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= 023237
(285 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3BK6|A Chain A, Crystal Structure Of A Core Domain Of Stomatin From
Pyrococcus Horikoshii
pdb|3BK6|B Chain B, Crystal Structure Of A Core Domain Of Stomatin From
Pyrococcus Horikoshii
pdb|3BK6|C Chain C, Crystal Structure Of A Core Domain Of Stomatin From
Pyrococcus Horikoshii
Length = 188
Score = 33.9 bits (76), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 55/117 (47%), Gaps = 5/117 (4%)
Query: 47 LSLRVQQLDVRC-ETKTKDNVFVNVVASVQYRALAE-KASDAFYKLSNTRSQIQAYVFDV 104
+ LR Q LDV ET TKDNV V V A V +R + KA SQI
Sbjct: 9 VDLRTQVLDVPVQETITKDNVPVRVNAVVYFRVVDPVKAVTQVKNYIMATSQISQTTL-- 66
Query: 105 IRASVPKLDLDATFEQKNDIAKAVEEELEKAMSHYGYEIVQTLIVDIEPDEHVKRAM 161
R+ + + LD +++ + ++ +++A +G ++ I D+E +++AM
Sbjct: 67 -RSVIGQAHLDELLSERDKLNMQLQRIIDEATDPWGIKVTAVEIKDVELPAGMQKAM 122
>pdb|2RPB|A Chain A, The Solution Structure Of Membrane Protein
Length = 113
Score = 31.6 bits (70), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 53/111 (47%), Gaps = 3/111 (2%)
Query: 44 AGQLSLRVQQLDVRC-ETKTKDNVFVNVVASVQYRALAEKASDAFYKLSNTRSQIQAYVF 102
+ + LR +DV E KDNV V V A V Y+ + A Y +S+ I
Sbjct: 2 SDHVDLREHVIDVPPQEVICKDNVVVTVDAVVYYQVI--DPVKAVYNVSDFLMAIVKLAQ 59
Query: 103 DVIRASVPKLDLDATFEQKNDIAKAVEEELEKAMSHYGYEIVQTLIVDIEP 153
+RA + +++LD T ++ I + EEL+K +G +I + I I+P
Sbjct: 60 TNLRAIIGEMELDETLSGRDIINARLREELDKITDRWGVKITRVEIQRIDP 110
>pdb|3PV6|A Chain A, Crystal Structure Of Nkp30 Bound To Its Ligand B7-H6
pdb|3PV7|A Chain A, Crystal Structure Of Nkp30 Ligand B7-H6
Length = 248
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 34/79 (43%), Gaps = 14/79 (17%)
Query: 15 VAIKETFGKFDDVLEPGCHCLPWCLGSQVAGQLSLRVQQL------DVRCET-----KTK 63
V + E FG + PG PW L S G SLR+ + + RCE K +
Sbjct: 53 VKVFEFFGDHQEAFRPGAIVSPWRLKS---GDASLRLPGIQLEEAGEYRCEVVVTPLKAQ 109
Query: 64 DNVFVNVVASVQYRALAEK 82
V + VVAS R L ++
Sbjct: 110 GTVQLEVVASPASRLLLDQ 128
>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 = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 192 EAESKYLAGLGIARQRQAIVDGLRDSVLAFSENVPGTSSKDVMDMVLVTQYFDT 245
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 = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 198 LAGLGIARQRQAIVDGLRDSVLAFSENVPGTSSKDVMDM 236
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 = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 198 LAGLGIARQRQAIVDGLRDSVLAFSENVPGTSSKDVMDM 236
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
0.317 0.132 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,792,994
Number of Sequences: 62578
Number of extensions: 232958
Number of successful extensions: 647
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 642
Number of HSP's gapped (non-prelim): 13
length of query: 285
length of database: 14,973,337
effective HSP length: 98
effective length of query: 187
effective length of database: 8,840,693
effective search space: 1653209591
effective search space used: 1653209591
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)