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= psy17194
(871 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Y5Y|A Chain A, Crystal Structure Of Lacy In Complex With An Affinity
Inactivator
pdb|2Y5Y|B Chain B, Crystal Structure Of Lacy In Complex With An Affinity
Inactivator
Length = 423
Score = 33.5 bits (75), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 5/64 (7%)
Query: 95 HHREHAEGEDSATGVLFASKAIVQLMVNPFSGALIDRIG---YDLPMMIGLCIMFLSTAL 151
H H D TG++FA+ ++ L+ P G L D++G Y L ++ G+ +MF +
Sbjct: 35 HDINHISKSD--TGIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGMLVMFAPFFI 92
Query: 152 FACG 155
F G
Sbjct: 93 FIFG 96
>pdb|1PV6|A Chain A, Crystal Structure Of Lactose Permease
pdb|1PV6|B Chain B, Crystal Structure Of Lactose Permease
pdb|1PV7|A Chain A, Crystal Structure Of Lactose Permease With Tdg
pdb|1PV7|B Chain B, Crystal Structure Of Lactose Permease With Tdg
pdb|2CFP|A Chain A, Sugar Free Lactose Permease At Acidic Ph
pdb|2CFQ|A Chain A, Sugar Free Lactose Permease At Neutral Ph
Length = 417
Score = 33.1 bits (74), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 95 HHREHAEGEDSATGVLFASKAIVQLMVNPFSGALIDRIG---YDLPMMIGLCIMF 146
H H D TG++FA+ ++ L+ P G L D++G Y L ++ G+ +MF
Sbjct: 35 HDINHISKSD--TGIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGMLVMF 87
>pdb|2V8N|A Chain A, Wild-Type Structure Of Lactose Permease
pdb|2V8N|B Chain B, Wild-Type Structure Of Lactose Permease
Length = 417
Score = 33.1 bits (74), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 5/55 (9%)
Query: 95 HHREHAEGEDSATGVLFASKAIVQLMVNPFSGALIDRIG---YDLPMMIGLCIMF 146
H H D TG++FA+ ++ L+ P G L D++G Y L ++ G+ +MF
Sbjct: 35 HDINHISKSD--TGIIFAAISLFSLLFQPLFGLLSDKLGLRKYLLWIITGMLVMF 87
>pdb|3V65|B Chain B, Crystal Structure Of Agrin And Lrp4 Complex
pdb|3V65|D Chain D, Crystal Structure Of Agrin And Lrp4 Complex
Length = 386
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 8 WTVVGTLKVPVLNLEVNEVKDIVWEKLQEPKS 39
WT GT ++ V NL+ K ++W+ L++P++
Sbjct: 175 WTDSGTSRIEVANLDGAHRKVLLWQSLEKPRA 206
>pdb|3V64|C Chain C, Crystal Structure Of Agrin And Lrp4
pdb|3V64|D Chain D, Crystal Structure Of Agrin And Lrp4
Length = 349
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 21/32 (65%)
Query: 8 WTVVGTLKVPVLNLEVNEVKDIVWEKLQEPKS 39
WT GT ++ V NL+ K ++W+ L++P++
Sbjct: 132 WTDSGTSRIEVANLDGAHRKVLLWQSLEKPRA 163
>pdb|1RTV|A Chain A, Rmlc (Dtdp-6-Deoxy-D-Xylo-4-Hexulose 3,5-Epimerase)
Crystal Structure From Pseudomonas Aeruginosa, Apo
Structure
pdb|2IXJ|A Chain A, Rmlc P Aeruginosa Native
pdb|2IXH|A Chain A, Rmlc P Aeruginosa With Dtdp-Rhamnose
pdb|2IXH|B Chain B, Rmlc P Aeruginosa With Dtdp-Rhamnose
Length = 184
Score = 30.4 bits (67), Expect = 4.7, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 294 PTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGVVITVKLAKLYPT 338
PT W+ + L+ +N + +W+PA F H F VV++ LY T
Sbjct: 95 PTFGQWVGERLSAENKR--QMWIPAGFAHGF-VVLSEYAEFLYKT 136
Score = 30.4 bits (67), Expect = 4.7, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 620 PTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGVVITVKLAKLYPT 664
PT W+ + L+ +N + +W+PA F H F VV++ LY T
Sbjct: 95 PTFGQWVGERLSAENKR--QMWIPAGFAHGF-VVLSEYAEFLYKT 136
>pdb|2IXI|A Chain A, Rmlc P Aeruginosa With Dtdp-Xylose
pdb|2IXI|B Chain B, Rmlc P Aeruginosa With Dtdp-Xylose
pdb|2IXK|A Chain A, Rmlc P Aeruginosa With Dtdp-4-Keto Rhamnnose (The Product
Of The Reaction)
pdb|2IXK|B Chain B, Rmlc P Aeruginosa With Dtdp-4-Keto Rhamnnose (The Product
Of The Reaction)
Length = 184
Score = 30.4 bits (67), Expect = 4.7, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 294 PTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGVVITVKLAKLYPT 338
PT W+ + L+ +N + +W+PA F H F VV++ LY T
Sbjct: 95 PTFGQWVGERLSAENKR--QMWIPAGFAHGF-VVLSEYAEFLYKT 136
Score = 30.4 bits (67), Expect = 4.7, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 620 PTISLWIEDNLTTDNWKIGMIWLPAFFPHVFGVVITVKLAKLYPT 664
PT W+ + L+ +N + +W+PA F H F VV++ LY T
Sbjct: 95 PTFGQWVGERLSAENKR--QMWIPAGFAHGF-VVLSEYAEFLYKT 136
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 0.140 0.430
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,120,380
Number of Sequences: 62578
Number of extensions: 1095156
Number of successful extensions: 2390
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 2385
Number of HSP's gapped (non-prelim): 10
length of query: 871
length of database: 14,973,337
effective HSP length: 107
effective length of query: 764
effective length of database: 8,277,491
effective search space: 6324003124
effective search space used: 6324003124
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 56 (26.2 bits)