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= 040318
(366 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 44 NSLTELPSGISSLVSLQHLDVSYTDIRGLPH 74
N LTELP GI L L HL + ++ +PH
Sbjct: 122 NKLTELPRGIERLTHLTHLALDQNQLKSIPH 152
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 22/30 (73%)
Query: 44 NSLTELPSGISSLVSLQHLDVSYTDIRGLP 73
NSLTELP+ I +L +L+ LD+S+ + LP
Sbjct: 257 NSLTELPAEIKNLSNLRVLDLSHNRLTSLP 286
>pdb|3EK1|A Chain A, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|B Chain B, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|C Chain C, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|D Chain D, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|E Chain E, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|F Chain F, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|G Chain G, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
pdb|3EK1|H Chain H, Crystal Structure Of Aldehyde Dehydrogenase From Brucella
Melitensis Biovar Abortus 2308
Length = 504
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 252 IVIMHCDDLEEIISVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQGALPLPQ 308
++I + DD+ I++ E+ L++ GE+ + A + AE K +Y +P PQ
Sbjct: 104 LIIANADDIALIMTSEQGKPLAEARGEVLYAAS---FIEWFAEEAKRVYGDTIPAPQ 157
>pdb|2PME|A Chain A, The Apo Crystal Structure Of The Glycyl-Trna Synthetase
pdb|2ZT5|A Chain A, Crystal Structure Of Human Glycyl-Trna Synthetase (Glyrs)
In Complex With Ap4a (Cocrystallized With Atp)
pdb|2ZT6|A Chain A, Crystal Structure Of Human Glycyl-Trna Synthetase (Glyrs)
In Complex With Ampcpp
pdb|2ZT7|A Chain A, Crystal Structure Of Human Glycyl-Trna Synthetase (Glyrs)
In Complex With Glycine And Atp
pdb|2ZT8|A Chain A, Crystal Structure Of Human Glycyl-Trna Synthetase (Glyrs)
In Complex With Gly-Amp Analog
pdb|2ZXF|A Chain A, Crystal Structure Of Human Glycyl-Trna Synthetase (Glyrs)
In Complex With Ap4a (Cocrystallized With Ap4a)
Length = 693
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 24/38 (63%)
Query: 265 SVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG 302
SVEK +++ ++ +L+ + + EL DL+ N+KS G
Sbjct: 178 SVEKKSEMESVLAQLDNYGQQELADLFVNYNVKSPITG 215
>pdb|2Q5H|A Chain A, Crystal Structure Of Apo-Wildtype Glycyl-Trna Synthetase
Length = 691
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 24/38 (63%)
Query: 265 SVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG 302
SVEK +++ ++ +L+ + + EL DL+ N+KS G
Sbjct: 178 SVEKKSEMESVLAQLDNYGQQELADLFVNYNVKSPITG 215
>pdb|2PMF|A Chain A, The Crystal Structure Of A Human Glycyl-trna Synthetase
Mutant
Length = 693
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 24/38 (63%)
Query: 265 SVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG 302
SVEK +++ ++ +L+ + + EL DL+ N+KS G
Sbjct: 178 SVEKKSEMESVLAQLDNYGQQELADLFVNYNVKSPITG 215
>pdb|2Q5I|A Chain A, Crystal Structure Of Apo S581l Glycyl-Trna Synthetase
Mutant
Length = 691
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 24/38 (63%)
Query: 265 SVEKLNQLSDIMGELNFFAKLELLDLYHAENLKSIYQG 302
SVEK +++ ++ +L+ + + EL DL+ N+KS G
Sbjct: 178 SVEKKSEMESVLAQLDNYGQQELADLFVNYNVKSPITG 215
>pdb|4G36|A Chain A, Photinus Pyralis Luciferase In The Adenylate-Forming
Conformation Bound To Dlsa
pdb|4G36|B Chain B, Photinus Pyralis Luciferase In The Adenylate-Forming
Conformation Bound To Dlsa
Length = 555
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 279 LNFFAKLELLDLYHAENLKSIYQGALPL 306
+FFAK L+D Y NL I G PL
Sbjct: 297 FSFFAKSTLIDKYDLSNLHEIASGGAPL 324
>pdb|1BA3|A Chain A, Firefly Luciferase In Complex With Bromoform
pdb|1LCI|A Chain A, Firefly Luciferase
pdb|3RIX|A Chain A, 1.7a Resolution Structure Of A Firefly
Luciferase-Aspulvinone J Inhibitor Complex
pdb|4E5D|A Chain A, 2.2a Resolution Structure Of A Firefly
Luciferase-Benzothiazole Inhibitor Complex
Length = 550
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 279 LNFFAKLELLDLYHAENLKSIYQGALPL 306
+FFAK L+D Y NL I G PL
Sbjct: 292 FSFFAKSTLIDKYDLSNLHEIASGGAPL 319
>pdb|3IEP|A Chain A, Firefly Luciferase Apo Structure (P41 Form)
pdb|3IER|A Chain A, Firefly Luciferase Apo Structure (P41 Form) With Peg 400
Bound
pdb|3IES|A Chain A, Firefly Luciferase Inhibitor Complex
Length = 551
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 279 LNFFAKLELLDLYHAENLKSIYQGALPL 306
+FFAK L+D Y NL I G PL
Sbjct: 292 FSFFAKSTLIDKYDLSNLHEIASGGAPL 319
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 0.134 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,437,154
Number of Sequences: 62578
Number of extensions: 337021
Number of successful extensions: 794
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 785
Number of HSP's gapped (non-prelim): 30
length of query: 366
length of database: 14,973,337
effective HSP length: 100
effective length of query: 266
effective length of database: 8,715,537
effective search space: 2318332842
effective search space used: 2318332842
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)