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= 041524
(524 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QGQ|A Chain A, Crystal Structure Of Tm_1862 From Thermotoga Maritima.
Northeast Structural Genomics Consortium Target Vr77
pdb|2QGQ|B Chain B, Crystal Structure Of Tm_1862 From Thermotoga Maritima.
Northeast Structural Genomics Consortium Target Vr77
pdb|2QGQ|C Chain C, Crystal Structure Of Tm_1862 From Thermotoga Maritima.
Northeast Structural Genomics Consortium Target Vr77
pdb|2QGQ|D Chain D, Crystal Structure Of Tm_1862 From Thermotoga Maritima.
Northeast Structural Genomics Consortium Target Vr77
pdb|2QGQ|E Chain E, Crystal Structure Of Tm_1862 From Thermotoga Maritima.
Northeast Structural Genomics Consortium Target Vr77
pdb|2QGQ|F Chain F, Crystal Structure Of Tm_1862 From Thermotoga Maritima.
Northeast Structural Genomics Consortium Target Vr77
pdb|2QGQ|G Chain G, Crystal Structure Of Tm_1862 From Thermotoga Maritima.
Northeast Structural Genomics Consortium Target Vr77
pdb|2QGQ|H Chain H, Crystal Structure Of Tm_1862 From Thermotoga Maritima.
Northeast Structural Genomics Consortium Target Vr77
Length = 304
Score = 115 bits (288), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 86/281 (30%), Positives = 126/281 (44%), Gaps = 30/281 (10%)
Query: 236 AFVSVMRGCNNMCSFCIVPFTRGRERSRPVESIVKEVDELWKEGVKEVTLLGQNVNSYND 295
A+V + GC+ C+FC +P +G RSR +E I +EV++L KEG KE+ L+ Q+ SY
Sbjct: 6 AYVKISDGCDRGCTFCSIPSFKGSLRSRSIEDITREVEDLLKEGKKEIILVAQDTTSYG- 64
Query: 296 TSGMEKEVEPGANWRLSEGFNSMCKVKKMGLRFADLLDRLSLEFPEMRFRYTSPHPKDFP 355
+ +K L DLL RL+ E R HP
Sbjct: 65 ----------------------IDLYRKQAL--PDLLRRLNSLNGEFWIRVXYLHPDHLT 100
Query: 356 DELLYIMRDRPNVCKYIHLPAQTGNSAVLERMRRGYTREAYLDLVQKIRQIIPDVGLSSD 415
+E++ + V KY +P Q G+ +L+ R + E + IR+ PD L +
Sbjct: 101 EEIISAXLELDKVVKYFDVPVQHGSDKILKLXGRTKSSEELKKXLSSIRERFPDAVLRTS 160
Query: 416 FICGFCGETEEEHADTLTLMKAVGYDMAYMFAYSMRERTHAHRNYVDDVPEEVKQRRLTE 475
I GF GETEE+ + ++ + +D F YS E T A N + V E +RR E
Sbjct: 161 IIVGFPGETEEDFEELKQFVEEIQFDKLGAFVYSDEEGTVAF-NLKEKVDPEXAKRRQEE 219
Query: 476 LIEAFRESTGQCYDSQVGTVQLVLVEGPNKKAPDTELVGKS 516
L+ E + D VG LVEG K LVG++
Sbjct: 220 LLLLQAEISNSRLDRFVGKKLKFLVEGKEGKF----LVGRT 256
>pdb|2D1C|A Chain A, Crystal Structure Of Tt0538 Protein From Thermus
Thermophilus Hb8
pdb|2D1C|B Chain B, Crystal Structure Of Tt0538 Protein From Thermus
Thermophilus Hb8
Length = 496
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 204 VDYGQKGIN-TLLSLEETYADISPVRISKNSVTAFVSVMRGCN 245
V YG+K N TL L ETYA++ PVR N T + RG +
Sbjct: 92 VGYGEKSANVTLRKLFETYANVRPVREFPNVPTPYAG--RGID 132
>pdb|3RMJ|A Chain A, Crystal Structure Of Truncated Alpha-Isopropylmalate
Synthase From Neisseria Meningitidis
pdb|3RMJ|B Chain B, Crystal Structure Of Truncated Alpha-Isopropylmalate
Synthase From Neisseria Meningitidis
Length = 370
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 8/75 (10%)
Query: 386 RMRRGYTREAYLDLVQKIRQIIPDVGLSS--------DFICGFCGETEEEHADTLTLMKA 437
+M+ EA + V+ R+ DV S DF+ CG E A T+ +
