Contacts of the strand formed by residues 526 - 540 (chain B) 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 LYS 526 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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522B VAL 5.0 0.2 - - - +
524B GLY* 3.4 2.5 - - - +
525B THR* 1.3 79.6 - - + +
527B ASN* 1.3 69.7 + - - +
581B SER* 4.8 0.3 + - - -
582B PRO* 3.7 20.0 - - + +
662B ASN* 3.1 50.1 + - - +
663B GLU* 3.4 23.9 + - - +
664B ASP 4.5 1.8 - - - +
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Residues in contact with ASN 527 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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520B LEU* 3.6 8.8 - - - +
521B ASP* 3.6 8.8 - - - -
522B VAL* 3.0 54.7 + - - +
524B GLY 3.6 3.9 + - - -
525B THR 4.1 2.5 - - - +
526B LYS* 1.3 84.2 + - - +
528B SER* 1.3 66.5 + - - +
579B PHE* 5.1 4.6 - - + +
580B THR 3.2 17.6 + - - +
581B SER* 4.1 1.0 - - - +
582B PRO* 5.3 0.9 - - - -
660B ILE 3.8 0.5 - - - +
662B ASN* 3.2 7.1 + - - -
663B GLU 2.7 33.3 + - - +
665B LEU* 3.8 17.9 + - + +
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Residues in contact with SER 528 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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527B ASN* 1.3 70.9 - - - +
529B PHE* 1.3 62.7 + - - +
530B GLN* 6.4 0.2 - - - -
558B GLN* 5.5 5.6 - - - -
559B TYR 5.9 1.1 - - - -
579B PHE* 3.5 4.7 - - - -
580B THR* 2.8 44.5 + - - -
660B ILE 4.0 4.3 - - - -
661B GLU* 3.8 6.7 - - - +
662B ASN* 3.0 25.3 + - - +
665B LEU* 3.7 10.2 - - - +
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Residues in contact with PHE 529 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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528B SER* 1.3 76.8 - - - +
530B GLN* 1.3 68.7 + - - +
531B THR* 3.5 17.5 - - + -
558B GLN* 4.3 2.4 - - - +
559B TYR* 3.5 59.2 + + + +
565B ALA* 3.9 15.0 - - + -
567B PHE* 3.8 29.6 - + - -
577B LEU* 4.1 3.6 - - + -
578B LEU 3.3 21.3 - - - -
579B PHE* 3.6 31.4 - + + +
622B LEU* 4.1 13.0 - - + -
624B VAL* 4.3 4.9 - - + -
660B ILE* 4.5 12.8 + - + -
665B LEU* 3.9 15.5 - - + +
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Residues in contact with GLN 530 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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528B SER* 6.4 0.2 - - - -
529B PHE* 1.3 76.9 - - - +
531B THR* 1.3 68.0 + - - +
532B LEU* 4.0 14.2 - - + +
556B GLN* 4.2 3.8 - - - +
557B THR 3.3 14.1 - - - +
558B GLN* 3.2 30.2 + - - +
559B TYR* 3.9 2.2 - - - -
578B LEU* 2.8 52.7 + - + +
580B THR* 3.1 35.3 + - + +
590B LYS* 4.5 17.0 - - - +
592B SER* 4.7 1.6 + - - -
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Residues in contact with THR 531 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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529B PHE* 3.5 23.1 - - + -
530B GLN* 1.3 81.7 - - - +
532B LEU* 1.3 70.6 + - - +
555B GLU 4.0 0.2 - - - +
556B GLN* 4.4 0.2 - - - +
557B THR* 2.9 39.0 + - - +
559B TYR* 2.8 32.8 + - + +
567B PHE* 4.5 0.4 - - + -
574B PRO* 3.7 25.3 - - + +
576B TYR 3.0 15.5 - - - +
577B LEU* 3.8 5.4 - - + -
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Residues in contact with LEU 532 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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674A LEU* 5.0 0.2 - - - +
676A ILE* 3.6 31.4 - - + -
530B GLN* 4.0 13.0 - - - +
531B THR* 1.3 85.5 - - - +
533B GLN* 1.3 60.2 + - - +
554B LEU* 4.0 13.7 - - + -
555B GLU 3.3 5.2 - - - +
556B GLN* 3.9 22.9 - - + -
574B PRO* 4.3 3.5 - - - +
