Contacts of the strand formed by residues 576 - 584 (chain A) in PDB entry 3HIG
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 TYR 576 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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531A THR* 3.1 30.5 - - - +
532A LEU* 3.1 26.7 + - + +
574A PRO 3.3 0.2 - - - -
575A LYS* 1.3 82.8 - - + +
577A LEU* 1.3 63.1 + - - +
578A LEU* 3.9 7.0 - - + -
594A ARG* 3.4 44.2 + - - +
699A PHE* 3.6 34.8 - + - -
674B LEU* 3.2 35.2 + - + -
675B HIS* 3.5 5.7 - - - -
676B ILE* 2.8 51.7 + - + -
678B HIS* 5.3 2.3 + + - -
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Residues in contact with LEU 577 (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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529A PHE* 4.2 12.6 - - + -
530A GLN 4.1 2.2 - - - -
531A THR* 3.8 20.4 - - + -
567A PHE* 4.7 0.9 - - + -
573A LEU* 4.1 25.6 - - + -
574A PRO* 3.6 32.5 - - + +
575A LYS 4.1 1.7 + - - -
576A TYR* 1.3 72.8 - - - +
578A LEU* 1.3 61.5 + - - +
579A PHE* 4.3 1.4 - - - -
593A TYR 3.9 0.5 - - - +
594A ARG* 3.3 4.9 - - - +
595A LEU* 2.9 56.8 + - + +
596A GLN* 5.6 0.4 - - - -
597A ILE* 4.4 13.7 - - + +
622A LEU* 4.0 26.9 - - + -
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Residues in contact with LEU 578 (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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529A PHE* 3.1 10.5 - - - -
530A GLN* 2.9 73.6 + - + +
532A LEU* 3.8 15.5 - - + -
576A TYR* 4.4 13.7 - - + +
577A LEU* 1.3 83.4 - - - +
579A PHE* 1.3 63.7 + - - +
580A THR* 3.9 6.2 + - + -
592A SER* 4.3 4.9 - - - +
593A TYR 3.6 2.9 - - - +
594A ARG* 3.7 25.8 - - + -
699A PHE* 3.6 40.6 - - + -
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Residues in contact with PHE 579 (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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520A LEU* 3.7 33.9 - - + -
522A VAL* 3.6 17.2 - - + +
527A ASN* 5.1 4.5 - - + -
528A SER 3.5 3.1 - - - +
529A PHE* 3.5 35.0 - + - -
577A LEU 4.3 4.3 - - - -
578A LEU* 1.3 72.6 - - - +
580A THR* 1.3 60.7 + - - +
592A SER* 3.2 2.0 - - - -
593A TYR 2.9 40.0 + - - +
595A LEU* 4.2 24.7 - - + -
622A LEU* 4.6 3.8 - - + -
624A VAL* 3.9 25.4 - - + -
665A LEU* 4.4 19.5 - - + -
667A ALA* 3.7 24.7 - - + -
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Residues in contact with THR 580 (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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522A VAL* 4.8 0.7 - - - -
527A ASN* 3.1 13.4 - - - -
528A SER* 2.9 44.9 + - - +
530A GLN* 3.8 36.5 - - + +
578A LEU* 4.1 6.1 - - + +
579A PHE* 1.3 76.7 - - - +
581A SER* 1.3 66.1 + - - +
582A PRO* 4.4 0.3 - - - +
590A LYS* 4.5 8.5 - - + +
591A ARG 3.5 4.7 - - - -
592A SER* 3.2 22.4 - - - +
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Residues in contact with SER 581 (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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522A VAL* 3.6 23.7 + - - +
523A ALA* 4.1 9.3 + - - +
526A LYS 4.8 0.5 + - - -
527A ASN* 4.0 3.4 - - - +
580A THR* 1.3 77.9 - - - +
582A PRO* 1.3 77.1 - - - +
583A GLN* 3.2 32.3 + - - +
590A LYS* 3.7 15.9 - - - +
591A ARG* 2.9 20.4 + - - +
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Residues in contact with PRO 582 (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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526A LYS* 3.6 16.6 - - + +
527A ASN* 5.2 0.4 - - - -
580A THR 4.6 1.1 - - - +
581A SER* 1.3 89.9 - - - +
583A GLN* 1.3 61.1 + - + +
584A GLU* 3.6 10.9 + - - +
590A LYS* 4.4 6.8 - - + +
662A ASN* 3.7 21.3 - - - +
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Residues in contact with GLN 583 (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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344A GLU* 5.5 1.2 + - - -
523A ALA* 3.6 25.2 + - - +
581A SER* 3.1 15.9 + - - +
582A PRO* 1.3 80.7 - - + +
584A GLU* 1.3 60.8 + - - +
590A LYS* 3.6 1.0 - - - -
591A ARG* 2.8 62.6 + - - +
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Residues in contact with GLU 584 (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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582A PRO 3.6 7.1 + - - +
583A GLN* 1.3 78.5 - - - +
585A ASN* 1.3 69.9 + - - +
588A GLY* 3.7 29.6 - - - +
589A HIS 3.2 12.3 - - - +
590A LYS* 4.2 9.9 - - + +
591A ARG* 3.8 8.7 - - - -
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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