BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 039246
(253 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2VX8|A Chain A, Vamp7 Longin Domain Hrb Peptide Complex
pdb|2VX8|B Chain B, Vamp7 Longin Domain Hrb Peptide Complex
pdb|2VX8|C Chain C, Vamp7 Longin Domain Hrb Peptide Complex
pdb|2VX8|D Chain D, Vamp7 Longin Domain Hrb Peptide Complex
Length = 169
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 49/98 (50%), Gaps = 2/98 (2%)
Query: 4 NPGL-VFYACIAKGSIILGEFSSKEPAISETLAQECIDKTPRHHLMFSHTVCKRTYAFLI 62
N G+ + +A +A+G+ IL + + E + ++ + K P + +++ + ++
Sbjct: 41 NKGMAILFAVVARGTTILAKHAWCGGNFLE-VTEQILAKIPSENNKLTYSHGNYLFHYIC 99
Query: 63 NGPLTYFVIHDEDLHKGESFWFLNRVKSAFEEIFETRS 100
+ Y I D+D + +F FLN VK F+ + +R+
Sbjct: 100 QDRIVYLCITDDDFERSRAFSFLNEVKKRFQTTYGSRA 137
>pdb|4B93|A Chain A, Complex Of Vamp7 Cytoplasmic Domain With 2nd Ankyrin
Repeat Domain Of Varp
Length = 189
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/93 (21%), Positives = 46/93 (49%), Gaps = 1/93 (1%)
Query: 8 VFYACIAKGSIILGEFSSKEPAISETLAQECIDKTPRHHLMFSHTVCKRTYAFLINGPLT 67
+ +A +A+G+ IL + + E + ++ + K P + +++ + ++ +
Sbjct: 4 ILFAVVARGTTILAKHAWCGGNFLE-VTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 62
Query: 68 YFVIHDEDLHKGESFWFLNRVKSAFEEIFETRS 100
Y I D+D + +F FLN VK F+ + +R+
Sbjct: 63 YLCITDDDFERSRAFSFLNEVKKRFQTTYGSRA 95
>pdb|2DMW|A Chain A, Solution Structure Of The Longin Domain Of Synaptobrevin-
Like Protein 1
Length = 131
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/93 (20%), Positives = 46/93 (49%), Gaps = 1/93 (1%)
Query: 8 VFYACIAKGSIILGEFSSKEPAISETLAQECIDKTPRHHLMFSHTVCKRTYAFLINGPLT 67
+ +A +A+G+ IL + + E + ++ + K P + +++ + ++ +
Sbjct: 10 ILFAVVARGTTILAKHAWCGGNFLE-VTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 68
Query: 68 YFVIHDEDLHKGESFWFLNRVKSAFEEIFETRS 100
Y I D+D + +F FLN +K F+ + +R+
Sbjct: 69 YLCITDDDFERSRAFNFLNEIKKRFQTTYGSRA 101
>pdb|4AFI|A Chain A, Complex Between Vamp7 Longin Domain And Fragment Of Delta-
Adaptin From Ap3
pdb|4AFI|B Chain B, Complex Between Vamp7 Longin Domain And Fragment Of Delta-
Adaptin From Ap3
Length = 173
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/93 (21%), Positives = 46/93 (49%), Gaps = 1/93 (1%)
Query: 8 VFYACIAKGSIILGEFSSKEPAISETLAQECIDKTPRHHLMFSHTVCKRTYAFLINGPLT 67
+ +A +A+G+ IL + + E + ++ + K P + +++ + ++ +
Sbjct: 56 ILFAVVARGTTILAKHAWCGGNFLE-VTEQILAKIPSENNKLTYSHGNYLFHYICQDRIV 114
Query: 68 YFVIHDEDLHKGESFWFLNRVKSAFEEIFETRS 100
Y I D+D + +F FLN VK F+ + +R+
Sbjct: 115 YLCITDDDFERSRAFSFLNEVKKRFQTTYGSRA 147
>pdb|3V93|A Chain A, Unliganded Structure Of Tcrpdec1 Catalytic Domain
