Contacts of the helix formed by residues 2338 - 2364 (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 SER2338 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314A GLN* 3.3 27.1 + - - +
2336C PRO 3.2 4.5 + - - -
2337C PHE* 1.3 75.3 - - - +
2339C GLU* 1.3 77.1 + - - +
2340C ALA* 3.2 9.9 + - - +
2341C SER* 3.2 22.2 - - - -
2342C MET* 3.0 18.9 + - - +
2417C CYS 4.3 2.0 - - - -
2418C VAL* 4.4 0.5 - - - +
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Residues in contact with GLU2339 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
314A GLN* 5.1 0.6 - - - +
2338C SER* 1.3 80.8 + - - +
2340C ALA* 1.3 63.5 + - - +
2343C MET* 3.2 19.6 + - - +
2417C CYS 3.6 18.1 + - - +
2418C VAL* 3.5 22.7 - - + +
2419C GLU* 3.3 34.2 + - - +
2528C MET* 4.4 3.9 - - - +
2531C LYS* 4.3 14.7 + - - +
2533C VAL* 3.8 25.9 - - + +
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Residues in contact with ALA2340 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2338C SER* 3.2 7.6 + - - +
2339C GLU* 1.3 81.8 - - - +
2341C SER* 1.3 63.0 + - - +
2343C MET* 3.4 0.9 + - - +
2344C GLY* 2.9 23.0 + - - -
2533C VAL* 3.2 28.4 - - + +
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Residues in contact with SER2341 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2332C ASP* 4.3 11.3 + - - -
2335C ARG* 4.3 5.9 + - - +
2336C PRO 3.6 13.3 + - - -
2337C PHE* 4.1 5.6 - - - -
2338C SER* 3.2 31.3 + - - -
2340C ALA* 1.3 78.9 - - - +
2342C MET* 1.3 58.6 + - - +
2344C GLY* 3.8 1.0 - - - -
2345C LEU* 3.0 30.4 + - - +
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Residues in contact with MET2342 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2337C PHE* 4.4 19.5 - - + +
2338C SER 3.0 14.6 + - - +
2341C SER* 1.3 73.6 + - - +
2343C MET* 1.3 65.9 + - + +
2345C LEU* 3.7 7.9 - - + +
2346C LEU* 3.0 35.2 + - + +
2410C LEU* 4.0 24.7 - - + -
2414C GLN* 4.2 17.7 - - - +
2415C GLY* 3.8 14.8 - - - -
2417C CYS* 4.6 3.8 - - + -
2418C VAL* 3.5 28.7 - - + -
2421C MET* 3.6 28.3 - - + -
2425C PHE* 3.9 6.1 - - + -
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Residues in contact with MET2343 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2339C GLU 3.2 20.1 + - - +
2340C ALA 3.8 2.9 - - - +
2342C MET* 1.3 78.7 - - + +
2344C GLY* 1.3 60.0 + - - +
2346C LEU* 3.7 17.1 - - + +
2347C THR* 2.8 46.4 + - + +
2418C VAL* 4.0 13.7 - - + -
2421C MET* 3.8 30.1 - - - -
2524C HIS* 4.1 5.2 - - + -
2525C LEU* 4.7 0.7 - - - -
2528C MET* 3.5 36.3 - - + -
2533C VAL* 4.0 22.0 - - + +
2534C VAL* 5.1 0.9 - - - +
2535C PRO* 4.9 0.4 - - - -
2600C EST 4.2 17.0 - - + -
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Residues in contact with GLY2344 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2330C GLU* 4.8 2.0 - - - +
2340C ALA 2.9 16.5 + - - -
2341C SER 3.8 1.3 - - - -
2343C MET* 1.3 77.7 - - - +
2345C LEU* 1.3 57.4 + - - +
2347C THR* 3.4 7.8 + - - -
2348C ASN* 3.0 28.4 + - - +
2533C VAL 4.4 1.0 + - - -
2535C PRO* 3.7 19.5 - - - -
2537C TYR* 3.7 5.1 + - - -
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Residues in contact with LEU2345 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2329C SER* 3.0 26.7 - - - +