575B LYS* 4.1 6.9 + - - +
576B TYR* 3.2 33.0 + - + +
578B LEU* 3.6 26.9 - - + -
699B PHE* 3.8 19.3 - - + -
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Residues in contact with GLN 533 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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509A ILE* 4.7 0.4 - - - +
674A LEU* 4.5 8.3 - - - -
532B LEU* 1.3 74.3 - - - +
534B MET* 1.3 65.3 + - - +
554B LEU* 3.8 7.1 - - - +
555B GLU* 2.9 54.1 + - - +
574B PRO* 5.8 5.2 - - + -
575B LYS* 5.8 1.6 - - - +
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Residues in contact with MET 534 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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509A ILE* 4.0 9.0 - - + -
511A THR* 4.7 6.7 - - - +
603A GLN 4.6 4.9 - - - +
604A VAL* 3.8 44.0 - - + +
674A LEU* 3.9 29.1 - - + +
533B GLN* 1.3 78.8 - - - +
535B LYS* 1.3 73.8 + - - +
536B LEU* 3.8 8.7 - - + -
552B PRO* 3.6 37.5 - - + -
553B THR 3.4 7.9 - - - +
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Residues in contact with LYS 535 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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533B GLN* 4.0 0.8 + - + -
534B MET* 1.3 80.7 - - - +
536B LEU* 1.3 72.9 + - - +
553B THR* 2.7 48.5 + - - +
555B GLU* 4.3 26.0 - - + +
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Residues in contact with LEU 536 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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604A VAL 3.4 27.6 - - - +
605A LEU* 4.7 5.2 - - + -
606A PRO* 3.6 33.2 - - + -
534B MET* 3.8 13.9 - - + -
535B LYS* 1.3 89.0 - - - +
537B GLU* 1.3 65.4 + - - +
550B VAL* 4.0 7.6 - - + -
551B GLN* 3.2 25.8 - - - +
552B PRO* 3.6 9.0 - - + -
553B THR* 4.8 0.4 - - - -
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Residues in contact with GLU 537 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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496A ARG* 2.9 28.1 + - - +
497A HIS* 3.2 7.9 + - - -
535B LYS 3.8 0.4 + - - -
536B LEU* 1.3 76.5 - - - +
538B ASN* 1.3 60.4 + - - +
539B ILE* 3.7 29.0 - - + +
550B VAL* 3.2 7.5 - - - +
551B GLN* 2.9 68.6 + - + +
553B THR* 3.6 16.6 - - + -
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Residues in contact with ASN 538 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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537B GLU* 1.3 75.9 - - - +
539B ILE* 1.3 62.6 + - - +
548B ARG* 3.1 25.7 + - - +
549B VAL 3.4 2.9 - - - -
550B VAL* 3.7 17.9 - - + +
1G NAG 1.4 64.6 + - - +
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Residues in contact with ILE 539 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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367A MET* 4.5 14.1 - - + -
537B GLU* 3.7 40.2 - - + +
538B ASN* 1.3 78.5 - - - +
540B THR* 1.3 69.6 + - - +
542B PRO* 4.9 2.9 - - + -
548B ARG* 3.2 16.9 + - - +
549B VAL* 2.8 49.6 + - + +
551B GLN* 4.3 9.6 - - - +
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Residues in contact with THR 540 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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539B ILE* 1.3 83.5 - - - +
541B ASN* 1.3 70.9 + - - +
542B PRO* 3.0 12.8 - - + +
545B PRO* 3.4 40.2 - - + +
547B HIS 3.8 4.5 - - - +
548B ARG* 3.4 19.6 + - - +
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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
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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