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= psy17890
(118 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2F8X|C Chain C, Crystal Structure Of Activated Notch, Csl And Maml On
Hes-1 Promoter Dna Sequence
pdb|3V79|C Chain C, Structure Of Human Notch1 Transcription Complex Including
Csl, Ram, Ank, And Maml-1 On Hes-1 Promoter Dna Sequence
Length = 434
Score = 143 bits (361), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 64/93 (68%), Positives = 78/93 (83%)
Query: 24 RNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQ 83
R +RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++
Sbjct: 4 RPPPKRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKK 63
Query: 84 EQLLREGESEQAAQLCAFIGIGNSDQDMQQLDL 116
EQ+ R+G SEQ +Q CAFIGIGNSDQ+MQQL+L
Sbjct: 64 EQMERDGCSEQESQPCAFIGIGNSDQEMQQLNL 96
>pdb|3NBN|A Chain A, Crystal Structure Of A Dimer Of Notch Transcription
Complex Trimers On Hes1 Dna
pdb|3NBN|D Chain D, Crystal Structure Of A Dimer Of Notch Transcription
Complex Trimers On Hes1 Dna
Length = 433
Score = 143 bits (361), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 64/93 (68%), Positives = 78/93 (83%)
Query: 24 RNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQ 83
R +RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++
Sbjct: 4 RPPPKRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKK 63
Query: 84 EQLLREGESEQAAQLCAFIGIGNSDQDMQQLDL 116
EQ+ R+G SEQ +Q CAFIGIGNSDQ+MQQL+L
Sbjct: 64 EQMERDGCSEQESQPCAFIGIGNSDQEMQQLNL 96
>pdb|3IAG|C Chain C, Csl (Rbp-Jk) Bound To Hes-1 Nonconsensus Site
Length = 422
Score = 143 bits (360), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 63/89 (70%), Positives = 77/89 (86%)
Query: 28 QRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQLL 87
+RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++EQ+
Sbjct: 3 KRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKKEQME 62
Query: 88 REGESEQAAQLCAFIGIGNSDQDMQQLDL 116
R+G SEQ +Q CAFIGIGNSDQ+MQQL+L
Sbjct: 63 RDGCSEQESQPCAFIGIGNSDQEMQQLNL 91
>pdb|3BRG|C Chain C, Csl (Rbp-Jk) Bound To Dna
Length = 427
Score = 142 bits (359), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 63/89 (70%), Positives = 77/89 (86%)
Query: 28 QRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQLL 87
+RLTREAM YL++R D ++ILHAKVAQKSYGNEKRFFCPPPC+YL G GW+ ++EQ+
Sbjct: 8 KRLTREAMRNYLKERGDQTVLILHAKVAQKSYGNEKRFFCPPPCVYLMGSGWKKKKEQME 67
Query: 88 REGESEQAAQLCAFIGIGNSDQDMQQLDL 116
R+G SEQ +Q CAFIGIGNSDQ+MQQL+L
Sbjct: 68 RDGCSEQESQPCAFIGIGNSDQEMQQLNL 96
>pdb|3BRF|A Chain A, Csl (Lag-1) Bound To Dna With Lin-12 Ram Peptide, C2221
Length = 478
Score = 96.3 bits (238), Expect = 4e-21, Method: Composition-based stats.
Identities = 48/110 (43%), Positives = 70/110 (63%), Gaps = 20/110 (18%)
Query: 28 QRLTREAMERYL--RDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQ 85
Q LT + M +L +++ + VI I HAKVAQKSYGNEKRFFCPPPCIYL G+GW+L++++
Sbjct: 11 QSLTSDRMIDFLSNKEKYECVISIFHAKVAQKSYGNEKRFFCPPPCIYLIGQGWKLKKDR 70
Query: 86 LLREGES------------------EQAAQLCAFIGIGNSDQDMQQLDLN 117
+ + ++ +QA +L A+IGIG+ + QQLD +
Sbjct: 71 VAQLYKTLKASAQKDAAIENDPIHEQQATELVAYIGIGSDTSERQQLDFS 120
>pdb|1TTU|A Chain A, Crystal Structure Of Csl Bound To Dna
pdb|2FO1|A Chain A, Crystal Structure Of The Csl-Notch-Mastermind Ternary
Complex Bound To Dna
pdb|3BRD|A Chain A, Csl (Lag-1) Bound To Dna With Lin-12 Ram Peptide, P212121
Length = 477
Score = 96.3 bits (238), Expect = 4e-21, Method: Composition-based stats.