2330C GLU* 3.3 25.6 - - + +
2331C TYR* 3.6 32.1 - - + +
2332C ASP* 4.5 12.3 - - - +
2337C PHE* 6.3 2.0 - - + -
2341C SER* 3.0 19.5 + - - +
2342C MET* 3.7 9.9 - - + +
2343C MET 3.1 0.4 - - - -
2344C GLY* 1.3 77.7 - - - +
2346C LEU* 1.3 57.9 + - + +
2348C ASN* 3.4 4.3 - - - +
2349C LEU* 3.2 22.0 + - - +
2408C LEU* 3.4 18.4 - - + -
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Residues in contact with LEU2346 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2342C MET* 3.0 36.0 + - + +
2343C MET* 3.9 18.6 - - + +
2345C LEU* 1.3 74.3 - - + +
2347C THR* 1.3 67.0 + - - +
2348C ASN 2.9 1.8 - - - -
2349C LEU* 2.9 7.9 + - + +
2350C ALA* 2.8 22.2 + - - +
2404C PHE* 3.1 50.7 - - + -
2408C LEU* 4.1 16.8 - - + -
2410C LEU* 4.2 10.3 - - + -
2421C MET* 4.9 2.9 - - - -
2425C PHE* 4.8 4.3 - - + -
2600C EST 3.9 24.4 - - + -
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Residues in contact with THR2347 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2343C MET* 2.8 34.7 + - - +
2344C GLY 3.4 5.7 + - - -
2346C LEU* 1.3 73.1 - - - +
2348C ASN* 1.3 58.6 + - - +
2350C ALA* 3.5 4.7 - - - +
2351C ASP* 2.9 26.5 + - - +
2525C LEU* 3.7 29.2 - - + -
2534C VAL* 3.9 14.1 - - + -
2535C PRO* 3.4 17.0 - - - +
2537C TYR* 3.5 13.5 - - - -
2540C LEU* 3.6 19.5 - - + +
2600C EST 4.6 7.6 - - + -
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Residues in contact with ASN2348 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2329C SER* 4.7 0.2 + - - -
2330C GLU* 3.6 27.7 + - - +
2344C GLY 3.0 18.8 + - - +
2345C LEU* 3.4 7.6 - - - +
2346C LEU 2.9 0.2 - - - -
2347C THR* 1.3 82.4 + - - +
2349C LEU* 1.3 62.5 + - - +
2351C ASP* 4.0 1.4 - - - +
2352C ARG* 2.7 66.0 + - - +
2537C TYR* 3.1 30.2 + - - +
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Residues in contact with LEU2349 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2327C LEU* 3.8 18.6 - - + +
2328C TYR 3.7 15.3 - - - +
2329C SER* 4.5 4.0 - - - +
2345C LEU 3.2 9.9 + - - +
2346C LEU* 2.9 10.8 + - - +
2348C ASN* 1.3 83.8 + - - +
2350C ALA* 1.3 58.3 + - - +
2352C ARG* 3.6 22.3 - - - +
2353C GLU* 3.0 36.4 + - - +
2404C PHE* 3.8 42.8 - - + +
2405C ALA* 4.3 7.4 - - + -
2408C LEU* 4.5 7.0 - - + -
2600C EST 4.3 14.8 - - + +
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Residues in contact with ALA2350 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2346C LEU 2.8 11.2 + - - +
2347C THR* 3.5 11.2 - - - +
2349C LEU* 1.3 73.1 - - - +
2351C ASP* 1.3 57.5 + - - +
2353C GLU* 2.8 7.1 + - - -
2354C LEU* 2.5 38.3 + - - +
2383C TRP* 5.2 0.2 - - + -
2387C LEU* 4.0 18.6 - - + +
2540C LEU* 4.0 17.7 - - + -
2600C EST 4.1 21.5 - - + -
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Residues in contact with ASP2351 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2347C THR 2.9 16.3 + - - +
2348C ASN 4.0 3.1 - - - +
2350C ALA* 1.3 76.8 - - - +
2352C ARG* 1.3 69.6 + - + +
2354C LEU* 3.2 16.5 + - - +
2355C VAL* 3.4 8.1 - - - +
2537C TYR* 2.8 37.6 - - + +
2538C ASP* 4.0 0.9 + - - +
2539C LEU* 3.4 29.2 + - - +
2540C LEU* 3.3 21.5 + - + +
