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= 033399
(120 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RMU|A Chain A, Crystal Structure Of Human Methylmalonyl-Coa Epimerase,
Mcee
pdb|3RMU|B Chain B, Crystal Structure Of Human Methylmalonyl-Coa Epimerase,
Mcee
pdb|3RMU|C Chain C, Crystal Structure Of Human Methylmalonyl-Coa Epimerase,
Mcee
pdb|3RMU|D Chain D, Crystal Structure Of Human Methylmalonyl-Coa Epimerase,
Mcee
Length = 134
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 46/106 (43%), Gaps = 14/106 (13%)
Query: 19 NLLGLEINEARPHDKLPYRGA---WLWVG---AEMIHLMELPNPDPLSGRPEHGGRDRHT 72
N+LG +++EA P LP G ++ +G E++H + L +P + G H
Sbjct: 25 NILGAQVSEAVP---LPEHGVSVVFVNLGNTKMELLHPLGLDSPIAGFLQKNKAGGMHHI 81
Query: 73 CIAIRDVSKLKMILDKAGI-----SYTLSKSGRPAIFTRDPDANAL 113
CI + +++ M L K I + G+P IF D +
Sbjct: 82 CIEVDNINAAVMDLKKKKIRSLSEEVKIGAHGKPVIFLHPKDCGGV 127
>pdb|3HUH|A Chain A, The Structure Of Biphenyl-2,3-Diol 1,2-Dioxygenase
Iii-Related Protein From Salmonella Typhimurium
pdb|3HUH|B Chain B, The Structure Of Biphenyl-2,3-Diol 1,2-Dioxygenase
Iii-Related Protein From Salmonella Typhimurium
pdb|3HUH|C Chain C, The Structure Of Biphenyl-2,3-Diol 1,2-Dioxygenase
Iii-Related Protein From Salmonella Typhimurium
pdb|3HUH|D Chain D, The Structure Of Biphenyl-2,3-Diol 1,2-Dioxygenase
Iii-Related Protein From Salmonella Typhimurium
Length = 152
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 47/94 (50%), Gaps = 20/94 (21%)
Query: 41 LWVGAEMIHL----MELPNPDPLSGRPEHGGRDRH--TCIAIRDVSKLKMILDKAGISYT 94
L GA+ I+L ME +P + RP G D T I DV + IL +AGIS
Sbjct: 59 LIFGAQKINLHQQEMEF---EPKASRPTPGSADLCFITSTPINDV--VSEIL-QAGISIV 112
Query: 95 ---LSKSGRP----AIFTRDPDANALEFTQ-VDG 120
+ ++G +I+ RDPD N +E +Q V+G
Sbjct: 113 EGPVERTGATGEIMSIYIRDPDGNLIEISQYVEG 146
>pdb|3HNQ|A Chain A, Crystal Structure Of Virulence Protein Stm3117 From
Salmonella Typhimurium. Northeast Structural Genomics
Consortium Target Id Str274
pdb|3HNQ|B Chain B, Crystal Structure Of Virulence Protein Stm3117 From
Salmonella Typhimurium. Northeast Structural Genomics
Consortium Target Id Str274
pdb|3HNQ|C Chain C, Crystal Structure Of Virulence Protein Stm3117 From
Salmonella Typhimurium. Northeast Structural Genomics
Consortium Target Id Str274
pdb|3HNQ|D Chain D, Crystal Structure Of Virulence Protein Stm3117 From
Salmonella Typhimurium. Northeast Structural Genomics
Consortium Target Id Str274
Length = 144
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 43/87 (49%), Gaps = 13/87 (14%)
Query: 41 LWVGAEMIHLMELPNP-DPLSGRPEHGGRDRH--TCIAIRDVSKLKMILDKAGISYT--- 94
L GA+ I+L + +P + RP G D T I DV + IL +AGIS
Sbjct: 59 LIFGAQKINLHQQEXEFEPKASRPTPGSADLCFITSTPINDV--VSEIL-QAGISIVEGP 115
Query: 95 LSKSGRP----AIFTRDPDANALEFTQ 117
+ ++G +I+ RDPD N +E +Q
Sbjct: 116 VERTGATGEIXSIYIRDPDGNLIEISQ 142
>pdb|1CM5|A Chain A, Crystal Structure Of C418a,C419a Mutant Of Pfl From E.Coli
pdb|1CM5|B Chain B, Crystal Structure Of C418a,C419a Mutant Of Pfl From E.Coli
Length = 759
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 54 PNPDPLSGRPEHGGRDRHTCIAIRDVSKLKMILDKAGISYTLS 96
