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= 015691
(402 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 37.7 bits (86), Expect = 0.010, Method: Composition-based stats.
Identities = 26/89 (29%), Positives = 45/89 (50%), Gaps = 9/89 (10%)
Query: 237 AKRGQATNSHSLAERVRREKISERMRLLQELVPGCNKIT---GKAVMLDEIINYVQSLQQ 293
AK Q ++H+L ER RR I++R++ L L+P N K +L ++Y++ LQ+
Sbjct: 22 AKERQKKDNHNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKLQR 81
Query: 294 Q------VEFLSMKLATVNPELNLDIERI 316
+ +E KL N L L ++ +
Sbjct: 82 EQQRAKDLENRQKKLEHANRHLLLRVQEL 110
>pdb|4F3L|B Chain B, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 387
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 49/113 (43%), Gaps = 13/113 (11%)
Query: 231 EYIHMRAKRGQATNSHSLAERVRREKISERMRLLQELVPGCNKITGKAVMLDEIINYVQS 290
EY + + A +HS E+ RR+K++ + L LVP CN ++ K LD++
Sbjct: 2 EYAEHQGRIKNAREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRK---LDKL----TV 54
Query: 291 LQQQVEFLSMKLATVNPELNLDIE-RILSKD-----ILHARSGSAATIGFSSG 337
L+ V+ + NP + + LS D IL A G +G G
Sbjct: 55 LRMAVQHMKTLRGATNPYTEANYKPTFLSDDELKHLILRAADGFLFVVGCDRG 107
>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 = 31.2 bits (69), Expect = 1.2, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 28/51 (54%)
Query: 242 ATNSHSLAERVRREKISERMRLLQELVPGCNKITGKAVMLDEIINYVQSLQ 292
A +HS E+ RR+K++ + L LVP CN ++ K L + VQ ++
Sbjct: 9 AREAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMK 59
>pdb|2DT8|A Chain A, Fatty Acid Binding Of A Degv Family Protein From Thermus
Thermophilus
Length = 280
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 34/70 (48%), Gaps = 10/70 (14%)
Query: 2 MPQKLPG-MQMNSVPMYKSVSGPDHFYGSGWEPIV------SLNQGESFGVSSMVSHNEF 54
+PQ L G + + VP+Y ++SG + WE I + +G +F +S S +F
Sbjct: 13 LPQDLRGRLGVRVVPLYVNLSGAIY---RDWEEITPTEIFQKVREGAAFPTTSQPSPEDF 69
Query: 55 APSYPVALEN 64
A Y ALE
Sbjct: 70 ARVYREALEE 79
>pdb|1R05|A Chain A, Solution Structure Of Max B-Hlh-Lz
pdb|1R05|B Chain B, Solution Structure Of Max B-Hlh-Lz
Length = 87
Score = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 31/58 (53%), Gaps = 1/58 (1%)
Query: 246 HSLAERVRREKISERMRLLQELVPGCN-KITGKAVMLDEIINYVQSLQQQVEFLSMKL 302
H+ ER RR+ I + L++ VP + +A +LD+ Y+Q ++++V L +
Sbjct: 8 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVHTLQQDI 65
>pdb|3M1R|A Chain A, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|B Chain B, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|C Chain C, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|D Chain D, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|E Chain E, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
pdb|3M1R|F Chain F, The Crystal Structure Of Formimidoylglutamase From
Bacillus Subtilis Subsp. Subtilis Str. 168
Length = 322
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 31/67 (46%), Gaps = 2/67 (2%)
Query: 263 LLQELVPGCNKITGKAVMLDEIINYVQSLQQQVEFLSMKLATVNPELNL--DIERILSKD 320
L Q PGC I + DE++ V+ + QQ +++ V+P L+ R +
Sbjct: 249 LDQSHAPGCPAIGPGGLYTDELLEAVKYIAQQPNVAGIEIVEVDPTLDFRDXTSRAAAHV 308
Query: 321 ILHARSG 327
+LHA G
Sbjct: 309 LLHALKG 315
>pdb|2HNE|A Chain A, Crystal Structure Of L-fuconate Dehydratase From
Xanthomonas Campestris Pv. Campestris Str. Atcc 33913
