Contacts of the strand formed by residues 591 - 604 (chain C) in PDB entry 6CIM
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 PHE 591 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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574C ILE* 4.3 12.1 - - + -
578C MET* 4.0 21.3 - - + -
587C LEU 4.0 11.0 - - - -
588C ASN* 4.1 7.4 - - - -
589C GLY 3.0 12.8 + - - -
590C PRO* 1.3 72.2 - - - +
592C THR* 1.3 56.0 + - - +
593C VAL 4.1 0.2 - - - -
629C ILE* 4.3 17.3 - - + -
630C THR 3.2 9.9 - - - +
631C ILE* 3.5 37.9 - - + +
640C VAL* 5.0 2.0 - - + -
691C MET* 5.2 1.6 - - + -
696C ARG* 3.6 28.0 - - + -
697C THR 2.7 27.4 + - - -
698C PHE* 3.2 32.2 - + + +
699C LYS* 2.7 33.4 + - - +
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Residues in contact with THR 592 (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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590C PRO 3.7 2.9 + - - -
591C PHE* 1.3 72.4 - - - +
593C VAL* 1.3 65.6 + - - +
594C VAL* 4.1 5.6 + - + +
628C ARG 3.7 1.2 - - - +
629C ILE* 3.3 4.0 - - - +
630C THR* 2.8 50.0 + - + +
637C ASN* 5.7 0.7 + - - -
699C LYS* 3.2 35.9 - - + +
701C ILE* 3.9 31.0 - - + -
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Residues in contact with VAL 593 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
567C LEU* 4.4 7.6 - - + -
592C THR* 1.3 75.5 - - - +
594C VAL* 1.3 59.0 + - - +
595C VAL* 3.9 8.7 + - + -
626C VAL* 3.7 29.2 - - + -
628C ARG 3.5 2.5 - - - -
629C ILE* 3.8 19.1 - - + -
698C PHE* 4.0 28.0 - - + -
699C LYS 2.9 7.9 + - - +
700C PHE* 3.3 38.9 - - + +
701C ILE 2.8 31.2 + - - +
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Residues in contact with VAL 594 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
592C THR* 4.9 5.2 - - + +
593C VAL* 1.3 74.3 - - - +
595C VAL* 1.3 66.5 + - - +
626C VAL* 3.8 1.7 - - - -
627C MET* 2.8 40.5 + - + -
628C ARG* 2.8 52.5 + - + +
630C THR* 6.3 2.2 - - + -
701C ILE* 3.5 26.0 - - + +
703C ARG* 4.1 23.8 - - - -
956C TRP* 4.6 5.4 - - + -
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Residues in contact with VAL 595 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
559C TYR* 4.4 2.5 - - - +
563C LEU* 4.1 20.6 - - + -
593C VAL* 4.1 18.4 - - + +
594C VAL* 1.3 80.0 - - - +
596C LYS* 1.3 72.0 + - - +
597C GLU* 3.4 1.0 + - - +
624C PHE* 3.9 24.5 - - + -
625C THR 3.5 4.9 - - - +
626C VAL* 4.8 6.1 - - + -
700C PHE* 4.3 8.3 - - + -
701C ILE 2.8 13.1 + - - +
702C PHE* 3.6 25.4 - - + -
703C ARG* 2.9 27.5 + - - -
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Residues in contact with LYS 596 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
594C VAL* 4.9 0.4 - - - +
595C VAL* 1.3 70.4 - - - +
597C GLU* 1.3 66.6 + - - +
598C SER* 5.1 6.5 - - - -
624C PHE* 3.4 5.2 - - - +
625C THR* 2.9 53.5 + - - +
627C MET* 3.5 22.6 - - + +
646C PRO* 3.2 24.5 + - - +
647C ASN* 3.5 12.7 + - - +
703C ARG 3.5 7.2 - - - +
705C THR* 3.5 25.4 - - - +
706C GLY* 4.3 6.3 - - - +
955C ALA 3.5 19.3 + - - +
956C TRP* 3.7 22.8 - - + +
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Residues in contact with GLU 597 (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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559C TYR* 3.5 21.7 + - - +
595C VAL* 3.4 3.8 + - + +
596C LYS* 1.3 72.3 - - - +
598C SER* 1.3 63.1 + - - +
622C PHE* 3.1 27.3 - - + -
623C SER 3.9 5.4 - - - +
624C PHE* 4.6 1.3 - - - +
676C ILE* 4.2 7.4 - - - +
679C ARG* 2.7 41.4 + - - -
702C PHE* 4.3 4.0 - - + +
703C ARG 2.9 9.1 + - - +
704C GLY* 3.4 21.4 - - - +
706C GLY 3.1 22.0 + - - -
