Contacts of the helix formed by residues 2441 - 2456 (chain C) in PDB entry 1G50
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 GLN2441 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2393C TRP* 3.5 1.1 - - - -
2439C ASN* 3.6 31.7 + - - +
2440C LEU* 1.3 73.2 + - - +
2442C GLY* 1.3 60.0 + - - +
2443C GLU* 2.6 40.0 + - - +
2444C GLU* 2.7 35.0 + - + +
2445C PHE 3.4 5.5 + - - -
2489C LEU* 5.6 1.1 - - + -
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Residues in contact with GLY2442 (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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2320C LEU* 4.5 8.1 - - - +
2393C TRP* 3.0 30.0 - - - -
2441C GLN* 1.3 75.1 + - - +
2443C GLU* 1.3 59.3 + - - +
2445C PHE* 3.0 23.6 - - - +
2446C VAL* 3.4 9.9 + - - +
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Residues in contact with GLU2443 (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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2316C VAL* 4.0 19.0 - - + +
2320C LEU* 4.5 10.7 - - + +
2441C GLN* 2.6 31.7 + - - +
2442C GLY* 1.3 69.9 + - - +
2444C GLU* 1.3 62.7 + - - +
2445C PHE 3.0 1.3 - - - -
2446C VAL* 2.8 30.0 - - - +
2447C CYS* 3.4 9.1 + - - -
2489C LEU* 3.1 47.6 - - + +
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Residues in contact with GLU2444 (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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2439C ASN 3.7 0.5 - - - +
2440C LEU* 3.3 18.8 - - + +
2441C GLN* 2.7 38.9 + - + +
2443C GLU* 1.3 73.0 - - - +
2445C PHE* 1.3 62.4 + - - +
2447C CYS* 3.1 6.6 + - - +
2448C LEU* 3.0 23.6 + - - +
2486C LEU* 3.8 23.0 - - + +
2489C LEU* 4.9 15.0 - - + -
2490C MET* 4.4 9.5 - - + +
2503C ARG* 2.5 50.5 + - - -
2507C LEU* 4.1 9.9 - - + +
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Residues in contact with PHE2445 (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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2323C GLU* 4.3 15.3 - - - -
2389C ILE* 3.5 42.6 - - + -
2390C GLY* 3.8 15.3 - - - -
2393C TRP* 3.6 63.0 - + + -
2435C PHE* 5.2 0.7 - + - -
2440C LEU* 4.4 6.1 - - + +
2441C GLN 3.4 1.6 + - - -
2442C GLY* 3.0 13.4 + - - +
2444C GLU* 1.3 79.0 - - - +
2446C VAL* 1.3 60.2 + - + +
2448C LEU* 2.9 11.7 + - - +
2449C LYS* 2.7 56.6 + - + +
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Residues in contact with VAL2446 (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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2316C VAL* 4.7 4.9 - - + +
2319C LEU* 3.5 40.3 - - + +
2320C LEU* 3.7 30.5 - - + -
2323C GLU* 3.9 22.0 - - + +
2360C TRP* 6.0 0.7 - - - +
2442C GLY 4.2 2.7 - - - +
2443C GLU* 2.8 34.5 - - + +
2445C PHE* 1.3 81.2 - - + +
2447C CYS* 1.3 62.0 + - - +
2449C LYS* 3.8 7.2 - - - +
2450C SER* 2.8 31.5 + - - -
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Residues in contact with CYS2447 (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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2316C VAL* 5.6 2.5 - - - -
2319C LEU* 4.0 13.2 - - - -
2443C GLU 3.7 10.3 - - - -
2444C GLU 3.1 9.6 + - - +
2445C PHE 3.1 0.4 - - - -
2446C VAL* 1.3 82.7 - - - +
2448C LEU* 1.3 64.6 + - - +
2450C SER* 2.9 13.6 + - - -
2451C ILE* 2.9 19.1 + - - +
2482C ILE* 4.0 12.8 - - + -
2485C THR* 4.1 25.1 - - - -
2486C LEU* 3.2 41.3 - - + -
2489C LEU* 5.8 1.6 - - - -
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Residues in contact with LEU2448 (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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2389C ILE* 3.6 14.4 - - + -
2435C PHE* 4.3 13.7 - - + -
2440C LEU* 3.9 21.5 - - + -
2444C GLU 3.0 11.0 + - - +
2445C PHE* 2.9 8.0 + - - +
2447C CYS* 1.3 78.1 - - + +
2449C LYS* 1.3 58.7 + - - +
2450C SER 2.9 6.1 + - - -
2451C ILE* 2.9 23.4 + - + +
2452C ILE* 3.2 14.4 + - - +
2486C LEU* 5.3 3.8 - - + -
2507C LEU* 3.4 46.9 - - + +
2508C LEU* 4.8 2.7 - - + -
2510C ILE* 5.9 0.7 - - + -
2511C LEU* 3.6 33.5 - - + +
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Residues in contact with LYS2449 (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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2323C GLU* 2.9 37.4 + - - +
