Contacts of the helix formed by residues 342 - 363 (chain C) in PDB entry 2O2C
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 342 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
182C GLU* 5.0 1.1 - - - -
185C ARG* 3.3 24.3 - - - +
338C MET* 2.8 26.1 + - - +
341C ILE* 1.3 76.7 - - - +
343C TYR* 1.3 65.6 + - - -
344C GLU 3.5 2.0 - - - -
345C ASN 3.5 0.9 + - - -
346C PHE* 3.1 22.2 + - - +
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Residues in contact with TYR 343 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154C ARG* 4.4 10.4 + - - -
174C LEU* 4.0 21.2 - - + +
175C ASP* 5.5 0.8 - - - -
178C ARG* 3.6 67.7 + - + -
181C SER* 4.9 3.0 + - - +
182C GLU* 4.7 11.7 + - + +
338C MET* 3.8 28.6 - - + +
342C GLY* 1.3 70.8 - - - -
344C GLU* 1.3 78.7 + - + +
346C PHE* 3.0 4.2 + + - +
347C VAL* 2.9 52.6 + - + +
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Residues in contact with GLU 344 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
178C ARG* 4.4 8.8 + - - -
342C GLY 3.5 0.4 - - - -
343C TYR* 1.3 99.5 - - + +
345C ASN* 1.3 60.7 + - - +
347C VAL* 3.3 15.0 + - - +
348C GLU* 3.1 30.1 + - - +
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Residues in contact with ASN 345 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
222C PHE* 3.5 30.3 + - - +
341C ILE* 3.1 41.7 + - + +
342C GLY 3.5 1.6 + - - -
343C TYR 3.3 0.4 - - - -
344C GLU* 1.3 76.8 - - - +
346C PHE* 1.3 59.4 + - - +
348C GLU* 3.3 9.0 + - - +
349C LEU* 3.1 21.7 + - - +
536C PRO* 3.3 30.7 - - + +
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Residues in contact with PHE 346 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
174C LEU* 3.9 13.2 - - + -
177C MET* 4.2 3.1 - - + -
329C MET 3.7 22.9 - - - -
330C TRP* 3.9 17.5 - - - -
331C SER 4.2 2.7 - - - -
334C GLY* 3.4 24.5 - - - -
337C ILE* 4.0 8.7 - - + -
338C MET* 3.6 43.3 - - + -
341C ILE* 3.9 5.1 - - + +
342C GLY 3.1 13.1 + - - +
343C TYR* 3.0 9.7 + + - +
345C ASN* 1.3 73.2 - - - +
347C VAL* 1.3 61.2 + - + +
349C LEU* 3.2 25.5 + - + +
350C LEU* 3.0 47.9 + - + +
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Residues in contact with VAL 347 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154C ARG* 3.7 29.2 - - - +
174C LEU* 6.3 0.4 - - + -
343C TYR* 2.9 53.8 + - + +
344C GLU* 3.5 17.0 - - - +
345C ASN 3.3 0.2 - - - -
346C PHE* 1.3 75.3 - - + +
348C GLU* 1.3 57.9 + - + +
350C LEU* 3.2 12.0 + - + +
351C THR* 2.7 44.6 + - - +
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Residues in contact with GLU 348 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C SER* 4.9 3.2 - - - -
344C GLU 3.1 17.4 + - - +
345C ASN* 3.4 15.9 - - - +
346C PHE 3.2 0.2 - - - -
347C VAL* 1.3 78.8 - - + +
349C LEU* 1.3 56.6 + - - +
351C THR* 3.3 5.0 + - - -
352C GLY 3.0 24.1 + - - -
535C THR* 5.9 0.7 - - - -
536C PRO* 4.0 14.3 - - + +
537C ARG* 2.8 67.6 + - - +
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Residues in contact with LEU 349 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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215C ALA* 5.0 0.4 - - + -
219C LEU* 4.6 6.7 - - + -
329C MET* 3.9 25.4 - - + -
330C TRP* 3.5 17.5 - - + -
337C ILE* 4.2 14.8 - - + -
