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= 036599
(189 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ISM|A Chain A, Crystal Structure Of The Putative Oxidoreductase (Glucose
Dehydrogenase) (Ttha0570) From Thermus Theromophilus Hb8
pdb|2ISM|B Chain B, Crystal Structure Of The Putative Oxidoreductase (Glucose
Dehydrogenase) (Ttha0570) From Thermus Theromophilus Hb8
Length = 352
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 20/36 (55%)
Query: 141 LGFVFGDTSVTTLKGATLFSSVLEGTHGGDRIIRVE 176
L F GD V L+G L VLEG G R++RVE
Sbjct: 273 LAFFRGDLYVAGLRGQALLRLVLEGERGRWRVLRVE 308
>pdb|2I0L|A Chain A, X-Ray Crystal Structure Of Sap97 Pdz2 Bound To The C-
Terminal Peptide Of Hpv18 E6.
pdb|2I0L|B Chain B, X-Ray Crystal Structure Of Sap97 Pdz2 Bound To The C-
Terminal Peptide Of Hpv18 E6
Length = 84
Score = 27.7 bits (60), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 19 DKAVYKSKNLE---AERRRRQKLNDRLLKLRSLMKKETVIEDAITYIR 63
D ++Y +K +E A + + ++ D+LL + S+ +E E+A+T ++
Sbjct: 27 DNSIYVTKIIEGGAAHKDGKLQIGDKLLAVNSVCLEEVTHEEAVTALK 74
>pdb|4F3L|A Chain A, Crystal Structure Of The Heterodimeric Clock:bmal1
Transcriptional Activator Complex
Length = 361
Score = 27.3 bits (59), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 35/58 (60%), Gaps = 8/58 (13%)
Query: 16 DSEDKAVYKSKNLEAERRRRQKLNDRLLKLRSL-------MKKETVIEDAITYIRQLK 66
D +DKA S+N ++E++RR + N + +L S+ M K TV++ +I ++R+ K
Sbjct: 6 DDKDKAKRVSRN-KSEKKRRDQFNVLIKELGSMLPGNARKMDKSTVLQKSIDFLRKHK 62
>pdb|1AM9|A Chain A, Human Srebp-1a Bound To Ldl Receptor Promoter
pdb|1AM9|B Chain B, Human Srebp-1a Bound To Ldl Receptor Promoter
pdb|1AM9|C Chain C, Human Srebp-1a Bound To Ldl Receptor Promoter
pdb|1AM9|D Chain D, Human Srebp-1a Bound To Ldl Receptor Promoter
Length = 82
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 25/43 (58%), Gaps = 7/43 (16%)
Query: 31 ERRRRQKLNDRLLKLRSL-------MKKETVIEDAITYIRQLK 66
E+R R +ND++++L+ L + K V+ AI YIR L+
Sbjct: 14 EKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQ 56
>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 = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 39/68 (57%), Gaps = 17/68 (25%)
Query: 15 SDSEDKAVYKSK------NLEAERRRRQKLNDRLLKLRSLMKKE----------TVIEDA 58
++SE +A+ K + NL ERRRR +NDR+ +L +L+ K T+++ +
Sbjct: 14 TESEARALAKERQKKDNHNL-IERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKAS 72
Query: 59 ITYIRQLK 66
+ YIR+L+
Sbjct: 73 VDYIRKLQ 80
>pdb|2G2L|A Chain A, Crystal Structure Of The Second Pdz Domain Of Sap97 In
Complex With A Glur-A C-Terminal Peptide
pdb|2G2L|B Chain B, Crystal Structure Of The Second Pdz Domain Of Sap97 In
Complex With A Glur-A C-Terminal Peptide
Length = 105
Score = 26.9 bits (58), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 19 DKAVYKSKNLE---AERRRRQKLNDRLLKLRSLMKKETVIEDAITYIR 63
D ++Y +K +E A + + ++ D+LL + S+ +E E+A+T ++
Sbjct: 32 DNSIYVTKIIEGGAAHKDGKLQIGDKLLAVNSVCLEEVTHEEAVTALK 79
>pdb|2AWX|A Chain A, Synapse Associated Protein 97 Pdz2 Domain Variant C378s
pdb|2AWX|B Chain B, Synapse Associated Protein 97 Pdz2 Domain Variant C378s
Length = 105
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 29/48 (60%), Gaps = 3/48 (6%)
Query: 19 DKAVYKSKNLE---AERRRRQKLNDRLLKLRSLMKKETVIEDAITYIR 63
D ++Y +K +E A + + ++ D+LL + S+ +E E+A+T ++
Sbjct: 32 DNSIYVTKIIEGGAAHKDGKLQIGDKLLAVNSVSLEEVTHEEAVTALK 79
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
0.318 0.136 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,493,956
Number of Sequences: 62578
Number of extensions: 151481
Number of successful extensions: 392
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 391
Number of HSP's gapped (non-prelim): 9
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
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: 48 (23.1 bits)