Contacts of the strand formed by residues 357 - 366 (chain C) in PDB entry 2Q7N
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 ILE 357 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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327C ILE* 2.6 46.6 - - + +
355C GLN* 2.9 12.8 + - - +
356C GLU* 1.3 78.6 - - + +
358C HIS* 1.3 60.2 + - - +
377C ILE 3.6 7.2 - - - +
378C ASN* 5.0 11.4 - - + +
1Q NAG 6.0 0.4 - - - +
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Residues in contact with HIS 358 (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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301C ILE* 3.7 22.3 - - + +
325C GLU* 3.1 36.3 - - + +
327C ILE* 4.4 0.9 - - - +
328C SER* 4.3 2.6 + - - -
351C MET* 4.3 13.6 - - - +
355C GLN* 2.8 37.8 + - + -
356C GLU 2.8 25.4 + - - -
357C ILE* 1.3 72.8 + - - +
359C ASN* 1.3 59.5 + - - +
360C PHE* 3.8 19.7 + + + -
376C VAL* 3.2 7.5 - - - +
377C ILE* 2.8 40.4 + - + +
379C VAL* 3.5 17.1 - - + +
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Residues in contact with ASN 359 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
324C PHE 3.3 4.5 - - - +
325C GLU* 3.0 9.0 + - - +
326C SER* 3.0 42.8 + - - +
327C ILE* 4.5 8.8 - - + +
358C HIS* 1.3 70.0 - - - +
360C PHE* 1.3 61.6 + - - +
361C THR* 4.4 8.8 + - - -
375C VAL 4.0 5.2 - - - +
376C VAL* 4.7 8.7 - - - +
1P NAG 1.5 72.0 + - - +
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Residues in contact with PHE 360 (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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291C LEU* 5.9 1.1 - - + -
293C CYS* 3.6 26.9 - - + -
301C ILE* 3.3 48.0 - - + -
303C CYS* 4.1 0.9 - - - -
323C LEU* 4.3 14.6 - - + -
324C PHE 3.8 10.3 - - - -
325C GLU* 3.3 24.5 - - + -
349C VAL* 4.5 16.2 - - + -
358C HIS* 3.8 27.4 - + + -
359C ASN* 1.3 77.3 + - - +
361C THR* 1.3 65.8 + - - +
362C LEU 4.1 0.4 - - - -
373C SER 3.6 4.2 - - - +
374C ALA* 3.6 2.1 - - - -
375C VAL* 3.0 50.3 + - + +
377C ILE* 5.0 4.9 - - + -
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Residues in contact with THR 361 (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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322C THR 3.3 3.5 - - - +
323C LEU* 3.5 3.4 - - - +
324C PHE* 2.9 45.3 + - + +
326C SER* 5.9 1.6 - - - -
359C ASN* 4.4 8.7 + - - -
360C PHE* 1.3 77.8 + - - +
362C LEU* 1.3 61.3 + - - +
363C THR* 3.6 17.8 + - + -
372C GLN* 3.5 32.1 - - + +
373C SER 3.5 5.5 + - - +
374C ALA* 5.3 4.5 - - + +
1P NAG 6.0 2.1 - - - -
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Residues in contact with LEU 362 (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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288C PRO* 3.7 18.4 - - + +
291C LEU* 4.4 20.1 - - + +
303C CYS* 5.5 1.1 - - + -
305C TRP* 3.3 52.3 - - + -
321C TYR* 3.7 32.1 - - + -
322C THR 3.2 18.4 - - - +
323C LEU* 3.8 14.1 - - + +
347C LEU* 4.9 3.6 - - + -
360C PHE 4.1 0.6 - - - -
361C THR* 1.3 70.2 - - - +
363C THR* 1.3 61.2 + - - +
372C GLN* 3.2 3.1 - - - -
373C SER 3.0 33.6 + - - +
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Residues in contact with THR 363 (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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320C GLU 3.7 2.4 - - - +
321C TYR* 3.5 2.1 - - - -
322C THR* 2.7 45.9 + - - +
324C PHE* 5.4 1.7 + - - +
361C THR* 3.8 15.4 + - + -
362C LEU* 1.3 73.8 - - - +
364C GLY* 1.3 60.1 + - - +
365C ARG* 3.0 35.2 + - - +
370C GLN* 5.3 6.5 - - + +
371C ALA 3.7 3.8 - - - +
372C GLN* 3.7 31.0 - - + +
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Residues in contact with GLY 364 (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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285C PRO* 3.6 13.7 - - - +
288C PRO* 5.3 0.9 - - - +
319C THR* 4.1 2.7 - - - -
321C TYR* 3.8 27.8 - - - -
362C LEU 4.0 0.8 + - - -
363C THR* 1.3 72.2 - - - +
365C ARG* 1.3 62.6 + - - -
370C GLN* 3.4 24.3 - - - -
371C ALA 2.9 18.6 + - - +
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Residues in contact with ARG 365 (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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20B ASN* 6.1 3.9 - - - +
319C THR* 3.5 3.1 - - - -
320C GLU* 2.9 61.4 + - + +
322C THR* 3.7 21.5 + - - +
363C THR* 3.0 36.0 + - - +
364C GLY* 1.3 72.1 - - - +
366C ASN* 1.3 59.1 + - - +
367C PRO* 3.4 13.2 - - + +
369C GLY 4.2 2.2 - - - -
370C GLN* 3.3 38.3 - - + +
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Residues in contact with ASN 366 (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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283C TYR 3.6 1.0 - - - +
284C PRO* 3.8 6.5 - - + -
285C PRO* 2.8 28.1 - - + +
311C THR* 3.1 36.6 + - - +
313C LEU* 3.4 23.4 - - - +
317C ARG 4.0 7.4 + - - +
319C THR* 4.6 3.7 + - - +
364C GLY 3.7 1.0 + - - -
365C ARG* 1.3 72.5 - - - +
367C PRO* 1.4 57.3 + - - -
368C LEU* 2.2 41.6 + - - +
369C GLY 2.6 25.0 + - - +
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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