Contacts of the helix formed by residues 591 - 603 (chain A) in PDB entry 5I4A
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 THR 591 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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586A ASN* 5.0 0.4 - - - +
589A ASP 5.1 0.9 - - - +
590A TYR* 1.3 78.4 - - - +
592A ILE* 1.3 64.6 + - - +
593A GLU* 3.2 17.8 + - - +
594A GLU* 2.8 42.0 + - - +
595A ILE* 2.9 22.6 + - - +
274C GLU 5.5 1.8 - - - +
275C SER* 4.6 14.6 - - - +
276C ARG* 4.5 3.6 - - - +
277C TYR* 4.1 22.4 - - + -
280C ASP* 4.9 3.4 - - - +
283C LYS* 5.9 0.4 - - - +
284C TYR* 5.8 2.9 - - - +
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Residues in contact with ILE 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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563A GLU* 3.5 31.0 - - + +
564A ASN* 4.3 11.7 - - - +
566A TYR* 3.5 21.3 - - + +
583A ILE* 3.6 45.1 - - + -
586A ASN* 3.8 19.1 - - + +
591A THR* 1.3 72.5 - - - +
593A GLU* 1.3 65.8 + - - +
595A ILE* 3.0 6.7 + - + +
596A ILE* 2.8 33.3 + - + +
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Residues in contact with GLU 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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560A LYS* 4.0 9.9 + - - -
563A GLU* 4.5 4.5 - - - +
566A TYR* 3.4 26.5 + - + +
591A THR* 3.2 20.5 + - - +
592A ILE* 1.3 76.9 + - - +
594A GLU* 1.3 58.4 + - + +
596A ILE* 3.5 6.4 + - - +
597A GLU* 3.1 27.9 + - - +
283C LYS* 2.7 33.6 + - - -
284C TYR* 4.8 2.3 + - - -
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Residues in contact with GLU 594 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
590A TYR* 3.3 18.0 - - + -
591A THR* 2.8 41.2 + - - +
593A GLU* 1.3 73.7 - - + +
595A ILE* 1.3 67.1 + - - +
597A GLU* 3.3 14.1 + - - +
598A GLN* 3.0 30.0 + - - +
276C ARG* 2.9 21.6 + - - -
277C TYR* 2.8 29.6 + - - -
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Residues in contact with ILE 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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512A PHE* 3.7 27.8 - - + -
538A THR* 3.9 16.2 - - + +
540A VAL* 4.6 0.4 - - + -
583A ILE* 3.7 22.0 - - + -
586A ASN* 3.4 41.5 - - + +
588A THR* 3.7 6.3 - - - +
590A TYR* 3.6 13.7 - - + -
591A THR 2.9 18.3 + - - +
592A ILE* 3.5 11.2 - - + +
594A GLU* 1.3 77.2 - - - +
596A ILE* 1.3 61.4 + - - +
598A GLN* 3.2 4.6 + - - +
599A ILE* 2.9 31.8 + - + +
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Residues in contact with ILE 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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558A ILE* 3.9 24.7 - - + -
566A TYR* 3.5 50.9 - - + -
568A TYR* 6.0 2.8 - - + -
581A VAL* 3.7 33.4 - - + +
583A ILE* 3.7 22.2 - - + -
592A ILE* 2.8 25.0 + - + +
593A GLU* 3.8 6.5 - - - +
595A ILE* 1.3 71.9 - - - +
597A GLU* 1.3 62.7 + - - +
599A ILE* 3.3 5.6 + - + +
600A TYR* 3.0 22.0 + - - +
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Residues in contact with GLU 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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264A ILE* 4.2 25.2 - - + +
433A LYS* 3.6 30.3 + - - +
437A LYS* 5.6 4.3 + - - -
558A ILE* 4.8 4.9 - - - -
593A GLU 3.1 17.4 + - - +
594A GLU* 3.7 13.4 - - - +
595A ILE 3.2 0.2 - - - -
596A ILE* 1.3 77.5 - - - +
598A GLN* 1.3 58.7 + - - +
600A TYR* 3.3 6.3 + - - +
601A LEU* 2.9 50.8 + - + +
