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= 026063
(244 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2RPB|A Chain A, The Solution Structure Of Membrane Protein
Length = 113
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 28/49 (57%)
Query: 64 IRASVPKLDLDATFEQKNDIAKAVEEELEKAMSHYGYEIVQTLIVDIEP 112
+RA + +++LD T ++ I + EEL+K +G +I + I I+P
Sbjct: 62 LRAIIGEMELDETLSGRDIINARLREELDKITDRWGVKITRVEIQRIDP 110
>pdb|3M9U|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3M9U|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3M9U|C Chain C, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3M9U|D Chain D, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367
pdb|3PDE|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
pdb|3PDE|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
pdb|3PDE|C Chain C, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
pdb|3PDE|D Chain D, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Lactobacillus Brevis Atcc 367 Complexed With
Isoprenyl Diphosphate And Magnesium
Length = 309
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 151 EAESKYLAGLGIARQRQAIVDGLRDSVLAFSENVPGTSSKDVMDMVLVTQYFDT 204
EA++ Y LG+ QA++D + A + +P ++ +D D+ YFDT
Sbjct: 247 EAKNTYPGKLGLIGANQALIDTIHSGQAAL-QGLPTSTQRD--DLAAFFSYFDT 297
>pdb|1Q5Q|A Chain A, The Rhodococcus 20s Proteasome
pdb|1Q5Q|B Chain B, The Rhodococcus 20s Proteasome
pdb|1Q5Q|C Chain C, The Rhodococcus 20s Proteasome
pdb|1Q5Q|D Chain D, The Rhodococcus 20s Proteasome
pdb|1Q5Q|E Chain E, The Rhodococcus 20s Proteasome
pdb|1Q5Q|F Chain F, The Rhodococcus 20s Proteasome
pdb|1Q5Q|G Chain G, The Rhodococcus 20s Proteasome
pdb|2H6J|A Chain A, Crystal Structure Of The Beta F145a Rhodococcus Proteasome
(Casp Target)
pdb|2H6J|B Chain B, Crystal Structure Of The Beta F145a Rhodococcus Proteasome
(Casp Target)
pdb|2H6J|C Chain C, Crystal Structure Of The Beta F145a Rhodococcus Proteasome
(Casp Target)
pdb|2H6J|D Chain D, Crystal Structure Of The Beta F145a Rhodococcus Proteasome
(Casp Target)
pdb|2H6J|E Chain E, Crystal Structure Of The Beta F145a Rhodococcus Proteasome
(Casp Target)
pdb|2H6J|F Chain F, Crystal Structure Of The Beta F145a Rhodococcus Proteasome
(Casp Target)
pdb|2H6J|G Chain G, Crystal Structure Of The Beta F145a Rhodococcus Proteasome
(Casp Target)
Length = 259
Score = 27.3 bits (59), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 157 LAGLGIARQRQAIVDGLRDSVLAFSENVPGTSSKDVMDM 195
LA GIAR R +V RD VL +EN P T+ V ++
Sbjct: 19 LARKGIARGRSVVVLTFRDGVLFVAEN-PSTALHKVSEL 56
>pdb|1Q5R|A Chain A, The Rhodococcus 20s Proteasome With Unprocessed
Pro-Peptides
pdb|1Q5R|B Chain B, The Rhodococcus 20s Proteasome With Unprocessed
Pro-Peptides
pdb|1Q5R|C Chain C, The Rhodococcus 20s Proteasome With Unprocessed
Pro-Peptides
pdb|1Q5R|D Chain D, The Rhodococcus 20s Proteasome With Unprocessed
Pro-Peptides
pdb|1Q5R|E Chain E, The Rhodococcus 20s Proteasome With Unprocessed
Pro-Peptides
pdb|1Q5R|F Chain F, The Rhodococcus 20s Proteasome With Unprocessed
Pro-Peptides
pdb|1Q5R|G Chain G, The Rhodococcus 20s Proteasome With Unprocessed
Pro-Peptides
Length = 259
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 157 LAGLGIARQRQAIVDGLRDSVLAFSENVPGTSSKDVMDM 195
LA GIAR R +V RD VL +EN P T+ V ++
Sbjct: 19 LARKGIARGRSVVVLTFRDGVLFVAEN-PSTALHKVSEL 56
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
0.318 0.132 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,829,144
Number of Sequences: 62578
Number of extensions: 186304
Number of successful extensions: 522
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 517
Number of HSP's gapped (non-prelim): 9
length of query: 244
length of database: 14,973,337
effective HSP length: 96
effective length of query: 148
effective length of database: 8,965,849
effective search space: 1326945652
effective search space used: 1326945652
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)