707C TYR* 2.8 25.3 + - - -
785C ILE* 4.7 1.9 - - - +
786C GLU 5.4 0.2 - - - +
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Residues in contact with SER 598 (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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596C LYS* 5.1 9.2 - - - -
597C GLU* 1.3 76.8 - - - +
599C CYS* 1.3 65.9 + - - +
600C ASP* 5.8 0.2 - - - +
621C ARG* 3.9 14.4 + - - -
622C PHE* 3.6 7.0 - - - -
623C SER* 3.0 45.8 + - - +
624C PHE* 5.2 0.7 - - - -
625C THR* 5.8 1.8 - - - -
652C CYS* 5.1 5.9 - - - -
706C GLY* 3.2 19.2 + - - -
707C TYR* 4.5 2.5 - - - -
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Residues in contact with CYS 599 (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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598C SER* 1.3 77.4 + - - +
600C ASP* 1.3 68.6 + - - +
620C VAL* 3.9 17.7 - - - -
621C ARG* 3.5 14.8 - - - +
622C PHE* 3.9 18.8 - - + -
668C LEU* 5.6 0.9 - - - -
672C LEU* 4.4 13.2 - - - -
706C GLY 2.8 17.7 + - - +
707C TYR* 3.5 30.3 - - + -
708C ASP 4.6 1.7 + - - -
711C LEU* 3.3 24.4 - - + +
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Residues in contact with ASP 600 (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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599C CYS* 1.3 78.4 - - - +
601C GLY* 1.3 71.6 + - - +
602C MET* 4.5 1.9 - - + +
620C VAL* 3.5 6.5 - - - +
621C ARG* 3.0 50.5 + - - +
662C GLU* 4.6 0.2 - - - +
708C ASP* 3.5 6.6 - - - +
711C LEU* 4.0 4.9 - - - -
961C ASN* 3.6 21.8 - - + +
1102C MN 2.2 37.0 + - - -
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Residues in contact with GLY 601 (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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600C ASP* 1.3 94.8 + - - +
602C MET* 1.3 61.6 + - - +
603C GLY 3.5 3.6 + - - -
619C ALA 3.3 9.2 - - - -
620C VAL* 4.2 5.5 - - - +
662C GLU* 3.6 32.3 + - - +
711C LEU* 4.8 0.2 - - - +
961C ASN 5.8 0.2 - - - +
42G T 4.6 4.0 + - - -
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Residues in contact with MET 602 (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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600C ASP* 4.5 2.5 - - + +
601C GLY* 1.3 76.3 - - - +
603C GLY* 1.3 61.9 + - - +
604C ASP 4.0 1.0 - - - +
605C VAL* 4.4 3.4 - - + +
619C ALA* 2.6 38.0 + - + +
620C VAL 4.3 2.5 - - - +
621C ARG* 3.9 40.2 - - + +
657C LEU* 4.4 1.1 - - + -
961C ASN 5.3 3.1 - - - +
964C GLY* 3.8 27.1 - - - +
965C ASN* 2.8 37.9 + - - +
968C PHE* 3.3 36.1 - - + -
991C HIS* 6.3 1.3 - - - -
42G T 3.6 10.3 + - - -
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Residues in contact with GLY 603 (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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601C GLY 3.5 4.4 + - - -
602C MET* 1.3 79.3 - - - +
604C ASP* 1.3 60.7 + - - -
605C VAL 3.5 0.7 + - - -
618C LYS* 3.1 44.7 - - - +
619C ALA 3.7 1.6 + - - -
42G T 3.4 16.3 + - - -
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Residues in contact with ASP 604 (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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609A HIS* 5.2 14.2 - - + -
603C GLY* 1.3 70.7 - - - -
605C VAL* 1.3 57.5 + - - +
606C SER* 2.8 41.8 + - - +
615C VAL 4.3 1.7 - - - +
616C PRO* 3.3 32.0 - - + +
617C GLU 3.6 4.3 + - - -
618C LYS* 4.2 6.7 - - - +
965C ASN* 2.7 29.9 + - - +
969C ARG* 4.2 8.2 + - - -
41G G 4.7 7.9 + - - +
42G T 4.3 2.2 + - - -
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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