Identities = 48/110 (43%), Positives = 70/110 (63%), Gaps = 20/110 (18%)
Query: 28 QRLTREAMERYL--RDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYGEGWRLRQEQ 85
Q LT + M +L +++ + VI I HAKVAQKSYGNEKRFFCPPPCIYL G+GW+L++++
Sbjct: 10 QSLTSDRMIDFLSNKEKYECVISIFHAKVAQKSYGNEKRFFCPPPCIYLIGQGWKLKKDR 69
Query: 86 LLREGES------------------EQAAQLCAFIGIGNSDQDMQQLDLN 117
+ + ++ +QA +L A+IGIG+ + QQLD +
Sbjct: 70 VAQLYKTLKASAQKDAAIENDPIHEQQATELVAYIGIGSDTSERQQLDFS 119
>pdb|1QZW|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|C Chain C, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|E Chain E, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZW|G Chain G, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZX|A Chain A, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
pdb|1QZX|B Chain B, Crystal Structure Of The Complete Core Of Archaeal Srp And
Implications For Inter-Domain Communication
Length = 440
Score = 29.6 bits (65), Expect = 0.48, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 22 HYRNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPP 70
H ++ +L E E Y + D VI+++ A + QK+Y RF P
Sbjct: 198 HGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQASP 246
>pdb|3KL4|A Chain A, Recognition Of A Signal Peptide By The Signal Recognition
Particle
Length = 433
Score = 29.6 bits (65), Expect = 0.48, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 22 HYRNDDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPP 70
H ++ +L E E Y + D VI+++ A + QK+Y RF P
Sbjct: 191 HGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQASP 239
>pdb|3HDI|A Chain A, Crystal Structure Of Bacillus Halodurans Metallo Peptidase
pdb|3HDI|B Chain B, Crystal Structure Of Bacillus Halodurans Metallo Peptidase
Length = 421
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 26/91 (28%), Positives = 40/91 (43%), Gaps = 5/91 (5%)
Query: 33 EAMERYLRDR---SDMVIVILHAKVAQKSYGNEKRFFCP-PPCIYLY-GEGWRLRQEQLL 87
E M R+ DR D V++ + V + K F P Y Y GE +++
Sbjct: 168 EGMLRHYMDRFYTGDYVVISVAGNVHDELIDKIKETFSQVKPTTYNYQGEKPMFLPNRIV 227
Query: 88 REGESEQAAQLCAFIGIGNSDQDMQQLDLNN 118
R+ E+EQA + G+ D+D+ L L N
Sbjct: 228 RKKETEQAHLCLGYPGLPIGDKDVYALVLLN 258
>pdb|4AYJ|A Chain A, Molecular Structure Of A Metal-Independent Bacterial
Glycosyltransferase That Catalyzes The Synthesis Of
Histo- Blood Group A Antigen
pdb|4AYJ|B Chain B, Molecular Structure Of A Metal-Independent Bacterial
Glycosyltransferase That Catalyzes The Synthesis Of
Histo- Blood Group A Antigen
pdb|4AYJ|C Chain C, Molecular Structure Of A Metal-Independent Bacterial
Glycosyltransferase That Catalyzes The Synthesis Of
Histo- Blood Group A Antigen
pdb|4AYJ|D Chain D, Molecular Structure Of A Metal-Independent Bacterial
Glycosyltransferase That Catalyzes The Synthesis Of
Histo- Blood Group A Antigen
pdb|4AYL|A Chain A, Molecular Structure Of A Metal-Independent Bacterial
Glycosyltransferase That Catalyzes The Synthesis Of
Histo- Blood Group A Antigen
Length = 246
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 10/53 (18%)
Query: 40 RDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCI-----YLYGEGWRLRQEQLL 87
RD ++ +I I H + Y F PP I YLY EGW L E ++
Sbjct: 179 RDATNHIIPIWHDESLINKY-----FLDNPPAITLSPAYLYPEGWLLPFEPII 226
>pdb|3ATY|A Chain A, Crystal Structure Of Tcoye
pdb|3ATY|B Chain B, Crystal Structure Of Tcoye
pdb|3ATZ|A Chain A, Crystal Structure Of Tcoye With Phba
pdb|3ATZ|B Chain B, Crystal Structure Of Tcoye With Phba
pdb|3ATZ|C Chain C, Crystal Structure Of Tcoye With Phba
pdb|3ATZ|D Chain D, Crystal Structure Of Tcoye With Phba
Length = 379
Score = 26.6 bits (57), Expect = 3.4, Method: Composition-based stats.
