Contacts of the strand formed by residues 590 - 598 (chain A) in PDB entry 3HI7
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 590 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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530A GLN* 6.0 3.1 - - - +
580A THR* 4.6 9.4 - - + +
581A SER 3.7 18.8 - - - +
582A PRO* 4.4 12.3 - - + +
583A GLN 3.6 4.7 - - - +
584A GLU* 4.3 11.2 - - + +
588A GLY 4.2 0.8 + - - -
589A HIS* 1.3 75.1 - - - +
591A ARG* 1.3 63.7 + - - +
592A SER* 3.2 15.8 + - - +
700A ASN* 3.5 15.2 + - - +
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Residues in contact with ARG 591 (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* 2.7 39.6 + - - -
522A VAL* 3.9 1.6 - - - +
523A ALA* 4.2 4.0 - - + +
580A THR* 3.6 0.2 - - - -
581A SER* 2.8 36.9 + - - -
583A GLN* 2.8 58.8 + - - +
584A GLU 4.0 9.0 - - - -
585A ASN* 3.7 13.2 - - - +
590A LYS* 1.3 69.8 - - - +
592A SER* 1.3 58.0 + - - +
700A ASN 3.4 17.7 - - - +
701A PHE* 2.8 57.7 + - + +
702A PHE* 4.9 3.0 - - - +
703A PRO* 6.1 0.2 - - - +
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Residues in contact with SER 592 (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* 4.2 2.9 - - - -
530A GLN* 5.1 1.2 + - - -
578A LEU* 4.4 12.3 - - - +
579A PHE 3.2 12.3 - - - -
580A THR* 3.1 25.3 - - - +
590A LYS* 3.2 13.9 + - - +
591A ARG* 1.3 73.0 - - - +
593A TYR* 1.3 61.4 + - - +
699A PHE* 2.8 52.1 + - - +
701A PHE* 3.5 12.4 - - - +
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Residues in contact with TYR 593 (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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322A TRP* 4.8 1.8 - + - -
341A PHE* 4.5 2.6 - - - +
346A ILE* 3.4 52.6 - - + +
473A GLY* 2.8 33.0 + - - -
475A MET* 5.5 1.1 - - + -
520A LEU* 5.1 9.4 - - + -
522A VAL* 4.1 16.3 - - + +
577A LEU 3.9 0.3 - - - +
578A LEU* 3.6 3.8 - - - -
579A PHE* 2.9 36.2 + - - +
592A SER* 1.3 81.3 - - - +
594A ARG* 1.3 60.7 + - - +
696A LEU* 3.8 16.4 - - + -
697A ARG 3.4 21.3 - - - -
698A PRO* 3.5 28.3 - - + +
701A PHE* 3.9 17.3 - + - -
702A PHE* 3.8 9.5 - - - -
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Residues in contact with ARG 594 (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* 6.3 0.2 - - - -
575A LYS* 2.8 26.7 + - - +
576A TYR* 3.5 48.7 + - - +
577A LEU 3.3 13.9 - - - +
578A LEU* 3.6 16.2 - - + -
579A PHE* 5.6 0.2 - - - -
593A TYR* 1.3 72.8 - - - +
595A LEU* 1.3 69.2 + - - +
596A GLN* 3.8 11.5 + - - +
695A LEU 3.5 1.2 - - - +
696A LEU* 3.3 8.4 - - - -
697A ARG* 2.7 77.3 + - + +
699A PHE* 4.3 9.1 - - + +
600B MET* 3.9 24.0 - - - +
674B LEU 4.8 3.8 + - - -
678B HIS* 5.7 3.0 + - - -
690B ASN* 5.6 0.2 + - - -
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Residues in contact with LEU 595 (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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518A VAL* 5.6 1.3 - - + -
520A LEU* 5.5 0.2 - - + -
575A LYS 5.3 1.4 - - - +
577A LEU* 2.9 36.5 + - + +
579A PHE* 4.3 15.7 - - + -
593A TYR 4.1 0.6 + - - -
594A ARG* 1.3 78.5 + - - +
596A GLN* 1.3 62.2 + - - +
597A ILE* 4.1 17.0 - - + -
622A LEU* 3.7 37.0 - - + -
667A ALA* 4.9 2.9 - - + -
669A VAL* 3.8 17.7 - - + -
694A PHE* 3.5 40.6 - - + -
695A LEU 3.4 3.4 - - - +
696A LEU* 3.8 13.0 - - + -
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Residues in contact with GLN 596 (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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575A LYS 6.1 0.7 - - - -
577A LEU* 5.6 0.2 - - - -
594A ARG* 3.8 15.5 - - + +
595A LEU* 1.3 74.0 - - - +
597A ILE* 1.3 63.3 + - - +
598A HIS* 3.3 28.4 + - + +
694A PHE* 3.1 3.3 - - - -
695A LEU* 2.7 50.4 + - + +
697A ARG* 2.7 36.3 + - - -
600B MET* 3.6 29.7 - - - +
689B GLY* 3.3 25.5 + - - -
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Residues in contact with ILE 597 (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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573A LEU* 4.3 24.2 - - + -
577A LEU* 4.5 5.7 - - + +
595A LEU* 4.1 24.2 - - + -
596A GLN* 1.3 77.5 - - - +
598A HIS* 1.3 68.7 + - - +
599A SER* 3.8 24.4 + - - -
621A PRO* 3.7 31.0 - - + +
622A LEU* 4.5 4.5 - - + -
669A VAL* 4.0 14.6 - - + -
670A THR 4.4 3.8 - - - +
671A VAL* 3.9 14.1 - - + -
693A GLY 3.9 2.7 - - - -
694A PHE* 4.0 1.1 - - + -
600B MET* 6.2 0.2 - - - +
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Residues in contact with HIS 598 (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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476A GLU* 4.5 8.6 + - - -
596A GLN* 3.3 29.9 + - + -
597A ILE* 1.3 80.1 - - - +
599A SER* 1.3 62.0 + - - +
691A SER 5.8 0.9 - - - +
692A VAL* 3.5 9.0 - - - +
693A GLY 2.8 43.1 + - - +
695A LEU* 3.1 32.7 - - + +
689B GLY* 5.6 2.9 - - - -
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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
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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