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= 008404
(567 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1MUM|A Chain A, Structure Of The 2-Methylisocitrate Lyase (Prpb) From
Escherichia Coli
pdb|1MUM|B Chain B, Structure Of The 2-Methylisocitrate Lyase (Prpb) From
Escherichia Coli
pdb|1OQF|A Chain A, Crystal Structure Of The 2-Methylisocitrate Lyase
pdb|1OQF|B Chain B, Crystal Structure Of The 2-Methylisocitrate Lyase
Length = 295
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 50/107 (46%), Gaps = 12/107 (11%)
Query: 406 EAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHL-NRPNNKLLDWFFNPIMVLKE 464
+A +GFG ++ +T+ IKAG+ GL + D V +RPN ++ MV +
Sbjct: 84 DADIGFGSSAFNVARTVKSMIKAGAAGLHIEDQVGAKRCGHRPNKAIVS---KEEMVDRI 140
Query: 465 QISVLKLTEPEVRYLEK-----VVLFGSTTERMEAWDNGG---LLPE 503
+ +V T+P+ + + V + ER +A+ G L PE
Sbjct: 141 RAAVDAKTDPDFVIMARTDALAVEGLDAAIERAQAYVEAGAEMLFPE 187
>pdb|1XG3|A Chain A, Crystal Structure Of The C123s 2-Methylisocitrate Lyase
Mutant From Escherichia Coli In Complex With The
Reaction Product, Mg(Ii)-Pyruvate And Succinate
pdb|1XG3|B Chain B, Crystal Structure Of The C123s 2-Methylisocitrate Lyase
Mutant From Escherichia Coli In Complex With The
Reaction Product, Mg(Ii)-Pyruvate And Succinate
pdb|1XG3|C Chain C, Crystal Structure Of The C123s 2-Methylisocitrate Lyase
Mutant From Escherichia Coli In Complex With The
Reaction Product, Mg(Ii)-Pyruvate And Succinate
pdb|1XG3|D Chain D, Crystal Structure Of The C123s 2-Methylisocitrate Lyase
Mutant From Escherichia Coli In Complex With The
Reaction Product, Mg(Ii)-Pyruvate And Succinate
pdb|1XG4|A Chain A, Crystal Structure Of The C123s 2-Methylisocitrate Lyase
Mutant From Escherichia Coli In Complex With The
Inhibitor Isocitrate
pdb|1XG4|B Chain B, Crystal Structure Of The C123s 2-Methylisocitrate Lyase
Mutant From Escherichia Coli In Complex With The
Inhibitor Isocitrate
pdb|1XG4|C Chain C, Crystal Structure Of The C123s 2-Methylisocitrate Lyase
Mutant From Escherichia Coli In Complex With The
Inhibitor Isocitrate
pdb|1XG4|D Chain D, Crystal Structure Of The C123s 2-Methylisocitrate Lyase
Mutant From Escherichia Coli In Complex With The
Inhibitor Isocitrate
Length = 295
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 50/107 (46%), Gaps = 12/107 (11%)
Query: 406 EAIVGFGLPCYSFLQTLLYSIKAGSGGLLLPDSVEITHL-NRPNNKLLDWFFNPIMVLKE 464
+A +GFG ++ +T+ IKAG+ GL + D V +RPN ++ MV +
Sbjct: 84 DADIGFGSSAFNVARTVKSMIKAGAAGLHIEDQVGAKRSGHRPNKAIVS---KEEMVDRI 140
Query: 465 QISVLKLTEPEVRYLEK-----VVLFGSTTERMEAWDNGG---LLPE 503
+ +V T+P+ + + V + ER +A+ G L PE
Sbjct: 141 RAAVDAKTDPDFVIMARTDALAVEGLDAAIERAQAYVEAGAEMLFPE 187
>pdb|3IZ6|S Chain S, Localization Of The Small Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 146
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 44/104 (42%), Gaps = 10/104 (9%)
Query: 285 IAMVAEFDE---YTNDWLYLREGTILPKPRYRQKKVHSSSELPVGGNQVAGGKFTSASAD 341
I A F E Y DW Y R +I +K++ + VGG Q G +
Sbjct: 39 IVKTARFKELPPYDPDWYYTRAASIA-------RKIYLRQGIGVGGFQKIYGGRQRNGSR 91
Query: 342 APAMLMPSLAHSRSVREAIQEVKMVQIWVNMMRSCETRGRELLD 385
