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= 009508
(533 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OLN|A Chain A, Nikd, An Unusual Amino Acid Oxidase Essential For
Nikkomycin Biosynthesis: Closed Form At 1.15 A
Resolution
pdb|2OLO|A Chain A, Nikd, An Unusual Amino Acid Oxidase Essential For
Nikkomycin Biosynthesis: Open Form At 1.9a Resolution
Length = 397
Score = 32.7 bits (73), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 38/98 (38%), Gaps = 5/98 (5%)
Query: 265 GCEFLDGRRVTDFIYDEERCCISDVVCGKETYSAGAVVLAVGIST--LQELIKNSILCNR 322
G G VT+ + D + ++ + TY AG VVLA G T L E + + +
Sbjct: 167 GATLRAGETVTELVPDADGVSVT---TDRGTYRAGKVVLACGPYTNDLLEPLGARLAYSV 223
Query: 323 EEFLKVLNLASIDVVSVKLWFDKKVTVPNVSNACSGFG 360
E + V WF + P +N GFG
Sbjct: 224 YEMAIAAYRQATPVTEAPFWFAFQQPTPQDTNLFYGFG 261
>pdb|3HZL|A Chain A, Tyr258phe Mutant Of Nikd, An Unusual Amino Acid Oxidase
Essential For Nikkomycin Biosynthesis: Open Form At
1.55a Resolution
Length = 397
Score = 32.3 bits (72), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 38/98 (38%), Gaps = 5/98 (5%)
Query: 265 GCEFLDGRRVTDFIYDEERCCISDVVCGKETYSAGAVVLAVGIST--LQELIKNSILCNR 322
G G VT+ + D + ++ + TY AG VVLA G T L E + + +
Sbjct: 167 GATLRAGETVTELVPDADGVSVT---TDRGTYRAGKVVLACGPYTNDLLEPLGARLAYSV 223
Query: 323 EEFLKVLNLASIDVVSVKLWFDKKVTVPNVSNACSGFG 360
E + V WF + P +N GFG
Sbjct: 224 YEMAIAAYRQATPVTEAPFWFAFQQPTPQDTNLFFGFG 261
>pdb|2Q6U|A Chain A, Semet-Substituted Form Of Nikd
Length = 384
Score = 32.3 bits (72), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 38/98 (38%), Gaps = 5/98 (5%)
Query: 265 GCEFLDGRRVTDFIYDEERCCISDVVCGKETYSAGAVVLAVGIST--LQELIKNSILCNR 322
G G VT+ + D + ++ + TY AG VVLA G T L E + + +
Sbjct: 166 GATLRAGETVTELVPDADGVSVT---TDRGTYRAGKVVLACGPYTNDLLEPLGARLAYSV 222
Query: 323 EEFLKVLNLASIDVVSVKLWFDKKVTVPNVSNACSGFG 360
E + V WF + P +N GFG
Sbjct: 223 YEXAIAAYRQATPVTEAPFWFAFQQPTPQDTNLFYGFG 260
>pdb|2YZ7|A Chain A, X-Ray Analyses Of 3-Hydroxybutyrate Dehydrogenase From
Alcaligenes Faecalis
pdb|2YZ7|B Chain B, X-Ray Analyses Of 3-Hydroxybutyrate Dehydrogenase From
Alcaligenes Faecalis
pdb|2YZ7|C Chain C, X-Ray Analyses Of 3-Hydroxybutyrate Dehydrogenase From
Alcaligenes Faecalis
pdb|2YZ7|D Chain D, X-Ray Analyses Of 3-Hydroxybutyrate Dehydrogenase From
Alcaligenes Faecalis
pdb|2YZ7|E Chain E, X-Ray Analyses Of 3-Hydroxybutyrate Dehydrogenase From
Alcaligenes Faecalis
pdb|2YZ7|F Chain F, X-Ray Analyses Of 3-Hydroxybutyrate Dehydrogenase From
Alcaligenes Faecalis
pdb|2YZ7|G Chain G, X-Ray Analyses Of 3-Hydroxybutyrate Dehydrogenase From
Alcaligenes Faecalis
pdb|2YZ7|H Chain H, X-Ray Analyses Of 3-Hydroxybutyrate Dehydrogenase From
Alcaligenes Faecalis
pdb|3VDR|A Chain A, Crystal Structure Of D-3-Hydroxybutyrate Dehydrogenase,
Prepared In The Presence Of The Substrate
D-3-Hydroxybutyrate And Nad(+)
pdb|3VDR|B Chain B, Crystal Structure Of D-3-Hydroxybutyrate Dehydrogenase,
Prepared In The Presence Of The Substrate
D-3-Hydroxybutyrate And Nad(+)
pdb|3VDR|C Chain C, Crystal Structure Of D-3-Hydroxybutyrate Dehydrogenase,
Prepared In The Presence Of The Substrate
D-3-Hydroxybutyrate And Nad(+)
