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= 044343
(201 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 = 35.4 bits (80), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 77 EVHNQSEXXXXXXINKRLKSLKELVPNCN----KSDRASVLDDAVNYVKALR 124
E H+Q E +N + L LVP CN K D+ +VL AV ++K LR
Sbjct: 15 EAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 66
>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 = 35.0 bits (79), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%), Gaps = 4/52 (7%)
Query: 77 EVHNQSEXXXXXXINKRLKSLKELVPNCN----KSDRASVLDDAVNYVKALR 124
E H+Q E +N + L LVP CN K D+ +VL AV ++K LR
Sbjct: 11 EAHSQIEKRRRDKMNSFIDELASLVPTCNAMSRKLDKLTVLRMAVQHMKTLR 62
>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 = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 6/62 (9%)
Query: 71 KRTHSAEVHNQSEXXXXXXINKRLKSLKELVPNCN--KSDRASVLDDAVNYVKALRHQLE 128
KR H HN E I SL++ VP+ K+ RA +LD A Y++ +R ++
Sbjct: 4 KRAH----HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMRRKVH 59
Query: 129 MM 130
+
Sbjct: 60 TL 61
>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 = 30.0 bits (66), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 79 HNQSEXXXXXXINKRLKSLKELVPNCN-KSDRASVLDDAVNYVKALRH 125
HN E IN ++ LK+LV K ++++VL A++Y++ L+H
Sbjct: 10 HNAIEKRYRSSINDKIIELKDLVVGTEAKLNKSAVLRKAIDYIRFLQH 57
>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 = 30.0 bits (66), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 35/83 (42%), Gaps = 6/83 (7%)
Query: 79 HNQSEXXXXXXINKRLKSLKELVPNCNKSD----RASVLDDAVNYVKALRHQLEMMSAQG 134
HN E IN R+K L L+P N D + ++L +V+Y++ L Q E A+
Sbjct: 31 HNLIERRRRFNINDRIKELGTLIPKSNDPDMRWNKGTILKASVDYIRKL--QREQQRAKD 88
Query: 135 GAIFQSPFMSPSGHQSTEVPQIS 157
Q + H V ++
Sbjct: 89 LENRQKKLEHANRHLLLRVQELE 111
>pdb|1NLW|B Chain B, Crystal Structure Of Mad-Max Recognizing Dna
pdb|1NLW|E Chain E, Crystal Structure Of Mad-Max Recognizing Dna
Length = 76
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 71 KRTHSAEVHNQSEXXXXXXINKRLKSLKELVPNCN--KSDRASVLDDAVNYVKALR 124
KR H HN E I SL++ VP+ K+ RA +LD A Y++ +R
Sbjct: 1 KRAH----HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMR 52
>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 = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 71 KRTHSAEVHNQSEXXXXXXINKRLKSLKELVPNCN--KSDRASVLDDAVNYVKALR 124
KR H HN E I SL++ VP+ K+ RA +LD A Y++ +R
Sbjct: 2 KRAH----HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMR 53
>pdb|1AN2|A Chain A, Recognition By Max Of Its Cognate Dna Through A Dimeric
BHLHZ DOMAIN
Length = 86
Score = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 71 KRTHSAEVHNQSEXXXXXXINKRLKSLKELVPNCN--KSDRASVLDDAVNYVKALR 124
KR H HN E I SL++ VP+ K+ RA +LD A Y++ +R
Sbjct: 3 KRAH----HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMR 54
>pdb|1HLO|A Chain A, The Crystal Structure Of An Intact Human Max-Dna Complex:
New Insights Into Mechanisms Of Transcriptional Control
pdb|1HLO|B Chain B, The Crystal Structure Of An Intact Human Max-Dna Complex:
New Insights Into Mechanisms Of Transcriptional Control
Length = 80
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 71 KRTHSAEVHNQSEXXXXXXINKRLKSLKELVPNCN--KSDRASVLDDAVNYVKALR 124
