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= 038334
(90 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 2 TLSRMLTFIDRLWLGYGDERIMIVKTNHKAKLDLTLLRPGHMDVHIHMSYCT 53
TL+++L +D +G D I++ TN LD L+RPG +D H+ + T
Sbjct: 129 TLNQLLVEMD--GMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPT 178
>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R62|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R65|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|C Chain C, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|D Chain D, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|E Chain E, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
Length = 268
Score = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 7/49 (14%)
Query: 2 TLSRMLTFIDRLWLGYGDER---IMIVKTNHKAKLDLTLLRPGHMDVHI 47
TL+++L +D G+G E I++ TN LD L+RPG D +
Sbjct: 134 TLNQLLAEMD----GFGSENAPVIVLAATNRPEILDPALMRPGRFDRQV 178
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 4/47 (8%)
Query: 2 TLSRMLTFIDRLWLGYGDERIMIVK-TNHKAKLDLTLLRPGHMDVHI 47
TL++ML +D G+E I+++ TN LD LLRPG D +
Sbjct: 134 TLNQMLVEMDGFE---GNEGIIVIAATNRPDVLDPALLRPGRFDRQV 177
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 2/48 (4%)
Query: 2 TLSRMLTFIDRLWLGYGDERIMIVKTNHKAKLDLTLLRPGHMDVHIHM 49
TL +LT +D + G +I I+ TN LD LLRPG +D + +
Sbjct: 304 TLMELLTQMDG-FDNLGQTKI-IMATNRPDTLDPALLRPGRLDRKVEI 349
>pdb|1UUF|A Chain A, Crystal Structure Of A Zinc-Type Alcohol
Dehydrogenase-Like Protein Yahk
Length = 369
Score = 26.6 bits (57), Expect = 3.5, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 33 LDLTLLRPGHMDVHIHMSYCTPC 55
+D+T PG DV I ++YC C
Sbjct: 38 MDITRREPGPNDVKIEIAYCGVC 60
>pdb|2D3M|A Chain A, Pentaketide Chromone Synthase Complexed With Coenzyme A
pdb|2D3M|B Chain B, Pentaketide Chromone Synthase Complexed With Coenzyme A
Length = 406
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 48 HMSYCTPCGFRMPASNY 64
H+ +CT CG MP++++
Sbjct: 139 HLVFCTSCGVDMPSADF 155
>pdb|2D51|A Chain A, Pentaketide Chromone Synthase (M207g Mutant)
pdb|2D51|B Chain B, Pentaketide Chromone Synthase (M207g Mutant)
pdb|2D52|A Chain A, Pentaketide Chromone Synthase (M207g Mutant Complexed With
Coa)
pdb|2D52|B Chain B, Pentaketide Chromone Synthase (M207g Mutant Complexed With
Coa)
Length = 406
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 7/17 (41%), Positives = 13/17 (76%)
Query: 48 HMSYCTPCGFRMPASNY 64
H+ +CT CG MP++++
Sbjct: 139 HLVFCTSCGVDMPSADF 155
>pdb|2LU1|A Chain A, Pfsub2 Solution Nmr Structure
Length = 149
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 26/42 (61%), Gaps = 4/42 (9%)
Query: 5 RMLTFIDRLWLGYGDERIMIVKTNHKAKLDLTLLRPGHMDVH 46
++L +D+L D+ ++ +K NH +K +L L+ G +D+H
Sbjct: 5 KILLNVDKL----VDQYLLNLKNNHTSKQELILVLKGELDLH 42
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
0.328 0.141 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,584,297
Number of Sequences: 62578
Number of extensions: 86294
Number of successful extensions: 232
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 227
Number of HSP's gapped (non-prelim): 8
length of query: 90
length of database: 14,973,337
effective HSP length: 57
effective length of query: 33
effective length of database: 11,406,391
effective search space: 376410903
effective search space used: 376410903
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)