Contacts of the helix formed by residues 450 - 468 (chain A) in PDB entry 3C6G
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 GLY 450 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144A PHE* 5.6 1.8 - - - -
149A TYR* 6.5 0.4 - - - -
448A CYS* 3.2 9.1 - - - -
449A LEU* 1.3 83.0 - - - +
451A GLU* 1.3 65.2 + - - +
452A HIS 3.3 2.5 - - - -
453A LEU* 3.1 11.3 + - - +
454A ALA* 2.9 24.2 + - - +
601A HEM 3.8 30.3 - - - +
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Residues in contact with GLU 451 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
441A PHE* 3.4 47.7 - - + +
442A SER 5.5 1.0 - - - +
447A HIS* 4.3 15.0 - - + -
448A CYS* 3.8 11.8 - - - +
449A LEU 3.5 3.0 - - - -
450A GLY* 1.3 77.0 - - - +
452A HIS* 1.3 66.1 + - - +
454A ALA* 3.0 10.0 + - - +
455A ARG* 2.9 47.5 + - - +
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Residues in contact with HIS 452 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149A TYR* 3.6 51.1 - + + +
352A TRP* 4.1 32.6 + + - -
449A LEU 5.4 0.4 + - - -
450A GLY 3.3 0.8 - - - -
451A GLU* 1.3 79.4 - - - +
453A LEU* 1.3 62.3 + - - +
455A ARG* 3.1 21.8 + - - +
456A MET* 3.2 29.4 + - - +
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Residues in contact with LEU 453 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A PHE* 3.7 31.9 - - + -
149A TYR* 4.2 21.8 - - + -
154A PHE* 3.7 34.1 - - + -
158A ILE* 5.0 3.4 - - + -
190A ILE* 4.2 11.7 - - + -
191A THR* 4.3 9.0 - - - +
194A ILE* 3.8 9.6 - - + -
450A GLY* 3.1 13.4 + - - +
452A HIS* 1.3 83.3 - - - +
454A ALA* 1.3 62.4 + - - +
456A MET* 3.3 6.9 + - - +
457A GLU* 3.0 34.9 + - - +
601A HEM 4.2 10.5 - - + -
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Residues in contact with ALA 454 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A THR* 4.0 6.2 - - - +
441A PHE* 3.9 9.9 - - + -
450A GLY 2.9 12.5 + - - +
451A GLU 3.3 8.5 - - - +
453A LEU* 1.3 76.6 - - - +
455A ARG* 1.3 53.6 + - - +
457A GLU* 3.4 12.1 + - - +
458A MET* 2.8 40.7 + - - +
601A HEM 3.6 38.3 - - + +
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Residues in contact with ARG 455 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
352A TRP* 3.7 18.1 - - + -
355A LYS* 5.9 3.0 - - - +
362A GLU* 5.9 0.2 + - - -
365A LEU* 5.5 0.2 - - - +
366A HIS* 2.8 41.0 + - - -
369A LEU* 5.2 4.0 - - - +
441A PHE* 3.1 33.8 - - + -
451A GLU* 2.9 50.5 + - - +
452A HIS* 3.1 11.9 + - - +
454A ALA* 1.3 76.6 - - - +
456A MET* 1.3 58.5 + - - +
458A MET* 3.7 13.4 - - + +
459A PHE* 3.0 31.0 + - - +
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Residues in contact with MET 456 (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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149A TYR* 4.1 13.9 - - + -
154A PHE* 4.7 10.5 - - + -
155A GLU* 4.3 24.7 - - + +
158A ILE* 4.2 22.2 - - + -
352A TRP* 3.7 42.2 - - + -
452A HIS* 3.2 36.2 + - - +
453A LEU* 3.7 11.9 - - + +
455A ARG* 1.3 74.5 - - - +
457A GLU* 1.3 65.3 + - - +
460A LEU* 2.9 36.2 + - + +
