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= 031907
(150 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FM0|A Chain A, Crystal Structure Of Wd40 Protein Ciao1
Length = 345
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%)
Query: 42 LKGVKNEELLVASHKSVYIVYTVLGDVSIFVVGKDEYDELALAEVIFAITSAVK 95
L+G +NE VA S ++ T D S++V DE DE V+ + T VK
Sbjct: 101 LEGHENEVKSVAWAPSGNLLATCSRDKSVWVWEVDEEDEYECVSVLNSHTQDVK 154
>pdb|2QIZ|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 26.9 bits (58), Expect = 4.3, Method: Composition-based stats.
Identities = 18/73 (24%), Positives = 34/73 (46%), Gaps = 8/73 (10%)
Query: 77 EYDELALAEVIFAITS--AVKDACGKIPTERLFLDKYGK---ICLCLDEIVWKTLSYTTK 131
E+DEL +++A+ + + G + F DK+ I + L+E+ +K SY +
Sbjct: 626 EHDELVNKNLLYALLDFYVIVEKTG---SSSQFYDKFNSRYSISIILEELYYKIPSYKNQ 682
Query: 132 ASFDGHGGQDFFI 144
+ DFF+
Sbjct: 683 LIWQSQNNADFFV 695
>pdb|3M62|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Rad23
pdb|3M63|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 968
Score = 26.9 bits (58), Expect = 4.6, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 4/71 (5%)
Query: 77 EYDELALAEVIFAITSAVKDACGKIPTERLFLDKYGK---ICLCLDEIVWKTLSYTTKAS 133
E+DEL +++A+ K + F DK+ I + L+E+ +K SY +
Sbjct: 612 EHDELVNKNLLYALLDFYV-IVEKTGSSSQFYDKFNSRYSISIILEELYYKIPSYKNQLI 670
Query: 134 FDGHGGQDFFI 144
+ DFF+
Sbjct: 671 WQSQNNADFFV 681
>pdb|2QJ0|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 26.9 bits (58), Expect = 4.7, Method: Composition-based stats.
Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 4/71 (5%)
Query: 77 EYDELALAEVIFAITSAVKDACGKIPTERLFLDKYGK---ICLCLDEIVWKTLSYTTKAS 133
E+DEL +++A+ K + F DK+ I + L+E+ +K SY +
Sbjct: 626 EHDELVNKNLLYALLDFYV-IVEKTGSSSQFYDKFNSRYSISIILEELYYKIPSYKNQLI 684
Query: 134 FDGHGGQDFFI 144
+ DFF+
Sbjct: 685 WQSQNNADFFV 695
>pdb|3FH6|F Chain F, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|H Chain H, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
Length = 480
Score = 26.2 bits (56), Expect = 6.7, Method: Composition-based stats.
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 126 LSYTTKASFDGHGGQDF 142
++YT + +F+G GGQDF
Sbjct: 434 VNYTYRIAFEGGGGQDF 450
>pdb|2R6G|F Chain F, The Crystal Structure Of The E. Coli Maltose Transporter
pdb|3PUY|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUZ|F Chain F, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Bound To Amp-Pnp
pdb|3PV0|F Chain F, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Without Nucleotide
pdb|3PUV|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUW|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUX|F Chain F, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3RLF|F Chain F, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
Length = 514
Score = 26.2 bits (56), Expect = 6.7, Method: Composition-based stats.
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 126 LSYTTKASFDGHGGQDF 142
++YT + +F+G GGQDF
Sbjct: 468 VNYTYRIAFEGGGGQDF 484
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
0.324 0.142 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,501,069
Number of Sequences: 62578
Number of extensions: 172591
Number of successful extensions: 333
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 326
Number of HSP's gapped (non-prelim): 10
length of query: 150
length of database: 14,973,337
effective HSP length: 90
effective length of query: 60
effective length of database: 9,341,317
effective search space: 560479020
effective search space used: 560479020
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)