Contacts of the helix formed by residues 466 - 486 (chain C) in PDB entry 1C2O
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 THR 466 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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435C SER* 3.9 12.1 - - - +
465C TYR* 1.3 82.7 - - - +
467C THR* 1.3 53.6 + - - +
468C GLU* 3.3 26.4 + - - +
469C GLU* 2.8 42.5 + - + +
470C ARG* 2.7 35.8 + - - +
515C LEU* 5.5 0.5 - - - +
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Residues in contact with THR 467 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
465C TYR 4.3 0.2 + - - -
466C THR* 1.3 72.9 - - - +
468C GLU* 1.3 60.8 + - - +
470C ARG* 3.0 44.3 + - - +
471C ILE* 2.7 51.8 + - + +
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Residues in contact with GLU 468 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
466C THR* 3.1 19.6 + - - +
467C THR* 1.3 90.5 + - - +
469C GLU* 1.3 52.0 + - - +
471C ILE* 3.0 15.5 + - + +
472C PHE* 2.5 39.8 + - - +
515C LEU* 4.2 26.4 - - + +
516C LYS* 6.2 1.6 - - - +
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Residues in contact with GLU 469 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
432C HIS* 2.7 33.4 + - + +
434C ALA* 3.4 5.2 - - - -
435C SER* 2.4 47.2 + - - -
453C PHE* 3.6 15.8 - - + -
458C PRO* 4.0 4.5 - - - +
465C TYR* 3.5 17.4 - - + +
466C THR* 2.8 43.7 + - - +
468C GLU* 1.3 75.5 - - + +
470C ARG* 1.3 51.0 + - - +
472C PHE* 3.1 9.3 - - - +
473C ALA* 2.7 35.9 + - - +
515C LEU* 4.6 2.0 - - + +
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Residues in contact with ARG 470 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
458C PRO* 4.0 21.6 + - + +
459C LEU* 4.4 21.9 + - + +
461C PRO* 5.7 10.5 - - - +
465C TYR 6.0 0.4 + - - -
466C THR 2.7 15.1 + - - +
467C THR* 3.1 43.3 + - - +
469C GLU* 1.3 70.6 - - - +
471C ILE* 1.3 68.3 + - - +
473C ALA* 3.1 5.3 + - - +
474C GLN* 2.9 45.0 + - + +
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Residues in contact with ILE 471 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
467C THR* 2.7 40.6 + - + +
468C GLU* 3.4 12.1 - - + +
470C ARG* 1.3 74.6 - - + +
472C PHE* 1.4 64.4 + - - +
474C GLN* 3.0 19.2 + - + +
475C ARG* 2.9 25.9 + - + +
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Residues in contact with PHE 472 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430C PHE* 3.9 16.2 - + - -
432C HIS* 3.3 37.5 - + + -
453C PHE* 4.2 7.2 - + - -
468C GLU 2.5 22.0 + - - +
469C GLU* 3.1 6.7 - - - +
471C ILE* 1.4 72.6 - - - +
473C ALA* 1.3 64.6 + - - +
475C ARG* 2.7 39.0 + - - +
476C LEU* 2.8 43.5 + - + +
513C LEU* 3.9 7.6 - - + -
514C ASN* 3.5 34.3 - - - -
515C LEU* 3.4 21.8 - - + -
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Residues in contact with ALA 473 (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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453C PHE* 4.1 11.6 - - + +
458C PRO* 3.8 28.5 - - + -
459C LEU* 4.0 12.1 - - + -
469C GLU 2.7 16.0 + - - +
470C ARG* 3.1 11.0 - - - +
472C PHE* 1.3 72.5 - - - +
474C GLN* 1.3 53.4 + - - +
476C LEU* 2.9 15.1 + - - +
477C MET* 2.6 39.6 + - - +
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Residues in contact with GLN 474 (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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141C VAL* 5.7 6.2 - - + +