Sbjct: 120 KMKPKQVIEAAVKAVKIAREYTDDVEFSCEDALRSEIDFLAEICGAVIEAGATTINIPDT 179
Query: 438 VGYDMAYMFAYSMRE 452
VGY + Y RE
Sbjct: 180 VGYSIPYKTEEFFRE 194
>pdb|1EFW|A Chain A, Crystal Structure Of Aspartyl-Trna Synthetase From Thermus
Thermophilus Complexed To Trnaasp From Escherichia Coli
pdb|1EFW|B Chain B, Crystal Structure Of Aspartyl-Trna Synthetase From Thermus
Thermophilus Complexed To Trnaasp From Escherichia Coli
pdb|1G51|A Chain A, Aspartyl Trna Synthetase From Thermus Thermophilus At 2.4
A Resolution
pdb|1G51|B Chain B, Aspartyl Trna Synthetase From Thermus Thermophilus At 2.4
A Resolution
pdb|1L0W|A Chain A, Aspartyl-Trna Synthetase-1 From Space-Grown Crystals
pdb|1L0W|B Chain B, Aspartyl-Trna Synthetase-1 From Space-Grown Crystals
Length = 580
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 7/45 (15%)
Query: 318 MCKVKKMGLRFADLLDRLSLEFPE-------MRFRYTSPHPKDFP 355
+ +K+ G RF ++D LE+ E M +TSPHP+D P
Sbjct: 410 LLGLKREGFRFLWVVDFPLLEWDEEEEAWTYMHHPFTSPHPEDLP 454
>pdb|3MCQ|A Chain A, Crystal Structure Of Thiamine-Monophosphate Kinase
(Mfla_0573) From Methylobacillus Flagellatus Kt At 1.91
A Resolution
Length = 319
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 7 CARRLTTRQLKRSFSLNLSRNFSHSSLDLPDG--PGLHHFIAQSSLTASQPLADLAPASE 64
C + L Q + L R +HS+LD+ DG L H + S + A L + P SE
Sbjct: 182 CGKALHQPQPRVVLGQAL-RGLAHSALDISDGLLADLGHILEHSQVGAEVWLKAI-PKSE 239
Query: 65 VSSATGSEVHSQGRI 79
V SA EV Q I
Sbjct: 240 VVSAHSQEVAIQKXI 254
>pdb|1YTA|A Chain A, Crystal Structure Of Oligoribonuclease, The Lone Essential
Exoribonuclease In Escherichia Coli
pdb|1YTA|B Chain B, Crystal Structure Of Oligoribonuclease, The Lone Essential
Exoribonuclease In Escherichia Coli
pdb|1YTA|C Chain C, Crystal Structure Of Oligoribonuclease, The Lone Essential
Exoribonuclease In Escherichia Coli
pdb|1YTA|D Chain D, Crystal Structure Of Oligoribonuclease, The Lone Essential
Exoribonuclease In Escherichia Coli
Length = 180
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 51/113 (45%), Gaps = 23/113 (20%)
Query: 381 SAVLERMRRGYT--REAYLDLVQKIRQIIPDVGLSSDFICGFCGETEEEHADTLTLMKAV 438
S ++ER++ REA L ++ ++Q +P G S ICG ++
Sbjct: 68 SGLVERVKASTXGDREAELATLEFLKQWVP-AGKSP--ICG----------------NSI 108
Query: 439 GYDMAYMFAYSMRERTHAHRNYVD-DVPEEVKQRRLTELIEAF-RESTGQCYD 489
G D ++F Y + H Y+D +E+ +R E+++ F ++ T Q D
Sbjct: 109 GQDRRFLFKYXPELEAYFHYRYLDVSTLKELARRWKPEILDGFTKQGTHQAXD 161
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
0.319 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,903,100
Number of Sequences: 62578
Number of extensions: 665899
Number of successful extensions: 1489
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1486
Number of HSP's gapped (non-prelim): 7
length of query: 524
length of database: 14,973,337
effective HSP length: 103
effective length of query: 421
effective length of database: 8,527,803
effective search space: 3590205063
effective search space used: 3590205063
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: 54 (25.4 bits)