Contacts of the helix formed by residues 458 - 473 (chain C) in PDB entry 2BT4
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 HIS 458 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58A HIS* 5.2 0.9 - - + -
60A GLY* 3.3 23.1 - - - -
61A GLU* 3.4 10.8 - - + -
64A ASP* 3.2 23.9 + - - -
2401A PO4 2.4 43.6 + - - +
258B HIS* 5.0 0.9 - - + +
456C SER* 2.9 14.6 + - - +
457C ASN* 1.3 85.6 - - + +
459C GLU* 1.3 64.0 + - - +
461C GLU* 3.2 19.6 + - + +
462C LEU* 3.1 24.5 + - - +
483C TYR* 3.9 3.4 - - - -
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Residues in contact with GLU 459 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A GLU* 4.2 2.0 - - - +
2401A PO4 3.9 4.7 + - - +
2405A TRS 2.8 44.0 + - - -
259B GLU* 4.0 3.3 - - - +
283B TYR* 3.3 32.9 + - - +
286B THR* 5.1 0.2 + - - -
458C HIS* 1.3 69.2 - - - +
460C GLY* 1.3 62.4 + - - +
462C LEU* 3.2 7.3 + - - +
463C VAL* 3.1 24.1 + - + +
483C TYR* 3.3 30.9 + - + +
487C SER* 2.5 32.9 + - - +
488C VAL 4.7 0.2 + - - -
489C ALA* 3.9 5.8 + - + +
490C ILE* 4.3 7.6 - - + +
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Residues in contact with GLY 460 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2401A PO4 3.4 8.3 + - - -
257B ASN* 3.3 26.2 + - - +
258B HIS* 3.3 19.3 + - - -
283B TYR* 4.4 1.2 + - - -
458C HIS 3.3 0.6 - - - -
459C GLU* 1.3 76.2 - - - +
461C GLU* 1.3 60.5 + - - +
463C VAL* 3.5 4.6 + - - +
464C ASP* 3.0 32.4 + - - +
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Residues in contact with GLU 461 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258B HIS* 3.3 12.8 - - + -
455C GLN 5.0 0.2 - - - +
456C SER* 2.5 28.7 + - - +
458C HIS* 3.2 24.7 + - + +
460C GLY* 1.3 73.8 - - - +
462C LEU* 1.3 65.7 + - - +
464C ASP* 3.2 9.6 + - + +
465C TRP* 2.9 63.8 + - + +
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Residues in contact with LEU 462 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
412C LEU* 4.3 17.1 - - + +
413C ASN 3.8 20.9 - - - +
414C GLY* 3.8 17.9 - - - -
456C SER* 3.9 10.3 - - - +
458C HIS 3.1 12.2 + - - +
459C GLU 3.2 6.0 + - - +
461C GLU* 1.3 78.2 - - - +
463C VAL* 1.3 55.9 + - - +
465C TRP* 3.3 28.6 + - + +
466C ILE* 2.9 38.1 + - + +
478C ILE* 5.7 4.0 - - + -
480C PRO* 5.3 3.6 - - + +
483C TYR* 3.7 29.6 - - + -
490C ILE* 4.0 15.9 - - + -
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Residues in contact with VAL 463 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
215B PRO* 4.9 1.1 - - + -
216B ASN* 3.7 22.9 - - - +
257B ASN* 3.5 33.2 - - + +
459C GLU 3.1 17.4 + - - +
460C GLY* 3.6 9.2 - - - +
462C LEU* 1.3 73.6 - - - +
464C ASP* 1.3 65.8 + - - +
466C ILE* 3.1 19.0 + - - +
467C HIS* 3.1 15.5 + - - +
489C ALA* 4.1 29.6 - - + +
490C ILE* 4.1 13.0 - - + -
493C ALA* 4.2 1.6 - - + -
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Residues in contact with ASP 464 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
257B ASN* 2.6 37.9 + - - +
258B HIS* 3.5 18.8 + - - -
460C GLY 3.0 15.5 + - - +
461C GLU* 3.3 11.8 - - + +
463C VAL* 1.3 74.1 - - - +
465C TRP* 1.3 64.4 + - + +
467C HIS* 3.2 9.4 + - - +
468C GLU* 3.0 24.8 + - - +
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Residues in contact with TRP 465 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410C MET* 3.6 8.5 - - + +
412C LEU* 3.9 17.3 - - + -
454C ARG* 3.3 61.4 - - + +
455C GLN 3.4 23.8 - - - -
456C SER* 3.6 24.5 - - - -
461C GLU* 2.9 40.2 + - + +
462C LEU* 3.5 25.6 - - + +
464C ASP* 1.3 80.0 - - + +
466C ILE* 1.3 61.7 + - - +
468C GLU* 3.1 12.5 + - - +
469C ALA* 2.9 23.9 + - - +
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Residues in contact with ILE 466 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