KR H HN E I SL++ VP+ K+ RA +LD A Y++ +R
Sbjct: 12 KRAH----HNALERKRRDHIKDSFHSLRDSVPSLQGEKASRAQILDKATEYIQYMR 63
>pdb|1P9B|A Chain A, Structure Of Fully Ligated Adenylosuccinate Synthetase
From Plasmodium Falciparum
Length = 442
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 4/68 (5%)
Query: 108 DRASVLDDA-VNYVKALRHQLEMMSAQGGAIFQSPFMSPSGHQSTEVPQISPNVPISPKL 166
+ SVL + V +VK+L ++E + GG + ++S H ++ QI ++ + KL
Sbjct: 76 NNISVLGNGMVIHVKSLMEEIE---SVGGKLLDRLYLSNKAHILFDIHQIIDSIQETKKL 132
Query: 167 GMGSGIGT 174
G IGT
Sbjct: 133 KEGKQIGT 140
>pdb|4ATH|A Chain A, Mitf Apo Structure
pdb|4ATH|B Chain B, Mitf Apo Structure
Length = 83
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 32/72 (44%), Gaps = 6/72 (8%)
Query: 90 INKRLKSLKELVPNCNKSD----RASVLDDAVNYVKALRHQLEMMSAQGGAIFQSPFMSP 145
IN R+K L L+P N D + ++L +V+Y++ L Q E A+ Q
Sbjct: 7 INDRIKELGTLIPKSNDPDXRWNKGTILKASVDYIRKL--QREQQRAKDLENRQKKLEHA 64
Query: 146 SGHQSTEVPQIS 157
+ H V ++
Sbjct: 65 NRHLLLRVQELE 76
>pdb|1FF9|A Chain A, Apo Saccharopine Reductase
pdb|1E5Q|A Chain A, Ternary Complex Of Saccharopine Reductase From Magnaporthe
Grisea, Nadph And Saccharopine
pdb|1E5Q|B Chain B, Ternary Complex Of Saccharopine Reductase From Magnaporthe
Grisea, Nadph And Saccharopine
pdb|1E5Q|C Chain C, Ternary Complex Of Saccharopine Reductase From Magnaporthe
Grisea, Nadph And Saccharopine
pdb|1E5Q|D Chain D, Ternary Complex Of Saccharopine Reductase From Magnaporthe
Grisea, Nadph And Saccharopine
pdb|1E5Q|E Chain E, Ternary Complex Of Saccharopine Reductase From Magnaporthe
Grisea, Nadph And Saccharopine
pdb|1E5Q|F Chain F, Ternary Complex Of Saccharopine Reductase From Magnaporthe
Grisea, Nadph And Saccharopine
pdb|1E5Q|G Chain G, Ternary Complex Of Saccharopine Reductase From Magnaporthe
Grisea, Nadph And Saccharopine
pdb|1E5Q|H Chain H, Ternary Complex Of Saccharopine Reductase From Magnaporthe
Grisea, Nadph And Saccharopine
pdb|1E5L|A Chain A, Apo Saccharopine Reductase From Magnaporthe Grisea
pdb|1E5L|B Chain B, Apo Saccharopine Reductase From Magnaporthe Grisea
Length = 450
Score = 27.3 bits (59), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 41/86 (47%), Gaps = 21/86 (24%)
Query: 113 LDDAVNYVKALRHQLEMMSAQGGAIFQSPFMSPSGHQSTEVPQISPNVPISPKLGMGSGI 172
LD ++++ A++ +E + A GG I F+S G P+ S N P+ K
Sbjct: 125 LDPGIDHLYAIK-TIEEVHAAGGKI--KTFLSYCG--GLPAPESSDN-PLGYK------- 171
Query: 173 GTGMVDVLFSWSSRDIIGSLGQSASF 198
FSWSSR ++ +L +ASF
Sbjct: 172 --------FSWSSRGVLLALRNAASF 189
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
0.310 0.125 0.357
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,773,684
Number of Sequences: 62578
Number of extensions: 217332
Number of successful extensions: 347
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 343
Number of HSP's gapped (non-prelim): 15
length of query: 201
length of database: 14,973,337
effective HSP length: 94
effective length of query: 107
effective length of database: 9,091,005
effective search space: 972737535
effective search space used: 972737535
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 49 (23.5 bits)