142C GLU* 4.5 3.0 - - - +
459C LEU* 4.3 23.5 - - + +
470C ARG* 2.9 39.4 + - - +
471C ILE* 3.3 15.5 - - + +
473C ALA* 1.3 74.7 - - - +
475C ARG* 1.3 62.9 + - - +
477C MET* 3.7 12.1 - - - +
478C LYS* 2.9 29.3 + - + +
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Residues in contact with ARG 475 (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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471C ILE* 2.9 14.1 + - + +
472C PHE* 2.7 35.8 + - - +
474C GLN* 1.3 77.4 - - - +
476C LEU* 1.3 60.0 - - - +
478C LYS* 3.0 12.0 - - + +
479C TYR* 2.7 61.9 + - + +
512C SER 4.6 2.6 + - - -
513C LEU* 4.9 1.4 - - - +
514C ASN 2.9 37.0 + - - +
515C LEU* 3.8 12.9 + - - +
516C LYS 3.5 10.7 + - - -
517C PRO* 4.1 6.8 - - - +
518C LEU* 3.9 12.3 - - - +
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Residues in contact with LEU 476 (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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430C PHE* 4.0 13.7 - - + -
453C PHE* 3.5 28.5 - - + -
454C ILE* 3.8 32.3 - - + -
472C PHE* 2.8 50.7 + - + +
473C ALA* 3.3 5.2 - - - +
475C ARG* 1.3 75.0 - - - +
477C MET* 1.3 64.5 + - - +
479C TYR* 2.9 18.0 + - - -
480C TRP* 3.1 25.0 + - + -
513C LEU* 3.3 31.2 - - + -
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Residues in contact with MET 477 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C PHE* 3.8 6.3 - - - +
138C LEU* 3.2 58.6 - - + +
141C VAL* 4.6 6.3 - - + -
142C GLU* 4.1 15.5 - - + +
453C PHE 4.4 2.5 - - - +
454C ILE* 4.0 11.2 + - - +
455C PHE 4.1 3.8 - - - +
456C GLY* 3.9 5.2 - - - -
459C LEU* 3.5 35.4 - - - -
473C ALA 2.6 36.2 + - - +
474C GLN* 3.7 8.5 - - - +
476C LEU* 1.3 72.7 - - - +
478C LYS* 1.3 50.9 + - - +
480C TRP* 3.4 3.6 + - - +
481C THR* 2.4 41.8 + - - +
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Residues in contact with LYS 478 (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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142C GLU* 3.5 27.4 - - - +
474C GLN* 2.9 16.1 + - + +
475C ARG* 3.0 17.7 - - + +
477C MET* 1.3 75.9 - - - +
479C TYR* 1.3 60.1 + - + +
481C THR* 2.9 14.0 + - - -
482C ASN* 2.9 58.5 + - - +
485C ARG* 4.2 6.1 - - - +
489C PRO 5.4 0.8 + - - -
491C ASP* 4.8 11.3 - - - +
492C PRO* 4.7 8.2 - - - +
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Residues in contact with TYR 479 (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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327C LEU* 5.5 0.7 - - + -
475C ARG* 2.7 71.5 + - + -
476C LEU* 2.9 12.2 + - - +
478C LYS* 1.3 77.9 - - + +
480C TRP* 1.3 62.6 + + + +
482C ASN 3.3 0.5 + - - -
483C PHE* 2.7 33.5 + - - +
489C PRO* 3.3 45.8 - - + +
490C ASN* 5.6 4.5 - - - -
491C ASP 6.1 0.7 - - - -
498C PRO 6.1 0.9 - - - -
500C TRP* 4.2 16.6 - + + -
513C LEU* 3.8 24.7 - - + -
518C LEU* 3.7 25.1 + - + +
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Residues in contact with TRP 480 (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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115C LEU* 5.1 7.6 - - + -
138C LEU* 5.2 6.1 - - + -
198C THR* 5.6 1.1 - - + +
200C PHE* 4.0 20.9 - + + -
