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= 028482
(208 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EUA|A Chain A, Structure And Mechanism Of Menf, The Menaquinone-Specific
Isochorismate Synthase From Escherichia Coli
pdb|2EUA|B Chain B, Structure And Mechanism Of Menf, The Menaquinone-Specific
Isochorismate Synthase From Escherichia Coli
pdb|3BZM|A Chain A, Crystal Structure Of Open Form Of Menaquinone-Specific
Isochorismate Synthase, Menf
pdb|3BZN|A Chain A, Crystal Structure Of Open Form Of Menaquinone-Specific
Isochorismate Synthase, Menf
Length = 431
Score = 31.6 bits (70), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 11/56 (19%)
Query: 145 LVEASPALPGFGRSPFVRPLRITDSPFPLKDTDDDSGYVDKAAEEFIQKFYKELKN 200
L + PA PG +R+ D PFPLKD D ++ A+++ +FY + +N
Sbjct: 15 LSQEIPATPG---------IRVIDIPFPLKDAFDALSWL--ASQQTYPQFYWQQRN 59
>pdb|3BH1|A Chain A, Crystal Structure Of Protein Dip2346 From Corynebacterium
Diphtheriae
pdb|3BH1|B Chain B, Crystal Structure Of Protein Dip2346 From Corynebacterium
Diphtheriae
pdb|3BH1|C Chain C, Crystal Structure Of Protein Dip2346 From Corynebacterium
Diphtheriae
pdb|3BH1|D Chain D, Crystal Structure Of Protein Dip2346 From Corynebacterium
Diphtheriae
Length = 507
Score = 31.2 bits (69), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 31/127 (24%), Positives = 52/127 (40%), Gaps = 25/127 (19%)
Query: 91 PNYTFPYFHNANSNKRSKNNFLFGCAHAPATLDDNDAATVNAVKVVL---EMLNNDKLVE 147
P + P H N A+ AT+D NDA ++ + + +N ++ VE
Sbjct: 214 PIWNLPLEHPVN------------LAYEAATVDLNDANVIDHFHLAAYGEQTVNYNRDVE 261
Query: 148 ASPALPGF-----GRSPFVRPLRITDSPFPLKD--TDDDSGYVDKAAEEFIQKFYKELKN 200
A P L G SP+ P TD + DD+ + +E I++++K L
Sbjct: 262 AFPLLKTLLERLMGESPYQSP---TDMGVNMAGNCISDDAACRHASEQEIIRRYFKALVE 318
Query: 201 QKRSMAD 207
+ R+ D
Sbjct: 319 EARTGKD 325
>pdb|2RDY|A Chain A, Crystal Structure Of A Putative Glycoside Hydrolase Family
Protein From Bacillus Halodurans
pdb|2RDY|B Chain B, Crystal Structure Of A Putative Glycoside Hydrolase Family
Protein From Bacillus Halodurans
Length = 803
Score = 30.0 bits (66), Expect = 0.90, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 30/54 (55%), Gaps = 3/54 (5%)
Query: 112 LFGCAHAPATLDDNDAATVNAVKVVLEMLNNDKLVEASPALPGFGRSPFVRPLR 165
LFG AH P +D N +AT + +L+ ++ +E PALP + +V+ LR
Sbjct: 671 LFG-AHPPFQIDGNFSATAGIAEXLLQ--SHQGYLEFLPALPDSWKDGYVKGLR 721
>pdb|3J0G|M Chain M, Homology Model Of E3 Protein Of Venezuelan Equine
Encephalitis Virus Tc-83 Strain Fitted With A Cryo-Em
Map
pdb|3J0G|N Chain N, Homology Model Of E3 Protein Of Venezuelan Equine
Encephalitis Virus Tc-83 Strain Fitted With A Cryo-Em
Map
pdb|3J0G|O Chain O, Homology Model Of E3 Protein Of Venezuelan Equine
Encephalitis Virus Tc-83 Strain Fitted With A Cryo-Em
Map
pdb|3J0G|P Chain P, Homology Model Of E3 Protein Of Venezuelan Equine
Encephalitis Virus Tc-83 Strain Fitted With A Cryo-Em
Map
Length = 59
Score = 29.3 bits (64), Expect = 1.8, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 23/48 (47%)
Query: 110 NFLFGCAHAPATLDDNDAATVNAVKVVLEMLNNDKLVEASPALPGFGR 157
N F CA P D A T+ + V ++ D+L+EA+ PG R
Sbjct: 11 NVTFPCAQPPICYDRKPAETLAMLSVNVDNPGYDELLEAAVKCPGRKR 58
>pdb|3L6V|A Chain A, Crystal Structure Of The Xanthomonas Campestris Gyrase A
C- Terminal Domain
pdb|3L6V|B Chain B, Crystal Structure Of The Xanthomonas Campestris Gyrase A
C- Terminal Domain
Length = 370
Score = 27.3 bits (59), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 1 MERSQNVQ-VIGKRIWSVVRVVFFMLRKGLCKRKLLVDLNMMLKRGKIA 48
+E + VQ V+ R ++ R VF R G K+ L + L RGKIA
Sbjct: 95 LESGERVQAVLPVREYADNRYVFMATRNGTVKKTPLSEFAFRLARGKIA 143
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 0.134 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,653,773
Number of Sequences: 62578
Number of extensions: 207282
Number of successful extensions: 432
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 430
Number of HSP's gapped (non-prelim): 6
length of query: 208
length of database: 14,973,337
effective HSP length: 94
effective length of query: 114
effective length of database: 9,091,005
effective search space: 1036374570
effective search space used: 1036374570
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: 49 (23.5 bits)