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= 023629
(279 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 50/91 (54%), Gaps = 4/91 (4%)
Query: 75 EDRATAVSKSHSQAEKRRRDRINAQLATLRKLIPK----SEKMDKAALLGSAIEHVKDLK 130
+ R ++HSQ EKRRRD++N+ + L L+P S K+DK +L A++H+K L+
Sbjct: 7 QGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 66
Query: 131 LKAMEVSKTLTIPTEVDEVTVECELFQAAEA 161
++ PT + + ++ + +AA+
Sbjct: 67 GATNPYTEANYKPTFLSDDELKHLILRAADG 97
>pdb|4H10|A Chain A, Intermolecular Recognition Revealed By The Complex
Structure Of Human Clock-bmal1 Basic Helix-loop-helix
Domains With E-box Dna
Length = 73
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 37/60 (61%), Gaps = 4/60 (6%)
Query: 75 EDRATAVSKSHSQAEKRRRDRINAQLATLRKLIPK----SEKMDKAALLGSAIEHVKDLK 130
+ R ++HSQ EKRRRD++N+ + L L+P S K+DK +L A++H+K L+
Sbjct: 3 QGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 62
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 39/61 (63%), Gaps = 3/61 (4%)
Query: 71 QEVAEDRATAVSKSHSQAEKRRRDRINAQLATLRKLIP-KSEKMDKAALLGSAIEHVKDL 129
+E +D+A VS++ ++EK+RRD+ N + L ++P + KMDK+ +L +I+ ++
Sbjct: 4 EEDDKDKAKRVSRN--KSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKH 61
Query: 130 K 130
K
Sbjct: 62 K 62
>pdb|1AN4|A Chain A, Structure And Function Of The BHLHZ DOMAIN OF USF
pdb|1AN4|B Chain B, Structure And Function Of The BHLHZ DOMAIN OF USF
Length = 65
Score = 35.0 bits (79), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 30/52 (57%), Gaps = 6/52 (11%)
Query: 85 HSQAEKRRRDRINAQLATLRKLIPKS------EKMDKAALLGSAIEHVKDLK 130
H++ E+RRRD+IN + L K+IP S K +L A +++++L+
Sbjct: 9 HNEVERRRRDKINNWIVQLSKIIPDSSMESTKSGQSKGGILSKASDYIQELR 60
>pdb|4H10|B Chain B, Intermolecular Recognition Revealed By The Complex
Structure Of Human Clock-bmal1 Basic Helix-loop-helix
Domains With E-box Dna
Length = 71
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 34/54 (62%), Gaps = 1/54 (1%)
Query: 75 EDRATAVSKSHSQAEKRRRDRINAQLATLRKLIP-KSEKMDKAALLGSAIEHVK 127
+D+ A S +++EK+RRD+ N + L ++P + KMDK+ +L +I+ ++
Sbjct: 2 DDKDKAKRVSRNKSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLR 55
>pdb|3AHZ|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With Tris
pdb|3VIF|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With Gluconolactone
pdb|3VIG|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With 1-Deoxynojirimycin
pdb|3VIH|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With Glycerol
pdb|3VII|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With Bis-Tris
Length = 487
Score = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 28/112 (25%), Positives = 47/112 (41%), Gaps = 8/112 (7%)
Query: 134 MEVSKTLTIPTEVDEVTVECEL--FQAAEARAETEAGSSINKV----KGDTLIKASVS-- 185
M+V+ + T+ T DE + +Q A E G +I D ++ +
Sbjct: 1 MDVASSDTVYTFPDEFKLGAATASYQIEGAWDENGKGPNIWDTLTHEHPDYVVDGATGDI 60
Query: 186 CDDQPELYKEIIRVLKGLGLTTVRADISSVGGRIKSILVLCNKDACDHQESV 237
DD LYKE +++LK LG R IS + + N+D D+ ++
Sbjct: 61 ADDSYHLYKEDVKILKELGAQVYRFSISWARVLPEGHDNIVNQDGIDYYNNL 112
>pdb|3VIK|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With Cellobiose
pdb|3VIL|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With Salicin
Length = 487
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 28/112 (25%), Positives = 47/112 (41%), Gaps = 8/112 (7%)
Query: 134 MEVSKTLTIPTEVDEVTVECEL--FQAAEARAETEAGSSINKV----KGDTLIKASVS-- 185
M+V+ + T+ T DE + +Q A E G +I D ++ +
Sbjct: 1 MDVASSDTVYTFPDEFKLGAATASYQIEGAWDENGKGPNIWDTLTHEHPDYVVDGATGDI 60
Query: 186 CDDQPELYKEIIRVLKGLGLTTVRADISSVGGRIKSILVLCNKDACDHQESV 237
DD LYKE +++LK LG R IS + + N+D D+ ++
Sbjct: 61 ADDSYHLYKEDVKILKELGAQVYRFSISWARVLPEGHDNIVNQDGIDYYNNL 112
>pdb|3VIJ|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With Glucose
Length = 487
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 28/112 (25%), Positives = 47/112 (41%), Gaps = 8/112 (7%)
Query: 134 MEVSKTLTIPTEVDEVTVECEL--FQAAEARAETEAGSSINKV----KGDTLIKASVS-- 185
M+V+ + T+ T DE + +Q A E G +I D ++ +
Sbjct: 1 MDVASSDTVYTFPDEFKLGAATASYQIEGAWDENGKGPNIWDTLTHEHPDYVVDGATGDI 60
Query: 186 CDDQPELYKEIIRVLKGLGLTTVRADISSVGGRIKSILVLCNKDACDHQESV 237
DD LYKE +++LK LG R IS + + N+D D+ ++
