Contacts of the helix formed by residues 633 - 651 (chain A) in PDB entry 1UWH
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 SER 633 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
572A ILE* 4.1 20.1 - - - +
632A TYR* 1.3 77.4 - - - +
634A PHE* 1.3 67.9 + - - +
635A GLN* 3.3 15.1 + - - +
636A SER* 2.8 36.0 + - - -
637A ASP 3.2 3.3 + - - -
700A ARG* 3.4 25.0 + - - +
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Residues in contact with PHE 634 (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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567A HIS* 3.5 72.8 - + + +
570A SER* 4.5 9.0 - - - -
571A ILE 4.4 4.5 - - - -
572A ILE* 4.0 20.6 - - + -
633A SER* 1.3 75.2 - - - +
635A GLN* 1.3 65.5 + - - +
637A ASP 3.3 1.2 + - - -
638A VAL* 3.1 25.9 + - - +
705A LEU* 3.9 26.9 - - + -
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Residues in contact with GLN 635 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
633A SER* 3.0 11.2 + - - +
634A PHE* 1.3 79.5 + - - +
636A SER* 1.3 65.6 + - - +
638A VAL* 3.1 8.4 + - - +
639A TYR 3.0 18.0 + - - -
700A ARG* 3.2 50.8 - - + +
701A ASP* 4.9 4.9 + - - +
703A ARG* 3.2 31.7 + - + +
705A LEU* 3.1 30.6 - - + +
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Residues in contact with SER 636 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
572A ILE* 4.5 0.5 - - - +
618A TRP 4.8 1.9 - - - +
620A ALA* 4.4 8.4 + - - +
622A GLU* 4.2 11.1 + - - -
623A VAL* 4.0 26.0 - - - -
631A PRO 4.4 0.2 - - - -
632A TYR* 3.7 15.2 - - - +
633A SER* 2.8 38.3 + - - -
635A GLN* 1.3 75.2 - - - +
637A ASP* 1.3 67.1 + - - +
639A TYR* 3.3 5.2 + - - +
640A ALA* 3.2 19.2 + - - +
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Residues in contact with ASP 637 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
563A MET* 3.4 17.8 - - + +
567A HIS* 2.9 33.0 + - + +
572A ILE* 3.6 10.5 - - - +
573A HIS* 2.8 27.5 + - - +
574A ARG* 3.1 25.2 + - - -
575A ASP 4.7 0.2 + - - -
576A LEU* 3.9 6.0 - - - +
633A SER 3.2 1.2 + - - +
634A PHE 3.6 3.8 - - - +
635A GLN 3.1 0.2 - - - -
636A SER* 1.3 82.2 + - - +
638A VAL* 1.3 66.7 + - - +
639A TYR 3.1 0.2 - - - -
640A ALA* 3.2 8.5 + - - +
641A PHE* 2.8 22.2 + - - +
706A PHE* 4.2 2.0 - - + -
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Residues in contact with VAL 638 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
634A PHE 3.1 17.3 + - - +
635A GLN* 3.1 12.3 + - - +
637A ASP* 1.3 76.6 - - - +
639A TYR* 1.3 58.3 + - - +
641A PHE* 3.2 3.8 + - - +
642A GLY 2.8 23.0 + - - -
695A CYS* 3.6 36.3 - - + +
703A ARG* 4.3 6.3 - - + -
704A PRO* 3.1 30.3 - - + +
705A LEU* 4.3 4.5 - - + -
706A PHE* 3.6 28.3 - - + -
709A ILE* 3.7 6.7 - - + -
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Residues in contact with TYR 639 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
617A LEU 4.6 2.0 - - - -
618A TRP 3.6 8.5 - - - -
619A MET 3.4 17.9 + - - -
620A ALA* 3.4 26.7 - - + -
621A PRO* 3.8 19.5 - - + +
635A GLN 3.0 5.9 + - - -
636A SER 3.4 9.6 - - - +
637A ASP 3.1 0.2 - - - -
638A VAL* 1.3 75.1 - - - +
640A ALA* 1.3 60.2 + - - +
642A GLY* 2.7 18.0 + - - -
643A ILE* 3.0 30.8 + - + +