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Residues in contact with GLU 457 (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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158A ILE* 4.5 8.7 - - + +
187A VAL* 2.9 41.9 - - - +
190A ILE* 3.2 38.3 - - + +
191A THR* 4.8 2.7 + - - -
315A THR* 3.9 20.4 + - + -
453A LEU* 3.0 27.6 + - - +
454A ALA* 3.6 8.1 + - - +
456A MET* 1.3 76.9 - - - +
458A MET* 1.3 63.9 + - - +
460A LEU* 3.9 0.2 - - - -
461A PHE* 2.9 42.0 + - + +
601A HEM 4.3 6.9 - - - +
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Residues in contact with MET 458 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
315A THR* 4.3 12.1 - - + +
318A VAL* 3.8 32.3 - - + -
319A LEU* 3.9 13.8 - - + +
365A LEU* 4.0 33.9 - - + +
366A HIS* 6.3 1.6 - - + +
369A LEU* 4.2 24.2 - - + -
441A PHE* 5.0 3.4 - - - -
454A ALA* 2.8 29.0 + - - +
455A ARG* 3.7 10.3 - - + +
457A GLU* 1.3 73.2 - - - +
459A PHE* 1.3 63.2 + - - +
462A PHE* 2.9 30.6 + - - +
601A HEM 4.4 15.0 - - - -
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Residues in contact with PHE 459 (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 MET* 4.1 8.5 - - + -
351A SER 3.3 24.2 - - - -
352A TRP* 4.1 20.6 - + + -
355A LYS* 3.5 39.0 - - + -
358A MET* 3.9 21.8 - - + -
361A THR* 3.9 31.0 - - + -
362A GLU* 5.4 4.3 - - + -
365A LEU* 3.8 14.6 - - + -
455A ARG 3.0 15.6 + - - +
456A MET 4.0 1.1 - - - +
458A MET* 1.3 78.9 - - - +
460A LEU* 1.3 64.9 + - + +
462A PHE* 3.9 0.6 - - - +
463A THR* 2.7 49.1 + - + +
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Residues in contact with LEU 460 (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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155A GLU* 4.0 26.5 - - + +
158A ILE* 3.7 37.0 - - + -
159A LEU* 4.7 8.6 - - + +
162A THR* 3.8 5.9 - - + +
350A PRO* 4.0 14.0 - - + +
351A SER* 3.9 18.6 - - - +
352A TRP* 3.9 24.0 - - + +
456A MET* 2.9 29.2 + - + +
457A GLU 4.1 0.2 - - - +
459A PHE* 1.3 85.1 - - + +
461A PHE* 1.3 57.7 + - - +
463A THR* 3.1 2.8 + - - -
464A ALA* 3.1 30.8 + - - +
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Residues in contact with PHE 461 (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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158A ILE* 4.6 7.2 - - + -
161A GLU* 3.9 19.3 - - + -
162A THR* 3.6 30.5 - - + -
165A PHE* 3.9 25.1 - + + -
186A ALA* 3.7 35.4 - - + -
187A VAL* 4.6 5.4 - - + -
190A ILE* 4.1 19.5 - - + -
319A LEU* 3.8 26.5 - - + -
457A GLU* 2.9 38.7 + - + +
458A MET 4.0 0.2 - - - +
460A LEU* 1.3 76.7 - - - +
462A PHE* 1.3 59.3 + - - +
464A ALA* 3.5 1.4 + - - +
465A LEU* 2.9 32.5 + - - +
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Residues in contact with PHE 462 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
319A LEU* 4.0 11.1 - - + +
322A ALA* 4.0 24.0 - - + -
323A ILE* 5.0 6.7 - - + -
326A MET* 3.8 39.0 - - + -
336A VAL* 4.1 20.2 - - + -
361A THR* 4.2 16.8 - - + -
364A VAL* 4.1 15.3 - - + -
365A LEU* 3.6 28.0 - - + -
458A MET 2.9 19.7 + - - +
459A PHE* 3.9 2.7 - - - +
461A PHE* 1.3 77.6 - - - +
463A THR* 1.3 56.2 + - - +
465A LEU* 3.8 6.4 - - + +
466A LEU* 2.9 46.9 + - + +