pdb|2HNE|B Chain B, Crystal Structure Of L-fuconate Dehydratase From
Xanthomonas Campestris Pv. Campestris Str. Atcc 33913
pdb|2HNE|C Chain C, Crystal Structure Of L-fuconate Dehydratase From
Xanthomonas Campestris Pv. Campestris Str. Atcc 33913
pdb|2HNE|D Chain D, Crystal Structure Of L-fuconate Dehydratase From
Xanthomonas Campestris Pv. Campestris Str. Atcc 33913
Length = 436
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 33/71 (46%), Gaps = 6/71 (8%)
Query: 44 GVSSMVSHNEFAPSYPVA--LENQGMSSTSNLDQYSSDPSFVE----LVPKIPGFGSGNF 97
G+ +V H A + +E++ + +L Q+ DP ++ L P++PGF +
Sbjct: 356 GLCELVQHLAMADFVAITGKMEDRAIEFVDHLHQHFLDPVRIQHGRYLAPEVPGFSAEMH 415
Query: 98 SEMVSSFGLPE 108
++ F P+
Sbjct: 416 PASIAEFSYPD 426
>pdb|2HXT|A Chain A, Crystal Structure Of L-Fuconate Dehydratase From
Xanthomonas Campestris Liganded With Mg++ And
D-Erythronohydroxamate
Length = 441
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 33/71 (46%), Gaps = 6/71 (8%)
Query: 44 GVSSMVSHNEFAPSYPVA--LENQGMSSTSNLDQYSSDPSFVE----LVPKIPGFGSGNF 97
G+ +V H A + +E++ + +L Q+ DP ++ L P++PGF +
Sbjct: 356 GLCELVQHLAMADFVAITGKMEDRAIEFVDHLHQHFLDPVRIQHGRYLAPEVPGFSAEMH 415
Query: 98 SEMVSSFGLPE 108
++ F P+
Sbjct: 416 PASIAEFSYPD 426
>pdb|2HXU|A Chain A, Crystal Structure Of K220a Mutant Of L-Fuconate
Dehydratase From Xanthomonas Campestris Liganded With
Mg++ And L-Fuconate
Length = 441
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/71 (22%), Positives = 33/71 (46%), Gaps = 6/71 (8%)
Query: 44 GVSSMVSHNEFAPSYPVA--LENQGMSSTSNLDQYSSDPSFVE----LVPKIPGFGSGNF 97
G+ +V H A + +E++ + +L Q+ DP ++ L P++PGF +
Sbjct: 356 GLCELVQHLAMADFVAITGKMEDRAIEFVDHLHQHFLDPVRIQHGRYLAPEVPGFSAEMH 415
Query: 98 SEMVSSFGLPE 108
++ F P+
Sbjct: 416 PASIAEFSYPD 426
>pdb|1BO1|A Chain A, Phosphatidylinositol Phosphate Kinase Type Ii Beta
pdb|1BO1|B Chain B, Phosphatidylinositol Phosphate Kinase Type Ii Beta
Length = 416
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 25/61 (40%), Gaps = 2/61 (3%)
Query: 23 PDHFYGSGWEPIVSLNQGESFGVSSMVSHNEFAPSYPVALENQGMSSTSNLDQYSSDPSF 82
P F + P+V N E FG+ N S P+ ++QG T L Y D F
Sbjct: 90 PSRFKFKEYCPMVFRNLRERFGIDDQDYQNSVTRSAPINSDSQGRCGTRFLTTY--DRRF 147
Query: 83 V 83
V
Sbjct: 148 V 148
>pdb|1NKP|B Chain B, Crystal Structure Of Myc-Max Recognizing Dna
pdb|1NKP|E Chain E, Crystal Structure Of Myc-Max Recognizing Dna
Length = 83
Score = 28.1 bits (61), Expect = 8.4, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 246 HSLAERVRREKISERMRLLQELVPGCN-KITGKAVMLDEIINYVQSLQQQ 294
H+ ER RR+ I + L++ VP + +A +LD+ Y+Q ++++
Sbjct: 6 HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRK 55
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
0.311 0.129 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,761,562
Number of Sequences: 62578
Number of extensions: 472991
Number of successful extensions: 873
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 869
Number of HSP's gapped (non-prelim): 18
length of query: 402
length of database: 14,973,337
effective HSP length: 101
effective length of query: 301
effective length of database: 8,652,959
effective search space: 2604540659
effective search space used: 2604540659
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 52 (24.6 bits)