655A TYR* 3.9 17.8 + - - -
668A VAL* 4.6 6.8 - - - +
674A SER* 5.6 0.3 - - - -
675A PRO* 4.1 8.1 - - - +
695A CYS 3.4 7.8 + - - -
696A LEU* 3.3 41.3 + - + +
698A LYS* 6.2 0.2 - - + -
703A ARG* 3.5 26.9 - - - +
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Residues in contact with ALA 640 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
574A ARG 6.5 0.2 - - - -
575A ASP* 6.1 0.2 - - - -
576A LEU* 3.3 36.1 - - + +
618A TRP* 3.4 27.3 + - + +
636A SER 3.2 8.0 + - - +
637A ASP* 3.2 10.8 + - - +
639A TYR* 1.3 78.6 - - - +
641A PHE* 1.3 58.2 + - - +
643A ILE* 2.8 21.7 + - - +
644A VAL* 2.9 13.8 + - - +
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Residues in contact with PHE 641 (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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556A ALA* 3.8 25.6 - - - -
559A THR* 3.9 21.1 - - + -
560A ALA* 3.9 21.1 - - + -
563A MET* 5.0 0.2 - - + -
576A LEU* 3.8 11.8 - - + +
637A ASP 2.8 13.1 + - - +
638A VAL 3.3 7.9 - - - +
640A ALA* 1.3 76.2 - - - +
642A GLY* 1.3 57.1 + - - +
644A VAL* 3.1 12.2 + - + +
645A LEU* 3.0 56.2 + - + +
695A CYS* 4.3 12.3 - - - -
706A PHE* 3.5 26.7 - + + -
709A ILE* 3.6 22.0 - - + -
713A ILE* 4.1 7.9 - - + -
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Residues in contact with GLY 642 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
638A VAL 2.8 10.6 + - - -
639A TYR 2.7 10.7 + - - -
641A PHE* 1.3 79.1 - - - +
643A ILE* 1.3 58.4 + - - -
645A LEU* 3.3 9.9 + - - +
646A TYR* 3.1 20.1 + - - +
692A MET* 4.0 7.1 - - - +
695A CYS* 3.7 19.3 - - - -
696A LEU* 3.5 13.4 - - - +
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Residues in contact with ILE 643 (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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617A LEU 3.3 25.6 - - - +
618A TRP* 3.3 31.6 - - + +
639A TYR* 3.0 29.7 + - + +
640A ALA 2.8 8.5 + - - +
642A GLY* 1.3 73.2 - - - +
644A VAL* 1.3 65.4 + - - +
646A TYR* 3.3 5.7 + - + +
647A GLU* 3.2 20.5 + - - +
654A PRO* 3.7 24.5 - - + -
655A TYR* 4.8 1.1 - - - +
675A PRO* 3.7 23.1 - - + -
696A LEU* 3.3 20.2 - - + -
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Residues in contact with VAL 644 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
536A LEU* 4.0 25.6 - - + -
559A THR* 5.3 5.6 - - + +
576A LEU* 4.6 7.9 - - + -
577A LYS* 4.1 9.0 - - - -
578A SER* 3.8 23.6 - - - +
581A ILE* 4.7 10.3 - - + -
618A TRP* 4.0 5.8 - - - +
640A ALA 2.9 16.3 + - - +
641A PHE* 3.1 22.2 + - + +
643A ILE* 1.3 75.6 - - - +
645A LEU* 1.3 66.7 + - - +
647A GLU* 2.9 20.9 + - - +
648A LEU* 3.0 20.4 + - + +
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Residues in contact with LEU 645 (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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556A ALA* 3.7 30.5 - - + -
641A PHE* 3.0 44.2 + - + +
642A GLY* 3.6 9.4 - - - +
644A VAL* 1.3 77.4 - - + +
646A TYR* 1.3 63.1 + - - +
648A LEU* 3.3 9.3 + - + +
649A MET* 2.9 31.4 + - - +
688A MET* 4.0 17.9 - - - -
691A LEU* 4.3 17.3 - - + +
692A MET* 3.9 34.5 - - + +
695A CYS* 4.8 0.9 - - - -
713A ILE* 5.2 0.9 - - + -