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Residues in contact with THR 463 (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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340A ILE* 3.6 12.2 - - + +
344A MET* 4.1 20.8 - - + +
350A PRO* 3.7 11.0 - - - +
358A MET* 4.4 7.2 - - + -
361A THR* 4.2 14.1 - - + -
459A PHE* 2.7 54.3 + - + +
460A LEU* 3.1 10.0 + - - -
462A PHE* 1.3 72.7 - - + +
464A ALA* 1.3 72.1 + - - +
467A GLN* 2.8 28.7 + - - +
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Residues in contact with ALA 464 (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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159A LEU* 5.3 0.2 - - + -
162A THR* 3.7 28.5 - - - +
165A PHE* 6.4 0.2 - - + -
166A ASN* 3.1 20.3 + - - +
350A PRO* 4.1 18.4 - - + +
460A LEU 3.1 17.1 + - - +
461A PHE 3.9 2.2 - - - +
463A THR* 1.3 85.0 + - - +
465A LEU* 1.3 62.0 + - - +
467A GLN* 3.7 6.6 - - - +
468A ARG* 3.5 13.2 + - - +
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Residues in contact with LEU 465 (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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165A PHE* 4.2 9.4 - - + -
166A ASN* 3.8 12.9 + - - +
169A ILE* 3.5 31.4 - - + -
179A PHE* 4.1 12.8 - - + -
319A LEU* 6.5 1.1 - - + -
323A ILE* 3.8 35.9 - - + -
461A PHE 2.9 19.1 + - - +
462A PHE* 3.8 7.9 - - + +
464A ALA* 1.3 77.1 - - - +
466A LEU* 1.3 60.5 + - + +
468A ARG 3.2 2.6 + - - -
469A PHE* 3.0 48.8 + - + +
471A LEU* 4.1 20.9 - - + -
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Residues in contact with LEU 466 (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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326A MET* 4.2 9.0 - - + -
333A GLN* 4.1 29.4 - - + +
336A VAL* 3.8 29.2 - - + -
337A GLN* 3.3 19.3 + - + +
340A ILE* 3.7 14.1 - - + -
462A PHE* 2.9 44.4 + - + +
465A LEU* 1.3 77.5 - - + +
467A GLN* 1.3 62.4 + - - +
469A PHE 3.3 13.6 - - - +
471A LEU* 3.3 36.6 - - + -
501A ARG* 3.5 2.6 - - - -
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Residues in contact with GLN 467 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
340A ILE* 3.7 19.9 - - + +
341A ASP* 5.1 0.2 - - - +
344A MET* 3.9 9.3 - - - +
345A GLY 2.9 25.0 + - - +
346A PRO* 3.6 15.0 + - + +
347A ASN* 4.7 1.6 - - - -
348A GLY 3.0 34.6 + - - +
350A PRO* 3.9 14.8 - - - +
463A THR 2.8 18.2 + - - +
464A ALA* 3.7 6.3 - - - +
465A LEU 3.2 0.2 - - - -
466A LEU* 1.3 77.7 - - - +
468A ARG* 1.3 59.8 - - - +
501A ARG* 3.0 23.8 + - - +
502A HIS* 3.4 11.5 + - - +
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Residues in contact with ARG 468 (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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163A LYS* 4.6 5.7 + - - +
166A ASN* 3.3 31.4 + - - +
167A ASP* 3.0 28.1 + - - +
170A GLU* 3.6 34.4 + - - +
464A ALA 3.5 10.9 + - - +
465A LEU 3.2 1.4 + - - -
467A GLN* 1.3 82.4 - - + +
469A PHE* 1.3 82.2 + - + +
500A ARG* 3.3 12.2 - - + +
501A ARG* 3.2 22.5 + - - -
502A HIS* 5.4 4.2 - - + -
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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