412C LEU* 3.5 21.5 - - + -
462C LEU* 2.9 24.1 + - + +
463C VAL* 3.1 6.7 + - - +
465C TRP* 1.3 75.0 - - - +
467C HIS* 1.3 61.5 + - + +
469C ALA* 3.2 7.4 + - - +
470C ARG* 2.9 27.5 + - - +
476C ILE* 4.3 3.6 - - + -
478C ILE* 4.4 4.0 - - + -
490C ILE* 4.0 22.2 - - + -
493C ALA* 3.6 44.0 - - + +
494C LEU* 3.9 24.7 - - + +
497C CYS* 3.7 13.9 - - - -
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Residues in contact with HIS 467 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
216B ASN* 2.8 29.9 + - - -
218B ASN* 3.0 43.4 + - - +
219B LEU* 3.8 24.9 - - + +
257B ASN* 3.8 10.1 + - - -
463C VAL* 3.1 25.3 + - + +
464C ASP* 3.2 9.7 + - - +
466C ILE* 1.3 76.6 - - - +
468C GLU* 1.3 61.7 - - - +
470C ARG* 3.4 18.3 + - - +
471C LEU* 3.7 15.4 + - - +
493C ALA* 4.3 5.6 - - + -
496C THR* 4.2 8.5 - - - -
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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
----------------------------------------------------------
410C MET* 4.2 0.7 - - + -
454C ARG* 3.0 42.4 + - - -
464C ASP 3.0 11.8 + - - +
465C TRP* 3.3 14.6 - - - +
466C ILE 3.1 0.2 - - - -
467C HIS* 1.3 75.6 - - - +
469C ALA* 1.3 65.3 + - - +
471C LEU* 3.0 6.5 + - - -
472C ASN* 3.0 40.2 + - - +
473C HIS* 4.2 10.8 - - + -
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Residues in contact with ALA 469 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
410C MET* 3.8 19.2 - - + +
465C TRP 2.9 12.1 + - - +
466C ILE* 3.5 8.5 - - - +
468C GLU* 1.3 78.4 - - - +
470C ARG* 1.3 64.2 + - - +
471C LEU 3.0 0.9 + - - -
473C HIS* 3.0 41.2 + - + +
476C ILE* 3.9 30.7 - - + -
500C LEU* 4.1 4.9 - - + +
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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
----------------------------------------------------------
219B LEU* 3.7 24.7 - - - +
222B GLN* 3.1 47.5 + - - +
223B ARG* 5.2 4.9 - - - +
466C ILE 2.9 14.1 + - - +
467C HIS* 3.4 14.3 + - - +
468C GLU 3.1 0.4 - - - -
469C ALA* 1.3 76.0 - - - +
471C LEU* 1.3 80.0 + - + +
473C HIS 5.1 1.4 - - - +
496C THR* 2.8 47.2 + - - +
497C CYS* 3.7 18.6 - - - -
498C ASP* 5.4 1.0 + - - +
500C LEU* 4.3 9.1 - - - +
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Residues in contact with LEU 471 (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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222B GLN* 5.5 1.1 - - - +
402C ARG* 3.1 26.6 + - - -
467C HIS 3.8 14.8 - - - +
468C GLU* 3.0 6.6 + - - +
469C ALA 3.0 0.6 - - - -
470C ARG* 1.3 105.3 - - + +
472C ASN* 1.3 69.0 + - - +
473C HIS 3.8 0.9 - - - -
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Residues in contact with ASN 472 (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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402C ARG* 3.9 20.3 + - - +
407C ALA* 3.5 15.8 - - - +
408C PRO* 3.9 5.7 - - - +
468C GLU* 3.0 30.1 + - - +
471C LEU* 1.3 97.7 - - - +
473C HIS* 1.3 81.5 + - + +
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Residues in contact with HIS 473 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
402C ARG* 4.2 10.0 - - - +
407C ALA* 4.1 4.7 - - - -
408C PRO* 3.2 33.0 - - + +
410C MET* 3.2 39.2 - - + +
452C ASP* 2.9 27.2 + - + +
468C GLU* 4.2 11.4 - - + -
469C ALA* 3.0 30.4 + - + +
470C ARG 5.1 1.2 - - - +
471C LEU 5.3 0.2 - - - -
472C ASN* 1.3 101.0 + - + +
474C CYS* 1.3 62.4 + - - +
475C GLY 3.3 12.3 - - - +
500C LEU* 3.6 10.6 - - - +
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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
------------------------------------------------------------
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