2324C PRO* 3.4 22.0 - - - +
2357C MET* 6.1 0.9 - - - -
2360C TRP* 3.0 37.9 - - + -
2386C ILE* 3.9 27.0 - - + +
2389C ILE* 3.8 21.4 - - + +
2390C GLY* 5.7 3.0 - - - -
2445C PHE* 2.7 38.4 + - + +
2446C VAL* 4.0 6.5 - - - +
2448C LEU* 1.3 71.2 - - - +
2450C SER* 1.3 58.5 + - - +
2451C ILE 3.5 0.2 - - - -
2452C ILE* 4.2 6.2 + - - +
2453C LEU* 3.9 8.3 + - - +
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Residues in contact with SER2450 (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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2319C LEU* 3.3 29.9 - - - +
2360C TRP* 3.5 20.4 - - - -
2364C VAL* 4.1 11.0 - - - +
2446C VAL 2.8 21.0 + - - -
2447C CYS* 2.9 7.1 + - - -
2448C LEU 2.9 0.2 + - - -
2449C LYS* 1.3 75.2 - - - +
2451C ILE* 1.3 63.7 + - - +
2452C ILE 3.4 0.7 - - - -
2453C LEU* 3.7 4.0 - - - +
2454C LEU* 3.6 28.6 + - - +
2482C ILE* 4.5 8.5 - - - +
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Residues in contact with ILE2451 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1509B LEU* 4.0 32.3 - - + -
2447C CYS 2.9 24.0 - - - +
2448C LEU* 2.9 12.7 + - + +
2450C SER* 1.3 75.8 - - - +
2452C ILE* 1.3 58.2 + - - +
2453C LEU 3.1 1.8 - - - -
2455C ASN* 2.7 35.8 + - + +
2479C LEU* 3.7 20.6 - - + +
2482C ILE* 3.9 27.8 - - + -
2483C THR* 5.9 0.9 - - - +
2486C LEU* 4.4 14.8 - - + -
2508C LEU* 4.5 13.7 - - + -
2511C LEU* 4.3 6.5 - - + -
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Residues in contact with ILE2452 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2382C ALA* 3.4 3.8 - - + +
2385C GLU* 3.6 55.4 - - + +
2386C ILE* 3.7 14.8 - - + -
2389C ILE* 3.9 34.1 - - + -
2448C LEU 3.2 8.7 + - - +
2449C LYS* 4.3 5.8 - - - +
2451C ILE* 1.3 78.8 - - - +
2453C LEU* 1.3 60.4 + - - +
2455C ASN* 5.1 0.9 - - - -
2456C SER* 3.1 27.9 + - - +
2511C LEU* 4.0 25.1 - - + -
2514C ILE* 4.3 9.9 - - + -
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Residues in contact with LEU2453 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2360C TRP* 3.6 21.3 - - + -
2361C ALA* 4.1 6.1 - - - -
2364C VAL* 3.5 39.9 - - + -
2367C PHE* 4.1 24.2 - - + -
2378C LEU* 3.5 26.6 - - - +
2379C LEU* 3.7 38.6 - - + +
2382C ALA* 4.6 1.8 - - - -
2386C ILE* 3.9 17.4 - - + +
2449C LYS 3.9 1.2 + - - +
2450C SER 3.7 9.1 - - - +
2451C ILE 3.1 0.4 - - - -
2452C ILE* 1.3 82.2 - - - +
2454C LEU* 1.3 60.4 + - + +
2456C SER 4.4 1.0 - - - +
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Residues in contact with LEU2454 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2364C VAL* 4.4 12.1 - - + -
2365C PRO 4.5 1.8 - - - +
2366C GLY 5.5 0.9 - - - -
2367C PHE* 4.0 24.2 - - + -
2370C LEU* 4.6 7.0 - - + -
2378C LEU* 3.7 30.2 - - + +
2450C SER 3.6 16.5 + - - +
2451C ILE 3.3 1.6 + - - -
2452C ILE 3.3 0.4 - - - -
2453C LEU* 1.3 82.8 - - + +
2455C ASN* 1.3 58.2 + - - +
2456C SER 3.6 0.2 - - - -
2458C VAL* 3.3 19.4 - - - +
2475C ILE* 3.4 30.0 - - + +
2478C VAL* 4.1 24.5 - - + -
2479C LEU* 3.7 19.3 - - + -
2482C ILE* 4.2 4.5 - - + -
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Residues in contact with ASN2455 (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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1509B LEU* 3.4 48.1 + - - +
1512B SER* 3.9 13.7 + - - -
1513B HIS* 5.4 0.4 - - - +
2451C ILE* 2.7 27.5 + - + +
2452C ILE* 5.1 0.7 - - - -
2454C LEU* 1.3 73.7 - - - +
2456C SER* 1.3 62.1 + - - +
2457C GLY 3.1 1.9 + - - -
2458C VAL* 2.9 22.6 - - - +
2459C TYR* 3.2 26.4 + - - -
2479C LEU* 3.8 16.2 - - + +
2511C LEU* 5.7 0.8 - - - +
2515C ARG* 4.8 1.4 + - - +
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Residues in contact with SER2456 (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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1512B SER* 4.7 2.1 + - - -
2378C LEU* 4.1 13.7 - - - +
2381C CYS* 4.0 13.9 - - - +
2382C ALA* 3.5 8.7 - - - -
2385C GLU* 2.6 41.4 + - - -
2452C ILE* 3.1 24.2 + - - +
2453C LEU 4.4 0.7 - - - +
2455C ASN* 1.3 75.7 + - - +
2457C GLY* 1.3 63.9 + - - +
2515C ARG* 3.3 17.1 + - - +
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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