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= 040196
(83 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HNK|A Chain A, Crystal Structure Of An Enzyme
pdb|4HNK|B Chain B, Crystal Structure Of An Enzyme
pdb|4HNK|C Chain C, Crystal Structure Of An Enzyme
pdb|4HNK|D Chain D, Crystal Structure Of An Enzyme
pdb|4HNK|E Chain E, Crystal Structure Of An Enzyme
pdb|4HNK|F Chain F, Crystal Structure Of An Enzyme
pdb|4HNK|G Chain G, Crystal Structure Of An Enzyme
pdb|4HNK|H Chain H, Crystal Structure Of An Enzyme
pdb|4HNK|I Chain I, Crystal Structure Of An Enzyme
pdb|4HNK|J Chain J, Crystal Structure Of An Enzyme
pdb|4HNK|K Chain K, Crystal Structure Of An Enzyme
pdb|4HNK|L Chain L, Crystal Structure Of An Enzyme
pdb|4HNK|M Chain M, Crystal Structure Of An Enzyme
pdb|4HNK|N Chain N, Crystal Structure Of An Enzyme
Length = 219
Score = 28.9 bits (63), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 4 VKTNRVQNPEGWELIEPTLRELQKEISMELYEFCLDQGYAVRNLIAKGKQPGY 56
+ N++ N G + ++ ++ IS ++Y +CL + Y + ++A + GY
Sbjct: 85 IDNNKIINLNGITDV-ISIVDVINYISSDVYTYCLGKAYGIACILASSGKKGY 136
>pdb|4GM2|A Chain A, The Crystal Structure Of A Peptidase From Plasmodium
Falciparum
pdb|4GM2|B Chain B, The Crystal Structure Of A Peptidase From Plasmodium
Falciparum
pdb|4GM2|C Chain C, The Crystal Structure Of A Peptidase From Plasmodium
Falciparum
pdb|4GM2|D Chain D, The Crystal Structure Of A Peptidase From Plasmodium
Falciparum
pdb|4GM2|E Chain E, The Crystal Structure Of A Peptidase From Plasmodium
Falciparum
pdb|4GM2|F Chain F, The Crystal Structure Of A Peptidase From Plasmodium
Falciparum
pdb|4GM2|G Chain G, The Crystal Structure Of A Peptidase From Plasmodium
Falciparum
Length = 205
Score = 28.9 bits (63), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 12/53 (22%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 4 VKTNRVQNPEGWELIEPTLRELQKEISMELYEFCLDQGYAVRNLIAKGKQPGY 56
+ N++ N G + ++ ++ IS ++Y +CL + Y + ++A + GY
Sbjct: 71 IDNNKIINLNGITDV-ISIVDVINYISSDVYTYCLGKAYGIACILASSGKKGY 122
>pdb|3TSN|A Chain A, 4-Hydroxythreonine-4-Phosphate Dehydrogenase From
Campylobacter Jejuni
pdb|3TSN|B Chain B, 4-Hydroxythreonine-4-Phosphate Dehydrogenase From
Campylobacter Jejuni
pdb|3TSN|C Chain C, 4-Hydroxythreonine-4-Phosphate Dehydrogenase From
Campylobacter Jejuni
pdb|3TSN|D Chain D, 4-Hydroxythreonine-4-Phosphate Dehydrogenase From
Campylobacter Jejuni
Length = 367
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 25 LQKEISMELYEFCLDQGYAV 44
++KE S+E+Y FCL G+ V
Sbjct: 74 IKKENSLEIYSFCLPLGFKV 93
>pdb|3G6N|A Chain A, Crystal Structure Of An Efpdf Complex With Met-Ala-Ser
pdb|3G6N|B Chain B, Crystal Structure Of An Efpdf Complex With Met-Ala-Ser
Length = 191
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 20 PTLRELQKEISMELYEFCLDQGYAVRNLIAKGKQP 54
PTLRE+ KE+S+ L E + G + + + P
Sbjct: 17 PTLREVAKEVSLPLSEEDISLGKEMLEFLKNSQDP 51
>pdb|3CMD|A Chain A, Crystal Structure Of Peptide Deformylase From
Vre-E.Faecium
pdb|3CMD|B Chain B, Crystal Structure Of Peptide Deformylase From
Vre-E.Faecium
Length = 196
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 20 PTLRELQKEISMELYEFCLDQGYAVRNLIAKGKQP 54
PTLRE+ KE+S+ L E + G + + + P
Sbjct: 22 PTLREVAKEVSLPLSEEDISLGKEMLEFLKNSQDP 56
>pdb|1V65|A Chain A, Solution Structure Of The Kruppel-Associated Box (Krab)
Domain
Length = 64
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 19/30 (63%)
Query: 13 EGWELIEPTLRELQKEISMELYEFCLDQGY 42
E W+L++ + + L +E+ +E Y+ D GY
Sbjct: 20 EEWDLLDSSQKRLYEEVMLETYQNLTDIGY 49
>pdb|3CUX|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
Bacillis Anthracis Malate Synthase A: Comparison With
Isoform G And Implications For Structure Based Drug
Design
Length = 528
Score = 25.4 bits (54), Expect = 7.9, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 21/43 (48%)
Query: 12 PEGWELIEPTLRELQKEISMELYEFCLDQGYAVRNLIAKGKQP 54
P GW L E ++ K +S L +F L + + L+ KG P
Sbjct: 163 PRGWHLEEKHMQVDGKNMSGSLVDFGLYFFHNAKALLEKGSGP 205
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
0.323 0.138 0.451
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,639,189
Number of Sequences: 62578
Number of extensions: 86108
Number of successful extensions: 233
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 226
Number of HSP's gapped (non-prelim): 8
length of query: 83
length of database: 14,973,337
effective HSP length: 51
effective length of query: 32
effective length of database: 11,781,859
effective search space: 377019488
effective search space used: 377019488
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)