Contacts of the helix formed by residues 433 - 454 (chain C) in PDB entry 7ATU
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 PRO 433 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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431C GLN 3.6 8.5 - - - +
432C TYR* 1.3 100.3 - - + +
434C TRP* 1.3 64.6 - - - +
435C SER* 3.4 20.2 - - - +
436C GLN* 3.1 18.9 + - + +
437C ARG* 3.2 10.9 + - - +
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Residues in contact with TRP 434 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
430C SER 5.7 2.0 + - - -
432C TYR 3.3 1.8 + - - -
433C PRO* 1.3 71.3 - - + +
435C SER* 1.3 50.5 - - - +
437C ARG* 2.9 56.7 + - + +
438C VAL* 2.7 38.4 + - - +
543C ILE* 3.2 30.5 - - + -
572C PRO* 3.3 22.0 - - + -
574C ASN* 3.3 30.1 + - + +
575C CYS* 3.4 22.4 - - + -
576C PRO* 3.3 25.8 - - + -
579C PHE* 3.8 24.5 - + - -
611C LEU* 4.8 9.6 - - + -
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Residues in contact with SER 435 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
433C PRO* 3.4 15.6 - - - +
434C TRP* 1.3 78.9 - - - +
436C GLN* 1.3 62.1 + - - -
438C VAL* 3.2 4.2 + - - +
439C SER* 2.8 30.9 + - - -
608C ARG* 4.5 8.7 - - - +
611C LEU* 4.3 33.8 - - - +
612C ALA* 4.9 9.9 - - - -
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Residues in contact with GLN 436 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
432C TYR* 3.7 35.0 - - + +
433C PRO* 3.1 15.4 + - + +
435C SER* 1.3 82.1 + - - +
437C ARG* 1.3 58.8 + - - +
439C SER* 3.3 20.2 - - - -
440C PHE* 3.1 38.9 + - + -
471C ASN 4.9 0.8 + - - -
472C LYS* 3.3 33.8 - - + +
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Residues in contact with ARG 437 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
428C MET* 3.6 27.0 - - + -
429C ASP 3.8 10.7 + - - -
430C SER* 4.3 9.3 + - - +
432C TYR* 3.2 27.2 + - + +
433C PRO 3.2 10.1 + - - +
434C TRP* 2.9 62.0 + - + +
436C GLN* 1.3 77.4 - - + +
438C VAL* 1.3 60.4 + - - +
439C SER 3.3 0.4 - - - -
440C PHE* 3.2 13.7 - - + +
441C ALA* 3.0 24.3 + - - +
542C ILE* 3.2 44.4 + - + +
543C ILE 3.6 4.6 + - - -
545C ARG* 3.8 22.6 - - - +
579C PHE* 4.1 3.1 - - + -
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Residues in contact with VAL 438 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
434C TRP* 2.7 24.2 + - + +
435C SER* 4.0 4.5 - - - +
437C ARG* 1.3 69.6 - - - +
439C SER* 1.3 60.1 + - - +
441C ALA* 3.3 1.2 + - - +
442C LYS* 2.8 27.0 + - - +
576C PRO* 4.6 6.3 - - + -
579C PHE* 3.6 28.3 - - + -
604C LEU* 3.5 29.4 - - + +
607C LEU* 3.6 36.8 - - + -
608C ARG* 3.9 12.8 - - + +
611C LEU* 5.4 3.4 - - + -
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Residues in contact with SER 439 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
435C SER 2.8 14.3 + - - -
436C GLN* 3.3 25.4 - - - -
438C VAL* 1.3 75.8 - - - +
440C PHE* 1.3 61.3 + - - +
442C LYS* 2.9 4.1 + - - +
443C ASP* 2.6 39.1 + - - +
472C LYS 5.3 0.9 - - - -
608C ARG* 4.1 23.3 - - - +
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Residues in contact with PHE 440 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
421C LEU* 3.6 22.9 - - + -
424C ILE* 4.1 15.0 - - + -
428C MET* 4.5 10.1 - - + -
432C TYR* 3.6 25.4 - + - -
436C GLN* 3.1 30.7 - - + -
437C ARG* 3.2 13.4 + - - +
439C SER* 1.3 78.5 - - - +
441C ALA* 1.3 62.0 + - - +
443C ASP* 4.1 1.6 - - - +
444C ILE* 3.3 29.2 + - - +