341C ILE* 5.0 0.2 - - + -
345C ASN 3.1 13.6 + - - +
346C PHE* 3.2 38.3 + - + +
348C GLU* 1.3 77.7 - - - +
350C LEU* 1.3 61.1 + - + +
353C ALA 3.5 5.0 + - - -
536C PRO* 3.4 25.7 + - + +
539C LEU* 4.1 14.6 - - + -
540C GLY* 3.4 42.4 - - - +
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Residues in contact with LEU 350 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151C LEU 3.9 13.7 - - - +
152C ARG* 3.3 26.1 - - + +
154C ARG* 3.9 28.3 - - - +
174C LEU* 3.9 20.4 - - + -
330C TRP* 3.6 39.9 - - + +
346C PHE* 3.0 37.7 + - + +
347C VAL* 3.5 12.3 - - + +
349C LEU* 1.3 78.1 - - + +
351C THR* 1.3 56.2 + - - +
353C ALA 3.3 2.4 + - - -
354C HIS* 3.0 23.9 + - - +
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Residues in contact with THR 351 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154C ARG* 3.8 19.5 + - + +
347C VAL* 2.7 31.0 + - - +
348C GLU* 3.3 7.9 + - - -
350C LEU* 1.3 74.3 - - - +
352C GLY* 1.3 57.8 + - - +
354C HIS* 3.2 10.0 + - + +
355C VAL* 2.9 40.1 + - + +
537C ARG* 3.7 34.7 + - - +
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Residues in contact with GLY 352 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91C LEU* 5.7 0.7 - - - -
348C GLU 3.0 11.0 + - - -
349C LEU 3.5 1.5 + - - -
350C LEU 3.3 0.2 - - - -
351C THR* 1.3 75.8 - - - +
353C ALA* 1.3 60.2 + - - +
355C VAL* 3.5 6.5 + - - +
356C ILE* 3.3 17.0 + - - +
537C ARG* 3.3 35.4 - - - +
541C ALA* 3.5 20.6 - - - +
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Residues in contact with ALA 353 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
152C ARG* 3.7 20.4 - - - +
330C TRP* 3.6 30.5 - - + -
349C LEU 3.5 3.8 + - - -
350C LEU 3.3 10.0 + - - +
351C THR 3.2 0.2 - - - -
352C GLY* 1.3 76.7 - - - +
354C HIS* 1.3 57.4 + - - +
356C ILE* 3.2 3.5 + - - -
357C ASP* 2.9 34.1 + - - +
540C GLY 3.5 13.9 - - - +
544C ALA* 3.8 7.4 - - + +
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Residues in contact with HIS 354 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149C ILE 5.3 0.6 + - - -
152C ARG* 3.2 25.6 + - - +
153C ASN* 3.6 26.7 - - - -
154C ARG* 3.8 18.6 - - + -
155C SER* 3.6 17.3 + - - -
157C ARG* 4.0 4.6 + - - -
350C LEU 3.0 8.5 + - - +
351C THR* 3.2 16.8 + - + +
353C ALA* 1.3 74.2 - - - +
355C VAL* 1.3 63.3 + - + +
357C ASP* 3.1 15.0 + - - +
358C GLU* 3.0 58.2 + - + +
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Residues in contact with VAL 355 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89C VAL* 5.0 2.7 - - + -
90C SER 3.5 24.7 - - - +
91C LEU* 3.5 32.3 - - + +
92C GLY* 5.4 1.1 - - - -
351C THR* 2.9 27.4 + - + +
352C GLY* 3.8 7.2 - - - +
353C ALA 3.3 0.2 - - - -
354C HIS* 1.3 78.9 - - + +
356C ILE* 1.3 62.1 + - + +
358C GLU* 3.5 6.5 + - - +
359C HIS* 3.0 25.6 + - - +
537C ARG* 4.4 6.7 - - - +
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Residues in contact with ILE 356 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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89C VAL* 3.9 29.2 - - + -
91C LEU* 4.5 7.2 - - + -
99C LEU* 4.0 19.1 - - + -
352C GLY 3.3 12.0 + - - +
353C ALA 3.2 8.5 + - - +
355C VAL* 1.3 75.4 - - - +
357C ASP* 1.3 60.2 + - - +
359C HIS* 3.5 9.0 - - + +
360C PHE* 2.9 28.9 + - - +