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Residues in contact with ARG2352 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2327C LEU* 3.0 39.5 - - + +
2328C TYR 3.0 24.6 + - - -
2329C SER* 3.5 20.0 + - - +
2330C GLU* 4.6 2.0 - - - +
2348C ASN* 2.7 45.8 + - - +
2349C LEU* 3.6 12.1 - - - +
2350C ALA 2.8 4.0 + - - -
2351C ASP* 1.3 80.6 - - + +
2353C GLU* 1.3 63.9 + - - +
2355C VAL* 2.9 25.4 + - - +
2356C HIS* 3.8 5.9 + - - -
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Residues in contact with GLU2353 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2324C PRO* 6.1 4.9 - - + -
2325C PRO 5.3 2.0 - - - +
2326C ILE* 5.9 1.6 - - - +
2327C LEU* 3.3 31.9 - - + +
2349C LEU* 3.0 21.9 + - - +
2350C ALA 2.8 5.8 + - - +
2352C ARG* 1.3 73.0 - - - +
2354C LEU* 1.3 56.3 + - - +
2355C VAL 3.0 5.5 + - - -
2356C HIS* 3.3 7.6 + - + +
2357C MET* 3.1 21.6 + - + +
2387C LEU* 3.2 20.0 - - + +
2394C ARG* 3.5 23.4 + - - -
2600C EST 2.6 34.3 + - - -
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Residues in contact with LEU2354 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2350C ALA 2.5 20.0 + - - +
2351C ASP 3.3 9.9 - - - +
2352C ARG 3.0 0.6 - - - -
2353C GLU* 1.3 71.0 - - - +
2355C VAL* 1.3 56.6 + - - +
2357C MET* 3.7 32.0 - - - +
2358C ILE* 3.7 14.7 - - - +
2383C TRP* 3.5 42.4 - - + -
2387C LEU* 3.9 11.2 - - + +
2539C LEU* 3.2 25.8 - - + +
2540C LEU* 3.7 21.8 - - + -
2543C MET* 3.7 17.7 - - + -
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Residues in contact with VAL2355 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2351C ASP* 3.4 21.1 - - - +
2352C ARG* 2.9 11.1 + - - +
2354C LEU* 1.3 78.6 - - - +
2356C HIS* 1.3 75.8 + - + +
2357C MET 3.1 1.8 - - - -
2358C ILE* 3.3 24.0 + - + +
2359C ASN* 3.6 13.1 + - - +
2539C LEU* 3.9 17.3 - - + -
----------------------------------------------------------
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Residues in contact with HIS2356 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2324C PRO* 3.9 21.3 - - + +
2325C PRO* 3.0 41.0 + - + +
2327C LEU* 4.0 29.8 - - + +
2352C ARG 4.4 5.9 + - - -
2353C GLU* 3.3 7.8 + - + +
2355C VAL* 1.3 85.9 - - + +
2357C MET* 1.3 59.6 + - - +
2358C ILE 3.3 0.2 - - - -
2359C ASN* 3.4 12.2 + - - +
2360C TRP* 3.0 27.2 + - - +
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Residues in contact with MET2357 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2324C PRO* 5.0 3.8 - - - +
2353C GLU 3.1 17.1 + - - +
2354C LEU* 3.7 24.0 - - + +
2356C HIS* 1.3 76.0 - - - +
2358C ILE* 1.3 59.4 + - + +
2360C TRP* 3.2 20.1 + - + +
2361C ALA* 2.8 29.3 + - - +
2379C LEU* 4.7 12.6 - - + -
2383C TRP* 3.2 36.3 - - - +
2386C ILE* 3.2 33.7 - - + -
2387C LEU* 3.5 20.6 - - + +
2449C LYS* 6.1 0.7 - - - -
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Residues in contact with ILE2358 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2354C LEU 3.7 20.6 - - - +
2355C VAL* 3.5 13.9 - - + +
2357C MET* 1.3 77.7 - - + +
2359C ASN* 1.3 71.0 + - - +
2361C ALA* 3.2 21.8 + - - +
2362C LYS* 3.2 29.2 + - + +
2379C LEU* 4.7 15.0 - - + -
2539C LEU* 4.3 18.2 - - + -
