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= 019756
(336 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Xylose
pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Glucose
pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To
6-Bromo-6-Deoxy-D-Glucose
Length = 491
Score = 99.8 bits (247), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 86/322 (26%), Positives = 143/322 (44%), Gaps = 51/322 (15%)
Query: 14 NVIPWRILALIGVIPCVLQLIGLFFIPESPRWLVKIGKEKEFETTLQNLRGKGADISQEA 73
N WR + IP +L L+ L+ +PESPRWL+ GK+++ E L+ + G +Q
Sbjct: 195 NTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMGN-TLATQAV 253
Query: 74 AEIRDHIEISQKHSEARLLNLFQRRYANSLIIGVGLMLLQQFGGASAMAYYTSSIFEKXX 133
EI+ ++ +K + RLL +F ++IGV L + QQF G + + YY +F+
Sbjct: 254 QEIKHSLDHGRK-TGGRLL-MFG---VGVIVIGVMLSIFQQFVGINVVLYYAPEVFKTLG 308
Query: 134 XXXXXXXXXXX---XXQIPAVITSVLLMDKAGRKPLLMVITTSRTLFKMFDFVDQRGYEN 190
+ + +++ +DK GRKPL +
Sbjct: 309 ASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRKPLQI---------------------- 346
Query: 191 GYQYLQISACGMAFGCFLIGLSFYLKEVKNMNDAAHILVLVGFMGCSAFNSIGLAGIPFV 250
I A GMA G F +G +FY A I+ L+ + A ++ + +V
Sbjct: 347 ------IGALGMAIGMFSLGTAFY-------TQAPGIVALLSMLFYVAAFAMSWGPVCWV 393
Query: 251 IMSEIFPINVKASAGSLVILICWSCSWIVTYTFNFMMQ--WXXXXXXXXXXX-----XXX 303
++SEIFP ++ A ++ + W ++ V++TF M + W
Sbjct: 394 LLSEIFPNAIRGKALAIAVAAQWLANYFVSWTFPMMDKNSWLVAHFHNGFSYWIYGCMGV 453
Query: 304 XXVLFVAKIVPETKGRTLEEIQ 325
LF+ K VPETKG+TLEE++
Sbjct: 454 LAALFMWKFVPETKGKTLEELE 475
>pdb|3JYV|H Chain H, Structure Of The 40s Rrna And Proteins And PE TRNA FOR
EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces
Lanuginosus Ribosome At 8.9a Resolution
Length = 125
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 27/51 (52%)
Query: 42 SPRWLVKIGKEKEFETTLQNLRGKGADISQEAAEIRDHIEISQKHSEARLL 92
SPR+ VKIG +++ L R G I +A I DH E +KH ++L
Sbjct: 71 SPRFNVKIGDIEKWTANLLPARQFGYVILTTSAGIMDHEEARRKHVSGKIL 121
>pdb|3IZB|H Chain H, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|O Chain O, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|W Chain W, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|W Chain W, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 130
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 27/51 (52%)
Query: 42 SPRWLVKIGKEKEFETTLQNLRGKGADISQEAAEIRDHIEISQKHSEARLL 92
SPR+ VKIG +++ L R G I +A I DH E +KH ++L
Sbjct: 76 SPRFNVKIGDIEKWTANLLPARQFGYVILTTSAGIMDHEEARRKHVSGKIL 126
>pdb|1S1H|H Chain H, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is
In File 1s1i
Length = 129
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 27/51 (52%)
Query: 42 SPRWLVKIGKEKEFETTLQNLRGKGADISQEAAEIRDHIEISQKHSEARLL 92
SPR+ VKIG +++ L R G I +A I DH E +KH ++L
Sbjct: 75 SPRFNVKIGDIEKWTANLLPARQFGYVILTTSAGIMDHEEARRKHVSGKIL 125
>pdb|2ZKQ|HH Chain h, Structure Of A Mammalian Ribosomal 40s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 130
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 29/54 (53%)
Query: 42 SPRWLVKIGKEKEFETTLQNLRGKGADISQEAAEIRDHIEISQKHSEARLLNLF 95
SPR+ V++ ++++ L R G + +A I DH E +KH+ ++L F
Sbjct: 76 SPRFDVQLKDLEKWQNNLLPSRQFGFIVLTTSAGIMDHEEARRKHTGGKILGFF 129
>pdb|4A0S|A Chain A, Structure Of The 2-Octenoyl-Coa Carboxylase Reductase Cinf
In Complex With Nadp And 2-Octenoyl-Coa
pdb|4A0S|B Chain B, Structure Of The 2-Octenoyl-Coa Carboxylase Reductase Cinf
In Complex With Nadp And 2-Octenoyl-Coa
pdb|4A0S|C Chain C, Structure Of The 2-Octenoyl-Coa Carboxylase Reductase Cinf
In Complex With Nadp And 2-Octenoyl-Coa
pdb|4A0S|D Chain D, Structure Of The 2-Octenoyl-Coa Carboxylase Reductase Cinf
In Complex With Nadp And 2-Octenoyl-Coa
pdb|4A10|A Chain A, Apo-Structure Of 2-Octenoyl-Coa Carboxylase Reductase Cinf
From Streptomyces Sp.
pdb|4A10|B Chain B, Apo-Structure Of 2-Octenoyl-Coa Carboxylase Reductase Cinf
From Streptomyces Sp.
pdb|4A10|C Chain C, Apo-Structure Of 2-Octenoyl-Coa Carboxylase Reductase Cinf
From Streptomyces Sp.
pdb|4A10|D Chain D, Apo-Structure Of 2-Octenoyl-Coa Carboxylase Reductase Cinf
From Streptomyces Sp
Length = 447
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 30/118 (25%), Positives = 49/118 (41%), Gaps = 20/118 (16%)
Query: 156 LLMDKAGRKPLLMVITTSRTLFKMFDFVDQRGYENGYQYLQISACGMAFGCFLIGLSFYL 215
L+++KAGR+P ++ T R F + V +RG + CG + G YL
Sbjct: 298 LVVEKAGREPDIVFEHTGRVTFGLSVIVARRGG-------TVVTCGSSSG--------YL 342
Query: 216 KEVKNMNDAAHILVLVGFMGCS-----AFNSIGLAGIPFVIMSEIFPINVKASAGSLV 268
N + +VG G + A N + +G MS ++P+ A A +V
Sbjct: 343 HTFDNRYLWMKLKKIVGSHGANHEEQQATNRLFESGAVVPAMSAVYPLAEAAEACRVV 400
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
0.328 0.142 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,135,305
Number of Sequences: 62578
Number of extensions: 277039
Number of successful extensions: 752
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 739
Number of HSP's gapped (non-prelim): 10
length of query: 336
length of database: 14,973,337
effective HSP length: 99
effective length of query: 237
effective length of database: 8,778,115
effective search space: 2080413255
effective search space used: 2080413255
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)