pdb|3V93|B Chain B, Unliganded Structure Of Tcrpdec1 Catalytic Domain
pdb|3V93|C Chain C, Unliganded Structure Of Tcrpdec1 Catalytic Domain
pdb|3V93|D Chain D, Unliganded Structure Of Tcrpdec1 Catalytic Domain
pdb|3V93|E Chain E, Unliganded Structure Of Tcrpdec1 Catalytic Domain
pdb|3V93|F Chain F, Unliganded Structure Of Tcrpdec1 Catalytic Domain
pdb|3V93|G Chain G, Unliganded Structure Of Tcrpdec1 Catalytic Domain
pdb|3V93|H Chain H, Unliganded Structure Of Tcrpdec1 Catalytic Domain
pdb|3V94|A Chain A, Tcrpdec1 Catalytic Domain In Complex With Inhibitor Wyq16
pdb|3V94|B Chain B, Tcrpdec1 Catalytic Domain In Complex With Inhibitor Wyq16
pdb|3V94|C Chain C, Tcrpdec1 Catalytic Domain In Complex With Inhibitor Wyq16
pdb|3V94|D Chain D, Tcrpdec1 Catalytic Domain In Complex With Inhibitor Wyq16
pdb|3V94|E Chain E, Tcrpdec1 Catalytic Domain In Complex With Inhibitor Wyq16
pdb|3V94|F Chain F, Tcrpdec1 Catalytic Domain In Complex With Inhibitor Wyq16
pdb|3V94|G Chain G, Tcrpdec1 Catalytic Domain In Complex With Inhibitor Wyq16
pdb|3V94|H Chain H, Tcrpdec1 Catalytic Domain In Complex With Inhibitor Wyq16
Length = 345
Score = 30.4 bits (67), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 47/117 (40%), Gaps = 16/117 (13%)
Query: 4 NPGLVFYACIAKGSIILGEFS---SKEPAISETLAQECIDKTPRHHLMFSHTVCK--RTY 58
NP ++ I ++ G FS + +P + EC +H VC RT
Sbjct: 96 NP---YHNAIHAADVLQGTFSLVSAAKPLMEHLTPLECKAAA---FAALTHDVCHPGRTN 149
Query: 59 AFL--INGPLTYFVIHD---EDLHKGESFWFLNRVKSAFEEIFETRSILNFDNVSNH 110
AFL + P+++ E LH +F LN + F + S L F N+ +H
Sbjct: 150 AFLAAVQDPVSFKFSGKGTLEQLHTATAFELLNVTEFDFTSSMDNASFLEFKNIVSH 206
>pdb|3GUE|A Chain A, Crystal Structure Of Udp-Glucose Phosphorylase From
Trypanosoma Brucei, (Tb10.389.0330)
pdb|3GUE|B Chain B, Crystal Structure Of Udp-Glucose Phosphorylase From
Trypanosoma Brucei, (Tb10.389.0330)
Length = 484
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 35/90 (38%), Gaps = 5/90 (5%)
Query: 23 FSSKEPAISETLAQECIDKTPRHHLMFSHTVCKRTYAFLINGPLTYFVIHDEDLHKGESF 82
F S + TL +D L F VC+RT + G L Y + DE +
Sbjct: 216 FISNGDNLGATLDVRLLDYMHEKQLGFLMEVCRRTESDKKGGHLAYKDVIDETTGQTRRR 275
Query: 83 WFLNRVKSAFEEIFETRSILNFDNVSNHCF 112
+ L +E ++ F N++ HCF
Sbjct: 276 FVLRESAQCPKEDEDS-----FQNIAKHCF 300
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.325 0.140 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,115,814
Number of Sequences: 62578
Number of extensions: 253842
Number of successful extensions: 594
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 589
Number of HSP's gapped (non-prelim): 6
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)