Contacts of the helix formed by residues 637 - 654 (chain C) in PDB entry 6UZA
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 637 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
623B LEU* 4.0 27.6 - - + -
626B SER* 5.2 3.1 - - - -
627B LEU* 5.7 2.5 - - + -
633C ASP* 3.1 26.7 - - + -
634C ILE 3.2 6.5 + - - +
636C LYS* 1.3 87.0 - - + +
638C MET* 1.3 61.1 + - - +
639C VAL 3.1 3.0 + - - -
640C ILE* 3.4 13.3 + - + +
641C PHE* 3.0 27.1 + - + +
718C VAL* 5.1 10.2 - - + +
721C ASN* 3.9 25.6 - - - -
722C MET* 3.9 42.4 - - + -
725C ALA* 3.8 27.1 - - + -
726C MET* 5.0 4.3 - - + -
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Residues in contact with MET 638 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
634C ILE* 3.0 44.1 + - + +
635C PHE* 4.0 33.4 - - + +
636C LYS 3.5 0.6 - - - -
637C PHE* 1.3 77.2 - - - +
639C VAL* 1.3 55.8 + - + +
641C PHE* 3.5 11.4 - - + +
642C ILE* 2.9 37.9 + - + +
1004C SBJ 5.6 9.6 - - + -
713D VAL* 5.0 15.9 - - + -
717D ILE* 5.1 1.8 - - + -
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Residues in contact with VAL 639 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
620B PHE* 3.7 43.5 - - + -
635C PHE 3.9 15.7 - - - +
636C LYS 4.0 1.6 - - - +
637C PHE 3.1 0.8 - - - -
638C MET* 1.3 75.2 - - + +
640C ILE* 1.3 61.2 + - - +
642C ILE* 3.2 15.2 - - + +
643C MET* 3.0 52.0 + - + +
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Residues in contact with ILE 640 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
614B LEU* 4.8 15.7 - - + -
620B PHE* 5.1 5.8 - - + +
623B LEU* 4.2 29.2 - - + -
624B GLN 5.0 0.2 - - - +
627B LEU* 4.0 32.1 - - + -
1003B S9Y 4.8 20.4 - - + +
636C LYS 4.9 6.3 - - - +
637C PHE* 3.4 12.4 + - + +
639C VAL* 1.3 75.5 - - + +
641C PHE* 1.3 65.8 + - - +
643C MET* 3.3 18.9 + - + +
644C VAL* 3.1 34.0 + - + +
718C VAL* 4.9 9.2 - - + -
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Residues in contact with PHE 641 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
637C PHE 3.0 18.1 + - - +
638C MET* 3.5 14.8 - - + +
640C ILE* 1.3 77.3 - - - +
642C ILE* 1.3 61.8 + - + +
644C VAL* 3.4 1.0 + - - -
645C PHE* 2.9 35.8 + + - +
682C ILE* 3.7 40.4 - - + -
715C MET* 3.5 36.0 - - + +
718C VAL* 4.0 21.4 - - + +
719C LEU* 3.6 30.5 - - + -
722C MET* 6.4 0.9 - - - -
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Residues in contact with ILE 642 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
638C MET* 2.9 24.6 + - + +
639C VAL* 3.2 22.2 - - + +
641C PHE* 1.3 79.4 - - + +
643C MET* 1.3 61.3 + - + +
645C PHE* 3.9 8.1 - - + -
646C VAL* 2.9 39.4 + - + +
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Residues in contact with MET 643 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607B PHE* 4.6 6.2 - - + -
610B ILE* 3.7 39.5 - - + -
614B LEU* 4.0 29.6 - - + -
620B PHE* 5.9 0.7 - - + -
1003B S9Y 4.6 22.6 - - + +
1005B Y01 4.8 12.8 - - + -
639C VAL* 3.0 42.5 + - + +
640C ILE* 3.3 16.1 + - + +
642C ILE* 1.3 79.2 - - + +
644C VAL* 1.3 62.8 + - - +
646C VAL* 4.0 3.1 - - - +
647C ALA* 3.0 24.8 + - - +
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Residues in contact with VAL 644 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1003B S9Y 3.8 31.2 - - + -
640C ILE* 3.1 24.1 + - + +
641C PHE* 5.2 0.2 - - - -
643C MET* 1.3 73.8 - - - +
645C PHE* 1.3 62.3 + - - +
647C ALA* 3.4 0.7 + - - +
648C PHE* 3.1 53.9 + - + +
711C TYR* 4.9 1.6 - - + -
714C THR* 3.8 25.1 - - + -
715C MET* 3.7 21.8 - - + -
718C VAL* 4.9 8.1 - - + -
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Residues in contact with PHE 645 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
641C PHE* 2.9 29.0 + + + +
642C ILE* 3.8 11.7 - - + +
643C MET 3.3 0.2 - - - -
644C VAL* 1.3 77.7 - - - +
646C VAL* 1.3 61.3 + - + +
648C PHE* 3.9 0.5 - - - -
649C MET* 2.9 42.6 + - + +
675C PHE* 3.4 38.4 - + - -
678C LEU* 3.3 31.3 - - + +
679C PHE* 3.4 34.3 - + + -
682C ILE* 4.3 7.0 - - + -
711C TYR* 3.4 16.6 - + - -
715C MET* 3.9 11.2 - - + +
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Residues in contact with VAL 646 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
607B PHE* 4.1 15.3 - - + -
1005B Y01 4.2 11.4 - - + -