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Residues in contact with GLN 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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434A MET* 4.5 9.5 - - - +
437A LYS* 3.5 23.0 - - - +
440A ASN* 3.4 1.9 + - - -
442A TYR* 2.6 32.8 + - + +
512A PHE* 3.1 25.5 - - + -
590A TYR* 3.2 43.2 - - - -
594A GLU* 3.0 17.8 + - - +
595A ILE 3.2 7.2 + - - +
597A GLU* 1.3 75.5 - - - +
599A ILE* 1.3 60.8 + - - +
601A LEU* 3.3 11.4 + - + +
602A LEU* 2.9 34.1 + - - +
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Residues in contact with ILE 599 (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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512A PHE* 4.8 5.8 - - + -
514A LEU* 4.1 15.9 - - + -
540A VAL* 3.6 39.9 - - + -
542A VAL* 5.2 4.0 - - + -
568A TYR* 4.7 7.0 - - + -
581A VAL* 3.6 29.4 - - + -
583A ILE* 4.6 1.1 - - + -
595A ILE* 2.9 31.4 + - + +
596A ILE* 3.7 6.1 - - - +
597A GLU 3.3 0.2 - - - -
598A GLN* 1.3 76.9 - - - +
600A TYR* 1.3 63.1 + - - +
602A LEU* 3.2 22.0 + - + +
603A THR* 3.6 9.0 - - - +
617A PRO* 3.9 20.3 - - + +
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Residues in contact with TYR 600 (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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264A ILE* 3.6 39.7 + - + -
266A VAL* 3.8 18.6 - - + +
556A GLU* 3.7 30.9 + - - +
558A ILE* 3.7 16.4 - - + -
568A TYR* 3.6 47.7 - + + -
569A TYR 5.0 1.6 - - - -
570A PRO* 4.6 12.0 - - + +
571A LYS 4.7 0.2 + - - -
596A ILE 3.0 16.3 + - - +
597A GLU* 3.7 3.6 - - - +
598A GLN 3.3 0.2 - - - -
599A ILE* 1.3 75.2 - - - +
601A LEU* 1.3 64.7 + - - +
603A THR* 2.7 40.4 + - - -
604A ARG* 4.1 16.8 + - + +
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Residues in contact with LEU 601 (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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264A ILE* 4.7 6.5 - - + -
266A VAL* 4.2 24.5 - - + -
431A LEU* 3.2 33.4 - - + +
433A LYS* 3.7 41.7 - - + +
434A MET* 3.8 25.8 - - + -
437A LYS* 5.7 0.7 - - - +
597A GLU* 2.9 39.6 + - + +
598A GLN* 3.3 8.5 + - + +
600A TYR* 1.3 76.7 - - - +
602A LEU* 1.3 57.1 + - - +
604A ARG* 2.9 20.0 + - - -
605A VAL* 3.3 3.6 + - - +
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Residues in contact with LEU 602 (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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434A MET* 4.4 7.2 - - + -
442A TYR* 3.6 50.9 - - + -
463A VAL* 4.5 3.6 - - + -
464A ASP 5.0 1.1 - - - +
514A LEU* 3.8 26.9 - - + -
598A GLN 2.9 19.0 + - - +
599A ILE* 3.3 17.7 - - + +
600A TYR 3.1 0.4 - - - -
601A LEU* 1.3 77.2 - - - +
603A THR* 1.3 58.4 + - - +
604A ARG 3.1 1.3 + - - -
605A VAL* 3.4 36.6 - - + +
617A PRO* 3.7 10.1 - - + -
618A TYR* 3.0 20.8 + - - +
619A PRO* 4.2 7.6 - - + -
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Residues in contact with THR 603 (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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568A TYR* 3.4 34.9 - - + +
570A PRO* 5.5 2.0 - - - +
599A ILE 3.6 11.0 - - - +
600A TYR* 2.7 29.5 + - - +
602A LEU* 1.3 75.6 - - - +
604A ARG* 1.3 71.9 + - - +
605A VAL 3.8 0.2 - - - -
606A ALA 4.2 1.5 - - - +
607A HIS* 5.6 0.2 + - - -
614A TYR* 3.4 41.6 + - - +
615A LYS 3.9 1.8 - - - +
616A LEU 3.6 13.2 - - - -
617A PRO 3.7 9.2 - - - -
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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