Snap-gamma: sequence alignment with 1QQE:A: Difference between revisions
From MDWiki
Jump to navigationJump to search
No edit summary |
No edit summary |
||
(3 intermediate revisions by the same user not shown) | |||
Line 5: | Line 5: | ||
Sequence alignment based on structure alignment. Position numbers according to sequence (starting from 1) and according to PDB are given as SSSS/PPPP, SSSS - sequence, PPPP - PDB. | Sequence alignment based on structure alignment. Position numbers according to sequence (starting from 1) and according to PDB are given as SSSS/PPPP, SSSS - sequence, PPPP - PDB. | ||
USR1:A - MOL_ID: 1; MOLECULE: GAMMA-SNAP; CHAIN: A, B, C, D; ENGINEERED: YES | USR1:A - MOL_ID: 1; MOLECULE: GAMMA-SNAP; CHAIN: A, B, C, D; ENGINEERED: YES | ||
1QQE:A - MOL_ID: 1; MOLECULE: VESICULAR TRANSPORT PROTEIN SEC17; CHAIN: A; ENGINEERED: YES; MUTATION: M1I; BIOLOGICAL_UNIT: MONOMER | 1QQE:A - MOL_ID: 1; MOLECULE: VESICULAR TRANSPORT PROTEIN SEC17; CHAIN: A; ENGINEERED: YES; MUTATION: M1I; BIOLOGICAL_UNIT: MONOMER | ||
Line 33: | Line 35: | ||
[http://cl.sdsc.edu/ce_scratch/ | [http://cl.sdsc.edu/ce_scratch/ce16316.txt PDB file] | ||
[http://cl.sdsc.edu/ce_scratch/ce16316.html link ] |
Latest revision as of 06:44, 29 May 2007
USR1:A(size=307) vs 1QQE:A(size=292)
Structure Alignment Rmsd = 3.3Å Z-Score = 7.1 Sequence identity = 19.4% Aligned/gap positions = 268/11
Sequence alignment based on structure alignment. Position numbers according to sequence (starting from 1) and according to PDB are given as SSSS/PPPP, SSSS - sequence, PPPP - PDB.
USR1:A - MOL_ID: 1; MOLECULE: GAMMA-SNAP; CHAIN: A, B, C, D; ENGINEERED: YES
1QQE:A - MOL_ID: 1; MOLECULE: VESICULAR TRANSPORT PROTEIN SEC17; CHAIN: A; ENGINEERED: YES; MUTATION: M1I; BIOLOGICAL_UNIT: MONOMER
USR1:A 8/7 SEAHEHIAKAEKYLKT----SFX-KWKPD-YDSAASEYAKAAVAFKNAKQLEQAKDAYLQ 1QQE:A 3/4 DPVELLKRAEKKGVPSSGFMKLFSGSDSYKFEEAADLCVQAATIYRLRKELNLAGDSFLK
USR1:A 62/61 EAEAHANNRSLFHAAKAFEQAGXXLKDLQRXPEAVQYIEKASVXYVENGTPDTAAXALDR 1QQE:A 63/64 AADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE
USR1:A 122/121 AGKLXEP--LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQ 1QQE:A 123/124 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYS
USR1:A 180/179 KEKSXYKEXE-NYPTCYKKCIAQVLVQLHRADYVAAQKCVRESYSIPGFSGSE-DCAALE 1QQE:A 183/184 KLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLK
USR1:A 238/237 DLLQAYDEQDEEQLLRVC-RSPLVTYXDNDYAKLAISLK 1QQE:A 243/244 SLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITILNKIK