Contacts of the helix formed by residues 212 - 222 (chain A) in PDB entry 2CG2
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 212 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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208A ASN 3.3 25.3 - - - -
209A VAL 3.0 11.7 + - - -
210A LEU 3.4 1.2 + - - -
211A ALA* 1.3 77.6 - - - +
213A ASN* 1.3 57.0 + - - +
215A MET* 3.4 6.2 + - - +
216A MET* 2.8 40.7 + - - +
546A TYR* 5.4 0.8 - - - -
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Residues in contact with ASN 213 (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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211A ALA 3.4 0.8 - - - -
212A GLY* 1.3 76.3 - - - +
214A ALA* 1.3 62.9 - - - +
216A MET* 3.8 6.9 - - - +
217A ARG* 3.0 24.1 + - - +
546A TYR* 5.4 5.4 + - - +
643A PHE* 3.6 37.6 + - + +
644A ASP 2.9 21.9 - - - +
645A PHE* 3.6 35.3 - - - +
647A PHE* 3.9 11.4 - - - -
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Residues in contact with ALA 214 (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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211A ALA* 3.2 16.2 + - + +
213A ASN* 1.3 79.4 - - - +
215A MET* 1.3 56.7 + - + +
218A ARG* 2.9 44.4 + - - +
647A PHE* 3.8 20.2 - - + -
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Residues in contact with MET 215 (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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207A GLU* 3.2 31.6 - - + +
208A ASN* 4.1 15.5 - - - +
211A ALA* 3.0 37.0 + - + +
212A GLY* 3.7 4.5 - - - +
214A ALA* 1.3 73.4 - - + +
216A MET* 1.3 60.8 + - + +
218A ARG 3.7 0.2 - - - -
219A ALA* 2.8 31.2 + - - +
312A ARG* 3.5 26.4 - - - +
313A GLY* 2.9 33.2 - - - +
314A ALA* 3.8 14.6 - - + -
315A GLU 5.2 0.4 - - - +
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Residues in contact with MET 216 (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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208A ASN 6.2 0.2 - - - +
212A GLY* 2.8 26.7 + - - +
213A ASN* 3.8 6.3 - - - +
215A MET* 1.3 73.7 - - + +
217A ARG* 1.3 61.7 + - - +
219A ALA* 3.2 20.5 + - - +
220A THR* 3.3 12.5 + - - +
645A PHE* 3.6 27.8 - - + -
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Residues in contact with ARG 217 (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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213A ASN 3.0 17.4 + - - +
216A MET* 1.3 72.5 - - - +
218A ARG* 1.3 64.5 + - - +
220A THR* 2.7 44.6 + - - -
221A TYR* 3.7 5.5 + - - -
515A GLU* 2.7 43.6 + - - -
520A VAL* 3.5 14.1 - - - +
645A PHE* 3.2 37.6 - - + +
646A TRP* 3.4 24.5 - - - -
647A PHE* 2.8 55.6 + - + +
649A ILE* 3.6 20.5 - - + +
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Residues in contact with ARG 218 (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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214A ALA* 2.9 29.8 + - - +
217A ARG* 1.3 75.4 - - - +
219A ALA* 1.4 56.6 + - - +
221A TYR* 3.0 27.9 + - - +
222A GLN* 3.5 4.2 + - - +
309A TYR* 3.4 20.4 + - - -
311A LEU 2.9 22.3 + - - +
312A ARG* 2.8 34.0 + - - +
313A GLY* 3.9 7.0 - - - +
647A PHE* 4.6 11.9 - - + -
649A ILE* 4.4 15.7 - - + -
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Residues in contact with ALA 219 (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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215A MET 2.8 19.0 + - - +
216A MET* 3.3 12.3 - - - +
217A ARG 3.1 0.2 - - - -
218A ARG* 1.4 72.0 - - - +
220A THR* 1.3 58.0 + - - +
221A TYR 3.1 2.2 - - - -
222A GLN* 3.7 4.3 - - - -
223A TYR* 2.8 42.2 + - + +
225A THR* 5.0 0.9 - - - -
312A ARG* 3.9 28.6 - - + +
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Residues in contact with THR 220 (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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216A MET 3.3 5.2 + - - +
217A ARG* 2.7 35.5 + - - +
219A ALA* 1.3 75.9 - - - +
221A TYR* 1.3 58.9 + - - +
224A GLY* 3.0 6.8 + - - -
225A THR* 2.9 54.7 + - + +
226A GLN* 4.7 4.6 + - - -
511A SER* 3.8 2.8 + - - -
645A PHE* 3.7 36.8 - - + -
646A TRP* 4.1 11.7 - - + -
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Residues in contact with TYR 221 (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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217A ARG* 3.7 6.7 - - - -
218A ARG* 3.0 13.2 + - - +
220A THR* 1.3 88.6 + - - +
222A GLN* 1.3 65.8 + - - +
223A TYR 3.2 0.2 - - - -
224A GLY 3.0 9.0 + - - -
226A GLN* 5.1 0.7 - - - -
507A ASN 3.1 21.3 - - - -
508A SER* 3.6 27.1 - - - +
511A SER* 3.7 16.4 - - - -
512A ALA* 3.9 24.6 - - + -
515A GLU* 2.5 45.5 + - - +
649A ILE* 3.9 34.4 - - + +
650A VAL* 3.6 22.1 - - + +
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Residues in contact with GLN 222 (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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218A ARG 3.5 3.8 + - - +
219A ALA* 3.2 12.6 + - - +
221A TYR* 1.3 76.4 - - - +
223A TYR* 1.3 87.3 + - + +
237A MET* 3.7 18.4 - - + +
307A ASN* 5.1 1.8 - - - +
310A THR* 2.8 23.0 + - - -
311A LEU* 3.7 11.7 + - + -
312A ARG* 3.0 39.5 + - - +
405A HIS* 5.0 3.6 - - - -
504A GLY* 3.6 17.3 - - - -
507A ASN* 2.9 23.7 + - - +
508A SER* 3.7 10.0 + - - +
701A SO4 3.7 3.8 + - - -
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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