642C ILE* 2.9 28.2 + - + +
643C MET* 4.0 3.4 - - - +
645C PHE* 1.3 74.8 - - + +
647C ALA* 1.3 66.1 + - - +
649C MET* 3.7 18.3 - - + +
650C ILE* 3.0 46.2 + - + +
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Residues in contact with ALA 647 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
603B VAL 5.0 0.3 - - - +
604B VAL* 3.9 15.4 - - - +
607B PHE* 3.7 40.0 - - + -
1003B S9Y 4.6 9.6 - - + -
643C MET 3.0 18.4 + - - +
644C VAL* 3.5 8.3 - - - +
646C VAL* 1.3 77.4 - - - +
648C PHE* 1.3 61.8 + - + +
650C ILE* 4.1 1.4 - - - +
651C GLY* 3.0 25.6 + - - -
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Residues in contact with PHE 648 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
604B VAL* 3.8 30.7 - - + -
1003B S9Y 4.0 19.1 - - + -
644C VAL* 3.1 44.8 + - + +
647C ALA* 1.3 79.7 - - + +
649C MET* 1.3 59.6 + - - +
652C MET* 3.0 39.9 + - + +
678C LEU* 3.7 17.1 - - + +
707C LEU* 3.6 34.8 - - + -
710C VAL* 3.7 26.7 - - + -
711C TYR* 3.8 26.2 - + + -
714C THR* 4.5 3.4 - - - -
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Residues in contact with MET 649 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
645C PHE* 2.9 24.5 + - + +
646C VAL* 3.7 23.3 - - + +
647C ALA 3.3 0.2 - - - -
648C PHE* 1.3 76.8 - - - +
650C ILE* 1.3 72.8 + - + +
653C PHE* 3.0 28.4 + - + +
671C VAL* 4.3 20.9 - - + +
674C SER* 3.1 33.4 + - - +
675C PHE* 3.7 37.0 - - + +
678C LEU* 3.5 10.4 - - + +
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Residues in contact with ILE 650 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457B LEU* 4.4 12.6 - - + +
458B VAL* 3.7 33.9 - - + +
603B VAL* 3.8 19.3 - - + -
607B PHE* 4.3 10.1 - - + -
1005B Y01 4.8 0.4 - - + -
646C VAL* 3.0 39.5 + - + +
647C ALA 4.2 1.6 - - - +
649C MET* 1.3 88.3 - - + +
651C GLY* 1.3 56.3 - - - +
653C PHE* 3.4 9.9 + - + +
654C ASN* 3.0 41.4 + - - +
671C VAL* 6.5 1.1 - - + -
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Residues in contact with GLY 651 (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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600B ALA* 3.3 28.0 - - - +
603B VAL* 3.8 14.8 - - - +
604B VAL* 3.7 26.0 - - - -
647C ALA 3.0 11.2 + - - -
650C ILE* 1.3 78.9 - - - +
652C MET* 1.3 61.8 + - - +
654C ASN* 3.8 1.1 + - - +
655C LEU* 3.5 5.5 + - - +
707C LEU* 4.4 1.0 - - - +
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Residues in contact with MET 652 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
648C PHE* 3.0 23.5 + - + +
649C MET 4.4 0.4 - - - +
651C GLY* 1.3 74.4 - - - +
653C PHE* 1.3 61.3 + - - +
654C ASN 3.3 0.4 - - - -
655C LEU* 3.2 7.0 + - + +
656C TYR* 3.0 36.8 + - + +
668C PHE* 3.8 34.8 - - + +
674C SER* 5.0 0.2 - - - +
678C LEU* 3.8 28.9 - - + -
691C VAL* 5.3 0.4 - - - -
704C GLY* 4.3 10.5 - - - +
707C LEU* 3.9 34.1 - - + +
708C TYR* 3.9 32.8 - - + +
711C TYR* 4.6 5.4 - - + -
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Residues in contact with PHE 653 (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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461B ALA* 3.6 22.9 - - + -
464B ARG* 3.2 39.3 - - + -
465B PHE* 4.0 15.9 - + - -
649C MET* 3.0 21.2 + - + +
650C ILE* 3.9 9.4 - - + +
652C MET* 1.3 76.9 - - - +
654C ASN* 1.3 78.0 + - - +
657C SER* 3.2 33.5 + - - -
668C PHE 3.9 7.0 - - - -
669C THR 3.5 27.4 - - - -
670C THR 4.2 3.1 - - - -
671C VAL* 4.0 20.0 - - + -
674C SER* 4.1 12.6 + - - +
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Residues in contact with ASN 654 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
457B LEU 4.3 9.8 + - - +
460B ASN* 5.9 0.6 - - - +
461B ALA* 3.6 18.9 - - - +
464B ARG* 4.3 14.6 + - - +
596B GLU* 4.7 8.3 - - - +
599B TYR* 3.5 36.0 - - + -
600B ALA* 5.0 5.4 - - - -
603B VAL* 3.9 16.8 - - - +
650C ILE* 3.0 26.4 + - - +
651C GLY* 4.0 6.3 - - - +
652C MET 3.3 0.2 - - - -
653C PHE* 1.3 92.1 - - - +
655C LEU* 1.3 60.3 + - - +
657C SER* 4.5 2.8 + - - -
658C TYR* 5.2 6.2 - - - -
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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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
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