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= 025905
(246 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Z0T|A Chain A, Crystal Structure Of Hypothetical Protein Ph0355
pdb|2Z0T|B Chain B, Crystal Structure Of Hypothetical Protein Ph0355
pdb|2Z0T|C Chain C, Crystal Structure Of Hypothetical Protein Ph0355
pdb|2Z0T|D Chain D, Crystal Structure Of Hypothetical Protein Ph0355
Length = 109
Score = 87.8 bits (216), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 45/105 (42%), Positives = 67/105 (63%), Gaps = 1/105 (0%)
Query: 125 VNFELHVQEPYFTQLKDGLKTVEGRCAVGDYNRIGSGSLILCNKC-LVLKVQDVHGYLSF 183
+ +E+ +QE Y +K G K +EGR +I G +I+ L +KV+ + Y SF
Sbjct: 1 MKWEMGLQEEYIELIKAGKKKIEGRLYDEKRRQIKPGDIIIFEGGKLKVKVKGIRVYSSF 60
Query: 184 SEMLQAESLAKVLPGIKTIDEGVQVYRRFYTEEKEKTNGVIAICV 228
EML+ E + VLPG+K+I+EGV+VYR+FY EE+EK GV+AI +
Sbjct: 61 KEMLEKEGIENVLPGVKSIEEGVKVYRQFYDEEREKKYGVVAIEI 105
>pdb|1S04|A Chain A, Solution Nmr Structure Of Protein Pf0455 From Pyrococcus
Furiosus. Northeast Structural Genomics Consortium
Target Pfr13
Length = 110
Score = 84.3 bits (207), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 45/105 (42%), Positives = 65/105 (61%), Gaps = 1/105 (0%)
Query: 125 VNFELHVQEPYFTQLKDGLKTVEGRCAVGDYNRIGSGSLI-LCNKCLVLKVQDVHGYLSF 183
+ +E+ +QE + +K K +EGR +I G +I L ++V+ + Y SF
Sbjct: 1 MEWEMGLQEEFLELIKLRKKKIEGRLYDEKRRQIKPGDVISFEGGKLKVRVKAIRVYNSF 60
Query: 184 SEMLQAESLAKVLPGIKTIDEGVQVYRRFYTEEKEKTNGVIAICV 228
EML+ E L VLPG+K+I+EG+QVYRRFY EEKEK GV+AI +
Sbjct: 61 REMLEKEGLENVLPGVKSIEEGIQVYRRFYDEEKEKKYGVVAIEI 105
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 32/131 (24%), Positives = 57/131 (43%), Gaps = 29/131 (22%)
Query: 60 SDTESQYPLYKRLASVFHESVTSTASCGAFSNIASLNEDDDLKKREDWGKLVLKEGSEMI 119
SD +++Y YK + + + ++T+ A G FS + +NE LK+ S
Sbjct: 480 SDVQTEY--YKNILTKNYSALTAGAKGGHFSLLNIMNE--------------LKKASNHP 523
Query: 120 ELLKTVNFELHVQEPYFTQLKDGLKTVEG--RCAVGDYNRIGSGSLILCNKCLVLKVQDV 177
L + +E + DG T E R + + SG ++L ++ L +D
Sbjct: 524 YLFD------NAEERVLQKFGDGKMTRENVLRGLI-----MSSGKMVLLDQLLTRLKKDG 572
Query: 178 HGYLSFSEMLQ 188
H L FS+M++
Sbjct: 573 HRVLIFSQMVR 583
>pdb|3V3E|B Chain B, Crystal Structure Of The Human Nur77 Ligand-Binding Domain
pdb|3V3E|A Chain A, Crystal Structure Of The Human Nur77 Ligand-Binding Domain
pdb|3V3Q|A Chain A, Crystal Structure Of Human Nur77 Ligand-Binding Domain In
Complex With Ethyl 2-[2,3,4
Trimethoxy-6(1-Octanoyl)phenyl]acetate
pdb|3V3Q|B Chain B, Crystal Structure Of Human Nur77 Ligand-Binding Domain In
Complex With Ethyl 2-[2,3,4
Trimethoxy-6(1-Octanoyl)phenyl]acetate
Length = 257
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 46/104 (44%), Gaps = 18/104 (17%)
Query: 156 NRIGSGSLILCNKCLVLKVQDVHGY-------LSFSEMLQAESLAKVLPGIKTIDEGVQV 208
++ G G LI C+ ++ ++Q G+ L+FS L SL +P + V +
Sbjct: 106 SKPGEGKLIFCSGLVLHRLQCARGFGDWIDSILAFSRSLH--SLLVDVPAFACLSALVLI 163
Query: 209 YRRFYTEEK---EKTNGVIAICVTKPAA------QPFLCLARIL 243
R +E E+ IA C+ + A QP CL+R+L
Sbjct: 164 TDRHGLQEPRRVEELQNRIASCLKEHVAAVAGEPQPASCLSRLL 207
>pdb|2QW4|A Chain A, Human Nr4a1 Ligand-Binding Domain
pdb|2QW4|B Chain B, Human Nr4a1 Ligand-Binding Domain
pdb|2QW4|C Chain C, Human Nr4a1 Ligand-Binding Domain
pdb|2QW4|D Chain D, Human Nr4a1 Ligand-Binding Domain
Length = 273
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 46/104 (44%), Gaps = 18/104 (17%)
Query: 156 NRIGSGSLILCNKCLVLKVQDVHGY-------LSFSEMLQAESLAKVLPGIKTIDEGVQV 208
++ G G LI C+ ++ ++Q G+ L+FS L SL +P + V +
Sbjct: 130 SKPGEGKLIFCSGLVLHRLQCARGFGDWIDSILAFSRSLH--SLLVDVPAFACLSALVLI 187
Query: 209 YRRFYTEEK---EKTNGVIAICVTKPAA------QPFLCLARIL 243
R +E E+ IA C+ + A QP CL+R+L
Sbjct: 188 TDRHGLQEPRRVEELQNRIASCLKEHVAAVAGEPQPASCLSRLL 231
>pdb|3MYV|A Chain A, Crystal Structure Of A Susd Superfamily Protein (Bvu_0732)
F Bacteroides Vulgatus Atcc 8482 At 1.80 A Resolution
pdb|3MYV|B Chain B, Crystal Structure Of A Susd Superfamily Protein (Bvu_0732)
F Bacteroides Vulgatus Atcc 8482 At 1.80 A Resolution
Length = 454
Score = 27.3 bits (59), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 60 SDTESQYPLYKRLASVFHESVTSTASCGAFSNIASLNEDDDLKKREDWGKLV 111
+DT Y LY V SV + +F IA N DD R+ WG L+
Sbjct: 220 ADTSGSYALYPHEKYVAAWSVEAKFGSESFFEIA--NSVDDTPGRDSWGYLL 269
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
0.317 0.134 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,045,396
Number of Sequences: 62578
Number of extensions: 268522
Number of successful extensions: 627
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 622
Number of HSP's gapped (non-prelim): 10
length of query: 246
length of database: 14,973,337
effective HSP length: 96
effective length of query: 150
effective length of database: 8,965,849
effective search space: 1344877350
effective search space used: 1344877350
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)