----------------------------------------------------------
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Residues in contact with ASN2359 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2355C VAL* 3.6 15.7 + - - +
2356C HIS* 3.4 12.6 + - - +
2357C MET 3.3 0.4 - - - -
2358C ILE* 1.3 81.0 - - - +
2360C TRP* 1.3 69.6 + - - +
2362C LYS* 3.2 16.6 + - - +
2363C ARG* 3.3 33.2 + - - +
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Residues in contact with TRP2360 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2319C LEU* 4.5 5.5 + - - +
2322C ALA* 3.6 43.4 - - + +
2323C GLU* 4.0 10.1 + - - -
2324C PRO* 4.0 19.1 - - + -
2356C HIS 3.0 14.8 + - - +
2357C MET* 3.3 24.0 - - + +
2359C ASN* 1.3 74.2 - - - +
2361C ALA* 1.3 68.4 + - + +
2363C ARG* 2.7 35.3 + - - +
2364C VAL* 3.4 13.9 + - + +
2386C ILE* 3.9 21.5 - - + -
2446C VAL* 6.0 0.8 - - - +
2449C LYS* 3.0 46.9 - - + -
2450C SER* 3.5 22.1 + - - -
2453C LEU* 3.6 29.6 - - + -
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Residues in contact with ALA2361 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2357C MET 2.8 8.0 + - - +
2358C ILE 3.2 10.7 + - - +
2360C TRP* 1.3 88.4 - - + +
2362C LYS* 1.3 63.9 + - - +
2363C ARG 3.0 1.4 + - - -
2364C VAL* 3.0 13.9 + - - +
2367C PHE* 3.0 31.1 - - + -
2379C LEU* 3.4 34.1 - - + -
2453C LEU* 4.1 8.3 - - + -
----------------------------------------------------------
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Residues in contact with LYS2362 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2358C ILE* 3.2 31.3 + - + +
2359C ASN* 3.5 13.0 - - - +
2360C TRP 3.1 0.4 + - - -
2361C ALA* 1.3 78.4 - - + +
2363C ARG* 1.3 63.6 + - + +
2364C VAL 3.8 3.3 + - - +
2367C PHE* 3.7 11.8 - - + -
2368C VAL* 3.1 34.8 - - + +
2372C LEU* 5.8 4.6 - - - +
2375C GLN* 3.8 22.9 + - - +
2376C VAL* 5.5 6.3 - - - +
2379C LEU* 4.5 12.9 - - - +
----------------------------------------------------------
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Residues in contact with ARG2363 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2318C ALA* 5.6 2.5 - - - +
2321C ASP* 5.6 3.1 - - - -
2322C ALA* 3.9 35.7 + - + +
2359C ASN* 3.3 33.7 + - - +
2360C TRP* 2.7 17.6 + - - +
2362C LYS* 1.3 73.4 - - + +
2364C VAL* 1.3 65.1 + - - +
2365C PRO* 3.2 8.5 - - - +
----------------------------------------------------------
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Residues in contact with VAL2364 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2319C LEU* 4.6 3.6 - - + -
2322C ALA* 5.2 1.3 - - + +
2360C TRP* 3.4 36.0 + - + +
2361C ALA 3.0 12.6 + - - +
2362C LYS 4.2 2.6 - - - +
2363C ARG* 1.3 76.1 - - - +
2365C PRO* 1.3 84.5 - - + +
2366C GLY 3.5 0.3 + - - -
2367C PHE* 3.0 22.1 + - + +
2368C VAL* 4.4 1.6 + - - +
2450C SER* 4.1 21.1 - - - +
2453C LEU* 3.5 31.4 - - + -
2454C LEU* 4.4 13.5 - - + -
2482C ILE* 5.9 1.8 - - + -
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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) + - + + + + + -
------------------------------------------------------------
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