468C VAL* 4.1 18.2 - - + -
472C LYS* 3.2 28.7 - - + -
474C VAL* 3.4 25.5 - - + +
542C ILE* 3.9 13.9 - - + -
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Residues in contact with ALA 441 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
437C ARG 3.0 13.0 + - - +
438C VAL 3.7 6.5 - - - +
439C SER 3.3 0.2 - - - -
440C PHE* 1.3 76.3 - - - +
442C LYS* 1.3 62.2 + - - +
444C ILE* 4.9 0.9 - - - -
445C ALA 3.2 8.5 + - - -
535C PHE* 3.2 29.0 - - + -
539C LEU* 3.6 31.4 - - + -
542C ILE* 4.5 3.5 - - + +
579C PHE* 3.8 11.2 - - + -
604C LEU* 3.2 15.5 - - + +
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Residues in contact with LYS 442 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395C ASN* 5.0 1.0 + - - -
438C VAL 2.8 21.3 + - - +
439C SER* 3.6 5.8 - - - +
441C ALA* 1.3 71.4 - - - +
443C ASP* 1.3 62.0 + - - +
445C ALA* 3.1 4.2 + - - +
446C SER* 2.8 61.4 + - - -
601C GLU* 3.9 23.6 + - - +
604C LEU* 3.9 19.3 - - + +
605C GLU* 3.0 46.4 - - + +
608C ARG* 4.8 4.3 - - - -
392D GLU 5.9 1.1 - - - -
450D TYR* 5.6 3.6 - - - -
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Residues in contact with ASP 443 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
395C ASN* 3.3 39.1 + - - +
439C SER* 2.6 35.6 + - - +
440C PHE* 4.0 1.0 + - - -
442C LYS* 1.3 82.9 + - - +
444C ILE* 1.3 57.6 + - - +
446C SER* 2.9 5.9 + - - -
447C GLY 2.8 27.0 + - - -
472C LYS 4.9 1.2 - - - +
473C ASN* 4.5 15.0 + - - +
474C VAL* 3.8 27.9 + - + -
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Residues in contact with ILE 444 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
421C LEU* 3.9 20.2 - - + -
440C PHE 3.3 15.5 + - - +
441C ALA* 5.0 0.7 - - - -
442C LYS 3.3 0.8 - - - -
443C ASP* 1.3 77.3 - - - +
445C ALA* 1.3 58.1 + - - +
447C GLY 3.7 0.3 - - - -
448C MET* 2.8 36.9 + - + +
461C LEU* 4.0 23.6 - - + -
466C CYS* 3.3 26.5 - - - -
474C VAL* 3.4 21.3 - - + -
476C VAL* 4.0 11.5 - - + +
535C PHE* 3.3 31.2 - - + -
538C VAL* 4.1 11.7 - - + -
542C ILE* 5.4 0.2 - - + -
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Residues in contact with ALA 445 (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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441C ALA 3.2 12.2 + - - +
442C LYS 3.1 9.0 + - - +
444C ILE* 1.3 79.1 - - - +
446C SER* 1.3 57.7 + - - +
449C ALA* 2.8 30.3 + - - +
535C PHE* 3.8 2.2 - - + -
597C PHE* 3.5 29.0 - - + +
600C LEU* 4.0 2.7 - - + -
601C GLU* 3.9 19.7 - - - +
604C LEU* 3.8 17.5 - - + -
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Residues in contact with SER 446 (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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393C HIS* 3.6 20.7 + - - -
395C ASN* 3.5 6.5 + - - -
442C LYS* 2.8 38.4 + - - -
443C ASP 3.2 8.5 - - - -
445C ALA* 1.3 72.5 - - - +
447C GLY* 1.3 58.9 + - - +
449C ALA* 3.0 18.9 + - - +
450C TYR* 3.2 9.0 + - - +
601C GLU* 2.7 29.6 + - - +
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Residues in contact with GLY 447 (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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393C HIS* 3.8 11.2 - - - -
395C ASN* 3.8 21.8 - - - -
396C VAL* 3.3 26.5 - - - +
443C ASP 2.8 14.4 + - - -
444C ILE 3.7 0.9 - - - -
446C SER* 1.3 73.3 - - - +
448C MET* 1.3 61.0 + - - +
450C TYR* 4.0 1.0 - - - +
451C LEU* 3.5 16.5 + - - +
476C VAL* 4.9 2.5 - - - -
