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= 045131
(107 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2W37|A Chain A, Crystal Structure Of The Hexameric Catabolic Ornithine
Transcarbamylase From Lactobacillus Hilgardii
pdb|2W37|B Chain B, Crystal Structure Of The Hexameric Catabolic Ornithine
Transcarbamylase From Lactobacillus Hilgardii
pdb|2W37|C Chain C, Crystal Structure Of The Hexameric Catabolic Ornithine
Transcarbamylase From Lactobacillus Hilgardii
Length = 359
Score = 30.4 bits (67), Expect = 0.28, Method: Composition-based stats.
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 5/45 (11%)
Query: 60 GLSSARIDLTPSVGSDPELIRYANDLGFMKKESLPECAKVLEEMF 104
++A IDL G+ PE + ND+ KKES + AKVL MF
Sbjct: 84 AFTTASIDL----GAHPEYLG-QNDIQLGKKESTSDTAKVLGSMF 123
>pdb|3F6K|A Chain A, Crystal Structure Of The Vps10p Domain Of Human
SortilinNTS3 IN Complex With Neurotensin
Length = 685
Score = 26.9 bits (58), Expect = 3.1, Method: Composition-based stats.
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 16 VYSREVVSDQSGTYKIPIEGCHAKLCQVRLVKSPKPECS 54
+Y RE +G KIP + C + VR VK K +C+
Sbjct: 626 LYGREEHLTTNGYRKIPGDKCQGGVNPVREVKDLKKKCT 664
>pdb|2EHW|A Chain A, Conserved Hypothetical Proteim (Tthb059) From Thermo
Thermophilus Hb8
pdb|2EHW|B Chain B, Conserved Hypothetical Proteim (Tthb059) From Thermo
Thermophilus Hb8
pdb|2EHW|C Chain C, Conserved Hypothetical Proteim (Tthb059) From Thermo
Thermophilus Hb8
pdb|2EHW|D Chain D, Conserved Hypothetical Proteim (Tthb059) From Thermo
Thermophilus Hb8
Length = 120
Score = 26.2 bits (56), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 24/55 (43%), Gaps = 6/55 (10%)
Query: 52 ECSEIVADGLSSARIDLTPSVGSDPELIRYANDLGFMKKESLPECAKVLEEMFIH 106
E E A L R +L P +G PEL R A ++LP + L E +H
Sbjct: 15 ELLEKEAHDLLHEREELAPVLGQRPELKRLAE------AKTLPALEEALREALLH 63
>pdb|1YB3|A Chain A, Conserved Hypothetical Protein Pfu-178653-001 From
Pyrococcus Furiosus
Length = 175
Score = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 72 VGSDPELIRYANDLGFMKKESLPECAKVLE 101
V SD E I + DLGF K+E E + +E
Sbjct: 138 VNSDEEXINFEVDLGFDKEEVKREIKRFIE 167
>pdb|1Z5A|A Chain A, Topoisomerase Vi-B, Adp-Bound Dimer Form
pdb|1Z5A|B Chain B, Topoisomerase Vi-B, Adp-Bound Dimer Form
pdb|1Z5B|A Chain A, Topoisomerase Vi-B, Adp Alf4- Bound Dimer Form
pdb|1Z5B|B Chain B, Topoisomerase Vi-B, Adp Alf4- Bound Dimer Form
pdb|2HKJ|A Chain A, Topoisomerase Vi-B Bound To Radicicol
Length = 469
Score = 25.4 bits (54), Expect = 7.4, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 72 VGSDPELIRYANDLGFMKKESLPECAKVLEEM 103
VG +P ++RYAN + + E KV+EE+
Sbjct: 363 VGEEPIVLRYANKIPLIYDEKSDVIWKVVEEL 394
>pdb|2ZBK|B Chain B, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|D Chain D, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|F Chain F, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|H Chain H, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
Length = 530
Score = 25.4 bits (54), Expect = 7.4, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 72 VGSDPELIRYANDLGFMKKESLPECAKVLEEM 103
VG +P ++RYAN + + E KV+EE+
Sbjct: 364 VGEEPIVLRYANKIPLIYDEKSDVIWKVVEEL 395
>pdb|1MU5|A Chain A, Structure Of Topoisomerase Subunit
Length = 471
Score = 25.4 bits (54), Expect = 7.4, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 72 VGSDPELIRYANDLGFMKKESLPECAKVLEEM 103
VG +P ++RYAN + + E KV+EE+
Sbjct: 365 VGEEPIVLRYANKIPLIYDEKSDVIWKVVEEL 396
>pdb|1MX0|A Chain A, Structure Of Topoisomerase Subunit
pdb|1MX0|B Chain B, Structure Of Topoisomerase Subunit
pdb|1MX0|C Chain C, Structure Of Topoisomerase Subunit
pdb|1MX0|D Chain D, Structure Of Topoisomerase Subunit
pdb|1MX0|E Chain E, Structure Of Topoisomerase Subunit
pdb|1MX0|F Chain F, Structure Of Topoisomerase Subunit
Length = 472
Score = 25.4 bits (54), Expect = 7.6, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 72 VGSDPELIRYANDLGFMKKESLPECAKVLEEM 103
VG +P ++RYAN + + E KV+EE+
Sbjct: 366 VGEEPIVLRYANKIPLIYDEKSDVIWKVVEEL 397
>pdb|1Z59|A Chain A, Topoisomerase Vi-B, Adp-Bound Monomer Form
pdb|1Z5C|A Chain A, Topoisomerase Vi-B, Adp Pi Bound Dimer Form
pdb|1Z5C|B Chain B, Topoisomerase Vi-B, Adp Pi Bound Dimer Form
Length = 469
Score = 25.4 bits (54), Expect = 7.6, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 72 VGSDPELIRYANDLGFMKKESLPECAKVLEEM 103
VG +P ++RYAN + + E KV+EE+
Sbjct: 363 VGEEPIVLRYANKIPLIYDEKSDVIWKVVEEL 394
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
0.314 0.133 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,246,387
Number of Sequences: 62578
Number of extensions: 120246
Number of successful extensions: 174
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 167
Number of HSP's gapped (non-prelim): 16
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 45 (21.9 bits)