P S A SR++ + +Q++ ++ + R ++GR LD
Sbjct: 92 PPHFCKSSGAISRNILQQLQKMGIIDVDPKGGRLITSQGRRDLD 135
>pdb|3HWK|A Chain A, Crystal Structure Of Methylcitrate Synthase From
Mycobacterium Tuberculosis
pdb|3HWK|B Chain B, Crystal Structure Of Methylcitrate Synthase From
Mycobacterium Tuberculosis
pdb|3HWK|C Chain C, Crystal Structure Of Methylcitrate Synthase From
Mycobacterium Tuberculosis
pdb|3HWK|D Chain D, Crystal Structure Of Methylcitrate Synthase From
Mycobacterium Tuberculosis
pdb|3HWK|E Chain E, Crystal Structure Of Methylcitrate Synthase From
Mycobacterium Tuberculosis
pdb|3HWK|F Chain F, Crystal Structure Of Methylcitrate Synthase From
Mycobacterium Tuberculosis
pdb|3HWK|G Chain G, Crystal Structure Of Methylcitrate Synthase From
Mycobacterium Tuberculosis
pdb|3HWK|H Chain H, Crystal Structure Of Methylcitrate Synthase From
Mycobacterium Tuberculosis
Length = 414
Score = 32.7 bits (73), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 25/41 (60%)
Query: 387 DVITPADLKDWLKAKCVNEEAIVGFGLPCYSFLQTLLYSIK 427
++ PA+ ++WL+AK +E I+GFG Y + + ++K
Sbjct: 276 EIGDPANAREWLRAKLARKEKIMGFGHRVYRHGDSRVPTMK 316
>pdb|3DH0|A Chain A, Crystal Structure Of A Sam Dependent Methyltransferase
From Aquifex Aeolicus
pdb|3DH0|B Chain B, Crystal Structure Of A Sam Dependent Methyltransferase
From Aquifex Aeolicus
Length = 219
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 5/49 (10%)
Query: 67 KTNRLDIPLKVAIFFPLPAL--FGLWLGLSIAGSVLVGVGYGFFTPWVS 113
K +LD P ++ +F P L FGL G+++ + VG G GF+ P++S
Sbjct: 11 KIKKLDDPSRLELFDPEKVLKEFGLKEGMTV---LDVGTGAGFYLPYLS 56
>pdb|2PD0|A Chain A, Protein Cgd2_2020 From Cryptosporidium Parvum
pdb|2PD0|B Chain B, Protein Cgd2_2020 From Cryptosporidium Parvum
pdb|2PD0|C Chain C, Protein Cgd2_2020 From Cryptosporidium Parvum
pdb|2PD0|D Chain D, Protein Cgd2_2020 From Cryptosporidium Parvum
Length = 223
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 28/90 (31%), Positives = 37/90 (41%), Gaps = 27/90 (30%)
Query: 92 GLSIAGSVLVGV----------GY-GFFTPWVSAFEAFRNDNEYKKLFHCVVDGTWGTIK 140
GL GS L+GV GY G + P S +E RN N Y I+
Sbjct: 13 GLVPRGSKLLGVNSFALRQFVEGYRGSYIPRXSPYEFLRNVNNY-------------IIE 59
Query: 141 GSCTMVRDFADLCYHSYPIFLKEIRESPHS 170
+ T+V +AD C H IF+ E+ S
Sbjct: 60 NNPTLVDGYADFCKH---IFIPNFTEAKQS 86
>pdb|4G4S|O Chain O, Structure Of Proteasome-Pba1-Pba2 Complex
Length = 276
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 405 EEAIVGFGLPCYSFLQTLLYSIK 427
+E + GF P YSF +TLL+S++
Sbjct: 114 DETVYGFSFPIYSFGKTLLFSME 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 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,864,278
Number of Sequences: 62578
Number of extensions: 578934
Number of successful extensions: 1284
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1280
Number of HSP's gapped (non-prelim): 7
length of query: 567
length of database: 14,973,337
effective HSP length: 104
effective length of query: 463
effective length of database: 8,465,225
effective search space: 3919399175
effective search space used: 3919399175
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: 54 (25.4 bits)