + - - +
159B GLY* 5.0 1.3 - - - +
219B GLU 3.5 1.0 + - - +
220B ALA* 1.3 73.9 - - - +
222B ALA* 1.3 66.1 + - + +
223B ARG* 4.2 0.8 - - - +
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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
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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