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= psy9705
(140 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WTX|A Chain A, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
With Retention Through The Synthesis And Analysis Of
Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
Synthase
pdb|2WTX|B Chain B, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
With Retention Through The Synthesis And Analysis Of
Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
Synthase
pdb|2WTX|C Chain C, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
With Retention Through The Synthesis And Analysis Of
Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
Synthase
pdb|2WTX|D Chain D, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
With Retention Through The Synthesis And Analysis Of
Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
Synthase
Length = 474
Score = 75.9 bits (185), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 39/97 (40%), Positives = 55/97 (56%)
Query: 1 MNLVAKEFVACQINEPPGVLIVSPFAGAGEQMHEALICNPYEIDAAAEVIHRALTMPEDE 60
MNLVAKE+VA Q PGVL++S FAGA ++ ALI NPY+ D A + RALTM E
Sbjct: 364 MNLVAKEYVAAQDPANPGVLVLSQFAGAANELTSALIVNPYDRDEVAAALDRALTMSLAE 423
Query: 61 RTLRMNYLRKREKVHDVNYWMRSFLKGMGTLITEDGD 97
R R + +D+N+W F+ + ++ +
Sbjct: 424 RISRHAEMLDVIVKNDINHWQECFISDLKQIVPRSAE 460
>pdb|1UQU|A Chain A, Trehalose-6-Phosphate From E. Coli Bound With Udp-Glucose.
pdb|1UQU|B Chain B, Trehalose-6-Phosphate From E. Coli Bound With Udp-Glucose.
pdb|1UQT|A Chain A, Trehalose-6-Phosphate From E. Coli Bound With Udp-2-Fluoro
Glucose.
pdb|1UQT|B Chain B, Trehalose-6-Phosphate From E. Coli Bound With Udp-2-Fluoro
Glucose
Length = 482
Score = 75.9 bits (185), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 39/97 (40%), Positives = 55/97 (56%)
Query: 1 MNLVAKEFVACQINEPPGVLIVSPFAGAGEQMHEALICNPYEIDAAAEVIHRALTMPEDE 60
MNLVAKE+VA Q PGVL++S FAGA ++ ALI NPY+ D A + RALTM E
Sbjct: 364 MNLVAKEYVAAQDPANPGVLVLSQFAGAANELTSALIVNPYDRDEVAAALDRALTMSLAE 423
Query: 61 RTLRMNYLRKREKVHDVNYWMRSFLKGMGTLITEDGD 97
R R + +D+N+W F+ + ++ +
Sbjct: 424 RISRHAEMLDVIVKNDINHWQECFISDLKQIVPRSAE 460
>pdb|1GZ5|A Chain A, Trehalose-6-Phosphate Synthase. Otsa
pdb|1GZ5|B Chain B, Trehalose-6-Phosphate Synthase. Otsa
pdb|1GZ5|C Chain C, Trehalose-6-Phosphate Synthase. Otsa
pdb|1GZ5|D Chain D, Trehalose-6-Phosphate Synthase. Otsa
Length = 456
Score = 69.7 bits (169), Expect = 5e-13, Method: Composition-based stats.
Identities = 37/91 (40%), Positives = 51/91 (56%)
Query: 2 NLVAKEFVACQINEPPGVLIVSPFAGAGEQMHEALICNPYEIDAAAEVIHRALTMPEDER 61
NLVAKE+VA Q PGVL++S FAGA ++ ALI NPY+ D A + RALT ER
Sbjct: 364 NLVAKEYVAAQDPANPGVLVLSQFAGAANELTSALIVNPYDRDEVAAALDRALTXSLAER 423
Query: 62 TLRMNYLRKREKVHDVNYWMRSFLKGMGTLI 92
R +D+N+W F+ + ++
Sbjct: 424 ISRHAEXLDVIVKNDINHWQECFISDLKQIV 454
>pdb|2A02|A Chain A, Solution Nmr Structure Of The Periplasmic Signaling Domain
Of The Outer Membrane Iron Transporter Pupa From
Pseudomonas Putida
Length = 82
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 57 PEDERTLRMNYLRKREKVHDVNYWMRSFLKGMGTLITEDGDDVLPT 102
PED LR + L+ R HD+ +R L+G G DG+ V T
Sbjct: 32 PEDIGGLRSSALKGR---HDLQSSLRILLQGTGLRYQIDGNTVTVT 74
>pdb|2L3B|A Chain A, Solution Nmr Structure Of The Bt_0084 Lipoprotein From
Bacteroides Thetaiotaomicron, Northeast Structural
Genomics Consortium Target Btr376
Length = 130
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 1/71 (1%)
Query: 68 LRKREKVHDVNYWMRSFL-KGMGTLITEDGDDVLPTTMQPVTLEDFDEYLSKYIGTHEQA 126
L + + + Y++R F G GTL DG +LP + P+ E F Y + +
Sbjct: 36 LHRDGRFEETKYFIRYFQPDGAGTLKMSDGTVLLPNDLYPLPGETFRLYYTSASTDQQTV 95
Query: 127 WALLLDYDGEL 137
D G+L
Sbjct: 96 DVYFQDSFGQL 106
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%), Gaps = 2/29 (6%)
Query: 54 LTMPEDERTLRMNYLRKREKVHDVNYWMR 82
L PE R++ ++RKRE+VH++ W+R
Sbjct: 25 LKQPEATRSI--VFVRKRERVHELANWLR 51
>pdb|1WGB|A Chain A, Crystal Structure Of A Probable Flavoprotein From Thermus
Thermophilus Hb8
Length = 159
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 81 MRSFLKGMGTLITEDGDDVLPTTMQPVTLEDF 112
+RSF G+ L +DGD+V T+ VT F
Sbjct: 10 LRSFTYGLYVLTAKDGDEVAAGTVNWVTQASF 41
>pdb|1YOA|A Chain A, Crystal Structure Of A Probable Flavoprotein From Thermus
Thermophilus Hb8
Length = 159
Score = 26.9 bits (58), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 81 MRSFLKGMGTLITEDGDDVLPTTMQPVTLEDF 112
+RSF G+ L +DGD+V T+ VT F
Sbjct: 10 LRSFTYGLYVLTAKDGDEVAAGTVNWVTQASF 41
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
0.320 0.137 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,713,627
Number of Sequences: 62578
Number of extensions: 192005
Number of successful extensions: 399
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 393
Number of HSP's gapped (non-prelim): 11
length of query: 140
length of database: 14,973,337
effective HSP length: 89
effective length of query: 51
effective length of database: 9,403,895
effective search space: 479598645
effective search space used: 479598645
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 46 (22.3 bits)