226C VAL* 3.2 33.8 - - + +
228C GLN* 3.5 14.2 + - - -
327C LEU* 3.7 21.5 - - + -
428C TYR* 3.9 37.7 - + - -
430C PHE* 6.2 0.4 - + - -
454C ILE* 3.2 45.5 - - + -
476C LEU* 3.1 46.5 + - + +
477C MET* 3.8 4.9 - - - +
479C TYR* 1.3 86.3 - - + +
481C THR* 1.3 50.6 + - - +
483C PHE* 2.9 8.8 + - - +
484C ALA* 2.6 36.7 + - - +
500C TRP* 5.2 3.1 - + - -
513C LEU* 4.7 6.3 - - + -
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Residues in contact with THR 481 (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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113C PRO* 5.4 0.3 - - - +
115C LEU* 4.6 10.0 - - + +
138C LEU* 4.3 13.5 - - + -
142C GLU* 3.2 30.7 + - + -
144C ALA* 4.6 9.9 - - + -
477C MET 2.4 31.4 + - - +
478C LYS* 2.9 17.7 + - - -
480C TRP* 1.3 73.3 - - - +
482C ASN* 1.3 48.6 + - - -
484C ALA* 3.0 10.2 - - - +
485C ARG* 2.6 62.4 + - - +
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Residues in contact with ASN 482 (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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478C LYS* 2.9 53.4 + - - +
479C TYR 3.4 3.8 - - - +
481C THR* 1.3 74.1 + - - +
483C PHE* 1.4 61.8 + - - +
485C ARG* 3.9 16.2 + - - +
486C THR* 2.7 44.9 + - - +
488C ASP 3.4 11.2 - - - +
489C PRO 3.8 9.8 + - - +
490C ASN 3.7 19.2 + - - +
492C PRO* 3.8 16.7 - - - +
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Residues in contact with PHE 483 (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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198C THR* 4.7 1.6 - - + -
224C ARG* 3.1 31.9 - - + -
225C ALA 3.4 19.7 - - - -
226C VAL* 4.0 16.6 - - + -
325C GLN* 3.4 49.8 - - + -
326C VAL 3.5 8.7 - - - -
327C LEU* 3.6 25.4 - - + -
426C TYR* 4.7 6.3 - + - -
479C TYR 2.7 20.1 + - - +
480C TRP 3.6 4.0 - - - +
482C ASN* 1.4 73.4 - - - +
484C ALA* 1.3 64.1 + - - +
487C GLY* 2.9 39.4 + - - -
488C ASP 3.6 8.6 + - - +
489C PRO* 4.0 18.6 - - + -
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Residues in contact with ALA 484 (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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113C PRO* 4.7 11.2 - - + +
114C VAL 5.6 0.2 - - - +
115C LEU* 3.3 32.3 - - + -
196C SER* 4.4 2.4 + - - +
198C THR* 3.7 15.7 + - + +
224C ARG* 2.6 36.9 + - - -
480C TRP 2.6 17.6 + - - +
481C THR* 3.0 17.3 - - - +
483C PHE* 1.3 74.1 - - - +
485C ARG* 1.3 47.5 - - - +
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Residues in contact with ARG 485 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C PRO* 4.3 29.0 - - + +
142C GLU* 3.1 44.5 + - - -
144C ALA* 5.9 0.8 - - - +
196C SER* 5.0 1.0 + - - -
224C ARG* 3.5 12.7 + - - +
478C LYS* 4.2 10.3 - - - +
481C THR* 2.6 46.5 + - - +
482C ASN* 3.3 20.3 + - - +
484C ALA* 1.3 76.5 - - - +
486C THR* 1.3 68.0 + - + +
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Residues in contact with THR 486 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
224C ARG* 4.4 3.9 + - - -
325C GLN* 3.5 8.7 - - - +
482C ASN* 2.7 29.8 + - - +
485C ARG* 1.3 86.2 - - + +
487C GLY* 1.3 68.2 + - - +
488C ASP* 2.7 28.4 + - - +
490C ASN 5.4 2.9 - - - +
492C PRO* 5.9 4.3 - - + -
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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