pdb|3VDR|D Chain D, Crystal Structure Of D-3-Hydroxybutyrate Dehydrogenase,
Prepared In The Presence Of The Substrate
D-3-Hydroxybutyrate And Nad(+)
pdb|3VDQ|A Chain A, Crystal Structure Of Alcaligenes Faecalis
D-3-Hydroxybutyrate Dehydrogenase In Complex With Nad(+)
And Acetate
pdb|3VDQ|B Chain B, Crystal Structure Of Alcaligenes Faecalis
D-3-Hydroxybutyrate Dehydrogenase In Complex With Nad(+)
And Acetate
pdb|3VDQ|C Chain C, Crystal Structure Of Alcaligenes Faecalis
D-3-Hydroxybutyrate Dehydrogenase In Complex With Nad(+)
And Acetate
pdb|3VDQ|D Chain D, Crystal Structure Of Alcaligenes Faecalis
D-3-Hydroxybutyrate Dehydrogenase In Complex With Nad(+)
And Acetate
Length = 260
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 12/54 (22%)
Query: 59 GLGAAHHLSKQGFDVTVLDDGNGFGSPDDISMQGFWYPFRNIFSLVDELGIKPF 112
GL A L+K G DV + NGFG P+DI R +L + G+K +
Sbjct: 17 GLAMATELAKAGADVVI----NGFGQPEDIE--------RERSTLESKFGVKAY 58
>pdb|2VL7|A Chain A, Structure Of S. Tokodaii Xpd4
Length = 540
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 8/100 (8%)
Query: 311 QELIKNSILCNREEFLKVLN-LASID----VVSVKLWFDKKVTVPNVSNACSGFGDSLAW 365
Q+ I+NS+ CN+++ LK+ + L ID ++ WF +K++ + A
Sbjct: 157 QKPIRNSVFCNKDDCLKLEDYLIVIDEAHNLLEADKWFTRKISRKMLERALKEIEIVERL 216
Query: 366 TFFDLNKIYDEHK---DDSATVIQADFYHANELMPLKDDQ 402
D K+ D D + +I+ H LMPL D +
Sbjct: 217 NRIDAKKVKDYINLLIDYMSKLIKDGRCHELSLMPLPDRE 256
>pdb|3N29|A Chain A, Crystal Structure Of Carboxynorspermidine Decarboxylase
Complexed With Norspermidine From Campylobacter Jejuni
pdb|3N29|B Chain B, Crystal Structure Of Carboxynorspermidine Decarboxylase
Complexed With Norspermidine From Campylobacter Jejuni
Length = 418
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 57 WAGLGAAHHLSKQGFDVTVL 76
W G HH++K+G+DV L
Sbjct: 232 WVNFGGGHHITKKGYDVEKL 251
>pdb|3EE6|A Chain A, Crystal Structure Analysis Of Tripeptidyl Peptidase -I
pdb|3EE6|B Chain B, Crystal Structure Analysis Of Tripeptidyl Peptidase -I
Length = 571
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 454 PNLFMAGDWITTRHGSWSQERSYVTGLEAANRVVDYLGDGSFSKIIP 500
P + ++TT G+ QE +T N +VDY+ G FS + P
Sbjct: 376 PTFPASSPYVTTVGGTSFQEPFLIT-----NEIVDYISGGGFSNVFP 417
>pdb|3EDY|A Chain A, Crystal Structure Of The Precursor Form Of Human
Tripeptidyl-Peptidase 1
Length = 544
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 5/47 (10%)
Query: 454 PNLFMAGDWITTRHGSWSQERSYVTGLEAANRVVDYLGDGSFSKIIP 500
P + ++TT G+ QE +T N +VDY+ G FS + P
Sbjct: 357 PTFPASSPYVTTVGGTSFQEPFLIT-----NEIVDYISGGGFSNVFP 398
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
0.324 0.139 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 15,362,299
Number of Sequences: 62578
Number of extensions: 637122
Number of successful extensions: 1911
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1910
Number of HSP's gapped (non-prelim): 11
length of query: 533
length of database: 14,973,337
effective HSP length: 103
effective length of query: 430
effective length of database: 8,527,803
effective search space: 3666955290
effective search space used: 3666955290
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 54 (25.4 bits)