P +P+ GR + G ++ V+KL K GISYT S
Sbjct: 631 PGANPMHGRDQKGA-----VASLTSVAKLPFAYAKDGISYTFS 668
>pdb|2PFL|A Chain A, Crystal Structure Of Pfl From E.Coli
pdb|2PFL|B Chain B, Crystal Structure Of Pfl From E.Coli
pdb|3PFL|A Chain A, Crystal Structure Of Pfl From E.coli In Complex With
Substrate Analogue Oxamate
pdb|3PFL|B Chain B, Crystal Structure Of Pfl From E.coli In Complex With
Substrate Analogue Oxamate
pdb|1H16|A Chain A, Pyruvate Formate-Lyase (E.Coli) In Complex With Pyruvate
And Coa
pdb|1H17|A Chain A, Pyruvate Formate-Lyase (E.Coli) In Complex With Coa And
The Substrate Analog Oxamate
pdb|1H18|A Chain A, Pyruvate Formate-Lyase (E.Coli) In Complex With Pyruvate
pdb|1H18|B Chain B, Pyruvate Formate-Lyase (E.Coli) In Complex With Pyruvate
pdb|1MZO|A Chain A, Crystal Structure Of Pyruvate Formate-Lyase With Pyruvate
pdb|1MZO|B Chain B, Crystal Structure Of Pyruvate Formate-Lyase With Pyruvate
Length = 759
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 5/43 (11%)
Query: 54 PNPDPLSGRPEHGGRDRHTCIAIRDVSKLKMILDKAGISYTLS 96
P +P+ GR + G ++ V+KL K GISYT S
Sbjct: 631 PGANPMHGRDQKGA-----VASLTSVAKLPFAYAKDGISYTFS 668
>pdb|2QH0|A Chain A, Crystal Structure Of A Glyoxalase From Clostridium
Acetobutylicum
Length = 138
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 34/82 (41%), Gaps = 14/82 (17%)
Query: 51 MELPNPD----PLSGRPEHGGRDRHTCIAIRDVSKLKMILDKAGISYTLSKSGR--PAI- 103
+EL PD P++ + G H C + D+ K I + + I YTL K PAI
Sbjct: 53 VELVAPDGEDSPINKTIKKGSTPYHICYEVEDIQ--KSIEEMSQIGYTLFKKAEIAPAID 110
Query: 104 -----FTRDPDANALEFTQVDG 120
F D +E + +G
Sbjct: 111 NRKVAFLFSTDIGLIELLEKEG 132
>pdb|3HDP|A Chain A, Crystal Structure Of The Ni(Ii)-Bound Glyoxalase-I From
Clostridium Acetobutylicum
Length = 133
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 8/62 (12%)
Query: 51 MELPNPD----PLSGRPEHGGRDRHTCIAIRDVSKLKMILDKAGISYTLSKSGR--PAIF 104
+EL PD P++ + G H C + D+ K I + + I YTL K PAI
Sbjct: 56 VELVAPDGEDSPINKTIKKGSTPYHICYEVEDIQ--KSIEEMSQIGYTLFKKAEIAPAID 113
Query: 105 TR 106
R
Sbjct: 114 NR 115
>pdb|2UWF|A Chain A, Crystal Structure Of Family 10 Xylanase From Bacillus
Halodurans
Length = 356
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 8/57 (14%)
Query: 3 YKYKRKKREINKHQRFNLLGLEINEARPHDKLPYRGAWLWVGAEMI------HLMEL 53
Y+ + ++ +I KH +N L E N +P P G W W GA+ I H MEL
Sbjct: 28 YQLEGRQAQILKHH-YNSLVAE-NAMKPVSLQPREGEWNWEGADKIVEFARKHNMEL 82
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 0.139 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,887,667
Number of Sequences: 62578
Number of extensions: 157150
Number of successful extensions: 292
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 290
Number of HSP's gapped (non-prelim): 8
length of query: 120
length of database: 14,973,337
effective HSP length: 82
effective length of query: 38
effective length of database: 9,841,941
effective search space: 373993758
effective search space used: 373993758
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: 45 (21.9 bits)