Sbjct: 61 ADDSYHLYKEDVKILKELGAQVYRFSISWARVLPEGHDNIVNQDGIDYYNNL 112
>pdb|3AI0|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With
Para-Nitrophenyl-Beta-D-Glucopyranoside
pdb|3VIM|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With A New
Glucopyranosidic Product
pdb|3VIN|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With A New
Glucopyranosidic Product
pdb|3VIO|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With A New
Glucopyranosidic Product
pdb|3VIP|A Chain A, Crystal Structure Of Beta-Glucosidase From Termite
Neotermes Koshunensis In Complex With A New
Glucopyranosidic Product
Length = 487
Score = 31.2 bits (69), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 28/112 (25%), Positives = 47/112 (41%), Gaps = 8/112 (7%)
Query: 134 MEVSKTLTIPTEVDEVTVECEL--FQAAEARAETEAGSSINKV----KGDTLIKASVS-- 185
M+V+ + T+ T DE + +Q A E G +I D ++ +
Sbjct: 1 MDVASSDTVYTFPDEFKLGAATASYQIEGAWDENGKGPNIWDTLTHEHPDYVVDGATGDI 60
Query: 186 CDDQPELYKEIIRVLKGLGLTTVRADISSVGGRIKSILVLCNKDACDHQESV 237
DD LYKE +++LK LG R IS + + N+D D+ ++
Sbjct: 61 ADDSYHLYKEDVKILKELGAQVYRFSISWARVLPEGHDNIVNQDGIDYYNNL 112
>pdb|4ATI|A Chain A, Mitf:m-Box Complex
pdb|4ATI|B Chain B, Mitf:m-Box Complex
pdb|4ATK|A Chain A, Mitf:e-Box Complex
pdb|4ATK|B Chain B, Mitf:e-Box Complex
Length = 118
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 4/51 (7%)
Query: 84 SHSQAEKRRRDRINAQLATLRKLIPKSEKMD----KAALLGSAIEHVKDLK 130
+H+ E+RRR IN ++ L LIPKS D K +L +++++++ L+
Sbjct: 30 NHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQ 80
>pdb|4ATD|A Chain A, Crystal Structure Of Native Raucaffricine Glucosidase
pdb|4ATD|B Chain B, Crystal Structure Of Native Raucaffricine Glucosidase
pdb|4ATL|A Chain A, Crystal Structure Of Raucaffricine Glucosidase In Complex
With Glucose
pdb|4ATL|B Chain B, Crystal Structure Of Raucaffricine Glucosidase In Complex
With Glucose
Length = 513
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 179 LIKASVSCD---DQPELYKEIIRVLKGLGLTTVRADISSV----GGRIKSILVLCNKDAC 231
+I+ + D D LYKE + +LK LGL R IS GGR+ + NK+
Sbjct: 61 MIRGGTNGDVAVDSYHLYKEDVNILKNLGLDAYRFSISWSRVLPGGRLSGGV---NKEGI 117
Query: 232 DHQESV 237
++ ++
Sbjct: 118 NYYNNL 123
>pdb|3U57|A Chain A, Structures Of Alkaloid Biosynthetic Glucosidases Decode
Substrate Specificity
pdb|3U57|B Chain B, Structures Of Alkaloid Biosynthetic Glucosidases Decode
Substrate Specificity
pdb|3U5U|A Chain A, Structures Of Alkaloid Biosynthetic Glucosidases Decode
Substrate Specificity
pdb|3U5U|B Chain B, Structures Of Alkaloid Biosynthetic Glucosidases Decode
Substrate Specificity
pdb|3U5Y|A Chain A, Structures Of Alkaloid Biosynthetic Glucosidases Decode
Substrate Specificity
pdb|3U5Y|B Chain B, Structures Of Alkaloid Biosynthetic Glucosidases Decode
Substrate Specificity
pdb|4EK7|A Chain A, High Speed X-ray Analysis Of Plant Enzymes At Room
Temperature
pdb|4EK7|B Chain B, High Speed X-ray Analysis Of Plant Enzymes At Room
Temperature
Length = 513
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 179 LIKASVSCD---DQPELYKEIIRVLKGLGLTTVRADISSV----GGRIKSILVLCNKDAC 231
+I+ + D D LYKE + +LK LGL R IS GGR+ + NK+
Sbjct: 61 MIRGGTNGDVAVDSYHLYKEDVNILKNLGLDAYRFSISWSRVLPGGRLSGGV---NKEGI 117
Query: 232 DHQESV 237
++ ++
Sbjct: 118 NYYNNL 123
>pdb|4A3Y|A Chain A, Crystal Structure Of Raucaffricine Glucosidase From
Ajmaline Biosynthesis Pathway
pdb|4A3Y|B Chain B, Crystal Structure Of Raucaffricine Glucosidase From
Ajmaline Biosynthesis Pathway
Length = 540
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 179 LIKASVSCD---DQPELYKEIIRVLKGLGLTTVRADISSV----GGRIKSILVLCNKDAC 231
+I+ + D D LYKE + +LK LGL R IS GGR+ + NK+
Sbjct: 61 MIRGGTNGDVAVDSYHLYKEDVNILKNLGLDAYRFSISWSRVLPGGRLSGGV---NKEGI 117
Query: 232 DHQESV 237
++ ++
Sbjct: 118 NYYNNL 123
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
0.316 0.128 0.370
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,659,299
Number of Sequences: 62578
Number of extensions: 209689
Number of successful extensions: 632
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 616
Number of HSP's gapped (non-prelim): 32
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
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: 51 (24.3 bits)