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Residues in contact with MET 448 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
444C ILE* 2.8 35.7 + - + +
447C GLY* 1.3 71.1 - - - +
449C ALA* 1.3 60.3 + - - +
450C TYR 3.2 0.7 - - - -
451C LEU* 3.9 12.1 - - + +
452C HIS* 3.0 46.5 + - + +
458C HIS* 3.6 19.1 - - + +
461C LEU* 4.3 7.2 - - + -
476C VAL* 4.1 23.3 - - + -
531C ASP* 3.1 39.9 - - + +
597C PHE* 3.6 33.9 - - + -
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Residues in contact with ALA 449 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
445C ALA 2.8 15.1 + - - +
446C SER 3.0 9.6 + - - +
448C MET* 1.3 76.3 - - - +
450C TYR* 1.3 57.1 + - - +
452C HIS* 3.6 4.9 + - - +
453C SER* 3.0 27.0 + - - -
597C PHE* 3.7 23.1 - - - +
598C VAL* 4.0 11.6 - - + +
601C GLU* 3.5 22.4 - - - +
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Residues in contact with TYR 450 (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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391C LEU* 3.8 29.2 - - + -
392C GLU 3.1 32.3 + - - -
393C HIS* 3.6 37.7 - + + -
396C VAL* 4.6 3.6 - - + -
446C SER 3.2 6.9 + - - +
447C GLY 4.0 7.2 - - - +
448C MET 3.2 0.2 - - - -
449C ALA* 1.3 74.7 - - - +
451C LEU* 1.3 77.4 + - + +
453C SER* 2.3 29.9 + - - -
454C MET* 3.2 27.7 + - + +
442D LYS* 4.8 4.7 - - - -
605D GLU* 2.4 40.4 + - + +
608D ARG* 3.8 2.3 + - - -
609D MET* 4.0 2.9 - - - -
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Residues in contact with LEU 451 (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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391C LEU* 3.9 18.6 - - + -
396C VAL* 4.1 14.4 - - + -
447C GLY 3.5 17.3 + - - +
448C MET* 3.5 25.2 + - + +
450C TYR* 1.3 83.1 - - + +
452C HIS* 1.3 60.6 + - - +
454C MET* 3.1 8.3 + - - +
456C ILE* 3.0 45.3 + - + +
458C HIS* 4.7 2.0 - - + -
476C VAL* 5.1 2.2 - - + -
701C RXN 3.3 59.5 - - + -
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Residues in contact with HIS 452 (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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448C MET* 3.0 24.9 + - + +
449C ALA* 3.9 5.8 - - - +
451C LEU* 1.3 72.4 - - - +
453C SER* 1.3 60.1 + - - +
454C MET 3.0 2.2 - - - -
455C ASN* 2.8 25.7 + - - +
456C ILE 3.4 18.2 - - - +
528C GLU* 2.8 51.6 + - + +
531C ASP* 2.9 25.9 + - - +
532C VAL* 4.8 2.5 - - + -
596C SER* 6.2 0.2 - - - -
597C PHE* 3.6 32.5 + + + +
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Residues in contact with SER 453 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
449C ALA 3.0 12.9 + - - -
450C TYR* 2.3 35.1 + - - -
452C HIS* 1.3 75.9 - - - +
454C MET* 1.3 66.5 + - - +
455C ASN* 3.3 5.9 + - - +
602D HIS* 3.2 40.0 + - - -
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Residues in contact with MET 454 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
387C VAL* 6.1 2.2 - - + -
391C LEU* 4.2 14.1 - - + -
450C TYR* 3.3 30.1 - - + +
451C LEU* 3.1 8.0 + - - +
452C HIS 3.0 0.6 - - - -
453C SER* 1.3 91.6 - - - +
455C ASN* 1.3 71.8 + - - +
456C ILE* 3.1 18.5 + - + +
602D HIS* 5.0 7.2 - - + +
605D GLU* 3.5 33.9 - - + -
606D THR* 5.4 2.7 - - - +
609D MET* 3.5 28.9 - - - +
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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
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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