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 6/57 (10%)
Query: 26 DDQRLTREAMERYLRDRSDMVIVILHAKVAQKSYGNEKRFFCPPPCIYLYG--EGWR 80
DD E+M +Y DR+ ++I A + Q +Y F P IY E WR
Sbjct: 35 DDHVPRTESMLKYYEDRASAGLIIAEATMVQPNYTG----FLTEPGIYSDAQIEEWR 87
>pdb|2I79|A Chain A, The Crystal Structure Of The Acetyltransferase Of Gnat
Family From Streptococcus Pneumoniae
pdb|2I79|B Chain B, The Crystal Structure Of The Acetyltransferase Of Gnat
Family From Streptococcus Pneumoniae
pdb|2I79|C Chain C, The Crystal Structure Of The Acetyltransferase Of Gnat
Family From Streptococcus Pneumoniae
pdb|2I79|D Chain D, The Crystal Structure Of The Acetyltransferase Of Gnat
Family From Streptococcus Pneumoniae
pdb|2I79|E Chain E, The Crystal Structure Of The Acetyltransferase Of Gnat
Family From Streptococcus Pneumoniae
pdb|2I79|F Chain F, The Crystal Structure Of The Acetyltransferase Of Gnat
Family From Streptococcus Pneumoniae
Length = 172
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 84 EQLLREGESEQAAQLCAFIGIGNSDQDMQQLD 115
E L+RE E + AA+L AF+ + + D LD
Sbjct: 4 ELLIREAEPKDAAELVAFLNRVSLETDFTSLD 35
>pdb|3GKQ|A Chain A, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Novosphingobium Sp. Ka1
pdb|3GKQ|B Chain B, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Novosphingobium Sp. Ka1
pdb|3GKQ|C Chain C, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Novosphingobium Sp. Ka1
pdb|3GKQ|D Chain D, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Novosphingobium Sp. Ka1
pdb|3GKQ|E Chain E, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Novosphingobium Sp. Ka1
pdb|3GKQ|F Chain F, Terminal Oxygenase Of Carbazole 1,9a-Dioxygenase From
Novosphingobium Sp. Ka1
Length = 389
Score = 25.8 bits (55), Expect = 5.7, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 14 EGWVPHSLHYRNDDQRLTREAMERYLRD 41
E WV +L+ NDD L R +ME + D
Sbjct: 320 EKWVELALNGFNDDDILARRSMEPFYAD 347
>pdb|4HQF|A Chain A, Crystal Structure Of Plasmodium Falciparum Trap, I4 Form
Length = 281
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 70 PCIYLYGEGWRLRQEQLLREGESEQAAQLC 99
PC G+G R R+ ++L EG + + + C
Sbjct: 227 PCSVTCGKGTRSRKREILHEGCTSELQEQC 256
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
0.322 0.138 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,545,344
Number of Sequences: 62578
Number of extensions: 125149
Number of successful extensions: 252
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 238
Number of HSP's gapped (non-prelim): 16
length of query: 118
length of database: 14,973,337
effective HSP length: 81
effective length of query: 37
effective length of database: 9,904,519
effective search space: 366467203
effective search space used: 366467203
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)