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Residues in contact with TYR 646 (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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642A GLY 3.1 12.6 + - - +
643A ILE* 3.3 13.0 - - + +
644A VAL 3.1 0.2 - - - -
645A LEU* 1.3 77.4 - - - +
647A GLU* 1.3 53.6 + - - +
650A THR* 2.7 67.9 + - + +
652A GLN* 3.8 11.9 - - + -
653A LEU 4.1 2.4 + - - -
654A PRO* 3.8 38.2 - - + +
655A TYR 5.3 1.2 + - - -
675A PRO* 4.0 14.4 - - + -
676A ASP* 3.3 38.9 + - - +
677A LEU* 4.1 14.6 - - + -
679A LYS* 3.3 30.0 + - - +
680A VAL* 5.4 0.2 - - + -
692A MET* 3.9 12.1 - - + -
696A LEU* 5.0 3.4 - - + -
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Residues in contact with GLU 647 (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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540A LEU* 3.9 16.4 - - + +
541A HIS* 2.6 25.5 + - + -
578A SER* 2.5 35.2 + - - -
618A TRP* 2.7 36.1 + - - -
643A ILE* 3.2 15.3 - - + +
644A VAL* 2.9 9.8 + - + +
646A TYR* 1.3 73.9 - - + +
648A LEU* 1.3 60.1 + - + +
650A THR* 4.0 0.2 - - - -
651A GLY* 2.6 33.1 + - - -
652A GLN 3.5 21.8 - - - +
653A LEU* 3.6 6.4 - - + +
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Residues in contact with LEU 648 (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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536A LEU* 3.5 40.4 - - + -
540A LEU* 4.0 6.1 - - + +
552A LEU* 3.3 59.7 - - + +
555A ILE* 4.3 10.3 - - + -
556A ALA* 4.3 23.1 - - + +
559A THR* 5.8 0.4 - - - +
644A VAL* 3.0 30.2 + - + +
645A LEU* 3.7 11.9 - - + +
647A GLU* 1.3 78.3 - - - +
649A MET* 1.3 69.7 + - - +
651A GLY 4.2 0.9 + - - -
681A ARG* 4.1 6.8 + - - -
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Residues in contact with MET 649 (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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549A MET* 3.2 44.4 - - + -
552A LEU* 3.6 21.1 - - + -
553A ILE* 5.3 1.1 - - + -
645A LEU* 2.9 21.7 + - - +
646A TYR 4.0 1.6 - - - +
648A LEU* 1.3 88.3 - - - +
650A THR* 1.3 57.9 - - - +
680A VAL* 4.0 8.1 - - + -
681A ARG* 2.8 36.7 + - - +
684A CYS* 3.0 28.0 - - + -
688A MET* 3.8 23.3 - - + +
692A MET* 3.5 20.4 - - + -
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Residues in contact with THR 650 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
646A TYR* 2.7 57.8 + - + +
649A MET* 1.3 75.4 - - - +
651A GLY* 1.3 65.6 + - - +
652A GLN* 3.0 38.5 + - - +
679A LYS* 3.5 37.6 - - + +
680A VAL* 3.8 7.2 - - + +
681A ARG* 4.9 6.2 + - - +
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Residues in contact with GLY 651 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
540A LEU* 3.7 19.7 - - - +
541A HIS* 3.4 16.0 + - - -
544A GLU* 6.0 0.3 - - - +
647A GLU 2.6 25.3 + - - -
648A LEU 4.2 1.2 + - - -
649A MET 3.6 1.0 - - - -
650A THR* 1.3 74.2 - - - +
652A GLN* 1.3 61.4 + - - +
681A ARG* 4.9 11.9 - - - +
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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
------------------------------------------------------------
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