369C VAL* 6.2 1.1 - - + -
370C PRO* 4.5 9.4 - - + -
541C ALA* 3.7 22.9 - - + +
544C ALA* 4.0 8.3 - - + -
545C MET* 3.8 32.8 - - + +
548C HIS* 4.4 5.4 - - + -
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Residues in contact with ASP 357 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133C PHE* 3.5 19.4 - - + -
149C ILE* 3.8 14.0 - - + +
152C ARG* 2.7 45.0 + - - +
353C ALA 2.9 22.4 + - - +
354C HIS* 3.1 15.2 + - - +
356C ILE* 1.3 77.1 - - - +
358C GLU* 1.3 58.1 + - - +
360C PHE* 3.4 1.4 + - - +
361C ALA* 3.1 29.8 + - - +
544C ALA* 4.1 0.5 - - - +
548C HIS* 2.6 34.8 + - - -
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Residues in contact with GLU 358 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133C PHE* 5.0 7.6 - - - -
157C ARG* 3.3 35.4 + - - -
354C HIS* 3.0 39.6 + - + +
355C VAL* 3.8 6.5 - - - +
357C ASP* 1.3 78.0 - - - +
359C HIS* 1.3 63.9 + - - +
361C ALA* 4.7 1.8 - - - +
362C ASN* 2.7 47.5 + - - +
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Residues in contact with HIS 359 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87C VAL* 4.9 1.1 - - + -
89C VAL* 3.4 43.7 - - + +
355C VAL* 3.0 18.8 + - + +
356C ILE* 3.3 14.1 + - + +
358C GLU* 1.3 78.3 - - - +
360C PHE* 1.3 58.3 + - - +
363C ALA* 2.8 50.1 + - + +
367C GLN 3.3 22.0 - - - -
368C ASN* 3.6 1.6 + - - -
369C VAL* 3.1 24.1 + - + +
370C PRO* 3.8 18.8 - - + -
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Residues in contact with PHE 360 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125C ILE* 5.1 2.0 - - + -
129C VAL* 3.7 41.3 - - + +
133C PHE* 4.2 5.4 - + - -
356C ILE 2.9 17.7 + - - +
357C ASP 3.7 3.4 - - - +
358C GLU 3.4 0.2 - - - -
359C HIS* 1.3 79.8 - - - +
361C ALA* 1.3 56.9 + - - +
362C ASN 3.5 0.2 - - - -
368C ASN* 3.0 38.4 + - - +
370C PRO* 3.6 17.3 - - + -
371C LEU* 4.4 5.6 - - + -
548C HIS* 3.4 49.4 - + + -
551C LEU* 4.0 10.8 - - + -
552C VAL* 3.6 33.0 - - + -
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Residues in contact with ALA 361 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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129C VAL* 4.5 10.3 - - + -
130C GLN* 3.6 25.6 + - - +
133C PHE* 3.8 23.8 - - + -
357C ASP 3.1 17.1 + - - +
358C GLU* 3.6 6.3 + - - +
359C HIS 3.3 0.4 - - - -
360C PHE* 1.3 78.4 - - - +
362C ASN* 1.3 69.0 + - - +
363C ALA 5.3 0.2 - - - -
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Residues in contact with ASN 362 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130C GLN* 5.4 1.2 + - - -
358C GLU* 2.7 45.9 + - - +
360C PHE 3.5 0.2 - - - -
361C ALA* 1.3 90.1 - - - +
363C ALA* 1.3 68.8 + - - +
364C PRO* 3.6 5.0 - - - +
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Residues in contact with ALA 363 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
359C HIS* 2.8 47.5 + - + +
360C PHE 4.9 0.2 - - - +
361C ALA 5.3 0.3 - - - -
362C ASN* 1.3 79.4 + - - +
364C PRO* 1.4 73.3 - - + +
365C PRO* 3.6 2.9 - - - +
367C GLN* 4.2 7.9 - - + +
368C ASN* 3.2 18.4 + - - +
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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
------------------------------------------------------------
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